Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 10 of 25
Found at i:1386478 original size:13 final size:13
Alignment explanation
Indices: 1386443--1386478 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1386433 TTATTTTTAA
1386443 AAATAATTAAATT
1 AAATAATTAAATT
*
1386456 AATTAATTAAATT
1 AAATAATTAAATT
*
1386469 AAATATTTAA
1 AAATAATTAA
1386479 TGATCATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATAATTAAATT
Found at i:1386839 original size:32 final size:31
Alignment explanation
Indices: 1386782--1386842 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
1386772 TTAAATTTTT
*
1386782 TTTTTAATTTTTAATTATATGTATTTTAATA
1 TTTTTAATTTTTAATTATATATATTTTAATA
*
1386813 TTTTTAATTTTGTTAA-TATTTATATTTTAA
1 TTTTTAA-TTT-TTAATTATATATATTTTAA
1386843 AACATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 7 0.27
32 15 0.58
33 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTAATTTTTAATTATATATATTTTAATA
Found at i:1386886 original size:18 final size:18
Alignment explanation
Indices: 1386865--1386900 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1386855 TTTTTGCTTT
1386865 TTTAATATATTTTATTTA
1 TTTAATATATTTTATTTA
* *
1386883 TTTAATTTCTTTTATTTA
1 TTTAATATATTTTATTTA
1386901 AAAATCTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATATATTTTATTTA
Found at i:1387426 original size:16 final size:16
Alignment explanation
Indices: 1387398--1387456 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
1387388 AAAAATTATT
*
1387398 TTTTATAAA-TTTTTA
1 TTTTAAAAATTTTTTA
*
1387413 TTTTAAAAATTTTTGA
1 TTTTAAAAATTTTTTA
*
1387429 TTTTATAAATTTTTTA
1 TTTTAAAAATTTTTTA
**
1387445 TCATAAAAATTT
1 TTTTAAAAATTT
1387457 ATAATATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 8 0.22
16 28 0.78
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTAAAAATTTTTTA
Found at i:1390064 original size:14 final size:14
Alignment explanation
Indices: 1390041--1390073 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1390031 TTAAATTAAC
*
1390041 AATA-TAATATATA
1 AATATTAATATAAA
1390054 AATATTAATATAAA
1 AATATTAATATAAA
1390068 AATATT
1 AATATT
1390074 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATTAATATAAA
Found at i:1390369 original size:21 final size:21
Alignment explanation
Indices: 1390311--1390372 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
1390301 TATACATAAA
*
1390311 AAAAAAT-TAGGTAAAAAATT
1 AAAAAATATATGTAAAAAATT
* * *
1390331 ATAAATTATAATTATAAAAAATT
1 AAAAAATAT-A-TGTAAAAAATT
1390354 AAAAAATATATGTAAAAAA
1 AAAAAATATATGTAAAAAA
1390373 GATGGAGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 2 0.06
23 16 0.50
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAAATATATGTAAAAAATT
Found at i:1390697 original size:17 final size:17
Alignment explanation
Indices: 1390639--1390706 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
1390629 AATGTCATAA
*
1390639 ATTAAATTAAATGATATT
1 ATTAAATTAAAT-AAATT
*
1390657 AATTTAATTAAA-AAATAT
1 -ATTAAATTAAATAAAT-T
*
1390675 ATTTAAATTAAATCAATT
1 A-TTAAATTAAATAAATT
*
1390693 ATTAAATCAAATAA
1 ATTAAATTAAATAA
1390707 TATAATAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 15 0.38
18 12 0.30
19 13 0.32
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATAAATT
Found at i:1393032 original size:20 final size:19
Alignment explanation
Indices: 1393007--1393062 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
1392997 TTATTTTTAA
*
1393007 TATATTTATTTATTAAAATC
1 TATATTTATATA-TAAAATC
1393027 TATATTTATATATAAAAT-
1 TATATTTATATATAAAATC
*
1393045 TA-ATTTGTTATATAAAAT
1 TATATTT-ATATATAAAAT
1393063 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.12
18 12 0.36
19 6 0.18
20 11 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TATATTTATATATAAAATC
Found at i:1394203 original size:15 final size:15
Alignment explanation
Indices: 1394183--1394240 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
1394173 GGGTAGTCTC
1394183 GAGTTTGGGTTCTTT
1 GAGTTTGGGTTCTTT
*
1394198 GAGTTTGGGTTTTTTT
1 GAGTTTGGG-TTCTTT
* *
1394214 GAGTTCGGATTCTTT
1 GAGTTTGGGTTCTTT
*
1394229 TAGATTTGGGTT
1 GAG-TTTGGGTT
1394241 ATTTTAAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 16 0.47
16 18 0.53
ACGTcount: A:0.10, C:0.05, G:0.31, T:0.53
Consensus pattern (15 bp):
GAGTTTGGGTTCTTT
Found at i:1394216 original size:16 final size:16
Alignment explanation
Indices: 1394183--1394250 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 16
1394173 GGGTAGTCTC
*
1394183 GAGTTTGGG-TTCTTT
1 GAGTTTGGGTTTTTTT
1394198 GAGTTTGGGTTTTTTT
1 GAGTTTGGGTTTTTTT
* * *
1394214 GAGTTCGGATTCTTTT
1 GAGTTTGGGTTTTTTT
*
1394230 -AGATTTGGGTTATTTT
1 GAG-TTTGGGTTTTTTT
*
1394246 AAGTT
1 GAGTT
1394251 CAAATTTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 11 0.26
16 30 0.70
17 2 0.05
ACGTcount: A:0.13, C:0.04, G:0.28, T:0.54
Consensus pattern (16 bp):
GAGTTTGGGTTTTTTT
Found at i:1394237 original size:32 final size:31
Alignment explanation
Indices: 1394163--1394251 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 31
1394153 TAAATTTGGG
* * * * *
1394163 TTTGAGTTTGGGGTAGTCTCGAGTTTGGGTTC
1 TTTGAGTTTGGGTTA-TTTTGAGTTCGGATTC
*
1394195 TTTGAGTTTGGGTTTTTTTGAGTTCGGATTC
1 TTTGAGTTTGGGTTATTTTGAGTTCGGATTC
* *
1394226 TTTTAGATTTGGGTTATTTTAAGTTC
1 TTTGAG-TTTGGGTTATTTTGAGTTC
1394252 AAATTTTTCG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 17 0.36
32 30 0.64
ACGTcount: A:0.12, C:0.07, G:0.29, T:0.52
Consensus pattern (31 bp):
TTTGAGTTTGGGTTATTTTGAGTTCGGATTC
Found at i:1394795 original size:17 final size:17
Alignment explanation
Indices: 1394773--1394872 Score: 65
Period size: 17 Copynumber: 6.3 Consensus size: 17
1394763 TTAAAAAGTA
1394773 AAATAATATATAAAAAT
1 AAATAATATATAAAAAT
*
1394790 AAATAA-A-AT-AAGAT
1 AAATAATATATAAAAAT
* *
1394804 AAATAATTATTTAATAAT
1 AAATAA-TATATAAAAAT
*
1394822 -AATAA-ATAT-AATAT
1 AAATAATATATAAAAAT
*
1394836 AAA-AATA-ATTAAAAT
1 AAATAATATATAAAAAT
*
1394851 AAAAAATATA-AAAATAT
1 AAATAATATATAAAA-AT
1394868 AAATA
1 AAATA
1394873 TCTTAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
14 17 0.27
15 15 0.24
16 9 0.14
17 19 0.30
18 3 0.05
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (17 bp):
AAATAATATATAAAAAT
Found at i:1394833 original size:15 final size:15
Alignment explanation
Indices: 1394815--1394873 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
1394805 AATAATTATT
1394815 TAATAATAATAAATA
1 TAATAATAATAAATA
1394830 TAAT-ATAA-AAATAA
1 TAATAATAATAAAT-A
*
1394844 TTAA-AATAAAAAATA
1 -TAATAATAATAAATA
*
1394859 TAAAAAT-ATAAATA
1 TAATAATAATAAATA
1394873 T
1 T
1394874 CTTAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 15 0.39
15 15 0.39
16 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAATAATAAATA
Found at i:1394865 original size:8 final size:8
Alignment explanation
Indices: 1394831--1394894 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
1394821 TAATAAATAT
1394831 AATATAAA
1 AATATAAA
*
1394839 AATAATTAA
1 AAT-ATAAA
1394848 AATA-AAA
1 AATATAAA
1394855 AATATAAA
1 AATATAAA
1394863 AATATAAA
1 AATATAAA
* * *
1394871 TATCTTAA
1 AATATAAA
* *
1394879 AATTTATA
1 AATATAAA
1394887 AATATAAA
1 AATATAAA
1394895 TTATTAATAT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 6 0.14
8 30 0.70
9 7 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATAAA
Found at i:1394914 original size:32 final size:31
Alignment explanation
Indices: 1394823--1394927 Score: 99
Period size: 32 Copynumber: 3.4 Consensus size: 31
1394813 TTTAATAATA
* *
1394823 ATAAATAT-AATATAAAAATAATTAAAA-TA
1 ATAAATATAAATATAAATATAATTAAAATTT
* *
1394852 AAAAATATAAAAATATAAATAT-CTTAAAATTT
1 ATAAATAT--AAATATAAATATAATTAAAATTT
*
1394884 ATAAATATAAATTATTAATATAATTAAAATTT
1 ATAAATATAAA-TATAAATATAATTAAAATTT
*
1394916 ATATAAAATAAA
1 ATA-AATATAAA
1394928 AATATTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
29 7 0.11
30 3 0.05
31 14 0.23
32 30 0.49
33 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAAATATAAATATAAATATAATTAAAATTT
Found at i:1395173 original size:32 final size:31
Alignment explanation
Indices: 1395121--1395216 Score: 89
Period size: 32 Copynumber: 3.2 Consensus size: 31
1395111 TTATTATAAT
*
1395121 TATATTTA-AATTTATTTTATATAAATTTTAA
1 TATATTAATAATTTA-TTTATATAAATTTTAA
1395152 TATATTAATAATTTATATTATATGAAA-TTTAA
1 TATATTAATAATTTAT-TTATAT-AAATTTTAA
* *
1395184 TTTATT--T-ATTTATTTA-AT-TATTTTAA
1 TATATTAATAATTTATTTATATAAATTTTAA
1395210 TATATTA
1 TATATTA
1395217 TTTTATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
25 1 0.02
26 10 0.18
27 2 0.04
28 3 0.05
29 6 0.11
30 1 0.02
31 8 0.14
32 22 0.39
33 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TATATTAATAATTTATTTATATAAATTTTAA
Found at i:1398061 original size:25 final size:25
Alignment explanation
Indices: 1398029--1398083 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1398019 TATTTTGATA
* *
1398029 AAATTATTGTTTTATTATATATTTT
1 AAATTATTATTTTACTATATATTTT
1398054 AAATTATTATTTTACTATATATTTT
1 AAATTATTATTTTACTATATATTTT
1398079 AAATT
1 AAATT
1398084 CTAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
AAATTATTATTTTACTATATATTTT
Found at i:1398090 original size:25 final size:25
Alignment explanation
Indices: 1398029--1398091 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
1398019 TATTTTGATA
** *
1398029 AAATTATTGTTTTATTATATATTTT
1 AAATTATAATTTTACTATATATTTT
*
1398054 AAATTATTATTTTACTATATATTTT
1 AAATTATAATTTTACTATATATTTT
*
1398079 AAATTCTAATTTT
1 AAATTATAATTTT
1398092 TAAATAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (25 bp):
AAATTATAATTTTACTATATATTTT
Found at i:1401253 original size:13 final size:13
Alignment explanation
Indices: 1401235--1401261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1401225 AGGTCTTATT
1401235 TTCATATTCTATA
1 TTCATATTCTATA
1401248 TTCATATTCTATA
1 TTCATATTCTATA
1401261 T
1 T
1401262 CCGAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCATATTCTATA
Found at i:1402801 original size:18 final size:20
Alignment explanation
Indices: 1402762--1402803 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
1402752 TGGATAAAAA
*
1402762 TATTTATAAATTAAATTATT
1 TATTTATAAATTAAAATATT
1402782 TATTTA-AAATTAAAAT-TT
1 TATTTATAAATTAAAATATT
1402800 TATT
1 TATT
1402804 AGATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATAAATTAAAATATT
Found at i:1402851 original size:13 final size:14
Alignment explanation
Indices: 1402833--1402868 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
1402823 AAAAAAATAT
1402833 TAAATTTAAA-AAA
1 TAAATTTAAATAAA
1402846 TAAATTTAAATAAA
1 TAAATTTAAATAAA
1402860 -AAATTTAAA
1 TAAATTTAAA
1402869 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTTAAATAAA
Found at i:1403471 original size:22 final size:22
Alignment explanation
Indices: 1403427--1403472 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1403417 AACTCGATTT
1403427 TATTTTTTAATTATATAATATA
1 TATTTTTTAATTATATAATATA
* *
1403449 TATTATTTTATTTTTATAA-ATA
1 TATT-TTTTAATTATATAATATA
1403471 TA
1 TA
1403473 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTTTTAATTATATAATATA
Found at i:1403489 original size:17 final size:17
Alignment explanation
Indices: 1403461--1403493 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1403451 TTATTTTATT
1403461 TTTATAAATATAATAAAA
1 TTTATAAATAT-ATAAAA
1403479 TTTAT-AATATATAAA
1 TTTATAAATATATAAA
1403494 GAATTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTATAAATATATAAAA
Found at i:1404838 original size:333 final size:332
Alignment explanation
Indices: 1404115--1405422 Score: 1971
Period size: 334 Copynumber: 3.9 Consensus size: 332
1404105 AAATTATTGC
* * *
1404115 AAAAAATAATCAAACATATAATATTCGTAAATTTTGTATTGAGCTACTACAAAAGAAAAGATATA
1 AAAAAA-AATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAAAAAAGATATA
1404180 TATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATC
65 TATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATC
* *
1404245 -TTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTTAAGGAATATTTTTA-TATAATACCT
130 TTTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCT
1404308 TATATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAA-T--TATAAAA-T-T---A
195 TATATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAA
* *
1404365 --AAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTT-ACTATGATTAATTTTATTAGTT
260 TTAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATTT
*
1404427 GATGTTGTAAAAA
325 GATG-T-T---AT
* * *
1404440 AAAAAAAATCAAACATATAATATTCGTGAATTTTGTATTGAGCTACTACAAAAGAAAATATATAT
1 AAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAAAAAAGATATAT
* * *
1404505 A-CTTTTTAAGTGTAAGTGAGGTGAGACGAATAATTTTAGCAAAGATAAAATTATTATTTTATCT
66 ATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATCT
* * *
1404569 TTTAAGATGTTTTTTATATCTCTCTTGGTTAAAGTACTCACGGAATATTTTTATTATAATACCTT
131 TTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCTT
* * *
1404634 ACATAAATATAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATATAAAATTAGAAAAT
196 ATATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAA-
1404699 TTGAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATT
260 TT-AAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATT
1404764 TGATGTTAT
324 TGATGTTAT
* *
1404773 AAAAAAATTCAAACATATAATATCCGTGAATTTTGTATTGAGCTATTACAAAAAAAAAGATATAT
1 AAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAAAAAAGATATAT
* * * *
1404838 ATATTTTTAAGTATAAGTGAGGTGAGATGAACAATTTTAGCAAAGATAAAATAATAATTTTATCT
66 ATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATCT
* * * * *
1404903 TTTAAGATACTTTTTATATCTCTCTTAGTTAAAGTACTTACGAAATGTTTTTATTATAATACCTT
131 TTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCTT
*
1404968 ATATAAATATAAAAAATAAATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAAT
196 ATATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAAT
1405033 TAAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATTT
261 T-AAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATTT
*
1405098 GATGTTGT
325 GATGTTAT
1405106 AAAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAGAAAAA-ATAT
1 -AAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAA-AAAAAGATAT
* * * *
1405170 ATATATTTTTTAAGTATAAGTGAGGTGAGACGAATAATTTTAGTAAAAATAAAATTATTAGTTTA
64 ATAT-TTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTA
* *
1405235 TCTTTTAAAATGTTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATAC
128 TCTTTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATAC
* *
1405300 CTTATATAAATATAAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATATAAAATAATA
193 CTTATATAAATAT-AAAAAATAGATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATA
* * * * *
1405365 AAATTATAAACATGTAAAGAAAAATATTAAAATGATGACGGTCGTTAAATTTGATTAA
257 AAATTA-AAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAA
1405423 ATTATAATAT
Statistics
Matches: 900, Mismatches: 62, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
323 59 0.07
324 108 0.12
325 60 0.07
326 1 0.00
328 7 0.01
329 1 0.00
333 135 0.15
334 235 0.26
335 129 0.14
336 100 0.11
337 41 0.05
338 24 0.03
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (332 bp):
AAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAAAAAAGATATAT
ATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATCT
TTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCTT
ATATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAAT
TAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATTTG
ATGTTAT
Found at i:1405382 original size:669 final size:654
Alignment explanation
Indices: 1404115--1405422 Score: 2091
Period size: 669 Copynumber: 2.0 Consensus size: 654
1404105 AAATTATTGC
* *
1404115 AAAAAATAATCAAACATATAATATTCGTAAATTTTGTATTGAGCTACTACAAAAGAAAAGATATA
1 AAAAAATAATCAAACATATAATATCCGTAAATTTTGTATTGAGCTACTACAAAAAAAAAGATATA
* * *
1404180 TATTTTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATTATTATTTTATC
66 TATATTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATAATAATTTTATC
* * *
1404245 TTTAAGATGCTTTTTATATCTCTCTTGGTTAAAGTACTTAAGGAATATTTTTATATAATACCTTA
131 TTTAAGATACTTTTTATATCTCTCTTAGTTAAAGTACTTAAGAAATATTTTTATATAATACCTTA
*
1404310 TATAAATATAAAAAATAGATAAATTAATTTTTATACATTTAAAATTATAAAATTAAAAACATGTA
196 TATAAATATAAAAAATAAATAAATTAATTTTTATACATTTAAAATTATAAAATTAAAAACATGTA
1404375 AAGGAAAATATTAAAATGATGATGTTAGTTACTATGATTAATTTTATTAGTTGATGTTGTAAAAA
261 AAGGAAAATATTAAAATGATGATGTTAGTTACTATGATTAATTTTATTAGTTGATGTTGT---AA
*
1404440 AAAAAAAATCAAACATATAATATTCGTGAATTTTGTATTGAGCTACTACAAAAGAAAATATATAT
323 AAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAGAAAATATATAT
* * *
1404505 ACTTTTTAAGTGTAAGTGAGGTGAGACGAATAATTTTAGCAAAGATAAAATTATTATTTTATCTT
388 ACTTTTTAAGTATAAGTGAGGTGAGACGAATAATTTTAGCAAAAATAAAATTATTAGTTTATCTT
* * *
1404570 TTAAGATGTTTTTTATATCTCTCTTGGTTAAAGTACTCACGGAATATTTTTATTATAATACCTTA
453 TTAAAATGTTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCTTA
*
1404635 CATAAATATAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATATAAAATTAGAAAATT
518 CATAAATATAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATATAAAATAAGAAAATT
* * * *
1404700 TGAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATTT
583 T-AAAACATGTAAAGAAAAATATTAAAATGATGACGGTAGTTAAATTTGATTAATTTTATTATTT
1404765 GATGTTAT
647 GATGTTAT
* * *
1404773 AAAAAA-ATTCAAACATATAATATCCGTGAATTTTGTATTGAGCTATTACAAAAAAAAAGATATA
1 AAAAAATAATCAAACATATAATATCCGTAAATTTTGTATTGAGCTACTACAAAAAAAAAGATATA
*
1404837 TATATTTTTAAGTATAAGTGAGGTGAGATGAACAATTTTAGCAAAGATAAAATAATAATTTTATC
66 TATATTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATAATAATTTTATC
* *
1404902 TTTTAAGATACTTTTTATATCTCTCTTAGTTAAAGTACTTACGAAATGTTTTTATTATAATACCT
131 -TTTAAGATACTTTTTATATCTCTCTTAGTTAAAGTACTTAAGAAATATTTTTA-TATAATACCT
1404967 TATATAAATATAAAAAATAAATAAATTAATTTTTATACATTTAAAATTAATATAAAATTATAAAA
194 TATATAAATATAAAAAATAAATAAATTAATTTTTATAC-------A-T--T-TAAAATTATAAAA
* *
1405032 TTAAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTTAACTTTGATTAATTTTATTATT
248 TTAAAAACATGTAAAGGAAAATATTAAAATGATGATGTTAGTT-ACTATGATTAATTTTATTAGT
1405097 TGATGTTGT-AAAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAG
312 TGATGTTGTAAAAAAAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAG
* *
1405161 AAAAAATATATATATTTTTTAAGTATAAGTGAGGTGAGACGAATAATTTTAGTAAAAATAAAATT
377 --AAAATATATATACTTTTTAAGTATAAGTGAGGTGAGACGAATAATTTTAGCAAAAATAAAATT
1405226 ATTAGTTTATCTTTTAAAATGTTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTA
440 ATTAGTTTATCTTTTAAAATGTTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTA
*
1405291 TTATAATACCTTATATAAATATAAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATAT
505 TTATAATACCTTACATAAATAT-AAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATAT
* *
1405356 AAAATAATAAAA-TTATAAACATGTAAAGAAAAATATTAAAATGATGACGGTCGTTAAATTTGAT
569 AAAATAAGAAAATTTA-AAACATGTAAAGAAAAATATTAAAATGATGACGGTAGTTAAATTTGAT
1405420 TAA
633 TAA
1405423 ATTATAATAT
Statistics
Matches: 598, Mismatches: 34, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
657 114 0.19
658 54 0.09
659 47 0.08
666 1 0.00
667 55 0.09
668 1 0.00
669 190 0.32
670 108 0.18
671 28 0.05
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (654 bp):
AAAAAATAATCAAACATATAATATCCGTAAATTTTGTATTGAGCTACTACAAAAAAAAAGATATA
TATATTTTTAAGTATAAGTGAGGTGAGACGAACAATTTTAGCAAAGATAAAATAATAATTTTATC
TTTAAGATACTTTTTATATCTCTCTTAGTTAAAGTACTTAAGAAATATTTTTATATAATACCTTA
TATAAATATAAAAAATAAATAAATTAATTTTTATACATTTAAAATTATAAAATTAAAAACATGTA
AAGGAAAATATTAAAATGATGATGTTAGTTACTATGATTAATTTTATTAGTTGATGTTGTAAAAA
AAAAATCAAACATATAATATCCGTGAATTTTGTATTGAGCTACTACAAAAGAAAATATATATACT
TTTTAAGTATAAGTGAGGTGAGACGAATAATTTTAGCAAAAATAAAATTATTAGTTTATCTTTTA
AAATGTTTTTTATATCTCTCTTGGTTAAAGTACTCAAGAAATATTTTTATTATAATACCTTACAT
AAATATAAAAAATAGATAAATTAATTTTTATACGTTTAAAATTAATATAAAATAAGAAAATTTAA
AACATGTAAAGAAAAATATTAAAATGATGACGGTAGTTAAATTTGATTAATTTTATTATTTGATG
TTAT
Found at i:1405450 original size:14 final size:15
Alignment explanation
Indices: 1405422--1405463 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
1405412 AATTTGATTA
1405422 AATTATAATATAATTT
1 AATTA-AATATAATTT
1405438 AATTAAA-ATAATTT
1 AATTAAATATAATTT
*
1405452 ATTTAAATATAA
1 AATTAAATATAA
1405464 GCTTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 13 0.54
15 6 0.25
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAAATATAATTT
Found at i:1405469 original size:13 final size:13
Alignment explanation
Indices: 1405453--1405485 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1405443 AAATAATTTA
1405453 TTTAAATATAAGC-
1 TTTAAATATAA-CT
1405466 TTTAAATATAACT
1 TTTAAATATAACT
1405479 TTTAAAT
1 TTTAAAT
1405486 TATTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTAAATATAACT
Found at i:1406560 original size:2 final size:2
Alignment explanation
Indices: 1406553--1406587 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1406543 CTTCCAACTA
*
1406553 AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1406588 TACATCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.46, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1406599 original size:2 final size:2
Alignment explanation
Indices: 1406594--1406626 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1406584 CACATACATC
1406594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1406627 TCATTAGATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1406793 original size:33 final size:33
Alignment explanation
Indices: 1406756--1406845 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
1406746 CAGTTGCACC
*
1406756 ACCATTAACTGCAGAAACATTAGTTGTGTTTCT
1 ACCATTAACTGCAGAAACATTAGTAGTGTTTCT
*
1406789 ACCATTAACTGCAGTAACATTAGTAGTGTTTCT
1 ACCATTAACTGCAGAAACATTAGTAGTGTTTCT
* *
1406822 ACCATTAATTCCAGAAACATTAGT
1 ACCATTAACTGCAGAAACATTAGT
1406846 GTTTATAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
ACCATTAACTGCAGAAACATTAGTAGTGTTTCT
Found at i:1412303 original size:31 final size:31
Alignment explanation
Indices: 1412268--1412348 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 31
1412258 TATTAATAAT
1412268 TAAATATTATTTTATTATCTTTTAATT-TATA
1 TAAATATTA-TTTATTATCTTTTAATTATATA
*
1412299 TAAATA-TA-TTATTAT-TATTAATTATATA
1 TAAATATTATTTATTATCTTTTAATTATATA
* *
1412327 TAAATTTTAATTTAATATCTTT
1 TAAATATT-ATTTATTATCTTT
1412349 AGTGATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
27 7 0.17
28 16 0.39
29 1 0.02
30 3 0.07
31 12 0.29
32 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TAAATATTATTTATTATCTTTTAATTATATA
Found at i:1413321 original size:18 final size:18
Alignment explanation
Indices: 1413298--1413338 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1413288 GTGGATGAGG
1413298 AAAAAAAAATGTGTAAAA
1 AAAAAAAAATGTGTAAAA
** *
1413316 AAAAAATCATGTTTAAAA
1 AAAAAAAAATGTGTAAAA
1413334 AAAAA
1 AAAAA
1413339 CTAGCAGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAAAAAAATGTGTAAAA
Found at i:1416405 original size:17 final size:17
Alignment explanation
Indices: 1416383--1416422 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
1416373 GGAAAAGAAT
1416383 AAATAAAAAATTATTGA
1 AAATAAAAAATTATTGA
1416400 AAAT--AAAATTATTGA
1 AAATAAAAAATTATTGA
*
1416415 AAAGAAAA
1 AAATAAAA
1416423 TTGTCGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 14 0.70
17 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (17 bp):
AAATAAAAAATTATTGA
Found at i:1416409 original size:15 final size:15
Alignment explanation
Indices: 1416389--1416424 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1416379 GAATAAATAA
*
1416389 AAAATTATTGAAAAT
1 AAAATTATTGAAAAG
1416404 AAAATTATTGAAAAG
1 AAAATTATTGAAAAG
1416419 AAAATT
1 AAAATT
1416425 GTCGAACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (15 bp):
AAAATTATTGAAAAG
Found at i:1423001 original size:20 final size:20
Alignment explanation
Indices: 1422976--1423029 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1422966 ATAACTCAAA
1422976 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
1422996 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
*
1423016 GTATTGATACATAG
1 GTATCGATACATAG
1423030 AAGGTTGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:1424071 original size:17 final size:16
Alignment explanation
Indices: 1424046--1424080 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1424036 CAATTCATGG
1424046 TTTTTTTTTTATATAT
1 TTTTTTTTTTATATAT
*
1424062 TTTTTCTTTTTTTATAT
1 TTTTT-TTTTTATATAT
1424079 TT
1 TT
1424081 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTATATAT
Found at i:1424291 original size:30 final size:30
Alignment explanation
Indices: 1424234--1424291 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1424224 TTTTGTTCTA
**
1424234 CTTGATTGAGTAGAAAATTTTCATGAATGG
1 CTTGATTGAGTAGAAAATTAACATGAATGG
*
1424264 CTTGATTTAGT-GAAAATTAACAGTGAAT
1 CTTGATTGAGTAGAAAATTAACA-TGAAT
1424292 TTAACCTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (30 bp):
CTTGATTGAGTAGAAAATTAACATGAATGG
Found at i:1424550 original size:17 final size:17
Alignment explanation
Indices: 1424512--1424555 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1424502 GTACGGTTAC
1424512 ATTTATGTTTTCAAATT
1 ATTTATGTTTTCAAATT
* *
1424529 TTTTATTTTTCTCAAA-T
1 ATTTATGTTT-TCAAATT
1424546 ATTTATGTTT
1 ATTTATGTTT
1424556 GAAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (17 bp):
ATTTATGTTTTCAAATT
Found at i:1424636 original size:17 final size:17
Alignment explanation
Indices: 1424598--1424638 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1424588 TTGCAACATA
1424598 ATTTTTCAAATATAAATT
1 ATTTTT-AAATATAAATT
1424616 -TTTTTAAAT-TAAATAT
1 ATTTTTAAATATAAAT-T
1424632 ATTTTTA
1 ATTTTTA
1424639 TCTAACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 11 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTAAATATAAATT
Found at i:1425312 original size:60 final size:60
Alignment explanation
Indices: 1425219--1425335 Score: 209
Period size: 60 Copynumber: 1.9 Consensus size: 60
1425209 GGCAGCATAA
1425219 ATAAGGTATTTTTGTTTCTCTCATATATTGAAGTAACATATAAAAAAATTACTTGCTTAT
1 ATAAGGTATTTTTGTTTCTCTCATATATTGAAGTAACATATAAAAAAATTACTTGCTTAT
*
1425279 ATAAGGTATTTTTGTTTCT-TCAATATATTGAAGTAACATATAAAGAAATTACTTGCT
1 ATAAGGTATTTTTGTTTCTCTC-ATATATTGAAGTAACATATAAAAAAATTACTTGCT
1425336 AAGTGCTGAT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (60 bp):
ATAAGGTATTTTTGTTTCTCTCATATATTGAAGTAACATATAAAAAAATTACTTGCTTAT
Found at i:1428921 original size:2 final size:2
Alignment explanation
Indices: 1428914--1428944 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1428904 ATATCTCACT
*
1428914 TC TC TC TC TC TC TC TC TC TC TG TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1428945 ATCTATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1428967 original size:2 final size:2
Alignment explanation
Indices: 1428960--1429029 Score: 76
Period size: 2 Copynumber: 37.0 Consensus size: 2
1428950 TCTATTTATC
* *
1428960 TA TA TA TA -A AA TA AA TA TA -A TA TA TA -A TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1428998 CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1429030 CTCACTCGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
1 4 0.07
2 53 0.93
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:1439615 original size:201 final size:200
Alignment explanation
Indices: 1439324--1439707 Score: 502
Period size: 201 Copynumber: 1.9 Consensus size: 200
1439314 CATTCATAAT
*
1439324 TTTTTTTATCTCATTCATTGAATTTAATATAAATATTAATCATTCAACATCAATTTAAATGATAT
1 TTTTTTTATCTCATTCATTGAATTTAATATAAATATTAATCATTCAACATCAACTTAAATGATAT
* *
1439389 TTGTATTCCATATTAGCTCTTTTTAAT-AGGATTGGAATGAATAAATTATTAAAAATACAATACA
66 TTGAATTCCATATTAGATCTTTTTAATAAGG-TTGGAATGAATAAATTATTAAAAATACAATACA
** * *
1439453 AAAATTATAACTAATTAATTTTATTTCATTCATTGAATTTAATATAATATATTAGTTTATCTCAT
130 AAAATTATAACTAATTAATTTTATCCCATTCATTGAATTGAACATAATATATTAGTTTATCTCAT
1439518 TTATGG
195 TTATGG
* * * * * *
1439524 TTTTTTTATGTCATTTATTTAATTTAATATAAAATATTAATCATTCAACATTAAGCTTAATTGTT
1 TTTTTTTATCTCATTCATTGAATTTAATAT-AAATATTAATCATTCAACATCAA-CTTAAATGAT
* * * * * ** * *
1439589 TTTTGAATTTCATTTTA-ATTTTTTTAATAAGGTTTGAATGGTTAAATTATTAAAAATATAATAT
64 ATTTGAATTCCATATTAGATCTTTTTAATAAGGTTGGAATGAATAAATTATTAAAAATACAATAC
* **
1439653 AAAAATTATATCTAATTAATTTTATCCCATTTGTTGAATTGAACATAATATATTA
129 AAAAATTATAACTAATTAATTTTATCCCATTCATTGAATTGAACATAATATATTA
1439708 ATCATTCAAC
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
200 27 0.17
201 106 0.68
202 23 0.15
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (200 bp):
TTTTTTTATCTCATTCATTGAATTTAATATAAATATTAATCATTCAACATCAACTTAAATGATAT
TTGAATTCCATATTAGATCTTTTTAATAAGGTTGGAATGAATAAATTATTAAAAATACAATACAA
AAATTATAACTAATTAATTTTATCCCATTCATTGAATTGAACATAATATATTAGTTTATCTCATT
TATGG
Found at i:1440908 original size:39 final size:39
Alignment explanation
Indices: 1440837--1440926 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
1440827 AACAGTATAC
*
1440837 AAGTTTATATAA--T-TTATATAATTTTAATTACTCAAA
1 AAGTTTATATAATTTCTTATATAATTTTAAATACTCAAA
*
1440873 TAA-TTTATATAATTTCTTATTTAATTTTAAATACTCAAA
1 -AAGTTTATATAATTTCTTATATAATTTTAAATACTCAAA
*
1440912 AAGTTTTTATAATTT
1 AAGTTTATATAATTT
1440927 GCATTAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.20
37 2 0.04
38 3 0.07
39 32 0.70
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (39 bp):
AAGTTTATATAATTTCTTATATAATTTTAAATACTCAAA
Found at i:1444488 original size:2 final size:2
Alignment explanation
Indices: 1444483--1444510 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1444473 TACAAGTCAA
1444483 AT 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 AT
1444511 TTAAATTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1449221 original size:80 final size:78
Alignment explanation
Indices: 1449137--1449284 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 78
1449127 TAGTAGGATA
* ** *
1449137 GGAGTATACCTAGAGATGAAAAATATGGTGTTTTAGAAGTAAAAATGAGGTTGAAGTATCTCCTC
1 GGAGTATACCTAGAGATGAAAAATACGACGTTTTAGAAGTAAAAACGAGGTTGAAGTAT-TCCT-
1449202 AAAGATTGTGGGGTT
64 AAAGATTGTGGGGTT
* * * *
1449217 GGAGTATCCCTGGAGATGAAAAATACGACGTTTTAGAAGTAAAAACGGGGTTGGAGTATTCCTAA
1 GGAGTATACCTAGAGATGAAAAATACGACGTTTTAGAAGTAAAAACGAGGTTGAAGTATTCCTAA
1449282 AGA
66 AGA
1449285 AGAAAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 5 0.08
79 4 0.07
80 51 0.85
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (78 bp):
GGAGTATACCTAGAGATGAAAAATACGACGTTTTAGAAGTAAAAACGAGGTTGAAGTATTCCTAA
AGATTGTGGGGTT
Found at i:1449290 original size:52 final size:52
Alignment explanation
Indices: 1449211--1449330 Score: 141
Period size: 52 Copynumber: 2.3 Consensus size: 52
1449201 CAAAGATTGT
* ** *
1449211 GGGGTTGGAGTATCCCTGGAGATGAAAAATACGACGTTTTAGAAGTAAAAAC
1 GGGGTTGGAGTATTCCTAAAGAAGAAAAATACGACGTTTTAGAAGTAAAAAC
* ** ** *
1449263 GGGGTTGGAGTATTCCTAAAGAAGAAAATTTTGGTGTTTTAGAAGTAAAAAT
1 GGGGTTGGAGTATTCCTAAAGAAGAAAAATACGACGTTTTAGAAGTAAAAAC
*
1449315 GAGGTTGGAGTATTCC
1 GGGGTTGGAGTATTCC
1449331 CTCAAAGATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.28
Consensus pattern (52 bp):
GGGGTTGGAGTATTCCTAAAGAAGAAAAATACGACGTTTTAGAAGTAAAAAC
Found at i:1449401 original size:80 final size:80
Alignment explanation
Indices: 1449263--1449483 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 80
1449253 AAGTAAAAAC
* * * * * * * *
1449263 GGGGTTGGAGTATTCCTAAAGAAGAAAATTTTGGTGTTTTAGAAGTAAAAATGAGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCAAAGATGAAAAATTTAGTCTTTTAGAAGTAAAAATGAGGTTGAAATA-
1449328 TCCC-TCAAAGATGGT
65 TCCCTTCAAAGATGGT
* * * *
1449343 GGGGTTGGAATATCCCCAAAGATGAAAAATTTAGTCTTTTGGACGTAAAAATGGGGTTGAAATAT
1 GGGGTTGGAGTATCCCCAAAGATGAAAAATTTAGTCTTTTAGAAGTAAAAATGAGGTTGAAATAT
*
1449408 CCCTTCGAAGATGGT
66 CCCTTCAAAGATGGT
* * * * * *
1449423 AGGGTTGGAGTATCTCCATAA-ATGAAAAATTT-GATTTTTTAAAAGTAAAAACGGGGTTGAA
1 GGGGTTGGAGTATCCCCA-AAGATGAAAAATTTAG-TCTTTTAGAAGTAAAAATGAGGTTGAA
1449484 GTACCTTTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
79 5 0.04
80 110 0.94
81 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (80 bp):
GGGGTTGGAGTATCCCCAAAGATGAAAAATTTAGTCTTTTAGAAGTAAAAATGAGGTTGAAATAT
CCCTTCAAAGATGGT
Found at i:1451430 original size:17 final size:17
Alignment explanation
Indices: 1451408--1451451 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
1451398 CTCTCTCTAG
1451408 AATCCTCTTTGGAAAAA
1 AATCCTCTTTGGAAAAA
1451425 AATCCTCTTTGGAAAAA
1 AATCCTCTTTGGAAAAA
1451442 AATCCTCTTT
1 AATCCTCTTT
1451452 TTGCTAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (17 bp):
AATCCTCTTTGGAAAAA
Found at i:1452232 original size:12 final size:12
Alignment explanation
Indices: 1452215--1452239 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1452205 AATAATCATC
1452215 ATAATGACAAGT
1 ATAATGACAAGT
1452227 ATAATGACAAGT
1 ATAATGACAAGT
1452239 A
1 A
1452240 AAAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:1453761 original size:2 final size:2
Alignment explanation
Indices: 1453754--1453790 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1453744 GATTTTCAAA
* *
1453754 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1453791 AATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1454183 original size:16 final size:16
Alignment explanation
Indices: 1454162--1454215 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
1454152 CATTTCATAT
1454162 TTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTTTTC
*
1454178 TTTTTCTTTTTTCTTC
1 TTTTTCTTTTTTTTTC
** *
1454194 TTCATCTTCTTTCTTTC
1 TTTTTCTT-TTTTTTTC
1454211 TTTTT
1 TTTTT
1454216 TACCTAACTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTC
Found at i:1455523 original size:32 final size:32
Alignment explanation
Indices: 1455460--1455987 Score: 894
Period size: 32 Copynumber: 16.5 Consensus size: 32
1455450 AAAATGGTGA
* * * **
1455460 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1455492 TTTTAAATGGGTTACCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455524 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455556 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455588 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455620 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455652 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455684 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455716 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455748 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1455780 TTTGGATTGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1455812 TTTGAAATGGGTTGCCACAGACTTGTGTGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455844 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455876 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455908 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1455940 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455972 TTTGGAATGGGTTGCC
1 TTTGAAATGGGTTGCC
1455988 TTTGAAATGG
Statistics
Matches: 466, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 466 1.00
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1455996 original size:16 final size:16
Alignment explanation
Indices: 1455971--1456003 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1455961 CTTGTGTGGG
*
1455971 CTTTGGAATGGGTTGC
1 CTTTGAAATGGGTTGC
1455987 CTTTGAAATGGGTTGC
1 CTTTGAAATGGGTTGC
1456003 C
1 C
1456004 ACCGACTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (16 bp):
CTTTGAAATGGGTTGC
Found at i:1456010 original size:48 final size:48
Alignment explanation
Indices: 1455939--1456035 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
1455929 CTTGTGTGGG
*
1455939 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
1455987 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
1456035 C
1 C
1456036 ACCGACTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.33
Consensus pattern (48 bp):
CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGC
Found at i:1456023 original size:32 final size:32
Alignment explanation
Indices: 1455987--1456282 Score: 547
Period size: 32 Copynumber: 9.2 Consensus size: 32
1455977 AATGGGTTGC
1455987 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1456019 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1456051 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
*
1456083 CTTTGCAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
*
1456115 CTTTGAAATGGGTTGCCACTGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
*
1456147 CTTTGGAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1456179 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1456211 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
* *
1456243 CTTTGCAATGGGTTACCACCGACTTGTGTGGG
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
1456275 CTTTGAAA
1 CTTTGAAA
1456283 GGATGCCATG
Statistics
Matches: 255, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 255 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.32
Consensus pattern (32 bp):
CTTTGAAATGGGTTGCCACCGACTTGTGTGGG
Found at i:1456040 original size:80 final size:80
Alignment explanation
Indices: 1455907--1456067 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
1455897 CTTGTGTGGG
*
1455907 CTTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455972 TTTGGAATGGGTTGC
66 TTTGAAATGGGTTGC
1455987 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1456052 TTTGAAATGGGTTGC
66 TTTGAAATGGGTTGC
1456067 C
1 C
1456068 ACCGACTTGT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.16, C:0.17, G:0.34, T:0.33
Consensus pattern (80 bp):
CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
TTTGAAATGGGTTGC
Found at i:1456072 original size:112 final size:112
Alignment explanation
Indices: 1455875--1456099 Score: 423
Period size: 112 Copynumber: 2.0 Consensus size: 112
1455865 CTTGTGTGGG
* *
1455875 CTTTGCAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1455940 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGC
66 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGCAATGGGTTGC
1455987 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1456052 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGCAATGGGTTGC
66 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGCAATGGGTTGC
1456099 C
1 C
1456100 ACCGACTTGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.15, C:0.19, G:0.34, T:0.32
Consensus pattern (112 bp):
CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGCAATGGGTTGC
Found at i:1456311 original size:27 final size:27
Alignment explanation
Indices: 1456280--1457102 Score: 1286
Period size: 27 Copynumber: 30.1 Consensus size: 27
1456270 GTGGGCTTTG
* *
1456280 AAAGGATGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1456307 AAAGGGTGCCACGGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1456334 AAAGGGTGCTACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456361 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1456388 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456415 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
1456443 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456470 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456497 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
1456525 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
1456552 AAAGATATGCCACGGAGTTGTGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
1456580 AAAGGGTGTCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1456607 AAAGGGTGCCACGGAGTTGTGGTCTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
*
1456635 AAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
1456662 AAAGGGTGCCGCGAAGTTATAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1456689 AAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456716 AAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
1456744 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
1456771 AAAGAGATGCCGCGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
1456799 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1456826 AAAGGGTGCCACGGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456853 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
1456881 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456908 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
1456935 AAAGAATGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
1456963 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1456990 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
*
1457018 AAAGGGCGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1457045 AAAGGGTGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
1457072 AAAGGGTGCTACAGAGTTGTGGGCTTT
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1457099 AAAG
1 AAAG
1457103 AGGTCACACT
Statistics
Matches: 733, Mismatches: 54, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
27 504 0.69
28 229 0.31
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1456470 original size:82 final size:81
Alignment explanation
Indices: 1456280--1457102 Score: 1286
Period size: 82 Copynumber: 10.0 Consensus size: 81
1456270 GTGGGCTTTG
* * * *
1456280 AAAGGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1456345 CGGAGTTGTGGACTTA
66 CGGAGTTGTGGACTTA
* *
1456361 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGATGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCC
1456426 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
1456443 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1456508 CGGAGTTGTGGACTTTA
66 CGGAGTTGTGGAC-TTA
* ** *
1456525 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1456590 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
* *
1456607 AAAGGGTGCCACGGAGTTGTGGTCTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * * *
1456672 GCGAAGTTATAGACTTA
65 ACGGAGTTGTGGACTTA
*
1456689 AAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCC
1456754 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
* * *
1456771 AAAGAGATGCCGCGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
*
1456836 ACGGAGTTGTGGTCTTA
65 ACGGAGTTGTGGACTTA
1456853 AAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1456918 ACGGAGTTGTGGACTTA
65 ACGGAGTTGTGGACTTA
** * *
1456935 AAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGATGC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGC
1457000 CACGGAGTTGTGGACTTA
64 CACGGAGTTGTGGACTTA
* * *
1457018 AAAGGGCGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* * *
1457083 CAGAGTTGTGGGCTTT
66 CGGAGTTGTGGACTTA
1457099 AAAG
1 AAAG
1457103 AGGTCACACT
Statistics
Matches: 685, Mismatches: 48, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
81 139 0.20
82 410 0.60
83 136 0.20
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTA
Found at i:1456689 original size:219 final size:219
Alignment explanation
Indices: 1456280--1457102 Score: 1319
Period size: 219 Copynumber: 3.8 Consensus size: 219
1456270 GTGGGCTTTG
* * *
1456280 AAAGGATGCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAG-GGTGC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
* *
1456343 TACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGT
66 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
*
1456408 GGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
131 GGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1456473 GGGTGCCACGGAGTTGTGGACTTA
196 GGGTGCCACGGAGTTGTGGACTTA
* * *
1456497 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
* *
1456562 CACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
66 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
* * * * *
1456627 GGTCTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCGCGAAGTTATAGACTTAAAA
131 GGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
1456692 GGGTGCCATGGAGTTGTGGACTTA
196 GGGTGCCACGGAGTTGTGGACTTA
* *
1456716 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
* * *
1456781 CGCGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
66 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
* *
1456846 GGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
131 GGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1456911 GGGTGCCACGGAGTTGTGGACTTA
196 GGGTGCCACGGAGTTGTGGACTTA
* * * *
1456935 AAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGATGC
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
*
1457000 CACGGAGTTGTGGACTTAAAAGGGCGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
66 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
* * * * *
1457065 GGACTT-AAAAGGGTGCTACAGAGTTGTGGGCTTTAAAG
131 GGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAG
1457103 AGGTCACACT
Statistics
Matches: 558, Mismatches: 46, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
217 22 0.04
218 58 0.10
219 478 0.86
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (219 bp):
AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGT
GGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
GGGTGCCACGGAGTTGTGGACTTA
Found at i:1458423 original size:22 final size:22
Alignment explanation
Indices: 1458377--1458426 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1458367 CATGTCCTCG
*
1458377 TTTTTTTATTTTTGTTGTTCCC
1 TTTTTTTATTTTTGTTGTTCAC
1458399 TTTTTTTA-TTTTGCTT-TTGCAC
1 TTTTTTTATTTTTG-TTGTT-CAC
1458421 TTTTTT
1 TTTTTT
1458427 CTTTTCATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.74
Consensus pattern (22 bp):
TTTTTTTATTTTTGTTGTTCAC
Found at i:1458430 original size:15 final size:16
Alignment explanation
Indices: 1458407--1458449 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1458397 CCTTTTTTTA
1458407 TTTTGCTTTTGCA-CT
1 TTTTGCTTTTGCATCT
*
1458422 TTTTTCTTTT-CATCT
1 TTTTGCTTTTGCATCT
1458437 TTTGTGCTTTTGC
1 TTT-TGCTTTTGC
1458450 TTTTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 6 0.26
17 1 0.04
ACGTcount: A:0.05, C:0.19, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTTGCTTTTGCATCT
Found at i:1462951 original size:12 final size:12
Alignment explanation
Indices: 1462934--1462958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1462924 AATAATCATC
1462934 ATAATGACAAGT
1 ATAATGACAAGT
1462946 ATAATGACAAGT
1 ATAATGACAAGT
1462958 A
1 A
1462959 AAAGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAATGACAAGT
Found at i:1464480 original size:2 final size:2
Alignment explanation
Indices: 1464473--1464517 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
1464463 GATTTTCAAA
* * *
1464473 AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1464515 AT A
1 AT A
1464518 AATAAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1464906 original size:10 final size:10
Alignment explanation
Indices: 1464893--1464922 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1464883 CCATTTCATA
1464893 TTTTTTCTTT
1 TTTTTTCTTT
1464903 TTTTTTCTTT
1 TTTTTTCTTT
*
1464913 TTCTTTCTTT
1 TTTTTTCTTT
1464923 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1464919 original size:20 final size:22
Alignment explanation
Indices: 1464896--1464949 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
1464886 TTTCATATTT
*
1464896 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
1464916 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
1464940 TTTCTTTTTT
1 TTTCTTTTTT
1464950 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:1466255 original size:32 final size:32
Alignment explanation
Indices: 1466192--1468115 Score: 3305
Period size: 32 Copynumber: 60.2 Consensus size: 32
1466182 AAAATGGTGA
* * * **
1466192 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1466224 TTTTAAATGGGTTACCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466256 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466288 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466320 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466352 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466384 TTTGAAATGGGTTGCCACCGACTTGTGTGGCC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466416 TTTGAAATGGGTTGCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466448 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1466480 TTTGCAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466512 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466544 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
** *
1466576 TTTGAAATGGGTTGCCATAGACTTGTGTGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466608 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1466640 TTTGCAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466672 TTTGAAATGGGTTGCCACTGACTTGTGT-GGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466703 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466735 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466767 TTTGAAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466799 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466831 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466863 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
1466895 TTTGAAATGGGTTGCCACTGACTTGTGTTCGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466927 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1466959 TTTGAAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1466991 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1467023 TTTGCAATGGGTTGCCACCGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467055 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467087 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467119 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467151 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467183 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467215 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467247 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467279 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1467311 TTTGCAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467343 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467375 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467407 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467439 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467471 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467503 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1467535 TTTGCAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467567 TTTGAAATGGGTTGCCACTGACTTGTGT-GG-
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467597 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467629 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467661 TTTGAAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467693 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467725 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467757 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1467789 TTTGAAATGGGTTGCCACTGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467821 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467853 TTTGAAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1467885 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467917 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467949 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1467981 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1468013 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1468045 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1468077 TTTGCAGTGGGTTGCTACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1468109 TTTGAAA
1 TTTGAAA
1468116 GGATGCCACG
Statistics
Matches: 1781, Mismatches: 108, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
30 27 0.02
31 34 0.02
32 1720 0.97
ACGTcount: A:0.15, C:0.19, G:0.34, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1468144 original size:27 final size:27
Alignment explanation
Indices: 1468113--1469154 Score: 1688
Period size: 27 Copynumber: 38.1 Consensus size: 27
1468103 GTGGGCTTTG
*
1468113 AAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1468140 AAAGGGTGCCACGGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468167 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468194 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1468221 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468248 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
1468276 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468303 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468330 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
1468358 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
1468385 AAAGATATGCCACGGAGTTGTGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
1468413 AAAGGGTGTCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1468440 AAAGGGTGCCACAGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468467 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
* * *
1468495 AAAGGGTGCCGCGAAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1468522 AAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468549 AAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
1468577 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1468604 AAAGAGATGCCACGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
1468632 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468659 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468686 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1468713 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468740 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
*
1468768 AGAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1468795 AAAGGGTGCCACGGAGTTGTGGAGTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468822 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
1468850 AAAAGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
1468877 AAAGATATGCCACGGAGTTGTGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
1468905 AAAGGGTGTCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1468932 AAAGGGTGCCACGGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1468959 AAAGGGATGCCACGGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
* * * *
1468987 AAAGGGTGCCGCGAAGTTATGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1469014 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1469041 AAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
1469069 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1469096 AAAGAGATGCCACGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
1469124 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1469151 AAAG
1 AAAG
1469155 CATTGTATTC
Statistics
Matches: 940, Mismatches: 63, Indels: 24
0.92 0.06 0.02
Matches are distributed among these distances:
27 635 0.68
28 305 0.32
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1468520 original size:219 final size:217
Alignment explanation
Indices: 1468113--1469154 Score: 1701
Period size: 219 Copynumber: 4.8 Consensus size: 217
1468103 GTGGGCTTTG
* *
1468113 AAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
1468178 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGG
66 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
*
1468243 ACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
131 ACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
1468308 G-TGCCACGGAGTTGTGGACTTA
195 GATGCCACGGAGTTGTGGACTTA
* **
1468330 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGC
* * *
1468395 CACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGT
64 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGT
* * *
1468460 GGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCGCGAAGTTATGGACTTAAAA
129 GGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
*
1468525 GGG-TGCCATGGAGTTGTGGACTTA
193 GGGATGCCACGGAGTTGTGGACTTA
*
1468549 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGC
1 AAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGC
* *
1468614 CACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT
64 CACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGT
*
1468679 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAG
129 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAG
1468744 GGATGCCACGGAGTTGTGGACTTA
194 GGATGCCACGGAGTTGTGGACTTA
* *
1468768 AGAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAGTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
* * *
1468833 CGGAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTGT
66 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGT
* * *
1468898 GGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAG
129 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAG
1468963 GGATGCCACGGAGTTGTGGACTTA
194 GGATGCCACGGAGTTGTGGACTTA
* * * *
1468987 AAAGGGTGCCGCGAAGTTATGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
1469052 CGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTAT
66 CGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGT
1469117 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
129 GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1469155 CATTGTATTC
Statistics
Matches: 771, Mismatches: 47, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
217 41 0.05
218 150 0.19
219 580 0.75
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (217 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGG
ATGCCACGGAGTTGTGGACTTA
Found at i:1469041 original size:492 final size:492
Alignment explanation
Indices: 1468113--1469154 Score: 2005
Period size: 492 Copynumber: 2.1 Consensus size: 492
1468103 GTGGGCTTTG
* *
1468113 AAAG-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCC
1 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1468177 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTG
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTG
1468242 GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
131 GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
*
1468307 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAG
196 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAG
1468372 AGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
261 AGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
1468437 TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGT
326 TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGT
*
1468502 GCCGCGAAGTTATGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
391 GCCGCGAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1468567 GTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTA
456 GTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTA
1468604 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
1468669 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTG
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTG
*
1468734 GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAGAGGGTGCCACGGAGTTGTGGACTTAAAAG
131 GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
*
1468799 GGTGCCACGGAGTTGTGGAGTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAG
196 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAG
1468864 AGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
261 AGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
*
1468929 TTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGT
326 TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGT
*
1468994 GCCGCGAAGTTATGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
391 GCCGCGAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
1469059 GTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTA
456 GTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTA
1469096 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1469155 CATTGTATTC
Statistics
Matches: 542, Mismatches: 8, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
491 4 0.01
492 538 0.99
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (492 bp):
AAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTG
GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAG
AGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGT
GCCGCGAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
GTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1472649 original size:32 final size:32
Alignment explanation
Indices: 1472586--1473583 Score: 1755
Period size: 32 Copynumber: 31.2 Consensus size: 32
1472576 AAAATGGTGA
* * * **
1472586 TTTGAAAAGGGGTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1472618 TTTTAAATGGGTTACCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1472650 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1472682 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1472714 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472746 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472778 TTTAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1472810 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472842 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472874 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1472906 TTTGAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472937 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1472969 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473001 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473033 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473065 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473097 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473129 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473161 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473193 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473225 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1473257 TTTGAAATGGGTTGCCACTGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473289 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473321 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473353 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473385 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
1473417 TTTGAAATGGGTTGCCACTAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473449 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473481 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473513 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1473545 TTTGCAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1473577 TTTGAAA
1 TTTGAAA
1473584 GGATGCCACG
Statistics
Matches: 918, Mismatches: 47, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
31 30 0.03
32 888 0.97
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1473617 original size:27 final size:27
Alignment explanation
Indices: 1473581--1474129 Score: 830
Period size: 27 Copynumber: 20.1 Consensus size: 27
1473571 GTGGGCTTTG
* *
1473581 AAAGGATGCCACGGAGTTTTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1473608 AAAGGGTGCCACGGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1473635 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1473662 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* **
1473689 AAAGGATGCCACAAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1473716 AAAGGGATGCCACAGAGTTGTGGACTTA
1 AAAGGG-TGCCACGGAGTTGTGGACTTA
1473744 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1473771 AAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1473798 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
1473826 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
** *
1473853 AAAGATATGCCACGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
*
1473881 AAAGGGTGTCACGGAGTT-TGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1473907 AAAGGGTGCCACGGAGTTGTGGTCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1473934 AAATGGATGCCATGGAGTTGTGGACTTA
1 AAA-GGGTGCCACGGAGTTGTGGACTTA
* * *
1473962 AAAGGGTGCCGCGAAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
1473989 AAAGGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1474016 AAAGGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTT-A
*
1474044 AAAGGGTGCCACGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
1474071 AAAGAGATGCCACGGAGTTATGGACTTA
1 AAAG-GGTGCCACGGAGTTGTGGACTTA
1474099 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
1474126 AAAG
1 AAAG
1474130 CATTGTATTC
Statistics
Matches: 476, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
26 25 0.05
27 300 0.63
28 151 0.32
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1473745 original size:109 final size:108
Alignment explanation
Indices: 1473581--1474129 Score: 839
Period size: 109 Copynumber: 5.0 Consensus size: 108
1473571 GTGGGCTTTG
* * *
1473581 AAAGGATGCCACGGAGTTTTGGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
*
1473646 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
66 CGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* ** *
1473689 AAAGGATGCCACAAAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* *
1473754 ACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTA
65 ACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* **
1473798 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGC
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGC
*
1473863 CACGGAGTTATGGACTTAAAAGGGTGTCACGGAGTT-TGGACTTA
64 CACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * *
1473907 AAAGGGTGCCACGGAGTTGTGGTCTTAAAATGGATGCCATGGAGTTGTGGACTTAAAAGGGTGCC
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * *
1473972 GCGAAGTTATGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTA
65 ACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* *
1474016 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTATGGACTTAAAAGAGATGC
1 AAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGC
1474081 CACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
64 CACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
1474126 AAAG
1 AAAG
1474130 CATTGTATTC
Statistics
Matches: 402, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
108 71 0.18
109 232 0.58
110 99 0.25
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (108 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
CGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:1474246 original size:27 final size:27
Alignment explanation
Indices: 1474207--1475411 Score: 1845
Period size: 27 Copynumber: 44.0 Consensus size: 27
1474197 AGTGTGACCT
* *
1474207 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474234 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1474261 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474288 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1474316 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1474343 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1474371 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474398 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1474426 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474453 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1474480 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1474508 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474535 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
1474563 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1474590 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474617 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1474645 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1474672 CTTTTAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1474699 CTTTTAAGTCCACAACTCCGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1474727 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474754 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1474782 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474809 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474836 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1474864 CTTTTTAGTCCACAACTTCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1474892 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1474919 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1474946 CTTTTAAGTCCACAACTCCGCAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1474973 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1475001 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1475028 CTTTTATGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1475055 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1475083 CTTTTAAGACCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1475110 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1475137 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1475165 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1475192 CTTTTTAA-TCCATAACTCCGTAGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
1475219 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1475246 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1475273 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1475300 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1475328 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1475355 CTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
1475383 CTTTTAAAATCCATAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1475411 C
1 C
1475412 ATTTCAAAAC
Statistics
Matches: 1085, Mismatches: 77, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.01
27 674 0.62
28 405 0.37
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1474346 original size:82 final size:81
Alignment explanation
Indices: 1474207--1475411 Score: 1845
Period size: 82 Copynumber: 14.7 Consensus size: 81
1474197 AGTGTGACCT
* * *
1474207 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1474272 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
1474288 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
1474353 CCACAACTCCGTGGCATT
64 CCACAACTCCGTGGCACC
*
1474371 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1474436 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* *
1474453 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1474518 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
1474535 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1474600 CACAACTCCGCGGCACC
65 CACAACTCCGTGGCACC
*
1474617 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
1474682 TACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
** *
1474699 CTTTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
1474764 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
1474782 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1474847 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
1474864 CTTTTTAGTCCACAACTTCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1474929 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
** * *
1474946 CTTTTAAGTCCACAACTCCGCAGCACCCTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1475011 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
1475028 CTTTTATGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1475093 CATAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
1475110 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCATGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1475175 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
1475192 CTTTTTAA-TCCATAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1475256 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
1475273 CTTTTAAGACCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
1475338 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* * * * * *
1475355 CTTTTAAAATCCACAACTCTGTGGCACTCTTTTAAAATCCATAACTCTGTGGCACCC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
1475412 ATTTCAAAAC
Statistics
Matches: 1036, Mismatches: 74, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
80 6 0.01
81 161 0.16
82 621 0.60
83 230 0.22
84 18 0.02
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:1474455 original size:137 final size:135
Alignment explanation
Indices: 1474207--1475411 Score: 1845
Period size: 137 Copynumber: 8.8 Consensus size: 135
1474197 AGTGTGACCT
* * *
1474207 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
1474272 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
*
1474337 GGCATC
130 GGCACC
**
1474343 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1474408 CACAACTCCGTGGCATCCCTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCG
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
1474473 TGGCACC
129 TGGCACC
* *
1474480 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGT
1474545 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
*
1474610 CGGCACC
129 TGGCACC
*
1474617 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* ** *
1474682 TACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTCCACAACTCTG
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCG
1474747 TGGCACC
129 TGGCACC
1474754 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1474819 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTTAGTCCACAACTTCG
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCG
1474884 TGGCATCC
129 TGGCA-CC
1474892 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
** * *
1474957 ACAACTCCGCAGCACCCTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
1475022 GGCACC
130 GGCACC
* * * *
1475028 CTTTTATGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* * * *
1475093 CATAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCCAT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
*
1475158 GGCATCT
130 GGCA-CC
* *
1475165 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTTAA-TCCATAACTCCGTAGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
1475229 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTTCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
1475294 GGCACC
130 GGCACC
* * * *
1475300 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
* * * * *
1475365 CCACAACTCTGTGGCACTCTTTTAAAATCCATAACTCTGTGGCACCC
64 CCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
1475412 ATTTCAAAAC
Statistics
Matches: 983, Mismatches: 72, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
135 31 0.03
136 245 0.25
137 605 0.62
138 102 0.10
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (135 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACC
Found at i:1475791 original size:32 final size:32
Alignment explanation
Indices: 1475403--1475783 Score: 640
Period size: 32 Copynumber: 11.9 Consensus size: 32
1475393 CCATAACTCT
*
1475403 GTGGC-ACCCATTTCAAAACCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1475434 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1475466 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
1475498 GTGGCAACCCTTTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1475530 GTGGCAA-CCATTTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCA-TTTCAAAGCCCACACAAGTCG
*
1475562 GTGGCAACCCTTTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1475594 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
1475626 GTGGCAACCCTTTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
1475658 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1475690 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
1475722 GTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
** * * *
1475754 GTGGCAATTCTTTTCAAGGCCCACATAAGT
1 GTGGCAACCCATTTCAAAGCCCACACAAGT
1475784 TAGTGGCACC
Statistics
Matches: 332, Mismatches: 15, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
31 7 0.02
32 323 0.97
33 2 0.01
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
GTGGCAACCCATTTCAAAGCCCACACAAGTCG
Found at i:1476386 original size:20 final size:20
Alignment explanation
Indices: 1476358--1476432 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
1476348 TTTTACCTTG
*
1476358 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
1476378 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1476398 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1476418 ATGTATCGATACATT
1 ATGTATCGATACATT
1476433 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1476425 original size:40 final size:39
Alignment explanation
Indices: 1476358--1476435 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1476348 TTTTACCTTG
* **
1476358 ATGTATCGATACATTTTTTAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1476398 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1476436 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1477973 original size:10 final size:10
Alignment explanation
Indices: 1477960--1477989 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1477950 CCATTTCATA
1477960 TTTTTTCTTT
1 TTTTTTCTTT
1477970 TTTTTTCTTT
1 TTTTTTCTTT
*
1477980 TTCTTTCTTT
1 TTTTTTCTTT
1477990 CTTCTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1477986 original size:20 final size:22
Alignment explanation
Indices: 1477963--1478016 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
1477953 TTTCATATTT
*
1477963 TTTCTTTTTTT-TTCTT-TTTC
1 TTTCTTTTTTTCATCTTCTTTC
1477983 TTTCTTTCTTCTTCATCTTCTTTC
1 TTTCTTT-TT-TTCATCTTCTTTC
1478007 TTTCTTTTTT
1 TTTCTTTTTT
1478017 ACCTAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 3 0.10
23 6 0.21
24 11 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTCATCTTCTTTC
Found at i:1479419 original size:21 final size:20
Alignment explanation
Indices: 1479380--1479419 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1479370 AGTATGAATC
* *
1479380 GATACATTCATTCTTGTATT
1 GATACATTAATTATTGTATT
1479400 GATACATTAACTTATTGTAT
1 GATACATTAA-TTATTGTAT
1479420 CAATACAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
GATACATTAATTATTGTATT
Found at i:1483502 original size:17 final size:18
Alignment explanation
Indices: 1483480--1483515 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1483470 CCAATCAATT
1483480 AATTAATT-GAAACAGAA
1 AATTAATTGGAAACAGAA
*
1483497 AATTAATTGGAAAGAGAA
1 AATTAATTGGAAACAGAA
1483515 A
1 A
1483516 GAAAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.03, G:0.17, T:0.22
Consensus pattern (18 bp):
AATTAATTGGAAACAGAA
Found at i:1489517 original size:21 final size:20
Alignment explanation
Indices: 1489470--1489523 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1489460 CATTTGAGAC
*
1489470 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
1489490 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
*
1489510 ATTGTATCAATACA
1 A-TGTATCGATACA
1489524 AATCGTAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:1491328 original size:37 final size:38
Alignment explanation
Indices: 1491233--1491347 Score: 135
Period size: 38 Copynumber: 3.1 Consensus size: 38
1491223 TTAACCCCTA
* * **
1491233 TGGCATAGGTTAGAACAAAAACCACTATTCTAATCCAG
1 TGGCAAAGGTTAGAACAAAAACCACTATTCTTATCTGG
*
1491271 TGGC-AAGATTCAGAACAAAAACCACTATTCTTAT-TGG
1 TGGCAAAGGTT-AGAACAAAAACCACTATTCTTATCTGG
* * *
1491308 TGGCAAAGGTTAGAATAAAAACTACTATTTTTATCTGG
1 TGGCAAAGGTTAGAACAAAAACCACTATTCTTATCTGG
1491346 TG
1 TG
1491348 ACACGAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 29 0.45
38 36 0.55
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (38 bp):
TGGCAAAGGTTAGAACAAAAACCACTATTCTTATCTGG
Found at i:1491394 original size:62 final size:62
Alignment explanation
Indices: 1491323--1491444 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 62
1491313 AAGGTTAGAA
*
1491323 TAAAAACTACTATTTTTA-TCTGGTGACACGAAAAAAATTACTATTCTTATCCGGTAGCACAG
1 TAAAAACTACTATTTTTATTC-GGTGACACGAAAAAAATTACTATTCTTAACCGGTAGCACAG
** * * *
1491385 TAAAAACTACTATTTTTATTCGGTGGTATGACAAAAATTACTATTCTTAACCGGTGGCAC
1 TAAAAACTACTATTTTTATTCGGTGACACGAAAAAAATTACTATTCTTAACCGGTAGCAC
1491445 GATTTGAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 51 0.96
63 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (62 bp):
TAAAAACTACTATTTTTATTCGGTGACACGAAAAAAATTACTATTCTTAACCGGTAGCACAG
Found at i:1491440 original size:31 final size:31
Alignment explanation
Indices: 1491324--1491444 Score: 93
Period size: 31 Copynumber: 3.9 Consensus size: 31
1491314 AGGTTAGAAT
* * * * *
1491324 AAAAACTACTATTTTTATCTGGTGACAC-GAA
1 AAAAATTACTATTCTTATCCGGTGGCACAG-C
* *
1491355 AAAAATTACTATTCTTATCCGGTAGCACAGT
1 AAAAATTACTATTCTTATCCGGTGGCACAGC
* * * * *
1491386 AAAAACTACTATTTTTATTCGGTGGTA-TGAC
1 AAAAATTACTATTCTTATCCGGTGGCACAG-C
*
1491417 AAAAATTACTATTCTTAACCGGTGGCAC
1 AAAAATTACTATTCTTATCCGGTGGCAC
1491445 GATTTGAAAC
Statistics
Matches: 69, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.01
31 67 0.97
32 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (31 bp):
AAAAATTACTATTCTTATCCGGTGGCACAGC
Found at i:1492992 original size:64 final size:64
Alignment explanation
Indices: 1492891--1493084 Score: 343
Period size: 64 Copynumber: 3.0 Consensus size: 64
1492881 AACATAGGAC
* * *
1492891 TTATCTGATCAAACTAAATATACCTATGAAAATATCACATATCATACTATAAAACCCATCTAAG
1 TTATCCGATCAAACTAAATATATCTACGAAAATATCACATATCATACTATAAAACCCATCTAAG
1492955 TTATCCGATCAAACTAAATATATCTACGAAAATATCACATATCATACTATAAAACCCATCTAAG
1 TTATCCGATCAAACTAAATATATCTACGAAAATATCACATATCATACTATAAAACCCATCTAAG
* *
1493019 TTATCCAATCAAACTAAATATATCTACGAAAATATCACATATTATACTATAAAACCCATCTAAG
1 TTATCCGATCAAACTAAATATATCTACGAAAATATCACATATCATACTATAAAACCCATCTAAG
1493083 TT
1 TT
1493085 TCGACAAAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 125 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (64 bp):
TTATCCGATCAAACTAAATATATCTACGAAAATATCACATATCATACTATAAAACCCATCTAAG
Found at i:1494674 original size:2 final size:2
Alignment explanation
Indices: 1494667--1494691 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1494657 CATCAAATCC
1494667 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1494692 AAGTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1496580 original size:2 final size:2
Alignment explanation
Indices: 1496573--1496619 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1496563 TGTTAATTGT
1496573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1496615 TA TA T
1 TA TA T
1496620 GGAATTGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1496818 original size:13 final size:13
Alignment explanation
Indices: 1496800--1496824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1496790 CTTTTTCAAT
1496800 TTTTATTTATTTA
1 TTTTATTTATTTA
1496813 TTTTATTTATTT
1 TTTTATTTATTT
1496825 GTTGTTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:1502153 original size:20 final size:20
Alignment explanation
Indices: 1502110--1502162 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1502100 AGGCTCAATG
* * *
1502110 TATCGATACATTTTACCATG
1 TATCGATACAATTCACCATA
*
1502130 TATCGATACAATTCATCATA
1 TATCGATACAATTCACCATA
*
1502150 TATCGATATAATT
1 TATCGATACAATT
1502163 TATTGATACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (20 bp):
TATCGATACAATTCACCATA
Found at i:1503213 original size:12 final size:12
Alignment explanation
Indices: 1503192--1503223 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1503182 ACTAACATAG
*
1503192 GACTACTCTTAT
1 GACTAATCTTAT
1503204 GACTAATCTTAT
1 GACTAATCTTAT
1503216 GACTAATC
1 GACTAATC
1503224 GTCACTTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (12 bp):
GACTAATCTTAT
Found at i:1514386 original size:3 final size:3
Alignment explanation
Indices: 1514380--1514429 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1514370 TGGATTGTTG
1514380 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1514428 TT
1 TT
1514430 TGCATTAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1515001 original size:16 final size:16
Alignment explanation
Indices: 1514980--1515050 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
1514970 TGCATCATAA
*
1514980 TTATATTTAATATATT
1 TTATATTTAATAAATT
1514996 TTATATTTATATAAATT
1 TTATATTTA-ATAAATT
1515013 TT-TAATATTAAT-AA-T
1 TTAT-AT-TTAATAAATT
* *
1515028 TTATTTTTTATAAATT
1 TTATATTTAATAAATT
1515044 TTGATAT
1 TT-ATAT
1515051 GTTTATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
14 4 0.09
15 6 0.14
16 16 0.36
17 15 0.34
18 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (16 bp):
TTATATTTAATAAATT
Found at i:1515280 original size:20 final size:20
Alignment explanation
Indices: 1515253--1515299 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1515243 AATCAAATAA
*
1515253 TTATATATTTAT-ATATATT
1 TTATATATTAATAATATATT
*
1515272 TTGATATATTAATAATTTATT
1 TT-ATATATTAATAATATATT
1515293 TTATATA
1 TTATATA
1515300 AATTTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATATATTAATAATATATT
Found at i:1515448 original size:11 final size:11
Alignment explanation
Indices: 1515423--1515455 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1515413 CAAATACACA
*
1515423 AATAA-AAAAT
1 AATAATAAATT
1515433 AATAATAAATT
1 AATAATAAATT
1515444 AATAATAAATT
1 AATAATAAATT
1515455 A
1 A
1515456 TTATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAATT
Found at i:1515663 original size:11 final size:11
Alignment explanation
Indices: 1515647--1515672 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1515637 ATTTAATTTT
1515647 TTATATTAATA
1 TTATATTAATA
1515658 TTATATTAATA
1 TTATATTAATA
1515669 TTAT
1 TTAT
1515673 TTTTATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATATTAATA
Found at i:1516999 original size:14 final size:15
Alignment explanation
Indices: 1516982--1517015 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1516972 ATAATATCAC
1516982 ATAAATAAAAA-ATT
1 ATAAATAAAAATATT
1516996 ATAAA-AAAAATATT
1 ATAAATAAAAATATT
1517010 ATAAAT
1 ATAAAT
1517016 CAATTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAATAAAAATATT
Found at i:1517670 original size:11 final size:11
Alignment explanation
Indices: 1517656--1517691 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
1517646 TAAAATTTTA
1517656 TATTTTTATAT
1 TATTTTTATAT
1517667 TATTTTTATAT
1 TATTTTTATAT
1517678 TATTTTTATAT
1 TATTTTTATAT
1517689 TAT
1 TAT
1517692 AATTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:1518037 original size:17 final size:18
Alignment explanation
Indices: 1518015--1518050 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1518005 TAAATTTTGA
1518015 TATATTA-ATTTTATGTT
1 TATATTATATTTTATGTT
*
1518032 TATATTATTTTTTATGTT
1 TATATTATATTTTATGTT
1518050 T
1 T
1518051 TATCGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATATTATATTTTATGTT
Found at i:1518042 original size:30 final size:32
Alignment explanation
Indices: 1517977--1518036 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1517967 ATTTTAAAAT
1517977 TTTTGATATATTGATAATTTATTTTATATAAA
1 TTTTGATATATTGATAATTTATTTTATATAAA
*
1518009 TTTTGATATATT-A-ATTTTATGTTTATAT
1 TTTTGATATATTGATAATTTAT-TTTATAT
1518037 TATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 8 0.31
32 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (32 bp):
TTTTGATATATTGATAATTTATTTTATATAAA
Found at i:1518225 original size:32 final size:31
Alignment explanation
Indices: 1518152--1518229 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
1518142 TTTTTATTAC
* *
1518152 TTATTTTATATTAAAATCGTATTAAAAATATT
1 TTATTTTATA-TAAAATCGTAATAAAAATAAT
*
1518184 TTATATTTATATAAAAT-TTAATAAATTAATAAT
1 TTAT-TTTATATAAAATCGTAATAAA--AATAAT
1518217 TTATTTTATATAA
1 TTATTTTATATAA
1518230 TTTTATGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 6 0.15
32 19 0.47
33 15 0.38
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TTATTTTATATAAAATCGTAATAAAAATAAT
Found at i:1519209 original size:19 final size:19
Alignment explanation
Indices: 1519185--1519230 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
1519175 TCATGTAATA
1519185 AAATAATTAAAAATTATTT
1 AAATAATTAAAAATTATTT
1519204 AAATAATTAAAAATTATTT
1 AAATAATTAAAAATTATTT
1519223 AAATAATT
1 AAATAATT
1519231 TTACACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAATTAAAAATTATTT
Found at i:1525430 original size:32 final size:35
Alignment explanation
Indices: 1525378--1525443 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 35
1525368 TATAATCGTA
*
1525378 ATTAAGTAATTATATATTTATGTAAATTTTAATAT
1 ATTAAGTAATTATATATTTATATAAATTTTAATAT
1525413 ATTAA-TAATT-TAT-TTTATATAAATTTTAATA
1 ATTAAGTAATTATATATTTATATAAATTTTAATA
1525444 CATGTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 17 0.57
33 3 0.10
34 5 0.17
35 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (35 bp):
ATTAAGTAATTATATATTTATATAAATTTTAATAT
Found at i:1525483 original size:14 final size:14
Alignment explanation
Indices: 1525464--1525493 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1525454 TTTATTCATG
*
1525464 TTATATGATTATAT
1 TTATATCATTATAT
1525478 TTATATCATTATAT
1 TTATATCATTATAT
1525492 TT
1 TT
1525494 TAAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATATCATTATAT
Found at i:1525626 original size:14 final size:14
Alignment explanation
Indices: 1525579--1525627 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
1525569 AAAATTAACA
1525579 ATAAATTATTTTATT
1 ATAAATTATTTT-TT
* *
1525594 ATTATTTATTTTTT
1 ATAAATTATTTTTT
1525608 A-AAATTATTTTTT
1 ATAAATTATTTTTT
1525621 ATAAATT
1 ATAAATT
1525628 GATAAAACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 11 0.38
14 8 0.28
15 10 0.34
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATAAATTATTTTTT
Found at i:1527853 original size:19 final size:18
Alignment explanation
Indices: 1527819--1527856 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1527809 ATTTTATTTT
1527819 TATTTTTTTAATTTTATA
1 TATTTTTTTAATTTTATA
1527837 TATTTTTATT-ATATTTATA
1 TATTTTT-TTAAT-TTTATA
1527856 T
1 T
1527857 TATTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTTAATTTTATA
Found at i:1527859 original size:24 final size:23
Alignment explanation
Indices: 1527812--1527863 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
1527802 CTTTGAGATT
* *
1527812 TTATTTTTATTTTTTTAATTTTA
1 TTATTTTTATTTATTTAATATTA
1527835 TATATTTTTATTATATTT-ATATTA
1 T-TATTTTTATT-TATTTAATATTA
1527859 TTATT
1 TTATT
1527864 ATGTTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 5 0.20
24 16 0.64
25 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TTATTTTTATTTATTTAATATTA
Found at i:1527983 original size:16 final size:18
Alignment explanation
Indices: 1527962--1527998 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1527952 GTAATTGTAC
1527962 TATGTT-TA-TATTTTTT
1 TATGTTGTATTATTTTTT
1527978 TATGTTGTATTATTTTTT
1 TATGTTGTATTATTTTTT
1527996 TAT
1 TAT
1527999 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 11 0.58
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (18 bp):
TATGTTGTATTATTTTTT
Found at i:1528375 original size:16 final size:17
Alignment explanation
Indices: 1528354--1528440 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 17
1528344 AGTATTTTTT
1528354 ATATATATAA-AATTTA
1 ATATATATAATAATTTA
1528370 ATATAT-TAATAATTTA
1 ATATATATAATAATTTA
*
1528386 TTTTATATATCAATAA-TTA
1 --ATATATAT-AATAATTTA
*
1528405 A-A-ACATCAA-AATTT-
1 ATATATAT-AATAATTTA
1528419 ATATATATAATAATTTGA
1 ATATATATAATAATTT-A
1528437 ATAT
1 ATAT
1528441 GTTTATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.05
15 14 0.25
16 21 0.38
18 9 0.16
19 4 0.07
20 5 0.09
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (17 bp):
ATATATATAATAATTTA
Found at i:1528393 original size:20 final size:20
Alignment explanation
Indices: 1528365--1528403 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1528355 TATATATAAA
*
1528365 ATTTAATATATTAATAATTT
1 ATTTAATATATCAATAATTT
*
1528385 ATTTTATATATCAATAATT
1 ATTTAATATATCAATAATT
1528404 AAAACATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAATATATCAATAATTT
Found at i:1530513 original size:2 final size:2
Alignment explanation
Indices: 1530506--1530554 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
1530496 GTTAGTAGTC
1530506 GT GT GT GT GT CGT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT -GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1530549 GT GT GT
1 GT GT GT
1530555 ATATATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:1531780 original size:98 final size:97
Alignment explanation
Indices: 1531673--1531848 Score: 282
Period size: 98 Copynumber: 1.8 Consensus size: 97
1531663 TATTTTTACC
**
1531673 ATAAAATAATTTTAAATTATTATTTAAGGTAAATATAATTTAT-ATTTATATTTTATTATCTAAT
1 ATAAAATAATTTTAAATTATTATTTAACATAAATAT-ATTTATAATTTATATTTTATTAT-TAAT
*
1531737 ATAAATATAATTTTATAATTAATTACTTTTTAAT
64 ATAAATATAACTTTATAATTAATTACTTTTTAAT
* *
1531771 ATAATATAATTTTAAATTATTATTTAACATAAATATATTTTTAATTTATATTTTATTATTAATAT
1 ATAAAATAATTTTAAATTATTATTTAACATAAATATATTTATAATTTATATTTTATTATTAATAT
1531836 AAATATAACTTTA
66 AAATATAACTTTA
1531849 ATTATTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
97 23 0.32
98 49 0.68
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (97 bp):
ATAAAATAATTTTAAATTATTATTTAACATAAATATATTTATAATTTATATTTTATTATTAATAT
AAATATAACTTTATAATTAATTACTTTTTAAT
Found at i:1531783 original size:17 final size:18
Alignment explanation
Indices: 1531733--1531784 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 18
1531723 TTTTATTATC
1531733 TAATATAAATATAATTTTA
1 TAATAT-AATATAATTTTA
*
1531752 TAAT-TAAT-TACTTTT-
1 TAATATAATATAATTTTA
1531767 TAATATAATATAATTTTA
1 TAATATAATATAATTTTA
1531785 AATTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 4 0.14
16 10 0.36
17 9 0.32
18 1 0.04
19 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATATAATATAATTTTA
Found at i:1531788 original size:28 final size:27
Alignment explanation
Indices: 1531757--1531837 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
1531747 TTTTATAATT
1531757 AATTACTTTTTAATATAATATAATTTTA
1 AATTA-TTTTTAATATAATATAATTTTA
* *
1531785 AATTATTATTTAACATAAATATATTTTTA
1 AATTATT-TTTAATAT-AATATAATTTTA
* *
1531814 ATTTATATTTTATTATTAATATAA
1 AATTAT-TTTTAATA-TAATATAA
1531838 ATATAACTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.05
28 12 0.28
29 27 0.63
30 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTATTTTTAATATAATATAATTTTA
Found at i:1531805 original size:62 final size:62
Alignment explanation
Indices: 1531725--1531858 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 62
1531715 TATTTATATT
* * * *
1531725 TTATTATCTAATATAAATATAATTTTATAA-TTA-A-TTACTTTTTAATAT-AATATAATTTTAA
1 TTATTATTTAACATAAATAT-ATTTT-TAATTTATATTTA-TTATTAATATAAATATAACTTT-A
1531786 A
62 A
1531787 TTATTATTTAACATAAATATATTTTTAATTTATATTTTATTATTAATATAAATATAACTTTAA
1 TTATTATTTAACATAAATATATTTTTAATTTATA-TTTATTATTAATATAAATATAACTTTAA
1531850 TTATT-TTTA
1 TTATTATTTA
1531859 CTGAATTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
60 3 0.05
61 8 0.13
62 23 0.37
63 16 0.25
64 13 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (62 bp):
TTATTATTTAACATAAATATATTTTTAATTTATATTTATTATTAATATAAATATAACTTTAA
Found at i:1531838 original size:35 final size:34
Alignment explanation
Indices: 1531689--1531858 Score: 99
Period size: 36 Copynumber: 5.1 Consensus size: 34
1531679 TAATTTTAAA
**
1531689 TTATTATTTAAGGTAAATATAA-TTTATATTTATATT
1 TTATTATTTAACATAAATATAACTTTA-A-TTAT-TT
* * * * *
1531725 TTATTATCTAATATAAATATAA-TTTTATAATTAA
1 TTATTATTTAACATAAATATAACTTTAATTATT-T
* *
1531759 TTACTT-TTTAATAT-AATATAATTTTAA--A---
1 TTA-TTATTTAACATAAATATAACTTTAATTATTT
**
1531787 TTATTATTTAACATAAATATATTTTTAATTTATATT
1 TTATTATTTAACATAAATATAACTTTAA-TTAT-TT
*
1531823 TTATTA-TTAATATAAATATAACTTTAATTATTT
1 TTATTATTTAACATAAATATAACTTTAATTATTT
1531856 TTA
1 TTA
1531859 CTGAATTTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.02
28 10 0.09
29 12 0.11
32 2 0.02
33 13 0.12
34 21 0.19
35 21 0.19
36 28 0.26
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (34 bp):
TTATTATTTAACATAAATATAACTTTAATTATTT
Found at i:1532072 original size:22 final size:23
Alignment explanation
Indices: 1532016--1532072 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
1532006 TCATATCACT
* *
1532016 TATTTA-TTAATAAAATTATTTA
1 TATTTATTTATTAAAAATATTTA
1532038 TATTTATTT-TTAAAAAT-TTTA
1 TATTTATTTATTAAAAATATTTA
1532059 TATTTATTTATTAA
1 TATTTATTTATTAA
1532073 TGAGATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTATTTATTAAAAATATTTA
Done.