Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 69 of 187
Found at i:20245259 original size:6 final size:6
Alignment explanation
Indices: 20245229--20245330 Score: 114
Period size: 6 Copynumber: 17.0 Consensus size: 6
20245219 GAGGCATGCT
* * * * *
20245229 CAGCAA CAGCAG CATCAG CAGCAA CAACAA CAGCAA CAGCGA CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
* * * * *
20245277 CAGCAA CAGCAA CAGCAA CAGCAA CAGCCA CAACAC CAGCAG CAGCAG
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
20245325 CAGCAA
1 CAGCAA
20245331 AGAGAAGGGA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.45, C:0.35, G:0.19, T:0.01
Consensus pattern (6 bp):
CAGCAA
Found at i:20266079 original size:10 final size:11
Alignment explanation
Indices: 20266064--20266124 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
20266054 CAACTAAATC
20266064 ATTTCTCTC-A
1 ATTTCTCTCAA
*
20266074 ATTTCTCTCTA
1 ATTTCTCTCAA
20266085 ATATTCTCTCAA
1 AT-TTCTCTCAA
*
20266097 ATTCCTCTCAA
1 ATTTCTCTCAA
*
20266108 ATTCCTCTCAA
1 ATTTCTCTCAA
*
20266119 TTTTCT
1 ATTTCT
20266125 ATTTAAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
10 9 0.20
11 26 0.58
12 10 0.22
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:20267954 original size:18 final size:18
Alignment explanation
Indices: 20267931--20267968 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20267921 AGATGATGCA
* *
20267931 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
20267949 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
20267967 GT
1 GT
20267969 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:20268447 original size:49 final size:49
Alignment explanation
Indices: 20268393--20268562 Score: 304
Period size: 49 Copynumber: 3.5 Consensus size: 49
20268383 GTTTATATTA
20268393 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
20268442 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
20268491 ATATAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
20268540 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
20268563 AATATTCTTA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 116 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:20271581 original size:105 final size:106
Alignment explanation
Indices: 20271392--20271709 Score: 566
Period size: 106 Copynumber: 3.0 Consensus size: 106
20271382 CGTGGGAGCG
* * * **
20271392 ATTTCAGAAATTCTTTTGATAAAGCATCCTGCTTAAAGCG-TTTTTATACTATTTGCTTTGAAAC
1 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
20271456 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
66 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
20271497 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
20271562 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
66 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
20271603 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
* *
20271668 GTCAACTCAAAATTATTTTTTCAGAACCTACTGTAGCAAAA
66 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
20271709 A
1 A
20271710 CTCATCCACG
Statistics
Matches: 205, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
105 37 0.18
106 168 0.82
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (106 bp):
ATTTCAGAAACTCTTTTGATAAAGCATCCTGCTTTAAGTGTTTTTTATACTATTTGCTCAGAAAC
GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAA
Found at i:20272446 original size:16 final size:17
Alignment explanation
Indices: 20272424--20272464 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
20272414 CTTTTGTAGG
*
20272424 ATTAATATATTAAAATT
1 ATTAATATATGAAAATT
*
20272441 -TTAATA-ATGAAATTT
1 ATTAATATATGAAAATT
20272456 ATTAATATA
1 ATTAATATA
20272465 ATTATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTAATATATGAAAATT
Found at i:20279277 original size:17 final size:17
Alignment explanation
Indices: 20279255--20279294 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
20279245 TTGGGCGAGT
20279255 TAATTTTTTTAAAATTA
1 TAATTTTTTTAAAATTA
20279272 TAATTTTTTTAAAATTA
1 TAATTTTTTTAAAATTA
20279289 T-ATTTT
1 TAATTTT
20279295 AAAAGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTTTTAAAATTA
Found at i:20289032 original size:18 final size:18
Alignment explanation
Indices: 20289009--20289063 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
20288999 GAGGGACGTG
20289009 GAGGGAGAGGACA-GGGGA
1 GAGGGAGAGGA-AGGGGGA
20289027 GAGGGAGAGGAAGGGGGA
1 GAGGGAGAGGAAGGGGGA
*
20289045 GAGGGAGAGGGAGGGGGA
1 GAGGGAGAGGAAGGGGGA
20289063 G
1 G
20289064 GTTCGGCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.31, C:0.02, G:0.67, T:0.00
Consensus pattern (18 bp):
GAGGGAGAGGAAGGGGGA
Found at i:20289064 original size:6 final size:6
Alignment explanation
Indices: 20289009--20289063 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
20288999 GAGGGACGTG
* * *
20289009 GAGGGA GA-GGA CAGGGGA GAGGGA GAGGAA GGGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GA-GGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
*
20289057 GGGGGA G
1 GAGGGA G
20289064 GTTCGGCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.10
6 32 0.80
7 4 0.10
ACGTcount: A:0.31, C:0.02, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:20290467 original size:2 final size:2
Alignment explanation
Indices: 20290460--20290485 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20290450 TCTCCTGTAA
20290460 AT AT 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
20290486 GATAAACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20291189 original size:26 final size:24
Alignment explanation
Indices: 20291147--20291228 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 24
20291137 ATATGGAAGG
20291147 ATATGCAATCTT---AGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
20291168 ATATGCAATCTTAGATATGATAT-AT
1 ATATGCAATCTTAGA-A-GATATGAT
*
20291193 ATA--CAAGCTTAGAAGATATGAT
1 ATATGCAATCTTAGAAGATATGAT
* *
20291215 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
20291229 GATTTAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
21 18 0.37
22 3 0.06
23 17 0.35
25 6 0.12
26 5 0.10
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (24 bp):
ATATGCAATCTTAGAAGATATGAT
Found at i:20291205 original size:23 final size:21
Alignment explanation
Indices: 20291147--20291192 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20291137 ATATGGAAGG
20291147 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
20291168 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
20291189 ATAT
1 ATAT
20291193 ATACAAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:20291674 original size:3 final size:3
Alignment explanation
Indices: 20291666--20291709 Score: 63
Period size: 3 Copynumber: 14.3 Consensus size: 3
20291656 ATTAATTTTG
20291666 TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA T
20291710 ACCTACATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:20292032 original size:52 final size:51
Alignment explanation
Indices: 20291970--20292069 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 51
20291960 CGTTTTAGAT
**
20291970 TATACTTATATATTTCATT-TTTTTGTAAATGCATGAATATATTTTATATGTA
1 TATACTTATAT-TTTCATTGTTTTCATAAATGCAT-AATATATTTTATATGTA
* * * *
20292022 TATATTTATATTTTCCTTGTTTTCATAAATGCATTATGTATTTTATAT
1 TATACTTATATTTTCATTGTTTTCATAAATGCATAATATATTTTATAT
20292070 ATGTATAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 18 0.44
52 23 0.56
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (51 bp):
TATACTTATATTTTCATTGTTTTCATAAATGCATAATATATTTTATATGTA
Found at i:20296579 original size:4 final size:4
Alignment explanation
Indices: 20296570--20296609 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
20296560 CACTTTGTAC
20296570 TAAA TAAA TAACA T--A TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAA-A TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
20296610 TAAGAGCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
4 29 0.88
5 2 0.06
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:20301184 original size:21 final size:23
Alignment explanation
Indices: 20301140--20301185 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
20301130 GAGGATATAC
*
20301140 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
20301163 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
20301184 AA
1 AA
20301186 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:20301366 original size:19 final size:21
Alignment explanation
Indices: 20301342--20301380 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
20301332 GTTTTCTTTT
*
20301342 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
20301361 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
20301381 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:20301609 original size:3 final size:3
Alignment explanation
Indices: 20301601--20301644 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
20301591 ATTAATTTTG
*
20301601 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTAA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA T
20301645 ACCTACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:20301609 original size:15 final size:15
Alignment explanation
Indices: 20301585--20301644 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
20301575 GTTTTTAGTC
20301585 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
20301599 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
20301614 TATTATTA-T-ATTA
1 TATTATTATTAATTT
20301627 TA-TATTATTAATTAT
1 TATTATTATTAATT-T
20301642 TAT
1 TAT
20301645 ACCTACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
12 5 0.14
13 5 0.14
14 7 0.20
15 18 0.51
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:20303796 original size:14 final size:14
Alignment explanation
Indices: 20303773--20303809 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
20303763 TAAACGAAAC
20303773 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
20303786 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
20303800 -GAGAAA-AAAA
1 AGAGAAAGAAAA
20303810 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:20303803 original size:15 final size:13
Alignment explanation
Indices: 20303773--20303809 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
20303763 TAAACGAAAC
20303773 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
20303786 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
20303800 -GAGAA-AAAAA
1 AGAGAAGAAAAA
20303810 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:20305143 original size:18 final size:18
Alignment explanation
Indices: 20305117--20305151 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20305107 AAAAAGTATT
*
20305117 TTTAGAAAATTTAAAAAC
1 TTTAAAAAATTTAAAAAC
20305135 TTTAAAAAATTTAAAAA
1 TTTAAAAAATTTAAAAA
20305152 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTAAAAAATTTAAAAAC
Found at i:20305152 original size:9 final size:9
Alignment explanation
Indices: 20305077--20305152 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
20305067 AAAAAAGTAT
20305077 TTTAAAAATA
1 TTTAAAAA-A
*
20305087 TTT-TAAAA
1 TTTAAAAAA
*
20305095 TTAAAAAAA
1 TTTAAAAAA
*
20305104 TTAAAAAAGTA
1 TTTAAAAA--A
*
20305115 TTTTTAGAAAA
1 --TTTAAAAAA
*
20305126 TTTAAAAAC
1 TTTAAAAAA
20305135 TTTAAAAAA
1 TTTAAAAAA
20305144 TTTAAAAAA
1 TTTAAAAAA
20305153 AGTATTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 39 0.74
10 3 0.06
11 2 0.04
13 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:20305172 original size:39 final size:37
Alignment explanation
Indices: 20305059--20305178 Score: 120
Period size: 39 Copynumber: 3.1 Consensus size: 37
20305049 AAATTAAAAC
*
20305059 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATA--TAAAAATT-A
*
20305099 AAAAATT-AAAAAAGTATTTTTAGAAAATTTAAAAACTTTA
1 AAAAATTAAAAAAAGTA-TTTTA-AAAATATAAAAA--TTA
*
20305139 AAAAATTTAAAAAAAGTATTTT-AAAATA-AAAAAATA
1 AAAAA-TTAAAAAAAGTATTTTAAAAATATAAAAATTA
20305175 AAAA
1 AAAA
20305179 TATTTATTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
36 6 0.09
38 5 0.07
39 19 0.27
40 18 0.26
41 13 0.19
42 9 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (37 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATAAAAATTA
Found at i:20307085 original size:33 final size:32
Alignment explanation
Indices: 20307040--20307264 Score: 123
Period size: 33 Copynumber: 6.8 Consensus size: 32
20307030 TAATGTTTAA
*
20307040 ATGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * *
20307072 ATGATAAGACCATAACTGGGTTATGACACTATAA
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCT-G
* * * *
20307106 ATGTAAGACCATGGCAGGGCCATGGCAATGCATG
1 ATGTAAGACCATAGCTGGGCTATGGC-ATTC-TG
* *
20307140 -TGTAAGACCATAGCTGAGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * *
20307171 ATGATAAGATCATAACTGGGTTTTGGCATTATAA
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCT-G
* * * *
20307205 ATGTAAGACTAT-GGTAGGGCCATGGCAATACATG
1 ATGTAAGACCATAGCT-GGGCTATGGC-ATTC-TG
* *
20307239 -TGTAAGACCATAGTTGGACTATGGCA
1 ATGTAAGACCATAGCTGGGCTATGGCA
20307265 CAAAAAGAAC
Statistics
Matches: 137, Mismatches: 45, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
31 2 0.01
32 10 0.07
33 112 0.82
34 11 0.08
35 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:20307146 original size:66 final size:66
Alignment explanation
Indices: 20307037--20307165 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 66
20307027 TGGTAATGTT
** * * * *
20307037 TAAATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACT
1 TAAATGTAAGACCATAGCAGGGCCATGGCATGCTGATGATAAGACCATAACTGAGCTATGACACT
20307102 A
66 A
* *
20307103 TAAATGTAAGACCATGGCAGGGCCATGGCAATGCATG-TG-TAAGACCATAGCTGAGCTATGACA
1 TAAATGTAAGACCATAGCAGGGCCATGGC-ATGC-TGATGATAAGACCATAACTGAGCTATGACA
20307166 TTCTGATGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 46 0.87
67 5 0.09
68 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (66 bp):
TAAATGTAAGACCATAGCAGGGCCATGGCATGCTGATGATAAGACCATAACTGAGCTATGACACT
A
Found at i:20307261 original size:99 final size:99
Alignment explanation
Indices: 20307041--20307261 Score: 336
Period size: 99 Copynumber: 2.2 Consensus size: 99
20307031 AATGTTTAAA
* *
20307041 TGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
1 TGTAAGACCATAGTTGGACTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
*
20307106 ATGTAAGACCATGGCAGGGCCATGGCAATGCATG
66 ATGTAAGACCATGGCAGGGCCATGGCAATACATG
* * * * *
20307140 TGTAAGACCATAGCT-GAGCTATGACATTCTGATGATAAGATCATAACTGGGTTTTGGCATTATA
1 TGTAAGACCATAGTTGGA-CTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATA
* *
20307204 AATGTAAGACTATGGTAGGGCCATGGCAATACATG
65 AATGTAAGACCATGGCAGGGCCATGGCAATACATG
20307239 TGTAAGACCATAGTTGGACTATG
1 TGTAAGACCATAGTTGGACTATG
20307262 GCACAAAAAG
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
98 1 0.01
99 106 0.97
100 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (99 bp):
TGTAAGACCATAGTTGGACTATGACATTCTGATGATAAGACCATAACTGGGTTATGACACTATAA
ATGTAAGACCATGGCAGGGCCATGGCAATACATG
Found at i:20307381 original size:24 final size:19
Alignment explanation
Indices: 20307336--20307374 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20307326 GACTTATGTG
20307336 ATTGAATTGAAAGATTTAT
1 ATTGAATTGAAAGATTTAT
20307355 ATTGAATTGAAAGATTTAT
1 ATTGAATTGAAAGATTTAT
20307374 A
1 A
20307375 GATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTGAATTGAAAGATTTAT
Found at i:20310618 original size:16 final size:17
Alignment explanation
Indices: 20310597--20310631 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20310587 ATCTAATAAT
20310597 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
20310613 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
20310630 TT
1 TT
20310632 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:20311017 original size:200 final size:200
Alignment explanation
Indices: 20310674--20311072 Score: 789
Period size: 200 Copynumber: 2.0 Consensus size: 200
20310664 CCTATATATA
20310674 TATTCAAACATTAATAATACATGTATATCATTCATACTTTATTTTATTTCAATCAATATGCCTTT
1 TATTCAAACATTAATAATACATGTATATCATTCATACTTTATTTTATTTCAATCAATATGCCTTT
20310739 AAATTTAAGTTCAACAAAATACAATACATTTACATACCTATATATCGATTTAACAACATTAAATA
66 AAATTTAAGTTCAACAAAATACAATACATTTACATACCTATATATCGATTTAACAACATTAAATA
*
20310804 GCTATTAGACTTACCTCGGATATCAGCGGACACGATCGACTACTCGACTACTTTCGTTTTTCCCC
131 GCTATTAGACTTACCTCGGATATCAGCGGACACGATCGACTACTCGACTACTTTCGTTTTCCCCC
20310869 GATCT
196 GATCT
20310874 TATTCAAACATTAATAATACATGTATATCATTCATACTTTATTTTATTTCAATCAATATGCCTTT
1 TATTCAAACATTAATAATACATGTATATCATTCATACTTTATTTTATTTCAATCAATATGCCTTT
20310939 AAATTTAAGTTCAACAAAATACAATACATTTACATACCTATATATCGATTTAACAACATTAAATA
66 AAATTTAAGTTCAACAAAATACAATACATTTACATACCTATATATCGATTTAACAACATTAAATA
20311004 GCTATTAGACTTACCTCGGATATCAGCGGACACGATCGACTACTCGACTACTTTCGTTTTCCCCC
131 GCTATTAGACTTACCTCGGATATCAGCGGACACGATCGACTACTCGACTACTTTCGTTTTCCCCC
20311069 GATC
196 GATC
20311073 CAATTCCGTT
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (200 bp):
TATTCAAACATTAATAATACATGTATATCATTCATACTTTATTTTATTTCAATCAATATGCCTTT
AAATTTAAGTTCAACAAAATACAATACATTTACATACCTATATATCGATTTAACAACATTAAATA
GCTATTAGACTTACCTCGGATATCAGCGGACACGATCGACTACTCGACTACTTTCGTTTTCCCCC
GATCT
Found at i:20320965 original size:3 final size:3
Alignment explanation
Indices: 20320959--20321019 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
20320949 TTTTACAGTA
20320959 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
20321007 TCT TCT TCT TCT T
1 TCT TCT TCT TCT T
20321020 TGTTATTAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:20325883 original size:19 final size:20
Alignment explanation
Indices: 20325846--20325883 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20325836 ACCTGAAAAT
* *
20325846 GCATTTTAATGACACTCAAA
1 GCATGTTAATGACAATCAAA
20325866 GCATGTTAA-GACAATCAA
1 GCATGTTAATGACAATCAA
20325884 CCTAAAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (20 bp):
GCATGTTAATGACAATCAAA
Found at i:20328719 original size:30 final size:29
Alignment explanation
Indices: 20328639--20328712 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
20328629 AATTCATGTC
*
20328639 GTCAAAATAATTTTTTTAGAACACATTAT
1 GTCAAAATTATTTTTTTAGAACACATTAT
* * *
20328668 GTTAAATTTATTTTTTTAGAACCCA-TATT
1 GTCAAAATTATTTTTTTAGAACACATTA-T
20328697 GTCAAAATTATTTTTT
1 GTCAAAATTATTTTTT
20328713 CCAGAACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (29 bp):
GTCAAAATTATTTTTTTAGAACACATTAT
Found at i:20350124 original size:16 final size:15
Alignment explanation
Indices: 20350087--20350125 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
20350077 CATTTCAAAC
20350087 TTAAATTTTTTAAAAT
1 TTAAA-TTTTTAAAAT
20350103 TATAAATTTTTAAAAT
1 T-TAAATTTTTAAAAT
20350119 ATTAAAT
1 -TTAAAT
20350126 AAAATTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATTTTTAAAAT
Found at i:20351340 original size:30 final size:30
Alignment explanation
Indices: 20351306--20351363 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20351296 AAACATTTTA
*
20351306 TTTTCCCCCAAAATTTTTACTCCCTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTCCCAC
* * *
20351336 TTTTCCCCTAAAACTTTTATTCTCTCCC
1 TTTTCCCCCAAAACTTTTACTCCCTCCC
20351364 CATCCCACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:20353523 original size:31 final size:31
Alignment explanation
Indices: 20353485--20353554 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
20353475 GTTTGCCCAC
20353485 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
20353516 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
*
20353547 TTCAGTCC
1 TTTAGTCC
20353555 TTTGGACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:20353654 original size:19 final size:18
Alignment explanation
Indices: 20353632--20353674 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
20353622 AAAACCCTTA
20353632 AAAATTGGAAAAAATTATT
1 AAAATTGGAAAAAATTA-T
*
20353651 AAAATAGGAAAAAATTAT
1 AAAATTGGAAAAAATTAT
20353669 AAAATT
1 AAAATT
20353675 ACAATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (18 bp):
AAAATTGGAAAAAATTAT
Found at i:20353925 original size:15 final size:16
Alignment explanation
Indices: 20353887--20353925 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
20353877 TACATAATGA
*
20353887 AAATAAT-ATTATTTC
1 AAATAATAATCATTTC
20353902 AAATAATAATCATTT-
1 AAATAATAATCATTTC
20353917 AAATAATAA
1 AAATAATAA
20353926 ATACCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATAATCATTTC
Found at i:20355614 original size:72 final size:72
Alignment explanation
Indices: 20355501--20355636 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
20355491 TCGGGTTTAG
* *
20355501 AAAATGGGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
20355566 TGGGAAA
66 TGGGAAA
* *
20355573 AAAATGGATCATACCCAGTAAGTTAGGACACGAT-TTCTTCTTAATTCCCGGGGTCGTTTAAAAC
1 AAAATGGATCATACCCAGTAAGTTAGGACACGATCTT-TTCTTAATTCCCGAGATCGTTTAAAAC
20355637 ATGAGTTTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (72 bp):
AAAATGGATCATACCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAACT
TGGGAAA
Found at i:20356044 original size:25 final size:26
Alignment explanation
Indices: 20356016--20356070 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
20356006 AAAGAGATAT
20356016 ATATGTATATAGATATAAATTA-AAA
1 ATATGTATATAGATATAAATTATAAA
* * *
20356041 ATATGTATGTATATATGAATTATAAA
1 ATATGTATATAGATATAAATTATAAA
20356067 ATAT
1 ATAT
20356071 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (26 bp):
ATATGTATATAGATATAAATTATAAA
Found at i:20357779 original size:20 final size:19
Alignment explanation
Indices: 20357756--20357802 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
20357746 GTAAATTTTA
20357756 GTATTTTTATAATGTTTATT
1 GTATTTTTATAAT-TTTATT
*
20357776 GTATTTTTATAATTTTTTT
1 GTATTTTTATAATTTTATT
*
20357795 CTATTTTT
1 GTATTTTT
20357803 TCCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (19 bp):
GTATTTTTATAATTTTATT
Found at i:20357803 original size:20 final size:20
Alignment explanation
Indices: 20357757--20357802 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
20357747 TAAATTTTAG
*
20357757 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
*
20357777 TATTTTTATAAT-TTTTTTC
1 TATTTTTATAATGTTTATTC
20357796 TATTTTT
1 TATTTTT
20357803 TCCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:20357820 original size:18 final size:19
Alignment explanation
Indices: 20357799--20357840 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20357789 TTTTTTCTAT
20357799 TTTTTCCTAA-TTTTAAA-A
1 TTTTTCC-AATTTTTAAATA
*
20357817 TTTTTGCAATTTTTAAATA
1 TTTTTCCAATTTTTAAATA
20357836 TTTTT
1 TTTTT
20357841 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTCCAATTTTTAAATA
Found at i:20358977 original size:114 final size:114
Alignment explanation
Indices: 20358773--20359095 Score: 533
Period size: 114 Copynumber: 2.9 Consensus size: 114
20358763 TAAGATGTTT
*
20358773 GGGCATAACATGAATCATTTGAAGATGGATAAGTCATCT--AGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
20358836 ATACTATAAACATATCTCATTCACCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*
20358885 GGGCATAACATGAATCATTTAAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
20358950 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
66 ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
*** * * *
20358999 ATTCATAACATGAACCATTTGAAGATGGATAGGTAATCTAGAGAGAGGATCTATCACTCAAACTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
*
20359064 ATACTATAAACATATCTCATTCGCTATGGTTA
66 ATACTATAAACATATCTCATTCGCCATGGTTA
20359096 CTTTAACCAG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 37 0.19
114 159 0.81
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (114 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTG
ATACTATAAACATATCTCATTCGCCATGGTTAATTTGATCAATACTTTG
Found at i:20360330 original size:20 final size:20
Alignment explanation
Indices: 20360305--20360344 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20360295 ATATACATTT
20360305 TACAAAATGGTTGAATATGG
1 TACAAAATGGTTGAATATGG
* *
20360325 TACAAAGTGGTTTAATATGG
1 TACAAAATGGTTGAATATGG
20360345 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (20 bp):
TACAAAATGGTTGAATATGG
Found at i:20371920 original size:110 final size:110
Alignment explanation
Indices: 20371738--20372033 Score: 421
Period size: 110 Copynumber: 2.7 Consensus size: 110
20371728 GTTAAACGAG
* * * * ** * * ** *
20371738 AAATCGAAACCCAGCACCTTAGGGTACGTTTCCTTAAATTTCCAAACGCAAAATATTATCTTACT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* * *
20371803 TCGAAATTTTTAAAAAGGGTATTTAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
20371848 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
* *
20371913 TTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
66 TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
*
20371958 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAAAGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
*
20372023 TGAAAATTTTT
66 TCAAAATTTTT
20372034 GTTTTTTGAA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 167 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCAAAACATTGCCTTATT
TCAAAATTTTTAAAAAGGATATTAAGCCATTTGGTTGAATGAGAA
Found at i:20372241 original size:22 final size:23
Alignment explanation
Indices: 20372189--20372241 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
20372179 AAATGGACAT
*
20372189 ATAAAT-AAACACATAAATGAAC
1 ATAAATGAAACACATAAATGAAA
20372211 ATAAA-GAAACA-ATAAA-GAAAA
1 ATAAATGAAACACATAAATG-AAA
20372232 ATAAATGAAA
1 ATAAATGAAA
20372242 ATTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 14 0.52
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.15
Consensus pattern (23 bp):
ATAAATGAAACACATAAATGAAA
Found at i:20372539 original size:3 final size:3
Alignment explanation
Indices: 20372531--20372569 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
20372521 TAGATGAGGA
*
20372531 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AA
20372570 AAGATGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:20374208 original size:44 final size:43
Alignment explanation
Indices: 20374160--20374500 Score: 178
Period size: 44 Copynumber: 7.8 Consensus size: 43
20374150 AAAATTCACC
*
20374160 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * *
20374204 ATCTTCAA-CTTACTCCACTACTGCTTAGGGAGATAGGA-C-TA
1 ATCTTCAATC-TGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * *
20374245 ATAGCTTAAATCTGCTTCTA-TACTG-TATTGGGA-AGATAATAGTCA
1 AT--CTTCAATCTGC-TCCACTACTGCT-TAGGGAGACAGAATCGT-A
* * * *
20374290 CCATCTTCGATTTGCTCCACTATTGCTTAGGGAGACAGAATCTGCA
1 --ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* * * *
20374336 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA-C-TA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
* * * * * * * ***
20374377 ATGGCTTAAATATGCTTCTCCACTGCATT-GGGAAGATAAGATTCACC
1 AT--CTTCAATCTGCTCCACTACTGC-TTAGGG-AGA-CAGAATCGTA
** *
20374424 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATC-GTA
* *
20374468 ATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
20374501 TAGGACTAAT
Statistics
Matches: 217, Mismatches: 56, Indels: 48
0.68 0.17 0.15
Matches are distributed among these distances:
41 7 0.03
42 4 0.02
43 43 0.20
44 111 0.51
45 39 0.18
46 8 0.04
47 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGAATCGTA
Found at i:20374614 original size:132 final size:132
Alignment explanation
Indices: 20374139--20374566 Score: 721
Period size: 132 Copynumber: 3.2 Consensus size: 132
20374129 TCCCTACTAC
* *
20374139 ATTGGGAAGATAAAATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* * **
20374204 ATCTTCAACTTACTCCACTACTGCTTAGGGAGATAGGACTAATAGCTTAAATCTGCTTCTATACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
20374269 GT
131 GT
* * * *
20374271 ATTGGGAAGATAATAGTCACCATCTTCGATTTGCTCCACTATTGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
20374336 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATATGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
*
20374401 GC
131 GT
*
20374403 ATTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
20374468 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
20374533 GT
131 GT
**
20374535 ATTGGGAAGATAAGATTTGCCATCTTCGATCT
1 ATTGGGAAGATAAGATTCACCATCTTCGATCT
20374567 ACCCCACAGC
Statistics
Matches: 275, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 275 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
ATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
GT
Found at i:20374896 original size:41 final size:41
Alignment explanation
Indices: 20374826--20374982 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 41
20374816 GCTTACTCAG
* * *
20374826 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGA
1 TCTGCTCTACTGCAACTTCAGAGAAATAAGACTGGATGTGA
* * * * *
20374867 TCTACTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAA
1 TCTGCTCTACTGCAACTTCAGAGAAATAAGA---CTGGATGTGA
* * * *
20374911 TCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGA
1 TCTGCTCTACTGCAACTTCAGAGAAATAAGACTGGATGTGA
20374952 TCTGCTCTACTGCAACTTCAGAGAAATAAGA
1 TCTGCTCTACTGCAACTTCAGAGAAATAAGA
20374983 TTTGTGGTTT
Statistics
Matches: 92, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 60 0.65
44 32 0.35
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
TCTGCTCTACTGCAACTTCAGAGAAATAAGACTGGATGTGA
Found at i:20374928 original size:44 final size:44
Alignment explanation
Indices: 20374826--20375502 Score: 254
Period size: 44 Copynumber: 15.7 Consensus size: 44
20374816 GCTTACTCAG
* * * * *
20374826 TCTGCTCCACTGCAACTTCAGGGAGATAAGA---CTGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * *
20374867 TCTACTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * * * * *
20374911 TCCGCTCCACTGCAACTTCAGGGAGATAAGA---CTGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* *
20374952 TCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * ** * **
20374996 TCCGCTCCACTGCAACTTCAGTA-AGATAGGATTAAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAG-AGAGATAAGATTTGTGGT-TTTAA
* * **
20375040 TCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG-----A
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TG-GTTTTAA
* * * *
20375081 TCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * * * * * **
20375125 TCCGCTCCATTGTC-ACTTCAGGGAGATAGGATTTAT-TTCTTTCG
1 TCTGCTCCACTG-CAACTTCAGAGAGATAAGATTTGTGGT-TTTAA
* * * * * * *
20375169 TCTGCTCCACTACAACTTTAGGGAGATAAGA---CTGGATGTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * * *
20375210 TCTGCTCTACTGCAACTTCAGAGAAATAAGATCTATGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
** * ** * **
20375254 TCCACTCCACTGCAACTTCAG-GAAGATAGGATTAAT-TTCTTTCG
1 TCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGTGGT-TTTAA
* * * ** * ***
20375298 TCTGCTCCACTGTAACCTCAGGGAGATAAGA--CCT-GATACGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * * *
20375339 TCTGCTCTACTGTAACTTCAGAGAGATGAGATCCTT-T-ATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT--TTGTGGTTTTAA
* * * * ** * * *
20375383 TCCGCTCCACTGTAACTTCAAAGAGATAGGATTACTAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
* * * * * * * *
20375427 TCTACTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAA
1 TCTGCTCCACTGCAACT-TCAGAGAGATAAGATTTGTGGTTTTAA
* * *
20375471 TCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
20375503 AGTGTCTTGG
Statistics
Matches: 467, Mismatches: 134, Indels: 67
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 148 0.32
42 2 0.00
43 8 0.02
44 303 0.65
45 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAA
Found at i:20375023 original size:85 final size:85
Alignment explanation
Indices: 20374829--20375281 Score: 377
Period size: 85 Copynumber: 5.3 Consensus size: 85
20374819 TACTCAGTCT
* *
20374829 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAGAAAT
1 GCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
20374894 AAGATTTGTGGTTTTAATCC
66 AAGATTTGTGGTTTTAATCC
*
20374914 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
1 GCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
20374979 AAGATTTGTGGTTTTAATCC
66 AAGATTTGTGGTTTTAATCC
* * ** * * * *
20374999 GCTCCACTGCAACTTCAGTAAGATAGGA-TTAATTTCTTTCG-TCTGCTCCACTGTAACCTCAGA
1 GCTCCACTGCAACTTCAGGAAGATAAGACTGGA----TGT-GATCTGCTCTACTGCAACTTCAGA
* ** *
20375062 GAGATAAGACCTGATGCG-----ATCT
61 GAAATAAGATTTG-TG-GTTTTAATCC
* * * * * * * * * *
20375084 ACTCTACTGTAACTTCA-GAGAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTC-ACTTCAGG
1 GCTCCACTGCAACTTCAGGA-AGATAAGA-C--TGGATGTGATCTGCTCTACTG-CAACTTCAGA
* * * * ** *
20375147 GAGATAGGATTTAT-TTCTTTCGTCT
61 GAAATAAGATTTGTGGT-TTTAATCC
* * *
20375172 GCTCCACTACAACTTTAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
1 GCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
* *
20375237 AAGATCTATGGTTTTAATCC
66 AAGATTTGTGGTTTTAATCC
*
20375257 ACTCCACTGCAACTTCAGGAAGATA
1 GCTCCACTGCAACTTCAGGAAGATA
20375282 GGATTAATTT
Statistics
Matches: 287, Mismatches: 58, Indels: 46
0.73 0.15 0.12
Matches are distributed among these distances:
84 5 0.02
85 220 0.77
86 1 0.00
87 1 0.00
88 54 0.19
89 5 0.02
90 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
AAGATTTGTGGTTTTAATCC
Found at i:20375047 original size:129 final size:129
Alignment explanation
Indices: 20374914--20375416 Score: 683
Period size: 129 Copynumber: 3.9 Consensus size: 129
20374904 GTTTTAATCC
* *
20374914 GCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAA
1 GCTCCACTGCAACCTCAGGGAGATAAGACCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAAA
* *
20374978 TAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTAAGATAGGATTAATTTCTTTCGTCT
65 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
* * * * *
20375043 GCTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
1 GCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTCAGAGAAAT
* * *
20375108 AAGATCTGTGGTTTTAATCCGCTCCATTGTC-ACTTCAGGGAGATAGGATTTATTTCTTTCGTCT
66 AAGATCTGTGGTTTTAATCCGCTCCACTG-CAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
* * * *
20375172 GCTCCACTACAACTTTAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAA
1 GCTCCACTGCAACCTCAGGGAGATAAGACCT-GATGCGATCTGCTCTACTGCAACTTCAGAGAAA
* *
20375236 TAAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
65 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
* * * *
20375301 GCTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGAT
1 GCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTCAGAGAAAT
* ** * *
20375366 GAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCA-AAGAGATAGGATTA
66 AAGAT-CTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGA-AGATAGGATTA
20375417 CTAGCTTCAA
Statistics
Matches: 327, Mismatches: 40, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
128 4 0.01
129 316 0.97
130 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
GCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTCAGAGAAAT
AAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCT
Found at i:20375224 original size:214 final size:212
Alignment explanation
Indices: 20374825--20375230 Score: 489
Period size: 214 Copynumber: 1.9 Consensus size: 212
20374815 TGCTTACTCA
* * *
20374825 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTACTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAG
*
20374890 AAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCT
66 AAATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCT
* * * * *
20374955 GCTCTACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTAA
131 GCTCCACTACAACTTCAGAGAAATAAGA--TCTGGATGTAATCCGCTCCACTGCAACTTCAGTAA
20375020 GATAGGATTAATTTCTTTC
194 GATAGGATTAATTTCTTTC
* *
20375039 GTCTGCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGA
1 GTCTGCTCCACTGCAACCTCAGAGAGATAAGA-CTGGATGCGATCTACTCTACTGCAACTTCAGA
* * * ** *
20375103 GAGATAAGATCTGTGGTTTTAATCCGCTCCATTGTC-ACTTCAGGGAGATAGGA-TTTATTTCTT
65 GAAATAAGATCTGTGGTTTTAATCCGCTCCACTG-CAACTTCAGGGAGATAAGACTGGA----TG
* * * * * *
20375166 TCG-TCTGCTCCACTACAACTTTAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTC
125 T-GATCTGCTCCACTACAACTTCAGAGAAATAAGATCTGGATGTAATCCGCTCCACTGCAACTTC
20375229 AG
189 AG
20375231 AGAAATAAGA
Statistics
Matches: 162, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
213 2 0.01
214 128 0.79
215 3 0.02
217 28 0.17
218 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (212 bp):
GTCTGCTCCACTGCAACCTCAGAGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAG
AAATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCT
GCTCCACTACAACTTCAGAGAAATAAGATCTGGATGTAATCCGCTCCACTGCAACTTCAGTAAGA
TAGGATTAATTTCTTTC
Found at i:20375264 original size:258 final size:258
Alignment explanation
Indices: 20374914--20375415 Score: 844
Period size: 258 Copynumber: 1.9 Consensus size: 258
20374904 GTTTTAATCC
*
20374914 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
1 GCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
* * * *
20374979 AAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTAAGATAGGATTAATTTCTTTCGTCTG
66 AAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCTG
*
20375044 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATA
131 CTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* * * **
20375109 AGAT-CTGTGGTTTTAATCCGCTCCATTGTCACTTCAGGGAGATAGGATTTATTTCTTTCGTCT
196 AGATCCT-TGATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATTTATTTCTTTCGTCT
*
20375172 GCTCCACTACAACTTTAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
1 GCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
20375237 AAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCTG
66 AAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCTG
* * *
20375302 CTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAGAGATG
131 CTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
*
20375367 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATT
196 AGATCCTTGATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATT
20375416 ACTAGCTTCA
Statistics
Matches: 227, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
258 225 0.99
259 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (258 bp):
GCTCCACTACAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAAT
AAGATCTATGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTAATTTCTTTCGTCTG
CTCCACTGTAACCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTGATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATTTATTTCTTTCGTCT
Found at i:20375440 original size:129 final size:130
Alignment explanation
Indices: 20374914--20375502 Score: 674
Period size: 129 Copynumber: 4.5 Consensus size: 130
20374904 GTTTTAATCC
* * * * *
20374914 GCTCCACTGCAACTTCAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAA
1 GCTCCACTGTAACCTCAGGGAGATAAGACCTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGA
* * *
20374978 TAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGTA-AGATAGGATTAATTTCTTTCGTC
66 TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCA-AAGAGATAGGATTAATTTCTTTCGTC
20375042 T
130 T
* *
20375043 GCTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 GCTCCACTGTAACCTCAGGGAGATAAGACCTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGA
* * ** *
20375107 TAAGATCTGTGGTTTTAATCCGCTCCATTGTC-ACTTCAGGGAGATAGGATTTATTTCTTTCGTC
66 TAAGATCTATGGTTTTAATCCGCTCCACTG-CAACTTCAAAGAGATAGGATTAATTTCTTTCGTC
20375171 T
130 T
** * * * * *
20375172 GCTCCACTACAACTTTAGGGAGATAAGA-CTGGATGTGATCTGCTCTACTGCAACTTCAGAGAAA
1 GCTCCACTGTAACCTCAGGGAGATAAGACCTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGA
* *
20375236 TAAGATCTATGGTTTTAATCCACTCCACTGCAACTTC-AGGAAGATAGGATTAATTTCTTTCGTC
66 TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCAAAG-AGATAGGATTAATTTCTTTCGTC
20375300 T
130 T
*
20375301 GCTCCACTGTAACCTCAGGGAGATAAGACCT-GATACGATCTGCTCTACTGTAACTTCAGAGAGA
1 GCTCCACTGTAACCTCAGGGAGATAAGACCTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGA
* ** * * ** *
20375365 TGAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATTACTAGC-TTCAAT
66 TAAGAT-CTATGGTTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTAATTTCTTTC-GT
20375428 CT
129 CT
* * * * * * * * *
20375430 ACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCACTGTAACCTCAGGGAGATAAGA-C-CTGGATGCGATCTGCTCTACTGTAACTTCAGAGA
20375495 GATAAGAT
64 GATAAGAT
20375503 AGTGTCTTGG
Statistics
Matches: 393, Mismatches: 54, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
128 8 0.02
129 341 0.87
130 10 0.03
131 2 0.01
132 32 0.08
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (130 bp):
GCTCCACTGTAACCTCAGGGAGATAAGACCTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGA
TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCAAAGAGATAGGATTAATTTCTTTCGTCT
Found at i:20375541 original size:87 final size:87
Alignment explanation
Indices: 20375426--20375591 Score: 226
Period size: 89 Copynumber: 1.9 Consensus size: 87
20375416 ACTAGCTTCA
* * *
20375426 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCGCTGTAATCTCAGGGAGATAAAATCTAAT-GCTTCAATCTACTCCACTGTAACCTC
20375490 AGGGAGATAAGATAGTGTCTTGG
65 AGGGAGATAAGATAGTGTCTTGG
* * ** *
20375513 ATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCTACTGTAACCT
1 ATCTACTCCGCTGTAATCTCAGGGAGATAAAATCT--AATGCTTCAATCTACTCCACTGTAACCT
20375578 CAGGGAGATAAGAT
64 CAGGGAGATAAGAT
20375592 CTGAAATTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 33 0.49
89 34 0.50
90 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (87 bp):
ATCTACTCCGCTGTAATCTCAGGGAGATAAAATCTAATGCTTCAATCTACTCCACTGTAACCTCA
GGGAGATAAGATAGTGTCTTGG
Found at i:20375582 original size:46 final size:45
Alignment explanation
Indices: 20375257--20375944 Score: 358
Period size: 44 Copynumber: 15.7 Consensus size: 45
20375247 GTTTTAATCC
* * * *
20375257 ACTCCACTGCAACTTCAGGAAGATAGGAT-T-AATTTCTTTCG-TCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAA-TTC-TTCGATCT
* * *
20375301 GCTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TACGATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCT
* * * * * ** * *
20375342 GCTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT-TT-AATCC
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTTCGATCT
* * ** * * * *
20375386 GCTCCACTGTAACTTCAAAGAGATAGGAT-T-ACTAGCTTCAATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCT
* * * * *
20375430 ACTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCT
* * *
20375474 GCTCCACTGTAACCTCAGGGAGATAAGA--T-AGTGTCTTGGATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCT
* * * * *
20375517 GCTCCGCTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCT
* *
20375563 ACTCTACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCT
* * * *
20375609 ACTCCACTGTAACCTCAGGGAGAAAAGACCTG-A---TGCGATAT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCT
** * * * *
20375650 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTG-ATT-TT-AATCC
1 ACTCCACTGTAACCTCAGGGAGATAAGAT-C-TGAATTCTTCGATCT
* * * * *
20375694 ACTCCACTGTAATCTTAGGGAGATAGGAT-T-ACTATCTTCAATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCT
* * * * * * *
20375738 GCTCCGCTGTAATCTCATGGAGATAAGATCT--CTGGCTTCAATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCT
* * *
20375782 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCT
* * * * *
20375828 ACTCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCT
* *
20375874 ACTCCACTGTAACCTCAGGGAGATAAGACCTG-A---TGCGATCT
1 ACTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCT
* * **
20375915 ACTCTACTGTAACTTCAGAAAGATAAGATC
1 ACTCCACTGTAACCTCAGGGAGATAAGATC
20375945 CTTGATTTTA
Statistics
Matches: 508, Mismatches: 108, Indels: 59
0.75 0.16 0.09
Matches are distributed among these distances:
40 3 0.01
41 89 0.18
42 6 0.01
43 42 0.08
44 207 0.41
45 7 0.01
46 151 0.30
47 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
ACTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCT
Found at i:20375681 original size:308 final size:308
Alignment explanation
Indices: 20375297--20375906 Score: 913
Period size: 308 Copynumber: 2.0 Consensus size: 308
20375287 AATTTCTTTC
* * * *
20375297 GTCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTGCTCTACTGTAACTTCAGAG
1 GTCTACTCCACTGTAACCTCAGGGAGAAAAGACCTGATACGATATACTCTACTGTAACTTCAGAG
* * *
20375362 AGATGAGATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAAAGAGATAGGATTACTAGCTTCA
66 AGATAAGATCCTTGATTTTAATCCACTCCACTGTAATCTT-AAAGAGATAGGATTACTAGCTTCA
20375426 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
130 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
* * * *
20375491 GGGAGATAAGATAGTG-TCTT-GGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAAATCTGAAAT
195 GGGAGATAAGAT-CTGATCTTCGG-TCTACTCCACTGTAACT-TCAGAGAGATAAAATCTGAAAT
* *
20375553 TCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
257 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCG
* *
20375605 GTCTACTCCACTGTAACCTCAGGGAGAAAAGACCTGATGCGATATACTCTGCTGTAACTTCAGAG
1 GTCTACTCCACTGTAACCTCAGGGAGAAAAGACCTGATACGATATACTCTACTGTAACTTCAGAG
** *
20375670 AGATAAGATCCTTGATTTTAATCCACTCCACTGTAATCTTAGGGAGATAGGATTACTATCTTCAA
66 AGATAAGATCCTTGATTTTAATCCACTCCACTGTAATCTTAAAGAGATAGGATTACTAGCTTCAA
* *
20375735 TCTGCTCCGCTGTAATCTCATGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
131 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
* ** *
20375800 GGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGGTTTGAAATT
196 GGAGATAAGATCTG--A-TCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAAATCTGAAATT
20375865 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
258 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGA
20375907 TGCGATCTAC
Statistics
Matches: 271, Mismatches: 24, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
307 2 0.01
308 188 0.69
309 3 0.01
311 75 0.28
312 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (308 bp):
GTCTACTCCACTGTAACCTCAGGGAGAAAAGACCTGATACGATATACTCTACTGTAACTTCAGAG
AGATAAGATCCTTGATTTTAATCCACTCCACTGTAATCTTAAAGAGATAGGATTACTAGCTTCAA
TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGATCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAAATCTGAAATTCTT
CGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCG
Found at i:20375748 original size:44 final size:44
Alignment explanation
Indices: 20375695--20376036 Score: 169
Period size: 44 Copynumber: 7.8 Consensus size: 44
20375685 TTTTAATCCA
* * *
20375695 CTCCACTGTAATCTTAGGGAGATAGGAT-TACTATCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CTAGCTTCAATCTG
* * *
20375739 CTCCGCTGTAATCTCATGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTG
* ** ** ** *
20375783 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CTA-GCTTCAATCTG
* * * ** * ** *
20375829 CTCCACTGTAA-CTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCT-CTA-GCTTCAATCTG
* * * * *
20375875 CTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTG
* ** * * * *
20375916 CTCTACTGTAA-CTTCAGAAAGATAAGATC-CTTGATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTAG-CTTCAATCTG
* * * **
20375960 CTCCACTGTAATCTCAAGGAGATAGGAT-TATTATATTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CTAGCTTCAATCTG
* *
20376004 CTCCGCTGTAATCTCAAGGAGATAAGATCTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTA
20376037 ATATTCACTG
Statistics
Matches: 232, Mismatches: 53, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.00
41 29 0.12
42 3 0.01
43 1 0.00
44 123 0.53
45 5 0.02
46 69 0.30
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTG
Found at i:20375864 original size:265 final size:265
Alignment explanation
Indices: 20375425--20376035 Score: 911
Period size: 265 Copynumber: 2.3 Consensus size: 265
20375415 TACTAGCTTC
* * * ** * *
20375425 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCT
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGCTGTAATCT
* ** * ** * *
20375489 CAGGGAGATAAGAT-AGTGTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAAATCTGAAAT
65 CAAGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAAT
* *
20375553 TCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTG
130 TCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTG
* *
20375618 TAACCTCAGGGAGAAAAGACCTGATGCGATATACTCTGCTGTAACTTCAGAGAGATAAGATCCTT
195 TAACCTCAGGGAGAAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTT
20375683 GATTTT
260 GATTTT
*
20375689 AATCCACTCCACTGTAATCTTAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
* *
20375754 ATGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
66 AAGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAATT
* * * *
20375819 TTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGGTTTGAAATTCTTCGGTCTACTCCACTGT
131 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
* *
20375884 AACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTG
196 AACCTCAGGGAGAAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTG
20375949 ATTTT
261 ATTTT
* * * *
20375954 AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTATTATATTCAATCTGCTCCGCTGTAATCTC
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
20376019 AAGGAGATAAGATCTCT
66 AAGGAGATAAGATCTCT
20376036 AATATTCACT
Statistics
Matches: 312, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
263 1 0.00
264 67 0.21
265 244 0.78
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (265 bp):
AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
AAGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAATT
CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGAAAAGACCTGATGCGATATACTCTACTGTAACTTCAGAAAGATAAGATCCTTG
ATTTT
Found at i:20378266 original size:110 final size:109
Alignment explanation
Indices: 20378073--20378369 Score: 396
Period size: 110 Copynumber: 2.7 Consensus size: 109
20378063 TTCAAAAAAC
* * *
20378073 AAAAATTTTTCAAATAAGGCAATGTTTTGCTTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGCTTTGA-AAATTCGAGAAAACATGCCCTAAGGTGCT
* *
20378138 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
20378183 AAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGC-TTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
20378248 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
65 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
* ** * ** * * ** * * *
20378293 TAAAAATTTCGAAGTAAGATAATATTTTGCATTTGGAAATTTAAGGAAACGTACCCTAAGGTGCT
1 AAAAAATTTTAAAATAAGGCAATGTTTTGC-TTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
*
20378358 GGGTTTCGATTT
65 GGGTGTCGATTT
20378370 CTCGTTTAAC
Statistics
Matches: 166, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
110 162 0.98
111 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (109 bp):
AAAAAATTTTAAAATAAGGCAATGTTTTGCTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATACCCTTTT
Found at i:20379073 original size:22 final size:22
Alignment explanation
Indices: 20379037--20379097 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
20379027 GGCCTGGCCC
**
20379037 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATAAAAAAA
20379059 ATTTATTTTAAAAATTAAAAAAA
1 ATTTATTTTAAAAA-TAAAAAAA
**
20379082 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
20379098 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.27
23 24 0.73
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTATTTTAAAAATAAAAAAA
Found at i:20379109 original size:17 final size:17
Alignment explanation
Indices: 20379089--20379135 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
20379079 AAAAAGTATT
*
20379089 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
20379106 TTAAAAAAATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
20379123 ATAAATATATTTA
1 TTAAAAATATTTA
20379136 TTATATCGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:20380109 original size:18 final size:18
Alignment explanation
Indices: 20380061--20380109 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
20380051 TTAGTTTTAA
*
20380061 AATTTTAAAAATATTTTT
1 AATTTTAAAAATAATTTT
*
20380079 ATATTTT-ATAATAATTTT
1 A-ATTTTAAAAATAATTTT
20380097 AATTTTAAAAATA
1 AATTTTAAAAATA
20380110 TATATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 16 0.62
19 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTTAAAAATAATTTT
Found at i:20394259 original size:108 final size:108
Alignment explanation
Indices: 20394070--20394289 Score: 413
Period size: 108 Copynumber: 2.0 Consensus size: 108
20394060 TCGAAAATTG
20394070 AGGGCCTCGAGGGTGAGCTCGTTATGTGTAGAGCTATTGTGGGTAAAGGGATATTGGTTTCGATC
1 AGGGCCTCGAGGGTGAGCTCGTTATGTGTAGAGCTATTGTGGGTAAAGGGATATTGGTTTCGATC
20394135 CCTAAGCAACATAAAATGGATATCCCCAAGTTGAAAGACTTTA
66 CCTAAGCAACATAAAATGGATATCCCCAAGTTGAAAGACTTTA
* *
20394178 AGGGCCTCGAGGGTGAGCTCGTTATGTGTAGAGCTGTTGTGGGTAAAGGGATGTTGGTTTCGATC
1 AGGGCCTCGAGGGTGAGCTCGTTATGTGTAGAGCTATTGTGGGTAAAGGGATATTGGTTTCGATC
*
20394243 CCTAAGCAACGTAAAATGGATATCCCCAAGTTGAAAGACTTTA
66 CCTAAGCAACATAAAATGGATATCCCCAAGTTGAAAGACTTTA
20394286 AGGG
1 AGGG
20394290 GATGATGTCC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (108 bp):
AGGGCCTCGAGGGTGAGCTCGTTATGTGTAGAGCTATTGTGGGTAAAGGGATATTGGTTTCGATC
CCTAAGCAACATAAAATGGATATCCCCAAGTTGAAAGACTTTA
Found at i:20396056 original size:7 final size:7
Alignment explanation
Indices: 20396044--20396068 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20396034 GATATATTTA
20396044 AAATCTG
1 AAATCTG
20396051 AAATCTG
1 AAATCTG
20396058 AAATCTG
1 AAATCTG
20396065 AAAT
1 AAAT
20396069 ACATTCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATCTG
Found at i:20405031 original size:56 final size:56
Alignment explanation
Indices: 20404945--20405056 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
20404935 TTAATTAGAT
* * *
20404945 GGCACCCATATGTAACTGCCTCAGCTCAAAATTTCTTGCCTAATCCAGCATTGGAC
1 GGCACCCATATGTAACTGCCTCAGCCCAAAATTCCTTGCCCAATCCAGCATTGGAC
*
20405001 GGCACGCATATGTAACTGCCTCAGCCCAAAATTCCTTGCCCAATCCAGCATTGGAC
1 GGCACCCATATGTAACTGCCTCAGCCCAAAATTCCTTGCCCAATCCAGCATTGGAC
20405057 AACATACATC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (56 bp):
GGCACCCATATGTAACTGCCTCAGCCCAAAATTCCTTGCCCAATCCAGCATTGGAC
Found at i:20406887 original size:18 final size:18
Alignment explanation
Indices: 20406864--20406898 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20406854 AACTAATGTA
20406864 TATGTGAATAGTATCGTC
1 TATGTGAATAGTATCGTC
*
20406882 TATGTGAATAGTGTCGT
1 TATGTGAATAGTATCGT
20406899 GGATGAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TATGTGAATAGTATCGTC
Found at i:20416014 original size:22 final size:22
Alignment explanation
Indices: 20415972--20416015 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20415962 AAAAAAGTAT
* *
20415972 AAATTAATTAAAAATTTTAAAA
1 AAATTAATTAAAAAGTATAAAA
*
20415994 AAATTATTTAAAAAGTATAAAA
1 AAATTAATTAAAAAGTATAAAA
20416016 TTATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTAATTAAAAAGTATAAAA
Found at i:20418164 original size:15 final size:14
Alignment explanation
Indices: 20418143--20418178 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
20418133 ATAATCCTTA
*
20418143 ATAATTATCTTAAT
1 ATAATTATCCTAAT
20418157 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
20418172 ATAATTA
1 ATAATTA
20418179 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:20418777 original size:22 final size:22
Alignment explanation
Indices: 20418726--20418783 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
20418716 TTATCATAAT
*
20418726 TTATTTATAAAAAAAACTTTTA
1 TTATTTATAAAAAAAACTTATA
** *
20418748 AAAGTTATAGAAAAAAA-TTATA
1 TTATTTATA-AAAAAAACTTATA
20418770 TTATTTATAAAAAA
1 TTATTTATAAAAAA
20418784 GTGTTATAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
TTATTTATAAAAAAAACTTATA
Found at i:20422795 original size:26 final size:25
Alignment explanation
Indices: 20422758--20422807 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
20422748 TAAGTTTTTT
20422758 TAGAAAATTATAAAAATTAAAATTA
1 TAGAAAATTATAAAAATTAAAATTA
20422783 TAGAAATATTATAAAAATTAAAATT
1 TAGAAA-ATTATAAAAATTAAAATT
20422808 CACTACTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
TAGAAAATTATAAAAATTAAAATTA
Found at i:20422878 original size:10 final size:10
Alignment explanation
Indices: 20422865--20422899 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
20422855 TCTATATTAT
20422865 TTTTTATAAC
1 TTTTTATAAC
20422875 TTTTTATAAC
1 TTTTTATAAC
20422885 TTTTTATAA-
1 TTTTTATAAC
20422894 TTTTTA
1 TTTTTA
20422900 AAAATCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTATAAC
Found at i:20425891 original size:21 final size:21
Alignment explanation
Indices: 20425867--20425914 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
20425857 ATTTTCTTGT
*
20425867 TGCCTCAACTGCCCTTGCTGC
1 TGCCTCAACTGCCCTCGCTGC
* * *
20425888 TGCCTCTACTTCTCTCGCTGC
1 TGCCTCAACTGCCCTCGCTGC
20425909 TGCCTC
1 TGCCTC
20425915 TGCTTTAAGT
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:0.06, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
TGCCTCAACTGCCCTCGCTGC
Found at i:20440020 original size:22 final size:23
Alignment explanation
Indices: 20439995--20440043 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
20439985 TCATTTTGAT
*
20439995 AACTTTTTA-AACCTAAACCTTA
1 AACTTTTTAGAACCTAAACCCTA
*
20440017 AAC--TTTAGATCCTAAACCCTA
1 AACTTTTTAGAACCTAAACCCTA
20440038 AACTTT
1 AACTTT
20440044 AAACCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 3 0.14
23 1 0.05
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (23 bp):
AACTTTTTAGAACCTAAACCCTA
Found at i:20440046 original size:14 final size:14
Alignment explanation
Indices: 20440029--20440064 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
20440019 CTTTAGATCC
20440029 TAAACCCTAAACTT
1 TAAACCCTAAACTT
*
20440043 TAAACCTTAAACTT
1 TAAACCCTAAACTT
*
20440057 TGAACCCT
1 TAAACCCT
20440065 GAACCTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (14 bp):
TAAACCCTAAACTT
Found at i:20440053 original size:21 final size:20
Alignment explanation
Indices: 20440000--20440054 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
20439990 TTGATAACTT
*
20440000 TTTAAACCTAAACCTTAAAC
1 TTTAAACCTAAACCCTAAAC
*
20440020 TTTAGATCCTAAACCCTAAAC
1 TTTA-AACCTAAACCCTAAAC
20440041 TTTAAACCTTAAAC
1 TTTAAACC-TAAAC
20440055 TTTGAACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (20 bp):
TTTAAACCTAAACCCTAAAC
Found at i:20440112 original size:14 final size:14
Alignment explanation
Indices: 20440088--20440118 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20440078 AAGGTCCAAA
*
20440088 GTTTAAGGTCTAAG
1 GTTTAAAGTCTAAG
20440102 GTTTAAAGTCTAAG
1 GTTTAAAGTCTAAG
20440116 GTT
1 GTT
20440119 CAGGGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (14 bp):
GTTTAAAGTCTAAG
Found at i:20441659 original size:14 final size:14
Alignment explanation
Indices: 20441640--20441666 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20441630 CATAAGTTGT
20441640 ATTTATAATTTGAC
1 ATTTATAATTTGAC
20441654 ATTTATAATTTGA
1 ATTTATAATTTGA
20441667 TGAGTGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
ATTTATAATTTGAC
Found at i:20442222 original size:21 final size:23
Alignment explanation
Indices: 20442198--20442239 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20442188 TATTCTTTTT
*
20442198 TTAAAT-TAAGTAAA-AAAATTC
1 TTAAATCTAAATAAACAAAATTC
20442219 TTAAATCTAAATAAACAAAAT
1 TTAAATCTAAATAAACAAAAT
20442240 AAATTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAATCTAAATAAACAAAATTC
Found at i:20445097 original size:12 final size:12
Alignment explanation
Indices: 20445080--20445109 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20445070 TCATTTAATC
20445080 ATCAAGTTTTTA
1 ATCAAGTTTTTA
*
20445092 ATCAAGTTTTTC
1 ATCAAGTTTTTA
20445104 ATCAAG
1 ATCAAG
20445110 CTCTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (12 bp):
ATCAAGTTTTTA
Found at i:20451936 original size:5 final size:5
Alignment explanation
Indices: 20451926--20451982 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
20451916 AAAATTACAC
* * *
20451926 ATTTT ATTTT ATTTTT ATTTTT ATTTT -TATTC CTTCT ATTTT ATTTT
1 ATTTT ATTTT A-TTTT A-TTTT ATTTT AT-TTT ATTTT ATTTT ATTTT
20451973 ATTTT ATTTT
1 ATTTT ATTTT
20451983 GCAGGTAGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 1 0.02
5 31 0.70
6 12 0.27
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:20451943 original size:6 final size:6
Alignment explanation
Indices: 20451927--20451982 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
20451917 AAATTACACA
20451927 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TCCTTCTA- TTTTA- TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T--TT-TAT TTTTAT TTTTAT
20451974 TTTTAT TTT
1 TTTTAT TTT
20451983 GCAGGTAGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
5 17 0.37
6 24 0.52
8 3 0.07
9 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:20454598 original size:22 final size:22
Alignment explanation
Indices: 20454573--20454643 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
20454563 AAGAAGTATA
20454573 AATGAAATAGAGATCTACTTCT
1 AATGAAATAGAGATCTACTTCT
* * * ** *
20454595 AATGACTATTA-AAATTTAAAT-A
1 AATGA--AATAGAGATCTACTTCT
20454617 AATGAAATAGAGATCTACTTCT
1 AATGAAATAGAGATCTACTTCT
20454639 AATGA
1 AATGA
20454644 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
20 3 0.09
21 6 0.18
22 15 0.45
23 6 0.18
24 3 0.09
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.32
Consensus pattern (22 bp):
AATGAAATAGAGATCTACTTCT
Found at i:20454620 original size:44 final size:44
Alignment explanation
Indices: 20454570--20454658 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
20454560 CATAAGAAGT
20454570 ATAAATGAAATAGAGATCTACTTCTAATGACTATTAAAATTTAA
1 ATAAATGAAATAGAGATCTACTTCTAATGACTATTAAAATTTAA
20454614 ATAAATGAAATAGAGATCTACTTCTAATGACTATTAAAATTTAA
1 ATAAATGAAATAGAGATCTACTTCTAATGACTATTAAAATTTAA
20454658 A
1 A
20454659 GTATATCGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (44 bp):
ATAAATGAAATAGAGATCTACTTCTAATGACTATTAAAATTTAA
Found at i:20455947 original size:41 final size:41
Alignment explanation
Indices: 20455890--20456065 Score: 203
Period size: 41 Copynumber: 4.3 Consensus size: 41
20455880 TTTTGTAAGT
*
20455890 TCAGGCTTTATGCCTAGCAGGCTTTATGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
*
20455931 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * * * *
20455972 TCAGACCTTATGTCTAGCAGGCTTTGTGTCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * **
20456013 TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTGTTTTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
20456054 -CAAGGCTTTATG
1 TC-AGGCTTTATG
20456066 TTCTATAAAT
Statistics
Matches: 109, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 3 0.03
41 105 0.96
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:20457005 original size:139 final size:139
Alignment explanation
Indices: 20456850--20457129 Score: 348
Period size: 139 Copynumber: 2.0 Consensus size: 139
20456840 ATGTATTGTG
* * * *
20456850 TATATGTTGCCCATTTGTTATATATATACTGTTCAATCTTGGTGTAAAAATACTGCTCAATTTGG
1 TATATGTTGCCCATTTGCTATATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGG
* * * * * *
20456915 TATGTATATGTTTCCTAATTGTTGTATATCTATGCTGT-TAAATTTTGGTGTA-AAGTGCTGTTA
66 TATGTATATGCTGCCCAATTGTTGTATA--TAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTA
20456978 AATTTGGTATA
129 AATTTGGTATA
* * * * * * * *
20456989 TATATGTTGTCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTTGG
1 TATATGTTGCCCATTTGCTATATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGG
* *
20457054 TATGTATATGCTGCCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAA
66 TATGTATATGCTGCCCAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTAAA
20457119 TTTGGTATA
131 TTTGGTATA
20457128 TA
1 TA
20457130 ATTGCTATTC
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
137 7 0.06
138 13 0.11
139 99 0.83
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (139 bp):
TATATGTTGCCCATTTGCTATATATATACTGTTAAATCTTGGTGTAAAAATACTACTAAATTTGG
TATGTATATGCTGCCCAATTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTAAA
TTTGGTATA
Found at i:20457011 original size:70 final size:69
Alignment explanation
Indices: 20456850--20457129 Score: 319
Period size: 70 Copynumber: 4.0 Consensus size: 69
20456840 ATGTATTGTG
* * * * * * *
20456850 TATATGTTGCCCATTTGTTATATATATACTGTTCAATCTTGGTGTAAAAATACTGCTCAATTTGG
1 TATATGTTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGG
*
20456915 TATG
66 TATA
* * * *
20456919 TATATGTTTCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAAATTT
1 TATATGTTGCCCATTTGTTGTATA--TATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTT
20456983 GGTATA
64 GGTATA
* * * * *
20456989 TATATGTTGTCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTATTAAATTTGG
1 TATATGTTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGG
*
20457054 TATG
66 TATA
* * * * *
20457058 TATATGCTGCCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTTG
1 TATATGTTGCCCATTTGTTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGTTAAATTTG
20457123 GTATA
65 GTATA
20457128 TA
1 TA
20457130 ATTGCTATTC
Statistics
Matches: 178, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
68 21 0.12
69 68 0.38
70 71 0.40
71 18 0.10
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (69 bp):
TATATGTTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAATTTGG
TATA
Found at i:20457122 original size:23 final size:23
Alignment explanation
Indices: 20456946--20457153 Score: 115
Period size: 23 Copynumber: 9.0 Consensus size: 23
20456936 TTGTATATCT
20456946 ATGCTGTTAAATTTTGGTGTA-AA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * *
20456969 GTGCTGTTAAATTTGGTATATAT
1 ATGCTGTTAAATTTGGTGTATAA
* * *
20456992 ATGTTGTCT--ATTTGCTGTATAT
1 ATGCTGT-TAAATTTGGTGTATAA
20457014 ATGCTGTTAAATTTTGGTGTA-AA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * * *
20457037 AGTGCTATTAAATTTGGTATGTAT
1 A-TGCTGTTAAATTTGGTGTATAA
*** *
20457061 ATGCTG-CCCATTTGTTGTATATA
1 ATGCTGTTAAATTTGGTGTATA-A
*
20457084 A-GCTGTCCAAATTTTGGTGTATAA
1 ATGCTGT-TAAA-TTTGGTGTATAA
* *
20457108 ATGCTGTTTAATTTGGTATATAA
1 ATGCTGTTAAATTTGGTGTATAA
* * *
20457131 TTGCTATTCAAA-TTGATGTATAA
1 ATGCTGTT-AAATTTGGTGTATAA
20457154 GAGTTGTCCA
Statistics
Matches: 139, Mismatches: 33, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.01
22 38 0.27
23 57 0.41
24 28 0.20
25 15 0.11
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (23 bp):
ATGCTGTTAAATTTGGTGTATAA
Found at i:20459621 original size:9 final size:9
Alignment explanation
Indices: 20459607--20459634 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
20459597 ACCAACTTGC
20459607 AATCATATA
1 AATCATATA
20459616 AATCATATA
1 AATCATATA
20459625 AATCATATA
1 AATCATATA
20459634 A
1 A
20459635 TATAAGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AATCATATA
Found at i:20461047 original size:22 final size:21
Alignment explanation
Indices: 20461014--20461055 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20461004 TAATTTTACC
*
20461014 AAAAATCAATCAACA-AAGGAG
1 AAAAAACAATC-ACATAAGGAG
20461035 AAAAAACATATCACATAAGGA
1 AAAAAACA-ATCACATAAGGA
20461056 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAAACAATCACATAAGGAG
Found at i:20463607 original size:13 final size:14
Alignment explanation
Indices: 20463581--20463611 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20463571 CGAACCAAAT
20463581 AAAATAAAACTAAA
1 AAAATAAAACTAAA
20463595 AAAATAAAA-TAAA
1 AAAATAAAACTAAA
20463608 AAAA
1 AAAA
20463612 GGATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAAAACTAAA
Found at i:20465204 original size:44 final size:44
Alignment explanation
Indices: 20465148--20465442 Score: 204
Period size: 44 Copynumber: 6.8 Consensus size: 44
20465138 GGTGGCTTAA
* * * *
20465148 ATCTGCTTCACTATTGTTTAGGAAGATAAGATTTACCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * * *
20465192 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** * **
20465236 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* *
20465279 ATCTGCTTCACTACTGCTTAGGAAGATGAGAT-T-CGCTGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTAC-C-GTCTTCG
* * * * * *
20465323 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** * **
20465367 ACCTGCTCCAGTACTGCTTAAGG-AGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTT-AGGAAGATAAGATCTACCGTCTTCG
* * *
20465410 ATCTGCTTCACTACTGCTTAGGGAGATGAGATC
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATC
20465443 CTTTATTTTA
Statistics
Matches: 195, Mismatches: 48, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
42 3 0.02
43 61 0.31
44 126 0.65
45 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
Found at i:20465305 original size:131 final size:131
Alignment explanation
Indices: 20465107--20465441 Score: 553
Period size: 131 Copynumber: 2.6 Consensus size: 131
20465097 TTGATGCGAT
* * * * *
20465107 CTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTATTGTTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
20465172 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
20465237 C
131 C
20465238 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* *
20465303 GATGAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
66 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
20465368 C
131 C
* * *
20465369 CTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
20465434 GATGAGAT
66 GATGAGAT
20465442 CCTTTATTTT
Statistics
Matches: 191, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 191 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
C
Found at i:20465414 original size:87 final size:87
Alignment explanation
Indices: 20465104--20465436 Score: 285
Period size: 87 Copynumber: 3.8 Consensus size: 87
20465094 GACTTGATGC
* * * * * * *
20465104 GATCTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTATTGTTTAG
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
* * * * *
20465169 GAAGATAAGATTTACCGTCTTC
66 GGAGATAGGATCTAACGTCTTA
* **** ** *
20465191 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGA-CTAGTGGCTTAAATCTGCTCCACTACTGCTTA
** *
20465256 GGGAGATAGGA-CTAGTGGCTTA
65 GGGAGATAGGATCTAACGTCTTA
* * * * * **
20465278 AATCTGCTTCACTACTGCTT-AGGAAGAT-GAGATTCGCTGTCTTCGATCTGCTCCACTACTGCT
1 GATCTGCTCCACTACTGCTTAAGG-AGATAG-GACTAG-TGGCTTAAATCTGCTCCACTACTGCT
* * *
20465341 TAGGGAGACAGGATCTAACATCTTT
63 TAGGGAGATAGGATCTAACGTCTTA
* * *
20465366 GACCTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
20465431 GGAGAT
66 GGAGAT
20465437 GAGATCCTTT
Statistics
Matches: 192, Mismatches: 47, Indels: 14
0.76 0.19 0.06
Matches are distributed among these distances:
86 4 0.02
87 125 0.65
88 59 0.31
89 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
GGAGATAGGATCTAACGTCTTA
Found at i:20465477 original size:131 final size:131
Alignment explanation
Indices: 20465107--20465485 Score: 476
Period size: 131 Copynumber: 2.9 Consensus size: 131
20465097 TTGATGCGAT
* * * * * *
20465107 CTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTATTGTTTAGGAA
1 CTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* ** * * * * *
20465172 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGATAGGATCTAACATCTTTGA
20465237 C
131 C
*
20465238 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * * *
20465303 GATGAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
66 GATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGATAGGATCTAACATCTTTGA
20465368 C
131 C
* *
20465369 CTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * *
20465434 GATGAGA-TC-CTTTATTTTAACCCGCTCCACT-GTAACTTCAGGGAGATAGGAT
66 GATGAGATTCGCTGT-CTTCAACCCGCTCCACTACT-ACTT-AGGGAGATAGGAT
20465486 TACTAGCTCC
Statistics
Matches: 223, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
129 4 0.02
130 17 0.08
131 202 0.91
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGATAGGATCTAACATCTTTGA
C
Found at i:20465602 original size:90 final size:90
Alignment explanation
Indices: 20465458--20466159 Score: 340
Period size: 90 Copynumber: 7.9 Consensus size: 90
20465448 TTTTAACCCG
* * * * * *
20465458 CTCCACTGTAACTTCAGGGAGATAGGA-TTAC-TAGCTCCAATCTGCTCCATTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATA--TTCAACCTGCTCCACTGTAACCTCAGGG
*
20465521 AGATAAGATCTGAAATTCTTCGGTCTA
64 AGATAAGATCTGAAATTCTTCGATCTA
* * * *
20465548 CTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAC
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACCTCAGGGAG
* * * *
20465613 ATAAGGTTTG---TGGCTTCGATCTG
66 ATAAGATCTGAAAT-TCTTCGATCTA
* * * ** * *
20465636 CTCCTCTGTAATCTCAGGGAGATAAGA-TCTG-AAATTCTTCGGTCTACTCCACTATAACCTCAG
1 CTCCACTGTAACCTCAGGGAGATAAGACT-TGCATATTCAAC---CTGCTCCACTGTAACCTCAG
* * * * *
20465699 GGAGATAAGA-CTTG-CA-TATTCAACCTG
62 GGAGATAAGATC-TGAAATTCTTCGATCTA
* * * ** **** * * * *
20465726 CCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACCTCAGGGAG
*
20465791 ATAAGATCTAAAATTCTTCGATCTA
66 ATAAGATCTGAAATTCTTCGATCTA
* *
20465816 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACCTCAGGGAG
* * * *
20465881 ATAAGGTTTG---TGGCTTCGATCTG
66 ATAAGATCTGAAAT-TCTTCGATCTA
* * *** * *** *
20465904 CTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCTGCTCCACTGTAACCTCAGGG
* * * * *
20465969 AGATAAGA-CTTG-CA-TATTCAACCTG
64 AGATAAGATC-TGAAATTCTTCGATCTA
* * * * * * * *
20465994 CCCCACTGTAACTTCAGAGAGATAGGATCCTT-TAT-TTTAATCC-GCTCCACTATAACTTCAGG
1 CTCCACTGTAACCTCAGGGAGATAAGA--CTTGCATATTCAA-CCTGCTCCACTGTAACCTCAGG
** * * *
20466056 GAGATTGGA--T--AGTGTCCTCGATCTG
63 GAGATAAGATCTGAAAT-TCTTCGATCTA
* * * *
20466081 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC---GTCAATCTGCTCCACTGTAACCTCAGG
1 CTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTCAACCTGCTCCACTGTAACCTCAGG
20466143 GAGATAAGATCTGAAAT
63 GAGATAAGATCTGAAAT
20466160 ATTCACTGAT
Statistics
Matches: 447, Mismatches: 132, Indels: 65
0.69 0.20 0.10
Matches are distributed among these distances:
86 4 0.01
87 65 0.15
88 120 0.27
89 8 0.02
90 237 0.53
91 11 0.02
92 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (90 bp):
CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTAACCTCAGGGAG
ATAAGATCTGAAATTCTTCGATCTA
Found at i:20465604 original size:134 final size:134
Alignment explanation
Indices: 20465460--20466017 Score: 958
Period size: 134 Copynumber: 4.2 Consensus size: 134
20465450 TTAACCCGCT
** * * * *
20465460 CCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCAT-TGTAACCTCAGGGAG
1 CCACTGTAACTTCAGGGAGATAAGG-TTTGTGGCTTCGATCTGCTCC-TCTGTAATCTCAGGGAG
*
20465523 ATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAA
64 ATAAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAA
20465588 CCTGCC
129 CCTGCC
*
20465594 CCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
*
20465659 AAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
20465724 TGCC
131 TGCC
*
20465728 CCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
* *
20465793 AAGATCTAAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
20465858 TGCC
131 TGCC
20465862 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
*
20465927 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
20465992 TGCC
131 TGCC
*
20465996 CCACTGTAACTTCAGAGAGATA
1 CCACTGTAACTTCAGGGAGATA
20466018 GGATCCTTTA
Statistics
Matches: 409, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 405 0.99
135 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (134 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
AAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:20466134 original size:44 final size:41
Alignment explanation
Indices: 20465457--20466154 Score: 342
Period size: 44 Copynumber: 15.7 Consensus size: 41
20465447 ATTTTAACCC
* * * *
20465457 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGA-T-CTTGCTTCGATCT
* * *
20465501 GCTCCATTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTCGATCT
* * * *
20465547 ACTCCACTATAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * *
20465591 GCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTCGATCT
* * *
20465635 GCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTCGATCT
* * * *
20465681 ACTCCACTATAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * *
20465725 GCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTCGATCT
* *
20465769 GCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGATCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20465815 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTCGATCT
* * *
20465859 GCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTCGATCT
* * *
20465903 GCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20465949 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * ** ** *
20465993 GCCCCACTGTAACTTCAGAGAGATAGGATCCTTTATTTTAATCC
1 GCTCCACTGTAAC-TCAGGGAGATAAGAT-C-TTGCTTCGATCT
* ** ** *
20466037 GCTCCACTATAACTTCAGGGAGATTGGATAGTGTCCTCGATCT
1 GCTCCACTGTAAC-TCAGGGAGATAAGATCTTG-CTTCGATCT
* * *
20466080 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCGTCAATCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT-T-GCTTCGATCT
20466124 GCTCCACTGTAACCTCAGGGAGATAAGATCT
1 GCTCCACTGTAA-CTCAGGGAGATAAGATCT
20466155 GAAATATTCA
Statistics
Matches: 495, Mismatches: 110, Indels: 98
0.70 0.16 0.14
Matches are distributed among these distances:
41 8 0.02
42 3 0.01
43 32 0.06
44 291 0.59
45 16 0.03
46 134 0.27
47 11 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (41 bp):
GCTCCACTGTAACTCAGGGAGATAAGATCTTGCTTCGATCT
Found at i:20467418 original size:7 final size:7
Alignment explanation
Indices: 20467400--20467439 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
20467390 TTAGCCTCTC
20467400 CATTTTT
1 CATTTTT
20467407 C-TTTTT
1 CATTTTT
20467413 CATTTTT
1 CATTTTT
20467420 CA-TTTT
1 CATTTTT
20467426 CATTTTT
1 CATTTTT
20467433 CATTTTT
1 CATTTTT
20467440 TTTGACTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:20467418 original size:13 final size:13
Alignment explanation
Indices: 20467400--20467439 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
20467390 TTAGCCTCTC
20467400 CATTTTTCTTTTT
1 CATTTTTCTTTTT
*
20467413 CATTTTTCATTTT
1 CATTTTTCTTTTT
20467426 CATTTTTCATTTTT
1 CATTTTTC-TTTTT
20467440 TTTGACTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:20467423 original size:20 final size:20
Alignment explanation
Indices: 20467403--20467439 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20467393 GCCTCTCCAT
20467403 TTTTC-TTTTTCATTTTTCA
1 TTTTCATTTTTCATTTTTCA
20467422 TTTTCATTTTTCATTTTT
1 TTTTCATTTTTCATTTTT
20467440 TTTGACTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:20468399 original size:45 final size:47
Alignment explanation
Indices: 20468350--20468458 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
20468340 TAGATTTCTC
20468350 TTTTTTCATTC-TTCTTTCTTTT-TCTCATTTTCA-TTTTAATTTTGAT
1 TTTTTTCATTCTTTCTTT-TTTTGT-TCATTTTCATTTTTAATTTTGAT
** * *
20468396 TTTTTTC-TTCTTTCTTTTTTTGTTTTTTTTTATTTTTATTTTTGA-
1 TTTTTTCATTCTTTCTTTTTTTGTTCATTTTCATTTTTAATTTTGAT
*
20468441 TTTTTTCATT-TTCCTTTT
1 TTTTTTCATTCTTTCTTTT
20468459 GACTTTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
45 27 0.50
46 27 0.50
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (47 bp):
TTTTTTCATTCTTTCTTTTTTTGTTCATTTTCATTTTTAATTTTGAT
Found at i:20468421 original size:22 final size:23
Alignment explanation
Indices: 20468383--20468447 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
20468373 CTCATTTTCA
* *
20468383 TTTTAATTTTGATTTTTTTCTTCT
1 TTTTATTTTTGA-TTTTTTCTTAT
*
20468407 TTCTT-TTTTTG-TTTTTTTTTAT
1 TT-TTATTTTTGATTTTTTCTTAT
20468429 TTTTATTTTTGATTTTTTC
1 TTTTATTTTTGATTTTTTC
20468448 ATTTTCCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 6 0.18
24 7 0.21
25 2 0.06
ACGTcount: A:0.09, C:0.06, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTATTTTTGATTTTTTCTTAT
Found at i:20477179 original size:14 final size:15
Alignment explanation
Indices: 20477152--20477185 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20477142 CGAACCAAAT
*
20477152 AAAACAAAACTAAAA
1 AAAAGAAAACTAAAA
20477167 AAAAGAAAA-TAAAA
1 AAAAGAAAACTAAAA
20477181 AAAAG
1 AAAAG
20477186 GATAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAGAAAACTAAAA
Found at i:20478705 original size:44 final size:44
Alignment explanation
Indices: 20478647--20478941 Score: 213
Period size: 44 Copynumber: 6.8 Consensus size: 44
20478637 GGTGGCTTAA
* * *
20478647 ATCTGCTTCACTACTGTTTAGGAAGATAAGATTTACCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * * *
20478691 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** * **
20478735 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* *
20478778 ATCTGCTTCACTACTGCTTAGGAAGATGAGAT-T-CGCTGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTAC-C-GTCTTCG
* * * * * *
20478822 ATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** * **
20478866 ACCTGCTCCAGTACTGCTTAAGG-AGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTT-AGGAAGATAAGATCTACCGTCTTCG
* * *
20478909 ATCTGCTTCACTACTGCTTAGGGAGATGAGATC
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATC
20478942 CTTTATTTTA
Statistics
Matches: 196, Mismatches: 47, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
42 3 0.02
43 61 0.31
44 127 0.65
45 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
Found at i:20478804 original size:131 final size:131
Alignment explanation
Indices: 20478606--20478940 Score: 562
Period size: 131 Copynumber: 2.6 Consensus size: 131
20478596 TTGATGCGAT
* * * *
20478606 CTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
20478671 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
20478736 C
131 C
20478737 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* *
20478802 GATGAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
66 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
20478867 C
131 C
* * *
20478868 CTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
20478933 GATGAGAT
66 GATGAGAT
20478941 CCTTTATTTT
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 192 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
C
Found at i:20478913 original size:87 final size:87
Alignment explanation
Indices: 20478603--20478935 Score: 294
Period size: 87 Copynumber: 3.8 Consensus size: 87
20478593 GACTTGATGC
* * * * * *
20478603 GATCTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAG
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
* * * * *
20478668 GAAGATAAGATTTACCGTCTTC
66 GGAGATAGGATCTAACGTCTTA
* **** ** *
20478690 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGA-CTAGTGGCTTAAATCTGCTCCACTACTGCTTA
** *
20478755 GGGAGATAGGA-CTAGTGGCTTA
65 GGGAGATAGGATCTAACGTCTTA
* * * * * **
20478777 AATCTGCTTCACTACTGCTT-AGGAAGAT-GAGATTCGCTGTCTTCGATCTGCTCCACTACTGCT
1 GATCTGCTCCACTACTGCTTAAGG-AGATAG-GACTAG-TGGCTTAAATCTGCTCCACTACTGCT
* * *
20478840 TAGGGAGACAGGATCTAACATCTTT
63 TAGGGAGATAGGATCTAACGTCTTA
* * *
20478865 GACCTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
20478930 GGAGAT
66 GGAGAT
20478936 GAGATCCTTT
Statistics
Matches: 193, Mismatches: 46, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
86 4 0.02
87 125 0.65
88 60 0.31
89 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
GATCTGCTCCACTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTCCACTACTGCTTAG
GGAGATAGGATCTAACGTCTTA
Found at i:20479022 original size:131 final size:130
Alignment explanation
Indices: 20478606--20479024 Score: 364
Period size: 131 Copynumber: 3.2 Consensus size: 130
20478596 TTGATGCGAT
* * * * * *
20478606 CTGCTCCACTACTGCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCAGTAC-GCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* ** * * * * * * * ***
20478671 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
65 GATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGACAGGATCTAACAGCTCCAA
20478736 C
130 C
* *
20478737 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCAGTAC-GCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * * * ***
20478802 GATGAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
65 GATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGACAGGATCTAACAGCTCCAA
20478867 C
130 C
* * *
20478868 CTGCTCCAGTACTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCAGTAC-GCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * * *
20478933 GATGAGA-TC-CTTTATTTTAACCCGCTCCACT-GTAACTTCAGGGAGATAGGAT-T-ACTAGCT
65 GATGAGATTCGCTGT-CTTCAACCCGCTCCACTACT-ACTT-AGGGAGACAGGATCTAAC-AGCT
*
20478993 CCAAT
126 CCAAC
20478998 CTGCTCCATTGTAAC-CTCAGGGAGATA
1 CTGCTCCA--GT-ACGCTCAGGGAGATA
20479025 AGATCTGAAA
Statistics
Matches: 253, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
129 6 0.02
130 30 0.12
131 213 0.84
132 2 0.01
133 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (130 bp):
CTGCTCCAGTACGCTCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAG
ATGAGATTCGCTGTCTTCAACCCGCTCCACTACTACTTAGGGAGACAGGATCTAACAGCTCCAAC
Found at i:20479064 original size:90 final size:90
Alignment explanation
Indices: 20478957--20479658 Score: 390
Period size: 90 Copynumber: 7.9 Consensus size: 90
20478947 TTTTAACCCG
* * * *
20478957 CTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCTGCTCCATTGTAACCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
*
20479022 ATAAGATCTGAAATTCTTCGGTCTA
66 ATAAGATCTGAAATTCTTCGATCTA
* * * *
20479047 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATA--TTCAACCTGCCCCACTGTAACTTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGA-TTAC-TAGCTTCAATCTGCTCCACTGTAACCTCAGGG
* * * * *
20479110 ACATAAGGTTTG---TGGCTTCGATCTG
64 AGATAAGATCTGAAAT-TCTTCGATCTA
* * * * ** *
20479135 CTCCTCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAACCTCAGG
* * * * *
20479199 GAGATAAGA-CTTG-CA-TATTCAACCTG
63 GAGATAAGATC-TGAAATTCTTCGATCTA
* * * * ** * * * *
20479225 CCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
*
20479290 ATAAGATCTAAAATTCTTCGATCTA
66 ATAAGATCTGAAATTCTTCGATCTA
* * * *
20479315 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATA--TTCAACCTGCCCCACTGTAACTTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGA-TTAC-TAGCTTCAATCTGCTCCACTGTAACCTCAGGG
* * * *
20479378 AGATAAGGTTTG---TGGCTTCGATCTG
64 AGATAAGATCTGAAAT-TCTTCGATCTA
* * ** * ** *
20479403 CTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-TACTA-GCTTCAATCTGCTCCACTGTAACCTCAGGG
* * * * *
20479468 AGATAAGA-CTTG-CA-TATTCAACCTG
64 AGATAAGATC-TGAAATTCTTCGATCTA
* * * * * * * * * *
20479493 CCCCACTGTAACTTCAGAGAGATAGGATCCT-TTA-TTTTAATCCGCTCCACTATAACTTCAGGG
1 CTCCACTGTAACCTCAGGGAGATAAGAT--TACTAGCTTCAATCTGCTCCACTGTAACCTCAGGG
** * * *
20479556 AGATTGGA--T--AGTGTCCTCGATCTG
64 AGATAAGATCTGAAAT-TCTTCGATCTA
* * * *
20479580 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCGTCAATCTGCTCCACTGTAACCTCAGGGA
1 CTCCACTGTAACCTCAGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGA
20479644 GATAAGATCTGAAAT
65 GATAAGATCTGAAAT
20479659 ATTCACTGAT
Statistics
Matches: 452, Mismatches: 127, Indels: 65
0.70 0.20 0.10
Matches are distributed among these distances:
86 4 0.01
87 64 0.14
88 130 0.29
89 4 0.01
90 238 0.53
91 9 0.02
92 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (90 bp):
CTCCACTGTAACCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
ATAAGATCTGAAATTCTTCGATCTA
Found at i:20479108 original size:134 final size:134
Alignment explanation
Indices: 20478959--20479516 Score: 976
Period size: 134 Copynumber: 4.2 Consensus size: 134
20478949 TTAACCCGCT
** * * * *
20478959 CCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCAT-TGTAACCTCAGGGAG
1 CCACTGTAACTTCAGGGAGATAAGG-TTTGTGGCTTCGATCTGCTCC-TCTGTAATCTCAGGGAG
*
20479022 ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
64 ATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
20479087 CCTGCC
129 CCTGCC
*
20479093 CCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
*
20479158 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
20479223 TGCC
131 TGCC
*
20479227 CCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
*
20479292 AAGATCTAAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
20479357 TGCC
131 TGCC
20479361 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
20479426 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
20479491 TGCC
131 TGCC
*
20479495 CCACTGTAACTTCAGAGAGATA
1 CCACTGTAACTTCAGGGAGATA
20479517 GGATCCTTTA
Statistics
Matches: 410, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
133 1 0.00
134 406 0.99
135 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (134 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:20479652 original size:44 final size:42
Alignment explanation
Indices: 20478956--20479653 Score: 414
Period size: 44 Copynumber: 15.7 Consensus size: 42
20478946 ATTTTAACCC
* * * * *
20478956 GCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGA-T-CTTGCTTCGATCT
* * *
20479000 GCTCCATTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20479046 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * * *
20479090 GCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT-T-GCTTCGATCT
* * * *
20479134 GCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20479180 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * * *
20479224 GCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT-T-GCTTCGATCT
* * *
20479268 GCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20479314 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * *
20479358 GCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT-T-GCTTCGATCT
* * * *
20479402 GCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT----TGCTTCGATCT
* * *
20479448 ACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTCAACCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTTGC---TTCGATCT
* * * * ** ** *
20479492 GCCCCACTGTAACTTCAGAGAGATAGGATCCTTTATTTTAATCC
1 GCTCCACTGTAACCTCAGGGAGATAAGAT-C-TTGCTTCGATCT
* * ** ** *
20479536 GCTCCACTATAACTTCAGGGAGATTGGATAGTGTCCTCGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCTTG-CTTCGATCT
* * * *
20479579 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCGTCAATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT-T-GCTTCGATCT
20479623 GCTCCACTGTAACCTCAGGGAGATAAGATCT
1 GCTCCACTGTAACCTCAGGGAGATAAGATCT
20479654 GAAATATTCA
Statistics
Matches: 495, Mismatches: 119, Indels: 80
0.71 0.17 0.12
Matches are distributed among these distances:
41 8 0.02
42 3 0.01
43 28 0.06
44 297 0.60
45 12 0.02
46 136 0.27
47 11 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
GCTCCACTGTAACCTCAGGGAGATAAGATCTTGCTTCGATCT
Found at i:20480909 original size:7 final size:7
Alignment explanation
Indices: 20480897--20480936 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
20480887 TTAGCCTCTC
20480897 CATTTTT
1 CATTTTT
20480904 CA-TTTT
1 CATTTTT
20480910 CATTTTT
1 CATTTTT
20480917 CA-TTTT
1 CATTTTT
*
20480923 AATTTTT
1 CATTTTT
20480930 CATTTTT
1 CATTTTT
20480937 TTTGACTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:20480915 original size:13 final size:13
Alignment explanation
Indices: 20480897--20480935 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
20480887 TTAGCCTCTC
20480897 CATTTTTCATTTT
1 CATTTTTCATTTT
20480910 CATTTTTCATTTT
1 CATTTTTCATTTT
*
20480923 AATTTTTCATTTT
1 CATTTTTCATTTT
20480936 TTTTGACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:20484230 original size:14 final size:15
Alignment explanation
Indices: 20484203--20484236 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20484193 CGAACCAAAT
*
20484203 AAAACAAAACTAAAA
1 AAAAGAAAACTAAAA
20484218 AAAAGAAAA-TAAAA
1 AAAAGAAAACTAAAA
20484232 AAAAG
1 AAAAG
20484237 GATAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAGAAAACTAAAA
Found at i:20489647 original size:18 final size:17
Alignment explanation
Indices: 20489624--20489657 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20489614 TAGTATCTGG
20489624 TATCTGATCATTCTATTT
1 TATCTGAT-ATTCTATTT
*
20489642 TATCTGGTATTCTATT
1 TATCTGATATTCTATT
20489658 ATATTTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (17 bp):
TATCTGATATTCTATTT
Found at i:20506053 original size:30 final size:30
Alignment explanation
Indices: 20506017--20506073 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
20506007 ACGGGATGGA
20506017 ACATGGGCGTATGGCCAGCCTGTTTGGCTC
1 ACATGGGCGTATGGCCAGCCTGTTTGGCTC
*
20506047 ACATGGGCGTGTGGCCAGCCTGTTTGG
1 ACATGGGCGTATGGCCAGCCTGTTTGG
20506074 AAATGCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.26
Consensus pattern (30 bp):
ACATGGGCGTATGGCCAGCCTGTTTGGCTC
Found at i:20509477 original size:20 final size:20
Alignment explanation
Indices: 20509435--20509479 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20509425 AAAAGAAAAA
* *
20509435 GAGAAAGGGAAGGGAGAGGG
1 GAGAAAGGAAAGGGAGAGAG
20509455 GAGATAAGGAAAGGG-GAGAG
1 GAGA-AAGGAAAGGGAGAGAG
20509475 GAGAA
1 GAGAA
20509480 GGGATGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.02
Consensus pattern (20 bp):
GAGAAAGGAAAGGGAGAGAG
Done.