Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 71 of 343
Found at i:23193513 original size:1 final size:1
Alignment explanation
Indices: 23193464--23193506 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
23193454 TTTACATATA
* * * *
23193464 TTTTTTCTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23193507 ACTTTTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:23193513 original size:9 final size:8
Alignment explanation
Indices: 23193464--23193506 Score: 70
Period size: 8 Copynumber: 5.4 Consensus size: 8
23193454 TTTACATATA
23193464 TTTTTTCTT
1 TTTTTTC-T
23193473 TTTTTTCT
1 TTTTTTCT
23193481 TTTTTTCT
1 TTTTTTCT
23193489 TTTTTTCT
1 TTTTTTCT
23193497 TTTTTT-T
1 TTTTTTCT
23193504 TTT
1 TTT
23193507 ACTTTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 4 0.12
8 23 0.68
9 7 0.21
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTCT
Found at i:23193523 original size:21 final size:21
Alignment explanation
Indices: 23193480--23193528 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23193470 CTTTTTTTTC
*
23193480 TTTTTTT-CTTTTTTTCTTTT
1 TTTTTTTACTTTTTTTCTTAT
23193500 TTTTTTTACTTTTTATT-TTAT
1 TTTTTTTACTTTTT-TTCTTAT
*
23193521 TTTATTTA
1 TTTTTTTA
23193529 TGTATGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.28
21 16 0.64
22 2 0.08
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTACTTTTTTTCTTAT
Found at i:23194447 original size:11 final size:12
Alignment explanation
Indices: 23194433--23194481 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 12
23194423 TTAATATCTG
23194433 AAAAAT-ATAAT
1 AAAAATAATAAT
23194444 -AAAATAATAA-
1 AAAAATAATAAT
23194454 AAAAAT-A-AAT
1 AAAAATAATAAT
*
23194464 AAAAATAAAAAT
1 AAAAATAATAAT
23194476 AAAAAT
1 AAAAAT
23194482 TGGGTTGCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.06
10 12 0.36
11 10 0.30
12 9 0.27
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:23194457 original size:21 final size:22
Alignment explanation
Indices: 23194433--23194481 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
23194423 TTAATATCTG
*
23194433 AAAAATATAAT-AAAATAATAA-
1 AAAAATA-AATAAAAATAAAAAT
23194454 AAAAATAAATAAAAATAAAAAT
1 AAAAATAAATAAAAATAAAAAT
23194476 AAAAAT
1 AAAAAT
23194482 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAATAAATAAAAATAAAAAT
Found at i:23194460 original size:16 final size:17
Alignment explanation
Indices: 23194441--23194479 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23194431 TGAAAAATAT
*
23194441 AATAAAATAATAA-AAA
1 AATAAAATAAAAATAAA
23194457 AAT-AAATAAAAATAAA
1 AATAAAATAAAAATAAA
23194473 AATAAAA
1 AATAAAA
23194480 ATTGGGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 9 0.45
17 3 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:23194466 original size:12 final size:12
Alignment explanation
Indices: 23194439--23194480 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
23194429 TCTGAAAAAT
*
23194439 ATAATAAAAT-A
1 ATAAAAAAATAA
23194450 ATAAAAAAATAA
1 ATAAAAAAATAA
23194462 ATAAAAATAA-AA
1 ATAAAAA-AATAA
23194474 ATAAAAA
1 ATAAAAA
23194481 TTGGGTTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 9 0.32
12 17 0.61
13 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:23194471 original size:6 final size:6
Alignment explanation
Indices: 23194449--23194481 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
23194439 ATAATAAAAT
23194449 AATAAA AA-AATA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAA-A AATAAA AATAAA AATAAA AAT
23194482 TGGGTTGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.08
6 21 0.84
7 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:23198245 original size:15 final size:15
Alignment explanation
Indices: 23198225--23198254 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23198215 ATAATCCTAA
*
23198225 TAATTATCTTAATAT
1 TAATTATCCTAATAT
23198240 TAATTATCCTAATAT
1 TAATTATCCTAATAT
23198255 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:23199649 original size:21 final size:21
Alignment explanation
Indices: 23199624--23199663 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23199614 CGCAGCAGCC
*
23199624 TGTGTCACGACACACACACCG
1 TGTGTCACAACACACACACCG
23199645 TGTGTCACAACACACACAC
1 TGTGTCACAACACACACAC
23199664 TCTATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (21 bp):
TGTGTCACAACACACACACCG
Found at i:23202174 original size:120 final size:120
Alignment explanation
Indices: 23201961--23202698 Score: 1415
Period size: 120 Copynumber: 6.2 Consensus size: 120
23201951 AAAAGGGGAA
23201961 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
23202026 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
*
23202081 ATTTAATAATAATTATGTTAATTTACATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
23202146 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
23202201 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
*
23202266 ATAAGAATATTAATTATTAAGAACTTTATTAAATTATATAGTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
23202321 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
*
23202386 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
23202441 ATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
* *
23202505 ATAAGAATATTAATAATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
23202560 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
1 ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
*
23202625 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAT
66 ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
23202680 ATTTAATAATAATTATGTT
1 ATTTAATAATAATTATGTT
23202699 TAAATATGAT
Statistics
Matches: 610, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 0.19
120 492 0.81
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAAT
ATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATAT
Found at i:23202436 original size:18 final size:17
Alignment explanation
Indices: 23202408--23202442 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23202398 ATTATTAAGA
*
23202408 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23202425 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23202443 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23202555 original size:18 final size:17
Alignment explanation
Indices: 23202527--23202561 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23202517 ATAATTAAGA
*
23202527 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23202544 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23202562 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23202570 original size:51 final size:51
Alignment explanation
Indices: 23202515--23202694 Score: 135
Period size: 51 Copynumber: 3.2 Consensus size: 51
23202505 ATAAGAATAT
23202515 TAATAATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
* * * *
23202566 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
1 TAATAATTAAG--AATTT-TA--TTA-A--AT--TATA-TAT--TTT-AATTAA--AATAT-A-T
* *
23202631 ATAT
48 TTAA
*
23202635 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
23202686 TAATAATTA
1 TAATAATTA
23202695 TGTTTAAATA
Statistics
Matches: 97, Mismatches: 14, Indels: 36
0.66 0.10 0.24
Matches are distributed among these distances:
51 20 0.21
52 1 0.01
53 10 0.10
54 2 0.02
55 4 0.04
56 6 0.06
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 6 0.06
65 4 0.04
66 2 0.02
67 10 0.10
68 1 0.01
69 11 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (51 bp):
TAATAATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
Found at i:23202675 original size:18 final size:17
Alignment explanation
Indices: 23202647--23202681 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23202637 ATTATTAAGA
*
23202647 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23202664 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23202682 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23202938 original size:16 final size:16
Alignment explanation
Indices: 23202917--23202984 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
23202907 GATTTGCTAT
23202917 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23202933 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
23202949 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
23202965 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23202981 TACA
1 TACA
23202985 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:23207582 original size:15 final size:15
Alignment explanation
Indices: 23207562--23207603 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
23207552 CAGGTCTAAT
23207562 ACATATTCGGATCAA
1 ACATATTCGGATCAA
23207577 ACATATTCGGATCAA
1 ACATATTCGGATCAA
23207592 ACATATTCGGAT
1 ACATATTCGGAT
23207604 TAATATGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (15 bp):
ACATATTCGGATCAA
Found at i:23210576 original size:26 final size:27
Alignment explanation
Indices: 23210546--23210601 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
23210536 ATTGTTATAA
*
23210546 AATAAAGAGAGATA-GAAAG-AATAAAG
1 AATAAAGA-AAATATGAAAGAAATAAAG
*
23210572 AATAAAGAAAATATGAAAGAAATAGAG
1 AATAAAGAAAATATGAAAGAAATAAAG
23210599 AAT
1 AAT
23210602 GAACTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (27 bp):
AATAAAGAAAATATGAAAGAAATAAAG
Found at i:23211367 original size:177 final size:177
Alignment explanation
Indices: 23211071--23211399 Score: 622
Period size: 177 Copynumber: 1.9 Consensus size: 177
23211061 TAATAATTTT
*
23211071 GGTGAAAATTGATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
23211136 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTATGCGTTATCCATGTAAAATTTCT
66 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTATGCGTTATCCATGTAAAATTTCT
23211201 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
131 TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
23211248 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
1 GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
* * *
23211313 CACATCTAATGATCGTACAACCATCGAAGTACTTAATGGGTGTGCTTTATCCATGTAAAATTTCT
66 CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTATGCGTTATCCATGTAAAATTTCT
23211378 TTAATACCTTTTCCGTATAAGT
131 TTAATACCTTTTCCGTATAAGT
23211400 TGATTAATGA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 148 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (177 bp):
GGTGAAAATTAATTAGGACCAAGAAACTCTTCACCATCCTCGCAAGGACGAAATTGATCTTTATT
CACATCTAATGATCATACAACCATCGAAGTACTTAATGGGTATGCGTTATCCATGTAAAATTTCT
TTAATACCTTTTCCGTATAAGTATTAAAATTTCTTTAATACTTAATG
Found at i:23211763 original size:18 final size:18
Alignment explanation
Indices: 23211740--23211779 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23211730 CCTGAGAAAC
23211740 TCTATATCCTTCTAGGAT
1 TCTATATCCTTCTAGGAT
* *
23211758 TCTATATCCTTTTGGGAT
1 TCTATATCCTTCTAGGAT
23211776 TCTA
1 TCTA
23211780 AATCATTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (18 bp):
TCTATATCCTTCTAGGAT
Found at i:23218635 original size:22 final size:22
Alignment explanation
Indices: 23218608--23218653 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
23218598 CTAATAGAAT
**
23218608 AAAATTATTCAAGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
*
23218630 AAAATTAAACATGTTAAATTAA
1 AAAATTAAACAAGTTAAATTAA
23218652 AA
1 AA
23218654 TTTTCTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATTAAACAAGTTAAATTAA
Found at i:23218708 original size:16 final size:16
Alignment explanation
Indices: 23218687--23218717 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23218677 TATTATAGAG
23218687 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
23218703 CATATATATTTGAAA
1 CATATAAATTTGAAA
23218718 TATCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:23230305 original size:13 final size:13
Alignment explanation
Indices: 23230287--23230311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23230277 CGCCAAAATC
23230287 GAGAAAGAGGGAA
1 GAGAAAGAGGGAA
23230300 GAGAAAGAGGGA
1 GAGAAAGAGGGA
23230312 TTTAGAGCCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (13 bp):
GAGAAAGAGGGAA
Found at i:23231619 original size:23 final size:23
Alignment explanation
Indices: 23231534--23231620 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
23231524 CCTGATCAAT
*
23231534 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
23231556 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * * *
23231576 GTACGACACACGAGGTACCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
23231599 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
23231621 TTGGTAAAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 33 0.65
22 1 0.02
23 17 0.33
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:23231922 original size:22 final size:21
Alignment explanation
Indices: 23231894--23231934 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23231884 AATATCACAA
23231894 TCTCATATATCCATATCAATTT
1 TCTCATATATCCA-ATCAATTT
*
23231916 TCTCATATTTCCAATCAAT
1 TCTCATATATCCAATCAAT
23231935 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCATATATCCAATCAATTT
Found at i:23232019 original size:15 final size:14
Alignment explanation
Indices: 23231995--23232034 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
23231985 TATATATTAT
23231995 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
23232009 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
23232024 ATAAATTCAAT
1 AT-AATTCAAT
23232035 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:23243113 original size:19 final size:20
Alignment explanation
Indices: 23243089--23243134 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
23243079 ATTAGTGGAG
*
23243089 TTGTTAAGTTTGTTAAA-TT
1 TTGTTAAGATTGTTAAAGTT
23243108 TTGTTAAGATTGTTAAAGTT
1 TTGTTAAGATTGTTAAAGTT
*
23243128 TAGTTAA
1 TTGTTAA
23243135 AAAGGTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (20 bp):
TTGTTAAGATTGTTAAAGTT
Found at i:23247703 original size:20 final size:20
Alignment explanation
Indices: 23247660--23247706 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23247650 TAGTAGAGCT
* *
23247660 GTTAAATTTGTTAAAGTTTT
1 GTTAAAATTGTTAAAGTTTA
23247680 GTTAAAATTGTT-AAGATTTA
1 GTTAAAATTGTTAAAG-TTTA
23247700 GTTAAAA
1 GTTAAAA
23247707 CAATTACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
GTTAAAATTGTTAAAGTTTA
Found at i:23254555 original size:19 final size:20
Alignment explanation
Indices: 23254531--23254579 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
23254521 ATTTAATCAT
23254531 ATTTTTCTAAATAAAAATA-
1 ATTTTTCTAAATAAAAATAC
* *
23254550 ATTTTTAATAAATAAAATTAC
1 ATTTTT-CTAAATAAAAATAC
23254571 A-TTTTCTAA
1 ATTTTTCTAA
23254580 CTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTTTCTAAATAAAAATAC
Found at i:23263226 original size:5 final size:5
Alignment explanation
Indices: 23263216--23263241 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23263206 ATTATCATTT
23263216 TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA T
23263242 CCTTAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:23271194 original size:19 final size:19
Alignment explanation
Indices: 23271170--23271207 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23271160 AAATGTATGT
23271170 GGTCAAGCCACTATGTTGC
1 GGTCAAGCCACTATGTTGC
23271189 GGTCAAGCCACTATGTTGC
1 GGTCAAGCCACTATGTTGC
23271208 AGCTAAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (19 bp):
GGTCAAGCCACTATGTTGC
Found at i:23272721 original size:21 final size:21
Alignment explanation
Indices: 23272697--23272736 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23272687 ACCGTGTGGC
*
23272697 TACTCTACACACCCATGTGAT
1 TACTCCACACACCCATGTGAT
* *
23272718 TACTCCATACGCCCATGTG
1 TACTCCACACACCCATGTG
23272737 CGTAGACTGT
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:0.25, C:0.35, G:0.12, T:0.28
Consensus pattern (21 bp):
TACTCCACACACCCATGTGAT
Found at i:23273169 original size:26 final size:26
Alignment explanation
Indices: 23273138--23273191 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
23273128 TGCCTCAACT
*
23273138 TATTCAAAACAACTTGCATTCAATTC
1 TATTCAAAACAACTTGCATTAAATTC
23273164 TATTCAAAACAACTTGCATTAAATTC
1 TATTCAAAACAACTTGCATTAAATTC
23273190 TA
1 TA
23273192 ACATACCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (26 bp):
TATTCAAAACAACTTGCATTAAATTC
Found at i:23275510 original size:56 final size:56
Alignment explanation
Indices: 23275413--23275521 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
23275403 ACCATTGCAT
* * *
23275413 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
*
23275469 CGATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 CGATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
23275522 TTACATGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 1 0.02
56 45 0.96
57 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:23284829 original size:18 final size:19
Alignment explanation
Indices: 23284808--23284846 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23284798 GGAAAAACCT
*
23284808 TTATTTGC-ATAAAAACTA
1 TTATTTGCAAAAAAAACTA
*
23284826 TTATTTTCAAAAAAAACTA
1 TTATTTGCAAAAAAAACTA
23284845 TT
1 TT
23284847 TTGTCGAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (19 bp):
TTATTTGCAAAAAAAACTA
Found at i:23289733 original size:21 final size:21
Alignment explanation
Indices: 23289707--23289749 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23289697 TCGGCTCTTT
23289707 CAGCCTTATCATCAAATTTAG
1 CAGCCTTATCATCAAATTTAG
*
23289728 CAGCCTTATCATCAACTTTAG
1 CAGCCTTATCATCAAATTTAG
23289749 C
1 C
23289750 TCTGAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (21 bp):
CAGCCTTATCATCAAATTTAG
Found at i:23303372 original size:46 final size:45
Alignment explanation
Indices: 23303196--23303500 Score: 160
Period size: 46 Copynumber: 6.5 Consensus size: 45
23303186 AGGCCGACGC
* * *
23303196 CATGTCCTAAACATGGCCTTACACTAGCTCTCACATATCCGTGCCGATG
1 CATGTCC-AAACAT-GTCTTACACTGGCTCT-ACATCT-CGTGCCGATG
* * * * * *
23303245 CCATGTCCTAGAGATGGTCTTACACTGACACCT-CTAT-ACGTGTCGATG
1 -CATGTCC-AAACAT-GTCTTACACTGGC-TCTAC-ATCTCGTGCCGATG
* * *
23303293 CCATGTACCAGACATGGTCTTACACT-G-AC-ACATCTCGTCCCCGATG
1 -CATGT-CCAAACAT-GTCTTACACTGGCTCTACATCTCGT-GCCGATG
* *
23303339 CATGTCACAAACATGTCTTGCACTGGCT-TACATCTCGAGGCCGATG
1 CATGTC-CAAACATGTCTTACACTGGCTCTACATCTCG-TGCCGATG
* * * *
23303385 CATATCCGAAACACGTCTTACACTAGCTCT-CATCTCAATGCCGATG
1 CATGTCC-AAACATGTCTTACACTGGCTCTACATCTC-GTGCCGATG
*
23303431 CCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGT-CCAAACAT-GTCTTACACTGGCTCTACAT-CTCGT-GCCGATG
*
23303479 CATGTCCCATACATGTCTTACA
1 CATGT-CCAAACATGTCTTACA
23303501 TTAGCGCACA
Statistics
Matches: 205, Mismatches: 31, Indels: 42
0.74 0.11 0.15
Matches are distributed among these distances:
44 12 0.06
45 18 0.09
46 62 0.30
47 24 0.12
48 58 0.28
49 4 0.02
50 25 0.12
51 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCAAACATGTCTTACACTGGCTCTACATCTCGTGCCGATG
Found at i:23303462 original size:48 final size:48
Alignment explanation
Indices: 23303188--23303465 Score: 173
Period size: 46 Copynumber: 5.9 Consensus size: 48
23303178 CGAAATTGAG
* * * * * **
23303188 GCCGACGCCATGTCCTAAACATGGCCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT--CATCTCAAT
* * * * *
23303238 GCCGATGCCATGTCCTAGAGATGGTCTTACACTGACAC-C-TCT-ATACGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCA-A--T
* * * * * *
23303286 GTCGATGCCATGTACCAGACATGGTCTTACACT-G-ACACATCTC-GT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCAAT
* * * * *
23303331 CCCCGATG-CATGTCACAAACAT-GTCTTGCACTGGCT-TACATCTCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATCTCAAT
* * * *
23303378 GCCGATG-CATATCCGAAACA-CGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCAAT
23303424 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
23303466 AATGTGGCCG
Statistics
Matches: 175, Mismatches: 38, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
44 9 0.05
45 13 0.07
46 57 0.33
47 14 0.08
48 51 0.29
50 31 0.18
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCAAT
Found at i:23303476 original size:48 final size:47
Alignment explanation
Indices: 23303097--23303500 Score: 160
Period size: 48 Copynumber: 8.6 Consensus size: 47
23303087 ATAATACCAG
* * *
23303097 TGCCATGTCCCAGATATGGTCTTACACTGGCTTATCTATCAA-GT--CGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGC-TCTC-AT-AATGTGCCGA
* * * *** * *
23303144 TACCATGTACCAGACATGGTCTTACACTAATTATCGA-AATTGAGGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCTC-ATAA-TG-TGCCGA
* * * * *
23303193 CGCCATGTCCTAAACATGGCCTTACACTAGCTCTCACATATCCGTGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT--GTGCCGA
* * * * * * *
23303243 TGCCATGTCCTAGAGATGGTCTTACACTGACACCTC-TATACGTGTCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGC-TCTCATA-ATGTGCCGA
* * * * * *
23303291 TGCCATGTACCAGACATGGTCTTACACTGACACATC-T--CGTCCCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGT-GCCGA
* * * *
23303337 TG-CATGTCACAAACAT-GTCTTGCACTGGCT-TACAT-CTCGAGGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-G-TGCCGA
* * * *
23303383 TG-CATATCCGAAACA-CGTCTTACACTAGCTCTCATCTCAA--TGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA--T-AATGTGCCGA
23303429 TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGT-GCCGA
*
23303477 TG-CATGTCCCATACAT-GTCTTACA
1 TGCCATGTCCCAAACATGGTCTTACA
23303501 TTAGCGCACA
Statistics
Matches: 274, Mismatches: 55, Indels: 57
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 14 0.05
45 16 0.06
46 58 0.21
47 52 0.19
48 63 0.23
49 31 0.11
50 34 0.12
51 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
TGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGCCGA
Found at i:23303476 original size:94 final size:92
Alignment explanation
Indices: 23303333--23303505 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 92
23303323 CATCTCGTCC
* * *
23303333 CCGATGCATGTCACAAACATGTCTTGCACTGGCTTACATCTCGAGGCCGATGCATATCCGAAACA
1 CCGATGCATGTCACAAACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATATCCCAAACA
23303398 CGTCTTACACTAGCTCTCATCTCAATG
66 CGTCTTACACTAGCTCTCATCTCAATG
* * *
23303425 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCA
1 CCGATG-CATGTCACAAACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATATCCCA
* * *
23303488 TACATGTCTTACATTAGC
62 AACACGTCTTACACTAGC
23303506 GCACAAATGA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 6 0.09
93 13 0.19
94 47 0.69
95 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CCGATGCATGTCACAAACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATATCCCAAACA
CGTCTTACACTAGCTCTCATCTCAATG
Found at i:23310852 original size:46 final size:46
Alignment explanation
Indices: 23310789--23310968 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 46
23310779 TACATTGACA
* *
23310789 CATCTCGTA-GCCTATGCATGTCCTAGACATGTCTTACACTGGCT-T
1 CATCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
23310834 ACATCTCGAGGCCGATGCATGTCCCAGACATGTTTTACACTAGCTCT
1 -CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * * *** *
23310881 CGTCTCAATGTTAATGCCATGTCCGAGACATGGTCTTACACTGGCTCT
1 CATCTCGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* * * *
23310929 CATAAT-GTGGCCGATACATGTCCCAGACATGTTTTACACT
1 CAT-CTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
23310969 AGCGCACAAA
Statistics
Matches: 105, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 57 0.54
47 27 0.26
48 19 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (46 bp):
CATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:23319104 original size:21 final size:20
Alignment explanation
Indices: 23319051--23319107 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
23319041 GTTAAAATGA
*
23319051 TTTTAATCAAGTACAAATT-T
1 TTTTAAACAAGT-CAAATTGT
* *
23319071 TTTTCAACTAGTCAAATTGT
1 TTTTAAACAAGTCAAATTGT
23319091 TTTTAAAACAAGTCAAA
1 TTTT-AAACAAGTCAAA
23319108 ATAGCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 6 0.20
20 14 0.47
21 10 0.33
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTAAACAAGTCAAATTGT
Found at i:23326993 original size:30 final size:30
Alignment explanation
Indices: 23326948--23327006 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23326938 AATTTTTTAT
23326948 TTTCCCCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
* *
23326977 TTTCCCCCTTAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCCTCCCA
23327007 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 10 0.38
31 8 0.31
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:23330412 original size:25 final size:23
Alignment explanation
Indices: 23330362--23330413 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
23330352 GTCCGGGCTA
* *
23330362 CATAACGGGAAGCTCATAAGAGC
1 CATAACGGGAAGCTCAAAAGAAC
*
23330385 CATAATCGGGAAGTTCACAAAGAAC
1 CATAA-CGGGAAGCTCA-AAAGAAC
23330410 CATA
1 CATA
23330414 TTAGGAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 9 0.38
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (23 bp):
CATAACGGGAAGCTCAAAAGAAC
Found at i:23330420 original size:24 final size:24
Alignment explanation
Indices: 23330369--23330459 Score: 98
Period size: 24 Copynumber: 3.8 Consensus size: 24
23330359 CTACATAACG
* **
23330369 GGAAGCTCA-TAAGAGCCATAATCG
1 GGAAGCTCACAAAGAGCCAT-ATTA
* *
23330393 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCCATATTA
23330417 GGAAGCTCACGAAA-AGCC-TATTA
1 GGAAGCTCAC-AAAGAGCCATATTA
23330440 GGAAGCTCACAAAGAGCCAT
1 GGAAGCTCACAAAGAGCCAT
23330460 GTAAGCGGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 3 0.05
23 19 0.34
24 23 0.41
25 11 0.20
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATTA
Found at i:23330442 original size:23 final size:23
Alignment explanation
Indices: 23330393--23330457 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
23330383 GCCATAATCG
* *
23330393 GGAAGTTCACAAAGAACCATATTA
1 GGAAGCTCACAAAGAGCC-TATTA
23330417 GGAAGCTCACGAAA-AGCCTATTA
1 GGAAGCTCAC-AAAGAGCCTATTA
23330440 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
23330458 ATGTAAGCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.08
23 19 0.51
24 12 0.32
25 3 0.08
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.15
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATTA
Found at i:23333547 original size:11 final size:11
Alignment explanation
Indices: 23333513--23333550 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
23333503 TAATATCTTC
23333513 AAAAATAAATA
1 AAAAATAAATA
23333524 AAAGACA-AAATA
1 AAA-A-ATAAATA
23333536 AAAAATAAATA
1 AAAAATAAATA
23333547 AAAA
1 AAAA
23333551 TAATAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 9 0.38
13 1 0.04
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:23335437 original size:5 final size:5
Alignment explanation
Indices: 23335429--23335457 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23335419 GGGGGAAGGG
23335429 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
23335458 GAAGGGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:23342897 original size:24 final size:24
Alignment explanation
Indices: 23342869--23342959 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 24
23342859 CTATATAATA
* * *
23342869 GGAAGCTCATA-AGAGCCATAATTG
1 GGAAGCTCACATAGAACCAT-ATCG
*
23342893 GGAAGTTCACATAGAACCATATCG
1 GGAAGCTCACATAGAACCATATCG
*
23342917 GGAAGCTCACGA-A-AAGCC-TATCA
1 GGAAGCTCAC-ATAGAA-CCATATCG
* *
23342940 GGAAGCTCACAAAGAGCCAT
1 GGAAGCTCACATAGAACCAT
23342960 GTAACGGGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 1 0.02
23 19 0.35
24 26 0.48
25 8 0.15
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACATAGAACCATATCG
Found at i:23342943 original size:23 final size:23
Alignment explanation
Indices: 23342893--23342957 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
23342883 GCCATAATTG
* * * *
23342893 GGAAGTTCACATAGAACCATATCG
1 GGAAGCTCACAAAGAGCC-TATCA
23342917 GGAAGCTCACGAAA-AGCCTATCA
1 GGAAGCTCAC-AAAGAGCCTATCA
23342940 GGAAGCTCACAAAGAGCC
1 GGAAGCTCACAAAGAGCC
23342958 ATGTAACGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.09
23 18 0.51
24 12 0.34
25 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.14
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCCTATCA
Found at i:23342988 original size:73 final size:73
Alignment explanation
Indices: 23342911--23343104 Score: 203
Period size: 73 Copynumber: 2.7 Consensus size: 73
23342901 ACATAGAACC
* * * *
23342911 ATATCGGGAAGCTCACGAAAAGC-CTATCAGGAAGCTCACAAAGAGCCATGTAACGGGAAGCTTC
1 ATATCAGGAAGCTCAAG-AAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCC
23342975 AGATAGCCA
65 AGATAGCCA
** * ** *
23342984 ATATCAGGTTGTTCAAGCGAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCG
1 ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCA
23343049 GATAGCCA
66 GATAGCCA
* * * ** * *
23343057 ATATCAGGTTA-TTTAAGTGAGCATTATCAGGAAGCTCCCAAAGAGCCA
1 ATATCAGG-AAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCA
23343105 ATTTAATGGG
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.03
73 100 0.96
74 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (73 bp):
ATATCAGGAAGCTCAAGAAAGCACTATCAGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCA
GATAGCCA
Found at i:23344155 original size:13 final size:13
Alignment explanation
Indices: 23344137--23344161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23344127 TTTACTTTAT
23344137 TATTTATCATCTG
1 TATTTATCATCTG
23344150 TATTTATCATCT
1 TATTTATCATCT
23344162 TTCCAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATCATCTG
Found at i:23344781 original size:13 final size:13
Alignment explanation
Indices: 23344742--23344826 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 13
23344732 ATTATGTGCT
*
23344742 AAATGTGTAAATG
1 AAATGTTTAAATG
* *
23344755 AAATGATAAAATG
1 AAATGTTTAAATG
*
23344768 AAATGTTTAGATG
1 AAATGTTTAAATG
* * **
23344781 AAATGGTTATACC
1 AAATGTTTAAATG
*
23344794 AAATAGTTT-TATG
1 AAAT-GTTTAAATG
* *
23344807 AAATGATTACATG
1 AAATGTTTAAATG
23344820 AAATGTT
1 AAATGTT
23344827 ATATGAATTG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
12 3 0.06
13 48 0.89
14 3 0.06
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (13 bp):
AAATGTTTAAATG
Found at i:23344823 original size:26 final size:25
Alignment explanation
Indices: 23344752--23344849 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 25
23344742 AAATGTGTAA
* *
23344752 ATGAAATGATAAAATGAAATGTTTAG
1 ATGAAATGATTAAATGAAATGTTT-T
* * **
23344778 ATGAAATGGTTATACCAAATAGTTTT
1 ATGAAATGATTAAATGAAAT-GTTTT
* *
23344804 ATGAAATGATTACATGAAATGTTAT
1 ATGAAATGATTAAATGAAATGTTTT
* *
23344829 ATGAATTGATTATAAGGAAAT
1 ATGAAATGATTA-AATGAAAT
23344850 AGATGTATGA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 15 0.27
26 37 0.66
27 4 0.07
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (25 bp):
ATGAAATGATTAAATGAAATGTTTT
Found at i:23344841 original size:13 final size:13
Alignment explanation
Indices: 23344752--23344842 Score: 69
Period size: 13 Copynumber: 7.1 Consensus size: 13
23344742 AAATGTGTAA
* *
23344752 ATGAAATGATAAA
1 ATGAAATGATTAT
* *
23344765 ATGAAATGTTTAG
1 ATGAAATGATTAT
*
23344778 ATGAAATGGTTAT
1 ATGAAATGATTAT
** *
23344791 ACCAAAT-AGTTTT
1 ATGAAATGA-TTAT
*
23344804 ATGAAATGATTAC
1 ATGAAATGATTAT
23344817 ATGAAATG-TTAT
1 ATGAAATGATTAT
*
23344829 ATGAATTGATTAT
1 ATGAAATGATTAT
23344842 A
1 A
23344843 AGGAAATAGA
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
12 10 0.17
13 49 0.82
14 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.36
Consensus pattern (13 bp):
ATGAAATGATTAT
Found at i:23344850 original size:52 final size:52
Alignment explanation
Indices: 23344752--23344860 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
23344742 AAATGTGTAA
* * *
23344752 ATGAAATGATAAAATGAAATGTTTAGATGAAATGGTTATACCAAATAGTTTT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACCAAATAGATGT
* * * * **
23344804 ATGAAATGATTACATGAAATG-TTATATGAATTGATTATAAGGAAATAGATGT
1 ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTAT-ACCAAATAGATGT
23344856 ATGAA
1 ATGAA
23344861 TTGAGACATT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 14 0.30
52 33 0.70
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (52 bp):
ATGAAATGATAAAATGAAATGTTTAGATGAAATGATTATACCAAATAGATGT
Found at i:23357802 original size:108 final size:109
Alignment explanation
Indices: 23357610--23357824 Score: 292
Period size: 108 Copynumber: 2.0 Consensus size: 109
23357600 GTGGCCAGGC
* *
23357610 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCTAGGGGACAC
1 TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
* * *
23357675 GGCTGTGTATAAATCG-AAAAAATTCCCAAATC-AGCCACACGGT
66 GACCGTGTATAAATCGAAAAAAATCCCCAAATCGA-CCACACGGT
** *
23357718 TGTGTGGCA-CTAGATCACTAAATTTCTAATTCCCAAATACACACGCCCGTGTACCCAGAGGACA
1 TGTGTGGCATC-AGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACA
* * *
23357782 TGACCGTGTGTAAATTGAAAAAAATCCCCAAATCGACCACACG
65 CGACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACG
23357825 ACCGTGTGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 69 0.74
109 22 0.24
110 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (109 bp):
TGTGTGGCATCAGATCACTAAATCCCTAATTCCCAAATACACACACCCGTGTACCCAGAGGACAC
GACCGTGTATAAATCGAAAAAAATCCCCAAATCGACCACACGGT
Found at i:23369924 original size:19 final size:19
Alignment explanation
Indices: 23369900--23369954 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
23369890 ATCCACATAA
*
23369900 TTTTTTAATATTTTTTCTT
1 TTTTTTTATATTTTTTCTT
* **
23369919 TTTTTTTTTAAATTTTCTT
1 TTTTTTTATATTTTTTCTT
*
23369938 TTTTTTTGTATTTTTTC
1 TTTTTTTATATTTTTTC
23369955 GATCACTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTTATATTTTTTCTT
Found at i:23370838 original size:18 final size:19
Alignment explanation
Indices: 23370815--23370856 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
23370805 AAAAAAATTT
23370815 TAATAAAAAATAATAAA-A
1 TAATAAAAAATAATAAATA
*
23370833 TAATAAAAGATAATAAATA
1 TAATAAAAAATAATAAATA
23370852 TAATA
1 TAATA
23370857 TTGGGCTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
TAATAAAAAATAATAAATA
Found at i:23373174 original size:12 final size:12
Alignment explanation
Indices: 23373154--23373187 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23373144 CGAAGCCACA
* *
23373154 AGGCTGTGTGGT
1 AGGCCGTGTAGT
23373166 AGGCCGTGTAGT
1 AGGCCGTGTAGT
23373178 AGGCCGTGTA
1 AGGCCGTGTA
23373188 CTATAACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (12 bp):
AGGCCGTGTAGT
Found at i:23374896 original size:21 final size:21
Alignment explanation
Indices: 23374870--23374911 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23374860 CTATTTAGCC
*
23374870 ACAAAAATTAGGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
23374891 ACAAAAATTAAGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
23374912 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (21 bp):
ACAAAAATTAAGGGAAAATGT
Found at i:23375683 original size:14 final size:15
Alignment explanation
Indices: 23375666--23375697 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
23375656 AAAATATGTG
23375666 AATGAAATA-ATAGA
1 AATGAAATACATAGA
23375680 AATGAAATACATAGA
1 AATGAAATACATAGA
23375695 AAT
1 AAT
23375698 TTGATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (15 bp):
AATGAAATACATAGA
Found at i:23378148 original size:50 final size:50
Alignment explanation
Indices: 23378073--23378175 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
23378063 ATGGCTAGAA
* * *
23378073 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATGTTAACTTTTT
1 GTGTTAGTTCAGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
23378123 GTGTTAGTTCAGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
1 GTGTTAGTTCAGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
23378173 GTG
1 GTG
23378176 GATATTGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.51
Consensus pattern (50 bp):
GTGTTAGTTCAGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
Found at i:23385861 original size:14 final size:14
Alignment explanation
Indices: 23385840--23385880 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
23385830 CTTACCTAAT
23385840 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
23385854 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
23385868 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
23385881 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:23390490 original size:14 final size:14
Alignment explanation
Indices: 23390471--23390507 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23390461 CCTAATTGTA
*
23390471 CAAGTTGTGATTTG
1 CAAGTTGTGATGTG
*
23390485 CAAGTTGTAATGTG
1 CAAGTTGTGATGTG
23390499 CAAGTTGTG
1 CAAGTTGTG
23390508 CAAGTTGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (14 bp):
CAAGTTGTGATGTG
Found at i:23392743 original size:3 final size:3
Alignment explanation
Indices: 23392735--23392761 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23392725 ATCTAGTTTT
23392735 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
23392762 ATTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23394996 original size:13 final size:13
Alignment explanation
Indices: 23394978--23395003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23394968 ATTATTTGGT
23394978 TATAAGTTGTTCA
1 TATAAGTTGTTCA
23394991 TATAAGTTGTTCA
1 TATAAGTTGTTCA
23395004 AATAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATAAGTTGTTCA
Found at i:23397348 original size:28 final size:28
Alignment explanation
Indices: 23397316--23397369 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
23397306 CCACATGGTA
*
23397316 GATGAATGGGCCCATATTCGTTTCAGGG
1 GATGAATGGACCCATATTCGTTTCAGGG
23397344 GATGAATGGACCCATATTCGTTTCAG
1 GATGAATGGACCCATATTCGTTTCAG
23397370 AAATGCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
GATGAATGGACCCATATTCGTTTCAGGG
Found at i:23399199 original size:24 final size:24
Alignment explanation
Indices: 23399172--23399217 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23399162 GAATTTAACA
23399172 TTCAAATCA-GCACACATAGTGCCT
1 TTCAAAT-ATGCACACATAGTGCCT
* *
23399196 TTCAACTATGCACACGTAGTGC
1 TTCAAATATGCACACATAGTGC
23399218 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (24 bp):
TTCAAATATGCACACATAGTGCCT
Found at i:23401633 original size:40 final size:40
Alignment explanation
Indices: 23401581--23401737 Score: 122
Period size: 40 Copynumber: 3.9 Consensus size: 40
23401571 ATTTGGATAA
23401581 AAAACGCCGCTATAGATTGAGCATTAGCGGCGCTTTCAAAC
1 AAAA-GCCGCTATAGATTGAGCATTAGCGGCGCTTTCAAAC
* * * *
23401622 AAAAGCCGCTATAGAACT-AGTATTAGCGGCGCAAATT-GAA-
1 AAAAGCCGCTATAG-ATTGAGCATTAGCGGCGC--TTTCAAAC
* * * *
23401662 AAATGCCGCTATAGATCGAGAACTAGCGGCGCTTTCCAAAC
1 AAAAGCCGCTATAGATTGAGCATTAGCGGCGCTTT-CAAAC
* * * * * *
23401703 AAACGCCGTTATAGGTTGACCCTTAGCGGTGCTTT
1 AAAAGCCGCTATAGATTGAGCATTAGCGGCGCTTT
23401738 TTAAGAAACG
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 50 0.56
41 34 0.38
42 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAGCCGCTATAGATTGAGCATTAGCGGCGCTTTCAAAC
Found at i:23403667 original size:40 final size:40
Alignment explanation
Indices: 23403602--23403679 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
23403592 TACGGTACCT
* * *
23403602 TATGGTGTGTAGGGTTGGATAGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
* * *
23403642 TATGGTGTGCAGGGATGGGTGGGTCGATTTTACCCCCA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCA
23403680 CATAGTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
Found at i:23411791 original size:73 final size:73
Alignment explanation
Indices: 23411698--23411910 Score: 291
Period size: 80 Copynumber: 2.8 Consensus size: 73
23411688 TATAAACACT
* * * **
23411698 CCCTTAAACCCTTAAATACAAATTCCTATATCCTAAAGCTCTAAACCTTAAACCCTAAACTTGAA
1 CCCTTAAGCCCTTAAATACAAATTCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAGAA
23411763 TCAATAAA
66 TCAATAAA
*
23411771 TCCTTAAGCCCTTAAATACAAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAA
1 CCCTTAAGCCCTTAAATAC-AAAT------TCCTAAATCCTAAAACTCTAAACCTTAAACCCTAA
*
23411836 ACCAGAATCACTAAA
59 ACCAGAATCAATAAA
*
23411851 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
1 CCCTTAAGCCCTTAAATACAAATTCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
23411911 ACTAAACCCT
Statistics
Matches: 124, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
73 54 0.44
74 4 0.03
79 3 0.02
80 63 0.51
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (73 bp):
CCCTTAAGCCCTTAAATACAAATTCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAGAA
TCAATAAA
Found at i:23411808 original size:7 final size:7
Alignment explanation
Indices: 23411798--23411928 Score: 56
Period size: 7 Copynumber: 18.1 Consensus size: 7
23411788 ACAAAATACA
23411798 AAATCCT
1 AAATCCT
23411805 AAATCCT
1 AAATCCT
*
23411812 AAAACTCT
1 AAATC-CT
23411820 AAA-CCTT
1 AAATCC-T
*
23411827 AAACCCT
1 AAATCCT
23411834 AAA-CC-
1 AAATCCT
23411839 AGAATCACT
1 A-AATC-CT
*
23411848 AAACCCTT
1 AAATCC-T
**
23411856 AAGCCCTT
1 AAATCC-T
* *
23411864 AAATACA
1 AAATCCT
23411871 AAATCCT
1 AAATCCT
23411878 AAATCCT
1 AAATCCT
*
23411885 AAAACTCT
1 AAATC-CT
23411893 AAA-CCTT
1 AAATCC-T
*
23411900 AAACCCT
1 AAATCCT
23411907 AAA-CACT
1 AAATC-CT
*
23411914 AAACCCT
1 AAATCCT
23411921 AAATCCT
1 AAATCCT
23411928 A
1 A
23411929 TACCATAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
5 1 0.01
6 7 0.07
7 61 0.61
8 30 0.30
9 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.22
Consensus pattern (7 bp):
AAATCCT
Found at i:23411835 original size:14 final size:15
Alignment explanation
Indices: 23411802--23411927 Score: 75
Period size: 14 Copynumber: 8.7 Consensus size: 15
23411792 AATACAAAAT
*
23411802 CCTAAATCCTAAAAC
1 CCTAAATCCTTAAAC
*
23411817 TCTAAA-CCTTAAAC
1 CCTAAATCCTTAAAC
** *
23411831 CCTAAA-CCAGAATC
1 CCTAAATCCTTAAAC
* * *
23411845 ACTAAACCCTTAAGC
1 CCTAAATCCTTAAAC
* * *
23411860 CCTTAAATAC-AAAAT
1 CC-TAAATCCTTAAAC
*
23411875 CCTAAATCCTAAAAC
1 CCTAAATCCTTAAAC
*
23411890 TCTAAA-CCTTAAAC
1 CCTAAATCCTTAAAC
23411904 CCTAAA-CAC-TAAAC
1 CCTAAATC-CTTAAAC
23411918 CCTAAATCCT
1 CCTAAATCCT
23411928 ATACCATAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
14 53 0.63
15 26 0.31
16 5 0.06
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (15 bp):
CCTAAATCCTTAAAC
Found at i:23412046 original size:7 final size:7
Alignment explanation
Indices: 23412038--23412103 Score: 71
Period size: 7 Copynumber: 9.3 Consensus size: 7
23412028 CTTAAATACG
*
23412038 AAATCCG
1 AAATCCT
23412045 AAATCCT
1 AAATCCT
23412052 AAATCCT
1 AAATCCT
23412059 AAATCCT
1 AAATCCT
23412066 AAATCCT
1 AAATCCT
*
23412073 AAA-ACT
1 AAATCCT
*
23412079 ATAAACCTT
1 A-AATCC-T
*
23412088 AAACCCT
1 AAATCCT
23412095 AAATCCT
1 AAATCCT
23412102 AA
1 AA
23412104 CACATAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
6 3 0.06
7 41 0.80
8 5 0.10
9 2 0.04
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATCCT
Found at i:23412054 original size:21 final size:21
Alignment explanation
Indices: 23412030--23412075 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23412020 CTTAAGCCCT
23412030 TAAATACGAAATCCGAAATCC
1 TAAATACGAAATCCGAAATCC
* * *
23412051 TAAATCCTAAATCCTAAATCC
1 TAAATACGAAATCCGAAATCC
23412072 TAAA
1 TAAA
23412076 ACTATAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (21 bp):
TAAATACGAAATCCGAAATCC
Found at i:23412068 original size:109 final size:108
Alignment explanation
Indices: 23411827--23412040 Score: 261
Period size: 109 Copynumber: 2.0 Consensus size: 108
23411817 TCTAAACCTT
* * *
23411827 AAACCCTAAACCAGAATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTC
1 AAACCATAAACTATAATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTC
* * * * *
23411892 TAAACCTTAAACCCTAAACACTAAACCCTAAATCCTATACCATA
66 TAAACC-TAAACACTAAACACTAAACCCTAAATACGAAACCAGA
*
23411936 AAACCATAAACTATAGA-CACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATGCTAAAACT
1 AAACCATAAACTATA-ATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACT
* * *
23412000 CTAAACC-AAATCATTAAACCCTTAAGCCCTTAAATACGAAA
65 CTAAACCTAAA-CACTAAACAC-TAAACCC-TAAATACGAAA
23412041 TCCGAAATCC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
107 3 0.03
108 7 0.08
109 71 0.79
110 9 0.10
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (108 bp):
AAACCATAAACTATAATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTC
TAAACCTAAACACTAAACACTAAACCCTAAATACGAAACCAGA
Found at i:23412090 original size:29 final size:29
Alignment explanation
Indices: 23412056--23412121 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
23412046 AATCCTAAAT
23412056 CCTAAATCCTAAATCCTAAAAC-TATAAAC
1 CCTAAATCCTAAATCCTAAAACATA-AAAC
* * *
23412085 CTTAAACCCTAAATCCTAACACATAAAAC
1 CCTAAATCCTAAATCCTAAAACATAAAAC
23412114 CCTAAATC
1 CCTAAATC
23412122 ATAACCCATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (29 bp):
CCTAAATCCTAAATCCTAAAACATAAAAC
Found at i:23412136 original size:21 final size:21
Alignment explanation
Indices: 23412087--23412158 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
23412077 CTATAAACCT
*
23412087 TAAACCCTAAATCCTAACACA
1 TAAACCCTAAATCATAACACA
*
23412108 TAAAACCCTAAATCATAACCCA
1 T-AAACCCTAAATCATAACACA
*
23412130 TAAACCCTAAATTATAGACAC-
1 TAAACCCTAAATCATA-ACACA
23412151 TAAACCCT
1 TAAACCCT
23412159 TAAACCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 23 0.51
22 22 0.49
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAATCATAACACA
Found at i:23412509 original size:3 final size:3
Alignment explanation
Indices: 23412501--23412544 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
23412491 CATTTTAGTA
23412501 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23412545 AGAGAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23412781 original size:116 final size:115
Alignment explanation
Indices: 23412653--23412927 Score: 367
Period size: 116 Copynumber: 2.4 Consensus size: 115
23412643 GCCCGTTTTG
* * *
23412653 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAACGCCGCAAAAGGTATGTATTACCGACATTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTT-AAAAAACGCCGCAAAAGGTACGTATTACCGACATTTTCA
* *
23412718 TCTAAAACGCCACAAAA-CATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
65 CCTAAAACGCCA-AAAAGCATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* * * *
23412769 TAGCCTTGTTATTAGTGGCGCTTTCT-AAAAACGCAGCAAAATGTACGTATTACCGGCGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAAACGCCGCAAAAGGTACGTATTACCGACATTTTCA
* *
23412833 CCTAAAACGCCAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 CCTAAAACGCCAAAAA-GCATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* * *
23412885 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACACCGCAAAAGGT
1 TAGCCTTGTTATTAGTGGCGCTTTTAAAAAACGCCGCAAAAGGT
23412928 GTAAAATAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
114 5 0.04
115 59 0.42
116 74 0.53
117 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (115 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAAACGCCGCAAAAGGTACGTATTACCGACATTTTCAC
CTAAAACGCCAAAAAGCATCTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:23412940 original size:116 final size:116
Alignment explanation
Indices: 23412739--23412949 Score: 302
Period size: 116 Copynumber: 1.8 Consensus size: 116
23412729 ACAAAACATC
* * *
23412739 TATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCA
1 TATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACA
** *
23412804 GCAAAATGTACGTATTACCGGCGTTTTCACCTAAAACGCCAAAAAGGTATG
66 GCAAAATGTACAAATAACCGGCGTTTTCACCTAAAACGCCAAAAAGGTATG
23412855 TATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGTGGCGC-TT-TAATAAACAC
1 TATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGTGGCGCTTTCTAA-AAACAC
* *
23412918 CGCAAAAGGTGTA-AAATAACCGGTGTTTTCAC
65 AGCAAAA--TGTACAAATAACCGGCGTTTTCAC
23412950 GAGAAAATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
114 3 0.04
115 13 0.15
116 64 0.76
117 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (116 bp):
TATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACA
GCAAAATGTACAAATAACCGGCGTTTTCACCTAAAACGCCAAAAAGGTATG
Found at i:23412989 original size:116 final size:115
Alignment explanation
Indices: 23412721--23412987 Score: 292
Period size: 116 Copynumber: 2.3 Consensus size: 115
23412711 ATTTTTATCT
* * *
23412721 AAAACGCCACAAAA-CATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATTAGT
1 AAAACGCCA-AAAAGTATCTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGT
* ** * **
23412785 GGCGCTTTCTAAAAACGCAGCAAAATGTACGTATTACCGGCGTTTTCACCT
65 GGCGCTTTCTAAAAACACAGCAAAATGTACAAATAACCGGCGTTTTCACAG
*
23412836 AAAACGCCAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGT
1 AAAACGCCAAAAA-GTATCTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGT
* *
23412901 GGCGC-TT-TAATAAACACCGCAAAAGGTGTA-AAATAACCGGTGTTTTCACGAG
65 GGCGCTTTCTAA-AAACACAGCAAAA--TGTACAAATAACCGGCGTTTTCAC-AG
* * * * *
23412953 AAAATGGCACAAA-TATCTATTAACAGATTGCAAAA
1 AAAACGCCAAAAAGTATCTATTAAGAGATTGTAAAA
23412988 ACATCGTCAT
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
114 7 0.05
115 41 0.32
116 66 0.52
117 14 0.11
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (115 bp):
AAAACGCCAAAAAGTATCTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAGTG
GCGCTTTCTAAAAACACAGCAAAATGTACAAATAACCGGCGTTTTCACAG
Found at i:23415418 original size:9 final size:9
Alignment explanation
Indices: 23415400--23415651 Score: 228
Period size: 9 Copynumber: 28.0 Consensus size: 9
23415390 GTTTAAATTT
23415400 CATAACTTA
1 CATAACTTA
*
23415409 CATAATTTA
1 CATAACTTA
23415418 CATAACTTA
1 CATAACTTA
23415427 CATAA--TA
1 CATAACTTA
*
23415434 CATAA-ATA
1 CATAACTTA
* *
23415442 TATATCATATA
1 CATAAC-T-TA
23415453 -ATAACTTA
1 CATAACTTA
*
23415461 CATAACTCA
1 CATAACTTA
* *
23415470 CACAACTCA
1 CATAACTTA
23415479 CATAACTTA
1 CATAACTTA
23415488 -ATAACTTA
1 CATAACTTA
*
23415496 CATATATCATA
1 CATA-A-CTTA
23415507 TCATAACTTA
1 -CATAACTTA
*
23415517 CATAACTCA
1 CATAACTTA
23415526 CATAACTTA
1 CATAACTTA
23415535 CATAACTTA
1 CATAACTTA
*
23415544 CATACCTTA
1 CATAACTTA
* **
23415553 CATACCTCG
1 CATAACTTA
23415562 CATAACTTA
1 CATAACTTA
*
23415571 CATAACTCA
1 CATAACTTA
23415580 CATAACTTA
1 CATAACTTA
23415589 CATAAC-TA
1 CATAACTTA
23415597 CATAACTTAA
1 CATAACTT-A
* *
23415607 CATACCTCA
1 CATAACTTA
* *
23415616 GAAAACTTA
1 CATAACTTA
* *
23415625 CGTAACTCA
1 CATAACTTA
23415634 CATAACTTA
1 CATAACTTA
23415643 CATAACTTA
1 CATAACTTA
23415652 TTCGTGTAAT
Statistics
Matches: 198, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.04
8 23 0.12
9 143 0.72
10 15 0.08
11 6 0.03
12 4 0.02
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:23415583 original size:54 final size:54
Alignment explanation
Indices: 23415400--23415651 Score: 264
Period size: 54 Copynumber: 4.7 Consensus size: 54
23415390 GTTTAAATTT
* * * * * **
23415400 CATAACTTACATAATTTACATAACTTACATAA--TACATAA-ATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATA-CCTCG
* * * * **
23415452 AATAACTTACATAACTCACACAACTCACATAACTTA-ATAACTTACATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTAC--ATA-CCTCG
*
23415508 CATAACTTACATAACTCACATAACTTACATAACTTACATACCTTACATACCTCG
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATACCTCG
23415562 CATAACTTACATAACTCACATAACTTACATAAC-TACATAACTTAACATACCTCAG
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAACTT-ACATACCTC-G
* *
23415617 -AAAACTTACGTAACTCACATAACTTACATAACTTA
1 CATAACTTACATAACTCACATAACTTACATAACTTA
23415652 TTCGTGTAAT
Statistics
Matches: 174, Mismatches: 17, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
52 27 0.16
53 13 0.07
54 78 0.45
55 6 0.03
56 42 0.24
57 8 0.05
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (54 bp):
CATAACTTACATAACTCACATAACTTACATAACTTACATAACTTACATACCTCG
Found at i:23418066 original size:27 final size:27
Alignment explanation
Indices: 23418036--23418090 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
23418026 AGAAAGGTGC
23418036 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
23418063 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
23418090 T
1 T
23418091 CACCTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTTATTTGTAAAGTATTCATTCAT
Found at i:23420672 original size:13 final size:14
Alignment explanation
Indices: 23420656--23420684 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23420646 TTTTAAATAT
23420656 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
23420669 TTATAATGGTTTAA
1 TTATAATGGTTTAA
23420683 TT
1 TT
23420685 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:23425071 original size:145 final size:145
Alignment explanation
Indices: 23424808--23425094 Score: 574
Period size: 145 Copynumber: 2.0 Consensus size: 145
23424798 CAACAGTCAC
23424808 TCAAATTTCATTTTAGTAACAGAACTTTAGAAAAATAACAAAATAGTCACTAACGTTATCAAAAA
1 TCAAATTTCATTTTAGTAACAGAACTTTAGAAAAATAACAAAATAGTCACTAACGTTATCAAAAA
23424873 GTGACAAATCAGCCACTCATTAACTTTTTTCGTTACTATCTTAACAGGTCTACTGACGTGGCAAG
66 GTGACAAATCAGCCACTCATTAACTTTTTTCGTTACTATCTTAACAGGTCTACTGACGTGGCAAG
23424938 TTAACTAGCTAAGTG
131 TTAACTAGCTAAGTG
23424953 TCAAATTTCATTTTAGTAACAGAACTTTAGAAAAATAACAAAATAGTCACTAACGTTATCAAAAA
1 TCAAATTTCATTTTAGTAACAGAACTTTAGAAAAATAACAAAATAGTCACTAACGTTATCAAAAA
23425018 GTGACAAATCAGCCACTCATTAACTTTTTTCGTTACTATCTTAACAGGTCTACTGACGTGGCAAG
66 GTGACAAATCAGCCACTCATTAACTTTTTTCGTTACTATCTTAACAGGTCTACTGACGTGGCAAG
23425083 TTAACTAGCTAA
131 TTAACTAGCTAA
23425095 TGTGGCCAAT
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (145 bp):
TCAAATTTCATTTTAGTAACAGAACTTTAGAAAAATAACAAAATAGTCACTAACGTTATCAAAAA
GTGACAAATCAGCCACTCATTAACTTTTTTCGTTACTATCTTAACAGGTCTACTGACGTGGCAAG
TTAACTAGCTAAGTG
Found at i:23426849 original size:12 final size:12
Alignment explanation
Indices: 23426795--23426890 Score: 50
Period size: 12 Copynumber: 7.8 Consensus size: 12
23426785 AATTTAACCC
*
23426795 TATA-TATTTAT
1 TATATTATTTTT
* *
23426806 TATATCATTATT
1 TATATTATTTTT
* *
23426818 TGTTTTATTTTT
1 TATATTATTTTT
**
23426830 TACCTTATTTTT
1 TATATTATTTTT
*
23426842 TATATTATATATT
1 TATATTAT-TTTT
* * *
23426855 AAAATTATTTTA
1 TATATTATTTTT
23426867 TATATTATTTATAT
1 TATATTATTT-T-T
23426881 TATTATTATT
1 TA-TATTATT
23426891 CATTATATGT
Statistics
Matches: 60, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
11 4 0.07
12 37 0.62
13 10 0.17
14 2 0.03
15 7 0.12
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:23426950 original size:5 final size:5
Alignment explanation
Indices: 23426940--23427024 Score: 68
Period size: 5 Copynumber: 16.8 Consensus size: 5
23426930 TCATTATTTA
* *
23426940 TATAT TATAT TATAT TATAT GTTTAT TATA- TAT-T ATATAT TAT-T TTTAT
1 TATAT TATAT TATAT TATAT -TATAT TATAT TATAT -TATAT TATAT TATAT
* * *
23426989 ATATAT GATTT TATAT TATAT TATAAT TATTT TATA
1 -TATAT TATAT TATAT TATAT TAT-AT TATAT TATA
23427025 AATTATTAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
4 6 0.10
5 43 0.68
6 14 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:23426978 original size:25 final size:26
Alignment explanation
Indices: 23426950--23427010 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
23426940 TATATTATAT
23426950 TATATTATATGTTTAT-TATAT-ATTA
1 TATATTATAT-TTTATATATATGATTA
*
23426975 TATATTAT-TTTTATATATATGATTT
1 TATATTATATTTTATATATATGATTA
23427000 TATATTATATT
1 TATATTATATT
23427011 ATAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.16
24 6 0.19
25 19 0.59
26 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (26 bp):
TATATTATATTTTATATATATGATTA
Found at i:23426982 original size:35 final size:37
Alignment explanation
Indices: 23426932--23427024 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 37
23426922 ATTTTGCATC
23426932 ATTAT-TTATATATTATATTATAT-TATATG--TTTAT
1 ATTATATTATATATTAT-TTATATATATATGATTTTAT
*
23426966 -TATATATTATATATTATTTTTATATATATGATTTTAT
1 AT-TATATTATATATTATTTATATATATATGATTTTAT
23427003 ATTATATTATA-ATTATTT-TATA
1 ATTATATTATATATTATTTATATA
23427025 AATTATTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
33 1 0.02
34 8 0.15
35 21 0.40
36 7 0.13
37 14 0.27
38 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (37 bp):
ATTATATTATATATTATTTATATATATATGATTTTAT
Found at i:23427062 original size:10 final size:10
Alignment explanation
Indices: 23426844--23427073 Score: 75
Period size: 10 Copynumber: 23.6 Consensus size: 10
23426834 TTATTTTTTA
23426844 TATTATATAT
1 TATTATATAT
**
23426854 TAAAAT-TAT
1 TATTATATAT
23426863 T-TTATATAT
1 TATTATATAT
23426872 TATT-TATAT
1 TATTATATAT
23426881 TATTAT-TAT
1 TATTATATAT
*
23426890 TCATTATATGT
1 T-ATTATATAT
* *
23426901 TATTCTTCACAAGT
1 TATT-AT-A-TA-T
23426915 TATTAT-TAT
1 TATTATATAT
**
23426924 T-TTGCATCAT
1 TATTATAT-AT
23426934 TATT-TATA-
1 TATTATATAT
23426942 TATTATAT-T
1 TATTATATAT
*
23426951 ATATTATATGTT
1 -TATTATAT-AT
23426963 TATTATATAT
1 TATTATATAT
23426973 TA-TATATTAT
1 TATTATA-TAT
*
23426983 TTTTATATA-
1 TATTATATAT
*
23426992 TATGAT-T-T
1 TATTATATAT
23427000 TA-TATTATAT
1 TATTA-TATAT
*
23427010 TATAAT-TAT
1 TATTATATAT
*
23427019 T-TTATAAAT
1 TATTATATAT
23427028 TATTA-AGTCAT
1 TATTATA-T-AT
*
23427039 T-TT-TGTAT
1 TATTATATAT
23427047 TATTATATAT
1 TATTATATAT
* *
23427057 TTTTATCTAT
1 TATTATATAT
23427067 ATATTAT
1 -TATTAT
23427074 TATCATTAAA
Statistics
Matches: 161, Mismatches: 27, Indels: 63
0.64 0.11 0.25
Matches are distributed among these distances:
7 1 0.01
8 18 0.11
9 48 0.30
10 59 0.37
11 27 0.17
12 2 0.01
13 1 0.01
14 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (10 bp):
TATTATATAT
Found at i:23427069 original size:14 final size:14
Alignment explanation
Indices: 23426963--23427077 Score: 54
Period size: 14 Copynumber: 8.7 Consensus size: 14
23426953 ATTATATGTT
23426963 TATTATATAT-TATA
1 TATTAT-TATCTATA
*
23426977 TATTATT-TTTATA
1 TATTATTATCTATA
* *
23426990 TA-TATGAT-TTTA
1 TATTATTATCTATA
23427002 TATTA-TAT-TATA
1 TATTATTATCTATA
23427014 -ATTATT-T-TATA
1 TATTATTATCTATA
* *
23427025 AATTATTAAGTC-ATT
1 TATTATT-A-TCTATA
*
23427040 TTTGTATTAT-TATA
1 TAT-TATTATCTATA
*
23427054 TATTTTTATCTATA
1 TATTATTATCTATA
23427068 TATTATTATC
1 TATTATTATC
23427078 ATTAAAGGTC
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
11 9 0.12
12 21 0.27
13 15 0.19
14 24 0.31
15 5 0.06
16 4 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TATTATTATCTATA
Found at i:23439689 original size:210 final size:210
Alignment explanation
Indices: 23439102--23440083 Score: 1705
Period size: 210 Copynumber: 4.7 Consensus size: 210
23439092 CTTTATCAGG
* * * *
23439102 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCAGCGGGGAGAAAATTGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
* *
23439167 ATTTGGCTTTCACGTGTTTACGATGAAGCAAACCTAAGATGATTTGTCGTCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
23439232 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
*
23439297 AATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
23439312 GCAGATCCAAGATGACAGATCTTATATCTCGGTATTCGGC-GGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
23439376 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
23439441 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
23439506 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
23439521 GCAGATCCAAGATGATAGATCTTATCTTTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
23439586 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
23439651 GAACAAATCGAAGTCTGTCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
23439716 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
23439731 GCAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCAAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
*
23439796 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
23439861 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
23439926 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
23439941 GCAGATCCACGGTGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
* * * * * * *
23440006 ATTTGGTTTTCACGTGCTTACAATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
23440071 GAACAAATCGAAG
131 GAACAAATCGAAG
23440084 AAGCAGATTT
Statistics
Matches: 737, Mismatches: 34, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
209 199 0.27
210 538 0.73
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:23441736 original size:3 final size:3
Alignment explanation
Indices: 23441710--23441932 Score: 69
Period size: 3 Copynumber: 72.3 Consensus size: 3
23441700 ATATTATAAA
*
23441710 ATT ATT -TT ATAT ATT ATT -TAT ATT ATT ATT ATT CATT ATAT GTT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT -ATT AT-T ATT ATT
* ** *
23441757 CTT CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATT A-T
1 ATT -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT ATT ATT
* *
23441803 ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG ATT
1 ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT
* *
23441849 -TT A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT
* *
23441892 -TGT ATT ATT ATT A-T ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 AT-T ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT A
23441933 AAGGTCTTAA
Statistics
Matches: 165, Mismatches: 23, Indels: 64
0.65 0.09 0.25
Matches are distributed among these distances:
2 25 0.15
3 100 0.61
4 38 0.23
5 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:23441740 original size:27 final size:27
Alignment explanation
Indices: 23441684--23441882 Score: 108
Period size: 27 Copynumber: 7.1 Consensus size: 27
23441674 TTTTTTTACC
* *
23441684 TTATTTTTTATATTA--TATATTATAAAA
1 TTATTTTATATATTATTTATATTAT--TA
23441711 TTATTTTATATATTATTTATATTATTA
1 TTATTTTATATATTATTTATATTATTA
* *
23441738 TTATTCATTATATGTTATTCTTCACAAGTTATTA
1 TTATT--TTATATATTA-T-TT-A-TA-TTATTA
**
23441772 TTATTTTGCATCATTATTTATA-TATTA
1 TTATTTTATAT-ATTATTTATATTATTA
* *
23441799 TTATATTATATGTTTATTATATATTATATA
1 TTATTTTATAT-ATTATT-TATATTAT-TA
* *
23441829 TTATTTT-TATA-TATATGATTTTA-TA
1 TTATTTTATATATTAT-TTATATTATTA
*
23441854 TTATATTATA-ATTATTT-TATATATTA
1 TTATTTTATATATTATTTATAT-TATTA
23441880 TTA
1 TTA
23441883 AGTCATTTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 37
0.70 0.10 0.19
Matches are distributed among these distances:
24 2 0.01
25 12 0.09
26 10 0.07
27 46 0.34
28 5 0.04
29 24 0.18
30 10 0.07
31 4 0.03
32 6 0.04
33 4 0.03
34 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
TTATTTTATATATTATTTATATTATTA
Found at i:23441802 original size:30 final size:27
Alignment explanation
Indices: 23441766--23441882 Score: 75
Period size: 26 Copynumber: 4.3 Consensus size: 27
23441756 TCTTCACAAG
23441766 TTATTATTATTTTGCATCATTATTTATATA
1 TTATTATTATTTT--ATCATTA-TTATATA
* **
23441796 TTATTA-TATTATATGTTTATTATATA
1 TTATTATTATTTTATCATTATTATATA
23441822 TTATATATTATTTT-T-A-TA-TATATGA
1 TTAT-TATTATTTTATCATTATTATAT-A
* * * *
23441847 TTTTATATTATATTATAATTATTTTATA
1 TTAT-TATTATTTTATCATTATTATATA
23441875 -TATTATTA
1 TTATTATTA
23441883 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
24 5 0.07
25 15 0.21
26 17 0.24
27 11 0.15
28 8 0.11
29 9 0.13
30 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTATTTTATCATTATTATATA
Found at i:23441876 original size:48 final size:50
Alignment explanation
Indices: 23441785--23441881 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
23441775 TTTTGCATCA
* *
23441785 TTATTTATATATTATTATATTATATGTTTATTATATATTATATATTATTT
1 TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATTT
23441835 TTATATATATGATT-TTATATTATAT-TATAATTAT-T-TTATATATTATT
1 TTATATATAT-ATTATTATATTATATGT-TAATTATATATTATATATTATT
23441882 AAGTCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 12 0.28
49 2 0.05
50 26 0.60
51 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (50 bp):
TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATTT
Found at i:23442253 original size:21 final size:21
Alignment explanation
Indices: 23442188--23442254 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
23442178 CCTTTTATAA
* * *
23442188 ATTTTTGTTATTATATATTAT
1 ATTTTTATTATTAAATATCAT
*
23442209 ATATTGTA-TATTAAATA-C-T
1 AT-TTTTATTATTAAATATCAT
23442228 ATTTTTATTATTAAATATCAT
1 ATTTTTATTATTAAATATCAT
23442249 ATTTTT
1 ATTTTT
23442255 TGTGTATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 1 0.03
21 17 0.46
22 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATTATTAAATATCAT
Found at i:23445131 original size:3 final size:3
Alignment explanation
Indices: 23445123--23445150 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23445113 ATGAGTTTTT
23445123 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC C
23445151 TGTCTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:23451108 original size:42 final size:42
Alignment explanation
Indices: 23451032--23451111 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
23451022 AAAAATCTAT
* **
23451032 TTATTCTAATAAACTACTAAAAGATAAGGGAAAATAATTCTC
1 TTATTCTAATAAACTACTAAAAAATAAAAGAAAATAATTCTC
*
23451074 TTATTCTAATAAACTACTAAAAAATAAAATAAAATAAT
1 TTATTCTAATAAACTACTAAAAAATAAAAGAAAATAAT
23451112 ACTAGAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (42 bp):
TTATTCTAATAAACTACTAAAAAATAAAAGAAAATAATTCTC
Found at i:23460865 original size:21 final size:21
Alignment explanation
Indices: 23460755--23460868 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
23460745 ACTCATATGA
* *
23460755 GTTTCCGTTCAACCCTAACAG
1 GTTTCTGTTCAACCCTTACAG
* * *
23460776 GTTTCCGTTCAACTCTT-CTAA
1 GTTTCTGTTCAACCCTTAC-AG
* * *
23460797 GCTTCTGTTGAACCCTTATAG
1 GTTTCTGTTCAACCCTTACAG
* * * * *
23460818 GTTTCTATTTAGCTCTTA-TG
1 GTTTCTGTTCAACCCTTACAG
*
23460838 AGCTTCTGTTCAACCCTTACAG
1 -GTTTCTGTTCAACCCTTACAG
23460860 GTTTCTGTT
1 GTTTCTGTT
23460869 TAGCACTTAT
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
20 2 0.03
21 64 0.96
22 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (21 bp):
GTTTCTGTTCAACCCTTACAG
Found at i:23460865 original size:42 final size:42
Alignment explanation
Indices: 23460737--23460886 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
23460727 CTCACGAGCG
* * * *
23460737 TCTATTTAACTCATATGAGTTTCCGTTCAACCCTAACAGGTT
1 TCTATTTAACTCTTATGAGCTTCTGTTCAACCCTTACAGGTT
** * * * * *
23460779 TCCGTTCAACTCTTCTAAGCTTCTGTTGAACCCTTATAGGTT
1 TCTATTTAACTCTTATGAGCTTCTGTTCAACCCTTACAGGTT
*
23460821 TCTATTTAGCTCTTATGAGCTTCTGTTCAACCCTTACAGGTT
1 TCTATTTAACTCTTATGAGCTTCTGTTCAACCCTTACAGGTT
* * * *
23460863 TCTGTTTAGCACTTATGTGCTTCT
1 TCTATTTAACTCTTATGAGCTTCT
23460887 ATTTAGACTT
Statistics
Matches: 86, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (42 bp):
TCTATTTAACTCTTATGAGCTTCTGTTCAACCCTTACAGGTT
Found at i:23463085 original size:25 final size:23
Alignment explanation
Indices: 23463057--23463113 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
23463047 TACCGGTCAA
23463057 GATGCTCACAGGAA-CTATATAACAG
1 GATGCTCA-A-GAAGCT-TATAACAG
*
23463082 GATGCTCAAGAAGGCTTTTAACAG
1 GATGCTCAAGAA-GCTTATAACAG
23463106 GATGCTCA
1 GATGCTCA
23463114 TCCGAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 10 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
GATGCTCAAGAAGCTTATAACAG
Found at i:23465117 original size:22 final size:20
Alignment explanation
Indices: 23465080--23465119 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
23465070 GCAGCTAAGG
23465080 AAAATTTTAAAATTTTGGGA
1 AAAATTTTAAAATTTTGGGA
*
23465100 AAAATTCTCTAAACTTTTGG
1 AAAATT-T-TAAAATTTTGG
23465120 TTTAGTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATTTTGGGA
Found at i:23470448 original size:17 final size:18
Alignment explanation
Indices: 23470428--23470462 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23470418 AAATTTAGGT
23470428 TTAAAAA-TTTTAATTAA
1 TTAAAAATTTTTAATTAA
23470445 TTAAAAATTTTTAATTAA
1 TTAAAAATTTTTAATTAA
23470463 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTTAATTAA
Found at i:23480035 original size:126 final size:126
Alignment explanation
Indices: 23479691--23480086 Score: 560
Period size: 126 Copynumber: 3.1 Consensus size: 126
23479681 GGCCAAACAG
* *
23479691 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAA
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
23479755 CTTGTTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * * *
23479817 GAACTACTATAGAAAAAAAAACGTCCACGTGGGAGATTTTTTCAGTATTTTTGCTGACTGTGGAT
1 GAACTACTATAG-AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
23479882 TCTACTTGAAGCGTTTTTAACACTATTTATTTAGAACCATCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* *
23479944 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
23480009 CTGCTTGAAGCATTTTTGACATTATTTGTTTAGAACCATCTCCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * *
23480070 GAATTACTGTAAAAAAA
1 GAACTACTATAGAAAAA
23480087 CAAAATCCTT
Statistics
Matches: 236, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
126 126 0.53
127 109 0.46
128 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:23480201 original size:34 final size:33
Alignment explanation
Indices: 23480161--23480280 Score: 141
Period size: 34 Copynumber: 3.5 Consensus size: 33
23480151 TTTAAAAAAA
23480161 CTAAACCCTAATTTAATTAATTTTCTTTAAAACT
1 CTAAACCCTAATTTAATTAATTTT-TTTAAAACT
* *
23480195 CTAAACCCTAATTTAATTAATTTATTTAAAACCC
1 CTAAACCCTAATTTAATTAATTTTTTTAAAA-CT
* *
23480229 CTAAAAAACCTAATATAATTAATTTTTTTAAAAAACT
1 CT--AAACCCTAATTTAATTAATTTTTTT--AAAACT
*
23480266 ATAAACCCTAATTTA
1 CTAAACCCTAATTTA
23480281 TTTTTTAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
33 7 0.10
34 26 0.36
35 11 0.15
36 22 0.31
37 2 0.03
38 4 0.06
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (33 bp):
CTAAACCCTAATTTAATTAATTTTTTTAAAACT
Found at i:23480284 original size:30 final size:28
Alignment explanation
Indices: 23480244--23480304 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
23480234 AAACCTAATA
23480244 TAATTAATTTTTTTAAAAAACTATAAACCC
1 TAATTAA-TTTTTTAAAAAACT-TAAACCC
* **
23480274 TAATTTATTTTTTAAAATTCTTAAACCC
1 TAATTAATTTTTTAAAAAACTTAAACCC
23480302 TAA
1 TAA
23480305 ACCTAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 10 0.36
29 12 0.43
30 6 0.21
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (28 bp):
TAATTAATTTTTTAAAAAACTTAAACCC
Found at i:23480359 original size:41 final size:42
Alignment explanation
Indices: 23480297--23480387 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
23480287 AAAATTCTTA
*
23480297 AACCCTAAACCTAAATTA-TTTTAATAAAACCCTAACCCTAC
1 AACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCCTAC
* * *
23480338 AACCTTAAACCTAAATTATTTTTAACAAAATCCTAACCTTA-
1 AACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCCTAC
23480379 AACCCTAAA
1 AACCCTAAA
23480388 AACCCTAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 25 0.57
42 19 0.43
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (42 bp):
AACCCTAAACCTAAATTATTTTTAACAAAACCCTAACCCTAC
Found at i:23480773 original size:27 final size:26
Alignment explanation
Indices: 23480725--23480782 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
23480715 TTAAAATTGA
*
23480725 TTTTATTTTGAAATTTAAATCTTATTT
1 TTTTATTTAGAAATTTAAATCTT-TTT
**
23480752 TTTTATTTAGAAATTTTGATCTTTTT
1 TTTTATTTAGAAATTTAAATCTTTTT
*
23480778 ATTTA
1 TTTTA
23480783 GTTTTTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (26 bp):
TTTTATTTAGAAATTTAAATCTTTTT
Found at i:23484590 original size:46 final size:45
Alignment explanation
Indices: 23484537--23484710 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
23484527 TTTGGGCATG
* *
23484537 CGAACTCATTGATTTGAGTTCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
*** * *
23484583 CGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* ** *
23484630 CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* *
23484676 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
23484711 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:23496275 original size:24 final size:24
Alignment explanation
Indices: 23496243--23496359 Score: 144
Period size: 24 Copynumber: 4.9 Consensus size: 24
23496233 TCGGTCAAGG
*
23496243 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATGC
* * *
23496267 TAACCCGCACACATAGTGCCTTGC
1 AAATCCGCACACATAGTGCCATGC
* * * *
23496291 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
*
23496315 AAATCCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATGC
*
23496339 AAATCTGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
23496360 ATGTCATTTC
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATGC
Found at i:23497664 original size:17 final size:17
Alignment explanation
Indices: 23497642--23497675 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23497632 CCCCACTTAA
*
23497642 TATATTATAACTTATTT
1 TATATTATAACATATTT
23497659 TATATTATAACATATTT
1 TATATTATAACATATTT
23497676 CAAATATATA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:23501854 original size:19 final size:20
Alignment explanation
Indices: 23501830--23501867 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23501820 ATGATATACC
*
23501830 ACATTTAACCATC-ACATGA
1 ACATTTAAACATCAACATGA
23501849 ACATTTAAACATCAACATG
1 ACATTTAAACATCAACATG
23501868 CATAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
ACATTTAAACATCAACATGA
Found at i:23502821 original size:14 final size:14
Alignment explanation
Indices: 23502802--23502832 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23502792 CATGCAATCA
23502802 ATATCTAAATTAAC
1 ATATCTAAATTAAC
23502816 ATATCTAAATTAAC
1 ATATCTAAATTAAC
23502830 ATA
1 ATA
23502833 CATTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATCTAAATTAAC
Found at i:23504819 original size:39 final size:39
Alignment explanation
Indices: 23504776--23504898 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
23504766 GCAATTAGCA
*
23504776 TGCTAGGTATAAACCTGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
* *
23504815 TGCTAGGTATAAACTTGAACTTATCACTGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
*
23504854 TACTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
23504893 TGCTAG
1 TGCTAG
23504899 ACATTAAGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (39 bp):
TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
Found at i:23512568 original size:39 final size:39
Alignment explanation
Indices: 23512508--23512591 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
23512498 GCAATTAGCA
23512508 TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
1 TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
* * * * *
23512547 TGCTAGGTATAAACTTGAACTTATCATCGGCATGAGGCT
1 TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
23512586 TGCTAG
1 TGCTAG
23512592 ACATTAAGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (39 bp):
TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
Found at i:23514066 original size:25 final size:25
Alignment explanation
Indices: 23514038--23514087 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23514028 TCCAAATATA
23514038 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
23514063 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
23514088 AAACATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
CAAAGATTTTAAATGAAAGAGCATT
Done.