Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 8 of 433
Found at i:2388583 original size:22 final size:22
Alignment explanation
Indices: 2388543--2388584 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2388533 AGTTTCTTTT
* * *
2388543 TTTCTAAATTGAGGTTTTGATA
1 TTTCAAAATTGAAGCTTTGATA
2388565 TTTCAAAATTGAAGCTTTGA
1 TTTCAAAATTGAAGCTTTGA
2388585 ATGGTGTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (22 bp):
TTTCAAAATTGAAGCTTTGATA
Found at i:2393181 original size:12 final size:12
Alignment explanation
Indices: 2393164--2393191 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2393154 GAAGGGAAAT
2393164 CCCTCAAAGATA
1 CCCTCAAAGATA
2393176 CCCTCAAAGATA
1 CCCTCAAAGATA
2393188 CCCT
1 CCCT
2393192 ATAACTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.39, G:0.07, T:0.18
Consensus pattern (12 bp):
CCCTCAAAGATA
Found at i:2394717 original size:16 final size:17
Alignment explanation
Indices: 2394691--2394722 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2394681 AAATAAATAG
2394691 ATATATATATATATTAC
1 ATATATATATATATTAC
2394708 ATAT-TATATATATTA
1 ATATATATATATATTA
2394723 TATTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATATATATTAC
Found at i:2394844 original size:28 final size:27
Alignment explanation
Indices: 2394811--2394868 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
2394801 CTTTTATTAA
*
2394811 TTTAAT-TTTAATTAAAAATAAAATCATG
1 TTTAATATTT-ATTAAAAAGAAAA-CATG
*
2394839 TTTAATATTTATTTAAAAGAAAACATG
1 TTTAATATTTATTAAAAAGAAAACATG
2394866 TTT
1 TTT
2394869 GTCACGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 17 0.63
29 3 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTAATATTTATTAAAAAGAAAACATG
Found at i:2397138 original size:2 final size:2
Alignment explanation
Indices: 2397131--2397161 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2397121 TATGTATGTT
2397131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2397162 GATGTGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2402224 original size:15 final size:14
Alignment explanation
Indices: 2402204--2402233 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2402194 CCGTTCTCTT
2402204 TCCTTCTCCTTTCTC
1 TCCTTCTCC-TTCTC
2402219 TCCTTCTCCTTCTC
1 TCCTTCTCCTTCTC
2402233 T
1 T
2402234 TTCCGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (14 bp):
TCCTTCTCCTTCTC
Found at i:2410253 original size:127 final size:127
Alignment explanation
Indices: 2410027--2410282 Score: 485
Period size: 127 Copynumber: 2.0 Consensus size: 127
2410017 CTGATCAGCA
* *
2410027 CAACAAATAAACACTGAAGAGAGTATATAACATTTGAATTAAACAAAGAAAATTAGACATGGCAT
1 CAACAAATAAACAATGAAGAGAGTATATAACATTTGAATTAAACAAAGAAAATTAGACAAGGCAT
2410092 AACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTAT
66 AACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTAT
*
2410154 CAACAAATAAACAATGAAGAGAGTATATAACATTTGAATTAAACAACGAAAATTAGACAAGGCAT
1 CAACAAATAAACAATGAAGAGAGTATATAACATTTGAATTAAACAAAGAAAATTAGACAAGGCAT
2410219 AACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTAT
66 AACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTAT
2410281 CA
1 CA
2410283 GCAGAAGAAG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 126 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (127 bp):
CAACAAATAAACAATGAAGAGAGTATATAACATTTGAATTAAACAAAGAAAATTAGACAAGGCAT
AACCTCGTTATATTTCTGTTTAGCATACTATTTTATATCCCAGGGATGAGGACTTACTGTAT
Found at i:2412086 original size:25 final size:24
Alignment explanation
Indices: 2412031--2412086 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
2412021 TTTTTTTAGA
* *
2412031 TTTTTTTGATTGTTTATTTTAGTT
1 TTTTTTTGATTGTTTATATTAATT
* *
2412055 TAGTTTTTGATTTTTTCATATTAATT
1 T-TTTTTTGATTGTTT-ATATTAATT
2412081 TTTTTT
1 TTTTTT
2412087 AACTTTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.64
26 8 0.32
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (24 bp):
TTTTTTTGATTGTTTATATTAATT
Found at i:2413927 original size:99 final size:99
Alignment explanation
Indices: 2413755--2413941 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 99
2413745 TCTAATGACC
* * *
2413755 TTCATCGGGATTTACTTAGTGCTTACTCGTCATACTTAAAACATATGAATCATTTAAACGAGTAC
1 TTCATCAGGATTTACTTAATGCTTACTCATCATACTTAAAACATATGAATCATTTAAACGAGTAC
*
2413820 ATAGCATGACATACATAATAAACCCAATAGTAAA
66 ATAACATGACATACATAATAAACCCAATAGTAAA
* * *
2413854 TTCATCAGGATTTACTTAATGCTTAGTCATCATGCTTAAAACATATGAATTATTTAAACGAGTAC
1 TTCATCAGGATTTACTTAATGCTTACTCATCATACTTAAAACATATGAATCATTTAAACGAGTAC
*
2413919 ATAACATGACATACATGATAAAC
66 ATAACATGACATACATAATAAAC
2413942 TCAACAGCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (99 bp):
TTCATCAGGATTTACTTAATGCTTACTCATCATACTTAAAACATATGAATCATTTAAACGAGTAC
ATAACATGACATACATAATAAACCCAATAGTAAA
Found at i:2414390 original size:11 final size:9
Alignment explanation
Indices: 2414349--2414381 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
2414339 TAATAACTTT
2414349 TTTTTATAA
1 TTTTTATAA
2414358 TTTTTATAA
1 TTTTTATAA
2414367 TTTTTATAA
1 TTTTTATAA
2414376 TTTTTA
1 TTTTTA
2414382 AATAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:2414398 original size:18 final size:19
Alignment explanation
Indices: 2414349--2414401 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
2414339 TAATAACTTT
* *
2414349 TTTTTATAATTTT-TATAA
1 TTTTTAAAATTTTAAATAA
*
2414367 TTTTTATAATTTTTAAATAA
1 TTTTTA-AAATTTTAAATAA
2414387 -TTTTAAAATTTTAAA
1 TTTTTAAAATTTTAAA
2414402 ATGACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 15 0.52
19 10 0.34
20 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAAATTTTAAATAA
Found at i:2427744 original size:139 final size:139
Alignment explanation
Indices: 2427485--2427758 Score: 401
Period size: 139 Copynumber: 2.0 Consensus size: 139
2427475 GTCCTATAAA
* * * *
2427485 GGAAATGCCTCCCATGACTAAGAAGGGAAAGAAAGCTAAATCTGTGAAGAAGGCTCGGAAAGTGA
1 GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
* * * *
2427550 TAAAGAGTATGTATCCTCTAGTCAAACGCACAAAGAAATTGAAATCTACTTCCTCTTAGCAGAGT
66 TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
2427615 CTGCTCAAG
131 CTGCTCAAG
*
2427624 GGAAATGCCTCCAATGTA-TAAGATGGTG-AAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
1 GGAAATGCCTCCAATG-ACTAAGAAGG-GAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
* *
2427687 GATAAAGAATGTGTATCCTCTAGTCAAACGAACGAAGAAATTGAAATCCA-TGCCCTCTTAGCAG
64 GATAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACT-CCCTCTTAGCAG
2427751 AGTCTGCT
128 AGTCTGCT
2427759 TTGTGAGTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
138 1 0.01
139 118 0.98
140 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (139 bp):
GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
CTGCTCAAG
Found at i:2430602 original size:2 final size:2
Alignment explanation
Indices: 2430595--2430638 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2430585 GGAGACCGAA
2430595 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2430637 TC
1 TC
2430639 ACAATTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2435394 original size:45 final size:45
Alignment explanation
Indices: 2435293--2435380 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
2435283 ATCAACAAAC
*
2435293 AATGACTATATTGACCGGTTTAATAGTTTTTTTTCAAATTCATAT
1 AATGACTATATTGACCGGTTTAATAGTTATTTTTCAAATTCATAT
2435338 AATGACTATATTGACCGGTTTAATAG-TATTTTTCAAATTCATA
1 AATGACTATATTGACCGGTTTAATAGTTATTTTTCAAATTCATA
2435381 CTTTTATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 16 0.38
45 26 0.62
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (45 bp):
AATGACTATATTGACCGGTTTAATAGTTATTTTTCAAATTCATAT
Found at i:2441085 original size:2 final size:2
Alignment explanation
Indices: 2441078--2441107 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2441068 AACATTCCTT
2441078 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2441108 TGTATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2442564 original size:44 final size:44
Alignment explanation
Indices: 2442514--2442602 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
2442504 AATAAATATG
2442514 TATTCACTAATTATGGCTTGCATTATTAATCCAAACATGTTTTT
1 TATTCACTAATTATGGCTTGCATTATTAATCCAAACATGTTTTT
2442558 TATTCACTAATTATGGCTTGCATTATTAATCCAAACATGTTTTT
1 TATTCACTAATTATGGCTTGCATTATTAATCCAAACATGTTTTT
2442602 T
1 T
2442603 TACTTAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (44 bp):
TATTCACTAATTATGGCTTGCATTATTAATCCAAACATGTTTTT
Found at i:2442840 original size:19 final size:21
Alignment explanation
Indices: 2442818--2442857 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2442808 GCATCTCGTA
*
2442818 AATTTATTC-TTTTT-ATTTT
1 AATTTAATCATTTTTAATTTT
2442837 AATTTAATCATTTTTAATTTT
1 AATTTAATCATTTTTAATTTT
2442858 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 5 0.28
21 5 0.28
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
AATTTAATCATTTTTAATTTT
Found at i:2442880 original size:16 final size:16
Alignment explanation
Indices: 2442832--2442880 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
2442822 TATTCTTTTT
2442832 ATTTTAA-TTTAATCA
1 ATTTTAATTTTAATCA
*
2442847 TTTTTAATTTTTAA--A
1 ATTTTAA-TTTTAATCA
*
2442862 ATTTTAATTTTGATCA
1 ATTTTAATTTTAATCA
2442878 ATT
1 ATT
2442881 GGTAATCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.19
15 13 0.48
16 4 0.15
17 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTTAATTTTAATCA
Found at i:2443431 original size:29 final size:29
Alignment explanation
Indices: 2443395--2443469 Score: 150
Period size: 29 Copynumber: 2.6 Consensus size: 29
2443385 TCAGGTTATA
2443395 TTTTAGTCACTTATGTTTAAAATGTTACG
1 TTTTAGTCACTTATGTTTAAAATGTTACG
2443424 TTTTAGTCACTTATGTTTAAAATGTTACG
1 TTTTAGTCACTTATGTTTAAAATGTTACG
2443453 TTTTAGTCACTTATGTT
1 TTTTAGTCACTTATGTT
2443470 ATTATTTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (29 bp):
TTTTAGTCACTTATGTTTAAAATGTTACG
Found at i:2447978 original size:20 final size:19
Alignment explanation
Indices: 2447955--2448014 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
2447945 TTAAATTCTA
2447955 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
** *
2447975 AAAGATATTTAAAGATAATT
1 AAAGATAAATAAA-ATAAAT
2447995 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
2448015 CATAAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:2447987 original size:10 final size:10
Alignment explanation
Indices: 2447955--2448002 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
2447945 TTAAATTCTA
*
2447955 AAAGATAAAT
1 AAAGATAATT
*
2447965 ACAA-ATAAAT
1 A-AAGATAATT
*
2447975 AAAGATATTT
1 AAAGATAATT
2447985 AAAGATAATT
1 AAAGATAATT
2447995 AAAGATAA
1 AAAGATAA
2448003 ATGAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAATT
Found at i:2450692 original size:35 final size:36
Alignment explanation
Indices: 2450603--2450756 Score: 124
Period size: 35 Copynumber: 4.4 Consensus size: 36
2450593 ACCTATAGTT
* *
2450603 CAAATTCAATA-GAACATCACATAT-AGCCGAATATG
1 CAAATTCAATATAAAC-TCACATATGAGCCGAATATA
* * *
2450638 CACATTCAAGT-TAACCTCACATATGA-CCGAATACA
1 CAAATTCAA-TATAAACTCACATATGAGCCGAATATA
** ** *
2450673 CAAATTCAATATAAACTCACACGT-AATCGAATATT
1 CAAATTCAATATAAACTCACATATGAGCCGAATATA
*
2450708 CAAATTCAATATAACCTCACA-A-GCAGCCGAATATA
1 CAAATTCAATATAAACTCACATATG-AGCCGAATATA
*
2450743 CAAGTTCAATATAA
1 CAAATTCAATATAA
2450757 GCTTACATGT
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.02
35 88 0.94
36 4 0.04
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (36 bp):
CAAATTCAATATAAACTCACATATGAGCCGAATATA
Found at i:2450693 original size:70 final size:71
Alignment explanation
Indices: 2450603--2450756 Score: 165
Period size: 70 Copynumber: 2.2 Consensus size: 71
2450593 ACCTATAGTT
* * * *
2450603 CAAATTCAATA-GAACATCACATATAGCCGAATATGCACATTCAAGT-TAACCTCACATATG-A-
1 CAAATTCAATATAAACATCACACATAACCGAATATGCAAATTCAA-TATAACCTCACA-A-GCAG
2450664 CCGAATACA
63 CCGAATACA
* * *
2450673 CAAATTCAATATAAAC-TCACACGTAATCGAATATTCAAATTCAATATAACCTCACAAGCAGCCG
1 CAAATTCAATATAAACATCACACATAACCGAATATGCAAATTCAATATAACCTCACAAGCAGCCG
*
2450737 AATATA
66 AATACA
*
2450743 CAAGTTCAATATAA
1 CAAATTCAATATAA
2450757 GCTTACATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
68 1 0.01
69 3 0.04
70 64 0.90
71 3 0.04
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (71 bp):
CAAATTCAATATAAACATCACACATAACCGAATATGCAAATTCAATATAACCTCACAAGCAGCCG
AATACA
Found at i:2452543 original size:20 final size:19
Alignment explanation
Indices: 2452501--2452543 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
2452491 TAATATGGGT
*
2452501 CAAACATGGAGTCAAATTA
1 CAAACATGGAGTCAAACTA
2452520 CAAATCATGG-GTCAAACTA
1 CAAA-CATGGAGTCAAACTA
2452539 GCAAA
1 -CAAA
2452544 AAGCAAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (19 bp):
CAAACATGGAGTCAAACTA
Found at i:2453123 original size:22 final size:22
Alignment explanation
Indices: 2453080--2453123 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2453070 TTTGAGTTCA
*
2453080 AATCAATCTAAATTTACCAATT
1 AATCAATCTAAATTTACAAATT
*
2453102 AATCTAATC-AAATTTTCAAATT
1 AATC-AATCTAAATTTACAAATT
2453124 TAAATCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATCAATCTAAATTTACAAATT
Found at i:2454038 original size:16 final size:16
Alignment explanation
Indices: 2454017--2454054 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2454007 AAAATCAAAA
*
2454017 TTTTTATAATATCTAT
1 TTTTTATAATATATAT
*
2454033 TTTTTATAATATATTT
1 TTTTTATAATATATAT
2454049 TTTTTA
1 TTTTTA
2454055 ATTTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATAATATATAT
Found at i:2454047 original size:14 final size:15
Alignment explanation
Indices: 2454017--2454056 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
2454007 AAAATCAAAA
2454017 TTTTTATAATATCTAT
1 TTTTTATAATA-CTAT
2454033 TTTTTATAATA-TAT
1 TTTTTATAATACTAT
*
2454047 TTTTTTTAAT
1 TTTTTATAAT
2454057 TTTCATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTATAATACTAT
Found at i:2456160 original size:46 final size:46
Alignment explanation
Indices: 2456103--2456320 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
2456093 AGTGTGCTTT
* *
2456103 ATGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
2456149 ATGATATGAAATGTGTAAGACCACGGTTGAAAGATACCATGGTAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
2456195 GTGACATGAAATGAACAAGACCATAGTTGAAAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
** * *
2456241 ATGACGGGAAATGAATAAGTCCATGGTTGAAAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2456287 ATGACAGGAAATGAGTAAGACCATAGTTGAAAGA
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGA
2456321 CAATATGGCA
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 151 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2457104 original size:3 final size:3
Alignment explanation
Indices: 2457091--2457145 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
2457081 TTTGGTGGTT
* * * **
2457091 GAA GAA AAA GAA GAA GAA GAA TAA GAA AAA GAA GAA GAA GTC GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2457139 GAA GAA G
1 GAA GAA G
2457146 GTGATGGACT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.02, G:0.29, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:2460707 original size:111 final size:113
Alignment explanation
Indices: 2460511--2460733 Score: 333
Period size: 111 Copynumber: 2.0 Consensus size: 113
2460501 TATTCTGTTA
* * * *
2460511 AATTAGGGTTACATGTGACTGTGGATTTGGGGGAATTTTTTAAATTTCTGCTGGGTTTAAGGTTT
1 AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTGAGTTTAAGGTTT
*
2460576 CTAAGTCTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
66 CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
* * * *
2460624 AATTAGGGTTATAGGTGACCGTCGA-TTGGGGGAATTTTTTTAATTTCTG-TTAGTTTAGGGTTT
1 AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTGAGTTTAAGGTTT
* *
2460687 CTAAGACTCTTTGTTTTCAATTCCAGTGGTATAATATTTCTAGGGTT
66 CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTT
2460734 TTAGAGCTGT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 55 0.56
112 23 0.23
113 21 0.21
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (113 bp):
AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTGAGTTTAAGGTTT
CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
Found at i:2465957 original size:135 final size:134
Alignment explanation
Indices: 2465699--2465984 Score: 400
Period size: 135 Copynumber: 2.1 Consensus size: 134
2465689 TCTCCTTTCA
* * * * * * *
2465699 AAGCTTTTTTTTATTGCCTTAGAATTTTTATGTTTGTCATGTTATTTATGACTTTCTGGTCTAGT
1 AAGCTTTTCTTTATTGCCTTAGAATTTATATGTTTATCATATTAGTTATGACTTGCTGATCTAGT
* * *
2465764 GATCCTCATATAATTTTTTATCATAGCCTGGATTGTTAATCATACTCCTTCATTAAAGTATACTT
66 GATCCTCATATAATTTTTTATCATAGCCAGGATTGTTAATCATACTCCTTCATCAAAGTATACCT
2465829 TTTG
131 TTTG
2465833 AAGCATTTTCTTTATTGCCTTAGAATTTATATGTTCTATCATATT-GTT-TGACTTGCTGATCTA
1 AAGC-TTTTCTTTATTGCCTTAGAATTTATATGTT-TATCATATTAGTTATGACTTGCTGATCTA
2465896 GTG-TACCTCATATAATTTTTTTATCATAGCCAGGATTGTTAATCATACT-CTGTCATCAAAGTA
64 GTGAT-CCTCATATAA-TTTTTTATCATAGCCAGGATTGTTAATCATACTCCT-TCATCAAAGTA
2465959 TACCTTTTG
126 TACCTTTTG
2465968 AAGCTTTTTCTTTATTG
1 AAGC-TTTTCTTTATTG
2465985 ACTCCTTTCG
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
133 1 0.01
134 32 0.24
135 96 0.71
136 7 0.05
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (134 bp):
AAGCTTTTCTTTATTGCCTTAGAATTTATATGTTTATCATATTAGTTATGACTTGCTGATCTAGT
GATCCTCATATAATTTTTTATCATAGCCAGGATTGTTAATCATACTCCTTCATCAAAGTATACCT
TTTG
Found at i:2468999 original size:22 final size:23
Alignment explanation
Indices: 2468954--2469000 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2468944 ACGAAAAATG
*
2468954 ATTTTTTTTTAAGAATTTTATCT
1 ATTTTTTTTTAAGAATATTATCT
2468977 ATTTTTTTTTAA-AA-ATTAGTCT
1 ATTTTTTTTTAAGAATATTA-TCT
2468999 AT
1 AT
2469001 GTATGTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 7 0.32
23 12 0.55
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTTTTTTTAAGAATATTATCT
Found at i:2479034 original size:14 final size:14
Alignment explanation
Indices: 2479017--2479046 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2479007 AAGCATAATA
2479017 TACTTACTCTGTTT
1 TACTTACTCTGTTT
*
2479031 TACTTCCTCTGTTT
1 TACTTACTCTGTTT
2479045 TA
1 TA
2479047 TAGTACTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (14 bp):
TACTTACTCTGTTT
Found at i:2481165 original size:30 final size:32
Alignment explanation
Indices: 2481110--2481168 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
2481100 CTAGCCGTAC
*
2481110 TAAAACCGTAAAGCAGTTAAAAGTCCAAAGTT
1 TAAAACCGTAAAGCAGTCAAAAGTCCAAAGTT
*
2481142 TAAAACCG-AAA-CAGTCCAAAGTCCAAA
1 TAAAACCGTAAAGCAGTCAAAAGTCCAAA
2481169 AATTTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
31 3 0.12
32 8 0.32
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (32 bp):
TAAAACCGTAAAGCAGTCAAAAGTCCAAAGTT
Found at i:2504990 original size:2 final size:2
Alignment explanation
Indices: 2504985--2505026 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2504975 TCCAAAATAC
2504985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2505027 GAGAAAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2506481 original size:21 final size:20
Alignment explanation
Indices: 2506457--2506496 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2506447 TCTATTTGTA
*
2506457 ATTGTAATCCTATAAAAAAAT
1 ATTGT-ATCCTAAAAAAAAAT
*
2506478 ATTGTATGCTAAAAAAAAA
1 ATTGTATCCTAAAAAAAAA
2506497 ATTAATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
ATTGTATCCTAAAAAAAAAT
Found at i:2512520 original size:68 final size:68
Alignment explanation
Indices: 2512373--2512528 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
2512363 AGCCGATTTG
* * * * *
2512373 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
2512438 TATC
65 TATA
* *
2512442 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
2512504 ATATAGTA
62 ATATA-TA
2512512 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
2512529 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:2523049 original size:23 final size:22
Alignment explanation
Indices: 2523022--2523114 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 22
2523012 ATAAATAGTA
2523022 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
2523045 ATAGTGTTTGAAGTATATATAT
1 ATAGTGTTAGAAATATATATAT
*
2523067 A-AGATAG-TAAAAATATATA-ACT
1 ATAG-T-GTTAGAAATATATATA-T
*
2523089 AGTAATGTTA-AAATATATATAAT
1 A-TAGTGTTAGAAATATATAT-AT
2523112 ATA
1 ATA
2523115 TACATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.05
22 30 0.54
23 21 0.38
24 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:2523108 original size:2 final size:2
Alignment explanation
Indices: 2523101--2523142 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
2523091 TAATGTTAAA
*
2523101 AT AT AT AT A- AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2523142 A
1 A
2523143 AATAAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2523151 original size:10 final size:10
Alignment explanation
Indices: 2523099--2523151 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
2523089 AGTAATGTTA
2523099 AAATATATAT
1 AAATATATAT
2523109 AATATATACATAT
1 AA-ATAT--ATAT
*
2523122 ATATATATAT
1 AAATATATAT
*
2523132 ATATATATAT
1 AAATATATAT
*
2523142 AAATAAATAT
1 AAATATATAT
2523152 TGAAAAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 24 0.65
11 4 0.11
12 4 0.11
13 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATATATAT
Found at i:2523465 original size:3 final size:3
Alignment explanation
Indices: 2523441--2523530 Score: 103
Period size: 3 Copynumber: 29.7 Consensus size: 3
2523431 AAGTACCTAT
*
2523441 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
2523487 TAA CAA TAA T-A TAA TAA GTAA CAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
2523531 TAGAAATTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
2 3 0.04
3 65 0.88
4 6 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2523588 original size:16 final size:16
Alignment explanation
Indices: 2523555--2523587 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2523545 AACTAAACAT
*
2523555 AATATAATAATATTAA
1 AATAAAATAATATTAA
2523571 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
2523586 AA
1 AA
2523588 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:2524153 original size:20 final size:20
Alignment explanation
Indices: 2524128--2524173 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2524118 CATTTGGTGA
2524128 GGAGAGAAGGAAGAGAGAAG
1 GGAGAGAAGGAAGAGAGAAG
2524148 GGAGAGAAGGAAGAGAGAAG
1 GGAGAGAAGGAAGAGAGAAG
2524168 GGAGAG
1 GGAGAG
2524174 GGAGGAGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
GGAGAGAAGGAAGAGAGAAG
Found at i:2524160 original size:13 final size:11
Alignment explanation
Indices: 2524129--2524173 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
2524119 ATTTGGTGAG
2524129 GAGAGAAGGAA
1 GAGAGAAGGAA
2524140 GAGAGAAGG--
1 GAGAGAAGGAA
2524149 GAGAGAAGGAA
1 GAGAGAAGGAA
*
2524160 GAGAGAAGGGA
1 GAGAGAAGGAA
2524171 GAG
1 GAG
2524174 GGAGGAGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.29
11 22 0.71
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (11 bp):
GAGAGAAGGAA
Found at i:2525314 original size:14 final size:15
Alignment explanation
Indices: 2525290--2525318 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2525280 CTTTTTTTTT
2525290 GAAAGGCAGAAATTG
1 GAAAGGCAGAAATTG
2525305 GAAA-GCAGAAATTG
1 GAAAGGCAGAAATTG
2525319 AAAATACCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.31, T:0.14
Consensus pattern (15 bp):
GAAAGGCAGAAATTG
Found at i:2525429 original size:73 final size:72
Alignment explanation
Indices: 2525305--2526528 Score: 809
Period size: 72 Copynumber: 16.2 Consensus size: 72
2525295 GCAGAAATTG
* * * * * *
2525305 GAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
2525370 GATTTTT
66 GATTTTT
* * ** *
2525377 GAAAAACAGAAATTGAAATTACCTCAGCACGTCCGGAGGCTCAACTCACCTCTCGC-A-ATGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
2525440 TGATTTTTTT
65 TGA--TTTTT
* * *
2525450 GAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAAA-ACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
2525515 TGATTTTTTTT
65 TGA---TTTTT
* * * * *
2525526 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
2525591 GAATTTT
66 GATTTTT
* * ** * ** * * * *
2525598 G-AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCT
1 GAAAACAGAAATT--GAAA-ATACCTCAG-C-ATGTCT-TGAG-G-CTC-A-ACTC-ACT----T
*
2525661 CTCGCATTATGAGTTGATTTTTTTTTTTT
51 CTCGCAATATGAGTTGA-------TTTTT
* * *
2525690 GAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATG
1 GAAA-ACAGAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCACTTCTCGCAATATG
2525754 AGTTGATTTTT
62 AGTTGATTTTT
* * * ** * *
2525765 GAAAACATAAATTGAAATTACCTTAGCGCGTCCTAAGGCTCAACTCACTTCTCGC-A-ATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
2525828 GATTTTTT
66 GA-TTTTT
* *
2525836 GGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 -GAAA-ACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAG
2525901 TTGATTTTTTT
64 TTGA--TTTTT
* * * * * *
2525912 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATTAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
* *
2525977 TAATTTT
66 GATTTTT
* * ** * ** * * *
2525984 G-AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCAAGACTCAACTCACCT
1 GAAAACAGAAATT--GAAA-ATACCTCAG-C-ATGTCT-TGAG-G-CTC-A-ACTC-ACT----T
*
2526047 CTCGCATTATGAGTTGATTTTTTTTTTT
51 CTCGCAATATGAGTTGA------TTTTT
* * *
2526075 GAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATG
1 GAAA-ACAGAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCACTTCTCGCAATATG
2526139 AGTTGATTTTT
62 AGTTGATTTTT
* * * * * * * * *
2526150 GACAACATAAATTTAAAATATCTCAACGTGTTTTGAGGTTCAACTTA-TTACTCGCAATATGAGT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTT-CTCGCAATATGAGT
*
2526214 TGAATTTT
65 TGATTTTT
* * * *
2526222 GAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTT-TCGCAATATGAGT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCA-CTTCTCGCAATATGAGT
*
2526286 CGATTTTTTTTTTT
65 TGA------TTTTT
* *
2526300 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
*
2526365 TGAATTTT
65 TGATTTTT
* * * *
2526373 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
*
2526438 GAATTTT
66 GATTTTT
* * * * ** * *
2526445 GAAAATAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCTTTTCTCGTAATATAAGT
1 GAAAACAGAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
*
2526509 TGAATTTT
65 TGATTTTT
*
2526517 GAAAATAGAAAT
1 GAAAACAGAAAT
2526529 AAAAATATCA
Statistics
Matches: 914, Mismatches: 155, Indels: 165
0.74 0.13 0.13
Matches are distributed among these distances:
70 9 0.01
71 41 0.04
72 260 0.28
73 152 0.17
74 108 0.12
75 102 0.11
76 21 0.02
77 2 0.00
78 11 0.01
79 58 0.06
80 6 0.01
81 21 0.02
82 17 0.02
85 33 0.04
86 6 0.01
87 4 0.00
88 3 0.00
89 5 0.01
90 9 0.01
91 16 0.02
92 13 0.01
93 10 0.01
94 7 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (72 bp):
GAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
GATTTTT
Found at i:2525450 original size:160 final size:157
Alignment explanation
Indices: 2525283--2526389 Score: 587
Period size: 146 Copynumber: 7.1 Consensus size: 157
2525273 TTTCTTTCTT
*
2525283 TTTTTTTGAAAGGCAGAAATTGGAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAA
1 TTTTTTTGAAA--CAGAAATT-GAAA-CA-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAA
*
2525348 CTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAGCACGTCCG
61 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATGTCC-
2525412 GAGGCTCAACTCACCTCTCGC-A-ATGAGTTGA
125 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
2525443 TTTTTTTG-AA-AG--A-T---A-AAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
1 TTTTTTTGAAACAGAAATTGAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
* * * *
2525499 TTCTCGCAATATGAGTTGATTTTTTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAG
66 CTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATGTC-CGAG
** *
2525563 GCTCAACTCATTTCTCGCAATATAAGTTGA
128 GCTCAACTCACCTCTCGCAATATGAGTTGA
* * ** *
2525593 --ATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACT
1 TTTTTTTGAAACAGAAATT--GAAAC-AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACT
* * * *
2525656 CACCTCTCGCATTATGAGTTGATTTTTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATG
63 CACCTCTCGCAATATGAGTTGA------TTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATG
2525721 TGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
122 T---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * * *
2525760 --TTTTTG-AA-A-ACA-T------AAATTGAAATTACCTTAGCGCGTCCTAAGGCTCAACTCAC
1 TTTTTTTGAAACAGAAATTGAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
* * * * *
2525813 TTCTCGC-A-ATGAGTTGATTTTTTGGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGG
66 CTCTCGCAATATGAGTTGATTTTTT-GAAAAACAGAAATTGAAATTACCTCAGCATGTC-CGAGG
**
2525876 CTCAACTCATTTCTCGCAATATGAGTTGA
129 CTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
2525905 TTTTTTTGAAAACAGAAATTG-----AAA-T-----TACCTCAACGTGTCTTGAGGCTCAACTTA
1 TTTTTTTG-AAACAGAAATTGAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA
** * * * * *
2525959 TTTCTCGCAATATTAGTTTAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAA-TACCTCAG
65 CCTCTCGCAATATGAG-TTGATTTT------T---TGAA-AAACAGAAATTG-AAATTACCTCAG
* * * * *
2526023 CGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGA
118 CATG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
**** * * *
2526064 TTTTTTT--TTTTGAAA--GATA-GAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACT
1 TTTTTTTGAAACAGAAATTGAAACAAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACT
* * * * * * * **
2526123 CACCTCTCGCAATATGAGTTGA-TTTTTG-ACAACATAAATTTAAAATATCTCAACGTGTTTTGA
63 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATG-TCCGA
* * *
2526186 GGTTCAACTTA-TTACTCGCAATATGAGTTGA
127 GGCTCAACTCACCT-CTCGCAATATGAGTTGA
* * * *
2526217 --ATTTTG----A-AAA-T---A-GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
1 TTTTTTTGAAACAGAAATTGAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
* * * *
2526270 CTTTCGCAATATGAGTCGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTT
66 CTCTCGCAATATGAGTTGA-----TTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATGTC-C
** *
2526335 GAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
125 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
2526368 --ATTTTGAAAACAGAAATTGAAA
1 TTTTTTTG-AAACAGAAATTGAAA
2526390 TTACCTCAAC
Statistics
Matches: 743, Mismatches: 116, Indels: 175
0.72 0.11 0.17
Matches are distributed among these distances:
143 2 0.00
144 35 0.05
145 31 0.04
146 79 0.11
147 67 0.09
148 56 0.08
149 16 0.02
150 24 0.03
151 63 0.08
152 17 0.02
153 49 0.07
154 41 0.06
155 1 0.00
156 8 0.01
157 3 0.00
158 8 0.01
159 61 0.08
160 62 0.08
161 1 0.00
163 1 0.00
164 22 0.03
165 29 0.04
166 30 0.04
167 36 0.05
168 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (157 bp):
TTTTTTTGAAACAGAAATTGAAACAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAATTACCTCAGCATGTCCGAGGCT
CAACTCACCTCTCGCAATATGAGTTGA
Found at i:2526024 original size:386 final size:385
Alignment explanation
Indices: 2525311--2526385 Score: 1635
Period size: 386 Copynumber: 2.8 Consensus size: 385
2525301 ATTGGAAAGC
* *
2525311 AGAAATTGAAAATACCTCAGC--GTG-CCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
2525373 TTTTGAAAAACAGAAATTGAAATTACCTCAGCACGTCCGGAGGCTCAACTCACCTCTCGCAATGA
65 TTTTG-AAAACATAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACTTCTCGCAATGA
2525438 GTTGATTTTTTTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
129 GTTGA-TTTTTTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
2525503 CGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
193 CGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
2525568 ACTCATTTCTCGCAATATAAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACC
258 ACTCATTTCTCGCAATATAAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACC
* *
2525633 TCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTTTGAAAGAT
323 TCAGCGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTTTTTTGAAAGAT
2525697 AGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
2525762 TTTGAAAACATAAATTGAAATTACCTTAGCGCGTCCTAAGGCTCAACTCACTTCTCGCAATGAGT
66 TTTGAAAACATAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACTTCTCGCAATGAGT
*
2525827 TGATTTTTTGGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCG
131 TGATTTTTT-GAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCG
2525892 CAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
195 CAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
* * *
2525956 TTATTTCTCGCAATATTAGTTTAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTC
260 TCATTTCTCGCAATATAAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTC
2526021 AGCGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTTGAAAGAT
325 AGCGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTTGAAAGAT
2526082 AGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * * * ** * *
2526147 TTTGACAACATAAATTTAAAATATCTCAACGTGTTTTGAGGTTCAACTTA-TTACTCGCAATATG
66 TTTGAAAACATAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACTT-CTCGC-A-ATG
* * * * * *
2526211 AGTTGA-ATTTTGAAA-ATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTT-
128 AGTTGATTTTTTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCA-TTTC
* * * *
2526273 TCGCAATATGAGTCGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAG
192 TCGCAATATGAGTTGA---TTTTTTTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAG
* * *
2526338 GCTCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGAAATT
253 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAACATAAATT
2526386 GAAATTACCT
Statistics
Matches: 633, Mismatches: 42, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
384 55 0.09
385 132 0.21
386 186 0.29
387 134 0.21
388 49 0.08
389 67 0.11
390 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (385 bp):
AGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAACATAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACTTCTCGCAATGAGT
TGATTTTTTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
CATTTCTCGCAATATAAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCA
GCGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTTGAAAGAT
Found at i:2526446 original size:223 final size:223
Alignment explanation
Indices: 2525319--2526490 Score: 1000
Period size: 223 Copynumber: 5.1 Consensus size: 223
2525309 GCAGAAATTG
* * *
2525319 AAAA-TACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTT
1 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTT
* *
2525377 GAAAAACAGAAATTGAAATTACCTCAGCACGT-CCGGAGGCTCAACTCACCTCTCGC-A-ATGAG
66 GAAAAACAGAAATTGAAAATACCTCAGCATGTACC-GAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
2525439 TTGATTTTTTTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
130 TTGA--ATTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTC
* * *
2525504 GCAATATGAGTTGATTTTTTTTGAAAACAGAAATT
192 GCAATATGAGTTGA---ATTTTGAAAATAGAAATA
* * * ** * * *
2525539 GAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAACA
1 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG-ATTTT-----T
*** * ** * ** *
2525604 TAAATT-AAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAT
60 TTTTTTGAA-AAACAGAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAA
* * * * *
2525668 TATGAGTTGATTTTTTTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGC
124 TATGAGTTGA-------ATTTTGAAA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGC
* * * * *
2525732 TCAACTCACCT-CTCGCAATATGAGTTGATTTTTGAAAACATAAATT
178 TCAACTCA-TTACTCGCAATATGAGTTGAATTTTGAAAATAGAAATA
* * * * * * *
2525778 GAAATTACCTTAGCGCGTCCTAAGGCTCAACTCACTTCTCGC-A-ATGAGTTGA----TTTTTTG
1 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTT
* * * **
2525837 GAAAGACAAAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 GAAAAACAGAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
2525901 TTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCG
130 TTGA--ATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCG
* * *
2525966 CAATATTAGTTTAATTTTGAAACATAAATTAAGAAACA
193 CAATATGAGTTGAATTTTG----A-AAA-T-AGAAATA
* ** * * *
2526004 AAAATTGCCAATACCTCAGCGTGCCCCAAGACTCAACTCACCTCTCGCATTATGAGTTGATTTTT
1 AAAA-T-----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTT
* *
2526069 TTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCA
60 TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCA
* * * * * * * *
2526134 ATATGAGTTGATTTTTGACAACATAAATTTAAAATATCTCAACGTGTTTTGAGGTTCAACTTATT
123 ATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
*
2526199 ACTCGCAATATGAGTTGAATTTTGAAAATAGAAATT
188 ACTCGCAATATGAGTTGAATTTTGAAAATAGAAATA
* *
2526235 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTCGATTTTTTTTTTT
1 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTT
* ** *
2526300 GAAAAACAGAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATCTGAG
66 GAAAAACAGAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
* *
2526364 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
130 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCA
2526429 ATATGAGTTGAATTTTGAAAATAGAAATA
195 ATATGAGTTGAATTTTGAAAATAGAAATA
* *
2526458 AAAATTACCTCAACGTGTCTTGAGGCTCAACTC
1 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
2526491 TTTTCTCGTA
Statistics
Matches: 783, Mismatches: 116, Indels: 103
0.78 0.12 0.10
Matches are distributed among these distances:
218 2 0.00
219 36 0.05
220 3 0.00
221 60 0.08
222 13 0.02
223 140 0.18
224 3 0.00
225 83 0.11
226 8 0.01
227 57 0.07
228 2 0.00
230 1 0.00
231 8 0.01
232 34 0.04
233 48 0.06
234 12 0.02
235 9 0.01
236 1 0.00
237 7 0.01
238 105 0.13
239 53 0.07
240 63 0.08
241 1 0.00
242 32 0.04
243 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (223 bp):
AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTT
GAAAAACAGAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAA
TATGAGTTGAATTTTGAAAATAGAAATA
Found at i:2526544 original size:223 final size:223
Alignment explanation
Indices: 2526084--2526545 Score: 543
Period size: 223 Copynumber: 2.1 Consensus size: 223
2526074 TGAAAGATAG
*
2526084 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * * * * *
2526148 TTGACAACATAAATTTAAAATATCTCAACGTGTTTTGAGGTTCAACTTATTACTCGCAATATGAG
64 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
2526213 TTGAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTT-TCGC
129 TTGAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CTTCTCGC
* * ***** * *
2526277 AATATGAGTCGATTTTTTTTTTTGAAAAACAG
193 AATATGAGTTGAATTTTGAAAAT-AGAAACAA
** ** * *
2526309 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA-ATTTT
1 AAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
2526373 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
66 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
** * * ** *
2526438 GAATTTTGAAAATAGAAATAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCTTTTCTCGTAAT
131 GAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAAT
* *
2526503 ATAAGTTGAATTTTGAAAATAGAAATAA
196 ATGAGTTGAATTTTGAAAATAGAAACAA
*
2526531 AAATATCAAAATACC
1 AAAT-TGAAAATACC
2526546 AAAACCTGTT
Statistics
Matches: 200, Mismatches: 35, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
222 11 0.05
223 166 0.83
225 23 0.12
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (223 bp):
AAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAAT
ATGAGTTGAATTTTGAAAATAGAAACAA
Found at i:2538399 original size:23 final size:22
Alignment explanation
Indices: 2538372--2538464 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 22
2538362 ATAAATAGTA
2538372 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
2538395 ATAGTGTTTGAAGTATATATAT
1 ATAGTGTTAGAAATATATATAT
*
2538417 A-AGATAG-TAAAAATATATA-ACT
1 ATAG-T-GTTAGAAATATATATA-T
*
2538439 AGTAATGTTA-AAATATATATAAT
1 A-TAGTGTTAGAAATATATAT-AT
2538462 ATA
1 ATA
2538465 TACATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.05
22 30 0.54
23 21 0.38
24 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:2538490 original size:19 final size:21
Alignment explanation
Indices: 2538451--2538490 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2538441 TAATGTTAAA
*
2538451 ATATATATAATATATACATAT
1 ATATATATAATATATAAATAT
2538472 ATATATATAA-A-ATAAATAT
1 ATATATATAATATATAAATAT
2538491 TGAGAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATATAATATATAAATAT
Found at i:2538803 original size:9 final size:10
Alignment explanation
Indices: 2538791--2538848 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
2538781 ATAATATTAT
2538791 ATAAAT-ATA
1 ATAAATAATA
2538800 ATAAATAATA
1 ATAAATAATA
2538810 AT-AATAATA
1 ATAAATAATA
*
2538819 AT-AACAATA
1 ATAAATAATA
2538828 ATAGCAATAATA
1 ATA--AATAATA
*
2538840 GTAAA-AATA
1 ATAAATAATA
2538849 CAAAAGAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 27 0.64
10 7 0.17
12 8 0.19
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
ATAAATAATA
Found at i:2538839 original size:3 final size:3
Alignment explanation
Indices: 2538779--2538830 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
2538769 AAGTACCTAT
* *
2538779 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
2538826 TAA TA
1 TAA TA
2538831 GCAATAATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 1 0.02
3 34 0.83
4 6 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2539024 original size:3 final size:3
Alignment explanation
Indices: 2539018--2539482 Score: 166
Period size: 3 Copynumber: 156.7 Consensus size: 3
2539008 ATAGTAAATG
* *
2539018 TAA TAA TAA TAA TAA TAA TAA TAA TAA GT-A TAG T-A TAAA TAA TATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A
* * * * *
2539064 TACA TAA CAG TAA TAA TAA TAA GTAA CAA CAA CAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* *
2539111 TAA TAA T-A TAGA -AA T-T TAA -AA -AA GTAA -ACA TAA T-A TAA TGA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA -TAA TA-A TAA TAA TAA TAA
* * * *
2539152 TAT TAA -AA TAA -AA T-A TACA CTAA TAT TTA TAA -AA -AA TAA TAG
1 TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
2539194 TAA -ATA TAA TAA TAA TAA TAT TAA GT-A TAG T-T TAAA TAA TATG TACA
1 TAA TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
2539241 TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2539287 TAA TAA T-A TAGA -AA T-T TAA -AA -AA GTAA -ACA TAA T-A TAA TGA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA -TAA TA-A TAA TAA TAA TAA
* * * *
2539328 TAT TAA -AA TAA -AA T-A TACA CTAA TAT TTA TAA -AA -AA TAA TAG
1 TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA
*
2539370 TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
2539415 TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA
1 TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA
* *
2539463 CAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
2539483 TAGAAATTCA
Statistics
Matches: 346, Mismatches: 64, Indels: 104
0.67 0.12 0.20
Matches are distributed among these distances:
2 50 0.14
3 249 0.72
4 43 0.12
5 4 0.01
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2539317 original size:176 final size:176
Alignment explanation
Indices: 2538976--2539529 Score: 713
Period size: 176 Copynumber: 3.0 Consensus size: 176
2538966 AAACATATAT
*
2538976 AATAAAATATACACTAATATTTATAAATAATAATAGTAAATGTAATAATAATAATAATAATAATA
1 AATAAAATATACACTAATATTTATAAAAAATAATAGT--A---AAT-ATAATAATAATAAT-AT-
* * *
2539041 ATAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC---AACAACAATAAT
58 -TAAGTATAGTTTAAATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAAT
2539103 AATAATAATAATAATATAGAAATTTAAAAAAGTAAACATAATATAATGATATTAA
122 AATAATAATAATAATATAGAAATTTAAAAAAGTAAACATAATATAATGATATTAA
2539158 AATAAAATATACACTAATATTTATAAAAAATAATAGTAAATATAATAATAATAATATTAAGTATA
1 AATAAAATATACACTAATATTTATAAAAAATAATAGTAAATATAATAATAATAATATTAAGTATA
2539223 GTTTAAATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATAATAAT
66 GTTTAAATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATAATAAT
2539288 AATAATATAGAAATTTAAAAAAGTAAACATAATATAATGATATTAA
131 AATAATATAGAAATTTAAAAAAGTAAACATAATATAATGATATTAA
*
2539334 AATAAAATATACACTAATATTTATAAAAAATAATAGTAAATATAATAATAATAATAATAA-TAAT
1 AATAAAATATACACTAATATTTATAAAAAATAATAGTAAATATAATAATAATAATATTAAGT-AT
* * * * * *
2539398 AATAATAATAATAATATTAAGTATAGTATA-AATAATATGTACATAACAGTAATAATAATAAGTA
65 AGT--TTA-AATAATA-T--GTACA-TA-ACAGTAATA-ATA-AT-A-AGTAACAATAATAA-TA
* * * * *
2539462 ACAATAATAGTAATAATAATATAGAAATTCAAAAAAACTAAACATAATATAATAATATTAA
117 ATAATAATAATAATAATAATATAGAAATT-TAAAAAAGTAAACATAATATAATGATATTAA
2539523 AATAAAA
1 AATAAAA
2539530 AATAATTTAA
Statistics
Matches: 338, Mismatches: 16, Indels: 29
0.88 0.04 0.08
Matches are distributed among these distances:
173 48 0.14
175 3 0.01
176 142 0.42
177 3 0.01
178 2 0.01
179 7 0.02
180 2 0.01
182 40 0.12
183 8 0.02
184 3 0.01
185 2 0.01
186 1 0.00
187 13 0.04
188 29 0.09
189 35 0.10
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (176 bp):
AATAAAATATACACTAATATTTATAAAAAATAATAGTAAATATAATAATAATAATATTAAGTATA
GTTTAAATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATAATAAT
AATAATATAGAAATTTAAAAAAGTAAACATAATATAATGATATTAA
Found at i:2542911 original size:27 final size:26
Alignment explanation
Indices: 2542881--2542976 Score: 61
Period size: 27 Copynumber: 3.5 Consensus size: 26
2542871 GTATTTAATT
2542881 AATTTTTAAAAATTTAAAATTTCAAAA
1 AATTTTTAAAAATTTAAAATTT-AAAA
* *
2542908 AA-TTATAAAAACTTTTTAAAAATT-AAA
1 AATTTTTAAAAA---TTTAAAATTTAAAA
* ** *
2542935 AATTATTAAAAAAACATAAATTTTAAAA
1 AATT-TT-TAAAAATTTAAAATTTAAAA
*
2542963 AAATTTTAAAAATT
1 AATTTTTAAAAATT
2542977 AATTAAAAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 15
0.65 0.16 0.19
Matches are distributed among these distances:
26 13 0.26
27 15 0.30
28 7 0.14
29 10 0.20
30 5 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
AATTTTTAAAAATTTAAAATTTAAAA
Found at i:2542916 original size:18 final size:18
Alignment explanation
Indices: 2542881--2542964 Score: 75
Period size: 17 Copynumber: 4.7 Consensus size: 18
2542871 GTATTTAATT
*
2542881 AATTTTTAAAAATT-TAA
1 AATTTTAAAAAATTATAA
*
2542898 AATTTCAAAAAATTATAAA
1 AATTTTAAAAAATTAT-AA
*
2542917 AACTTTTTAAAAATTA-AA
1 AA-TTTTAAAAAATTATAA
**
2542935 AATTATTAAAAAAACAT-A
1 AATT-TTAAAAAATTATAA
2542953 AATTTTAAAAAA
1 AATTTTAAAAAA
2542965 ATTTTAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
17 22 0.40
18 18 0.33
19 4 0.07
20 11 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTTTAAAAAATTATAA
Found at i:2542948 original size:30 final size:29
Alignment explanation
Indices: 2542893--2542949 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
2542883 TTTTTAAAAA
* *
2542893 TTTAAAATTTCAAAAAATTATAAAAACTT
1 TTTAAAAATTCAAAAAATTAAAAAAACTT
2542922 TTTAAAAATT-AAAAATTATTAAAAAAAC
1 TTTAAAAATTCAAAAA--ATTAAAAAAAC
2542950 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 9 0.38
30 10 0.42
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTAAAAATTCAAAAAATTAAAAAAACTT
Found at i:2558560 original size:18 final size:18
Alignment explanation
Indices: 2558537--2558571 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2558527 TTTTTTTTAA
2558537 AAAAATCATCATGAAAAG
1 AAAAATCATCATGAAAAG
2558555 AAAAATCATCATGAAAA
1 AAAAATCATCATGAAAA
2558572 TTATAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.11, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAAATCATCATGAAAAG
Found at i:2561785 original size:17 final size:17
Alignment explanation
Indices: 2561765--2561798 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2561755 AAAAACCCAA
2561765 AAAGAAAAAAAAAATGG
1 AAAGAAAAAAAAAATGG
*
2561782 AAAGAAAAAAAAGATGG
1 AAAGAAAAAAAAAATGG
2561799 TAACAGCTCA
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:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (17 bp):
AAAGAAAAAAAAAATGG
Found at i:2562442 original size:31 final size:31
Alignment explanation
Indices: 2562374--2562444 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2562364 ACATTTGAGA
*
2562374 AGCC-CTTATTTGAGCACTTTTAAAAAGGTT
1 AGCCTCTTATTTGAGCACTTTTAAAAAGGGT
* * * *
2562404 TGACTCTTATTTGAGTACTTTTATAAAGGGT
1 AGCCTCTTATTTGAGCACTTTTAAAAAGGGT
2562435 AGCCTCTTAT
1 AGCCTCTTAT
2562445 ATGACCATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (31 bp):
AGCCTCTTATTTGAGCACTTTTAAAAAGGGT
Found at i:2564142 original size:12 final size:12
Alignment explanation
Indices: 2564125--2564158 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2564115 CAGCCCTCCC
2564125 ATATTAATTTTT
1 ATATTAATTTTT
*
2564137 ATATTATTTTTT
1 ATATTAATTTTT
2564149 ATA-TAATTTT
1 ATATTAATTTT
2564159 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:2564253 original size:30 final size:30
Alignment explanation
Indices: 2564209--2564271 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
2564199 ACTTAACAAG
2564209 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
2564239 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
2564269 CAA
1 CAA
2564272 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:2568162 original size:21 final size:21
Alignment explanation
Indices: 2568138--2568178 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2568128 ATATTGAATT
2568138 GATTTAATATATTAT-TATATC
1 GATTTAA-ATATTATATATATC
2568159 GATTTAAATATTATATATAT
1 GATTTAAATATTATATATAT
2568179 TAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
GATTTAAATATTATATATATC
Found at i:2568197 original size:35 final size:37
Alignment explanation
Indices: 2568141--2568212 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 37
2568131 TTGAATTGAT
*
2568141 TTAATATATTATTATATCGATTTAAATATTATATATA
1 TTAATATATTATTATATCGATTGAAATATTATATATA
* *
2568178 TTAATAT-TTATTGA-A-CGATTGAAATTTTTTATATA
1 TTAATATATTATT-ATATCGATTGAAATATTATATATA
2568213 ATATAAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 17 0.55
36 6 0.19
37 8 0.26
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (37 bp):
TTAATATATTATTATATCGATTGAAATATTATATATA
Found at i:2568636 original size:16 final size:16
Alignment explanation
Indices: 2568611--2568658 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2568601 GGTCAGATCA
*
2568611 ATTAAATCAAAAATCG
1 ATTAATTCAAAAATCG
**
2568627 ATTAATTCAATCATCG
1 ATTAATTCAAAAATCG
2568643 ATTAGATTTCAAAAAT
1 ATTA-A-TTCAAAAAT
2568659 ATTGAGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 17 0.68
17 1 0.04
18 7 0.28
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTAATTCAAAAATCG
Found at i:2571365 original size:17 final size:16
Alignment explanation
Indices: 2571341--2571382 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
2571331 GATAGTAAAA
2571341 TTATAATTTTAT-TAT
1 TTATAATTTTATATAT
2571356 TT-TAATAATTTATATAT
1 TTATAAT--TTTATATAT
2571373 TTATAATTTT
1 TTATAATTTT
2571383 TAGAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.17
15 2 0.09
16 8 0.35
17 5 0.22
18 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATAATTTTATATAT
Found at i:2573096 original size:28 final size:29
Alignment explanation
Indices: 2573065--2573119 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
2573055 TTATCACTTA
*
2573065 AAAAATATT-AAATTAATT-TTATTTTATT
1 AAAAAT-TTAAAATAAATTATTATTTTATT
2573093 AAAAATTTAAAATAAATTATTATTTTA
1 AAAAATTTAAAATAAATTATTATTTTA
2573120 AAAAATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 14 0.58
29 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AAAAATTTAAAATAAATTATTATTTTATT
Found at i:2573120 original size:26 final size:28
Alignment explanation
Indices: 2573065--2573123 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
2573055 TTATCACTTA
* *
2573065 AAAAATATTAAATTAATTTTATTTTATT
1 AAAAATATTAAAATAATATTATTTTATT
2573093 AAAAAT-TTAAAATAA-ATTATTATT-TT
1 AAAAATATTAAAATAATATTATT-TTATT
2573119 AAAAA
1 AAAAA
2573124 ATGAGATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.43
27 10 0.36
28 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AAAAATATTAAAATAATATTATTTTATT
Found at i:2573124 original size:28 final size:28
Alignment explanation
Indices: 2573063--2573124 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
2573053 ATTTATCACT
*
2573063 TAAAAAATATTAAATTAATTTTATTTTA
1 TAAAAAATATTAAATAAATTTTATTTTA
*
2573091 TTAAAAAT-TTAAAATAAATTATTATTTTA
1 TAAAAAATATT-AAATAAATT-TTATTTTA
2573120 -AAAAA
1 TAAAAA
2573125 TGAGATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.07
28 19 0.66
29 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAAAATATTAAATAAATTTTATTTTA
Found at i:2574513 original size:22 final size:21
Alignment explanation
Indices: 2574479--2574524 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2574469 AAAACTTTCA
* *
2574479 AAATATTAACTTTATTAATAGT
1 AAATAATAACTTT-TAAATAGT
*
2574501 AAATAATATCTTTTAAATAGT
1 AAATAATAACTTTTAAATAGT
2574522 AAA
1 AAA
2574525 ATAGTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
AAATAATAACTTTTAAATAGT
Found at i:2575901 original size:29 final size:28
Alignment explanation
Indices: 2575862--2575986 Score: 108
Period size: 29 Copynumber: 4.2 Consensus size: 28
2575852 GGTTGCCCAC
* *
2575862 ATAAGGGCCAAACATTTCAAAATGGTCAT
1 ATAA-GGCCAAACATTTCAAAATGATCAA
*
2575891 ATAAGGCCCAAACATTTACAAAAGTGCTCAA
1 ATAAGG-CCAAACATTT-CAAAA-TGATCAA
* *
2575922 ATGAAGGCCAAACCTTTCAAAATGATCAG
1 AT-AAGGCCAAACATTTCAAAATGATCAA
* *
2575951 ATAAAAGCCAAACCTTTTCAAAATG-TACAA
1 AT-AAGGCCAAA-CATTTCAAAATGAT-CAA
2575981 ATAAGG
1 ATAAGG
2575987 GTTAAAACTT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 33 0.41
30 25 0.31
31 16 0.20
32 4 0.05
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (28 bp):
ATAAGGCCAAACATTTCAAAATGATCAA
Found at i:2583229 original size:21 final size:21
Alignment explanation
Indices: 2583205--2583244 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2583195 ACATAAATAT
*
2583205 TTTAAAAATTATAATAATAAA
1 TTTAAAAATAATAATAATAAA
* *
2583226 TTTAATAATAATATTAATA
1 TTTAAAAATAATAATAATA
2583245 TTAAATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAAAATAATAATAATAAA
Found at i:2583233 original size:12 final size:12
Alignment explanation
Indices: 2583210--2583269 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
2583200 AATATTTTAA
2583210 AAATTATAATAAT
1 AAATT-TAATAAT
2583223 AAATTTAATAAT
1 AAATTTAATAAT
*
2583235 -AATATTAATATT
1 AAAT-TTAATAAT
*
2583247 AAA-TAAAT-AT
1 AAATTTAATAAT
*
2583257 AAATATAATAAT
1 AAATTTAATAAT
2583269 A
1 A
2583270 TTAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.11
11 10 0.26
12 17 0.45
13 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTTAATAAT
Found at i:2583233 original size:15 final size:15
Alignment explanation
Indices: 2583215--2583275 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 15
2583205 TTTAAAAATT
2583215 ATAATAATAAATTTA
1 ATAATAATAAATTTA
2583230 ATAATAATATTAATATTAA
1 ATAATAATA--AAT-TT-A
*
2583249 ATAA-ATATAAATATA
1 ATAATA-ATAAATTTA
*
2583264 ATAATATTAAAT
1 ATAATAATAAAT
2583276 AAAATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 19 0.50
16 2 0.05
17 6 0.16
18 3 0.08
19 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATAAATTTA
Found at i:2584098 original size:19 final size:19
Alignment explanation
Indices: 2584076--2584118 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2584066 TAATATGTTG
*
2584076 TTAAATTATTATTCAAATT
1 TTAAATTAATATTCAAATT
* *
2584095 TTAAATTAATCTTTAAATT
1 TTAAATTAATATTCAAATT
2584114 TTAAA
1 TTAAA
2584119 ATGTTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTAATATTCAAATT
Found at i:2588253 original size:20 final size:19
Alignment explanation
Indices: 2588227--2588279 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
2588217 TTCATTATAT
2588227 ATTTTTAGAATTTTTATGA
1 ATTTTTAGAATTTTTATGA
* *
2588246 ACTTTTTATAATTTGTTTTGA
1 A-TTTTTAGAATTT-TTATGA
2588267 A-TTTT-GAATTTTT
1 ATTTTTAGAATTTTT
2588280 GTAATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 5 0.17
20 11 0.38
21 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (19 bp):
ATTTTTAGAATTTTTATGA
Found at i:2590222 original size:49 final size:49
Alignment explanation
Indices: 2590169--2590266 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
2590159 TAAACCCTTG
2590169 TGTGTGTGTTTTTATTGATGTCTGTACGGTTAGCATCCTTTTTTTTTTT
1 TGTGTGTGTTTTTATTGATGTCTGTACGGTTAGCATCCTTTTTTTTTTT
2590218 TGTGTGTGTTTTTATTGATGTCTGTACGGTTAGCATCCTTTTTTTTTTT
1 TGTGTGTGTTTTTATTGATGTCTGTACGGTTAGCATCCTTTTTTTTTTT
2590267 CTTTGGGGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.59
Consensus pattern (49 bp):
TGTGTGTGTTTTTATTGATGTCTGTACGGTTAGCATCCTTTTTTTTTTT
Found at i:2596957 original size:11 final size:10
Alignment explanation
Indices: 2596932--2596999 Score: 55
Period size: 11 Copynumber: 6.4 Consensus size: 10
2596922 TAATAACAAC
*
2596932 AAAATAGTATC
1 AAAATAGTA-A
2596943 AAAATAGTGAA
1 AAAATAGT-AA
*
2596954 AAAATAATAA
1 AAAATAGTAA
*
2596964 GAAAATAGCAAA
1 -AAAATAG-TAA
*
2596976 AAAATAATAA
1 AAAATAGTAA
*
2596986 AAAACAGTAA
1 AAAATAGTAA
2596996 AAAA
1 AAAA
2597000 AATAGCAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
10 16 0.35
11 27 0.59
12 3 0.07
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (10 bp):
AAAATAGTAA
Found at i:2596968 original size:22 final size:20
Alignment explanation
Indices: 2596943--2597003 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 20
2596933 AAATAGTATC
2596943 AAAATAGTGAAAAAATAATAA
1 AAAATAGT-AAAAAATAATAA
*
2596964 GAAAATAGCAAAAAAATAATAA
1 -AAAATAG-TAAAAAATAATAA
*
2596986 AAAACAGTAAAAAA-AATA
1 AAAATAGTAAAAAATAATA
2597004 GCAAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.11
20 6 0.17
21 6 0.17
22 19 0.54
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAATAGTAAAAAATAATAA
Found at i:2602588 original size:1 final size:1
Alignment explanation
Indices: 2602582--2602611 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
2602572 GTTCCTTGTC
2602582 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2602612 CAGATTCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2609854 original size:46 final size:46
Alignment explanation
Indices: 2609787--2609961 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
2609777 TGTAACCCGC
2609787 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
*
2609833 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CT--TTCGCAT
* * ** *
2609883 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
*
2609926 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
2609962 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 1 0.01
46 62 0.57
47 25 0.23
48 1 0.01
49 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
Found at i:2609908 original size:93 final size:93
Alignment explanation
Indices: 2609796--2609965 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
2609786 CCCATAAGTG
** *
2609796 AACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
2609861 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
*
2609889 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
2609954 GAGTTCGGATGC
66 GAGCTCGGATGC
2609966 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:2616239 original size:61 final size:61
Alignment explanation
Indices: 2616163--2616287 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 61
2616153 GGCCTTTTTG
*
2616163 AATTTGTCTTCAACAATATCACCACCATGTCTTATCAACACAAGAAAAATTGTCAATGAAA
1 AATTTGTCTTCAACAATATCACCACCAAGTCTTATCAACACAAGAAAAATTGTCAATGAAA
*
2616224 AATTTGTCTTTAACAATATCACCACCAAGTCTTATCAACACAAGAAAAATTGTCAATGAAA
1 AATTTGTCTTCAACAATATCACCACCAAGTCTTATCAACACAAGAAAAATTGTCAATGAAA
2616285 AAT
1 AAT
2616288 AGGCATTATT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (61 bp):
AATTTGTCTTCAACAATATCACCACCAAGTCTTATCAACACAAGAAAAATTGTCAATGAAA
Found at i:2621242 original size:21 final size:21
Alignment explanation
Indices: 2621215--2621265 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
2621205 TAAAATTTTA
2621215 ATAAATAAAAAATAAAA-AAT
1 ATAAATAAAAAATAAAATAAT
* *
2621235 ATTAAATATTAAATTAAAATAAT
1 A-TAAATA-AAAAATAAAATAAT
2621258 ATAAATAA
1 ATAAATAA
2621266 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.04
21 6 0.24
22 14 0.56
23 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAATAAAAAATAAAATAAT
Found at i:2621262 original size:43 final size:44
Alignment explanation
Indices: 2621147--2621265 Score: 107
Period size: 47 Copynumber: 2.7 Consensus size: 44
2621137 TTATAGCATA
* * * * * * *
2621147 TAAAAATTAAATCTATAATAATAT-AATAAATATTAAAAATTGT
1 TAAATATTAAATATAAAATAATATAAATAAAAAATAAAAAATAT
* **
2621190 TAAAATATCTATATATAAAATTTTAATAAATAAAAAATAAAAAATAT
1 T-AAATAT-TAAATATAAAATAAT-ATAAATAAAAAATAAAAAATAT
2621237 TAAATATTAAAT-TAAAATAATATAAATAA
1 TAAATATTAAATATAAAATAATATAAATAA
2621266 TTTTAAAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
43 9 0.15
44 12 0.20
45 14 0.24
46 8 0.14
47 16 0.27
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (44 bp):
TAAATATTAAATATAAAATAATATAAATAAAAAATAAAAAATAT
Found at i:2623780 original size:23 final size:23
Alignment explanation
Indices: 2623698--2623784 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
2623688 CCTGATCAGT
*
2623698 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
2623720 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
2623740 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
2623763 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
2623785 TTAGTAAAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:2625314 original size:27 final size:30
Alignment explanation
Indices: 2625269--2625323 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
2625259 ACTCGAATGC
*
2625269 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
2625298 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
2625324 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:2625837 original size:18 final size:17
Alignment explanation
Indices: 2625773--2625839 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
2625763 TTTTTCTCAT
2625773 TATTTTATTCTAATT-TTA
1 TATTTTATT-T-ATTATTA
*
2625791 -ATATTATTTATACTATTA
1 TATTTTATTTAT--TATTA
2625809 TATTTTA-TTATTATTA
1 TATTTTATTTATTATTA
2625825 TATTTTTATTTATTA
1 TA-TTTTATTTATTA
2625840 GCATTTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 13 0.32
18 13 0.32
19 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATTTATTATTA
Found at i:2626061 original size:26 final size:25
Alignment explanation
Indices: 2626020--2626169 Score: 99
Period size: 26 Copynumber: 6.2 Consensus size: 25
2626010 TATTTTTTAT
2626020 TATATTTTT--TAT-ATATTATGTA
1 TATATTTTTAATATCATATTATGTA
2626042 TAT-TTTTTAAAATATCATATTAT-TCA
1 TATATTTTT--AATATCATATTATGT-A
2626068 TATA-TTTT-AT-T-ATATTATGTA
1 TATATTTTTAATATCATATTATGTA
*
2626089 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTAATATC-ATATTATGTA
* * *
2626115 TGTATTTTTAACA-CTATATTACGTA
1 TATATTTTTAATATC-ATATTATGTA
* * *
2626140 CATACTTTTAATATTATTATTAT-TA
1 TATATTTTTAATATCA-TATTATGTA
2626165 T-TATT
1 TATATT
2626170 ATTATTATTA
Statistics
Matches: 101, Mismatches: 12, Indels: 28
0.72 0.09 0.20
Matches are distributed among these distances:
21 17 0.17
22 9 0.09
23 4 0.04
24 3 0.03
25 27 0.27
26 41 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTTTTAATATCATATTATGTA
Found at i:2626130 original size:25 final size:26
Alignment explanation
Indices: 2626031--2626152 Score: 100
Period size: 26 Copynumber: 4.9 Consensus size: 26
2626021 ATATTTTTTA
*
2626031 TATATTATGTATAT-TTTTTAA-AATA
1 TATATTATGTATATATTTTTAATAA-C
2626056 TCATATTAT-TCATATA-TTTT-AT---
1 T-ATATTATGT-ATATATTTTTAATAAC
2626078 TATATTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAATAAC
* *
2626104 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATATTTTTAATAAC
* * *
2626129 TATATTACGTACATACTTTTAATA
1 TATATTATGTATATATTTTTAATA
2626153 TTATTATTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
21 12 0.15
22 6 0.08
23 2 0.03
25 23 0.29
26 36 0.46
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (26 bp):
TATATTATGTATATATTTTTAATAAC
Found at i:2626159 original size:3 final size:3
Alignment explanation
Indices: 2626151--2626230 Score: 126
Period size: 3 Copynumber: 26.7 Consensus size: 3
2626141 ATACTTTTAA
2626151 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2626199 TAT TAT TAT TA- TAT TCAT TAT CAA TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
2626231 GTACTAGTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 66 0.93
4 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2626358 original size:21 final size:22
Alignment explanation
Indices: 2626331--2626406 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 22
2626321 ATTTCTAATA
* *
2626331 TATATATATATCGTATATGTTTT
1 TATATATAT-TAGTATATATTTT
2626354 TATATATATTATGTATATATTTT
1 TATATATATTA-GTATATATTTT
2626377 TA-ATATTATTAGT-TATATTTT
1 TATATA-TATTAGTATATATTTT
2626398 TATATATAT
1 TATATATAT
2626407 ACTATTTCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
21 13 0.27
22 9 0.19
23 26 0.54
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (22 bp):
TATATATATTAGTATATATTTT
Found at i:2626384 original size:20 final size:21
Alignment explanation
Indices: 2626351--2626404 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
2626341 TCGTATATGT
2626351 TTTTATATATATTATGTA-TATA
1 TTTT-TATATATTAT-TAGTATA
2626373 TTTTTA-ATATTATTAGTTATA
1 TTTTTATATATTATTAG-TATA
2626394 TTTTTATATAT
1 TTTTTATATAT
2626405 ATACTATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 12 0.41
22 8 0.28
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTTATATATTATTAGTATA
Found at i:2626454 original size:74 final size:72
Alignment explanation
Indices: 2626311--2626458 Score: 169
Period size: 74 Copynumber: 2.0 Consensus size: 72
2626301 AGTTTTTTTA
* *
2626311 TATTATTATCATTTCTAATATATATATATATCGTATATGTTTTTATATATATTATGTATATATTT
1 TATTATTATCATTTCTAATATATATATATATCGTATATATTTTTATATATATTATGTATATATTA
2626376 TTAATAT
66 TTAATAT
* * *
2626383 TATTAGTTAT-ATTT-TTATATATATACTATTTCGTGTATATATTTTTATATTATCCTTAT-TAT
1 TATTA-TTATCATTTCTAATATATATA-TATATC--GTATATATTTTTATA-TAT-ATTATGTAT
2626445 -TATTATTAATAT
60 ATATTATTAATAT
2626457 TA
1 TA
2626459 GTATATGTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
71 10 0.15
72 14 0.22
73 4 0.06
74 27 0.42
75 6 0.09
76 4 0.06
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (72 bp):
TATTATTATCATTTCTAATATATATATATATCGTATATATTTTTATATATATTATGTATATATTA
TTAATAT
Found at i:2626498 original size:21 final size:20
Alignment explanation
Indices: 2626445--2626500 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 20
2626435 TCCTTATTAT
2626445 TATTATTAATAT-TA-GTATA
1 TATT-TTAATATATATGTATA
*
2626464 TGTTTT-AT-TATATGTATA
1 TATTTTAATATATATGTATA
2626482 TATCTTTAATATATATGTA
1 TAT-TTTAATATATATGTA
2626501 CATCTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 9 0.30
19 6 0.20
20 2 0.07
21 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (20 bp):
TATTTTAATATATATGTATA
Found at i:2626741 original size:11 final size:11
Alignment explanation
Indices: 2626725--2626828 Score: 56
Period size: 11 Copynumber: 9.5 Consensus size: 11
2626715 TTTTAATAAC
2626725 TATATTATGTA
1 TATATTATGTA
* *
2626736 TATATTTTAATA
1 TATATTAT-GTA
*
2626748 CTATATTGTGTA
1 -TATATTATGTA
*
2626760 TATATTTTATATA
1 TATA--TTATGTA
2626773 TATATTATGTA
1 TATATTATGTA
*
2626784 TTTATT-T-T-
1 TATATTATGTA
* *
2626792 TTTAATAT-TA
1 TATATTATGTA
* *
2626802 TAT-TTTTATA
1 TATATTATGTA
2626812 TATATTATGTA
1 TATATTATGTA
2626823 TATATT
1 TATATT
2626829 TTTAATATCA
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
8 5 0.07
9 5 0.07
10 8 0.11
11 33 0.46
12 4 0.06
13 16 0.23
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.61
Consensus pattern (11 bp):
TATATTATGTA
Found at i:2626784 original size:24 final size:24
Alignment explanation
Indices: 2626555--2626830 Score: 151
Period size: 24 Copynumber: 11.9 Consensus size: 24
2626545 TTCTAATATG
* *
2626555 TATATACTATGTAAATATTTTA-A
1 TATATATTATGTATATATTTTATA
* *
2626578 TATTATATTATGTATACATTTTTTTA
1 TA-TATATTATGTATATA-TTTTATA
*
2626604 TATATATTACGTATATA---TATA
1 TATATATTATGTATATATTTTATA
* * * *
2626625 TATATCTT-TTTA-ATATTGTATT
1 TATATATTATGTATATATTTTATA
*
2626647 TTTATATGTCATGTATATATTTCTA-A
1 TATATAT-T-ATGTATATATTT-TATA
* * *
2626673 TAT-TA-TAT-TACATTTTTCTACA
1 TATATATTATGTATATATTT-TATA
* * *
2626695 TATCATCTTATGTATATTTTTTTTAA
1 TAT-ATATTATGTATATATTTTAT-A
2626721 TAACTATATTATGTATATATTTTA-A
1 T-A-TATATTATGTATATATTTTATA
*
2626746 TACTATATTGTGTATATATTTTATA
1 TA-TATATTATGTATATATTTTATA
*
2626771 TATATATTATGTATTTATTTT-T-
1 TATATATTATGTATATATTTTATA
2626793 T-TA-A-TA--T-TATATTTT-TA
1 TATATATTATGTATATATTTTATA
2626810 TATATATTATGTATATATTTT
1 TATATATTATGTATATATTTT
2626831 TAATATCACA
Statistics
Matches: 196, Mismatches: 30, Indels: 54
0.70 0.11 0.19
Matches are distributed among these distances:
16 8 0.04
17 2 0.01
18 2 0.01
19 6 0.03
20 5 0.03
21 22 0.11
22 16 0.08
23 13 0.07
24 51 0.26
25 31 0.16
26 20 0.10
27 19 0.10
28 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATATTATGTATATATTTTATA
Found at i:2626807 original size:14 final size:13
Alignment explanation
Indices: 2626758--2626817 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
2626748 CTATATTGTG
2626758 TATATATTTTATAT
1 TATAT-TTTTATAT
*
2626772 ATATATTATGTAT-T
1 -TATATT-TTTATAT
*
2626786 TATTTTTTTAATAT
1 TATATTTTT-ATAT
2626800 TATATTTTTATA-
1 TATATTTTTATAT
2626812 TATATT
1 TATATT
2626818 ATGTATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
12 8 0.21
13 10 0.26
14 11 0.29
15 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TATATTTTTATAT
Found at i:2626851 original size:25 final size:24
Alignment explanation
Indices: 2626800--2626858 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
2626790 TTTTTAATAT
*
2626800 TATATTTTT-ATATATATTATGTA
1 TATATTTTTAATATACATTATGTA
2626823 TATATTTTTAATATCACATTAT-TCA
1 TATATTTTTAATAT-ACATTATGT-A
2626848 TATATTATTTA
1 TATATT-TTTA
2626859 TATTATCCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 9 0.29
24 5 0.16
25 13 0.42
26 4 0.13
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATTTTTAATATACATTATGTA
Found at i:2626861 original size:25 final size:23
Alignment explanation
Indices: 2626728--2626861 Score: 104
Period size: 24 Copynumber: 5.9 Consensus size: 23
2626718 TAATAACTAT
* *
2626728 ATTATGTATATATTTTAATACTAT
1 ATTATGTATATATTTTTATA-TAC
* *
2626752 ATTGTGTATATATTTTATATATAT
1 ATTATGTATATATTTT-TATATAC
*
2626776 ATTATGTATTTATTTTT-T-TA-
1 ATTATGTATATATTTTTATATAC
*
2626796 A-TA--T-TATATTTTTATATAT
1 ATTATGTATATATTTTTATATAC
2626815 ATTATGTATATATTTTTAATATCAC
1 ATTATGTATATATTTTT-ATAT-AC
2626840 ATTAT-TCATATATTATTTATAT
1 ATTATGT-ATATATT-TTTATAT
2626862 TATCCCATGT
Statistics
Matches: 92, Mismatches: 6, Indels: 23
0.76 0.05 0.19
Matches are distributed among these distances:
16 8 0.09
17 2 0.02
18 2 0.02
19 3 0.03
20 3 0.03
21 2 0.02
22 2 0.02
23 10 0.11
24 37 0.40
25 20 0.22
26 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTATGTATATATTTTTATATAC
Found at i:2632363 original size:16 final size:16
Alignment explanation
Indices: 2632325--2632364 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2632315 TCTTACATGT
2632325 TATATATTGTAAACTA
1 TATATATTGTAAACTA
*
2632341 T-TGATATTTTAAACTA
1 TAT-ATATTGTAAACTA
2632357 TATATATT
1 TATATATT
2632365 ATTTGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (16 bp):
TATATATTGTAAACTA
Found at i:2632902 original size:4 final size:4
Alignment explanation
Indices: 2632887--2632919 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2632877 GTCATATATG
*
2632887 TTAT TCAT TTAT TTAT TTAT TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2632920 GCTCCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2634664 original size:31 final size:31
Alignment explanation
Indices: 2634626--2634699 Score: 132
Period size: 30 Copynumber: 2.4 Consensus size: 31
2634616 ATGATATTCT
2634626 TGTAGATATTTCTTTAGAAACAAATTAATAC
1 TGTAGATATTTCTTTAGAAACAAATTAATAC
2634657 TGTAGATA-TTCTTTAGAAACAAATTAATAC
1 TGTAGATATTTCTTTAGAAACAAATTAATAC
*
2634687 CGTAGATATTTCT
1 TGTAGATATTTCT
2634700 AATATCATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 29 0.71
31 12 0.29
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (31 bp):
TGTAGATATTTCTTTAGAAACAAATTAATAC
Found at i:2637427 original size:2 final size:2
Alignment explanation
Indices: 2637420--2637464 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2637410 GCTAAGGTCT
2637420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2637462 TA T
1 TA T
2637465 TTATTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2638374 original size:10 final size:10
Alignment explanation
Indices: 2638359--2638383 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2638349 TTTGTTTCTT
2638359 TATTTGTTAC
1 TATTTGTTAC
2638369 TATTTGTTAC
1 TATTTGTTAC
2638379 TATTT
1 TATTT
2638384 ATTCATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TATTTGTTAC
Found at i:2638440 original size:3 final size:3
Alignment explanation
Indices: 2638432--2638604 Score: 117
Period size: 3 Copynumber: 57.7 Consensus size: 3
2638422 TTCATTATGC
*
2638432 TAT TAT TAT TAT TAT TAT TATT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
2638478 CAT TAT CAT CATT TGT TTT TAT TCGT TTT TAT CT-T T-T TAT CTAT T-T
1 TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT TAT TAT -TAT TAT
** * * *
2638524 GCT CAT TTT TAT TAT TTT TAT T-T TAT CGTAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT
2638569 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2638605 GTTCCTTTGT
Statistics
Matches: 137, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
2 12 0.09
3 112 0.82
4 10 0.07
5 3 0.02
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2645828 original size:86 final size:86
Alignment explanation
Indices: 2645693--2645896 Score: 266
Period size: 86 Copynumber: 2.4 Consensus size: 86
2645683 AAGATGGCGA
* ** *
2645693 ATCTTATCTTCCTAAGCAGTAGTAAAACAGATTTAAGCCACCATCCTATCTC-CTTAAAAAGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCTC-TAAAAAGTAG
*
2645757 TGGAATAGGCTGAAGATTATGG
65 TGGAATAGGCTGAAGATTATAG
* * * * **
2645779 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCGACCTTCCTATCTTTCTAAGCAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCTCTAAAAAGTAGT
* *
2645844 GGAGTAGGCTGAAGATTGTAG
66 GGAATAGGCTGAAGATTATAG
*
2645865 ATCTTATCTCCCTAAACAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
2645897 CGAAAATGGC
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
86 101 0.99
87 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (86 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCTCTAAAAAGTAGT
GGAATAGGCTGAAGATTATAG
Found at i:2645886 original size:130 final size:130
Alignment explanation
Indices: 2645768--2646071 Score: 437
Period size: 130 Copynumber: 2.3 Consensus size: 130
2645758 GGAATAGGCT
* * * **
2645768 GAAGATTATGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCGACCTTCCTATCTTTC
1 GAAGATTGTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCC
2645833 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATC
66 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATC
* * * * * * *
2645898 GAAAATGGCGAATCTTGTCTCCTTAAGTAGTAATGGAGCAGATTTAAGCCACCATCCTATCTCCC
1 GAAGATTGTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCC
* *
2645963 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
66 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATC
* * * * *
2646028 AAAGATTGTAGATCTTATTTCCCTAAACAGTAGTGGAGCAGATT
1 GAAGATTGTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATT
2646072 GAAGATAGCG
Statistics
Matches: 148, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
130 148 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (130 bp):
GAAGATTGTGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCC
TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATC
Found at i:2645888 original size:44 final size:44
Alignment explanation
Indices: 2645832--2646077 Score: 193
Period size: 44 Copynumber: 5.6 Consensus size: 44
2645822 TCCTATCTTT
* *
2645832 CTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCC
1 CTAAGCAGTAGTGGAGCAGGATGAAGATTGTAGATCTTATCTCC
* * ** *
2645876 CTAAACAGTAGTGGAGCA-GATCGAA-AATGGCGAATCTTGTCTCC
1 CTAAGCAGTAGTGGAGCAGGAT-GAAGATTGTAG-ATCTTATCTCC
* * * * ** * *
2645920 TTAAGTAGTAATGGAGCA-GATTTAAG---CCACCATCCTATCTCC
1 CTAAGCAGTAGTGGAGCAGGA-TGAAGATTGTA-GATCTTATCTCC
* * *
2645962 CTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCC
1 CTAAGCAGTAGTGGAGCAGGATGAAGATTGTAGATCTTATCTCC
* *
2646006 CTAAGCAGTAGTGGAGCA-GATCAAAGATTGTAGATCTTATTTCC
1 CTAAGCAGTAGTGGAGCAGGAT-GAAGATTGTAGATCTTATCTCC
*
2646050 CTAAACAGTAGTGGAGCA-GATTGAAGAT
1 CTAAGCAGTAGTGGAGCAGGA-TGAAGAT
2646078 AGCGAATATT
Statistics
Matches: 155, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
42 27 0.17
43 9 0.06
44 116 0.75
45 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
CTAAGCAGTAGTGGAGCAGGATGAAGATTGTAGATCTTATCTCC
Found at i:2646090 original size:44 final size:44
Alignment explanation
Indices: 2646003--2646095 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
2645993 AGATCTTGTC
* * * *
2646003 TCCCTAAGCAGTAGTGGAGCAGATCAAAGATTGTAGATCTTATT
1 TCCCTAAACAGTAGTGGAGCAGATCAAAGATAGGAGATATTATT
**
2646047 TCCCTAAACAGTAGTGGAGCAGATTGAAGATAGCGA-ATATTATT
1 TCCCTAAACAGTAGTGGAGCAGATCAAAGATAG-GAGATATTATT
2646091 TCCCT
1 TCCCT
2646096 GAAGTTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TCCCTAAACAGTAGTGGAGCAGATCAAAGATAGGAGATATTATT
Found at i:2646387 original size:183 final size:183
Alignment explanation
Indices: 2646172--2646518 Score: 487
Period size: 183 Copynumber: 1.9 Consensus size: 183
2646162 CAGATCAAAA
* * * *
2646172 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATCACATGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACCACAAGTCTTATCTCCCTGAAGT
* * *
2646237 TGCAACGGAGCAGACTGAAGACAGCTAATCCTATCTTCCTGAAGCCGCAGTAGAGCAGATTAAAA
66 TGCAACAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTAGAGCAGATTAAAA
*
2646302 CGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTTAGGTTAAATCTACCATGG
131 CGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTTAGGTTAAATCTACCATGG
* * * *
2646355 CAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTTTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACCACAAGTCTTATCTCCCTGAAGT
** * * ** * * **
2646420 TGCAGTAGAGTAAACTGAAGACAGCTAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAGG
66 TGCAACAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTAGAGCAGATTAAAA
*
2646485 CGACAAGTCCTATACCTCTGAAGTTGTAGTAGGT
131 CGACAAGTCCTATACCTCTGAAGTTGCAGTAGGT
2646519 CGGATAAACC
Statistics
Matches: 141, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
183 141 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (183 bp):
CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAACCACAAGTCTTATCTCCCTGAAGT
TGCAACAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTAGAGCAGATTAAAA
CGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTTAGGTTAAATCTACCATGG
Found at i:2646424 original size:44 final size:45
Alignment explanation
Indices: 2646361--2646480 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 45
2646351 ATGGCAAATC
* * *
2646361 TTATCTCTCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-C-AAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCTAA-TT
* * * *
2646405 TTATCTCCCTGAAGTTGCAGTAGAGTAAACTGAAGACAGCTAATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCTAATT
* *
2646450 CTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT
2646481 AAGGCGACAA
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 31 0.51
45 28 0.46
46 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGCTAATT
Found at i:2646491 original size:89 final size:90
Alignment explanation
Indices: 2646179--2646516 Score: 260
Period size: 89 Copynumber: 3.7 Consensus size: 90
2646169 AAACAAACCT
* * * **
2646179 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATC-ACATGTCTTATCTCCCTGAAGTTGCAAC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGCGACAAGTCTTATCTCCCTGAAGTTGCAGT
* * * *
2646243 GGAGCAGACTGAAGACAGCTAATCC
66 AGAGTAAACTGAAGACAGCTAATTC
* ** * * * * *
2646268 TATCTTCCTGAAGCCGCAGTAGAGCAGATT-AAAACGACGAGTCCTATAC-CTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGCGACAAGTCTTAT-CTCCCTGAAGTTGCAG
** ** *
2646331 TAGGTTAGGTTAAATCT-ACCATGGC-AAATC
65 TA-G--A-G-TAAA-CTGAAGACAGCTAATTC
* * * *
2646361 TTATCTCTCTAAAGTTGCAGTGGAGCAGATTG-AAGCCACAAGTTTTATCTCCCTGAAGTTGCAG
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGCGACAAGTCTTATCTCCCTGAAGTTGCAG
2646425 TAGAGTAAACTGAAGACAGCTAATTC
65 TAGAGTAAACTGAAGACAGCTAATTC
* * * * *
2646451 TATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAGGCGACAAGTCCTATAC-CTCTGAAGTTGTAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGCGACAAGTCTTAT-CTCCCTGAAGTTGCAG
2646514 TAG
65 TAG
2646517 GTCGGATAAA
Statistics
Matches: 187, Mismatches: 47, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
88 6 0.03
89 107 0.57
90 8 0.04
91 1 0.01
92 1 0.01
93 6 0.03
94 56 0.30
95 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (90 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAGCGACAAGTCTTATCTCCCTGAAGTTGCAGT
AGAGTAAACTGAAGACAGCTAATTC
Found at i:2647317 original size:2 final size:2
Alignment explanation
Indices: 2647305--2647349 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2647295 CAAAATTGAT
*
2647305 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2647347 TA T
1 TA T
2647350 TTCTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2650233 original size:2 final size:2
Alignment explanation
Indices: 2650226--2650250 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2650216 CAATCAATCA
2650226 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2650251 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2650255 original size:2 final size:2
Alignment explanation
Indices: 2650250--2650278 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2650240 ATATATATAT
2650250 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2650279 CTGAAGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2653418 original size:20 final size:20
Alignment explanation
Indices: 2653393--2653434 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2653383 CTTATCTCAC
2653393 GTCTTCCAATACAGACAAAT
1 GTCTTCCAATACAGACAAAT
2653413 GTCTTCCAATACAGACAAAT
1 GTCTTCCAATACAGACAAAT
2653433 GT
1 GT
2653435 TGATCATGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (20 bp):
GTCTTCCAATACAGACAAAT
Found at i:2659700 original size:17 final size:17
Alignment explanation
Indices: 2659667--2659700 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2659657 AAAACCCAAC
*
2659667 CTTGAAACAAACTTGAA
1 CTTGAAACAAACCTGAA
*
2659684 CTTGAAACTAACCTGAA
1 CTTGAAACAAACCTGAA
2659701 TATATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (17 bp):
CTTGAAACAAACCTGAA
Done.