Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 30 of 144
Found at i:9128634 original size:21 final size:21
Alignment explanation
Indices: 9128610--9128649 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9128600 TTTATGCTAT
*
9128610 CAATCTTATAACTTATCAACA
1 CAATCTTATAACTCATCAACA
9128631 CAATCTTATAACTCATCAA
1 CAATCTTATAACTCATCAA
9128650 TTATACATGG
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:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATCTTATAACTCATCAACA
Found at i:9138701 original size:36 final size:36
Alignment explanation
Indices: 9138649--9138723 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
9138639 AATAGTTGGA
* *
9138649 TTAATGGAGATGCCAACTTAAGGAAAATGGTATAGC
1 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
9138685 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
1 TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
9138721 TTA
1 TTA
9138724 GGTACCAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (36 bp):
TTAACGGAGATGCCAACTTAAGGAAAAGGGTATAGC
Found at i:9149942 original size:8 final size:8
Alignment explanation
Indices: 9149907--9149945 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
9149897 TGTGCAGATA
9149907 CATACATG
1 CATACATG
*
9149915 CATGCATG
1 CATACATG
*
9149923 CATGCATG
1 CATACATG
*
9149931 CATACATA
1 CATACATG
9149939 CATACAT
1 CATACAT
9149946 CGACACTCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (8 bp):
CATACATG
Found at i:9167024 original size:3 final size:3
Alignment explanation
Indices: 9167016--9167041 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9167006 TCATTTTGTT
9167016 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
9167042 TGAAGTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9167186 original size:3 final size:3
Alignment explanation
Indices: 9167178--9167204 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9167168 TACAAGGATT
9167178 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
9167205 ACACTGGTCT
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:9179978 original size:15 final size:13
Alignment explanation
Indices: 9179950--9179976 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9179940 TTCCAAGGGA
9179950 GAGTAAGCTGGGG
1 GAGTAAGCTGGGG
9179963 GAGTAAGCTGGGG
1 GAGTAAGCTGGGG
9179976 G
1 G
9179977 GGGGGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.56, T:0.15
Consensus pattern (13 bp):
GAGTAAGCTGGGG
Found at i:9191405 original size:24 final size:23
Alignment explanation
Indices: 9191372--9191441 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 23
9191362 AAATAAAAAT
*
9191372 TTTTAATTTTCCTATTATTGTTATTA
1 TTTT-ATTTTCCTATT-TTATT-TTA
*
9191398 -TTTATTTTTACTATTTTATTTTA
1 TTTTA-TTTTCCTATTTTATTTTA
*
9191421 TTTTATTTTCAT-TTTTATTTT
1 TTTTATTTTCCTATTTTATTTT
9191442 TGCAGGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 9 0.24
25 12 0.32
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTATTTTCCTATTTTATTTTA
Found at i:9191406 original size:25 final size:24
Alignment explanation
Indices: 9191372--9191441 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
9191362 AAATAAAAAT
* * *
9191372 TTTTAATTTTCCTATTATTGTTATTA
1 TTTTATTTTTACTATT-TTATT-TTA
9191398 -TTTATTTTTACTATTTTATTTTA
1 TTTTATTTTTACTATTTTATTTTA
*
9191421 TTTTATTTTCA-T-TTTTATTTT
1 TTTTATTTTTACTATTTTATTTT
9191442 TGCAGGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 9 0.23
23 4 0.10
24 13 0.33
25 13 0.33
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (24 bp):
TTTTATTTTTACTATTTTATTTTA
Found at i:9191407 original size:6 final size:6
Alignment explanation
Indices: 9191386--9191442 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
9191376 AATTTTCCTA
* *
9191386 TTATTG TTATTAT TTATTT TTACTATT TTA-TT TTA-TT TTATTT TCATTT
1 TTATTT TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT
9191435 TTATTT TT
1 TTATTT TT
9191443 GCAGGAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
5 10 0.23
6 23 0.52
7 6 0.14
8 5 0.11
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:9192537 original size:29 final size:32
Alignment explanation
Indices: 9192489--9192548 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
9192479 AATTTTGTGC
9192489 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
* *
9192521 AGGAA-ACAA-TT-GGGCTAGATTGAAGAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAA
9192549 GAAGCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 2 0.08
31 4 0.15
32 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (32 bp):
AGGAATACAATTTGGGGCTAAATAGAAGAAAA
Found at i:9195676 original size:3 final size:3
Alignment explanation
Indices: 9195668--9195702 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
9195658 TTCATTTCCT
* *
9195668 TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9195703 TCATGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9197500 original size:15 final size:15
Alignment explanation
Indices: 9197480--9197510 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9197470 AAAACAACAT
9197480 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9197495 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9197510 A
1 A
9197511 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:9201848 original size:15 final size:15
Alignment explanation
Indices: 9201828--9201858 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9201818 AAAACAACAT
9201828 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9201843 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9201858 A
1 A
9201859 CTTACACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:9202641 original size:17 final size:16
Alignment explanation
Indices: 9202609--9202653 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
9202599 GTTTAGAATA
9202609 GTTGTTCAGAACAACT
1 GTTGTTCAGAACAACT
*
9202625 GTTGTTCGAGAATAACT
1 GTTGTTC-AGAACAACT
*
9202642 -ATGTTCAGAACA
1 GTTGTTCAGAACA
9202654 GGGTTTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.20
16 12 0.48
17 8 0.32
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (16 bp):
GTTGTTCAGAACAACT
Found at i:9207892 original size:43 final size:43
Alignment explanation
Indices: 9207748--9207920 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 43
9207738 AAAACTCGTA
* * * * *
9207748 CGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAAT
* * * * *
9207791 CAATG-CTACTATCCCAGACAGGGTCTTACAC--AAA-TCAAAT
1 CGATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACACAAAT
* *
9207831 ACGATGCCGATGTCCCAGACATGGTCTTACACGTAAACACAAAT
1 -CGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAAT
* * * *
9207875 TGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAAT
9207918 CGA
1 CGA
9207921 AAATCATATG
Statistics
Matches: 101, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
40 3 0.03
41 25 0.25
42 5 0.05
43 63 0.62
44 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAAT
Found at i:9214707 original size:114 final size:114
Alignment explanation
Indices: 9214488--9214706 Score: 352
Period size: 113 Copynumber: 1.9 Consensus size: 114
9214478 TTTTTAAAAA
* *
9214488 TTCTTTTTCTTTGTGTCAGAGTTAGATATCAGTATACGAAAAAAATAAAAATAAAAAATTTAGTG
1 TTCTTTTTCTTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAATAAAAAATTTAGTG
* *
9214553 TTGGCCTGTCAATGGTCGGCACCAAGTACAATTTAAAAAAATATATTTT
66 CTGGCCTGTCAATGGCCGGCACCAAGTACAATTTAAAAAAATATATTTT
*
9214602 TTCTTTTT-TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAA-AAAAAATTTGGT
1 TTCTTTTTCTTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAATAAAAAATTTAGT
* *
9214665 GCTGGCCTGTCAATGGCCGGCCCCCAGTACAATTTAAAAAAA
65 GCTGGCCTGTCAATGGCCGGCACCAAGTACAATTTAAAAAAA
9214707 AATTCGTGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
113 52 0.54
114 45 0.46
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (114 bp):
TTCTTTTTCTTTGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAATAAAAAATTTAGTG
CTGGCCTGTCAATGGCCGGCACCAAGTACAATTTAAAAAAATATATTTT
Found at i:9227260 original size:14 final size:15
Alignment explanation
Indices: 9227227--9227264 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
9227217 GCGATACAGT
*
9227227 AATTAAAATGTAATA
1 AATTAAAATGTAAGA
*
9227242 AATTAAAAT-TTAGA
1 AATTAAAATGTAAGA
9227256 AATTAAAAT
1 AATTAAAAT
9227265 ATATAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (15 bp):
AATTAAAATGTAAGA
Found at i:9232458 original size:11 final size:11
Alignment explanation
Indices: 9232438--9232475 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
9232428 GGCCCGACTC
9232438 ATATTAAATAT
1 ATATTAAATAT
*
9232449 ATATTTAATAT
1 ATATTAAATAT
*
9232460 ATATAAAATAT
1 ATATTAAATAT
9232471 ATATT
1 ATATT
9232476 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:9232498 original size:25 final size:25
Alignment explanation
Indices: 9232464--9232526 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
9232454 TAATATATAT
*
9232464 AAAATATATATTTGATTAAAAATGA
1 AAAATATATATTTGATTAAAAATAA
9232489 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
9232514 AAAATATATATTT
1 AAAATATATATTT
9232527 AATATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (25 bp):
AAAATATATATTTGATTAAAAATAA
Found at i:9232515 original size:23 final size:23
Alignment explanation
Indices: 9232443--9232522 Score: 99
Period size: 25 Copynumber: 3.4 Consensus size: 23
9232433 GACTCATATT
* * *
9232443 AAATATATATTT-AATATATATA
1 AAATATATATTTGATTAAAAATA
9232465 AAATATATATTTGATTAAAAATGAA
1 AAATATATATTTGATTAAAAAT--A
9232490 AAATATATATTTGATTAAAAATA
1 AAATATATATTTGATTAAAAATA
*
9232513 AAAAATATAT
1 AAATATATAT
9232523 ATTTAATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
22 12 0.24
23 16 0.31
25 23 0.45
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATATATATTTGATTAAAAATA
Found at i:9236557 original size:107 final size:107
Alignment explanation
Indices: 9236248--9237298 Score: 1663
Period size: 107 Copynumber: 9.8 Consensus size: 107
9236238 AAAATTCAAG
* * * * *
9236248 AGGATATTTAA-CAATTTGGTTAAACGAGAAATCGGAGCCCAACACCTTAGGGCACGTTCCTCGA
1 AGGATA-TTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGA
* * *
9236312 ATTTCCAAACGCAAAACATTGCC-TCATTTT-ATAACTTTT-GAA
65 ATTTCCAAACGCAAAACATTGCCAT-ATTTTGA-GATTTTTAAAA
* * * *
9236354 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCG-ACACCCAGCACCTTAGGGCATGTTATCT
1 AGGATATTAAGCCATTTGGTTGAACGAG--AAATCGCA-ACCCAGCACCTTAGGGCACGTT-CCT
* *
9236418 CGAATCTCCAAACGCAACACATTGCCATATTTTGAGATTTTTAAAA
62 CGAATTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9236464 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
* ** *
9236529 TTTCCAAACGCAAAACATTGCC-TCATTTT-ATA-AATT-GAA
66 TTTCCAAACGCAAAACATTGCCAT-ATTTTGAGATTTTTAAAA
** * * * *
9236568 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCG-ACACCCAGCACCTTAGGGCATGTTATCT
1 AGGATATTAAGCCATTTGGTTGAACGAG--AAATCGCA-ACCCAGCACCTTAGGGCACGTT-CCT
***
9236632 CGAACCCCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
62 CGAATTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9236678 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9236743 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
66 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9236785 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9236850 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
66 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9236892 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9236957 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
66 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9236999 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9237064 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
66 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9237106 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9237171 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
66 TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
9237213 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
* *
9237278 TTTCCAAACGCTAAATATTGC
66 TTTCCAAACGCAAAACATTGC
9237299 ATCAATTAGA
Statistics
Matches: 880, Mismatches: 46, Indels: 37
0.91 0.05 0.04
Matches are distributed among these distances:
104 26 0.03
105 6 0.01
106 51 0.06
107 619 0.70
108 82 0.09
109 40 0.05
110 56 0.06
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (107 bp):
AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTAAAA
Found at i:9237490 original size:38 final size:36
Alignment explanation
Indices: 9237430--9237500 Score: 97
Period size: 38 Copynumber: 1.9 Consensus size: 36
9237420 CATATACCAT
9237430 AGCAAATAAATAAATAAATAAACTAAAGCATAAAAATG
1 AGCAAATAAATAAATAAATAAAC-AAA-CATAAAAATG
* **
9237468 AGCATATAAATAAATACGTAAACAAACATAAAA
1 AGCAAATAAATAAATAAATAAACAAACATAAAA
9237501 GGAAAATAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 7 0.23
37 3 0.10
38 20 0.67
ACGTcount: A:0.65, C:0.10, G:0.07, T:0.18
Consensus pattern (36 bp):
AGCAAATAAATAAATAAATAAACAAACATAAAAATG
Found at i:9239482 original size:40 final size:41
Alignment explanation
Indices: 9239436--9239634 Score: 145
Period size: 44 Copynumber: 4.7 Consensus size: 41
9239426 ATTGGTTCTG
9239436 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGA-TGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATTGCGA
* * * *
9239476 TCTGCTCTACTACTGCTTAGGGAGATAA-AATCTGCAAGGTT-CAA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACT-TG--A--TTGCGA
* * * * * *
9239520 CCTACTCCACTACTACTTAGGAAGATAGGACTTGATTTCTTCTA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGA--T-TGCGA
* * *
9239564 TCTGCTCCACTACTGCTTAGGGAGATAGGACGTGA-TGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATTGCGA
* * *
9239604 TCTGCTCCACTGCAATCTCAGGGAGATAAGA
1 TCTGCTCCACTACTA-CTTAGGGAGATAAGA
9239635 TCTCTGGCTT
Statistics
Matches: 123, Mismatches: 26, Indels: 19
0.73 0.15 0.11
Matches are distributed among these distances:
39 2 0.02
40 43 0.35
41 13 0.11
42 3 0.02
43 1 0.01
44 58 0.47
45 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATTGCGA
Found at i:9239823 original size:87 final size:87
Alignment explanation
Indices: 9239699--9239942 Score: 244
Period size: 87 Copynumber: 2.8 Consensus size: 87
9239689 TTCGGTCTAC
* * * * *
9239699 TCCACTGTAACCTCAGAGAGATAAGACCTGA--TGCGATCTACTCTACTGTAACTTCAGAGAGAT
1 TCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTGCTCCACTGTAACTTCAGAGAGAT
* * * *
9239762 AAGATCTTTTATTTTAATCCGT
66 AAGATCTCTGACTTCAATCCGT
* * * * * *
9239784 TCCACTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTGCTCCGCTGTAA-TCTCAGGGAC
1 TCCACTGTAACCTCAGGGAGATAAGAT-CTGATCTTCGATCTGCTCCACTGTAACT-TCAGAGAG
* *
9239847 ATAAGATCTCTGGCTTCAATCTGT
64 ATAAGATCTCTGACTTCAATCCGT
* *
9239871 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAACCTCAGAGA
1 TCCACTGTAACCTCAGGGAGATAAGATCTG--A-TCTTCGATCTGCTCCACTGTAACTTCAGAGA
9239936 GATAAGA
63 GATAAGA
9239943 CCTGAAGCGA
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
85 23 0.18
86 5 0.04
87 65 0.52
90 32 0.26
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTGATCTTCGATCTGCTCCACTGTAACTTCAGAGAGAT
AAGATCTCTGACTTCAATCCGT
Found at i:9239853 original size:218 final size:215
Alignment explanation
Indices: 9239601--9240072 Score: 793
Period size: 218 Copynumber: 2.2 Consensus size: 215
9239591 GGACGTGATG
* *
9239601 CGATCTGCTCCACTGCAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCG
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCG
* *
9239666 CAGGGAGATAATATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGAT
66 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGAA
* *
9239731 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCC-GTTCCACTGTAAC
131 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC--CT-TTTTAATCCACTT-CACTGTAAC
* *
9239795 TTCAGGGAGATAGGATAGTGTCTT
192 TTCAGAGAGATAGAATAGTGTCTT
* * *
9239819 CGATCTGCTCCGCTGTAATCTCAGGGACATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCG
*
9239884 CAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGAA
66 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGAA
9239949 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTTAATCCACTTCACTGTAACTTCA
131 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTTAATCCACTTCACTGTAACTTCA
9240014 GAGAGATAGAATAGTGTCTT
196 GAGAGATAGAATAGTGTCTT
9240034 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
9240073 AATATTCACC
Statistics
Matches: 240, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
215 78 0.32
216 3 0.01
218 159 0.66
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (215 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCG
CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGAA
GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTTAATCCACTTCACTGTAACTTCA
GAGAGATAGAATAGTGTCTT
Found at i:9239938 original size:46 final size:45
Alignment explanation
Indices: 9239601--9240070 Score: 252
Period size: 44 Copynumber: 10.8 Consensus size: 45
9239591 GGACGTGATG
* * * *
9239601 CGATCTGCTCCACTGCAATCTCAGGGAGATAAGATCT--CTGGCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTT
* * *
9239645 CAATCTGCTCCACTGTAACCGCAGGGAGATAATATCTGAAATTCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTT
* * * * *
9239691 CGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTG-A---TG
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTT
* * * * **
9239732 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATT-TT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TGAATTCTT
* * * * * *
9239777 -AATCCGTTCCACTGTAACTTCAGGGAGATAGGA--T-AGTGTCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTT
* * * * *
9239819 CGATCTGCTCCGCTGTAATCTCAGGGACATAAGATCT--CTGGCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTT
* *
9239863 CAATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTT
* * * *
9239909 CGGTCTGCTCCACTGTAACCTCAGAGAGATAAGACCTGAA----G
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTT
* * * *
9239950 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT---TT-TT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTT
* ** * * * * *
9239992 -AATCCACTTCACTGTAACTTCAGAGAGAT-AGA-AT-AGTGTCTT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTT
* *
9240034 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
9240071 CTAATATTCA
Statistics
Matches: 327, Mismatches: 73, Indels: 51
0.73 0.16 0.11
Matches are distributed among these distances:
38 1 0.00
40 5 0.02
41 91 0.28
42 7 0.02
43 47 0.14
44 99 0.30
45 5 0.02
46 70 0.21
47 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTT
Found at i:9252391 original size:216 final size:216
Alignment explanation
Indices: 9251749--9252470 Score: 1281
Period size: 216 Copynumber: 3.4 Consensus size: 216
9251739 AAAATTCAAG
* * * *
9251749 AGGATATTTAA-CAATTTGGTTAAACGAGAAATCAG-AACCCAACACCTTAGGGCACGTTCCTCA
1 AGGATA-TTAAGCCATTTGGTTGAACGAGAAATC-GCAACCCAGCACCTTAGGGCACGTTCCTCG
9251812 AATTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTG
64 AATTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTG
9251877 AACGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATT
129 AACGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATT
9251942 GCCATATTTTGAGATTTTTAAAA
194 GCCATATTTTGAGATTTTTAAAA
*
9251965 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGTAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
* *
9252030 TTTCCAAACGCAAAACATTGCCTCATTTTATAA--ATTGAAAGGATATTTAGCTATTTGGTTGAA
66 TTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTGAA
* * * *
9252093 CGAGAAAAATTGACACCCAGCACCTTAGGGCATGTTATCTCGAACCTCCAAACGCAAAACATTGC
131 CGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATTGC
*
9252158 CATATTTTGATATTTTTAAAA
196 CATATTTTGAGATTTTTAAAA
*
9252179 AGGATATTAAGCTATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9252244 TTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTGAA
66 TTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTGAA
9252309 CGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATTGC
131 CGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATTGC
9252374 CATATTTTGAGATTTTTAAAA
196 CATATTTTGAGATTTTTAAAA
9252395 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
9252460 TTTCCAAACGC
66 TTTCCAAACGC
9252471 TAAATATTGC
Statistics
Matches: 481, Mismatches: 21, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
214 205 0.43
215 5 0.01
216 271 0.56
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (216 bp):
AGGATATTAAGCCATTTGGTTGAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACGTTGCCTCATTTTATAACTTTTGAAAGGATATTTAGCTATTTGGTTGAA
CGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTATCTCGAATCTCCAAACGTAAAACATTGC
CATATTTTGAGATTTTTAAAA
Found at i:9254655 original size:40 final size:41
Alignment explanation
Indices: 9254610--9254787 Score: 152
Period size: 40 Copynumber: 4.3 Consensus size: 41
9254600 ATTGGTTCTG
*
9254610 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGA-TGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATTGCGA
* *
9254650 TCTGCTCCACTACTGCTTAGGGAGATAA-AATCTGCAAGGTT-CAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACT-TG--A--TTGCGA
* * * * *
9254694 CCTACTCCACTACT-CTTAGGAAGATAGGACTTGATTTCTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGA--T-TGC-GA
*
9254737 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGA-TGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATTGCGA
9254777 TCTGCTCCACT
1 TCTGCTCCACT
9254788 GTAATCTCAG
Statistics
Matches: 109, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
39 3 0.03
40 41 0.38
41 2 0.02
42 2 0.02
43 26 0.24
44 34 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATTGCGA
Found at i:9255024 original size:218 final size:215
Alignment explanation
Indices: 9254775--9255245 Score: 807
Period size: 218 Copynumber: 2.2 Consensus size: 215
9254765 GACTTGATGA
* *
9254775 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCATTGTAACCTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
9254840 AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATG
66 AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATG
* *
9254905 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAACTT
131 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCC--T-TTTTAATCCGCTCCACTGTAACTT
* *
9254970 TAGGGAGATAGGATAGTGTCTTT
193 CAGGGAGATAGGATAGTGTCTTC
* * *
9254993 GATCTACTCCGCTATAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGTTCCACTGTAACCTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
* * *
9255058 AGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAACCTTAGAGAGATAAGACCTGATG
66 AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATG
9255123 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTTTAATCCGCTCCACTGTAACTTCAG
131 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTTTAATCCGCTCCACTGTAACTTCAG
9255188 GGAGATAGGATAGTGTCTTC
196 GGAGATAGGATAGTGTCTTC
9255208 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
9255246 AATATTTCAC
Statistics
Matches: 239, Mismatches: 14, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
215 80 0.33
216 1 0.00
218 158 0.66
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (215 bp):
GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
AGGGAGATAAGATCTGAAATTATTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATG
CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTTTAATCCGCTCCACTGTAACTTCAG
GGAGATAGGATAGTGTCTTC
Found at i:9255184 original size:41 final size:42
Alignment explanation
Indices: 9254775--9255242 Score: 225
Period size: 44 Copynumber: 10.8 Consensus size: 42
9254765 GACTTGATGA
* * *
9254775 GATCTGCTCCACTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC-CT-GTTTT
* * * *
9254819 AATCTGCTCCATTGTAACCTCAGGGAGATAAGAT-CTGAAATTATT
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTG---TT-TT
* * * * **
9254864 CGGTCTACTCCACTGTAACCTCAGAGAGATAAGA-CCTGATGC
1 -GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTTTT
* * *
9254906 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCC--TGTTTT
* * * * * * **
9254950 AATCCGTTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTT
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGT-TTT
* * * * * *
9254993 GATCTACTCCGCTATAA-TCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC-CT-GTTTT
* * * *
9255037 AATCTGTTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTT
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTG---TT-TT
* * **
9255082 CGGTCTGCTCCACTGTAACCTT-AGAGAGATAAGA-CCTGATGC
1 -GATCTGCTCCACTGTAA-CTTCAGAGAGATAAGATCCTGTTTT
* * *
9255124 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCCT-TTTT
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTTTT
* * * * ** *
9255165 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
1 GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGT-TTT
* *
9255208 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 GATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC
9255243 TCTAATATTT
Statistics
Matches: 316, Mismatches: 81, Indels: 55
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.01
41 86 0.27
42 14 0.04
43 59 0.19
44 90 0.28
45 3 0.01
46 59 0.19
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
GATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTGTTTT
Found at i:9256612 original size:29 final size:28
Alignment explanation
Indices: 9256577--9256633 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
9256567 GAAGATGATG
*
9256577 TAGGGAAATATGAAATCACACGTGATTA
1 TAGGGAAATATGAAATCAAACGTGATTA
9256605 NTAGGGAAATATGAAATCAAACGTGATTA
1 -TAGGGAAATATGAAATCAAACGTGATTA
9256634 ATAAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.25
Consensus pattern (28 bp):
TAGGGAAATATGAAATCAAACGTGATTA
Found at i:9258062 original size:33 final size:33
Alignment explanation
Indices: 9258017--9258095 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
9258007 GTCCACCATG
9258017 TACCCTTGATTCACATACCCAGGGTGAGACATA
1 TACCCTTGATTCACATACCCAGGGTGAGACATA
* *
9258050 TACCCTTCATTCACATAGCCAGGGTGAGACATA
1 TACCCTTGATTCACATACCCAGGGTGAGACATA
*
9258083 TAGCCTTGATTCA
1 TACCCTTGATTCA
9258096 TGTACCCCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (33 bp):
TACCCTTGATTCACATACCCAGGGTGAGACATA
Found at i:9259866 original size:4 final size:4
Alignment explanation
Indices: 9259857--9259897 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
9259847 GGTTGATAAG
9259857 GTAT GTAT GTAT GTAT GTAT G-AT G-AGT GTAT GTTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT G-TAT GTAT G
9259898 ATGGTTGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.12
4 25 0.74
5 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:9259906 original size:27 final size:26
Alignment explanation
Indices: 9259847--9259907 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
9259837 CAGGAGAGGC
*
9259847 GGTTGATAAGGTATGTATGTATGTAT
1 GGTTGATGAGGTATGTATGTATGTAT
9259873 -GTATGATGAGTGTATGTTATGTATG-AT
1 GGT-TGATGAG-GTATG-TATGTATGTAT
9259900 GGTTGATG
1 GGTTGATG
9259908 GAGGAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
27 12 0.40
28 10 0.33
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.43
Consensus pattern (26 bp):
GGTTGATGAGGTATGTATGTATGTAT
Found at i:9267873 original size:2 final size:2
Alignment explanation
Indices: 9267866--9267890 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9267856 GTAGTTTTGT
9267866 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 T
9267891 CTTTTGATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9268773 original size:31 final size:31
Alignment explanation
Indices: 9268736--9268834 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 31
9268726 AGGTTGAACT
* *
9268736 AAAATTTTCAAAATTTTTAGAGGG-TTTAATA
1 AAAATTTCCAAAATTTTT-GAGGGATCTAATA
*
9268767 AAAATTTCCAATATTTTTGAGGGATCTAAT-
1 AAAATTTCCAAAATTTTTGAGGGATCTAATA
* * **
9268797 AAAAGTTCTAAAAAATTTGAGGGA-CTTAATA
1 AAAATTTCCAAAATTTTTGAGGGATC-TAATA
*
9268828 AGAATTT
1 AAAATTT
9268835 ATAAAAAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
29 1 0.02
30 28 0.51
31 26 0.47
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.37
Consensus pattern (31 bp):
AAAATTTCCAAAATTTTTGAGGGATCTAATA
Found at i:9268841 original size:30 final size:30
Alignment explanation
Indices: 9268782--9268842 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9268772 TTCCAATATT
9268782 TTTGAGGGATCTAATAAAAGTTCTAAAAAA
1 TTTGAGGGATCTAATAAAAGTTCTAAAAAA
* *
9268812 TTTGAGGGA-CTTAATAAGAATTTATAAAAAA
1 TTTGAGGGATC-TAATAA-AAGTTCTAAAAAA
9268843 AATTTAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 15 0.56
31 11 0.41
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (30 bp):
TTTGAGGGATCTAATAAAAGTTCTAAAAAA
Found at i:9290597 original size:114 final size:111
Alignment explanation
Indices: 9290441--9290770 Score: 333
Period size: 114 Copynumber: 2.9 Consensus size: 111
9290431 TAATAAGCAA
* * * *
9290441 TAGCGGCGATTTACGAAAAGCGTCGCAAAAAACATAAGGCCAACGACGCCGTTTACTGATTTTTT
1 TAGCGGCGATTTATGAAAAGCGCCGCAAAAAACCTAACGCCAACGACGCCGTTT-CTGATTTTTT
* *
9290506 GGGCCATTAGCGGCGTTTTTATAAAAACGCCGCTAATGCTCGGGGGAC-T
65 GGGCCATTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTC--CGGACTT
* * * * * *
9290555 TAGCGACGATTTATAAAAAGCGCCGCAAAAAACCTAATGCCAACGACGTCGTTTCCGAGTTTTT-
1 TAGCGGCGATTTATGAAAAGCGCCGCAAAAAACCTAACGCCAACGACGCCGTTTCTGATTTTTTG
* * * * * ***
9290619 GTCCCTGTTGCGGCGCTTTTTGAAAAGCGCCGGTAATGCTCCTTTCTT
66 GGCCAT-TAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTCCGGACTT
* * *
9290667 TAGCGGCGTTTTCTGAAAAGCGCCGCAAAAAAACCTAACGCCAACGACGCCGTTTTCT-TTGTTT
1 TAGCGGCGATTTATGAAAAGCGCCGC-AAAAAACCTAACGCCAACGACGCCG-TTTCTGAT-TTT
*
9290731 TTGGGCCTTTAGCGGCGTTTTGTAAAAAGCGCCGCTAATG
63 TTGGGCCATTAGCGGCGTTTT-TAAAAAGCGCCGCTAATG
9290771 ATCCCCGTTA
Statistics
Matches: 175, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
111 1 0.01
112 27 0.15
113 59 0.34
114 84 0.48
115 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (111 bp):
TAGCGGCGATTTATGAAAAGCGCCGCAAAAAACCTAACGCCAACGACGCCGTTTCTGATTTTTTG
GGCCATTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCCGGACTT
Found at i:9291767 original size:14 final size:13
Alignment explanation
Indices: 9291750--9291792 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9291740 GGGTTTAGTT
9291750 TTTGGGGTTAGGGG
1 TTTGGGGTT-GGGG
*
9291764 TTTGTGGTTGGGG
1 TTTGGGGTTGGGG
* *
9291777 TTTGGGATTTGGG
1 TTTGGGGTTGGGG
9291790 TTT
1 TTT
9291793 TTGAGTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.47
Consensus pattern (13 bp):
TTTGGGGTTGGGG
Found at i:9291776 original size:20 final size:19
Alignment explanation
Indices: 9291751--9291791 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9291741 GGTTTAGTTT
*
9291751 TTGGGGTTAGGGGTTTGTGG
1 TTGGGGTTAGGGATTTG-GG
*
9291771 TTGGGGTTTGGGATTTGGG
1 TTGGGGTTAGGGATTTGGG
9291790 TT
1 TT
9291792 TTTGAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.05, C:0.00, G:0.51, T:0.44
Consensus pattern (19 bp):
TTGGGGTTAGGGATTTGGG
Found at i:9291781 original size:7 final size:7
Alignment explanation
Indices: 9291735--9291830 Score: 50
Period size: 7 Copynumber: 13.9 Consensus size: 7
9291725 GGGTTTTTGA
9291735 GTTTGGG
1 GTTTGGG
* *
9291742 GTTTAGT
1 GTTTGGG
*
9291749 TTTTGGG
1 GTTTGGG
*
9291756 GTTAGGG
1 GTTTGGG
*
9291763 GTTTGTG
1 GTTTGGG
9291770 G-TTGGG
1 GTTTGGG
9291776 GTTTGGG
1 GTTTGGG
*
9291783 ATTTGGG
1 GTTTGGG
* * *
9291790 TTTTTGA
1 GTTTGGG
**
9291797 GTTTATG
1 GTTTGGG
***
9291804 GTTTAAT
1 GTTTGGG
9291811 GTTTGGG
1 GTTTGGG
*
9291818 GTTAGGG
1 GTTTGGG
9291825 GTTTGG
1 GTTTGG
9291831 AAATTTAGGG
Statistics
Matches: 63, Mismatches: 25, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
6 5 0.08
7 58 0.92
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.48
Consensus pattern (7 bp):
GTTTGGG
Found at i:9292878 original size:19 final size:19
Alignment explanation
Indices: 9292856--9292900 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9292846 CTCTTATCTC
*
9292856 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
9292875 CCCCTAATCCCTAATAGTT
1 CCCCAAATCCCTAAAAGTT
9292894 CCCCAAA
1 CCCCAAA
9292901 GTAGTCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.24
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:9295143 original size:37 final size:37
Alignment explanation
Indices: 9295093--9295230 Score: 222
Period size: 37 Copynumber: 3.7 Consensus size: 37
9295083 CTTATATAAT
* * **
9295093 ATTACATAACTTATATAATGTTAAGATAAAAAATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
*
9295130 ATTACATAACTTATACAATATTAAGGTAAAATTTCGA
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
9295167 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
*
9295204 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATACAATATTAAGAT
9295231 TACTTTTATA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (37 bp):
ATTACATAACTTATACAATATTAAGATAAAATTTCGA
Found at i:9295271 original size:57 final size:57
Alignment explanation
Indices: 9295175--9296015 Score: 981
Period size: 57 Copynumber: 14.8 Consensus size: 57
9295165 GAATTACATA
*
9295175 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9295232 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9295289 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
*
9295345 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9295402 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9295459 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
9295515 ACTTATACAATATTAAGATAAAATTTCGAATCACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
9295572 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
9295629 ACTTATATAATATTAAGATAAAATTTCTAATTACATATCTTATATAATATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* ** * *
9295685 ACTTATATAATGTTAAGATAAAAAATCGAATTACATAACTTATACAATATTAAGATAA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT-T
* ** * * ** * * * *
9295743 AATT-T-CGA-ATT-ACAT-AACTTATATAATATTAAGATTACTTTTATAATATTAAGATCA
1 ACTTATATAATATTAAGATAAAATT-T-CGA-ATT-ACATAACTTATATAATATTAAGAT-T
* ** * * ** * *
9295800 AATT-T-CGA-ATT-ACAT-AACTTATATAATATTAAGATTACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATT-T-CGA-ATT-ACATAACTTATATAATATTAAGATT
* * *
9295856 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
9295912 ACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTTATACAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
9295969 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAA
9296016 CTTACATAAA
Statistics
Matches: 681, Mismatches: 89, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.00
54 4 0.01
55 3 0.00
56 207 0.30
57 445 0.65
58 8 0.01
59 4 0.01
60 4 0.01
61 4 0.01
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:9295343 original size:170 final size:170
Alignment explanation
Indices: 9295167--9296024 Score: 1164
Period size: 170 Copynumber: 5.1 Consensus size: 170
9295157 AAAATTTCGA
9295167 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
9295232 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
9295297 AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
131 AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
9295337 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
9295402 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
9295467 AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
131 AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
*
9295507 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATCACATAACTTATATAATATTAAGATT
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
9295572 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
*
9295637 AATATTAAGATAAAATTTCTAATTACATATCTTATATAAT
131 AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
* * ** * *
9295677 ATTACATAACTTATATAATGTTAAGATAAAAAATCGAATTACATAACTTATACAATATTAAGATA
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
** ** * * ** * * * * *
9295742 AAATTT-CGA-ATT-ACAT-AACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAAT
66 ACTTTTATAATATTAAGATCAAATT-T-CGA-ATT-ACATAACTTGTATAATATTAAGAT-TACT
** * * * * *
9295803 T-T-CGA-ATT-ACAT-AACTTATATAATATTAAGATTACTTATATAAT
126 TATATAATATTAAGATAAAATT-TCT-A-ATT-ACATAACTTATATAAT
* * * * *
9295847 ATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACAT
1 ATT-ACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT
* * * * * *
9295911 AACTTATACAATATTAAGGT-AAGATTTCGAATTACATAACTTATACAATATTAAGATTACTTAT
65 TACTTTTATAATATTAAGATCAA-ATTTCGAATTACATAACTTGTATAATATTAAGATTACTTAT
*
9295975 ATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA-
129 ATAATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
*
9296016 CTTACATAA
1 ATTACATAA
9296025 ATTAAATAAC
Statistics
Matches: 605, Mismatches: 64, Indels: 40
0.85 0.09 0.06
Matches are distributed among these distances:
166 8 0.01
167 9 0.01
168 12 0.02
169 13 0.02
170 478 0.79
171 61 0.10
172 8 0.01
173 10 0.02
174 6 0.01
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (170 bp):
ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATAT
AATATTAAGATAAAATTTCTAATTACATAACTTATATAAT
Found at i:9295727 original size:37 final size:37
Alignment explanation
Indices: 9295677--9295777 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
9295667 CTTATATAAT
*
9295677 ATTACATAACTTATATAATGTTAAGATAAAAAATCGA
1 ATTACATAACTTATATAATATTAAGATAAAAAATCGA
* **
9295714 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATATAATATTAAGATAAAAAATCGA
9295751 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATATAATATTAAGAT
9295778 TACTTTTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.36
Consensus pattern (37 bp):
ATTACATAACTTATATAATATTAAGATAAAAAATCGA
Found at i:9295746 original size:150 final size:151
Alignment explanation
Indices: 9295580--9295854 Score: 462
Period size: 150 Copynumber: 1.8 Consensus size: 151
9295570 TTACTTTTAT
* *
9295580 AATATTAAGATCAAATTTCGAATTACATAACTTGTATAATATTAAGATTACTTATATAATATTAA
1 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAA
* * *
9295645 GATAAAATTTCTAATTACATATCTTATATAATATT-ACATAACTTATATAATGTTAAGATAAAAA
66 GATAAAATTTCGAATTACATAACTTATATAATATTAACATAACTTATATAATATTAAGATAAAAA
9295709 ATCGAATTACATAACTTATAC
131 ATCGAATTACATAACTTATAC
*
9295730 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAA
1 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAA
* * *
9295795 GATCAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGAT
66 GATAAAATTTCGAATTACATAACTTATATAATATTAACATAACTTATATAATATTAAGAT
9295855 TACTTATATA
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 94 0.82
151 21 0.18
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (151 bp):
AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAA
GATAAAATTTCGAATTACATAACTTATATAATATTAACATAACTTATATAATATTAAGATAAAAA
ATCGAATTACATAACTTATAC
Found at i:9295836 original size:25 final size:23
Alignment explanation
Indices: 9295816--9295874 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 23
9295806 GAATTACATA
9295816 ACTTATATAATATTAAGA-T--T
1 ACTTATATAATATTAAGATTACT
9295836 ACTTATATAATATTAAGA-T--T
1 ACTTATATAATATTAAGATTACT
9295856 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
9295875 AAAATTTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
ACTTATATAATATTAAGATTACT
Found at i:9296013 original size:9 final size:9
Alignment explanation
Indices: 9295999--9296225 Score: 195
Period size: 9 Copynumber: 26.0 Consensus size: 9
9295989 AAATTTCTAA
9295999 TTACATAAC
1 TTACATAAC
9296008 TTACATAAC
1 TTACATAAC
*
9296017 TTACATAAA
1 TTACATAAC
*
9296026 TTAAATAAC
1 TTACATAAC
*
9296035 TTGCATAAC
1 TTACATAAC
*
9296044 TTAAATAAC
1 TTACATAAC
9296053 TTACATAAC
1 TTACATAAC
9296062 --ACATAACC
1 TTACATAA-C
*
9296070 TT-CCTAAC
1 TTACATAAC
* *
9296078 TTACATTAT
1 TTACATAAC
*
9296087 TTAGATAA-
1 TTACATAAC
*
9296095 -TACATAGC
1 TTACATAAC
*
9296103 CTACATAAC
1 TTACATAAC
9296112 TTACATAAC
1 TTACATAAC
*
9296121 TTACATAAA
1 TTACATAAC
*
9296130 TTAAATAAC
1 TTACATAAC
*
9296139 TTGCATAAC
1 TTACATAAC
9296148 TTACATAAC
1 TTACATAAC
*
9296157 TCACATAA-
1 TTACATAAC
*
9296165 -TACACAAC
1 TTACATAAC
9296173 TTACATAAC
1 TTACATAAC
9296182 TTACATAA-
1 TTACATAAC
9296190 -TACATAACC
1 TTACATAA-C
* *
9296199 TT-CCTATC
1 TTACATAAC
*
9296207 ATATCATAAC
1 TTA-CATAAC
9296217 TTACATAAC
1 TTACATAAC
9296226 ACATTTATAT
Statistics
Matches: 171, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
7 23 0.13
8 6 0.04
9 135 0.79
10 7 0.04
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:9296116 original size:104 final size:104
Alignment explanation
Indices: 9296000--9296187 Score: 315
Period size: 104 Copynumber: 1.8 Consensus size: 104
9295990 AATTTCTAAT
*
9296000 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACTTAAATAACTTACATAACACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACTTAAATAACTCACATAACACA
* *
9296065 TAACCTT-CCTAACTTACATTATTTAGATAATACATAGCC
66 CAA-CTTACATAACTTACATTATTTAGATAATACATAGCC
* *
9296104 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACTTACATAACTCACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACTTAAATAACTCACATAACACA
9296169 CAACTTACATAACTTACAT
66 CAACTTACATAACTTACAT
9296188 AATACATAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 3 0.04
104 75 0.96
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (104 bp):
TACATAACTTACATAACTTACATAAATTAAATAACTTGCATAACTTAAATAACTCACATAACACA
CAACTTACATAACTTACATTATTTAGATAATACATAGCC
Found at i:9296179 original size:25 final size:25
Alignment explanation
Indices: 9296145--9296193 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9296135 TAACTTGCAT
9296145 AACTTACATAACTCACATAATACAC
1 AACTTACATAACTCACATAATACAC
*
9296170 AACTTACATAACTTACATAATACA
1 AACTTACATAACTCACATAATACA
9296194 TAACCTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (25 bp):
AACTTACATAACTCACATAATACAC
Found at i:9301728 original size:21 final size:21
Alignment explanation
Indices: 9301702--9301748 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9301692 CAACTTAAAA
* * *
9301702 CAGAGGCGGCAGTGAGGGAAG
1 CAGAGGCGACAGCGAGAGAAG
*
9301723 CAGAGGCTACAGCGAGAGAAG
1 CAGAGGCGACAGCGAGAGAAG
9301744 CAGAG
1 CAGAG
9301749 CAGAGCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.45, T:0.04
Consensus pattern (21 bp):
CAGAGGCGACAGCGAGAGAAG
Found at i:9304576 original size:20 final size:20
Alignment explanation
Indices: 9304543--9304594 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
9304533 AAGATATTTC
9304543 ATAGAATATTATTT-TGTATAT
1 ATAGAAT-TTATTTAT-TATAT
*
9304564 ATAGAATTTATTTATTTTAT
1 ATAGAATTTATTTATTATAT
*
9304584 ATATAATTTAT
1 ATAGAATTTAT
9304595 GCTATAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
ATAGAATTTATTTATTATAT
Found at i:9306781 original size:24 final size:24
Alignment explanation
Indices: 9306719--9306770 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9306709 TTTCTAGAAG
* **
9306719 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAACATAATAT
9306743 ATTTAGTATTTATTAACATAATAT
1 ATTTAGTATTTATTAACATAATAT
9306767 ATTT
1 ATTT
9306771 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:9309424 original size:40 final size:40
Alignment explanation
Indices: 9309369--9309502 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
9309359 ACCAGTTTGG
* *
9309369 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
* * * * *
9309409 CACCTAGTGTCTCATCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
* *
9309446 CACCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAAATTGA
*
9309487 CACCCAGTGTCTCATC
1 CACCCAGTGCCTCATC
9309503 AAGTCAAAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 25 0.33
41 21 0.28
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAATAAATTGA
Found at i:9310033 original size:18 final size:19
Alignment explanation
Indices: 9310007--9310042 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9309997 TAGACTATAT
*
9310007 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
9310025 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
9310043 AATTTTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:9310343 original size:30 final size:30
Alignment explanation
Indices: 9310318--9310378 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
9310308 TTTTTCTCCT
* *
9310318 TCTTT-CTT-TCTTTTTTTTTTCTTTTCTT
1 TCTTTCCTTCTCTGTTTTGTTTCTTTTCTT
*
9310346 TCTTTCCTTCTCTGTTTTGTTTCGTTTCTT
1 TCTTTCCTTCTCTGTTTTGTTTCTTTTCTT
9310376 TCT
1 TCT
9310379 CTTTCTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.18
29 3 0.11
30 20 0.71
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (30 bp):
TCTTTCCTTCTCTGTTTTGTTTCTTTTCTT
Found at i:9310351 original size:28 final size:28
Alignment explanation
Indices: 9310317--9310390 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
9310307 ATTTTTCTCC
* *
9310317 TTCTTTCTTTCTTTTTTTTTTCTTTTCT
1 TTCTTTCTTTCTCTTTTTTTTCGTTTCT
*
9310345 TTCTTTCCTTCTCTGTTTTGTTTCGTTTCT
1 TTCTTTCTTTCTCT-TTTT-TTTCGTTTCT
9310375 TTC--TCTTTCTCTTTTT
1 TTCTTTCTTTCTCTTTTT
9310391 CTTTATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 20 0.50
29 4 0.10
30 12 0.30
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (28 bp):
TTCTTTCTTTCTCTTTTTTTTCGTTTCT
Found at i:9310373 original size:26 final size:26
Alignment explanation
Indices: 9310317--9310390 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 26
9310307 ATTTTTCTCC
*
9310317 TTCTTTCTTTCT-TTT-T-TTTTTCTT
1 TTCTTTCTTTCTCTTTCTCTTTTT-GT
9310341 TTCTTTCTTTC-C-TTCTCTGTTTTGT
1 TTCTTTCTTTCTCTTTCTCT-TTTTGT
9310366 TTCGTTTCTTTCTCTTTCTCTTTTT
1 TTC-TTTCTTTCTCTTTCTCTTTTT
9310391 CTTTATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.05
24 12 0.29
25 5 0.12
26 12 0.29
27 5 0.12
28 6 0.14
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (26 bp):
TTCTTTCTTTCTCTTTCTCTTTTTGT
Found at i:9310378 original size:22 final size:21
Alignment explanation
Indices: 9310339--9310388 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9310329 TTTTTTTTTC
9310339 TTTTCTTTCTTTCCTTCTCTG
1 TTTTCTTTCTTTCCTTCTCTG
* *
9310360 TTTTGTTTCGTTTCTTTCTCT-
1 TTTTCTTTC-TTTCCTTCTCTG
*
9310381 TTCTCTTT
1 TTTTCTTT
9310389 TTCTTTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTCTTTCTTTCCTTCTCTG
Found at i:9310452 original size:36 final size:38
Alignment explanation
Indices: 9310405--9310490 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 38
9310395 ATTATTATAA
* *
9310405 TATAATAATATATACT-TA-ACTTTTAAGTTTTAATA-T
1 TATAATAATATATACTATATA-TTTTAAATTTAAATATT
9310441 TATAATAATATA-A-TATATATTTTAAATTTAAATATT
1 TATAATAATATATACTATATATTTTAAATTTAAATATT
9310477 TATAAT-ATATATAC
1 TATAATAATATATAC
9310491 ACTTGTGCCG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
34 1 0.02
35 21 0.49
36 21 0.49
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
TATAATAATATATACTATATATTTTAAATTTAAATATT
Found at i:9323432 original size:34 final size:33
Alignment explanation
Indices: 9323389--9323455 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 33
9323379 CGAGAAGACG
*
9323389 GAGTTGAAGGTCCGGATAACTGAACTAGAAAGA
1 GAGTTGAAGGTCCGGATAACGGAACTAGAAAGA
9323422 NGAGTTGAAGGTCCGGATAACGGAACTAGAAAGA
1 -GAGTTGAAGGTCCGGATAACGGAACTAGAAAGA
9323456 TCGCTTCACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.31, T:0.16
Consensus pattern (33 bp):
GAGTTGAAGGTCCGGATAACGGAACTAGAAAGA
Found at i:9332514 original size:44 final size:44
Alignment explanation
Indices: 9332404--9332770 Score: 251
Period size: 44 Copynumber: 8.5 Consensus size: 44
9332394 ATTATACAGG
* *** *
9332404 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---GAGA
* *
9332450 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* ** *
9332494 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG-AGA
* * * *
9332538 TCCTATCTCCTTGAGATTACAATGGAGCGGATT--A-A-AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * * * *
9332577 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACA-TCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGACAGAGA
* * *
9332618 TCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * **
9332662 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
* * * * *
9332705 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAGAG-A
* *
9332749 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
9332771 CAGAGTAGAT
Statistics
Matches: 252, Mismatches: 52, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
38 2 0.01
39 23 0.09
40 2 0.01
41 28 0.11
42 14 0.06
43 29 0.12
44 120 0.48
45 1 0.00
46 32 0.13
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGAGA
Found at i:9332687 original size:168 final size:169
Alignment explanation
Indices: 9332445--9332803 Score: 535
Period size: 168 Copynumber: 2.1 Consensus size: 169
9332435 CCAAAGAATT
* *
9332445 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
* * *
9332510 TTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T-TA
66 TTACAGCGGAGCAGATCAAAGACACT-ATCCTATCTCCCTGAAG-TTACAATGGAGCGGATTATA
* *
9332572 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
129 AAGAATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACA
9332613 TCAGGTCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
1 TCAGGTCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
* *
9332678 TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAAGTTACAATGGAGCGGATT---AT
* * *
9332743 AAAGAATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA
128 AAAGAATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACA
*
9332785 TCAAGTCTTATTTCCCTGA
1 TCAGGTCTTATTTCCCTGA
9332804 AGATGCAGTG
Statistics
Matches: 172, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
167 27 0.16
168 89 0.52
172 56 0.33
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (169 bp):
TCAGGTCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAAGTTACAATGGAGCGGATTATAAA
GAATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACA
Found at i:9338134 original size:21 final size:21
Alignment explanation
Indices: 9338109--9338151 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9338099 ATATTTAAAA
*
9338109 ATTTTATCATAATTATTTTTT
1 ATTTTATCATAATTATATTTT
* *
9338130 ATTTTTTTATAATTATATTTT
1 ATTTTATCATAATTATATTTT
9338151 A
1 A
9338152 AAATATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTATCATAATTATATTTT
Found at i:9341072 original size:3 final size:3
Alignment explanation
Indices: 9341050--9341131 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
9341040 CGTATGTACA
* *
9341050 AAT AA- AAT AAT GAC AAT AAT AAT AAAT AAT -AT AAT AAT ACAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT
*
9341095 GAT -AT AAT -AT AAT AAT AAAT AAAT AAAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT AAT AAT A
9341132 GTTCAAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
2 10 0.15
3 39 0.59
4 17 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9341083 original size:15 final size:15
Alignment explanation
Indices: 9341065--9341131 Score: 75
Period size: 15 Copynumber: 4.4 Consensus size: 15
9341055 AATAATGACA
9341065 ATAATAATAAATAAT
1 ATAATAATAAATAAT
*
9341080 ATAATAATACATAAT
1 ATAATAATAAATAAT
9341095 GAT-ATAATATAATAAT
1 -ATAATAATA-AATAAT
9341111 A-AATAAATAAATAAT
1 ATAAT-AATAAATAAT
*
9341126 AAAATA
1 ATAATA
9341132 GTTCAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 31 0.69
16 14 0.31
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:9341124 original size:23 final size:22
Alignment explanation
Indices: 9341067--9341131 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
9341057 TAATGACAAT
9341067 AATAATAAATAATATAATAATA
1 AATAATAAATAATATAATAATA
* *
9341089 CATAATGATATAATATAATAATA
1 AATAAT-AAATAATATAATAATA
*
9341112 AATAAATAAATAATAAAATA
1 AAT-AATAAATAATATAATA
9341132 GTTCAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.14
23 28 0.78
24 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAAATAATATAATAATA
Found at i:9341640 original size:114 final size:113
Alignment explanation
Indices: 9341436--9341652 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 113
9341426 GCGCGCGTCT
9341436 GGGCCTTAAAAACGACGTCGTTTTTGTAGCGTTACTTAAAAAAAAATTTCTTTCAAAATCATTTA
1 GGGCCTTAAAAACGACGTCGTTTTTGTAGCGTTACTTAAAAAAAAATTTCTTTCAAAATCATTTA
9341501 CAACCGAATGAAAAAAAAAAGAAAAAAAAAACAAACACCTAGCGGGTCA
66 CAACCGAATG-AAAAAAAAAGAAAAAAAAAACAAACACCTAGCGGGTCA
9341550 GGGCCTTAAAAACGACGTCGTTTTTGTAGCGTTACTTAAAACAAAAATTTCTTTCAAAATCATTT
1 GGGCCTTAAAAACGACGTCGTTTTTGTAGCGTTACTTAAAA-AAAAATTTCTTTCAAAATCATTT
9341615 ACAACCGAATG-AAAAAAAAGAAAAAAAAAACAAACACC
65 ACAACCGAATGAAAAAAAAAGAAAAAAAAAACAAACACC
9341653 CCTCTTTTGC
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 27 0.26
114 41 0.40
115 34 0.33
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (113 bp):
GGGCCTTAAAAACGACGTCGTTTTTGTAGCGTTACTTAAAAAAAAATTTCTTTCAAAATCATTTA
CAACCGAATGAAAAAAAAAGAAAAAAAAAACAAACACCTAGCGGGTCA
Found at i:9342056 original size:41 final size:41
Alignment explanation
Indices: 9341999--9342089 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 41
9341989 ATACAAATTA
*
9341999 TTTTCTTTGA-TGTTTTTTCTTTTAGGACTCTTTGAATCTGG
1 TTTTCTTTGATTGTTTTTTCTTTCAGGACTCTTTGAATCT-G
*
9342040 TTTTCTTTGATTTTTTTTTCTTTCAGGACTCTTTGAATCTG
1 TTTTCTTTGATTGTTTTTTCTTTCAGGACTCTTTGAATCTG
*
9342081 TTTTTTTTG
1 TTTTCTTTG
9342090 CAGGCGTCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 19 0.41
42 27 0.59
ACGTcount: A:0.11, C:0.12, G:0.14, T:0.63
Consensus pattern (41 bp):
TTTTCTTTGATTGTTTTTTCTTTCAGGACTCTTTGAATCTG
Found at i:9346194 original size:21 final size:21
Alignment explanation
Indices: 9346152--9346199 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9346142 GATGCCCTAT
*
9346152 CGGAAGAACCAAAATCCTCGC
1 CGGAAGAACCAAAATCCCCGC
*
9346173 CGGAAGAACCACAA-CCGCCGC
1 CGGAAGAACCAAAATCC-CCGC
9346194 CGGAAG
1 CGGAAG
9346200 CTGGACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.35, C:0.35, G:0.25, T:0.04
Consensus pattern (21 bp):
CGGAAGAACCAAAATCCCCGC
Found at i:9346501 original size:21 final size:21
Alignment explanation
Indices: 9346477--9346538 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
9346467 AACCCTAATC
9346477 CTAACCCTTAACTTAAAAACA
1 CTAACCCTTAACTTAAAAACA
* *
9346498 CTAACCCTTAAATTAAAAACG
1 CTAACCCTTAACTTAAAAACA
9346519 CTAACCCTTAACTTAAAAAC
1 CTAACCCTTAACTTAAAAAC
9346539 CCCAAACCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACTTAAAAACA
Found at i:9346548 original size:21 final size:21
Alignment explanation
Indices: 9346476--9346569 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
9346466 TAACCCTAAT
*
9346476 CCTAACCCTTAACTTAAAAAC
1 CCTAAACCTTAACTTAAAAAC
* * *
9346497 ACTAACCCTTAAATTAAAAAC
1 CCTAAACCTTAACTTAAAAAC
* *
9346518 GCTAACCCTTAACTTAAAAAC
1 CCTAAACCTTAACTTAAAAAC
* * *
9346539 CCCAAACCTTAAACCTAAAAAT
1 CCTAAACCTT-AACTTAAAAAC
9346561 CCTAAACCT
1 CCTAAACCT
9346570 AAAAACACCA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
21 45 0.73
22 17 0.27
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (21 bp):
CCTAAACCTTAACTTAAAAAC
Found at i:9346744 original size:20 final size:19
Alignment explanation
Indices: 9346715--9346774 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 19
9346705 AATCCCAATT
*
9346715 CTAACACTTAACTTAAAACA
1 CTAACCCTTAACTTAAAA-A
*
9346735 CTAACCCTTAAATTAAAAA
1 CTAACCCTTAACTTAAAAA
9346754 CGATAACCCTTAACTTAAAAA
1 C--TAACCCTTAACTTAAAAA
9346775 ACCAAACACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 17 0.49
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (19 bp):
CTAACCCTTAACTTAAAAA
Found at i:9346796 original size:15 final size:16
Alignment explanation
Indices: 9346778--9346810 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9346768 TTAAAAAACC
9346778 AAACACTAAACC-TAA
1 AAACACTAAACCTTAA
*
9346793 AAACCCTAAACCTTAA
1 AAACACTAAACCTTAA
9346809 AA
1 AA
9346811 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (16 bp):
AAACACTAAACCTTAA
Found at i:9346803 original size:22 final size:22
Alignment explanation
Indices: 9346729--9346904 Score: 112
Period size: 22 Copynumber: 8.1 Consensus size: 22
9346719 CACTTAACTT
* * *
9346729 AAAACACTAACCCTTAAA-TTA
1 AAAACCCTAAACCTTAAACCTA
** * *
9346750 AAAACGATAACCCTT-AACTTA
1 AAAACCCTAAACCTTAAACCTA
*
9346771 AAAAACC-AAACAC-TAAACCTA
1 AAAACCCTAAAC-CTTAAACCTA
**
9346792 AAAACCCTAAACCTTAAAATTA
1 AAAACCCTAAACCTTAAACCTA
* *
9346814 AAAACCCCAAACCTTAAACTTA
1 AAAACCCTAAACCTTAAACCTA
* *
9346836 AAAACTCTAAACCCTAAACCTAA
1 AAAACCCTAAACCTTAAACCT-A
*
9346859 AAAACCCT-AACCATT-AACTTA
1 AAAACCCTAAACC-TTAAACCTA
* * *
9346880 TAAATCTTAAACCTTAAACCCTA
1 AAAACCCTAAACCTTAAA-CCTA
9346903 AA
1 AA
9346905 CCTAAAAACC
Statistics
Matches: 121, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
20 6 0.05
21 41 0.34
22 61 0.50
23 13 0.11
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.21
Consensus pattern (22 bp):
AAAACCCTAAACCTTAAACCTA
Found at i:9346899 original size:44 final size:44
Alignment explanation
Indices: 9346740--9346904 Score: 144
Period size: 44 Copynumber: 3.8 Consensus size: 44
9346730 AAACACTAAC
** * *
9346740 CCTTAAA-TTAAAAACGATAACCCTT-AACTTAAAAAA-CCAAA
1 CCTTAAACTTAAAAACTCTAAACCTTAAACCTAAAAAACCCAAA
* * ** *
9346781 CAC-TAAACCTAAAAACCCTAAACCTTAAAATTAAAAACCCCAAA
1 C-CTTAAACTTAAAAACTCTAAACCTTAAACCTAAAAAACCCAAA
* *
9346825 CCTTAAACTTAAAAACTCTAAACCCTAAACCTAAAAAACCCTAA
1 CCTTAAACTTAAAAACTCTAAACCTTAAACCTAAAAAACCCAAA
*
9346869 CCATT-AACTTATAAA-TCTTAAACCTTAAACCCTAAA
1 CC-TTAAACTTAAAAACTC-TAAACCTTAAA-CCTAAA
9346905 CCTAAAAACC
Statistics
Matches: 101, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 5 0.05
42 15 0.15
43 12 0.12
44 61 0.60
45 8 0.08
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.22
Consensus pattern (44 bp):
CCTTAAACTTAAAAACTCTAAACCTTAAACCTAAAAAACCCAAA
Found at i:9346913 original size:22 final size:22
Alignment explanation
Indices: 9346888--9347350 Score: 153
Period size: 22 Copynumber: 21.6 Consensus size: 22
9346878 TATAAATCTT
9346888 AAACCTTAAACCCTAAACCTAA
1 AAACCTTAAACCCTAAACCTAA
*
9346910 AAACCTTAAACCCTAAA-TTAAA
1 AAACCTTAAACCCTAAACCT-AA
**
9346932 AAACCCCAAACCCTAAAACCT--
1 AAACCTTAAACCCT-AAACCTAA
* * * **
9346953 TAACTTTAAAACACTAGCCCT--
1 AAACCTT-AAACCCTAAACCTAA
** ** *
9346974 AATTC-T-AACCCTTCACTTAA
1 AAACCTTAAACCCTAAACCTAA
* * * *
9346994 AAA-TTTTAACCATAAACCTAG
1 AAACCTTAAACCCTAAACCTAA
* *
9347015 AAACCATAAACCCTAAACTTAA
1 AAACCTTAAACCCTAAACCTAA
** * **
9347037 AAACCCCAAACCCCAAACC-CC
1 AAACCTTAAACCCTAAACCTAA
* *
9347058 AAA-CTTAAAAAGCATAAACCTAA
1 AAACCTT--AAACCCTAAACCTAA
* * *
9347081 AAACCCTAAACTCTAAACTTAGA
1 AAACCTTAAACCCTAAACCTA-A
* *
9347104 AAATCC-TAAACCCTAAAACT-T
1 AAA-CCTTAAACCCTAAACCTAA
* * *
9347125 TAACTTTAAAACCCT-AACC-AT
1 AAACCTT-AAACCCTAAACCTAA
** * *
9347146 AATTC-T-AACCCTTAACTTAA
1 AAACCTTAAACCCTAAACCTAA
* * *
9347166 AAACCCT-AACCCTAAACTTTA
1 AAACCTTAAACCCTAAACCTAA
* *
9347187 AAACCATAAACCCTAAACTTAA
1 AAACCTTAAACCCTAAACCTAA
*
9347209 AAACAC--AAACCTTAAACCTAA
1 AAAC-CTTAAACCCTAAACCTAA
* * *
9347230 AAACAC-T-AACTCTTAA-CTTA
1 AAAC-CTTAAACCCTAAACCTAA
* **
9347250 AAACCCTAAATGCTAAACCTAA
1 AAACCTTAAACCCTAAACCTAA
* *
9347272 AAA-CTATAAACCCTAAACTTTA
1 AAACCT-TAAACCCTAAACCTAA
* * *
9347294 AAACCATAAACCTTAAACTTAA
1 AAACCTTAAACCCTAAACCTAA
* *
9347316 AAACATTAAACCCTAAACTTAA
1 AAACCTTAAACCCTAAACCTAA
9347338 AAACCTTAAACCC
1 AAACCTTAAACCC
9347351 AAAAACCTTA
Statistics
Matches: 320, Mismatches: 92, Indels: 58
0.68 0.20 0.12
Matches are distributed among these distances:
18 13 0.04
19 4 0.01
20 19 0.06
21 83 0.26
22 173 0.54
23 23 0.07
24 5 0.02
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (22 bp):
AAACCTTAAACCCTAAACCTAA
Found at i:9346919 original size:15 final size:15
Alignment explanation
Indices: 9346885--9346926 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9346875 ACTTATAAAT
*
9346885 CTTAAACCT-TAAAC
1 CTTAAACCTAAAAAC
*
9346899 CCTAAACCTAAAAAC
1 CTTAAACCTAAAAAC
9346914 CTTAAACCCTAAA
1 CTTAAA-CCTAAA
9346927 TTAAAAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 8 0.35
15 9 0.39
16 6 0.26
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
CTTAAACCTAAAAAC
Found at i:9347040 original size:15 final size:15
Alignment explanation
Indices: 9347022--9347097 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 15
9347012 TAGAAACCAT
9347022 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
* ***
9347037 AAACCCCAAAC-CCC
1 AAACCCTAAACTTAA
*
9347051 AAACCCCAAACTTAA
1 AAACCCTAAACTTAA
* * *
9347066 AAAGCATAAACCTAA
1 AAACCCTAAACTTAA
9347081 AAACCCTAAACTCTAA
1 AAACCCTAAACT-TAA
9347097 A
1 A
9347098 CTTAGAAAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
14 11 0.24
15 30 0.67
16 4 0.09
ACGTcount: A:0.53, C:0.33, G:0.01, T:0.13
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:9347047 original size:7 final size:7
Alignment explanation
Indices: 9347037--9347061 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9347027 CTAAACTTAA
9347037 AAACCCC
1 AAACCCC
9347044 AAACCCC
1 AAACCCC
9347051 AAACCCC
1 AAACCCC
9347058 AAAC
1 AAAC
9347062 TTAAAAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCC
Found at i:9347048 original size:29 final size:29
Alignment explanation
Indices: 9347015--9347097 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
9347005 ATAAACCTAG
* *
9347015 AAACCATAAACCCTAAACTTAAAAACCCC
1 AAACCAAAAACCCTAAACTTAAAAACCAC
** * * *
9347044 AAACCCCAAACCCCAAACTTAAAAAGCAT
1 AAACCAAAAACCCTAAACTTAAAAACCAC
9347073 AAACCTAAAAACCCTAAACTCTAAA
1 AAACC-AAAAACCCTAAACT-TAAA
9347098 CTTAGAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 28 0.65
30 11 0.26
31 4 0.09
ACGTcount: A:0.53, C:0.33, G:0.01, T:0.13
Consensus pattern (29 bp):
AAACCAAAAACCCTAAACTTAAAAACCAC
Found at i:9347130 original size:172 final size:171
Alignment explanation
Indices: 9346901--9347212 Score: 464
Period size: 172 Copynumber: 1.8 Consensus size: 171
9346891 CCTTAAACCC
*
9346901 TAAACCTAAAAACCTTAAACCCTAAATTAAAAAACCCCAAACCCTAAAACCTTAACTTTAAAACA
1 TAAACCTAAAAACCCTAAACCCTAAATTAAAAAACCCCAAACCCTAAAACCTTAACTTTAAAACA
* * * ***
9346966 CTAGCCCTAATTCTAACCCTTCACTTAAAAATTTTAACCATAAAC-CTAGAAACCATAAACCCTA
66 CTAACCATAATTCTAACCCTTAACTTAAAAACCCTAACCATAAACTCTA-AAACCATAAACCCTA
9347030 AACTTAAAAACCCCAAACCCCAAACCCCAAACTTAAAAAGCA
130 AACTTAAAAACCCCAAACCCCAAACCCCAAACTTAAAAAGCA
* * * * *
9347072 TAAACCTAAAAACCCTAAACTCTAAACTTAGAAAATCCTAAACCCTAAAACTTTAACTTTAAAAC
1 TAAACCTAAAAACCCTAAACCCTAAA-TTAAAAAACCCCAAACCCTAAAACCTTAACTTTAAAAC
* * *
9347137 CCTAACCATAATTCTAACCCTTAACTTAAAAACCCTAACCCTAAACTTTAAAACCATAAACCCTA
65 ACTAACCATAATTCTAACCCTTAACTTAAAAACCCTAACCATAAACTCTAAAACCATAAACCCTA
9347202 AACTTAAAAAC
130 AACTTAAAAAC
9347213 ACAAACCTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
171 24 0.19
172 98 0.79
173 2 0.02
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (171 bp):
TAAACCTAAAAACCCTAAACCCTAAATTAAAAAACCCCAAACCCTAAAACCTTAACTTTAAAACA
CTAACCATAATTCTAACCCTTAACTTAAAAACCCTAACCATAAACTCTAAAACCATAAACCCTAA
ACTTAAAAACCCCAAACCCCAAACCCCAAACTTAAAAAGCA
Found at i:9347176 original size:21 final size:21
Alignment explanation
Indices: 9347150--9347342 Score: 154
Period size: 22 Copynumber: 9.0 Consensus size: 21
9347140 AACCATAATT
*
9347150 CTAACCCTTAACTTAAAAACC
1 CTAACCCTAAACTTAAAAACC
*
9347171 CTAACCCTAAACTTTAAAACC
1 CTAACCCTAAACTTAAAAACC
* *
9347192 ATAAACCCTAAACTTAAAAACA
1 CT-AACCCTAAACTTAAAAACC
* * * *
9347214 CAAACCTTAAACCTAAAAACA
1 CTAACCCTAAACTTAAAAACC
* *
9347235 CTAACTCTTAACTT-AAAACC
1 CTAACCCTAAACTTAAAAACC
** * *
9347255 CTAAATGCTAAACCTAAAAACT
1 CT-AACCCTAAACTTAAAAACC
* *
9347277 ATAAACCCTAAACTTTAAAACC
1 CT-AACCCTAAACTTAAAAACC
* * *
9347299 ATAAACCTTAAACTTAAAAACA
1 CT-AACCCTAAACTTAAAAACC
*
9347321 TTAAACCCTAAACTTAAAAACC
1 CT-AACCCTAAACTTAAAAACC
9347343 TTAAACCCAA
Statistics
Matches: 137, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
20 7 0.05
21 54 0.39
22 76 0.55
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (21 bp):
CTAACCCTAAACTTAAAAACC
Found at i:9347297 original size:15 final size:15
Alignment explanation
Indices: 9347279--9347375 Score: 58
Period size: 15 Copynumber: 6.6 Consensus size: 15
9347269 TAAAAACTAT
9347279 AAACCCTAAACTTTA
1 AAACCCTAAACTTTA
* *
9347294 AAACCATAAACCTT-
1 AAACCCTAAACTTTA
* *
9347308 AAA-CTTAAAAACATT-
1 AAACCCT--AAACTTTA
*
9347323 AAACCCTAAACTTAA
1 AAACCCTAAACTTTA
* **
9347338 AAACCTTAAAC-CCA
1 AAACCCTAAACTTTA
* *
9347352 AAAACCTTAACTTTA
1 AAACCCTAAACTTTA
9347367 AAACCCTAA
1 AAACCCTAA
9347376 CCCTTAAGTT
Statistics
Matches: 60, Mismatches: 17, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
13 2 0.03
14 17 0.28
15 39 0.65
16 2 0.03
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (15 bp):
AAACCCTAAACTTTA
Found at i:9347494 original size:21 final size:21
Alignment explanation
Indices: 9347469--9347715 Score: 135
Period size: 21 Copynumber: 11.6 Consensus size: 21
9347459 TAACTCTAAT
*
9347469 CCTAACCTTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
9347490 CCTAACCCTTAAATTTAAAAT
1 CCTAACCCTTAACTTAAAAAC
*
9347511 ACTAACCCTTAACTTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * *
9347532 CCTAAACTTTAAACCTAAAAAC
1 CCTAACCCTT-AACTTAAAAAC
* *
9347554 CATAAACCCTAAACTTAAAAAC
1 CCT-AACCCTTAACTTAAAAAC
* *
9347576 AAC-AAACCTTAAACTTAAAAAC
1 -CCTAACCCTT-AACTTAAAAAC
* * * *
9347598 CATAAACACTAAACTTAAAACC
1 CCT-AACCCTTAACTTAAAAAC
* * *
9347620 ACCAAACAC-TAACCCT-AAAAC
1 -CCTAACCCTTAA-CTTAAAAAC
*
9347641 CCTAACCCTTAAATTAAAAAC
1 CCTAACCCTTAACTTAAAAAC
* * * *
9347662 AACAAACTCTAAACTT-AAAAC
1 -CCTAACCCTTAACTTAAAAAC
* *
9347683 CCTAAAACCTTAACTTTAAAAC
1 CCT-AACCCTTAACTTAAAAAC
*
9347705 ACTAA-CCTTAA
1 CCTAACCCTTAA
9347716 TCCTAACCCT
Statistics
Matches: 166, Mismatches: 47, Indels: 27
0.69 0.20 0.11
Matches are distributed among these distances:
20 14 0.08
21 76 0.46
22 67 0.40
23 9 0.05
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (21 bp):
CCTAACCCTTAACTTAAAAAC
Found at i:9347507 original size:22 final size:22
Alignment explanation
Indices: 9347469--9347715 Score: 144
Period size: 22 Copynumber: 11.5 Consensus size: 22
9347459 TAACTCTAAT
*
9347469 CCTAA-CCTTTAACTTAAAAAC
1 CCTAACCCTTAAACTTAAAAAC
*
9347490 CCTAACCCTTAAATTTAAAATA-
1 CCTAACCCTTAAACTTAAAA-AC
9347512 -CTAACCCTT-AACTTAAAAAC
1 CCTAACCCTTAAACTTAAAAAC
* * *
9347532 CCTAAACTTTAAACCTAAAAAC
1 CCTAACCCTTAAACTTAAAAAC
*
9347554 CATAAACCC-TAAACTTAAAAAC
1 CCT-AACCCTTAAACTTAAAAAC
* *
9347576 AAC-AAACCTTAAACTTAAAAAC
1 -CCTAACCCTTAAACTTAAAAAC
* * *
9347598 CATAAACAC-TAAACTTAAAACC
1 CCT-AACCCTTAAACTTAAAAAC
* * * *
9347620 ACCAAACAC-TAACCCT-AAAAC
1 -CCTAACCCTTAAACTTAAAAAC
9347641 CCTAACCCTTAAA-TTAAAAAC
1 CCTAACCCTTAAACTTAAAAAC
* * *
9347662 AACAAACTC-TAAACTT-AAAAC
1 -CCTAACCCTTAAACTTAAAAAC
* *
9347683 CCTAAAACCTT-AACTTTAAAAC
1 CCT-AACCCTTAAACTTAAAAAC
*
9347705 ACTAA-CCTTAA
1 CCTAACCCTTAA
9347716 TCCTAACCCT
Statistics
Matches: 172, Mismatches: 35, Indels: 38
0.70 0.14 0.16
Matches are distributed among these distances:
19 1 0.01
20 20 0.12
21 57 0.33
22 86 0.50
23 8 0.05
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (22 bp):
CCTAACCCTTAAACTTAAAAAC
Found at i:9347544 original size:42 final size:42
Alignment explanation
Indices: 9347469--9347892 Score: 254
Period size: 44 Copynumber: 10.0 Consensus size: 42
9347459 TAACTCTAAT
* * **
9347469 CCTAACCTTTAACTTAAAAACCCTAACCCTTAAATTTAAAATA
1 CCTAACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAA-A
*
9347512 -CTAACCCTTAACTTAAAAACCCTAAACTTTAAACCTAAAAA
1 CCTAACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
* * *
9347553 CCATAAACCCTAAACTTAAAAACAAC-AAACCTTAAACTTAAAAA
1 CC-T-AACCCTTAACTTAAAAAC-CCTAAACCTTAAACCTAAAAA
* * * * *
9347597 CCATAAACACTAAACTT-AAAACCACCAAACAC-TAACCCTAAAAC
1 CC-T-AACCCTTAACTTAAAAACC-CTAAAC-CTTAAACCTAAAAA
* * * *
9347641 CCTAACCCTTAAATTAAAAACAAC-AAA-CTCTAAACTTAAAAC
1 CCTAACCCTTAACTTAAAAAC-CCTAAACCT-TAAACCTAAAAA
* * *
9347683 CCTAAAACCTTAACTTTAAAACACT-AACCTT-AA--T-----
1 CCT-AACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
* * * *
9347717 CCTAACCCTTAACTT-GAAACACTAACCCTTAAA-TTAAAAA
1 CCTAACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
* * *
9347757 TGCTAACCCTTAACTTAAAAAACC-AAACCCTAAACCTAAAAA
1 -CCTAACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
* * *
9347799 TCTTAAACTTTAAACTTAAAAACCCTAAACCTTAAACCTAAAAA
1 -CCTAACCCTT-AACTTAAAAACCCTAAACCTTAAACCTAAAAA
9347843 TCCTAAACCCTAACTATTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
1 -CCT-AA-CC---C--TTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
9347893 ATTTAAACCA
Statistics
Matches: 305, Mismatches: 42, Indels: 61
0.75 0.10 0.15
Matches are distributed among these distances:
32 7 0.02
33 16 0.05
34 5 0.02
35 1 0.00
39 1 0.00
40 1 0.00
41 25 0.08
42 83 0.27
43 43 0.14
44 84 0.28
45 4 0.01
46 1 0.00
50 32 0.10
51 2 0.01
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.23
Consensus pattern (42 bp):
CCTAACCCTTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
Found at i:9347582 original size:29 final size:29
Alignment explanation
Indices: 9347528--9347589 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
9347518 CTTAACTTAA
* *
9347528 AAACCCTAAACTTTAAACCTAAAAACCAT
1 AAACCCTAAACTTAAAAACTAAAAACCAT
*
9347557 AAACCCTAAACTTAAAAAC-AACAAACCTT
1 AAACCCTAAACTTAAAAACTAA-AAACCAT
9347586 AAAC
1 AAAC
9347590 TTAAAAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (29 bp):
AAACCCTAAACTTAAAAACTAAAAACCAT
Found at i:9347586 original size:86 final size:84
Alignment explanation
Indices: 9347474--9347857 Score: 225
Period size: 86 Copynumber: 4.6 Consensus size: 84
9347464 CTAATCCTAA
* * * *
9347474 CCTTTAACTTAAAAAC-CCTAACCCTTAAATTTAAAATACT-AACCCTTAACTTAAAAACCCTAA
1 CCTTAAACTTAAAAACAAC-AAACCTTAAACTTAAAA-ACTAAACCCTTAACTT-AAAACCCTAA
**
9347537 ACTTTAAACCTAAAAACCATAAAC
63 ACACTAAACCT-AAAACCAT-AAC
* * *
9347561 CC-TAAACTTAAAAACAACAAACCTTAAACTTAAAAACCATAAACACTAAACTTAAAACCACCAA
1 CCTTAAACTTAAAAACAACAAACCTTAAACTTAAAAA-C-TAAACCCTTAACTTAAAACC-CTAA
* *
9347625 ACACTAACCCTAAAACCCTAAC
63 ACACTAAACCTAAAACCATAAC
* * *
9347647 CCTTAAA-TTAAAAACAACAAA-CTCTAAACTTAAAACCCTAAAACCTTAACTT--TA----AAA
1 CCTTAAACTTAAAAACAACAAACCT-TAAACTTAAAA-ACTAAACCCTTAACTTAAAACCCTAAA
* *
9347704 CACT-AACCTTAATCC-TAAC
64 CACTAAACCTAAAACCATAAC
* * *
9347723 CCTT-AACTT-GAAAC-ACTAACCCTTAAA-TTAAAAATGCT-AACCCTTAACTTAAAAAACC-A
1 CCTTAAACTTAAAAACAAC-AAACCTTAAACTTAAAAA--CTAAACCCTTAACTT-AAAACCCTA
* * * *
9347782 AACCCTAAACCTAAAAATCTTAAA
62 AACACTAAACCT-AAAACCATAAC
* * *
9347806 CTTTAAACTTAAAAAC-CCTAAACCTTAAACCTAAAAATCCTAAACCC-TAACT
1 CCTTAAACTTAAAAACAAC-AAACCTTAAACTTAAAAA--CTAAACCCTTAACT
9347858 ATTAACTTAA
Statistics
Matches: 236, Mismatches: 35, Indels: 53
0.73 0.11 0.16
Matches are distributed among these distances:
74 19 0.08
75 14 0.06
76 12 0.05
77 9 0.04
78 7 0.03
80 6 0.03
81 5 0.02
82 3 0.01
83 7 0.03
84 5 0.02
85 29 0.12
86 73 0.31
87 26 0.11
88 21 0.09
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (84 bp):
CCTTAAACTTAAAAACAACAAACCTTAAACTTAAAAACTAAACCCTTAACTTAAAACCCTAAACA
CTAAACCTAAAACCATAAC
Found at i:9347785 original size:21 final size:20
Alignment explanation
Indices: 9347470--9347798 Score: 84
Period size: 21 Copynumber: 15.9 Consensus size: 20
9347460 AACTCTAATC
* *
9347470 CTAACCTTTAACTTAAAAACC
1 CTAACCCTTAACTTAAAAA-A
* *
9347491 CTAACCCTTAAATTTAAAATA
1 CTAACCCTT-AACTTAAAAAA
*
9347512 CTAACCCTTAACTTAAAAACC
1 CTAACCCTTAACTTAAAAA-A
* * * *
9347533 CTAAACTTTAAACCTAAAAAC
1 CTAACCCTT-AACTTAAAAAA
*
9347554 CATAAACCCTAAACTTAAAAACAA
1 C-T-AACCCTTAACTT-AAAA-AA
* *
9347578 C-AAACCTTAAACTTAAAAAC
1 CTAACCCTT-AACTTAAAAAA
* * *
9347598 CATAAACACTAAACTTAAAACCAC
1 C-T-AACCCTTAACTTAAAA--AA
* * * **
9347622 CAAACAC-TAACCCTAAAACC
1 CTAACCCTTAA-CTTAAAAAA
*
9347642 CTAACCCTTAAATTAAAAACAA
1 CTAACCCTTAACTT-AAAA-AA
* * * **
9347664 CAAACTCTAAACTTAAAACC
1 CTAACCCTTAACTTAAAAAA
* *
9347684 CTAAAACCTTAACTTTAAAACA
1 CT-AACCCTTAAC-TTAAAAAA
*
9347706 CTAA-CCTTAA--T-----C
1 CTAACCCTTAACTTAAAAAA
* *
9347718 CTAACCCTTAACTTGAAACA
1 CTAACCCTTAACTTAAAAAA
* *
9347738 CTAACCCTTAAATTAAAAATG
1 CTAACCCTTAACTTAAAAA-A
9347759 CTAACCCTTAACTTAAAAAA
1 CTAACCCTTAACTTAAAAAA
* * *
9347779 CCAAACCCTAAACCTAAAAA
1 -CTAACCCTTAACTTAAAAA
9347799 TCTTAAACTT
Statistics
Matches: 226, Mismatches: 53, Indels: 58
0.67 0.16 0.17
Matches are distributed among these distances:
12 4 0.02
13 6 0.03
15 1 0.00
17 1 0.00
20 40 0.18
21 91 0.40
22 66 0.29
23 12 0.05
24 5 0.02
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (20 bp):
CTAACCCTTAACTTAAAAAA
Found at i:9347806 original size:22 final size:22
Alignment explanation
Indices: 9347751--9347855 Score: 106
Period size: 22 Copynumber: 4.9 Consensus size: 22
9347741 ACCCTTAAAT
* * *
9347751 TAAAAATGCT-AACCCTTAACT
1 TAAAAATCCTAAACCCTAAACC
*
9347772 TAAAAAACC-AAACCCTAAACC
1 TAAAAATCCTAAACCCTAAACC
* ** *
9347793 TAAAAATCTTAAACTTTAAACT
1 TAAAAATCCTAAACCCTAAACC
* *
9347815 TAAAAACCCTAAACCTTAAACC
1 TAAAAATCCTAAACCCTAAACC
9347837 TAAAAATCCTAAACCCTAA
1 TAAAAATCCTAAACCCTAA
9347856 CTATTAACTT
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
21 23 0.34
22 44 0.66
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (22 bp):
TAAAAATCCTAAACCCTAAACC
Found at i:9347865 original size:50 final size:44
Alignment explanation
Indices: 9347766--9347892 Score: 157
Period size: 50 Copynumber: 2.8 Consensus size: 44
9347756 ATGCTAACCC
* * *
9347766 TTAACTTAAAAAACC-AAACCCTAAACCTAAAAATCTTAAACTT
1 TTAACTTAAAAACCCTAAACCTTAAACCTAAAAATCCTAAACTT
*
9347809 TAAACTTAAAAACCCTAAACCTTAAACCTAAAAATCCTAAACCCTAACT
1 TTAACTTAAAAACCCTAAACCTTAAACCTAAAAATCCTAAA--CT---T
9347858 ATTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
1 -TTAACTTAAAAACCCTAAACCTTAAACCTAAAAA
9347893 ATTTAAACCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
43 13 0.18
44 23 0.32
46 2 0.03
49 1 0.01
50 33 0.46
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (44 bp):
TTAACTTAAAAACCCTAAACCTTAAACCTAAAAATCCTAAACTT
Found at i:9347915 original size:14 final size:14
Alignment explanation
Indices: 9347896--9347943 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9347886 CTAAAAAATT
9347896 TAAACCATAAACTC
1 TAAACCATAAACTC
*
9347910 TAAACCCTAAAC-C
1 TAAACCATAAACTC
*
9347923 TAAACCCCATAAACTT
1 TAAA--CCATAAACTC
9347939 TAAAC
1 TAAAC
9347944 TTAAAAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.18
14 12 0.43
15 7 0.25
16 4 0.14
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACTC
Found at i:9347922 original size:50 final size:49
Alignment explanation
Indices: 9347817--9347928 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 49
9347807 TTTAAACTTA
* * *
9347817 AAAACCCTAAACCTTAAACCTAAAAATCCTAAACCCTAACTATTAACTT
1 AAAACCCTAAACCTTAAACCTAAAAATCCTAAACCATAACTATAAACCT
* *
9347866 AAAAACCCTAAACCTTAAACCTAAAAAAT-TTAAACCATAAACTCTAAACCCT
1 -AAAACCCTAAACCTTAAACCT-AAAAATCCTAAACCAT-AACTATAAA-CCT
9347918 -AAA-CCTAAACC
1 AAAACCCTAAACC
9347929 CCATAAACTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
49 8 0.15
50 31 0.57
51 13 0.24
52 2 0.04
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (49 bp):
AAAACCCTAAACCTTAAACCTAAAAATCCTAAACCATAACTATAAACCT
Found at i:9347969 original size:24 final size:24
Alignment explanation
Indices: 9347924--9347971 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9347914 CCCTAAACCT
*
9347924 AAACCCCATAAACTTTAAACTTAA
1 AAACCCCATAAACTTAAAACTTAA
*
9347948 AAACCCCA-AACCTTAAAGACTTAA
1 AAACCCCATAAACTTAAA-ACTTAA
9347972 CTTTAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (24 bp):
AAACCCCATAAACTTAAAACTTAA
Found at i:9348041 original size:22 final size:22
Alignment explanation
Indices: 9347996--9348202 Score: 186
Period size: 22 Copynumber: 9.4 Consensus size: 22
9347986 CCCTAATTCT
* **
9347996 AACCCTTAACTTAAAAATAC-A
1 AACCCTAAACTTAAAAACCCTA
*
9348017 AACCCTAAACCTAAAAACCCTA
1 AACCCTAAACTTAAAAACCCTA
** *
9348039 AACTTTAAACTTAAAAAACCTA
1 AACCCTAAACTTAAAAACCCTA
* *
9348061 AACCCTAACCTTAAAAAACCT-
1 AACCCTAAACTTAAAAACCCTA
* *
9348082 AACCCTTAACTTAAAAAACCATA
1 AACCCTAAACTT-AAAAACCCTA
* **
9348105 AACCATAAACTTAAAAAACTATA
1 AACCCTAAACTT-AAAAACCCTA
* *
9348128 AACCTTAAATTTAAAAACCAC-A
1 AACCCTAAACTTAAAAACC-CTA
* *
9348150 AACCCTAAACCTAAAAACCTTA
1 AACCCTAAACTTAAAAACCCTA
* *
9348172 AACCTTAAACTTAAAACCCCTA
1 AACCCTAAACTTAAAAACCCTA
9348194 AACCCTAAA
1 AACCCTAAA
9348203 ATCTTAAATT
Statistics
Matches: 150, Mismatches: 31, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
21 26 0.17
22 94 0.63
23 30 0.20
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCTAAACTTAAAAACCCTA
Found at i:9348067 original size:44 final size:44
Alignment explanation
Indices: 9347994--9348202 Score: 214
Period size: 44 Copynumber: 4.8 Consensus size: 44
9347984 AACCCTAATT
*
9347994 CTAACCCTT-AACTTAAAAATA-C-AAACCCTAAACCTAAAAACC
1 CTAAACCTTAAACTTAAAAA-ACCTAAACCCTAAACCTAAAAACC
* *
9348036 CTAAACTTTAAACTTAAAAAACCTAAACCCT-AACCTTAAAAAAC
1 CTAAACCTTAAACTTAAAAAACCTAAACCCTAAACC-TAAAAACC
* * * *
9348080 CTAACCCTT-AACTTAAAAAACCATAAACCATAAACTTAAAAAACT
1 CTAAACCTTAAACTTAAAAAACC-TAAACCCTAAACCT-AAAAACC
* * *
9348125 ATAAACCTTAAA-TTTAAAAACCACAAACCCTAAACCTAAAAACC
1 CTAAACCTTAAACTTAAAAAACC-TAAACCCTAAACCTAAAAACC
* **
9348169 TTAAACCTTAAACTTAAAACCCCTAAACCCTAAA
1 CTAAACCTTAAACTTAAAAAACCTAAACCCTAAA
9348203 ATCTTAAATT
Statistics
Matches: 137, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
42 8 0.06
43 28 0.20
44 56 0.41
45 43 0.31
46 2 0.01
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (44 bp):
CTAAACCTTAAACTTAAAAAACCTAAACCCTAAACCTAAAAACC
Found at i:9348128 original size:16 final size:17
Alignment explanation
Indices: 9348104--9348136 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9348094 AAAAAACCAT
9348104 AAACCATAAA-CTTAAA
1 AAACCATAAACCTTAAA
*
9348120 AAACTATAAACCTTAAA
1 AAACCATAAACCTTAAA
9348137 TTTAAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
AAACCATAAACCTTAAA
Found at i:9348196 original size:29 final size:28
Alignment explanation
Indices: 9348164--9348230 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
9348154 CTAAACCTAA
9348164 AAACCTTAAACCTTAAACTTAAAACCCCT
1 AAACCTTAAACCTTAAACTTAAAA-CCCT
* * *
9348193 AAACCCTAAAATCTTAAATTTAAAACCCT
1 AAA-CCTTAAACCTTAAACTTAAAACCCT
*
9348222 AACCCTTAA
1 AAACCTTAA
9348231 GTTAAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.16
29 9 0.28
30 18 0.56
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.25
Consensus pattern (28 bp):
AAACCTTAAACCTTAAACTTAAAACCCT
Found at i:9352072 original size:125 final size:125
Alignment explanation
Indices: 9351384--9352072 Score: 853
Period size: 125 Copynumber: 5.5 Consensus size: 125
9351374 CAAACATGCT
* *
9351384 ACTGTAGCAAAAGCGCGTTCACGTGGGCGCGATTTCACAAATTCTTTTCATAAAGCATCCTAG--
1 ACTGTAGCAAAAGCGCG-TCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GCT
* *
9351447 TAGAAGCGA--TTTTATACTATTTGCTCAGAAACGTTAACTCAAAATTATTTCTTCCAGGACCA
64 TA-AAGC-ATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
9351509 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGT-CACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * * * * *
9351573 TGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAAGACCT
64 TAAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
9351634 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG-GT
1 ACTGTAGCAAAAGCGCGT-CACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
*
9351698 AGAAGCGA--TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
65 A-AAGC-ATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * *
9351759 AC-GTAGCAAAAGTGCGTCTAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTC-ACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
*
9351823 AAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
65 AAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * *
9351884 AC-GTAGCAAAAGTGCGTCTAGGAGGGCGCGATTTCACAAATTCTTCGCATATAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTC-ACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* *
9351948 AAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGTAATTATTT-TTCCAGGACCT
65 AAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * * * * * * *
9352008 ACTATAGCAAAAGCGCGTACTCGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATCCTGCTT
1 ACTGTAGCAAAAGCGCGT-CACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
9352073 TGATTTTATC
Statistics
Matches: 501, Mismatches: 47, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
123 2 0.00
124 111 0.22
125 346 0.69
126 42 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTA
AAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:9355904 original size:28 final size:25
Alignment explanation
Indices: 9355862--9355913 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 25
9355852 TAAATTTTTA
9355862 TGAACTTTTTATAATTATTATAAATTT
1 TGAACTTTTTATAATT-TT-TAAATTT
9355889 TGAACTTTTTTATAATTTTTAAATT
1 TGAAC-TTTTTATAATTTTTAAATT
9355914 ATTTATTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
28 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
TGAACTTTTTATAATTTTTAAATTT
Found at i:9359621 original size:19 final size:19
Alignment explanation
Indices: 9359587--9359641 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
9359577 TTTTTAAAAT
*
9359587 ATAAAT-TTTAGAATTTTA
1 ATAAATATTTTGAATTTTA
9359605 ATAAATATTTTGAATTTTA
1 ATAAATATTTTGAATTTTA
9359624 A-AAATTATTTTGAATTTT
1 ATAAA-TATTTTGAATTTT
9359642 TTCCGTACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 9 0.26
19 25 0.74
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTA
Found at i:9361243 original size:46 final size:46
Alignment explanation
Indices: 9361176--9361285 Score: 193
Period size: 46 Copynumber: 2.4 Consensus size: 46
9361166 TTGTCCCTGA
* *
9361176 TCACTTGATCAGATAAGTGTAGCTAAGGCTACCGCTTATCACTTTC
1 TCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTC
*
9361222 TCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTG
1 TCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTC
9361268 TCACTTGATCAGATAAGT
1 TCACTTGATCAGATAAGT
9361286 AAATACACTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (46 bp):
TCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTC
Found at i:9361506 original size:275 final size:275
Alignment explanation
Indices: 9361010--9361509 Score: 903
Period size: 275 Copynumber: 1.8 Consensus size: 275
9361000 CGTCCTGATA
9361010 TAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGTCCATTTGTCACTTACCATCCTT
1 TAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGTCCATTTGTCACTTACCATCCTT
9361075 AATCAAATTAGGGAACGGTTACGGAAAATTGAGTACTTCACTTTCACTTTGCCATAGTATAACTA
66 AATCAAATTAGGGAACGGTTACGGAAAATTGAGTACTTCACTTTCACTTTGCCATAGTATAACTA
* *
9361140 TGGTCTTACGTATGATCACTTATCACTTGTCCCTGATCACTTGATCAGATAAGTGTAGCTAAGGC
131 TGGTCTTACGTATGATCACTTATCACTTATCCCTGATCACTTGATCAGATAAGTGTAGCTAAAGC
* *
9361205 TACCGCTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTC
196 TACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTC
9361270 ACTTGATCAGATAAG
261 ACTTGATCAGATAAG
9361285 TAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGTCCATTTGTCACTTACCATCCTT
1 TAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGTCCATTTGTCACTTACCATCCTT
9361350 AATCAAATTAGGGAACGGTTACGGAAAATTGAGTACTTCACTTTCACTTTGCCATAGTATAACTA
66 AATCAAATTAGGGAACGGTTACGGAAAATTGAGTACTTCACTTTCACTTTGCCATAGTATAACTA
* **
9361415 TGGTCTTACGTATGATCACTTAT-ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
131 TGGTCTTACGTATGATCACTTATCACTTATC-CCTGATCACTTGATCAGATAAGTGTAGCTAAAG
* *
9361479 TTACCACTTATCACTTTATCTCTTGATCAGA
195 CTACCACTTATCACTTTATCACTTGATCAGA
9361510 AGTACTCAAA
Statistics
Matches: 215, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
274 6 0.03
275 209 0.97
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (275 bp):
TAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGTCCATTTGTCACTTACCATCCTT
AATCAAATTAGGGAACGGTTACGGAAAATTGAGTACTTCACTTTCACTTTGCCATAGTATAACTA
TGGTCTTACGTATGATCACTTATCACTTATCCCTGATCACTTGATCAGATAAGTGTAGCTAAAGC
TACCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTC
ACTTGATCAGATAAG
Found at i:9365316 original size:15 final size:15
Alignment explanation
Indices: 9365277--9365318 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9365267 TATTTAAAAT
*
9365277 ATTTTAATATAATTTA
1 ATTTTAAAAT-ATTTA
*
9365293 A-TATAAAATATTTA
1 ATTTTAAAATATTTA
9365307 ATTTTAAAATAT
1 ATTTTAAAATAT
9365319 AATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 15 0.68
16 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTAAAATATTTA
Found at i:9365329 original size:15 final size:15
Alignment explanation
Indices: 9365282--9365341 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
9365272 AAAATATTTT
9365282 AATATAATTTAATATA
1 AATATAATTTAATA-A
9365298 AA-AT-ATTTAATTTTAA
1 AATATAATTTAA---TAA
9365314 AATATAATTTAATAA
1 AATATAATTTAATAA
* *
9365329 AAAATAACTTAAT
1 AATATAATTTAAT
9365342 CATATTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 6 0.16
15 16 0.43
16 5 0.14
17 4 0.11
18 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAATTTAATAA
Found at i:9365427 original size:23 final size:24
Alignment explanation
Indices: 9365392--9365437 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
9365382 AAATATTATT
9365392 AAATTATATATTATT-ATTTTTTA
1 AAATTATATATTATTAATTTTTTA
9365415 AAATTAT-TGATTATTAATTTTTT
1 AAATTATAT-ATTATTAATTTTTT
9365438 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.62
24 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATTATATATTATTAATTTTTTA
Found at i:9365791 original size:16 final size:16
Alignment explanation
Indices: 9365770--9365821 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9365760 TTTGGTTCGT
9365770 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
9365786 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
*
9365802 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
9365818 TGTA
1 TGTA
9365822 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9366077 original size:16 final size:16
Alignment explanation
Indices: 9366037--9366091 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
9366027 TTAATCATAT
*
9366037 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
9366053 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
9366068 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
9366086 -TAAAAT
1 TTAAAAT
9366092 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:9366084 original size:18 final size:17
Alignment explanation
Indices: 9366057--9366091 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9366047 TTTTTATTAA
*
9366057 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9366075 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9366092 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9366151 original size:61 final size:61
Alignment explanation
Indices: 9366086--9366272 Score: 195
Period size: 61 Copynumber: 3.1 Consensus size: 61
9366076 TATAATTTAA
9366086 TAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTG
1 TAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTG
* * ** * * ** * * * * *
9366147 TAAAA-T-AT-A-AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAAT-TTAA
1 TAAAATTCTTAATAATTAATATTCTTA-TATT-AATTTACTGAAATCATAATATATGATACT-G
9366206 TAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTG
1 TAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTG
9366267 TAAAAT
1 TAAAAT
9366273 ATAAATTAAC
Statistics
Matches: 92, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
57 11 0.12
58 6 0.07
59 25 0.27
60 2 0.02
61 31 0.34
62 6 0.07
63 11 0.12
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
TAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTG
Found at i:9366204 original size:18 final size:17
Alignment explanation
Indices: 9366177--9366211 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9366167 TTACTATTAA
*
9366177 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9366195 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9366212 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9366253 original size:120 final size:120
Alignment explanation
Indices: 9366040--9366309 Score: 513
Period size: 120 Copynumber: 2.2 Consensus size: 120
9366030 ATCATATTTA
**
9366040 AACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9366105 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
9366160 AACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
9366225 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
9366280 AACATAATTACTATTAAATATATTATAATT
1 AACATAATTACTATTAAATATATTTTAATT
9366310 TCTTCATTTA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 147 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:9367744 original size:19 final size:19
Alignment explanation
Indices: 9367720--9367756 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9367710 ATAAAATATT
9367720 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
9367739 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
9367757 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:9382721 original size:46 final size:46
Alignment explanation
Indices: 9382654--9382992 Score: 361
Period size: 46 Copynumber: 7.7 Consensus size: 46
9382644 ATTATACAGG
9382654 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
9382700 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * *
9382746 TCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAT-TTCAGA
* * * * * **
9382790 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * *
9382829 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGAATTTCAGA
9382870 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
9382916 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* *
9382962 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
9382993 TTGAAGCCAG
Statistics
Matches: 249, Mismatches: 27, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.09
40 1 0.00
41 27 0.11
42 1 0.00
43 1 0.00
44 29 0.12
45 9 0.04
46 156 0.63
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
Found at i:9386471 original size:48 final size:48
Alignment explanation
Indices: 9386410--9386507 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
9386400 TTTTAACACC
* * *
9386410 GTTAGAAAGAGAATGACTAAACCGAGCAATGAAATGATAATTTAAGTA
1 GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
*
9386458 GTTAGAAAAAGAATGACTAAACCAAGTAACGAAATGATAATTTAAGTA
1 GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
9386506 GT
1 GT
9386508 AATTTGGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.23
Consensus pattern (48 bp):
GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
Found at i:9391736 original size:44 final size:45
Alignment explanation
Indices: 9391686--9391779 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
9391676 ATGAAAAGGT
** *
9391686 AAAAAGAA-TTATTTACAATAAAATTCATT-GACCAAACTTAGTAA
1 AAAAAGAACTTATGAACAATAAAATTCATTAG-CCAAACATAGTAA
* *
9391730 AAAAAGAACTTGTGAATAATAAAATTCATTAGCCAAACATAGTAA
1 AAAAAGAACTTATGAACAATAAAATTCATTAGCCAAACATAGTAA
*
9391775 GAAAA
1 AAAAA
9391780 CATGTTTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 8 0.19
45 33 0.79
46 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.10, T:0.26
Consensus pattern (45 bp):
AAAAAGAACTTATGAACAATAAAATTCATTAGCCAAACATAGTAA
Found at i:9392169 original size:17 final size:17
Alignment explanation
Indices: 9392147--9392180 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9392137 AATAATAGTG
* *
9392147 TTTAGGGTTGTATTAAA
1 TTTAGGGATATATTAAA
9392164 TTTAGGGATATATTAAA
1 TTTAGGGATATATTAAA
9392181 ATAAAAGTTT
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:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TTTAGGGATATATTAAA
Found at i:9393999 original size:14 final size:14
Alignment explanation
Indices: 9393980--9394009 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9393970 GTCATTTAGG
9393980 CCAACCAAACTGGC
1 CCAACCAAACTGGC
9393994 CCAACCAAACTGGC
1 CCAACCAAACTGGC
9394008 CC
1 CC
9394010 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Done.