Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 8 of 186
Found at i:2404795 original size:40 final size:40
Alignment explanation
Indices: 2404726--2404950 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
2404716 AAACCAAGTA
* * *
2404726 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
2404765 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
2404805 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
2404845 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
2404888 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
2404928 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
2404951 CATCCGAATA
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
42 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:2404913 original size:83 final size:80
Alignment explanation
Indices: 2404726--2404950 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
2404716 AAACCAAGTA
* * * *
2404726 CCTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
2404789 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * *
2404805 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
2404870 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* *
2404888 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
2404951 CATCCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.09
80 43 0.34
81 2 0.02
83 70 0.55
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:2408971 original size:68 final size:68
Alignment explanation
Indices: 2408899--2409060 Score: 191
Period size: 68 Copynumber: 2.4 Consensus size: 68
2408889 AAGCATGTCT
* ** * *
2408899 TTTGCTATTGTATTGATTTGA-TATAAACATATTAATTGCTACCGCATTGATTTGTTATAAGCAT
1 TTTGCTATTGTATTGATCT-ATTATAAACATATTAATTGCTACCGCATCAAGTTGTTATAAGCAA
2408963 ATTA
65 ATTA
* * *
2408967 TTTGCTATTGTATTGATCTATTATAAGCATATTATTTGCTACCGTATCAAGTTGTTATAAGCAAA
1 TTTGCTATTGTATTGATCTATTATAAACATATTAATTGCTACCGCATCAAGTTGTTATAAGCAAA
2409032 TTA
66 TTA
* * ***
2409035 ATTACTACCATATTGATCTATTATAA
1 TTTGCTATTGTATTGATCTATTATAA
2409061 GCATGTCATA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
67 1 0.01
68 79 0.99
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (68 bp):
TTTGCTATTGTATTGATCTATTATAAACATATTAATTGCTACCGCATCAAGTTGTTATAAGCAAA
TTA
Found at i:2409025 original size:34 final size:33
Alignment explanation
Indices: 2408908--2409064 Score: 143
Period size: 34 Copynumber: 4.6 Consensus size: 33
2408898 TTTTGCTATT
* *
2408908 GTATTGATTTGATATAAACATATTAATTGCTACC
1 GTATTGA-TTGTTATAAGCATATTAATTGCTACC
* * **
2408942 GCATTGATTTGTTATAAGCATATTATTTGCTATT
1 GTATTGA-TTGTTATAAGCATATTAATTGCTACC
* *
2408976 GTATTGATCTATTATAAGCATATTATTTGCTACC
1 GTATTGAT-TGTTATAAGCATATTAATTGCTACC
** * *
2409010 GTATCAAGTTGTTATAAGCAAATTAATTACTACC
1 GTATTGA-TTGTTATAAGCATATTAATTGCTACC
* *
2409044 ATATTGATCTATTATAAGCAT
1 GTATTGAT-TGTTATAAGCAT
2409065 GTCATATTGC
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
33 2 0.02
34 96 0.97
35 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (33 bp):
GTATTGATTGTTATAAGCATATTAATTGCTACC
Found at i:2409950 original size:12 final size:12
Alignment explanation
Indices: 2409933--2409963 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2409923 GCCACCCATG
2409933 AAAGATGCTTCA
1 AAAGATGCTTCA
2409945 AAAGATGCTTCA
1 AAAGATGCTTCA
2409957 AAAGATG
1 AAAGATG
2409964 AAAACTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (12 bp):
AAAGATGCTTCA
Found at i:2412737 original size:16 final size:16
Alignment explanation
Indices: 2412716--2412755 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
2412706 TCATGAAATT
2412716 ATTTATTTTCAATTTG
1 ATTTATTTTCAATTTG
2412732 ATTTATTTTCAATTTG
1 ATTTATTTTCAATTTG
2412748 ATTTATTT
1 ATTTATTT
2412756 CTAACATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (16 bp):
ATTTATTTTCAATTTG
Found at i:2416369 original size:47 final size:47
Alignment explanation
Indices: 2416310--2416513 Score: 270
Period size: 47 Copynumber: 4.4 Consensus size: 47
2416300 TATCACATTT
* * *
2416310 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
2416355 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
2416402 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
2416449 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
2416497 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
2416514 TATTCAATTA
Statistics
Matches: 142, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 6 0.04
46 1 0.01
47 114 0.80
48 20 0.14
49 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:2428496 original size:3 final size:3
Alignment explanation
Indices: 2428488--2428527 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
2428478 ACCACATGAA
2428488 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2428528 CAAGTCATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2434586 original size:54 final size:54
Alignment explanation
Indices: 2434527--2434635 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
2434517 TAGGCATACA
*
2434527 TAATACCAAAACTTGCTCTTATTTAGCTATCATAAGCTAATCATTACCAAGTAT
1 TAATACCAAAACTTGCTCTTATTTAGCTATCATAAGCTAACCATTACCAAGTAT
* *
2434581 TAATACCAAAACTTGTTCTTATTTAGCTATCTTAAGCTAACCATTACCAAGTAT
1 TAATACCAAAACTTGCTCTTATTTAGCTATCATAAGCTAACCATTACCAAGTAT
2434635 T
1 T
2434636 CACATGCCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (54 bp):
TAATACCAAAACTTGCTCTTATTTAGCTATCATAAGCTAACCATTACCAAGTAT
Found at i:2435145 original size:55 final size:53
Alignment explanation
Indices: 2435021--2435212 Score: 143
Period size: 55 Copynumber: 3.6 Consensus size: 53
2435011 ACCATTGTCG
* * *
2435021 TGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCA
** * ** * *
2435074 TACCTT-AGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCA
1 TGTCTTGA-CATGGTCTTACATGGGATCCTTGCCTTAT-G-AACTCACCAATGCCA
* *** * * * *
2435129 TGTCTTGACATGGTCTTCCATGATTTACTTGCCTTGTAAAACTTACCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-GAACTCACCAATGCCA
* * * *
2435183 TGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TGTCTTGACATGGTCTTACATGGGATCCTT
2435213 AAACCCTAAT
Statistics
Matches: 105, Mismatches: 30, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
52 1 0.01
53 30 0.29
54 36 0.34
55 37 0.35
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGCCA
Found at i:2442668 original size:23 final size:23
Alignment explanation
Indices: 2442640--2442698 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
2442630 CACATTTACC
*
2442640 ACTATTAGCAGCTTTGCTGCGTT
1 ACTATTAGCAGCTTTGATGCGTT
2442663 ACTATTAGCAGCTTTGATGCGTT
1 ACTATTAGCAGCTTTGATGCGTT
2442686 ACTATTAGCAGCT
1 ACTATTAGCAGCT
2442699 ACCCTACGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (23 bp):
ACTATTAGCAGCTTTGATGCGTT
Found at i:2454625 original size:22 final size:22
Alignment explanation
Indices: 2454597--2454643 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
2454587 GTTTTGTTTC
*
2454597 ATTATTAAATATTGTTATTATT
1 ATTATTAAATATTGTCATTATT
2454619 ATTATTAAATATTGTCATTATT
1 ATTATTAAATATTGTCATTATT
2454641 ATT
1 ATT
2454644 CTAATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
ATTATTAAATATTGTCATTATT
Found at i:2454868 original size:12 final size:14
Alignment explanation
Indices: 2454850--2454887 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
2454840 ATCATCGTTT
2454850 CTATTATTATTTCA
1 CTATTATTATTTCA
2454864 -T-TTATTATTTTCA
1 CTATTATTA-TTTCA
2454877 CTATTATTATT
1 CTATTATTATT
2454888 ATTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.29
13 6 0.29
14 3 0.14
15 6 0.29
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
CTATTATTATTTCA
Found at i:2454871 original size:15 final size:17
Alignment explanation
Indices: 2454851--2454891 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
2454841 TCATCGTTTC
2454851 TATTATTATTTCA-T-T
1 TATTATTATTTCACTAT
2454866 TATTA-T-TTTCACTAT
1 TATTATTATTTCACTAT
2454881 TATTATTATTT
1 TATTATTATTT
2454892 TATTATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.23
14 2 0.09
15 11 0.50
16 1 0.05
17 3 0.14
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTTCACTAT
Found at i:2455577 original size:21 final size:21
Alignment explanation
Indices: 2455544--2455590 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
2455534 ATATATATTG
2455544 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
2455567 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
2455586 TATAT
1 TATAT
2455591 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:2455582 original size:15 final size:15
Alignment explanation
Indices: 2455564--2455597 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2455554 TTTATACTAT
*
2455564 GTATATATGTATTTA
1 GTATATATATATTTA
*
2455579 GTATGTATATATTTA
1 GTATATATATATTTA
2455594 GTAT
1 GTAT
2455598 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:2457248 original size:13 final size:13
Alignment explanation
Indices: 2457232--2457257 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2457222 TCTTCATGTG
2457232 AGTTCAATTCTTA
1 AGTTCAATTCTTA
2457245 AGTTCAATTCTTA
1 AGTTCAATTCTTA
2457258 CCCGTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
AGTTCAATTCTTA
Found at i:2458093 original size:21 final size:21
Alignment explanation
Indices: 2458065--2458146 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
2458055 TGGATGAACC
2458065 AGCTCTTACGAGCTTCTGTTCG
1 AGCTCTTACGAGCTTCTGTT-G
* *
2458087 A-CTCTTATGAGCTTCT-TTC
1 AGCTCTTACGAGCTTCTGTTG
*
2458106 AGCT-TATACGAGCTTCTGTTT
1 AGCTCT-TACGAGCTTCTGTTG
2458127 AGC-CTT-CGAGCTTCTGTTG
1 AGCTCTTACGAGCTTCTGTTG
2458146 A
1 A
2458147 CTTATTCGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
19 15 0.29
20 15 0.29
21 20 0.39
22 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTG
Found at i:2458690 original size:4 final size:4
Alignment explanation
Indices: 2458681--2458995 Score: 621
Period size: 4 Copynumber: 78.8 Consensus size: 4
2458671 ATAAGTGATA
*
2458681 TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458729 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458777 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458825 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458873 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458921 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2458969 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
2458996 TTGAATTATA
Statistics
Matches: 309, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 309 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:2460180 original size:15 final size:16
Alignment explanation
Indices: 2460160--2460189 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2460150 AAAGACCACA
2460160 TTTCAA-TTTATTTGT
1 TTTCAATTTTATTTGT
2460175 TTTCAATTTTATTTG
1 TTTCAATTTTATTTG
2460190 CTTGATGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTCAATTTTATTTGT
Found at i:2462163 original size:43 final size:43
Alignment explanation
Indices: 2462024--2462237 Score: 153
Period size: 43 Copynumber: 5.0 Consensus size: 43
2462014 AGGAAAAAGT
* * * *
2462024 CACTATAGAACATGAACTTTAGCAGC-ATTTCTCATAAAAACGC
1 CACTATAGAACATGAACTTTAGCGGCGCTTTCTC-CACAAACGC
* ** ** * * * *
2462067 CACTATAAAACATGATTTTTAGCGATGTTTTCCCCATAAATGC
1 CACTATAGAACATGAACTTTAGCGGCGCTTTCTCCACAAACGC
* * * *
2462110 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCTACAAACGC
1 CACTATAGAACATGAACTTTAGCGGCGCTTTCTCCACAAACGC
** * * * *
2462153 CGTTATAGAACATAAACTCTAGCGGCGCTTTTTCCACAAATGC
1 CACTATAGAACATGAACTTTAGCGGCGCTTTCTCCACAAACGC
* * * * *
2462196 TACTAAAGAACATGATCTTTACCAGCGCTTT-TCCACAAACGC
1 CACTATAGAACATGAACTTTAGCGGCGCTTTCTCCACAAACGC
2462238 TGTGACAGCC
Statistics
Matches: 129, Mismatches: 41, Indels: 3
0.75 0.24 0.02
Matches are distributed among these distances:
42 10 0.08
43 114 0.88
44 5 0.04
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
CACTATAGAACATGAACTTTAGCGGCGCTTTCTCCACAAACGC
Found at i:2474636 original size:40 final size:40
Alignment explanation
Indices: 2474581--2474802 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
2474571 TATTCGAATG
* *
2474581 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
2474621 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
2474661 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
2474701 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
2474741 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
2474781 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
2474803 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:2476729 original size:66 final size:65
Alignment explanation
Indices: 2476593--2476717 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 65
2476583 TCATATTCTG
* * * *
2476593 AAGTTGTAGTTGGAGTTCGTCATATTTTCTACTTGCCTCTGCTTCCCTCGCTGCTGCCTCCACTT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCTA-TTGCCTCTACTTCCCTCGATGCTGCATCCACTT
2476658 T
65 T
* *
2476659 AAGTTGTAGCTGGAGTTCTTCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGCTGCAT
1 AAGTTGTAGCTGGAGTTCGTCATATTTTCTATT--GCCTCTACTTCCCTCGATGCTGCAT
2476718 TCGTTTTAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
64 2 0.04
66 49 0.96
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.42
Consensus pattern (65 bp):
AAGTTGTAGCTGGAGTTCGTCATATTTTCTATTGCCTCTACTTCCCTCGATGCTGCATCCACTTT
Found at i:2480044 original size:35 final size:35
Alignment explanation
Indices: 2480005--2480071 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
2479995 TTTTTTTATT
2480005 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
1 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
*
2480040 CTTTAAATGTTTATGTAAATTATGATTATCAT
1 CTTTAAATGTTTATGTAAATTATGATAATCAT
2480072 CTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAATTATGATAATCATAAA
Found at i:2480090 original size:13 final size:13
Alignment explanation
Indices: 2480072--2480098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2480062 TGATTATCAT
2480072 CTTTAAATTTTAA
1 CTTTAAATTTTAA
2480085 CTTTAAATTTTAA
1 CTTTAAATTTTAA
2480098 C
1 C
2480099 CCTTTAATTA
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:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:2480671 original size:19 final size:19
Alignment explanation
Indices: 2480626--2480673 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2480616 TAAATTTTAA
* **
2480626 AATAAAAATAAAAATTTAG
1 AATAAAAATTAAAATAAAG
* *
2480645 AATCAAAATTAAAATAAAT
1 AATAAAAATTAAAATAAAG
2480664 AATAAAAATT
1 AATAAAAATT
2480674 GGATTAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAAAAATTAAAATAAAG
Found at i:2485244 original size:34 final size:34
Alignment explanation
Indices: 2485204--2485314 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
2485194 GAAGTACATA
* *
2485204 AATATATATGTATGGCTTGGCT-TAATCGAAGGTG
1 AATATATATGTATAGCTTGG-TATAATCGAAAGTG
*
2485238 ATTATATATGTATAGCTTGGTATAATCGAAAGTG
1 AATATATATGTATAGCTTGGTATAATCGAAAGTG
* ** *
2485272 AATATATATGTATAGTTTAATATAA-CCAAAGGTG
1 AATATATATGTATAGCTTGGTATAATCGAAA-GTG
2485306 AATATATAT
1 AATATATAT
2485315 ATACATTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
33 5 0.07
34 62 0.93
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (34 bp):
AATATATATGTATAGCTTGGTATAATCGAAAGTG
Found at i:2485518 original size:59 final size:61
Alignment explanation
Indices: 2485387--2485524 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 61
2485377 TAAACTTGAG
* *
2485387 ATGAGCACTAAGTGTGCGAAATGAAATTGGTACTGAGTACTAAGTGTACGAAATTAGTCAT
1 ATGAGCACTAAGTGTGCGAAATGAAATTGATACTGAGTACTAAGTGTACGAAATCAGTCAT
* * * * * *
2485448 TTG-GCATTAAGTGTGC-AAATTG-AATTTATA-TCGAGTACTAAGTGTACGAGATCGGTTA-
1 ATGAGCACTAAGTGTGCGAAA-TGAAATTGATACT-GAGTACTAAGTGTACGAAATCAGTCAT
2485506 ATGAGCACTAAGTGTGCGA
1 ATGAGCACTAAGTGTGCGA
2485525 GTTTATCTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
58 3 0.05
59 43 0.68
60 15 0.24
61 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (61 bp):
ATGAGCACTAAGTGTGCGAAATGAAATTGATACTGAGTACTAAGTGTACGAAATCAGTCAT
Found at i:2490656 original size:31 final size:31
Alignment explanation
Indices: 2490587--2490649 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
2490577 AAGCACAATT
2490587 TAATTTGCATCTCATATCCATATCTTGTTTA
1 TAATTTGCATCTCATATCCATATCTTGTTTA
*
2490618 TAATTTGCATCTTATATCCATAT-TATGTTTA
1 TAATTTGCATCTCATATCCATATCT-TGTTTA
2490649 T
1 T
2490650 CTTTTGCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (31 bp):
TAATTTGCATCTCATATCCATATCTTGTTTA
Found at i:2495279 original size:19 final size:20
Alignment explanation
Indices: 2495235--2495284 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
2495225 ACCATGTTTA
2495235 TATTTTTAACATATTTTAAT
1 TATTTTTAACATATTTTAAT
2495255 TA-TTTTATA-ATA-TTTAAT
1 TATTTTTA-ACATATTTTAAT
2495273 TATTTTTCAACA
1 TATTTTT-AACA
2495285 AGAATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 8 0.31
19 13 0.50
20 5 0.19
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTTAACATATTTTAAT
Found at i:2496511 original size:47 final size:48
Alignment explanation
Indices: 2496442--2496661 Score: 215
Period size: 47 Copynumber: 4.7 Consensus size: 48
2496432 AATGTACCGG
* *
2496442 TGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGCCGA
* * *
2496489 TGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATTTCGTAA-CCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCG-AAGCCGA
* * ** *
2496537 TG-CATGTCCCAGACAT-GTTTTACACTGGCTTACGTCTCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGCCGA
* * *
2496583 TG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-T-TCGATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATATCTCGAAGCCGA
*
2496629 TGCCATGTCCCAGTCATGGTCTTACACTGGCTC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTC
2496662 TTATAATGTG
Statistics
Matches: 144, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 61 0.42
47 63 0.44
48 17 0.12
49 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGCCGA
Found at i:2496583 original size:46 final size:45
Alignment explanation
Indices: 2496449--2496702 Score: 183
Period size: 46 Copynumber: 5.4 Consensus size: 45
2496439 CGGTGCCATA
* * *
2496449 TCCCAGACATGGTCTTACACTGGC-TCATATCTC-AAGTCGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGCTTC--GTCTCGAGGCCGATG-CATG
* * * * *
2496496 TCCTAGACATGGTCTTACACTGACTATCATTTCGTA-ACCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCT-TCGTCTCG-AGGCCGATGCATG
*
2496543 TCCCAGACATGTTTTACACTGGCTTACGTCTCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTT-CGTCTCGAGGCCGATGCATG
* * * *
2496589 TCCCAGACATGTCTTACACTAGCACTCGTTTCGATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGC-TTCGTCTCGAGGCCGATG-CATG
* * * * *
2496636 TCCCAGTCATGGTCTTACACTGGC-TCTTATAATGTGGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTTCGTCT--CGAGGCCGATGCATG
* *
2496683 TGCCAAACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
2496703 AGCCTACAAT
Statistics
Matches: 170, Mismatches: 26, Indels: 23
0.78 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 76 0.45
47 64 0.38
48 25 0.15
49 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
TCCCAGACATGTCTTACACTGGCTTCGTCTCGAGGCCGATGCATG
Found at i:2496677 original size:94 final size:94
Alignment explanation
Indices: 2496437--2496705 Score: 275
Period size: 94 Copynumber: 2.9 Consensus size: 94
2496427 GGGGTAATGT
* * * * * * *
2496437 ACCGGTGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCTAG
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATCTGAGGCCGATG-CATGTCCCAG
2496502 ACATGGTCTTACACT-G-ACTATCATTTCGTA
65 ACAT-GTCTTACACTAGCAC-ATCATTTCGTA
*
2496532 ACCGATG-CATGTCCCAGACAT-GTTTTACACTGG--CTTACGTCTCGAGGCCGATGCATGTCCC
1 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTA--TCT-GAGGCCGATGCATGTCCC
*
2496593 AGACATGTCTTACACTAGCAC-TCGTTTCG-A
63 AGACATGTCTTACACTAGCACATCATTTCGTA
* * * * *
2496623 TGCCGATGCCATGTCCCAGTCATGGTCTTACACTGGCTCTTATAATGTGGCCGATGCATGTGCCA
1 -ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTAT-CTGAGGCCGATGCATGTCCCA
*
2496688 AACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
2496706 CTACAATAAC
Statistics
Matches: 147, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
91 4 0.03
92 23 0.16
93 41 0.28
94 68 0.46
95 7 0.05
96 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (94 bp):
ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATCTGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCATTTCGTA
Found at i:2497710 original size:17 final size:17
Alignment explanation
Indices: 2497690--2497722 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2497680 ACACACGACC
2497690 GTGTCACACACAGCTGT
1 GTGTCACACACAGCTGT
*
2497707 GTGTCACACACGGCTG
1 GTGTCACACACAGCTG
2497723 AGACACACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.30, G:0.27, T:0.21
Consensus pattern (17 bp):
GTGTCACACACAGCTGT
Found at i:2506041 original size:15 final size:16
Alignment explanation
Indices: 2506011--2506044 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2506001 TTTTTTAAAA
*
2506011 AATAATTTATTGAATT
1 AATAATTTATTCAATT
2506027 AATAA-TTATTCAATT
1 AATAATTTATTCAATT
2506042 AAT
1 AAT
2506045 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
AATAATTTATTCAATT
Found at i:2511546 original size:27 final size:27
Alignment explanation
Indices: 2511516--2511693 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2511506 ATATTGAGTC
* * * *
2511516 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2511543 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2511570 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2511598 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2511625 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2511652 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2511679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2511694 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2511655 original size:82 final size:81
Alignment explanation
Indices: 2511537--2511692 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2511527 TGCTATATAA
* *
2511537 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2511602 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2511619 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2511683 CACTTAGTGC
65 CACTTAGTGC
2511693 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2519734 original size:27 final size:27
Alignment explanation
Indices: 2519704--2519881 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
2519694 ATATTGAGTC
* *
2519704 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
2519731 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2519758 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
2519786 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
2519813 CGTACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
2519840 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
2519867 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2519882 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:2525623 original size:46 final size:45
Alignment explanation
Indices: 2525538--2525753 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 45
2525528 TATACCTATA
* * * *
2525538 CCGATGCCATATCTCAGACATGGTCTTACACTGAC-ACATCTCGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGTAG
*
2525584 CCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGTA-G
* * * * *
2525630 CCGAAGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATA-
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTC-GTAG
* * * *
2525676 CTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGTAG
2525724 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
2525754 ATCCCACACA
Statistics
Matches: 137, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.09
45 12 0.09
46 63 0.46
47 28 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGTAG
Found at i:2525704 original size:94 final size:92
Alignment explanation
Indices: 2525586--2525754 Score: 261
Period size: 94 Copynumber: 1.8 Consensus size: 92
2525576 TCTCGTAGCC
*
2525586 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGAAGCATGTCCCAGACA
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGAAGCATGTCCCAGACA
2525649 TGTCTTACACTAGCACTCGTCTCAATACT
64 TGTCTTACACTAGCACTCGTCTCAATACT
* *
2525678 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACA
2525743 TGTCTTACACTA
64 TGTCTTACACTA
2525755 TCCCACACAA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 50 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATACT
Found at i:2533297 original size:46 final size:45
Alignment explanation
Indices: 2533245--2533367 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
2533235 CGTAGCCGGC
* *
2533245 GCATGTCCAAGACATGTCTTACACTGGCTTGCGTCTCGAGGCTGAA
1 GCATGTCCAAGACATGTCTTACACTGGCTT-CGTCTCAAGGCCGAA
* * * * *
2533291 GCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGCCGAT
1 GCATGTCCAAGACATGTCTTACACTGGC-TTCGTCTCAAGGCCGAA
*
2533337 GCCATGTCCCAGACATGGTCTTACACTGGCT
1 G-CATGTCCAAGACAT-GTCTTACACTGGCT
2533368 CTTATACTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 38 0.59
47 14 0.22
48 12 0.19
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (45 bp):
GCATGTCCAAGACATGTCTTACACTGGCTTCGTCTCAAGGCCGAA
Found at i:2536299 original size:22 final size:22
Alignment explanation
Indices: 2536274--2536346 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 22
2536264 ATAATATCTT
2536274 TAGTTAGCTCTATTATCTTGCA
1 TAGTTAGCTCTATTATCTTGCA
* *
2536296 TAGTTTTTAGGTTCATAATATCTT---
1 TAG---TTA-GCTC-TATTATCTTGCA
2536320 TAGTTAGCTCTATTATCTTGCA
1 TAGTTAGCTCTATTATCTTGCA
2536342 TAGTT
1 TAGTT
2536347 TTTACATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 3 0.08
22 8 0.21
24 3 0.08
25 3 0.08
26 3 0.08
27 8 0.21
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (22 bp):
TAGTTAGCTCTATTATCTTGCA
Found at i:2536325 original size:46 final size:46
Alignment explanation
Indices: 2536258--2536350 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
2536248 GACTAAGTTA
2536258 AGGTTCATAATATCTTTAGTTAGCTCTATTATCTTGCATAGTTTTT
1 AGGTTCATAATATCTTTAGTTAGCTCTATTATCTTGCATAGTTTTT
2536304 AGGTTCATAATATCTTTAGTTAGCTCTATTATCTTGCATAGTTTTT
1 AGGTTCATAATATCTTTAGTTAGCTCTATTATCTTGCATAGTTTTT
2536350 A
1 A
2536351 CATAGTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (46 bp):
AGGTTCATAATATCTTTAGTTAGCTCTATTATCTTGCATAGTTTTT
Found at i:2537099 original size:323 final size:325
Alignment explanation
Indices: 2536509--2537157 Score: 1212
Period size: 323 Copynumber: 2.0 Consensus size: 325
2536499 CAAACCCATA
* *
2536509 AGAGATCGAGTTGCCATGGAAGTAATTCTGAACATGTTAGCATGATGAAGGTAAATTGAATTAAT
1 AGAGATCGAGTTGCCATGGAAGTAATTCTGAACATGTTAGCATGATGAAGGAAAATTGAATAAAT
2536574 TAATATAATTATCCTAGCTCATTTAAAGTTGATTGTTTTTTTATTGCTAAAGCCCTCATTCATAC
66 TAATATAATTATCCTAGCTCATTTAAAGTTGATTGTTTTTTTATTGCTAAAGCCCTCATTCATAC
*
2536639 ATTTAGGTAAAATTACATTTAGATTAAGAATTGCATAGGGATCACTCTTGCATTTAATTAATCTA
131 ATTTAGGTAAAATTACATTTAGATTAAGAATTGCATAGGGACCACTCTTGCATTTAATTAATCTA
2536704 ATCATCACTATCTAAATTTATTGAGTTTTTTTACATCAAATTGTTAATTATAATTTTGCAATTAA
196 ATCATCACTATCTAAATTTATTGAGTTTTTTTACATCAAATTGTTAATTATAATTTTGCAATTAA
*
2536769 ATTGGTTAAGCTTTTACAGCCCCTATAGAGACGATAACTCATATTACTTACTTATTACTTGGATG
261 ATTGGTTAAGCTTTTACAGCCCCTATAGAGACGATAACTCATATTACTTACTTATAACTTGGATG
2536834 AGAGATCGAGTTGCCATGGAAGTAATTCTGAACATGTTAGCATGATGAAGGAAAATTGAATAAAT
1 AGAGATCGAGTTGCCATGGAAGTAATTCTGAACATGTTAGCATGATGAAGGAAAATTGAATAAAT
2536899 TAATATAATTATCCTAGCTCATTTAAAGTTGA-T-TTTTTTTATTGCTAAAGCCCTCATTCATAC
66 TAATATAATTATCCTAGCTCATTTAAAGTTGATTGTTTTTTTATTGCTAAAGCCCTCATTCATAC
2536962 ATTTAGGTAAAATTACATTTAGATTAAGAATTGCATAGGGACCACTCTTGCATTTAATTAATCTA
131 ATTTAGGTAAAATTACATTTAGATTAAGAATTGCATAGGGACCACTCTTGCATTTAATTAATCTA
*
2537027 ATCATCACTATTTAAATTTATTGAGTTTTTTTACATCAAATTGTTAATTATAATTTTGCAATTAA
196 ATCATCACTATCTAAATTTATTGAGTTTTTTTACATCAAATTGTTAATTATAATTTTGCAATTAA
** *
2537092 ATTGGTTAAGCTTTTACAGCTTCTATGGAGACGATAACTCATATTACTTACTTATAACTTGGATG
261 ATTGGTTAAGCTTTTACAGCCCCTATAGAGACGATAACTCATATTACTTACTTATAACTTGGATG
2537157 A
1 A
2537158 CTACCTACAC
Statistics
Matches: 316, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
323 220 0.70
324 1 0.00
325 95 0.30
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (325 bp):
AGAGATCGAGTTGCCATGGAAGTAATTCTGAACATGTTAGCATGATGAAGGAAAATTGAATAAAT
TAATATAATTATCCTAGCTCATTTAAAGTTGATTGTTTTTTTATTGCTAAAGCCCTCATTCATAC
ATTTAGGTAAAATTACATTTAGATTAAGAATTGCATAGGGACCACTCTTGCATTTAATTAATCTA
ATCATCACTATCTAAATTTATTGAGTTTTTTTACATCAAATTGTTAATTATAATTTTGCAATTAA
ATTGGTTAAGCTTTTACAGCCCCTATAGAGACGATAACTCATATTACTTACTTATAACTTGGATG
Found at i:2543574 original size:40 final size:40
Alignment explanation
Indices: 2543519--2543742 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
2543509 TATTCGGATG
2543519 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
2543559 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
2543602 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
2543642 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
2543682 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
2543722 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
2543743 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:2543662 original size:83 final size:80
Alignment explanation
Indices: 2543523--2543742 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
2543513 CGGATGATAT
* **
2543523 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
2543588 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
2543606 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
2543671 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
2543686 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
2543743 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:2547363 original size:42 final size:42
Alignment explanation
Indices: 2547304--2547386 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
2547294 TCTTGGACTT
*
2547304 CATAAAAAACTTAACTTAGGCATTTCCGAGTTCCCTTAAATA
1 CATAAAAAACTTAACTTAGGCATTTCCGAGTTACCTTAAATA
** *
2547346 CATAAAAAACTTAACTTAGTTATTTCTGAGTTACCTTAAAT
1 CATAAAAAACTTAACTTAGGCATTTCCGAGTTACCTTAAAT
2547387 CCAAATATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (42 bp):
CATAAAAAACTTAACTTAGGCATTTCCGAGTTACCTTAAATA
Found at i:2551548 original size:38 final size:38
Alignment explanation
Indices: 2551497--2551569 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
2551487 CTTATTCAAA
2551497 GCATCCAACTGTCATTTGAATTCTAAGCTAGAGAGTTT
1 GCATCCAACTGTCATTTGAATTCTAAGCTAGAGAGTTT
* * *
2551535 GCATCCGATTGTCATTTGAATTTTAAGCTAGAGAG
1 GCATCCAACTGTCATTTGAATTCTAAGCTAGAGAG
2551570 CGAAATAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (38 bp):
GCATCCAACTGTCATTTGAATTCTAAGCTAGAGAGTTT
Found at i:2554182 original size:37 final size:37
Alignment explanation
Indices: 2554132--2554205 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
2554122 AATGAAGAGT
2554132 GAGCTTAACTGAGATGGAAGAACAAGAGGAAGTAATG
1 GAGCTTAACTGAGATGGAAGAACAAGAGGAAGTAATG
2554169 GAGCTTAACTGAGATGGAAGAACAAGAGGAAGTAATG
1 GAGCTTAACTGAGATGGAAGAACAAGAGGAAGTAATG
2554206 TTAAACCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.32, T:0.16
Consensus pattern (37 bp):
GAGCTTAACTGAGATGGAAGAACAAGAGGAAGTAATG
Found at i:2562745 original size:16 final size:16
Alignment explanation
Indices: 2562724--2562763 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2562714 TGTAATACCA
*
2562724 TAAAGATATTTTTAAT
1 TAAAGATACTTTTAAT
*
2562740 TAAAGAAGACTTTTAAT
1 TAAAG-ATACTTTTAAT
2562757 TAAAGAT
1 TAAAGAT
2562764 CTCCTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (16 bp):
TAAAGATACTTTTAAT
Found at i:2565041 original size:29 final size:29
Alignment explanation
Indices: 2565002--2565059 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2564992 GGTAAAAAAC
* *
2565002 AAGATTGAGAAATTTAGTTCACGGGTAAG
1 AAGATTGAGAAATTTAGGTCACAGGTAAG
2565031 AAGATTGAGAAATTTAGGTCACAGGTAAG
1 AAGATTGAGAAATTTAGGTCACAGGTAAG
2565060 TTCACTAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.26
Consensus pattern (29 bp):
AAGATTGAGAAATTTAGGTCACAGGTAAG
Found at i:2565745 original size:16 final size:17
Alignment explanation
Indices: 2565724--2565757 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2565714 GAAAAAAAAA
2565724 ACAAAAGAAT-AGACTG
1 ACAAAAGAATAAGACTG
2565740 ACAAAAGAATAAGACTG
1 ACAAAAGAATAAGACTG
2565757 A
1 A
2565758 TGAACATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (17 bp):
ACAAAAGAATAAGACTG
Found at i:2571647 original size:18 final size:18
Alignment explanation
Indices: 2571624--2571660 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2571614 TAATCATAAA
*
2571624 GGTTTCAAGTGTTTTCCT
1 GGTTTCAAGTGTCTTCCT
2571642 GGTTTCAAGTGTCTTCCT
1 GGTTTCAAGTGTCTTCCT
2571660 G
1 G
2571661 ACGATGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (18 bp):
GGTTTCAAGTGTCTTCCT
Found at i:2576364 original size:25 final size:25
Alignment explanation
Indices: 2576336--2576386 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
2576326 TAAGAGTATG
*
2576336 AAAATCAAATAATCATTAAAACATC
1 AAAATCAAACAATCATTAAAACATC
2576361 AAAATCAAACAATCATTAAAACATC
1 AAAATCAAACAATCATTAAAACATC
2576386 A
1 A
2576387 TGTTGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAATCAAACAATCATTAAAACATC
Found at i:2579854 original size:40 final size:39
Alignment explanation
Indices: 2579756--2580018 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
2579746 TCCTCGTTCA
* * * *
2579756 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
2579795 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
2579834 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
2579874 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
2579914 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
2579954 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
2579995 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2580019 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:2579978 original size:120 final size:119
Alignment explanation
Indices: 2579756--2580018 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
2579746 TCCTCGTTCA
* * *
2579756 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
2579821 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
2579874 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
2579939 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
2579995 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
2580019 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:2580027 original size:41 final size:41
Alignment explanation
Indices: 2579950--2580027 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2579940 TTTGTATCTC
* * *
2579950 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2579991 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2580028 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2587804 original size:40 final size:40
Alignment explanation
Indices: 2587704--2587968 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
2587694 GCTCCTCGTT
* * * *
2587704 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
2587744 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
2587783 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
2587823 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
2587863 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
2587903 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
2587944 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
2587969 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:2587928 original size:80 final size:80
Alignment explanation
Indices: 2587671--2587968 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
2587661 AAATCACGTA
* ** * * *
2587671 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
2587733 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
2587749 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
2587812 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
2587829 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
2587893 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
2587909 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
2587969 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:2587977 original size:41 final size:41
Alignment explanation
Indices: 2587900--2587977 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2587890 TTTGTATCTC
* * *
2587900 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2587941 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2587978 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2591384 original size:6 final size:6
Alignment explanation
Indices: 2591373--2591408 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
2591363 CATAAAAGAT
*
2591373 AAATAA AAATAA AAATAA AAATAA AAATAT AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
2591409 GATAAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:2593652 original size:40 final size:40
Alignment explanation
Indices: 2593445--2593631 Score: 356
Period size: 40 Copynumber: 4.7 Consensus size: 40
2593435 ATTTGAATGA
2593445 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
2593485 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
2593525 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
*
2593565 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
*
2593605 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
2593632 GTGCGAGTTG
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
Found at i:2593658 original size:40 final size:40
Alignment explanation
Indices: 2593448--2593675 Score: 179
Period size: 40 Copynumber: 5.7 Consensus size: 40
2593438 TGAATGATAT
* * * * * * *
2593448 CCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATAC
* * * * * * *
2593488 CCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATAC
* * * * * * *
2593528 CCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATAC
* * * * * *
2593568 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATAC
2593608 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACTATAC
* *
2593648 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
2593676 TTGTGGTTAT
Statistics
Matches: 178, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 176 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATAC
Found at i:2593663 original size:120 final size:120
Alignment explanation
Indices: 2593445--2593668 Score: 342
Period size: 120 Copynumber: 1.9 Consensus size: 120
2593435 ATTTGAATGA
*
2593445 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCAT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
* * * * *
2593510 TTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTT
66 TTATCCGAGTGACTATACCCGGGCTAAGACCCGAAGGCATTTATCCTAGTGATTT
*
2593565 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
* * *
2593630 TTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCA
66 TTATCCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCA
2593669 ATTGTGCTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
120 91 0.98
121 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (120 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
TTATCCGAGTGACTATACCCGGGCTAAGACCCGAAGGCATTTATCCTAGTGATTT
Found at i:2593689 original size:120 final size:120
Alignment explanation
Indices: 2593444--2593704 Score: 337
Period size: 120 Copynumber: 2.2 Consensus size: 120
2593434 CATTTGAATG
*
2593444 ATATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * * * *
2593509 TTTATCCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATT
66 TTTATCCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTATCCTAGTGATT
* *
2593564 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * * * * *
2593629 TTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
66 TTTATCCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATTATCCTAGTGATT
* *
2593684 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
2593705 AAACTTGGGT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 13 0.11
120 106 0.88
121 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATCCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTATCCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTATCCTAGTGATT
Found at i:2600612 original size:27 final size:27
Alignment explanation
Indices: 2600582--2600635 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2600572 ATGACCAAAA
*
2600582 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGT-AAATGACTGATTT
*
2600609 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAGAGGGTAAATGACTGATTT
2600636 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAATGACTGATTT
Found at i:2600848 original size:26 final size:25
Alignment explanation
Indices: 2600772--2600848 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 25
2600762 ACAAACACTG
* * *
2600772 ATACTAGCAGTTTTGCTGCATTACTG
1 ATACTGGCAGCTTTGCTGCATTA-TT
* * *
2600798 ATACTGGCAACTCTGCTACGA-TATT
1 ATACTGGCAGCTTTGCTGC-ATTATT
2600823 ATTACTGGCAGCTTTGCTGCATTATT
1 A-TACTGGCAGCTTTGCTGCATTATT
2600849 GATGTGTTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
25 3 0.08
26 35 0.90
27 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (25 bp):
ATACTGGCAGCTTTGCTGCATTATT
Found at i:2602368 original size:40 final size:40
Alignment explanation
Indices: 2602268--2602532 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
2602258 GCTCCTCGTT
* * * *
2602268 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
2602308 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
2602347 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
2602387 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
2602427 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
2602467 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
2602508 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
2602533 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:2602492 original size:80 final size:80
Alignment explanation
Indices: 2602235--2602532 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
2602225 AAATCACGTA
* ** * * *
2602235 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
2602297 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
2602313 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
2602376 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
2602393 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
2602457 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
2602473 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
2602533 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:2602541 original size:41 final size:41
Alignment explanation
Indices: 2602464--2602541 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2602454 TTTGTATCTC
* * *
2602464 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2602505 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2602542 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2610327 original size:79 final size:82
Alignment explanation
Indices: 2610216--2610400 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
2610206 GCTACTCGTT
* *
2610216 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
2610279 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
2610296 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
2610359 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
2610376 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2610401 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:2610400 original size:40 final size:40
Alignment explanation
Indices: 2610197--2610400 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
2610187 CGGAATTTAA
** *
2610197 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2610237 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
2610277 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
2610316 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
2610356 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
2610396 CCGGA
1 CCGGA
2610401 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:2624045 original size:40 final size:40
Alignment explanation
Indices: 2623973--2624190 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
2623963 NNNNNNNNNN
* *
2623973 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
2624012 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
2624052 CCTTCGGGACTTAGCCGGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
2624092 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
2624132 CCTTCGGGGCTTAGCTCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
2624172 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
2624191 TTATCATCCG
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:2626215 original size:43 final size:43
Alignment explanation
Indices: 2626142--2626257 Score: 107
Period size: 43 Copynumber: 2.7 Consensus size: 43
2626132 CAGAGAACAT
* * * *
2626142 ATACAATGCCAAC-GTCCCAGAC-GTGATCTTACATGTAATCA-
1 ATACGATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCAG
*
2626183 ATCATTGATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAG
1 AT-A-CGATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAG
* *
2626227 ATACGATGCCGA-TGTCCCAGACATGGTCTTA
1 ATACGATGCCAACTGTCCCAGACAGGGTCTTA
2626258 TACATAAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.03
42 27 0.44
43 30 0.48
44 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAG
Found at i:2631733 original size:77 final size:77
Alignment explanation
Indices: 2631650--2631806 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 77
2631640 CTCTGACCAA
2631650 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACAGAGATAA
1 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACAGAGATAA
2631715 GCTGGATAGTGT
66 GCTGGATAGTGT
*
2631727 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
1 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACAGAGATAA
2631792 GCTGGATAGTGT
66 GCTGGATAGTGT
2631804 GAC
1 GAC
2631807 TTGGGTGCTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (77 bp):
GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACAGAGATAA
GCTGGATAGTGT
Found at i:2632175 original size:21 final size:21
Alignment explanation
Indices: 2632149--2632212 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
2632139 CGAATAAGTC
*
2632149 AACAGAAGCTCGTATGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
2632170 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
2632191 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
2632212 A
1 A
2632213 TCCGTTCAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:2635676 original size:42 final size:42
Alignment explanation
Indices: 2635575--2635712 Score: 145
Period size: 42 Copynumber: 3.2 Consensus size: 42
2635565 TGTGTTATCA
* * * *
2635575 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCGCATTTGGGACATTGGCATCGTA-TT-TGATTT-CG
2635619 TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
* * * *
2635661 TGTAAGACC-CTATTTGGGACAGTGGCATCGATATTTGAGTACA
1 TGTAAGACCGC-ATTTGGGACATTGGCATCG-TATTTGATTTCG
2635704 TGTAAGACC
1 TGTAAGACC
2635713 ATGTCTGGAC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.35
43 24 0.29
44 28 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
Found at i:2635730 original size:43 final size:43
Alignment explanation
Indices: 2635573--2635731 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 43
2635563 TATGTGTTAT
* *
2635573 CATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
2635617 CGTGTAAGACCGCAT-T-TGGGACATTGGCATCG-TATTTGATTT
1 CATGTAAGA-C-CATGTCTGGGACGTTGGCATCGATATTTGATTA
* * * * *
2635659 CGTGTAAGACCCTATTTGGGACAG-TGGCATCGATATTTGAGTA
1 CATGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTA
2635702 CATGTAAGACCATGTCT-GGACCGTTGGCAT
1 CATGTAAGACCATGTCTGGGA-CGTTGGCAT
2635732 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 30 0.32
43 32 0.34
44 23 0.25
45 2 0.02
46 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:2636458 original size:77 final size:77
Alignment explanation
Indices: 2636368--2636524 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
2636358 CTTTGACCAA
2636368 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
1 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
2636433 GCTGGATAGTGT
66 GCTGGATAGTGT
2636445 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
1 GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
2636510 GCTGGATAGTGT
66 GCTGGATAGTGT
2636522 GAC
1 GAC
2636525 TTGGGTGCTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (77 bp):
GACCATACAAAAGCCTATACATGCCATATAAACCGTATTTAACATTTCAAAAACTACCGAGATAA
GCTGGATAGTGT
Found at i:2636893 original size:21 final size:21
Alignment explanation
Indices: 2636867--2636930 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
2636857 CGAATAAGTC
*
2636867 AACAGAAGCTCGTATGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
2636888 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
2636909 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
2636930 A
1 A
2636931 TCCGTTCAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:2640394 original size:42 final size:42
Alignment explanation
Indices: 2640293--2640430 Score: 145
Period size: 42 Copynumber: 3.2 Consensus size: 42
2640283 TGTGTTATCA
* * * *
2640293 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCGCATTTGGGACATTGGCATCGTA-TT-TGATTT-CG
2640337 TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
* * * *
2640379 TGTAAGACC-CTATTTGGGACAGTGGCATCGATATTTGAGTACA
1 TGTAAGACCGC-ATTTGGGACATTGGCATCG-TATTTGATTTCG
2640422 TGTAAGACC
1 TGTAAGACC
2640431 ATGTCTGGAC
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.35
43 24 0.29
44 28 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCGCATTTGGGACATTGGCATCGTATTTGATTTCG
Found at i:2640448 original size:43 final size:43
Alignment explanation
Indices: 2640291--2640449 Score: 132
Period size: 43 Copynumber: 3.7 Consensus size: 43
2640281 TATGTGTTAT
* *
2640291 CATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
2640335 CGTGTAAGACCGCAT-T-TGGGACATTGGCATCG-TATTTGATTT
1 CATGTAAGA-C-CATGTCTGGGACGTTGGCATCGATATTTGATTA
* * * * *
2640377 CGTGTAAGACCCTATTTGGGACAG-TGGCATCGATATTTGAGTA
1 CATGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTA
2640420 CATGTAAGACCATGTCT-GGACCGTTGGCAT
1 CATGTAAGACCATGTCTGGGA-CGTTGGCAT
2640450 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 19
0.74 0.10 0.15
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 30 0.32
43 32 0.34
44 23 0.25
45 2 0.02
46 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:2647966 original size:44 final size:42
Alignment explanation
Indices: 2647897--2648053 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
2647887 TGTGTTATCG
* * * * *
2647897 TGTAAGACCACGTCTAGAACGTTGGCATCGACTTATAATTTACA
1 TGTAAGACCACATCTGGGACATTGGCATCGA-TT-TGATTTACA
* *
2647941 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT-CG
1 TGTAAGACCACATCTGGGACATTGGCATCG-ATTTGATTTACA
* *
2647983 TGTAAGACC-CTATCTGGGACAGTAGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCG--ATTTGATTTACA
* *
2648026 TGTAAGACCACATATGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
2648054 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 35 0.37
44 30 0.32
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATTTGATTTACA
Found at i:2647999 original size:42 final size:43
Alignment explanation
Indices: 2647936--2648053 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
2647926 GACTTATAAT
*
2647936 TTACATGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGA
1 TTACATGTAAGACCACATCTGGGACATTGGCATCGATATTTGA
* * * *
2647978 TTTCGTGTAAGACC-CTATCTGGGACAGTAGCATCGATATTTGA
1 TTACATGTAAGACCAC-ATCTGGGACATTGGCATCGATATTTGA
* *
2648021 TTACATGTAAGACCACATATGGGACGTTGGCAT
1 TTACATGTAAGACCACATCTGGGACATTGGCAT
2648054 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 28 0.45
43 32 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCACATCTGGGACATTGGCATCGATATTTGA
Found at i:2648032 original size:43 final size:42
Alignment explanation
Indices: 2647936--2648045 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
2647926 GACTTATAAT
* * *
2647936 TTACATGTAAGACCACGTCTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCACATCTGGGACAGTAGCATCGTATTTGA
* *
2647978 TTTCGTGTAAGACC-CTATCTGGGACAGTAGCATCGATATTTGA
1 TTACATGTAAGACCAC-ATCTGGGACAGTAGCATCG-TATTTGA
*
2648021 TTACATGTAAGACCACATATGGGAC
1 TTACATGTAAGACCACATCTGGGAC
2648046 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.49
43 27 0.47
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCACATCTGGGACAGTAGCATCGTATTTGA
Found at i:2654941 original size:19 final size:19
Alignment explanation
Indices: 2654919--2654955 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2654909 ATTGGTCTCC
2654919 ATTAAAAATTTTAATATTA
1 ATTAAAAATTTTAATATTA
*
2654938 ATTAAAAATTTTAGTATT
1 ATTAAAAATTTTAATATT
2654956 TGTTATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAAAAATTTTAATATTA
Found at i:2656372 original size:30 final size:30
Alignment explanation
Indices: 2656338--2656400 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
2656328 ACTTAACAAG
2656338 CAAATGCC-TCTAAAATAATAACAAAATTAA
1 CAAATGCCTTC-AAAATAATAACAAAATTAA
*
2656368 CAAATGCCTTCAAAATAATAGCAAAATTAA
1 CAAATGCCTTCAAAATAATAACAAAATTAA
2656398 CAA
1 CAA
2656401 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (30 bp):
CAAATGCCTTCAAAATAATAACAAAATTAA
Found at i:2656455 original size:22 final size:22
Alignment explanation
Indices: 2656430--2656472 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2656420 TATCCAAACA
2656430 ATAACA-ATAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
* *
2656452 ATAATAGAAAAATGGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
2656473 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:2658958 original size:45 final size:45
Alignment explanation
Indices: 2658846--2658975 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 45
2658836 AGATCAAATA
* * * * *
2658846 CGATGCCGATGTCCCAGACATGGTCTTACTCG-TAAC-CACATAT
1 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATAT
* * * *
2658889 CGA-CCCTAA-CTCCTAGATGTGGTCTTACACGAAAACACATATAT
1 CGATGCC-AATGTCCCAGACGTGGTCTTACACGAAAACACATATAT
*
2658933 CGATGCCAATGTCCCAGACGTGGTCTTACATGAAAACACATAT
1 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATAT
2658976 CAGAATTTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
42 19 0.28
43 7 0.10
44 11 0.16
45 31 0.46
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (45 bp):
CGATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATAT
Found at i:2671447 original size:27 final size:27
Alignment explanation
Indices: 2671417--2671506 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 27
2671407 TATAAGATAT
*
2671417 AATGACTGTAATTTCCCTTGTGGGTAA
1 AATGACTGTATTTTCCCTTGTGGGTAA
*
2671444 AATGACTAT-TTTTCCCTTGT-GGTACAA
1 AATGACTGTATTTTCCCTTGTGGGT--AA
*
2671471 AATGAC--TATTTTGCCCTTGTGAGGCAA
1 AATGACTGTATTTT-CCCTTGTG-GGTAA
2671498 AATGACTGT
1 AATGACTGT
2671507 TTTGCCCCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
25 4 0.08
26 14 0.27
27 31 0.60
29 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
AATGACTGTATTTTCCCTTGTGGGTAA
Found at i:2671509 original size:27 final size:26
Alignment explanation
Indices: 2671431--2671513 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
2671421 ACTGTAATTT
* *
2671431 CCCTTGTGGGTAAAATGACTATTTTT
1 CCCTTGTGGGCAAAATGACTATTTTG
*
2671457 CCCTTGTGGTACAAAATGACTATTTTG
1 CCCTTGTGG-GCAAAATGACTATTTTG
*
2671484 CCCTTGTGAGGCAAAATGACTGTTTTG
1 CCCTTGTG-GGCAAAATGACTATTTTG
2671511 CCC
1 CCC
2671514 CTATGTGATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.80
28 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
CCCTTGTGGGCAAAATGACTATTTTG
Found at i:2671997 original size:34 final size:35
Alignment explanation
Indices: 2671925--2672009 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 35
2671915 TGTATTGAGG
* *
2671925 TGGGCTTAGGCCTAGACTGTTTACTGATATTAAAA
1 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
* * *
2671960 TGGGCTAAGGCCCAGACTG-TTACTGTTACTAATA
1 TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
2671994 TGGGCTTAGGCCCAGA
1 TGGGCTTAGGCCCAGA
2672010 ATGTATTCGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 27 0.61
35 17 0.39
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (35 bp):
TGGGCTTAGGCCCAGACTGTTTACTGATACTAAAA
Found at i:2694420 original size:23 final size:24
Alignment explanation
Indices: 2694394--2694441 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2694384 TATTTTCTAG
*
2694394 TCATCGTTACTTTTTTA-ATAATA
1 TCATCGTTAATTTTTTATATAATA
**
2694417 TCATTTTTAATTTTTTATATAATA
1 TCATCGTTAATTTTTTATATAATA
2694441 T
1 T
2694442 TAAAAGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (24 bp):
TCATCGTTAATTTTTTATATAATA
Found at i:2695020 original size:29 final size:29
Alignment explanation
Indices: 2694978--2695042 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
2694968 CTAAAACAGG
*
2694978 GGTCACATGCCTATGCGGGCAGGGTGTGT
1 GGTCACATGCCTATGCGGGCAGGGCGTGT
*
2695007 GGTCACATGCCTATGTGGGCAGGGCGTGT
1 GGTCACATGCCTATGCGGGCAGGGCGTGT
2695036 GGTCACA
1 GGTCACA
2695043 CACGCCCGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.15, C:0.22, G:0.40, T:0.23
Consensus pattern (29 bp):
GGTCACATGCCTATGCGGGCAGGGCGTGT
Found at i:2696793 original size:42 final size:42
Alignment explanation
Indices: 2696677--2696920 Score: 305
Period size: 42 Copynumber: 5.8 Consensus size: 42
2696667 TACCAATCCT
*
2696677 ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATGCC
1 ATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGATGCC
* * * *
2696719 AATAGCCTAGCTATGGTCTTACACGAAGTCTCATATCGATGTC
1 -ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCC
*
2696762 ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATGCC
1 ATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGATGCC
* * * *
2696804 AATAGCCTAGCTATGGTCTTACACGAAGTCTCATATCGATGTC
1 -ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCC
* *
2696847 ATATCCCAGATATGGTCTTACACGAACTCTCATATAGATGCC
1 ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCC
*
2696889 ATATCCCAGATATTGTCTTACACGTAA-TCTCA
1 ATATCCCAGATATGGTCTTACACG-AAGTCTCA
2696921 GTAACCCTAA
Statistics
Matches: 174, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 102 0.59
43 72 0.41
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGATGCC
Found at i:2696820 original size:85 final size:85
Alignment explanation
Indices: 2696677--2696920 Score: 395
Period size: 85 Copynumber: 2.9 Consensus size: 85
2696667 TACCAATCCT
2696677 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACA
1 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACA
2696742 CGAAGTCTCATATCGATGTC
66 CGAAGTCTCATATCGATGTC
2696762 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACA
1 ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACA
2696827 CGAAGTCTCATATCGATGTC
66 CGAAGTCTCATATCGATGTC
* * * * * *
2696847 ATATCCCAGATATGGTCTTACACG-AACTCTCATATAGATGCC-ATATCCCAGATATTGTCTTAC
1 ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATGCCAATAGCCTAGCTATGGTCTTAC
2696910 ACGTAA-TCTCA
65 ACG-AAGTCTCA
2696921 GTAACCCTAA
Statistics
Matches: 151, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
84 27 0.18
85 124 0.82
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (85 bp):
ATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACA
CGAAGTCTCATATCGATGTC
Found at i:2696916 original size:127 final size:128
Alignment explanation
Indices: 2696687--2696920 Score: 355
Period size: 127 Copynumber: 1.8 Consensus size: 128
2696677 ATATCCCAGA
* * * *
2696687 TATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGGTCTTACACGAAGTCTCA
1 TATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACGAACTCTCA
* * *
2696752 TATCGATGTCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGC
66 TATAGATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCTAGC
* *
2696815 TATGGTCTTACACG-AAGTCTCATATCGATGTC-ATATCCCAGATATGGTCTTACACGAACTCTC
1 TATGGTCTTACACGTAA-TCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACGAACTCTC
*
2696878 ATATAGATGCCATATCCCAGATATTGTCTTACACGTAATCTCA
65 ATATAGATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
2696921 GTAACCCTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
127 68 0.72
128 27 0.28
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (128 bp):
TATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACGAACTCTCA
TATAGATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCTAGC
Found at i:2698602 original size:126 final size:125
Alignment explanation
Indices: 2698407--2698913 Score: 585
Period size: 126 Copynumber: 4.1 Consensus size: 125
2698397 TTTTTTTGTT
* * * *
2698407 CAGTAGTTTTTGAAAAAATAATTTT--G-AGATGGTTCTGAAAATATAATATCAAAAACGCTTCA
1 CAGTAGTTTCTG-AAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCTTCA
* * **
2698469 AGCAGGATGCATTATCAGCAAAACTACTAAAAAAAGCTCCCACATGGATGCTCTTTTTCTA
65 AGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACACTCTTTTTCTA
* * * * * *
2698530 CAGTAGTTTCTGAAAATTTTATTTTGAGAAGACGGTTCTGAAAAAATATTGTCAGAAACACTTCA
1 CAGTAGTTTCTGAAAA-ATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCTTCA
* * * * ** * *
2698595 AGTAGGATGTACTGTTAGCAAAAGTACTGTAAAAAGCTCTCACGTGGACACTCTTTTTCTA
65 AGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACACTCTTTTTCTA
* *
2698656 CAGTAGTTTCTAAAAAATAATTTTGAGAAGATGGTTCT-AAAAATATAGTGT-AAAAAGTGCTTC
1 CAGTAGTTTCTGAAAAATAATTTTGAGAAGATGGTTCTGAAAAA-ATAGTGTCAAAAA-CGCTTC
* * * ** *
2698719 AAGCAGGATGCACTGTCAGCAAAAGAACTAAAAAAAGCTCGCACATGGATGCTCTTTTTCAA
64 AAGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACACTCTTTTTCTA
* * * *
2698781 TAGTAGTTTATGAAGAAATAATTTTGAGAAGATAGTTCTGAAAAAATAGTGTCAAAAATGCTTCA
1 CAGTAGTTTCTGAA-AAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCTTCA
* * * *
2698846 AGCAGGATGCACTATCA-CAAAAGTGCTGAAAAAAGTTCCCACGTGGACACTCTTTTTCTA
65 AGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACACTCTTTTTCTA
2698906 CAGTAGTT
1 CAGTAGTT
2698914 CCTGCTTGAC
Statistics
Matches: 320, Mismatches: 55, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
122 4 0.01
123 17 0.05
124 9 0.03
125 133 0.42
126 147 0.46
127 10 0.03
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (125 bp):
CAGTAGTTTCTGAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAA
GCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCCCACATGGACACTCTTTTTCTA
Found at i:2701093 original size:16 final size:16
Alignment explanation
Indices: 2701074--2701104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2701064 CTTCTTCACT
2701074 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
2701090 TACTTACTTACTTAA
1 TACTCACTTACTTAA
2701105 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:2701110 original size:20 final size:20
Alignment explanation
Indices: 2701071--2701110 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2701061 AAACTTCTTC
* *
2701071 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
2701091 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
2701111 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:2701821 original size:27 final size:27
Alignment explanation
Indices: 2701783--2701837 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2701773 AATTCCAAGC
2701783 TTCATATTCTACCATAAAACATCAAAA
1 TTCATATTCTACCATAAAACATCAAAA
2701810 TTCATATTCTACCATAAAACATCAAAA
1 TTCATATTCTACCATAAAACATCAAAA
2701837 T
1 T
2701838 AAACACATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (27 bp):
TTCATATTCTACCATAAAACATCAAAA
Found at i:2707633 original size:38 final size:38
Alignment explanation
Indices: 2707591--2708315 Score: 1068
Period size: 38 Copynumber: 19.1 Consensus size: 38
2707581 TTAAGCTCGA
* * **
2707591 ATATAATACTAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * *
2707629 ATATAATACCAGCACGAAGCTTGTGGGAT-AAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2707666 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2707704 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2707742 ATATAATACCAGCACGAAGCCTGCGGAATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
2707780 ATATAATACCAGCACGAAGCCTGTGGGATAAAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * *
2707818 ATATAATACCAACACGAAGCCTGTGGGATAAAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * **
2707856 ATATAACACCAGTACGAAGCCTGCGGGATAAAACCTAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2707894 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2707932 ATATAATACCAGCACAAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
2707970 ATATAATACGAGCACGAAGCCTGTGGGAT-AAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * *
2708007 --AT-ATAGCAGCACGAAGCCTGCAGGATAAAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2708042 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* *
2708080 ATATAATACCAGCACTAAGGCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
2708118 ATATAATACCAGCACGAAGCCTGCAGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
2708156 ATATAATACCAGCACGAAGCCTGCGGGAT-AAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
2708193 ATATAATACCAGCACGAAGCCTGCGGGAT-AAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
2708230 ATATAATACCAGCACGAAGCCTAGCCTGCGGAATAAAACCCGG
1 ATATAATACCAGCACGAAGCCT-G-C-G-GG-ATAAAACCCGG
* *
2708273 ATATAATACCAGCACGAAACCTGCGGGATAAAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
2708311 ATATA
1 ATATA
2708316 CATCAAATAT
Statistics
Matches: 626, Mismatches: 50, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
34 20 0.03
35 9 0.01
37 110 0.18
38 447 0.71
39 3 0.00
40 2 0.00
41 3 0.00
42 3 0.00
43 29 0.05
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
Found at i:2712967 original size:13 final size:13
Alignment explanation
Indices: 2712951--2712980 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2712941 ATTGTCATGT
2712951 AATTGTTTTTCTG
1 AATTGTTTTTCTG
2712964 AATTGTTTTTCTG
1 AATTGTTTTTCTG
2712977 AATT
1 AATT
2712981 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:2713772 original size:17 final size:17
Alignment explanation
Indices: 2713747--2713780 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2713737 ATTATTTTAA
*
2713747 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
2713764 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
2713781 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:2713782 original size:15 final size:16
Alignment explanation
Indices: 2713747--2713785 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2713737 ATTATTTTAA
*
2713747 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
2713764 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
2713779 ATTTAAT
1 ATTTAAT
2713786 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:2713789 original size:17 final size:18
Alignment explanation
Indices: 2713751--2713790 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2713741 TTTTAAATTT
*
2713751 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
2713769 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
2713785 TATTAA
1 TATTAA
2713791 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:2713894 original size:18 final size:17
Alignment explanation
Indices: 2713866--2713900 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2713856 TTTATTAAGA
*
2713866 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2713883 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2713901 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2713950 original size:120 final size:120
Alignment explanation
Indices: 2713746--2714034 Score: 483
Period size: 120 Copynumber: 2.4 Consensus size: 120
2713736 AATTATTTTA
* * *
2713746 AATTTTATTAAATCATATA-TTTAATT-AAATCATATTTAATATTAATTATTTGAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAAT-ATATTTAATATTAATTATTTCAAATTATCTTT
* *
2713809 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
2713865 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
*
2713930 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
* *
2713985 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
2714035 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
119 18 0.11
120 138 0.86
121 4 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
Found at i:2714002 original size:59 final size:59
Alignment explanation
Indices: 2713819--2714002 Score: 164
Period size: 66 Copynumber: 3.1 Consensus size: 59
2713809 TATAGTATCA
* * *
2713819 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * ** * *
2713878 TATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCA-AATTATCTTTTATAGTAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTA-A--AT
2713937 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
2713998 TATAT
1 TATAT
2714003 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
54 13 0.14
55 7 0.07
56 13 0.14
57 1 0.01
58 3 0.03
59 11 0.12
61 6 0.06
62 3 0.03
63 1 0.01
64 13 0.14
65 8 0.09
66 15 0.16
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:2714020 original size:16 final size:16
Alignment explanation
Indices: 2713999--2714040 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
2713989 TTATTAAATT
*
2713999 ATATATTTTAATTATA
1 ATATATTTTAATAATA
2714015 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
2714030 AT-TATGTTTAA
1 ATATAT-TTTAA
2714041 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:2714025 original size:15 final size:15
Alignment explanation
Indices: 2713990--2714031 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2713980 TTAAGAATTT
*
2713990 TATTAAATTAT-ATA
1 TATTTAATTATAATA
2714004 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
2714018 TATTTAATAATAAT
1 TATTTAATTATAAT
2714032 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:2714063 original size:82 final size:82
Alignment explanation
Indices: 2713971--2714220 Score: 211
Period size: 76 Copynumber: 3.1 Consensus size: 82
2713961 CATATAAGAA
*
2713971 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
2714036 TTTAAATATGATTAAAT
66 TTTAAATATGATTAAAT
* * * * * * * *
2714053 TATTTATTATT--G-ATATTAATAATCTTATTAAAATTTAA--ATAACA-A--TAACAATAATAA
1 TATTTATTATTAAGAATTTTATTAA-ATTA-TATATTTTAATTATAATATATTTAATAATAATTA
* *** *
2714110 TTTACCAA-A--A-CAAAT
64 TGTTTAAATATGATTAAAT
*
2714125 T-TCTGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
*
2714189 TATGTTTAAATATGATTAAAA
62 TATGTTTAAATATGATTAAAT
2714210 TATTTATTATT
1 TATTTATTATT
2714221 GATAATAATA
Statistics
Matches: 120, Mismatches: 29, Indels: 38
0.64 0.16 0.20
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 1 0.01
75 7 0.06
76 22 0.18
77 4 0.03
78 13 0.11
79 14 0.12
80 4 0.03
81 22 0.18
82 17 0.14
83 1 0.01
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (82 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
TTTAAATATGATTAAAT
Found at i:2714148 original size:157 final size:157
Alignment explanation
Indices: 2713974--2714283 Score: 584
Period size: 157 Copynumber: 2.0 Consensus size: 157
2713964 ATAAGAATAT
*
2713974 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
2714039 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
2714104 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
2714131 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
2714196 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
2714261 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
2714284 ATGTTAAGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:2714171 original size:18 final size:17
Alignment explanation
Indices: 2714143--2714177 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2714133 ATTATTAAGA
*
2714143 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2714160 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2714178 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2714799 original size:36 final size:32
Alignment explanation
Indices: 2714731--2714795 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2714721 CCTCGGCCTC
2714731 ACACGAAAACATGACACTGACTGAATTGATAG
1 ACACGAAAACATGACACTGACTGAATTGATAG
*
2714763 ACACGCAAACATGACACTGACTGAATTGATAG
1 ACACGAAAACATGACACTGACTGAATTGATAG
2714795 A
1 A
2714796 TAGAACCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (32 bp):
ACACGAAAACATGACACTGACTGAATTGATAG
Found at i:2725546 original size:50 final size:49
Alignment explanation
Indices: 2725424--2725612 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
2725414 TGAGGTCGCA
* * * *
2725424 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAA-T-TAG-TCACG
* * **
2725475 TGTGTAGTACTAAGTGTAGGCTACTAAGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT-AGTCACG
* * * * *
2725525 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTAGTCACG
* * *
2725574 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATA
2725613 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 40 0.35
50 42 0.37
51 33 0.29
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTAGTCACG
Found at i:2738247 original size:48 final size:48
Alignment explanation
Indices: 2738192--2738524 Score: 323
Period size: 48 Copynumber: 6.9 Consensus size: 48
2738182 AGGTTAAATT
* *
2738192 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCT-TACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATATCGAG
* * *
2738240 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* * ** *
2738288 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* *
2738336 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCGAG
* * * * * * *
2738384 GCCAACGCCATGTCCTAGACATGGTCTTACACTAGCACACATATTGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* * * * * * *
2738432 ACCGGTGCCATATCCCAGACATGGTCATACACTGGCTCTCATAAC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGA-G
* * * * *
2738480 ACCGATGCCATGTTCCA-AGCATTGTCTTACACTAGCACACATATC
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTCTCATATC
2738525 ACCCAATGTT
Statistics
Matches: 240, Mismatches: 40, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
47 4 0.02
48 234 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
Found at i:2738454 original size:144 final size:144
Alignment explanation
Indices: 2738194--2738473 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 144
2738184 GTTAAATTGC
* * * *
2738194 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTTACATGTCGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCGAGGCCAACGCCATGTCCCAGA
* * * *** * *
2738259 CATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACTAGC
2738324 TCTCATCTTAATGT
131 TCTCATCTTAATGT
* *
2738338 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCAACGCCATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACAT-ATCGAGGCCAACGCCATGTCCCA
** * *
2738401 GACATGGTCTTACACTAGCACACATATTGACACCGGTGCCATATCCCAGACATGGTCATACACTG
64 GACATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACTA
2738466 GCTCTCAT
129 GCTCTCAT
2738474 AACATTACCG
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
144 114 0.98
145 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCGAGGCCAACGCCATGTCCCAGA
CATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACTAGC
TCTCATCTTAATGT
Found at i:2738486 original size:144 final size:144
Alignment explanation
Indices: 2738193--2738524 Score: 364
Period size: 144 Copynumber: 2.3 Consensus size: 144
2738183 GGTTAAATTG
* * * *
2738193 CCGATGCCATGTCCCAGACATGGTTTTACACTAGCTTACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCGAGGCCAACGCCATGTCCCAG
* * * *** * *
2738258 ACATGGTCTTACACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAG
66 ACATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACTAG
*** *
2738323 CTCTCATCTTAATG
131 CTCTCATAACAATA
* * *
2738337 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCAACGCCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACAT-ATCGAGGCCAACGCCATGTCCC
** *
2738400 AGACATGGTCTTACACTAGCACACATATTGACACCGGTGCCATATCCCAGACATGGTCATACACT
64 AGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACT
* *
2738465 GGCTCTCATAACATTA
129 AGCTCTCATAACAATA
* * **
2738481 CCGATGCCATGTTCCA-AGCATTGTCTTACACTAGCACACATATC
1 CCGATGCCATGTCCCAGA-CATGGTCTTACACTAGCTTACATATC
2738525 ACCCAATGTT
Statistics
Matches: 154, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
143 3 0.02
144 149 0.97
145 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (144 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATATCGAGGCCAACGCCATGTCCCAG
ACATGGTCTTACACTAGCACACATATCAACACCGATGCCATATCCCAGACATGGTCATACACTAG
CTCTCATAACAATA
Found at i:2738516 original size:96 final size:96
Alignment explanation
Indices: 2738189--2738523 Score: 357
Period size: 96 Copynumber: 3.5 Consensus size: 96
2738179 AAGAGGTTAA
* * ** * ** **
2738189 ATTGCCGATGCCATGTCCCAGACATGGTTTTACACTAGCTTACATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCACACATATTAACACCGATGCCATGTC
**
2738254 CCAGACATGGTCTTACACTAGCTCTCATCTC
66 CCAGACATGGTCTTACACTAGCTCTCATAAC
* * * * * * ***
2738285 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAATGTCGATGCCATGTC
1 ATTGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCACACATATTAACACCGATGCCATGTC
*
2738350 CCAGACATGGTCTTACACTAGCTCTCATAAT
66 CCAGACATGGTCTTACACTAGCTCTCATAAC
* * * * * * * *
2738381 GTGGCCAACGCCATGTCCTAGACATGGTCTTACACTAGCACACATATTGACACCGGTGCCATATC
1 ATTGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCACACATATTAACACCGATGCCATGTC
* *
2738446 CCAGACATGGTCATACACTGGCTCTCATAAC
66 CCAGACATGGTCTTACACTAGCTCTCATAAC
* *
2738477 ATTACCGATGCCATGTTCCAAG-CATTGTCTTACACTAGCACACATAT
1 ATTGCCGATGCCATG-TCCAAGACATGGTCTTACACTAGCACACATAT
2738524 CACCCAATGT
Statistics
Matches: 199, Mismatches: 39, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
96 194 0.97
97 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCACACATATTAACACCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTCATAAC
Done.