Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014808.1 Kokia drynarioides strain JFW-HI SEQ_129850, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 421509
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 247 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:266 original size:25 final size:24
Alignment explanation
Indices: 224--272 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
214 CCTTTTTTTG
* **
224 TTATTAATGAAATTTTTAATTATTA
1 TTATTAATAAAACATTT-ATTATTA
249 TTATTAATAAAACATTTATTATTA
1 TTATTAATAAAACATTTATTATTA
273 ATGCCTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTAATAAAACATTTATTATTA
Found at i:1047 original size:6 final size:6
Alignment explanation
Indices: 1028--1116 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
1018 ACATTTAAAA
* * *
1028 TAAATT TGAAATT TAAATT T--ATT ATAAATT TAAATT TCAA-C CAAATT
1 TAAATT T-AAATT TAAATT TAAATT -TAAATT TAAATT TAAATT TAAATT
* * * * *
1075 TAAATT TAAA-A TAAACT TAATTT TAAA-A TAAATT TAAGTT TA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TA
1117 TTGGGCCCAG
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
4 3 0.05
5 11 0.18
6 39 0.63
7 9 0.15
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:1056 original size:17 final size:17
Alignment explanation
Indices: 1036--1116 Score: 90
Period size: 17 Copynumber: 4.8 Consensus size: 17
1026 AATAAATTTG
**
1036 AAATTTAAATTTATTAT
1 AAATTTAAATTTAAAAT
* **
1053 AAATTTAAATTTCAACC
1 AAATTTAAATTTAAAAT
1070 AAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
* *
1087 AAACTTAATTTTAAAAT
1 AAATTTAAATTTAAAAT
*
1104 AAATTTAAGTTTA
1 AAATTTAAATTTA
1117 TTGGGCCCAG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 52 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:1839 original size:206 final size:206
Alignment explanation
Indices: 1499--2055 Score: 859
Period size: 206 Copynumber: 2.7 Consensus size: 206
1489 TCTCTGCGTT
* * * * *
1499 TCATCAGGAAGCTATCCGTTTTATTACTTCGACCTGCTCCTTAGTATCTTATCAGGAAGCTATGG
1 TCATCAGGAAGCTAACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGTGG
*
1564 TTCGAAGATTTGCTCACATCGAG-GATGGGTTTGATTTGGTCTTCTTCTCAGTATTTCATCGGGA
66 TTCGAAGATTTGCTCACATCGAGCG-TGGGTTTGATTTGGTCTTCTTCTCAGTATTTCATCAGGA
1628 AGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCAGTATTTCATCAAGAAGACGAATTTGGTTCA
130 AGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCAGTATTTCATCAAGAAGACGAATTTGGTTCA
*
1693 CTTCTCAGTGTC
195 CTTCTCAGTATC
* **
1705 TCATTC-GGAAGCTAACCGTTTTATTACTTTGATTTGCTTCTCAGTATCTCATCAGGAAGCTGTG
1 TCA-TCAGGAAGCTAACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGTG
* * * *
1769 GTTCAAAGATTCGCTCACTTCGAGCGTGGGTCTGATTTGGTCTTCTTCTCAGTATTTCATCAGGA
65 GTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATTTCATCAGGA
* *
1834 AGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCTGTATTTCATCAGGAAGACGAATTTGGTTCA
130 AGATGACTGCGTCGTTTGTTTCAATCCGCTTCTCAGTATTTCATCAAGAAGACGAATTTGGTTCA
1899 CTTCTCAGTATC
195 CTTCTCAGTATC
* * *
1911 TCATCAGGAAGCTAACCG-TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAACTGGGG
1 TCATCAGGAAGCTAACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGTGG
* * * *
1975 TTCGAAGATTTGTTCACATCGAGCGTGGGTTTGACTTGGTTTTCTTCTCAGTATCTCATCAGGAA
66 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATTTCATCAGGAA
*
2040 GATGACCGCGTCGTTT
131 GATGACTGCGTCGTTT
2056 ATGGATAATC
Statistics
Matches: 317, Mismatches: 31, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
205 114 0.36
206 200 0.63
207 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (206 bp):
TCATCAGGAAGCTAACCGTTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGTGG
TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATTTCATCAGGAA
GATGACTGCGTCGTTTGTTTCAATCCGCTTCTCAGTATTTCATCAAGAAGACGAATTTGGTTCAC
TTCTCAGTATC
Found at i:2139 original size:17 final size:17
Alignment explanation
Indices: 2114--2156 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
2104 TGTACCAAAT
*
2114 TTAAATTTAGAATAAAC
1 TTAAATTTAAAATAAAC
* *
2131 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAC
*
2148 TTAAGTTTA
1 TTAAATTTA
2157 TTGGGCCCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAAATAAAC
Found at i:2569 original size:54 final size:54
Alignment explanation
Indices: 2489--2614 Score: 166
Period size: 54 Copynumber: 2.3 Consensus size: 54
2479 CTAAAAAAAA
* * * *
2489 TTTACTTCCCCCCAAGCACCCAAAACCTTTTTCCTTTTACTTT-CTCCCGAAAACT
1 TTTACTTCCCTCCAAACCCCCTAAACCTTTTTCCTTTTACTTTCCT-CC-AAAACT
* *
2544 TTTACTTCTCT-CAAACCCCCTAAACCTTTTTCCTTTTGCTTTCCTCCAAAACT
1 TTTACTTCCCTCCAAACCCCCTAAACCTTTTTCCTTTTACTTTCCTCCAAAACT
2597 TTTACTTCCCTCCAAACC
1 TTTACTTCCCTCCAAACC
2615 TTAATTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 16 0.26
54 35 0.56
55 11 0.18
ACGTcount: A:0.22, C:0.38, G:0.02, T:0.37
Consensus pattern (54 bp):
TTTACTTCCCTCCAAACCCCCTAAACCTTTTTCCTTTTACTTTCCTCCAAAACT
Found at i:2613 original size:18 final size:19
Alignment explanation
Indices: 2576--2612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2566 AACCTTTTTC
* *
2576 CTTTTGCTTTCCTCCAAAA
1 CTTTTACTTCCCTCCAAAA
2595 CTTTTACTTCCCTCCAAA
1 CTTTTACTTCCCTCCAAA
2613 CCTTAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.35, G:0.03, T:0.41
Consensus pattern (19 bp):
CTTTTACTTCCCTCCAAAA
Found at i:3206 original size:5 final size:5
Alignment explanation
Indices: 3196--3224 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3186 GAAATAATAT
3196 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
3225 TAATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4368 original size:3 final size:3
Alignment explanation
Indices: 4360--4385 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4350 AAAAACAGAT
4360 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4386 CTATAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12021 original size:24 final size:24
Alignment explanation
Indices: 11994--12063 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
11984 TTTTTTACTA
*
11994 TTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGTTGTTGTTTTTATTGTTAT
* * *
12018 TTTTGTTGGTATTTTT-TCTATTAT
1 TTTTGTTGTTGTTTTTAT-TGTTAT
*
12042 TTTTGTTGTTGTTTTGATTGTT
1 TTTTGTTGTTGTTTTTATTGTT
12064 TGGATGTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.09, C:0.01, G:0.19, T:0.71
Consensus pattern (24 bp):
TTTTGTTGTTGTTTTTATTGTTAT
Found at i:12032 original size:35 final size:34
Alignment explanation
Indices: 11958--12024 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
11948 TACTGTTTTG
* *
11958 CTATTTT-TTGTTGTTTTGATGCTATTTTTTTTA
1 CTATTTTGGTGTTGTTTTGATGCTATTTTTGTTA
* *
11991 CTATTTTGGTGTTGTTTTTATTGTTATTTTTGTT
1 CTATTTTGGTGTTGTTTTGA-TGCTATTTTTGTT
12025 GGTATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.25
34 10 0.36
35 11 0.39
ACGTcount: A:0.10, C:0.04, G:0.15, T:0.70
Consensus pattern (34 bp):
CTATTTTGGTGTTGTTTTGATGCTATTTTTGTTA
Found at i:12039 original size:27 final size:27
Alignment explanation
Indices: 11996--12052 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
11986 TTTTACTATT
* *
11996 TTGGTGTTGTTTTTATTGTTATTT-TTG
1 TTGGTATTGTTTTTATTATT-TTTGTTG
12023 TTGGTATT-TTTTCTATTATTTTTGTTG
1 TTGGTATTGTTTT-TATTATTTTTGTTG
12050 TTG
1 TTG
12053 TTTTGATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.09, C:0.02, G:0.19, T:0.70
Consensus pattern (27 bp):
TTGGTATTGTTTTTATTATTTTTGTTG
Found at i:12053 original size:48 final size:47
Alignment explanation
Indices: 11971--12063 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 47
11961 TTTTTTGTTG
* *
11971 TTTTGATGCTATTTTTTTTACTATTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGATGCTATTTTTTCTACTATTTTGGTGTTGTTTTGATTGTTAT
* * * *
12018 TTTTGTTGGTATTTTTTCTATTATTTTTGTTGTTGTTTTGATTGTT
1 TTTTGATGCTATTTTTTCTACTA-TTTTGGTGTTGTTTTGATTGTT
12064 TGGATGTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 19 0.49
48 20 0.51
ACGTcount: A:0.11, C:0.03, G:0.16, T:0.70
Consensus pattern (47 bp):
TTTTGATGCTATTTTTTCTACTATTTTGGTGTTGTTTTGATTGTTAT
Found at i:16893 original size:23 final size:23
Alignment explanation
Indices: 16867--17037 Score: 148
Period size: 23 Copynumber: 7.5 Consensus size: 23
16857 ATGCAAGCGC
16867 GCTTACTGTTTTGCACTTTGTGT
1 GCTTACTGTTTTGCACTTTGTGT
*
16890 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTTTGCACTTTGTGT
*
16913 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTTTGCACTTTGTGT
* * * *
16936 GCTTACTGTTTCGCACCTTCTGA
1 GCTTACTGTTTTGCACTTTGTGT
* * * ***
16959 GCCTACTGATTTGCGCTAAATGT
1 GCTTACTGTTTTGCACTTTGTGT
* **
16982 GCCTACT-AATTGCA-TTGTGTGT
1 GCTTACTGTTTTGCACTT-TGTGT
* ** *
17004 GCCTACTGGATTGCACTGTGTGT
1 GCTTACTGTTTTGCACTTTGTGT
17027 GCTTACTGTTT
1 GCTTACTGTTT
17038 CCCCAGCACT
Statistics
Matches: 122, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
21 1 0.01
22 15 0.12
23 105 0.86
24 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTTACTGTTTTGCACTTTGTGT
Found at i:20420 original size:18 final size:18
Alignment explanation
Indices: 20393--20455 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
20383 TCTCTATAAT
*
20393 TTGGCGAACTCACCAATA
1 TTGGCAAACTCACCAATA
* * *
20411 TTGGCAAACTCTCCCAGA
1 TTGGCAAACTCACCAATA
* * *
20429 TTGACGAACACACCAATA
1 TTGGCAAACTCACCAATA
20447 TTGGCAAAC
1 TTGGCAAAC
20456 CCTCTAAAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.21
Consensus pattern (18 bp):
TTGGCAAACTCACCAATA
Found at i:22170 original size:24 final size:24
Alignment explanation
Indices: 22121--22172 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
22111 AAGATTTAAA
* * *
22121 ATTTATTAGCATAATATGTCTGTT
1 ATTTATTAGCATAAAATATCTATT
22145 ATTTATTAGCATAAAATCAT-TATT
1 ATTTATTAGCATAAAAT-ATCTATT
22169 ATTT
1 ATTT
22173 CTAGAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTATTAGCATAAAATATCTATT
Found at i:25449 original size:21 final size:21
Alignment explanation
Indices: 25397--25450 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
25387 GTCCTCATCC
25397 GAGTTGGACTGACTACCCTTG
1 GAGTTGGACTGACTACCCTTG
*
25418 GAGATGGACTGACT-CCTCTTG
1 GAGTTGGACTGACTACC-CTTG
* *
25439 GCGTTGAACTGA
1 GAGTTGGACTGA
25451 TAACTGAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (21 bp):
GAGTTGGACTGACTACCCTTG
Found at i:25522 original size:105 final size:105
Alignment explanation
Indices: 25340--25559 Score: 350
Period size: 105 Copynumber: 2.1 Consensus size: 105
25330 TCCGTGATAA
* * * *
25340 AACTGATAACTGGAGTTGAGGTATGGGATTGACTCGATGAGGTGGATGTCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATATCCTCATCCGAGTTGGA
* *
25405 CTGACTACCCTTGGAGATGGACTGACTCCTCTTGGCGTTG
66 CTAACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTG
* *
25445 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATATGCTCATCCTAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATATCCTCATCCGAGTTGGA
*
25510 CTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
66 CTAACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTG
*
25550 AAATGATAAC
1 AACTGATAAC
25560 CTTTAGAGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (105 bp):
AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATATCCTCATCCGAGTTGGA
CTAACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTG
Found at i:25527 original size:21 final size:21
Alignment explanation
Indices: 25503--25588 Score: 70
Period size: 21 Copynumber: 4.1 Consensus size: 21
25493 TGCTCATCCT
25503 AGTTGGACTAACTACC-CTTGG
1 AGTTGGACTAACT-CCTCTTGG
*
25524 AGTTGGACTGACTCCTCTTGG
1 AGTTGGACTAACTCCTCTTGG
* * * *
25545 AGTTGAAATGATA-ACCT-TTAG
1 AGTTGGACT-A-ACTCCTCTTGG
*
25566 AGTTGGACTTACTCCTCTTGG
1 AGTTGGACTAACTCCTCTTGG
25587 AG
1 AG
25589 CTGAACTGAT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 39 0.80
22 3 0.06
23 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
AGTTGGACTAACTCCTCTTGG
Found at i:25664 original size:147 final size:147
Alignment explanation
Indices: 25422--25698 Score: 428
Period size: 147 Copynumber: 1.9 Consensus size: 147
25412 CCCTTGGAGA
* * * *
25422 TGGACTGACTCCTCTTGGCGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGG
1 TGGACTGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCAATGAGG
* *
25487 TGGATATGCTCATCCTAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAA
66 TGGATATGCCCATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAA
25552 ATGATAACCTTTAGAGT
131 ATGATAACCTTTAGAGT
* *
25569 TGGACTTACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCGATGAGG
1 TGGACTGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCAATGAGG
* * * * * *
25634 TGGATGTTCCCATTCGAGTTGGACTGACTACCCTTGTAGTTGGACTGACTGCTCTTGGAGTTGAA
66 TGGATATGCCCATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAA
25699 CAAATAACTG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
147 116 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (147 bp):
TGGACTGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCAATGAGG
TGGATATGCCCATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAA
ATGATAACCTTTAGAGT
Found at i:25690 original size:21 final size:21
Alignment explanation
Indices: 25649--25696 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
25639 GTTCCCATTC
25649 GAGTTGGACTGACTACCCTTG
1 GAGTTGGACTGACTACCCTTG
* * *
25670 TAGTTGGACTGACTGCTCTTG
1 GAGTTGGACTGACTACCCTTG
25691 GAGTTG
1 GAGTTG
25697 AACAAATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (21 bp):
GAGTTGGACTGACTACCCTTG
Found at i:25726 original size:105 final size:105
Alignment explanation
Indices: 25565--26648 Score: 833
Period size: 105 Copynumber: 10.2 Consensus size: 105
25555 ATAACCTTTA
* * * *
25565 GAGTTGGACTTACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
*
25630 GAGGTGGATGTTCC-CATTCGAGTTGGACTGACTACCCTTG
66 GAGGTGGATG-TCCTCATCCGAGTTGGACTGACTACCCTTG
* * **
25670 TAGTTGGACTGACTGCTCTTGGAGTTGAACAAATAACTGAAGTTGAGCTATGGGATTGACTCGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* * * * *
25735 AAGCTGGACGTCCTCATTCGAATTGGACTGACTACCCTTG
66 GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * * * * * * *
25775 AAGTTGGACTGACTCCACTTGGGGTTGAAATGAGAACTGAAGTTGAGCTATGGGATCGACTTGAA
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* *
25840 GATGTGGATGTCCTCATCCGAGTTGGACTCACTACCCTTG
66 GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * ** * *
25880 GAGTTGGAATGACTCCTGTTGGAGTTGAACTGATAACTGAAGTTGAGCTATAAGATTGACCCAAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* * * *
25945 GAGGTTGATATCCTCATCCGAGTTGGACTCACTACACTTG
66 GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * *
25985 GAGTTGGACTGACTCCTCTTGGAGTTG-A--GCTAACTGAAGTTGAGTTATGGGATTGACTCAAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* * * *
26047 GTGGTGGATGTCCTCATTCTAGTTGGACTGATTACCCTTG
66 GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * ** * * * * *
26087 GAGTAGGACTGAC-CCCCATTAAAGTTGAACTAAGAACTGGAGATGAGCTATGGGATTGACTTGA
1 GAGTTGGACTGACTCCTC-TTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGA
* *
26151 TAAGGTGGATGCCCTCATCCGAGTTGGACTGACT-CCTCTTG
65 TGAGGTGGATGTCCTCATCCGAGTTGGACTGACTACC-CTTG
* * ** * * * * * *
26192 GAGTTGAACTTA-T-AAC-TGAAGTTGAGCTACGAGTTGGACTCACTAAATTTG-G-TGTTGGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGA---AC----T-GA-TAACTGAAGTTGAGCTATGGGAT
* * * * * *
26252 TGACTCCTCTTGGAGTTGAGCTATGGGAT-TGACTCAAT--GAGGTGG--T-CCT--CATTC
57 TGA---CTC---GA--TGAG--GT-GGATGT-CCTC-ATCCGAGTTGGACTGACTACCCTTG
* * * * *** * *
26306 GAGGTGGACTGATTACC-CTTGGAGTAGGACTGACCCCTGTTAAAGATGAACTATGGGATTGACT
1 GAGTTGGACTGACT-CCTCTTGGAGTTGAACTGATAACTG---AAGTTGAGCTATGGGATTGACT
* * * *
26370 TGATAAGGTGGATGCCCTCATCCGAGTTGGACTGACTACCGTTG
62 CGATGAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* *
26414 GAGTTGGACTGACTCCCCTTGGAGTTGAACTTATAACTGAAGTTGAGCTATGGGATTGACTCGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* * * * ** *
26479 AAGCTCGATGTTCTCATATGAGTTGGACTCACTACCCTTG
66 GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * * * *
26519 GAGTTGGACTGACTCCTCTTGAAGTTGAACTGAGAACTGAAGCTGAGCTTTGGGATTGACTTGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
* * *
26584 G-GGATGGGTGTCCTTATCCGAGTTGGACTGACTTCCCTTG
66 GAGG-TGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * * *
26624 GAGGTAGACTAACTCTTCTTGGAGT
1 GAGTTGGACTGACTCCTCTTGGAGT
26649 GGGGCTAACT
Statistics
Matches: 761, Mismatches: 170, Indels: 96
0.74 0.17 0.09
Matches are distributed among these distances:
101 5 0.01
102 95 0.12
103 8 0.01
104 8 0.01
105 521 0.68
106 2 0.00
107 4 0.01
108 34 0.04
109 12 0.02
110 5 0.01
111 10 0.01
112 2 0.00
113 9 0.01
114 13 0.02
115 4 0.01
116 3 0.00
117 10 0.01
119 7 0.01
120 7 0.01
121 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (105 bp):
GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
GAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
Found at i:25785 original size:252 final size:252
Alignment explanation
Indices: 25340--25807 Score: 704
Period size: 252 Copynumber: 1.9 Consensus size: 252
25330 TCCGTGATAA
* * * *
25340 AACTGATAACTGGAGTTGAGGTATGGGATTGACTCGATGAGGTGGATGTCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATCGGATTGACCCGATGAGGTGGATGTCCTCATCCGAGTTGGA
* **
25405 CTGACTACCCTTGGAGATGGACTGACTCCTCTTGGCGTTGAACTGATAACTGAAGTTGAGCTATG
66 CTGACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTGAACAAATAACTGAAGTTGAGCTATG
* * * * * * *
25470 GGATTGACTCAATGAGGTGGATATGCTCATCCTAGTTGGACTAACTACCCTTGGAGTTGGACTGA
131 GGATTGACTCAATAAGCTGGACATCCTCATCCGAATTGGACTAACTACCCTTGAAGTTGGACTGA
*
25535 CTCCTCTTGGAGTTGAAATGATAACCTTTAGAGTTGGACTTACTCCTCTTGGAGCTG
196 CTCCACTTGGAGTTGAAATGATAACCTTTAGAGTTGGACTTACTCCTCTTGGAGCTG
*
25592 AACTGATAACTGAAGTTGAGCTATCGGATTGACCCGATGAGGTGGATGTTCC-CATTCGAGTTGG
1 AACTGATAACTGAAGTTGAGCTATCGGATTGACCCGATGAGGTGGATG-TCCTCATCCGAGTTGG
* * *
25656 ACTGACTACCCTTGTAGTTGGACTGACTGCTCTTGGAGTTGAACAAATAACTGAAGTTGAGCTAT
65 ACTGACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTGAACAAATAACTGAAGTTGAGCTAT
* * * *
25721 GGGATTGACTCGATAAGCTGGACGTCCTCATTCGAATTGGACTGACTACCCTTGAAGTTGGACTG
130 GGGATTGACTCAATAAGCTGGACATCCTCATCCGAATTGGACTAACTACCCTTGAAGTTGGACTG
*
25786 ACTCCACTTGGGGTTGAAATGA
195 ACTCCACTTGGAGTTGAAATGA
25808 GAACTGAAGT
Statistics
Matches: 191, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
252 188 0.98
253 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (252 bp):
AACTGATAACTGAAGTTGAGCTATCGGATTGACCCGATGAGGTGGATGTCCTCATCCGAGTTGGA
CTGACTACCCTTGGAGATGGACTGACTCCTCTTGGAGTTGAACAAATAACTGAAGTTGAGCTATG
GGATTGACTCAATAAGCTGGACATCCTCATCCGAATTGGACTAACTACCCTTGAAGTTGGACTGA
CTCCACTTGGAGTTGAAATGATAACCTTTAGAGTTGGACTTACTCCTCTTGGAGCTG
Found at i:25988 original size:21 final size:21
Alignment explanation
Indices: 25964--26011 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
25954 ATCCTCATCC
25964 GAGTTGGACTCACTACACTTG
1 GAGTTGGACTCACTACACTTG
* * *
25985 GAGTTGGACTGACTCCTCTTG
1 GAGTTGGACTCACTACACTTG
26006 GAGTTG
1 GAGTTG
26012 AGCTAACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (21 bp):
GAGTTGGACTCACTACACTTG
Found at i:26150 original size:312 final size:313
Alignment explanation
Indices: 25565--26197 Score: 835
Period size: 312 Copynumber: 2.0 Consensus size: 313
25555 ATAACCTTTA
* * ** *
25565 GAGTTGGACTTACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATCGGATTGACCCGAT
1 GAGTTGGAATGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATAAGATTGACCCAAT
* * * * * *
25630 GAGGTGGATGTTCCCATTCGAGTTGGACTGACTACCCTTGTAGTTGGACTGACTGCTCTTGGAGT
66 GAGGTGGATGATCCCATCCGAGTTGGACTCACTACACTTGGAGTTGGACTGACTCCTCTTGGAGT
*
25695 TGAACAAATAACTGAAGTTGAGCTATGGGATTGACTCGATAAGCTGGACGTCCTCATTCGAATTG
131 TGAAC--ATAACTGAAGTTGAGCTATGGGATTGACTCAATAAGCTGGACGTCCTCATTCGAATTG
* * *** * *
25760 GACTGACTACCCTTGAAGTTGGACTGACTCCACTTGGGGTTGAAATGAGAACTGAAGTTGAGCTA
194 GACTGACTACCCTTGAAGTAGGACTGACCCCACTTAAAGTTGAAATAAGAACTGAAGATGAGCTA
* *
25825 TGGGATCGACTTGA-AGATGTGGATGTCCTCATCCGAGTTGGACTCACTACC-CTTG
259 TGGGATCGACTTGATA-AGGTGGATGCCCTCATCCGAGTTGGACTCACT-CCTCTTG
* *
25880 GAGTTGGAATGACTCCTGTTGGAGTTGAACTGATAACTGAAGTTGAGCTATAAGATTGACCCAAT
1 GAGTTGGAATGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATAAGATTGACCCAAT
*
25945 GAGGTTGAT-ATCCTCATCCGAGTTGGACTCACTACACTTGGAGTTGGACTGACTCCTCTTGGAG
66 GAGGTGGATGATCC-CATCCGAGTTGGACTCACTACACTTGGAGTTGGACTGACTCCTCTTGGAG
* * ** * * * *
26009 TTGAGC-TAACTGAAGTTGAGTTATGGGATTGACTCAATGTGGTGGATGTCCTCATTCTAGTTGG
130 TTGAACATAACTGAAGTTGAGCTATGGGATTGACTCAATAAGCTGGACGTCCTCATTCGAATTGG
* * * *
26073 ACTGATTACCCTTGGAGTAGGACTGACCCC-CATTAAAGTTGAACTAAGAACTGGAGATGAGCTA
195 ACTGACTACCCTTGAAGTAGGACTGACCCCAC-TTAAAGTTGAAATAAGAACTGAAGATGAGCTA
* *
26137 TGGGATTGACTTGATAAGGTGGATGCCCTCATCCGAGTTGGACTGACTCCTCTTG
259 TGGGATCGACTTGATAAGGTGGATGCCCTCATCCGAGTTGGACTCACTCCTCTTG
26192 GAGTTG
1 GAGTTG
26198 AACTTATAAC
Statistics
Matches: 276, Mismatches: 38, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
311 3 0.01
312 153 0.55
313 1 0.00
314 3 0.01
315 116 0.42
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (313 bp):
GAGTTGGAATGACTCCTCTTGGAGCTGAACTGATAACTGAAGTTGAGCTATAAGATTGACCCAAT
GAGGTGGATGATCCCATCCGAGTTGGACTCACTACACTTGGAGTTGGACTGACTCCTCTTGGAGT
TGAACATAACTGAAGTTGAGCTATGGGATTGACTCAATAAGCTGGACGTCCTCATTCGAATTGGA
CTGACTACCCTTGAAGTAGGACTGACCCCACTTAAAGTTGAAATAAGAACTGAAGATGAGCTATG
GGATCGACTTGATAAGGTGGATGCCCTCATCCGAGTTGGACTCACTCCTCTTG
Found at i:26417 original size:21 final size:21
Alignment explanation
Indices: 26393--26440 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
26383 GCCCTCATCC
*
26393 GAGTTGGACTGACTACCGTTG
1 GAGTTGGACTGACTACCCTTG
*
26414 GAGTTGGACTGACTCCCCTTG
1 GAGTTGGACTGACTACCCTTG
26435 GAGTTG
1 GAGTTG
26441 AACTTATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (21 bp):
GAGTTGGACTGACTACCCTTG
Found at i:26524 original size:21 final size:21
Alignment explanation
Indices: 26498--26545 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
26488 GTTCTCATAT
26498 GAGTTGGACTCACTACC-CTTG
1 GAGTTGGACTCACT-CCTCTTG
*
26519 GAGTTGGACTGACTCCTCTTG
1 GAGTTGGACTCACTCCTCTTG
*
26540 AAGTTG
1 GAGTTG
26546 AACTGAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (21 bp):
GAGTTGGACTCACTCCTCTTG
Found at i:26644 original size:21 final size:21
Alignment explanation
Indices: 26607--26675 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
26597 TTATCCGAGT
*
26607 TGGACTGACTTCC-CTTGGAGG
1 TGGACTAAC-TCCTCTTGGAGG
* *
26628 TAGACTAACTCTTCTTGGA-G
1 TGGACTAACTCCTCTTGGAGG
*
26648 TGGGGCTAACTCCTCTTGGAGG
1 T-GGACTAACTCCTCTTGGAGG
26670 TGGACT
1 TGGACT
26676 GGAAGGTCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 4 0.11
21 32 0.84
22 2 0.05
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (21 bp):
TGGACTAACTCCTCTTGGAGG
Found at i:27551 original size:282 final size:282
Alignment explanation
Indices: 27047--28174 Score: 2112
Period size: 282 Copynumber: 4.0 Consensus size: 282
27037 AATTTCCCAC
27047 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
1 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
27112 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
66 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
* **
27177 TCGTGATAAGGTAGAGATCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTTT
131 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
27242 GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
196 GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
*
27307 TCAGATTGAAATGAAACACTAT
261 TCAGACTGAAATGAAACACTAT
27329 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
1 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
27394 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
66 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
*
27459 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTTC
131 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
*
27524 GATCCAAGGAAACCTTACTAACAGACTTTTCTTCTTCCTTTTTGCTAACAGGAATAGAAATATCA
196 GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
* *
27589 TCAGATTGAAATGAAACGCTAT
261 TCAGACTGAAATGAAACACTAT
27611 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
1 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
27676 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
66 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
* *
27741 TTGTGATAAGGTAGAGGTCTCTGATTGTTGTTTGTGAGCCACATTTGAAGGTGGTGTCAATGTGC
131 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
* *
27806 GATCCAAGGAAACCTTACTAACAAACTTTTCTTTTTCCTTTTTGCTAACAGGAACAGAAATATCA
196 GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
*
27871 TCAAACTGAAATGAAACACTAT
261 TCAGACTGAAATGAAACACTAT
* *
27893 CAATTCTACTAGGCCATCGATGATGATCTATCAATTGGCTAGGCAAATCATCAACAGGTTTTGCA
1 CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
27958 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
66 TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
28023 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
131 TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
*
28088 GATCCAAGGAAACATTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
196 GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
28153 TCAGACTGAAATGAAACACTAT
261 TCAGACTGAAATGAAACACTAT
28175 GACTTCTCAT
Statistics
Matches: 825, Mismatches: 21, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
282 825 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (282 bp):
CAATTCTACTTGGCCATCGATGATGATCTATCAATCGGCTAGGCAAATCATCAACAGGTTTTGCA
TTTTCAGACTGATCATGTGCATTTTTCCCTTCAAGTAGATTTCTCTTTCTCTCTGGACTAGGCTT
TCGTGATAAGGTAGAGGTCTCTGATTGTTGTTTATGAGCCACATTTGAAGGTGGTGTCAATGTGC
GATCCAAGGAAACCTTACTAACAGACTTTTCTTTTTCCTTTTTGCTAACAGGAATAGAAATATCA
TCAGACTGAAATGAAACACTAT
Found at i:32387 original size:20 final size:20
Alignment explanation
Indices: 32359--32421 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
32349 AAAATTTAAA
*
32359 AAAAAATTAAAATATAATTT
1 AAAATATTAAAATATAATTT
* *
32379 AAAATATTATAAT-TAAATT
1 AAAATATTAAAATATAATTT
* *
32398 AAAATAATTAAAAAACAATTT
1 AAAAT-ATTAAAATATAATTT
32419 AAA
1 AAA
32422 TAATTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 10 0.29
20 17 0.50
21 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATTAAAATATAATTT
Found at i:32418 original size:40 final size:38
Alignment explanation
Indices: 32358--32441 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
32348 CAAAATTTAA
* * *
32358 AAAAAAATTAAAATATAATTTAAA-ATATTATAATTAAATT
1 AAAATAATTAAAAAACAATTTAAATA-ATT-T-ATTAAATT
*
32398 AAAATAATTAAAAAACAATTTAAATAATTTTTTAAATT
1 AAAATAATTAAAAAACAATTTAAATAATTTATTAAATT
32436 AAAATA
1 AAAATA
32442 TTACAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 13 0.33
39 1 0.03
40 24 0.62
41 1 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (38 bp):
AAAATAATTAAAAAACAATTTAAATAATTTATTAAATT
Found at i:32620 original size:57 final size:58
Alignment explanation
Indices: 32559--32704 Score: 174
Period size: 56 Copynumber: 2.6 Consensus size: 58
32549 GTAAACACCA
*
32559 AAAAAAATATTTTTAAATTTGAAAAATA-TGATATAGGCCATT-GAGTGACAAA-TATT
1 AAAAAAATATTTTTAAATTTGAAAAAAAGTGATATAGGCCATTGGA-TGACAAACTATT
* * * * *
32615 CAAAAAATATTTTTAAATCT-AAAAAAAGTGGTGTAGGCCATTGGATGACAAACTCTT
1 AAAAAAATATTTTTAAATTTGAAAAAAAGTGATATAGGCCATTGGATGACAAACTATT
* * *
32672 AAAAAAAAAATTTTAAATTTGAAAAAATGTGAT
1 AAAAAAATATTTTTAAATTTGAAAAAAAGTGAT
32705 TAAAAATATT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
55 6 0.08
56 37 0.50
57 21 0.28
58 10 0.14
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.32
Consensus pattern (58 bp):
AAAAAAATATTTTTAAATTTGAAAAAAAGTGATATAGGCCATTGGATGACAAACTATT
Found at i:32710 original size:145 final size:145
Alignment explanation
Indices: 32561--32849 Score: 370
Period size: 146 Copynumber: 2.0 Consensus size: 145
32551 AAACACCAAA
* *
32561 AAAAATATTTTTAAAT-T-TGAAAAATATGATATAGGCCATTGAGTGACAAATATTC-AAAAAAT
1 AAAAATATTTTTAAATATGGGAAAAATA-G-TATAGGCCATTGAGTGACAAACATTCAAAAAAAT
* * *
32623 ATTTTTAAATCTAAAAAAAGTGGTGTAGGCCATTGGATGACAAACTCTTAAAAAAAA-AATTTTA
64 ATTTTTAAATCTAAAAAAAGTGGTGTAGACCATTGGATGACAAACAC-CAAAAAAAATAATTTTA
32687 AATTTGAAAAAATGTGATT
128 AATTTGAAAAAA-GTGATT
* * * *
32706 AAAAATATTTTTAAATATGGGAAAGATAGTGTAGGCCATTGAGTGGCAAGCATTCAAAAAAATAT
1 AAAAATATTTTTAAATATGGGAAAAATAGTATAGGCCATTGAGTGACAAACATTCAAAAAAATAT
* ** * * *
32771 TTTTAAATTTGGAAAATGTGGTGTAGACTATTGGATGACAAACACCAAAAAAAATATTTTTAAAT
66 TTTTAAATCTAAAAAAAGTGGTGTAGACCATTGGATGACAAACACCAAAAAAAATAATTTTAAAT
*
32836 TTGAGAAAAGTGAT
131 TTGAAAAAAGTGAT
32850 GTACGTCATT
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
145 51 0.41
146 66 0.53
147 7 0.06
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (145 bp):
AAAAATATTTTTAAATATGGGAAAAATAGTATAGGCCATTGAGTGACAAACATTCAAAAAAATAT
TTTTAAATCTAAAAAAAGTGGTGTAGACCATTGGATGACAAACACCAAAAAAAATAATTTTAAAT
TTGAAAAAAGTGATT
Found at i:32795 original size:57 final size:54
Alignment explanation
Indices: 32706--32888 Score: 177
Period size: 57 Copynumber: 3.2 Consensus size: 54
32696 AAATGTGATT
* * * * *
32706 AAAAATATTTTTAAATATGGGAAAGATAGTGTAGGCCATTGAGTGGCAAGCATTCAA
1 AAAAATATTTTTAAATTTGGAAAAG-TGGTGTAGGCCATTG-GTGGCAAACA-CCAA
* * *
32763 AAAAATATTTTTAAATTTGGAAAATGTGGTGTAGACTATTGGATGACAAACACCAAA
1 AAAAATATTTTTAAATTTGGAAAA-GTGGTGTAGGCCATTGG-TGGCAAACACC-AA
* * *
32820 AAAAATATTTTTAAATTTGAGAAAAGTGATGTACGTCATTGGGTGGCAAACACCCAA
1 AAAAATATTTTTAAATTTG-GAAAAGTGGTGTAGGCCATT-GGTGGCAAACA-CCAA
*
32877 TAAAATATTTTT
1 AAAAATATTTTT
32889 TATTCGTATT
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
56 2 0.02
57 93 0.89
58 10 0.10
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.31
Consensus pattern (54 bp):
AAAAATATTTTTAAATTTGGAAAAGTGGTGTAGGCCATTGGTGGCAAACACCAA
Found at i:32907 original size:114 final size:115
Alignment explanation
Indices: 32789--33032 Score: 260
Period size: 114 Copynumber: 2.1 Consensus size: 115
32779 TTGGAAAATG
* * * * * *
32789 TGGTGTAGACTATTGGATGACAAACACCAAAAAAAATA-TTTTTAAATTTGAGAAAAGTGATGTA
1 TGGTGTAGACCATGGGATGACAAACACC-AAAAAAATAGTTTTGAAACTTGAAAAAAGGGATGT-
* * *
32853 C-GTCATTGGGTGGCAAACACCCAATAAAA-TATTTTTTATTCGTATTTTTT
64 CGGTCATAGCGTGGCAAACACCCAAAAAAATTATTTTTTATTCGTATTTTTT
* * * ** *
32903 TGGTGTCGGCCATGGGTTGACAAACACCAAAAAAATAGTTTTGGGACTTGAAAAAAGGGTTGTCG
1 TGGTGTAGACCATGGGATGACAAACACCAAAAAAATAGTTTTGAAACTTGAAAAAAGGGATGTCG
* **
32968 GTCATAGCTTGGCCGACACCCAAAAAAATTATTTTTTATTCGTATTTTTT
66 GTCATAGCGTGGCAAACACCCAAAAAAATTATTTTTTATTCGTATTTTTT
* * *
33018 GGGTGTCGGCCATGG
1 TGGTGTAGACCATGG
33033 CTTGGTTGAC
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
113 10 0.09
114 63 0.58
115 35 0.32
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (115 bp):
TGGTGTAGACCATGGGATGACAAACACCAAAAAAATAGTTTTGAAACTTGAAAAAAGGGATGTCG
GTCATAGCGTGGCAAACACCCAAAAAAATTATTTTTTATTCGTATTTTTT
Found at i:35866 original size:19 final size:19
Alignment explanation
Indices: 35844--35884 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
35834 AAAAAGAAAT
*
35844 TAATTTCTAATAATTTTTA
1 TAATTTCTAATAACTTTTA
*
35863 TAATTTCTAATGACTTTTA
1 TAATTTCTAATAACTTTTA
35882 TAA
1 TAA
35885 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTCTAATAACTTTTA
Found at i:36745 original size:22 final size:23
Alignment explanation
Indices: 36717--36769 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
36707 ATAAAATTAT
* *
36717 TAAATATTAGAATAAAA-TAAAA
1 TAAATATTAAAAAAAAATTAAAA
36739 TAAATATTTAAAAAAAAATTAAAA
1 TAAATA-TTAAAAAAAAATTAAAA
*
36763 AAAATAT
1 TAAATAT
36770 AAGCGAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 6 0.23
23 10 0.38
24 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
TAAATATTAAAAAAAAATTAAAA
Found at i:38757 original size:26 final size:29
Alignment explanation
Indices: 38721--38773 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
38711 ATTATTTTAA
*
38721 TTTTAGAATAT-A-TATATTTTGTTTTTT
1 TTTTAGAATATGAGTATATGTTGTTTTTT
38748 TTTTA-AATATGAGTATATGTTGTTTT
1 TTTTAGAATATGAGTATATGTTGTTTT
38774 ACTAATCCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 6 0.26
28 12 0.52
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.62
Consensus pattern (29 bp):
TTTTAGAATATGAGTATATGTTGTTTTTT
Found at i:38907 original size:45 final size:46
Alignment explanation
Indices: 38840--38935 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 46
38830 TCTTTTGACC
* *
38840 TACTAAATGATTAACTAAATTACTTTGAATTTATTAAAAATTATTTA
1 TACTAAAT-ATTAACTAAATTACATAGAATTTATTAAAAATTATTTA
* * **
38887 TACTAAAT-TTAATTAAATTACATAGTATTTATTATTAATTATTTA
1 TACTAAATATTAACTAAATTACATAGAATTTATTAAAAATTATTTA
38932 TACT
1 TACT
38936 TGATCAAGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 35 0.81
47 8 0.19
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (46 bp):
TACTAAATATTAACTAAATTACATAGAATTTATTAAAAATTATTTA
Found at i:43404 original size:121 final size:128
Alignment explanation
Indices: 43251--43500 Score: 345
Period size: 126 Copynumber: 2.0 Consensus size: 128
43241 AAAAAAGGAA
* * *
43251 AAGCAATTGAGGATTGGGAAGAGAGAAATAAACAGCCAACAATTC-TCCAAAACTGTT-AAAAG-
1 AAGCAATTGAGGATTGGGAAGAGAGAAATAAACAGCAAACAACTCTTCCAAAACTCTTAAAAAGA
** ** * *
43313 ACTGT-TTT-AGACATGCATT-ATGTTTCTTTATGTCTGTGTTTACATACCTGATAATATCTTT
66 ACTGTGTTTCAGACATGC-TTCATGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
43374 AAGCAATTGAGG-TT-GGAAGAGAGAAATAAACAGCAAACAACTCTTCCAAAACTCTTAAAAAGA
1 AAGCAATTGAGGATTGGGAAGAGAGAAATAAACAGCAAACAACTCTTCCAAAACTCTTAAAAAGA
*
43437 ACTGTGTTTCAGACATGCTTCATGCATCTCAATGTCTGTGTTTACATACTTGAGAATATATTT
66 ACTGTGTTTCAGACATGCTTCATGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
43500 A
1 A
43501 GTTTTTTTTC
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
121 27 0.24
122 13 0.12
123 17 0.15
124 5 0.05
125 5 0.05
126 44 0.40
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (128 bp):
AAGCAATTGAGGATTGGGAAGAGAGAAATAAACAGCAAACAACTCTTCCAAAACTCTTAAAAAGA
ACTGTGTTTCAGACATGCTTCATGCATCTCAATGTCTGTGTTTACATACCTGAGAATATATTT
Found at i:72692 original size:38 final size:38
Alignment explanation
Indices: 72640--72718 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
72630 CGTTATACGA
* * *
72640 ACAGTTTACGAATAGTTCATCAAACATTTTATTCATTT
1 ACAGTTCACAAATAGTTCATCAAACATTCTATTCATTT
*
72678 ACAGTTCACAAATAGTTCATCAAACATTCTGTTCATTT
1 ACAGTTCACAAATAGTTCATCAAACATTCTATTCATTT
72716 ACA
1 ACA
72719 CCCCTACCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (38 bp):
ACAGTTCACAAATAGTTCATCAAACATTCTATTCATTT
Found at i:75640 original size:15 final size:16
Alignment explanation
Indices: 75620--75649 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75610 TAAACTATTA
75620 ATTAGTAT-AAAAAAT
1 ATTAGTATGAAAAAAT
75635 ATTAGTATGAAAAAA
1 ATTAGTATGAAAAAA
75650 ATAATTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
ATTAGTATGAAAAAAT
Found at i:80366 original size:18 final size:18
Alignment explanation
Indices: 80343--80379 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80333 TATAGTTTAA
*
80343 TATTCGATTTATGCGAAT
1 TATTCGAGTTATGCGAAT
*
80361 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATGCGAAT
80379 T
1 T
80380 CAAAAACTCA
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:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TATTCGAGTTATGCGAAT
Found at i:85805 original size:31 final size:31
Alignment explanation
Indices: 85770--85834 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
85760 CTCCAGTTGC
*
85770 TTGCTTGCTTTGTTGGATTT-TGTCATGCTGT
1 TTGCTTGCTTTGTTAG-TTTCTGTCATGCTGT
* *
85801 TTGCTTGTTTTGTTAGTTTCTGTCGTGCTGT
1 TTGCTTGCTTTGTTAGTTTCTGTCATGCTGT
85832 TTG
1 TTG
85835 TGCGAAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.05, C:0.12, G:0.26, T:0.57
Consensus pattern (31 bp):
TTGCTTGCTTTGTTAGTTTCTGTCATGCTGT
Found at i:86199 original size:22 final size:22
Alignment explanation
Indices: 86173--86218 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
86163 ACTCAAATCA
* *
86173 ATTATTTTATTGTTGTT-TTGTT
1 ATTATTTCATTATT-TTGTTGTT
86195 ATTATTTCATTATTTTGTTGTT
1 ATTATTTCATTATTTTGTTGTT
86217 AT
1 AT
86219 GGTTTGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (22 bp):
ATTATTTCATTATTTTGTTGTT
Found at i:89477 original size:93 final size:93
Alignment explanation
Indices: 89304--89522 Score: 214
Period size: 93 Copynumber: 2.4 Consensus size: 93
89294 AGCGGAACGC
* * * * * *
89304 TGGCATCAAAGCATGTTATGCAGAACAAAGAAACAGTCCAACCTCCCAAAGATCCTGCAGGGTTT
1 TGGCAACAAAGCATGTTATGCAGAACAAAGAAAAAGTCCAACATCCCAAAAATCCTGCAGGATTG
* *
89369 TTCAAGAACGGTGGAACCAGTAGAGTTG
66 GTCAAGAACAGTGGAACCAGTAGAGTTG
*
89397 TGGCAACAAAGCATGTTATGCAGAA-ACAGGAAAAAG-CTCAACATCCCAAAAATCCT-CTAGGA
1 TGGCAACAAAGCATGTTATGCAGAACA-AAGAAAAAGTC-CAACATCCCAAAAATCCTGC-AGGA
* * * *
89459 TTGGTCAAGAACATTGGAACTAGT-GTAATTC
63 TTGGTCAAGAACAGTGGAACCAGTAG-AGTTG
** * *
89490 CAGCATCAAAGCATGGTATGCAGAAC-AAGAAAA
1 TGGCAACAAAGCATGTTATGCAGAACAAAGAAAA
89523 CAACCCATTG
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
92 10 0.10
93 93 0.90
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (93 bp):
TGGCAACAAAGCATGTTATGCAGAACAAAGAAAAAGTCCAACATCCCAAAAATCCTGCAGGATTG
GTCAAGAACAGTGGAACCAGTAGAGTTG
Found at i:93073 original size:15 final size:16
Alignment explanation
Indices: 93052--93092 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
93042 TGATCTTTTA
93052 AAAATTATAAAGATA-T
1 AAAATTATAAA-ATAGT
93068 -AAATTATTAAAATAGT
1 AAAATTA-TAAAATAGT
93084 AAAATTATA
1 AAAATTATA
93093 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAAATTATAAAATAGT
Found at i:95040 original size:30 final size:30
Alignment explanation
Indices: 94973--95038 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
94963 GATAATCTAT
* *
94973 ATTTTTATAATTTTTAAAAAATTAAATCAA
1 ATTTTTATAATTTTTAAAAAATCAAAGCAA
* *
95003 ATTTTTATAATTTTTTAGAAATCAAAGCATA
1 ATTTTTATAATTTTTAAAAAATCAAAGCA-A
95034 ATTTT
1 ATTTT
95039 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAAAATCAAAGCAA
Found at i:99281 original size:51 final size:51
Alignment explanation
Indices: 99197--99336 Score: 151
Period size: 51 Copynumber: 2.7 Consensus size: 51
99187 TGTGTAAATG
* * * *
99197 TTGATAGAATGTGTAAATGTT-TCAAGCTGAATTTGTTAAATCAGGATAAAA
1 TTGATAGAATGTGTAAATGTTAT-AGGCTAAATTTGTTAAATCAAGACAAAA
* * *
99248 TTGATAAAATGTGTAAATGTTATTGGCTAAATTTGTTAAATCAAGACCAAA
1 TTGATAGAATGTGTAAATGTTATAGGCTAAATTTGTTAAATCAAGACAAAA
* *
99299 TTGACAGAATATGTAAACT-TT-TAGGGCTAAATTTGTTA
1 TTGATAGAATGTGTAAA-TGTTATA-GGCTAAATTTGTTA
99337 TTATATCAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 72 0.96
52 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (51 bp):
TTGATAGAATGTGTAAATGTTATAGGCTAAATTTGTTAAATCAAGACAAAA
Found at i:101617 original size:31 final size:31
Alignment explanation
Indices: 101581--101644 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
101571 ATTAAAGGAA
101581 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
*
101612 TTATTTGCTTTAGCTCCCATTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
101643 TT
1 TT
101645 GAGATTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (31 bp):
TTATTTGCTTTAGCTCCCACTGTTTTTAACT
Found at i:110460 original size:27 final size:25
Alignment explanation
Indices: 110391--110461 Score: 65
Period size: 28 Copynumber: 2.7 Consensus size: 25
110381 GATTCGAAGT
110391 TCAAAA-T-TTAAATTAAAAAAATTA
1 TCAAAATTATTAAA-TAAAAAAATTA
110415 TCAAAATTATATACCAATAAAAAAATTA
1 TCAAAATTAT-TA--AATAAAAAAATTA
*
110443 TTTAAATATTATTAAATAA
1 -TCAAA-ATTATTAAATAA
110462 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
24 6 0.15
25 1 0.03
26 1 0.03
27 7 0.18
28 11 0.28
29 8 0.21
30 5 0.13
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
TCAAAATTATTAAATAAAAAAATTA
Found at i:115132 original size:28 final size:27
Alignment explanation
Indices: 115101--115184 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 27
115091 ATTATTAAAT
115101 TATT-AAATTTTACTAAAAATATAGAAAA
1 TATTAAAATTTTA-TAAAAA-ATAGAAAA
*
115129 TATTAAAATTTTATTAAAAATAGAAAA
1 TATTAAAATTTTATAAAAAATAGAAAA
* * *
115156 TATATAGAAA-TGTAGAAAAAATATAAAA
1 TAT-TA-AAATTTTATAAAAAATAGAAAA
115184 T
1 T
115185 TTTATAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 11 0.23
28 26 0.54
29 11 0.23
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (27 bp):
TATTAAAATTTTATAAAAAATAGAAAA
Found at i:115160 original size:29 final size:29
Alignment explanation
Indices: 115097--115160 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
115087 AAAAATTATT
*
115097 AAAT-TATTAAATTTTACTAAAAATATAG
1 AAATATATTAAATTTTACTAAAAATAGAG
*
115125 AAA-ATATTAAAATTTTATTAAAAATAGA-
1 AAATATATT-AAATTTTACTAAAAATAGAG
115153 AAATATAT
1 AAATATAT
115161 AGAAATGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
AAATATATTAAATTTTACTAAAAATAGAG
Found at i:115166 original size:29 final size:29
Alignment explanation
Indices: 115101--115158 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
115091 ATTATTAAAT
115101 TATT-AAATTTTACTAAAAATATAGAAAA
1 TATTAAAATTTTACTAAAAATATAGAAAA
*
115129 TATTAAAATTTTA-TTAAAA-ATAGAAAA
1 TATTAAAATTTTACTAAAAATATAGAAAA
115156 TAT
1 TAT
115159 ATAGAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 11 0.39
28 9 0.32
29 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
TATTAAAATTTTACTAAAAATATAGAAAA
Found at i:115171 original size:19 final size:18
Alignment explanation
Indices: 115149--115184 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
115139 TTATTAAAAA
*
115149 TAGAAAATATATAGAAATG
1 TAGAAAAAATATA-AAATG
115168 TAGAAAAAATATAAAAT
1 TAGAAAAAATATAAAAT
115185 TTTATAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (18 bp):
TAGAAAAAATATAAAATG
Found at i:115232 original size:20 final size:19
Alignment explanation
Indices: 115180--115253 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
115170 GAAAAAATAT
* *
115180 AAAATTTTATAAAGTTGTAA
1 AAAATTATA-AAAATTGTAA
*
115200 GAAAATCAT-AAAATATGTAA
1 -AAAATTATAAAAAT-TGTAA
*
115220 AAAATTATAAAAATCGTAA
1 AAAATTATAAAAATTGTAA
*
115239 AAAAATATAAAAATT
1 AAAATTATAAAAATT
115254 ATCATACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 28 0.64
20 10 0.23
21 6 0.14
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAATTGTAA
Found at i:117263 original size:26 final size:26
Alignment explanation
Indices: 117205--117263 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
117195 CTTGTAAGTT
117205 TTTCAATA-AATATGAAATATTAATA
1 TTTCAATATAATATGAAATATTAATA
* * *
117230 TTT-TATATAATAATTAAATTTTAA-A
1 TTTCAATATAAT-ATGAAATATTAATA
117255 TTTCAATAT
1 TTTCAATAT
117264 TTATTGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.11
25 10 0.37
26 14 0.52
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTCAATATAATATGAAATATTAATA
Found at i:122711 original size:23 final size:22
Alignment explanation
Indices: 122661--122721 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
122651 AGACGTGGAA
*
122661 ATTAAATTATAATTATTATAAT
1 ATTAAATTATAATTTTTATAAT
*
122683 AATAAATATATAATTTTTA-AAT
1 ATTAAAT-TATAATTTTTATAAT
*
122705 GATTAAATTAAAATTTT
1 -ATTAAATTATAATTTT
122722 ATTATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAAATTATAATTTTTATAAT
Found at i:122794 original size:18 final size:19
Alignment explanation
Indices: 122767--122802 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
122757 TTTATTAAAT
*
122767 TAAAATTTTAAA-AAAAAA
1 TAAAAATTTAAATAAAAAA
122785 TAAAAATTTAAATAAAAA
1 TAAAAATTTAAATAAAAA
122803 CTTTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATTTAAATAAAAAA
Found at i:124468 original size:13 final size:13
Alignment explanation
Indices: 124441--124487 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
124431 TTAAAATTAC
*
124441 TTTTCAAAATAACT
1 TTTTCAAAA-CACT
*
124455 TTTTCAAAGCACT
1 TTTTCAAAACACT
124468 TTTT-AAAACA-T
1 TTTTCAAAACACT
124479 TTTTCAAAA
1 TTTTCAAAA
124488 ACAATGCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 9 0.31
13 7 0.24
14 8 0.28
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (13 bp):
TTTTCAAAACACT
Found at i:124699 original size:24 final size:24
Alignment explanation
Indices: 124667--124718 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
124657 ATCATGTAAA
124667 ATAACAATGAAATAAACCAGTGTC
1 ATAACAATGAAATAAACCAGTGTC
*
124691 ATAACAATGAAATAAACCGGTGTC
1 ATAACAATGAAATAAACCAGTGTC
124715 ATAA
1 ATAA
124719 AAGAAGACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.21
Consensus pattern (24 bp):
ATAACAATGAAATAAACCAGTGTC
Found at i:128855 original size:18 final size:18
Alignment explanation
Indices: 128832--128874 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
128822 GAATAATTTT
128832 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
128850 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
128868 TTAATTA
1 TTAATTA
128875 CAACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:131467 original size:6 final size:6
Alignment explanation
Indices: 131456--131485 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
131446 ACTCTGCCAT
131456 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
131486 ACCCACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:132059 original size:11 final size:11
Alignment explanation
Indices: 132043--132079 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
132033 AAATGAGTCT
132043 TTCTCTCCTTC
1 TTCTCTCCTTC
132054 TTCTCTCCTTC
1 TTCTCTCCTTC
132065 TTC-CTCCTTTC
1 TTCTCTCC-TTC
132076 TTCT
1 TTCT
132080 GCTACTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (11 bp):
TTCTCTCCTTC
Found at i:135844 original size:6 final size:6
Alignment explanation
Indices: 135833--135858 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
135823 TCCCAACTCT
135833 GGGACA GGGACA GGGACA GGGACA GG
1 GGGACA GGGACA GGGACA GGGACA GG
135859 CTCAAACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.54, T:0.00
Consensus pattern (6 bp):
GGGACA
Found at i:138631 original size:11 final size:11
Alignment explanation
Indices: 138617--138672 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
138607 TTGTTTAAAA
138617 TTTAAATTTAT
1 TTTAAATTTAT
*
138628 TTTAAATTTAAA
1 TTTAAATTT-AT
138640 TTT-AATTTAT
1 TTTAAATTTAT
*
138650 GTTTAAAATTAT
1 -TTTAAATTTAT
138662 TTTCAAATTTA
1 TTT-AAATTTA
138673 AAATTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 1 0.03
11 20 0.54
12 16 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:138636 original size:7 final size:6
Alignment explanation
Indices: 138583--138681 Score: 57
Period size: 6 Copynumber: 17.0 Consensus size: 6
138573 CCATACTCCC
* * * *
138583 TTTAAA TTT-AT TTTAAA ATTAAA TTT--G TTTAAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
** * *
138628 TTTAAA TTTAAA TTT-AA TTTATG TTTAAA ATT-AT TTTCAAA TTTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTT-AAA
138676 TTTAAA
1 TTTAAA
138682 ATAAAACCCA
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
4 3 0.04
5 16 0.24
6 36 0.53
7 13 0.19
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:138654 original size:17 final size:17
Alignment explanation
Indices: 138583--138680 Score: 90
Period size: 17 Copynumber: 5.6 Consensus size: 17
138573 CCATACTCCC
*
138583 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
* *
138600 ATTAAATTT-GTTTAAAA
1 TTTAAATTTAATTT-AAA
*
138617 TTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
**
138634 TTTAAATTTAATTTATG
1 TTTAAATTTAATTTAAA
* *
138651 TTTAAAATTATTTTCAAA
1 TTTAAATTTAATTT-AAA
138669 TTTAAAATTTAA
1 TTT-AAATTTAA
138681 AATAAAACCC
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
16 3 0.05
17 48 0.75
18 7 0.11
19 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:138655 original size:34 final size:35
Alignment explanation
Indices: 138583--138680 Score: 119
Period size: 34 Copynumber: 2.8 Consensus size: 35
138573 CCATACTCCC
* *
138583 TTTAAATTTATTTTAAAATTAAATTT-GTTTAAAA
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAAA
**
138617 TTTAAATTTATTTTAAATTTAAATTTAATTT-ATG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAAA
*
138651 TTTAAAATTATTTTCAAATTTAAAATTTAA
1 TTTAAATTTATTTT-AAATTT-AAATTTAA
138681 AATAAAACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 39 0.70
35 9 0.16
36 8 0.14
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAAA
Found at i:140234 original size:59 final size:59
Alignment explanation
Indices: 140142--140454 Score: 434
Period size: 59 Copynumber: 5.3 Consensus size: 59
140132 AAACTGTCTG
*
140142 AAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
* *
140201 AAAATTACCACTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCGAACCTTCTA
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
* * * * ** *
140260 AAAATTACAATTTTACTCCCGAACTCCCAAAAATCCCAATTTTGACCCTAAACCTT-TCG
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCT-A
* **
140319 AAAATTACCATTTTACCACCGAACTTCCAAAAAT-CCATTTTTGACCCCGAACCTTCCG
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
* * *
140377 AAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACTCCGAACCTTC-C
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
* *
140435 AAAACTACCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
140455 ATGCATCCGA
Statistics
Matches: 224, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
58 69 0.31
59 155 0.69
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.29
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
Found at i:140449 original size:29 final size:28
Alignment explanation
Indices: 140142--140454 Score: 242
Period size: 30 Copynumber: 10.7 Consensus size: 28
140132 AAACTGTCTG
*
140142 AAAATTACCATTTT-ACCCCTGAACTTCC
1 AAAAATACCATTTTGACCCC-GAACTTCC
* *
140170 AAAAATCCCATTTTTGACCCCGAACCTTCT
1 AAAAATACCA-TTTTGACCCCGAA-CTTCC
*
140200 AAAAATTACCACTTT-ACCCCCGAACTTCC
1 AAAAA-TACCATTTTGA-CCCCGAACTTCC
* * *
140229 AAAAATCCCATTTTTGACCTCGAACCTTCT
1 AAAAATACCA-TTTTGACCCCGAA-CTTCC
* *
140259 AAAAATTACAATTTT-ACTCCCGAACTCCC
1 AAAAA-TACCATTTTGAC-CCCGAACTTCC
* ** *
140288 AAAAATCCCAATTTTGACCCTAAACCTTTCG
1 AAAAATACC-ATTTTGACCCCGAA-C-TTCC
*
140319 AAAATTACCATTTT-ACCACCGAACTTCC
1 AAAAATACCATTTTGACC-CCGAACTTCC
140347 AAAAAT-CCATTTTTGACCCCGAACCTTCC
1 AAAAATACCA-TTTTGACCCCGAA-CTTCC
*
140376 GAAAATTACCATTTT-ACCCTCGAACTTCC
1 -AAAAATACCATTTTGACCC-CGAACTTCC
* *
140405 AAAAATCCCATTTTTGACTCCGAACCTTCC
1 AAAAATACCA-TTTTGACCCCGAA-CTTCC
* *
140435 AAAACTACCATTTTGCCCCC
1 AAAAATACCATTTTGACCCC
140455 ATGCATCCGA
Statistics
Matches: 226, Mismatches: 35, Indels: 47
0.73 0.11 0.15
Matches are distributed among these distances:
27 3 0.01
28 39 0.17
29 82 0.36
30 83 0.37
31 19 0.08
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAATACCATTTTGACCCCGAACTTCC
Found at i:141916 original size:89 final size:87
Alignment explanation
Indices: 141821--142018 Score: 279
Period size: 90 Copynumber: 2.2 Consensus size: 87
141811 AATAGTTGTT
* *
141821 TTTCACTGTATTTTCTTCTCACAAATTTTCTAAAAAACCACCTTCCCCAAAAATCTTTCCTCAAT
1 TTTCACTGTATTTTTTTCTCACAAATTTTCTAAAAAACCACCTT-CCCAAAAACCTTTCCTCAAT
141886 TACAAACTCTAATAAACCCTTTTA
65 TACAAACTCTAATAAA-CCTTTTA
* * * *
141910 TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAAACCATCTTCCCAAAAACCTTTCTTCAA
1 TTTCACTGTA-TTTTTT-TCTCACAAATTTTCTAAAAAACCACCTTCCCAAAAACCTTTCCTCAA
** *
141975 TTGTAAACTTTAATAAACCTTTTA
64 TTACAAACTCTAATAAACCTTTTA
141999 TTTCACTGTATTTTTTTCTC
1 TTTCACTGTATTTTTTTCTC
142019 TTACAATTTT
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
87 4 0.04
88 6 0.06
89 27 0.28
90 36 0.37
91 25 0.26
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.43
Consensus pattern (87 bp):
TTTCACTGTATTTTTTTCTCACAAATTTTCTAAAAAACCACCTTCCCAAAAACCTTTCCTCAATT
ACAAACTCTAATAAACCTTTTA
Found at i:141969 original size:90 final size:90
Alignment explanation
Indices: 141821--142036 Score: 303
Period size: 89 Copynumber: 2.4 Consensus size: 90
141811 AATAGTTGTT
* * * *
141821 TTTCACTGTA-TTTTCT-TCTCACAAATTTTCTAAAAAACCACCTTCCCCAAAAATCTTTCCTCA
1 TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAAACCACCTTCCCCAAAAACCTTTCCTCA
141884 ATTACAAACTCTAATAAACCCTTTTA
66 ATTACAAACTCTAATAAA-CCTTTTA
* *
141910 TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAAACCATCTT-CCCAAAAACCTTTCTTCA
1 TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAAACCACCTTCCCCAAAAACCTTTCCTCA
** *
141974 ATTGTAAACTTTAATAAACCTTTTA
66 ATTACAAACTCTAATAAACCTTTTA
* *
141999 TTTCACTGTATTTTTTTCTCTTACAATTTTTTTTAAAA
1 TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAA
142037 TAAACCCAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
89 53 0.46
90 36 0.32
91 25 0.22
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.44
Consensus pattern (90 bp):
TTTCACTGTATTTTTTTCTCTCACAATTTTTTTAAAAAACCACCTTCCCCAAAAACCTTTCCTCA
ATTACAAACTCTAATAAACCTTTTA
Found at i:143106 original size:7 final size:7
Alignment explanation
Indices: 143096--143123 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
143086 ACCGTTGATC
143096 GTTGACT
1 GTTGACT
143103 GTTGACT
1 GTTGACT
143110 GTTGACT
1 GTTGACT
143117 GTTGACT
1 GTTGACT
143124 TTTTTCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (7 bp):
GTTGACT
Found at i:143106 original size:14 final size:14
Alignment explanation
Indices: 143066--143121 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
143056 CCGACCATTA
143066 ATCGTTGACT-TTG
1 ATCGTTGACTGTTG
* *
143079 ATCGTTAACCGTTG
1 ATCGTTGACTGTTG
143093 ATCGTTGACTGTTG
1 ATCGTTGACTGTTG
143107 A-CTGTTGACTGTTG
1 ATC-GTTGACTGTTG
143121 A
1 A
143122 CTTTTTTCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 9 0.24
14 28 0.76
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (14 bp):
ATCGTTGACTGTTG
Found at i:150244 original size:59 final size:60
Alignment explanation
Indices: 150150--150268 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 60
150140 GACTAAGTAT
*
150150 TTGGCTTAGCATGATATAACCAAGGCCTCTCCACAAGAATGAGAACCACGGTCATAGGAA
1 TTGGCTTAGCATGATACAACCAAGGCCTCTCCACAAGAATGAGAACCACGGTCATAGGAA
150210 TTGGCTTAGCATGATACAA-CAAGGCCTCTCCACAAGAATGAGAACCACGGTCATAGGAA
1 TTGGCTTAGCATGATACAACCAAGGCCTCTCCACAAGAATGAGAACCACGGTCATAGGAA
150269 CATCACAAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 40 0.69
60 18 0.31
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (60 bp):
TTGGCTTAGCATGATACAACCAAGGCCTCTCCACAAGAATGAGAACCACGGTCATAGGAA
Found at i:152179 original size:31 final size:32
Alignment explanation
Indices: 152141--152219 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
152131 TTAAATAAAT
152141 AAACTTACTCCTGTACCTGGCC-AAAAAAAAA
1 AAACTTACTCCTGTACCTGGCCAAAAAAAAAA
152172 AAACTTACTCCTGTACCTGGCCAAAAAAAAAA
1 AAACTTACTCCTGTACCTGGCCAAAAAAAAAA
152204 AAACTTACTCCTGTAC
1 AAACTTACTCCTGTAC
152220 AGTGTTCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 22 0.47
32 25 0.53
ACGTcount: A:0.43, C:0.27, G:0.09, T:0.22
Consensus pattern (32 bp):
AAACTTACTCCTGTACCTGGCCAAAAAAAAAA
Found at i:152197 original size:25 final size:26
Alignment explanation
Indices: 152141--152200 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 26
152131 TTAAATAAAT
152141 AAACTTACTCCTGTACCTGGCCAAAAAAAAA
1 AAACTTACTCCTGTACCTGGCC-----AAAA
152172 AAACTTACTCCTGTACCTGGCCAAAA
1 AAACTTACTCCTGTACCTGGCCAAAA
152198 AAA
1 AAA
152201 AAAAAACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.24
31 22 0.76
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (26 bp):
AAACTTACTCCTGTACCTGGCCAAAA
Found at i:181607 original size:12 final size:12
Alignment explanation
Indices: 181586--181619 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
181576 GATTAAACGA
181586 CACCGACACCGC
1 CACCGACACCGC
*
181598 CACCGCCACCGC
1 CACCGACACCGC
*
181610 CACCCACACC
1 CACCGACACC
181620 CACACAGCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.65, G:0.12, T:0.00
Consensus pattern (12 bp):
CACCGACACCGC
Found at i:186182 original size:19 final size:20
Alignment explanation
Indices: 186158--186196 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
186148 TCTAATTAAA
186158 ATTTTTAAAAA-TTTTAGAG
1 ATTTTTAAAAAGTTTTAGAG
186177 ATTTTTAAAAAGTTTTAGAG
1 ATTTTTAAAAAGTTTTAGAG
186197 TTATTGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTTTTAAAAAGTTTTAGAG
Found at i:186393 original size:29 final size:29
Alignment explanation
Indices: 186355--186609 Score: 224
Period size: 29 Copynumber: 8.8 Consensus size: 29
186345 GACATCTTTT
* * *
186355 ACAGAATCAATCATAAGGGCTCATATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
*
186384 ACAGAATCAATCACAAGGGCTCACATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* * * * * *
186413 ATAGATTCAAACACAAAGGTTCGCATCTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* ** * **
186442 ATAGGTTTAGGCACAAAGGCTCACATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* * * * *
186471 ATAGATTCAACCATAAAGACTCACATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* * *
186500 ATAGAATCAACCACAAAGGCTCAC-TTAA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* * *
186528 ACAGATTAAATCACAAAGGCTCATATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* *
186557 ACAGAATCAGTCACAAAGGCTTACATTTA
1 ACAGAATCAATCACAAAGGCTCACATTTA
* *
186586 ACAGAATCAACCACTAAGGCTCAC
1 ACAGAATCAATCACAAAGGCTCAC
186610 TTTTCGGTAA
Statistics
Matches: 184, Mismatches: 41, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
28 22 0.12
29 162 0.88
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (29 bp):
ACAGAATCAATCACAAAGGCTCACATTTA
Found at i:186583 original size:86 final size:85
Alignment explanation
Indices: 186363--186611 Score: 273
Period size: 86 Copynumber: 2.9 Consensus size: 85
186353 TTACAGAATC
* * * * *
186363 AATCATAAGGGCTCATATTTAACAGAATCAATCACAAGGGCTCACATTTAATAGATTCAAACACA
1 AATCACAAAGGCTCATATTTAACAGAATCAATCACAAAGGCTCACATTTAATAGAATCAACCACA
* * * * *
186428 AAGGTTCGCATCTAATAGGTTT
66 AAGGCTCAC-T-TAACAGATTA
** * * * * * *
186450 AGGCACAAAGGCTCACATTTAATAGATTCAACCATAAAGACTCACATTTAATAGAATCAACCACA
1 AATCACAAAGGCTCATATTTAACAGAATCAATCACAAAGGCTCACATTTAATAGAATCAACCACA
186515 AAGGCTCACTTAAACAGATTA
66 AAGGCTCACTT-AACAGATTA
* * * *
186536 AATCACAAAGGCTCATATTTAACAGAATCAGTCACAAAGGCTTACATTTAACAGAATCAACCACT
1 AATCACAAAGGCTCATATTTAACAGAATCAATCACAAAGGCTCACATTTAATAGAATCAACCACA
186601 AAGGCTCACTT
66 AAGGCTCACTT
186612 TTCGGTAAAT
Statistics
Matches: 131, Mismatches: 30, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
85 1 0.01
86 71 0.54
87 59 0.45
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (85 bp):
AATCACAAAGGCTCATATTTAACAGAATCAATCACAAAGGCTCACATTTAATAGAATCAACCACA
AAGGCTCACTTAACAGATTA
Found at i:186718 original size:18 final size:20
Alignment explanation
Indices: 186701--186741 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
186691 TTCTATATAT
186701 TAATATAGAATAATATATAAA
1 TAATAT-GAATAATATATAAA
*
186722 TAATATTAATAATATATAAA
1 TAATATGAATAATATATAAA
186742 AAAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAATATGAATAATATATAAA
Found at i:186719 original size:20 final size:19
Alignment explanation
Indices: 186694--186740 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
186684 TTGTTTATTC
*
186694 TATATATTAATATAGAATAA
1 TATATAATAATAT-GAATAA
*
186714 TATATAAATAATATTAATAA
1 TATAT-AATAATATGAATAA
186734 TATATAA
1 TATATAA
186741 AAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TATATAATAATATGAATAA
Found at i:186747 original size:12 final size:13
Alignment explanation
Indices: 186732--186761 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
186722 TAATATTAAT
186732 AATATATAAA-AA
1 AATATATAAAGAA
186744 AATATATAAAGAA
1 AATATATAAAGAA
186757 AATAT
1 AATAT
186762 GCGTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
AATATATAAAGAA
Found at i:197998 original size:18 final size:18
Alignment explanation
Indices: 197977--198019 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
197967 TTGTAACACA
197977 TTATTAATAAT-ATTTATT
1 TTATTAATAATAATTTA-T
*
197995 TTATTTATAATAATTTAT
1 TTATTAATAATAATTTAT
198013 TTATTAA
1 TTATTAA
198020 CTTTATAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTAATAATAATTTAT
Found at i:207030 original size:61 final size:61
Alignment explanation
Indices: 206964--207085 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
206954 GCTTGGTCGG
206964 CACTACCTTTTCGATCAGGAAAAAAATTTGGTATTGGCCACGCATTGGCCGACAGCAGCAT
1 CACTACCTTTTCGATCAGGAAAAAAATTTGGTATTGGCCACGCATTGGCCGACAGCAGCAT
*
207025 CACTACCTTTTCGATCAGGAAAAAAATTTGGTATTGGCCATGCATTGGCCGACAGCAGCAT
1 CACTACCTTTTCGATCAGGAAAAAAATTTGGTATTGGCCACGCATTGGCCGACAGCAGCAT
207086 TTTTTATTAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (61 bp):
CACTACCTTTTCGATCAGGAAAAAAATTTGGTATTGGCCACGCATTGGCCGACAGCAGCAT
Found at i:207151 original size:56 final size:57
Alignment explanation
Indices: 207044--207159 Score: 153
Period size: 57 Copynumber: 2.1 Consensus size: 57
207034 TTCGATCAGG
* * * *
207044 AAAAAAATTTGGTATTGGCCATGCATTGGCCGACAGCAGCATTTTTTATTAGATAAA
1 AAAAAAAATTGGTATAGGCCATGCATTGGCCGACACCAGCATTTTTAATTAGATAAA
* * * *
207101 AAAAAAAATTGGTGTAGGCCATGGATTGGTCGACACCA-CCTTTTTAATTAGATAAA
1 AAAAAAAATTGGTATAGGCCATGCATTGGCCGACACCAGCATTTTTAATTAGATAAA
207157 AAA
1 AAA
207160 TAATTTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
56 19 0.37
57 32 0.63
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (57 bp):
AAAAAAAATTGGTATAGGCCATGCATTGGCCGACACCAGCATTTTTAATTAGATAAA
Found at i:207198 original size:59 final size:59
Alignment explanation
Indices: 207051--207448 Score: 259
Period size: 59 Copynumber: 6.6 Consensus size: 59
207041 AGGAAAAAAA
* * * * **
207051 TTTGGTATTGGCCATGCA-TTGGCCGACAGCAGCATTTTTTATTAGATAAAAAA-AA--AA
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCA-C-CTTTTTATCAGATAAAAAATAATTTT
* * * * *
207108 ATTGGTGTAGGCCATGGA-TTGGTCGACACCACCTTTTTAATTAGATAAAAAATAATTTT
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCACCTTTTT-ATCAGATAAAAAATAATTTT
* *
207167 TTTGGTGTTGGTCATGCACTT-GTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGG
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCACC-TTTTTATCAGATAAAAAAT--A--------
207231 TATTTT
55 -ATTTT
* *
207237 TTTGGTGTTGGCCATGCACTT-GTCGACACCACCATTTTTATCAGATAAAAAATAAATTT
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCACC-TTTTTATCAGATAAAAAATAATTTT
* ** * **
207296 TTTGGTGTTAGCCATATA-TTGGCCGACACCACCTCTTTATCAGATAAGAAAA-AA--AA
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCACCTTTTTATCAGATAA-AAAATAATTTT
* * * *
207352 TTTGGTGCTGGACATTG--CTTGGCCGACACCATCATTTTTATTTA-ATAAAAATAATAATTTT
1 TTTGGTGTTGGCCA-TGCACTTGGCCGACACCA-CCTTTTTA-TCAGAT-AAAA-AATAATTTT
*
207413 TTTGGTGTTGGCCATGCA-TTGGCCGACACCAACTTT
1 TTTGGTGTTGGCCATGCACTTGGCCGACACCACCTTT
207449 CCCTTTTTTC
Statistics
Matches: 275, Mismatches: 36, Indels: 57
0.75 0.10 0.15
Matches are distributed among these distances:
55 5 0.02
56 38 0.14
57 38 0.14
58 23 0.08
59 75 0.27
60 12 0.04
61 26 0.09
68 1 0.00
70 57 0.21
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (59 bp):
TTTGGTGTTGGCCATGCACTTGGCCGACACCACCTTTTTATCAGATAAAAAATAATTTT
Found at i:207237 original size:70 final size:70
Alignment explanation
Indices: 207162--207301 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
207152 ATAAAAAATA
*
207162 ATTTTTTTGGTGTTGGTCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTT
1 ATTTTTTTGGTGTTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTT
207227 TTGGT
66 TTGGT
207232 ATTTTTTTGGTGTTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTT
1 ATTTTTTTGGTGTTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTT
207297 TTGGT
66 TTGGT
207302 GTTAGCCATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (70 bp):
ATTTTTTTGGTGTTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTT
TTGGT
Found at i:207318 original size:70 final size:70
Alignment explanation
Indices: 207174--207319 Score: 204
Period size: 70 Copynumber: 2.1 Consensus size: 70
207164 TTTTTTGGTG
* ****
207174 TTGGTCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTATTTTTT
1 TTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTATTGCCA
* *
207239 TGGTG
66 TGATA
*
207244 TTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTGTTAGCC
1 TTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTATT-GCC
207309 AT-ATA
65 ATGATA
207314 TTGGCC
1 TTGGCC
207320 GACACCACCT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 66 0.99
71 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (70 bp):
TTGGCCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTATTGCCA
TGATA
Found at i:207353 original size:129 final size:129
Alignment explanation
Indices: 207109--207354 Score: 329
Period size: 129 Copynumber: 1.9 Consensus size: 129
207099 AAAAAAAAAA
* * *
207109 TTGGTGTAGGCCATGGATTGGTCGACACCACCTTTTTAATTAGATAAAAAATAATTTTTTTGGTG
1 TTGGTGTAGGCCATGCATTGGTCGACACCACCTTTTTAATCAGATAAAAAATAAATTTTTTGGTG
* * * * * *
207174 TTGGTCATGCACTTGTCGACACCACCATTTTTATCAGATAAAAAATAAATTTTTTGGTATTTTT
66 TTAGCCATACACTTGCCGACACCACCATCTTTATCAGATAAAAAAAAAATTTTTTGGTATTTTT
*
207238 TTGGTGTTGGCCATGCACTT-GTCGACACCACCATTTTT-ATCAGATAAAAAATAAATTTTTTGG
1 TTGGTGTAGGCCATGCA-TTGGTCGACACCACC-TTTTTAATCAGATAAAAAATAAATTTTTTGG
*
207301 TGTTAGCCATATA-TTGGCCGACACCACC-TCTTTATCAGATAAGAAAAAAAATTT
64 TGTTAGCCATACACTT-GCCGACACCACCATCTTTATCAGATAA-AAAAAAAATTT
207355 GGTGCTGGAC
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
128 15 0.15
129 80 0.78
130 7 0.07
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (129 bp):
TTGGTGTAGGCCATGCATTGGTCGACACCACCTTTTTAATCAGATAAAAAATAAATTTTTTGGTG
TTAGCCATACACTTGCCGACACCACCATCTTTATCAGATAAAAAAAAAATTTTTTGGTATTTTT
Found at i:208327 original size:30 final size:30
Alignment explanation
Indices: 208282--208343 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
208272 AAAAAATAAT
* * *
208282 AATTAGAAATGAAATTTAAAATATAAACAA
1 AATTACAAATGAAATTAAAAAAATAAACAA
*
208312 AATTACAAATTAAATTAAAAAAATAAACAA
1 AATTACAAATGAAATTAAAAAAATAAACAA
208342 AA
1 AA
208344 AAATCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (30 bp):
AATTACAAATGAAATTAAAAAAATAAACAA
Found at i:209654 original size:20 final size:20
Alignment explanation
Indices: 209623--209670 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
209613 AAAATAATTT
*
209623 TAAAAAA-A-TTCGAAAAGC
1 TAAAAAATATTTCGAAAAGA
*
209641 TAAAAAATATTTCGAAAATA
1 TAAAAAATATTTCGAAAAGA
209661 TAAAAAATAT
1 TAAAAAATAT
209671 ATGTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 18 0.69
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
TAAAAAATATTTCGAAAAGA
Found at i:209702 original size:143 final size:140
Alignment explanation
Indices: 209417--209724 Score: 397
Period size: 144 Copynumber: 2.1 Consensus size: 140
209407 TTTGTAAAAA
*
209417 AATATTTCAAAAATATAAAAATATACGTAAAAAATTTCATTTTGAAGATATAAAAAATAATTTAA
1 AATATTTCAAAAATATAAAAATATACGTAAAAAATTTCATTTCGAAGATATAAAAAATAATTTAA
* ****
209482 AAAAATTCGAAAAGCTAAAAAATATTTTGAAAATATAAAAAAAATATAAGATTTTTAATTTGTAA
66 AAAAATTCGAAAAGCTAAAAAATATTTCGAAAATATAAAAAAAATATAAGAAAAGTAATTTG--A
209547 AAAATATTTTTT
129 AAAATATTTTTT
* *
209559 AATATTTCGAAAATATAAAAAATATATGTAAAAAATTTCATTTCGAAGATATAAAAAATAATTTT
1 AATATTTCAAAAATAT-AAAAATATACGTAAAAAATTTCATTTCGAAGATATAAAAAATAA-TTT
*
209624 AAAAAAATTCGAAAAGCTAAAAAATATTTCGAAAATATAAAAAATATATGTAA-AAAAGT-ATTT
64 AAAAAAATTCGAAAAGCTAAAAAATATTTCGAAAATATAAAAAA-A-ATATAAGAAAAGTAATTT
*
209687 CG-AAATTATTATTTT
127 -GAAAAATATT-TTTT
* *
209702 AAAAAATTCAAAAATATTAAAAA
1 -AATATTTCAAAAATA-TAAAAA
209725 CATTTCAAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
142 22 0.15
143 46 0.32
144 67 0.46
145 5 0.03
146 5 0.03
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (140 bp):
AATATTTCAAAAATATAAAAATATACGTAAAAAATTTCATTTCGAAGATATAAAAAATAATTTAA
AAAAATTCGAAAAGCTAAAAAATATTTCGAAAATATAAAAAAAATATAAGAAAAGTAATTTGAAA
AATATTTTTT
Found at i:209731 original size:20 final size:18
Alignment explanation
Indices: 209700--209737 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
209690 AATTATTATT
209700 TTAAAAAATTCAAAAATA
1 TTAAAAAATTCAAAAATA
209718 TTAAAAACATTTCAAAAATA
1 TTAAAAA-A-TTCAAAAATA
209738 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAAATTCAAAAATA
Found at i:209888 original size:15 final size:16
Alignment explanation
Indices: 209868--209902 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
209858 TGAAAAATTG
209868 AAAAATAAT-TAGAAT
1 AAAAATAATATAGAAT
*
209883 AAAAATAATATATAAT
1 AAAAATAATATAGAAT
209899 AAAA
1 AAAA
209903 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATAATATAGAAT
Found at i:210770 original size:30 final size:30
Alignment explanation
Indices: 210735--210799 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
210725 GGACGATAGT
210735 CGGTCAA-AGACGGTCAATGACGATCAACGG
1 CGGTCAACAG-CGGTCAATGACGATCAACGG
* * *
210765 CGGTCAACAGTGGTCAATGATGATCAATGG
1 CGGTCAACAGCGGTCAATGACGATCAACGG
210795 CGGTC
1 CGGTC
210800 GGAGATATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (30 bp):
CGGTCAACAGCGGTCAATGACGATCAACGG
Found at i:211147 original size:96 final size:96
Alignment explanation
Indices: 211037--211576 Score: 837
Period size: 96 Copynumber: 5.7 Consensus size: 96
211027 GTAATTTGAC
* *
211037 AAAT-ATGTACTGTCAAATCAACATATTATTTAATATAAATTGAAATATTATAATAATCATTTTT
1 AAATAATGTATTGTCAAATCAACATATTATTTGATATAAATTGAAATATTATAATAATCATTTTT
*
211101 AATTTAAATAATTTTAATATTTCAATTTGGT
66 AATTTAAATAATTTTAATATTTGAATTTGGT
* *
211132 AAATAATGTATTGTCAAATCAACACATTATTTGATATAACTTGAAATATTATAATAATCATTTTT
1 AAATAATGTATTGTCAAATCAACATATTATTTGATATAAATTGAAATATTATAATAATCATTTTT
211197 AATTTAAATAATTTTAATATTTGAATTT-GT
66 AATTTAAATAATTTTAATATTTGAATTTGGT
* * *
211227 TAATAATGTAGTGTAAAATCAACACT-TTATCTT-ATATAAATTGAAATATTATAAT-AT--TTT
1 AAATAATGTATTGTCAAATCAACA-TATTAT-TTGATATAAATTGAAATATTATAATAATCATTT
*
211287 TTAATTTAAATAATTTAAATATTTGAATTTGGT
64 TTAATTTAAATAATTTTAATATTTGAATTTGGT
* * *
211320 AAATAATGTATTGTCAAATCAATACATTATTTAATATAAATTGAAATATTATAATAATCATTTTT
1 AAATAATGTATTGTCAAATCAACATATTATTTGATATAAATTGAAATATTATAATAATCATTTTT
*
211385 AATTTAAATAATTTTAATATTTGAATTTGAT
66 AATTTAAATAATTTTAATATTTGAATTTGGT
* * *
211416 AAATAATGTATTGTC-GATCAATATATTATTTGATATAAATTGAAATATTATAATAATAATTTTT
1 AAATAATGTATTGTCAAATCAACATATTATTTGATATAAATTGAAATATTATAATAATCATTTTT
*
211480 AATTTAAATAATTTTAATATTTGAATTTGAT
66 AATTTAAATAATTTTAATATTTGAATTTGGT
211511 AAATAATGTATTGTCAAATCAACAGT-TTATTTGATATAAATTGAAATATTATAATAATCATTTT
1 AAATAATGTATTGTCAAATCAACA-TATTATTTGATATAAATTGAAATATTATAATAATCATTTT
211575 TA
65 TA
211577 TTATGGTTTT
Statistics
Matches: 409, Mismatches: 25, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
92 34 0.08
93 48 0.12
94 4 0.01
95 143 0.35
96 179 0.44
97 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (96 bp):
AAATAATGTATTGTCAAATCAACATATTATTTGATATAAATTGAAATATTATAATAATCATTTTT
AATTTAAATAATTTTAATATTTGAATTTGGT
Found at i:211371 original size:188 final size:190
Alignment explanation
Indices: 211029--211576 Score: 856
Period size: 188 Copynumber: 2.9 Consensus size: 190
211019 AATTAAGGGT
*
211029 AATTTGACAAAT-ATGTACTGTCAAATCAACATATTATTTAATATAAATTGAAATATTATAATAA
1 AATTTGATAAATAATGTACTGT-AAATCAACATATTATTTAATATAAATTGAAATATTATAATAA
*
211093 TCATTTTTAATTTAAATAATTTTAATATTTCAATTTGGTAAATAATGTATTGTCAAATCAACACA
65 T-ATTTTTAATTTAAATAATTTTAATATTTGAATTTGGTAAATAATGTATTGTCAAATCAACACA
*
211158 TTATTTGATATAACTTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTG
129 TTATTTGATATAAATTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTG
* *
211220 AATTTG-TTAATAATGTAGTGTAAAATCAACACT-TTATCTT-ATATAAATTGAAATATTATAAT
1 AATTTGATAAATAATGTACTGT-AAATCAACA-TATTAT-TTAATATAAATTGAAATATTATAAT
* *
211282 -AT-TTTTTAATTTAAATAATTTAAATATTTGAATTTGGTAAATAATGTATTGTCAAATCAATAC
63 AATATTTTTAATTTAAATAATTTTAATATTTGAATTTGGTAAATAATGTATTGTCAAATCAACAC
*
211345 ATTATTTAATATAAATTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTG
128 ATTATTTGATATAAATTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTG
* ** * *
211408 AATTTGATAAATAATGTATTGTCGATCAATATATTATTTGATATAAATTGAAATATTATAATAAT
1 AATTTGATAAATAATGTACTGTAAATCAACATATTATTTAATATAAATTGAAATATTATAATAAT
* **
211473 AATTTTTAATTTAAATAATTTTAATATTTGAATTTGATAAATAATGTATTGTCAAATCAACAGTT
66 -ATTTTTAATTTAAATAATTTTAATATTTGAATTTGGTAAATAATGTATTGTCAAATCAACACAT
211538 TATTTGATATAAATTGAAATATTATAATAATCATTTTTA
130 TATTTGATATAAATTGAAATATTATAATAATCATTTTTA
211577 TTATGGTTTT
Statistics
Matches: 328, Mismatches: 20, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
187 3 0.01
188 157 0.48
189 15 0.05
190 5 0.02
191 145 0.44
192 3 0.01
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (190 bp):
AATTTGATAAATAATGTACTGTAAATCAACATATTATTTAATATAAATTGAAATATTATAATAAT
ATTTTTAATTTAAATAATTTTAATATTTGAATTTGGTAAATAATGTATTGTCAAATCAACACATT
ATTTGATATAAATTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTG
Found at i:211518 original size:284 final size:283
Alignment explanation
Indices: 211037--211566 Score: 893
Period size: 284 Copynumber: 1.9 Consensus size: 283
211027 GTAATTTGAC
*
211037 AAATATGTACTGTCAAATCAACATATTATTTAATATAAATTGAAATATTATAATAATCATTTTTA
1 AAATATGTACTGTCAAATCAACACATTATTTAATATAAATTGAAATATTATAATAATCATTTTTA
*
211102 ATTTAAATAATTTTAATATTTCAATTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGAT
66 ATTTAAATAATTTTAATATTTCAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGAT
* * *
211167 ATAACTTGAAATATTATAATAATCATTTTTAATTTAAATAATTTTAATATTTGAATTTGTTAATA
131 ATAAATTGAAATATTATAATAATAATTTTTAATTTAAATAATTTTAATATTTGAATTTGTAAATA
211232 ATGTAGTGTAAAATCAACACTTTATCTT-ATATAAATTGAAATATTATAATATTTTTTAATTTAA
196 ATGTAGTGTAAAATCAACACTTTAT-TTGATATAAATTGAAATATTATAATATTTTTTAATTTAA
211296 ATAATTTAAATATTTGAATTTGGT
260 ATAATTTAAATATTTGAATTTGGT
* *
211320 AAATAATGTATTGTCAAATCAATACATTATTTAATATAAATTGAAATATTATAATAATCATTTTT
1 AAAT-ATGTACTGTCAAATCAACACATTATTTAATATAAATTGAAATATTATAATAATCATTTTT
* * * *
211385 AATTTAAATAATTTTAATATTTGAATTTGATAAATAATGTATTGTC-GATCAATATATTATTTGA
65 AATTTAAATAATTTTAATATTTCAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGA
211449 TATAAATTGAAATATTATAATAATAATTTTTAATTTAAATAATTTTAATATTTGAATTTGATAAA
130 TATAAATTGAAATATTATAATAATAATTTTTAATTTAAATAATTTTAATATTTGAATTTG-TAAA
* * *
211514 TAATGTATTGTCAAATCAACAGTTTATTTGATATAAATTGAAATATTATAATA
194 TAATGTAGTGTAAAATCAACACTTTATTTGATATAAATTGAAATATTATAATA
211567 ATCATTTTTA
Statistics
Matches: 230, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
283 79 0.34
284 151 0.66
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (283 bp):
AAATATGTACTGTCAAATCAACACATTATTTAATATAAATTGAAATATTATAATAATCATTTTTA
ATTTAAATAATTTTAATATTTCAATTTGATAAATAATGTATTGTCAAATCAACACATTATTTGAT
ATAAATTGAAATATTATAATAATAATTTTTAATTTAAATAATTTTAATATTTGAATTTGTAAATA
ATGTAGTGTAAAATCAACACTTTATTTGATATAAATTGAAATATTATAATATTTTTTAATTTAAA
TAATTTAAATATTTGAATTTGGT
Found at i:214213 original size:50 final size:50
Alignment explanation
Indices: 214159--214259 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
214149 TACACTGAGG
*
214159 CTTAGGAGCTTACTAGCTTACTAGATCCTATTCTTTCCATTCTCTAATCT
1 CTTAGGAGCTTACTAGCTTACTAGATCCTATTCTTTCCATACTCTAATCT
214209 CTTAGGAGCTTACTAGCTTACTAGATCCTATTCTTTCCATACTCTAATCT
1 CTTAGGAGCTTACTAGCTTACTAGATCCTATTCTTTCCATACTCTAATCT
214259 C
1 C
214260 ACATTTATTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.41
Consensus pattern (50 bp):
CTTAGGAGCTTACTAGCTTACTAGATCCTATTCTTTCCATACTCTAATCT
Found at i:222286 original size:19 final size:19
Alignment explanation
Indices: 222238--222288 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 19
222228 AATAGCTATC
*
222238 AAATAAGAATAATTATATTAA
1 AAATAAG-A-AATAATATTAA
222259 AAAT--G-AATAATATTAA
1 AAATAAGAAATAATATTAA
222275 AAATAAGAAATAAT
1 AAATAAGAAATAAT
222289 TATCATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 14 0.54
18 1 0.04
19 7 0.27
21 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
AAATAAGAAATAATATTAA
Found at i:223352 original size:19 final size:19
Alignment explanation
Indices: 223330--223379 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
223320 AAAAGTACTA
*
223330 ATATTGTTATATTTTCTTT
1 ATATTGTTATATTTTATTT
*
223349 ATA-TGTAATACTTTTATTT
1 ATATTGTTATA-TTTTATTT
*
223368 -TATTGTTTTATT
1 ATATTGTTATATT
223380 ATTAGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.66
Consensus pattern (19 bp):
ATATTGTTATATTTTATTT
Found at i:223504 original size:22 final size:21
Alignment explanation
Indices: 223461--223504 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
223451 AAATATTTTA
* *
223461 ATATAAATATTTTTTAAATAT
1 ATATAAATAATTTTGAAATAT
*
223482 ATATTAATAATTTTGAAAT-T
1 ATATAAATAATTTTGAAATAT
223502 ATA
1 ATA
223505 AAAAAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATAAATAATTTTGAAATAT
Found at i:227621 original size:28 final size:28
Alignment explanation
Indices: 227551--227767 Score: 231
Period size: 28 Copynumber: 7.5 Consensus size: 28
227541 TTTTATGAAG
227551 TTTAGGGGTAAAAATGTAATTTTTGGAAAAA
1 TTTA-GGGTAAAAATGTAA-TTTTGG-AAAA
* *
227582 TTCAGGGTAAAAATGGAATTTTGGAAAA
1 TTTAGGGTAAAAATGTAATTTTGGAAAA
* *
227610 TTTAGGG-GAAAATGTAATTTTTGGAAAT
1 TTTAGGGTAAAAATGTAA-TTTTGGAAAA
* * *
227638 TTTGGGGTCAAAATGAAATTTTGGAAAA
1 TTTAGGGTAAAAATGTAATTTTGGAAAA
*
227666 TTTAGGGTAAAAATGTAATTTT-TATAAA
1 TTTAGGGTAAAAATGTAATTTTGGA-AAA
*
227694 CTTTAGGGTTAAAAATGGAATTTTGGAAAAA
1 -TTTAGGG-TAAAAATGTAATTTTGG-AAAA
* *
227725 TTTATGGTAAAAATGTAATTTTTGGAAAG
1 TTTAGGGTAAAAATGTAA-TTTTGGAAAA
*
227754 TTTAGGGTCAAAAT
1 TTTAGGGTAAAAAT
227768 ATTATTTTTA
Statistics
Matches: 157, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.06
28 56 0.36
29 46 0.29
30 39 0.25
31 6 0.04
32 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (28 bp):
TTTAGGGTAAAAATGTAATTTTGGAAAA
Found at i:227632 original size:57 final size:57
Alignment explanation
Indices: 227551--227767 Score: 253
Period size: 57 Copynumber: 3.8 Consensus size: 57
227541 TTTTATGAAG
*
227551 TTTAGGGGTAAAAATGTAATTTTTGGAAAAATTCAGGGTAAAAATGGAATTTTGGAAAA
1 TTTA-GGG-AAAAATGTAATTTTTGGAAAAATTTAGGGTAAAAATGGAATTTTGGAAAA
* * * * *
227610 TTTAGGGGAAAATGTAATTTTTGG-AAATTTTGGGGTCAAAATGAAATTTTGGAAAA
1 TTTAGGGAAAAATGTAATTTTTGGAAAAATTTAGGGTAAAAATGGAATTTTGGAAAA
*
227666 TTTAGGGTAAAAATGTAATTTTT--ATAAACTTTAGGGTTAAAAATGGAATTTTGGAAAAA
1 TTTAGGG-AAAAATGTAATTTTTGGA-AAAATTTAGGG-TAAAAATGGAATTTTGG-AAAA
* * *
227725 TTTATGGTAAAAATGTAATTTTTGG-AAAGTTTAGGGTCAAAAT
1 TTTA-GGGAAAAATGTAATTTTTGGAAAAATTTAGGGTAAAAAT
227768 ATTATTTTTA
Statistics
Matches: 136, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
56 34 0.25
57 39 0.29
58 24 0.18
59 37 0.27
60 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (57 bp):
TTTAGGGAAAAATGTAATTTTTGGAAAAATTTAGGGTAAAAATGGAATTTTGGAAAA
Found at i:227774 original size:29 final size:29
Alignment explanation
Indices: 227551--227776 Score: 192
Period size: 29 Copynumber: 7.8 Consensus size: 29
227541 TTTTATGAAG
*
227551 TTTAGGGGTAAAAATGTAATTTTTGGAAAAA
1 TTTA-GGGTAAAAATATAATTTTTGG-AAAA
* **
227582 TTCAGGGTAAAAATGGAA-TTTTGGAAAA
1 TTTAGGGTAAAAATATAATTTTTGGAAAA
* * *
227610 TTTAGGG-GAAAATGTAATTTTTGGAAAT
1 TTTAGGGTAAAAATATAATTTTTGGAAAA
* *
227638 TTTGGGGTCAAAATGA-AA-TTTTGGAAAA
1 TTTAGGGTAAAAAT-ATAATTTTTGGAAAA
* ** *
227666 TTTAGGGTAAAAATGTAATTTTTATAAAC
1 TTTAGGGTAAAAATATAATTTTTGGAAAA
**
227695 TTTAGGGTTAAAAATGGAA-TTTTGGAAAAA
1 TTTAGGG-TAAAAATATAATTTTTGG-AAAA
* * *
227725 TTTATGGTAAAAATGTAATTTTTGGAAAG
1 TTTAGGGTAAAAATATAATTTTTGGAAAA
* *
227754 TTTAGGGTCAAAATATTATTTTT
1 TTTAGGGTAAAAATATAATTTTT
227777 AGACAGTTCA
Statistics
Matches: 160, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
27 8 0.05
28 48 0.30
29 63 0.39
30 38 0.24
31 3 0.02
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (29 bp):
TTTAGGGTAAAAATATAATTTTTGGAAAA
Found at i:228837 original size:3 final size:3
Alignment explanation
Indices: 228831--228864 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
228821 TTTTTTTTGA
*
228831 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
228865 AAATTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 27 0.96
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:229757 original size:28 final size:26
Alignment explanation
Indices: 229688--229757 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 26
229678 TTTCAAATTT
*
229688 TAAATTTAAAATAAATTTAAACTTAA
1 TAAATTTAAAATAAATCTAAACTTAA
*
229714 TAAATTTAAAAAATAACTCTAAACTTAGAA
1 TAAATTT--AAAATAAATCTAAACTT--AA
*
229744 TAAATTTAATATAA
1 TAAATTTAAAATAA
229758 GGATTTGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.19
28 21 0.57
30 9 0.24
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (26 bp):
TAAATTTAAAATAAATCTAAACTTAA
Found at i:231012 original size:31 final size:31
Alignment explanation
Indices: 230972--231030 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
230962 GTGTCATTTA
* *
230972 TATTTGAGTTAAACCGAAAAACTTGATTTTT
1 TATTCGAGTTAAACCGAAAAACTCGATTTTT
* * *
231003 TATTCGAGTTGATCCGAATAACTCGATT
1 TATTCGAGTTAAACCGAAAAACTCGATT
231031 AACTCAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTCGATTTTT
Found at i:240179 original size:4 final size:4
Alignment explanation
Indices: 240168--240196 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
240158 TATTTTTATT
240168 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
240197 TAACCAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:242388 original size:30 final size:30
Alignment explanation
Indices: 242334--242407 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
242324 AAAATATCAT
*
242334 AATTTAATAATTAT-TATTTCAAAAAAAAA
1 AATTTAATAATTTTATATTTCAAAAAAAAA
* * *
242363 AATTTAATAATTTTATATTTTAAAAATATA
1 AATTTAATAATTTTATATTTCAAAAAAAAA
*
242393 ATTTTAATAATTTTA
1 AATTTAATAATTTTA
242408 AAATCATTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 13 0.33
30 26 0.67
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTTAATAATTTTATATTTCAAAAAAAAA
Found at i:242395 original size:21 final size:23
Alignment explanation
Indices: 242369--242410 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
242359 AAAAAATTTA
242369 ATAATTTT-AT-ATTTTAAAAAT
1 ATAATTTTAATAATTTTAAAAAT
242390 ATAATTTTAATAATTTTAAAA
1 ATAATTTTAATAATTTTAAAA
242411 TCATTTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATTTTAATAATTTTAAAAAT
Found at i:248322 original size:21 final size:23
Alignment explanation
Indices: 248281--248329 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
248271 TTTGAGTTTG
248281 TTTAAAATTTTACATAAATATCTT
1 TTTAAAATTTTA-ATAAATATCTT
248305 TTTAAAATTTT-A-AAATATCTT
1 TTTAAAATTTTAATAAATATCTT
248326 TTTA
1 TTTA
248330 CAGTTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.52
22 1 0.04
24 11 0.44
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAAATTTTAATAAATATCTT
Found at i:248410 original size:29 final size:29
Alignment explanation
Indices: 248355--248411 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
248345 AAAATGTTTA
* *
248355 GAAAACTATGTTGTTTTCTTGACAATTTG
1 GAAAACTATGTTGTTTTCTTAAAAATTTG
*
248384 GAAAATTATGTTGTTTTCTTAAAAATTT
1 GAAAACTATGTTGTTTTCTTAAAAATTT
248412 ATCGATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (29 bp):
GAAAACTATGTTGTTTTCTTAAAAATTTG
Found at i:248571 original size:55 final size:55
Alignment explanation
Indices: 248494--248604 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
248484 AGAAAACGCG
248494 TCACGTAAGATGTGTTTTCTTCTTTCTCCTGAAAATACGTCTTACATGACGCGTT
1 TCACGTAAGATGTGTTTTCTTCTTTCTCCTGAAAATACGTCTTACATGACGCGTT
248549 TCACGTAAGATGTGTTTTCTTCTTTCTCCTGAAAATACGTCTTACATGACGCGTT
1 TCACGTAAGATGTGTTTTCTTCTTTCTCCTGAAAATACGTCTTACATGACGCGTT
248604 T
1 T
248605 TCTCTGGTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (55 bp):
TCACGTAAGATGTGTTTTCTTCTTTCTCCTGAAAATACGTCTTACATGACGCGTT
Found at i:250963 original size:2 final size:2
Alignment explanation
Indices: 250956--250989 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
250946 TTTTGGAGTC
*
250956 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
250990 GTTATTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:251341 original size:16 final size:16
Alignment explanation
Indices: 251320--251379 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
251310 TTTATTTAAA
251320 TAATATTTAAATTTAT
1 TAATATTTAAATTTAT
*
251336 TAATA-TTATAATATAT
1 TAATATTTA-AATTTAT
* *
251352 TAA-ATATAAATTTAAA
1 TAATATTTAAATTT-AT
*
251368 TAATTTTTAAAT
1 TAATATTTAAAT
251380 CAACCTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 8 0.24
16 20 0.59
17 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTTAAATTTAT
Found at i:262403 original size:34 final size:34
Alignment explanation
Indices: 262360--262428 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
262350 TATTATTCGA
262360 ATTATAAAAGAAAGGATTGTAGTTGTACAGGTTT
1 ATTATAAAAGAAAGGATTGTAGTTGTACAGGTTT
262394 ATTATAAAAGAAAGGATTGTAGTTGTACAGGTTT
1 ATTATAAAAGAAAGGATTGTAGTTGTACAGGTTT
262428 A
1 A
262429 CATATATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (34 bp):
ATTATAAAAGAAAGGATTGTAGTTGTACAGGTTT
Done.