Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 162 of 199
Found at i:53070503 original size:24 final size:23
Alignment explanation
Indices: 53070471--53070526 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
53070461 TCTTTGTTTC
53070471 TTTTTTTTTTCTTCTTTGC-ATTGG
1 TTTTTTTTTT-TT-TTTGCAATTGG
*
53070495 TTTTTTTTTTTTTTTGCAATTTG
1 TTTTTTTTTTTTTTTGCAATTGG
*
53070518 ATTTTTTTT
1 TTTTTTTTT
53070527 AAAAGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTGCAATTGG
Found at i:53071055 original size:29 final size:27
Alignment explanation
Indices: 53071002--53071064 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
53070992 ACTTAAGATA
*
53071002 ATTAAAAAAATAAAAATCATAAAAATT
1 ATTAAAAAAATAAAAATAATAAAAATT
53071029 ATTAGAAAAATATAGAAAATAAT-AAAATT
1 ATTA-AAAAA-ATA-AAAATAATAAAAATT
53071058 A-TAAAAA
1 ATTAAAAA
53071065 TATATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 10 0.31
30 7 0.22
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
ATTAAAAAAATAAAAATAATAAAAATT
Found at i:53071221 original size:18 final size:18
Alignment explanation
Indices: 53071200--53071254 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
53071190 AAAATGTTTA
53071200 AAATTTATAAAAAATATT
1 AAATTTATAAAAAATATT
* *
53071218 AAATATATAGAAAATATT
1 AAATTTATAAAAAATATT
*
53071236 AAAATTATTATAAAAATAT
1 AAATTTA-TA-AAAAATAT
53071255 AGAAAACTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 21 0.70
19 2 0.07
20 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTTATAAAAAATATT
Found at i:53071281 original size:11 final size:11
Alignment explanation
Indices: 53071265--53071289 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53071255 AGAAAACTGC
53071265 AATAATTTATA
1 AATAATTTATA
53071276 AATAATTTATA
1 AATAATTTATA
53071287 AAT
1 AAT
53071290 CATATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTTATA
Found at i:53071442 original size:20 final size:19
Alignment explanation
Indices: 53071416--53071472 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
53071406 AAAAATATAT
53071416 TATATAAATTATAAAAAAG
1 TATATAAATTATAAAAAAG
* * *
53071435 TATAATAAATGACTCAAAAAT
1 TAT-ATAAATTA-TAAAAAAG
*
53071456 TATATACATTATAAAAA
1 TATATAAATTATAAAAA
53071473 TTACAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.27
20 13 0.43
21 9 0.30
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (19 bp):
TATATAAATTATAAAAAAG
Found at i:53071498 original size:16 final size:19
Alignment explanation
Indices: 53071465--53071505 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
53071455 TTATATACAT
53071465 TATAAAAATTACAAAAATA
1 TATAAAAATTACAAAAATA
53071484 T-TAAAAA-TA-AAAAATA
1 TATAAAAATTACAAAAATA
53071500 TATAAA
1 TATAAA
53071506 TTATGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.38
17 6 0.29
18 6 0.29
19 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TATAAAAATTACAAAAATA
Found at i:53071913 original size:11 final size:10
Alignment explanation
Indices: 53071861--53071913 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
53071851 TTTATTTTGA
53071861 TTTATAAT-T
1 TTTATAATAT
* *
53071870 TTTATACTTT
1 TTTATAATAT
53071880 TTTATAATAT
1 TTTATAATAT
*
53071890 TTTGTAA-AT
1 TTTATAATAT
53071899 TTTATTAATAT
1 TTTA-TAATAT
53071910 TTTA
1 TTTA
53071914 ATATTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 12 0.33
10 18 0.50
11 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:53076484 original size:44 final size:44
Alignment explanation
Indices: 53076426--53077296 Score: 358
Period size: 44 Copynumber: 19.8 Consensus size: 44
53076416 TGTAACCTCG
* * * *
53076426 GGGAGCTAAAATCTGCCATCTTCGATCTACTGCACTAATGCCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** * ** * *
53076470 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
* *** * *
53076514 GGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACT-GTAGCCTCA
1 GGGAGATAAG-ATCTGCCATCTTCAATCTACTCCACTAAT-GCCT-A
* * *
53076558 GGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** * ** *
53076602 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
*
53076646 GGGAGAT-AGAATTACTG--A-CTTCAATGTACTCCACTGTAA--CCTCA
1 GGGAGATAAG-A-T-CTGCCATCTTCAATCTACTCCAC--TAATGCCT-A
* * * *
53076690 GGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** * ** *
53076734 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
* *** *
53076778 GGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACTGTAA--CCTCA
1 GGGAGATAAG-ATCTGCCATCTTCAATCTACTCCAC--TAATGCCT-A
* * * * * *
53076822 GGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAACGCTTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
* ** * * *
53076866 AGGAGATAAGATCTGAAATCTTCACTCTATTCTACTGCCAA--CC-A
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACT---AATGCCTA
* *** *
53076910 GGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACTGTAA--CCTCA
1 GGGAGATAAG-ATCTGCCATCTTCAATCTACTCCAC--TAATGCCT-A
* * * * *
53076954 TGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** *
53076998 GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CC-A
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACT---AATGCCTA
* * * * *
53077042 AGGAGAT-AGAAT-TACTAGCTTCAATGTACTCCACTGTAA--CCTCA
1 GGGAGATAAG-ATCTGCCATCTTCAATCTACTCCAC--TAATGCCT-A
* * * *
53077086 GGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATACCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** *
53077130 GGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCCAA--CC-A
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACT---AATGCCTA
* * *
53077174 GGGAGAT-AGAAT-T---ATGGCTTCAATGTACTCCATTGTAA--CCACA
1 GGGAGATAAG-ATCTGCCAT--CTTCAATCTACTCCA--CTAATGCC-TA
* * * *
53077217 GGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTA
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
** *
53077261 GGGAGATAAGATCTGGAATCTTCAATCTATTCCACT
1 GGGAGATAAGATCTGCCATCTTCAATCTACTCCACT
53077297 GCCAACCAGG
Statistics
Matches: 604, Mismatches: 156, Indels: 134
0.68 0.17 0.15
Matches are distributed among these distances:
40 2 0.00
41 4 0.01
42 25 0.04
43 118 0.20
44 322 0.53
45 121 0.20
46 4 0.01
47 8 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
GGGAGATAAGATCTGCCATCTTCAATCTACTCCACTAATGCCTA
Found at i:53076542 original size:132 final size:132
Alignment explanation
Indices: 53076355--53077318 Score: 1572
Period size: 132 Copynumber: 7.3 Consensus size: 132
53076345 ACCGTCATGA
* * * *
53076355 CTTCAATCTATTCCACTACACTACCAGAGA-AGTAAGAATTACTGGCTTCAATGTACTCTACTGT
1 CTTCAATCTATTCCACTGC-CAACCAGGGAGA-T-AGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
53076419 AACCTCGGGGAGCTAAAATCTGCCATCTTCGATCTACTGCACTAATGCCTAGGGAGATAAGATCT
63 AACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCT
*
53076484 GTAAT
128 GAAAT
* * *
53076489 CTTCAATCTATTCCACTGCTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAGC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
53076554 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53076619 AT
131 AT
*** *
53076621 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
*
53076686 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGTA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53076751 AT
131 AT
***
53076753 CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
53076818 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAACGCTTAAGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53076883 AT
131 AT
* *
53076885 CTTCACTCTATTCTACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
*
53076950 CTCATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53077015 AT
131 AT
* *
53077017 CTTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
53077082 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAATACCTAGGGAGATAAGATCTGAA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53077147 AT
131 AT
*
53077149 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-TGGCTTCAATGTACTCCATTGTAAC
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
53077213 CACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGGA
66 CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
53077278 AT
131 AT
53077280 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA
1 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA
53077319 GTATCTTCGA
Statistics
Matches: 787, Mismatches: 42, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
131 125 0.16
132 636 0.81
133 7 0.01
134 19 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
CTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAA
AT
Found at i:53079145 original size:9 final size:8
Alignment explanation
Indices: 53079125--53079186 Score: 65
Period size: 8 Copynumber: 7.9 Consensus size: 8
53079115 AGCGGGGTTC
53079125 TTTTTCTT
1 TTTTTCTT
*
53079133 TTTCT-TT
1 TTTTTCTT
53079140 TTTTTCTT
1 TTTTTCTT
**
53079148 TTTCCCCTT
1 TTT-TTCTT
53079157 TTTTTCTT
1 TTTTTCTT
53079165 TTTTTCTT
1 TTTTTCTT
53079173 TTTTT-TT
1 TTTTTCTT
*
53079180 GTTTTCT
1 TTTTTCT
53079187 CTCTCTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
7 12 0.27
8 26 0.59
9 6 0.14
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:53079184 original size:17 final size:17
Alignment explanation
Indices: 53079125--53079200 Score: 66
Period size: 16 Copynumber: 4.4 Consensus size: 17
53079115 AGCGGGGTTC
*
53079125 TTTTTCTTT-TTCTTTT
1 TTTTTTTTTCTTCTTTT
**
53079141 TTTTCTTTTTCCCCTTTT
1 TTTT-TTTTTCTTCTTTT
*
53079159 TTTCTTTTT-TTCTTTT
1 TTTTTTTTTCTTCTTTT
53079175 TTTTTGTTTTCTCTCTCTTT
1 TTTTT-TTTTCT-TCT-TTT
53079195 TTTTTT
1 TTTTTT
53079201 GGATTGAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.28
17 13 0.28
18 9 0.19
19 4 0.09
20 8 0.17
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTCTTCTTTT
Found at i:53092460 original size:18 final size:18
Alignment explanation
Indices: 53092438--53092479 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
53092428 TTTAGGTTCG
53092438 TTTTTATTGCATT-TTATA
1 TTTTTATTG-ATTATTATA
53092456 GTTTTTATTGATTAATTATA
1 -TTTTTATTGATT-ATTATA
53092476 TTTT
1 TTTT
53092480 ATTTCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.14
19 13 0.62
20 5 0.24
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTATTGATTATTATA
Found at i:53098568 original size:22 final size:22
Alignment explanation
Indices: 53098538--53098617 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 22
53098528 CAAAATGCTA
* *
53098538 ACAGAGGCACTGTAGTGCAAAT
1 ACAGAGGCACCGAAGTGCAAAT
* *
53098560 ACAGTGGCACCGAAGTGCAAAG
1 ACAGAGGCACCGAAGTGCAAAT
* * *
53098582 A-A-AGGCACTGAACTGTAAA-
1 ACAGAGGCACCGAAGTGCAAAT
*
53098601 A-AGAGGCACCAAAGTGC
1 ACAGAGGCACCGAAGTGC
53098618 GATCCCATAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
19 2 0.04
20 23 0.51
21 1 0.02
22 19 0.42
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (22 bp):
ACAGAGGCACCGAAGTGCAAAT
Found at i:53103810 original size:28 final size:28
Alignment explanation
Indices: 53103779--53103833 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
53103769 AGTATCAATA
53103779 TGGGACTTAACCCTATACAGTAACAGTG
1 TGGGACTTAACCCTATACAGTAACAGTG
* * *
53103807 TGGGCCTTAGCCCTATACAGTATCAGT
1 TGGGACTTAACCCTATACAGTAACAGT
53103834 ACACTGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (28 bp):
TGGGACTTAACCCTATACAGTAACAGTG
Found at i:53104239 original size:27 final size:27
Alignment explanation
Indices: 53104223--53104593 Score: 337
Period size: 27 Copynumber: 13.7 Consensus size: 27
53104213 TACCCATTGG
* *
53104223 GGGTATCTCGATCATTTTACCCTT-TA
1 GGGTATTTCGATCATTTTACCCTTCAA
* *
53104249 GGGTTATTTCGGTCATTTTACCCTT-TA
1 GGG-TATTTCGATCATTTTACCCTTCAA
53104276 GGTGTATTTCGATCATTTTA-CCTATCAA
1 GG-GTATTTCGATCATTTTACCCT-TCAA
* *
53104304 GGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCAA
*
53104331 AGGTATTTC-AGTCATTTTACCCTTC-A
1 GGGTATTTCGA-TCATTTTACCCTTCAA
*
53104357 GGGCTATTT-TAGTCATTTTACCCTT-AA
1 GGG-TATTTCGA-TCATTTTACCCTTCAA
*
53104384 GGGGTATTTC-AGTCATTTTACCCTTCGA
1 -GGGTATTTCGA-TCATTTTACCCTTCAA
* * *
53104412 GGGTATTTTGATCATTTTACCCTTTAG
1 GGGTATTTCGATCATTTTACCCTTCAA
** **
53104439 GGGTATTTCGGCCATTTTACCCTTCGT
1 GGGTATTTCGATCATTTTACCCTTCAA
* * *
53104466 GGGTATTTTGGTCAGTTTACCCTTCGAA
1 GGGTATTTCGATCATTTTACCCTTC-AA
* * *
53104494 -GGTATTTCGATCATTTAACCATTCGA
1 GGGTATTTCGATCATTTTACCCTTCAA
* * *
53104520 GGGTATTTCGGTCATTTTACCTTTTAA
1 GGGTATTTCGATCATTTTACCCTTCAA
* **
53104547 GGGTATTTCGATCATTTTACCTTTTGA
1 GGGTATTTCGATCATTTTACCCTTCAA
*
53104574 GGGTATTTCGGTCATTTTAC
1 GGGTATTTCGATCATTTTAC
53104594 AGCCCATTTT
Statistics
Matches: 290, Mismatches: 40, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.03
27 268 0.92
28 12 0.04
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCAA
Found at i:53104267 original size:54 final size:53
Alignment explanation
Indices: 53104204--53104593 Score: 380
Period size: 54 Copynumber: 7.2 Consensus size: 53
53104194 AGGGGTATAA
* * *
53104204 CGGTGATTTTACCCATTGGGGGTATCTCGATCATTTTACCCTT-TAGGGTTATTT
1 CGGTCATTTTACCC-TTAGGGGTATTTCGATCATTTTACCCTTCTAGGG-TATTT
* *
53104258 CGGTCATTTTACCCTTTAGGTGTATTTCGATCATTTTA-CCTATCAAGGGTATTT
1 CGGTCATTTTACCC-TTAGGGGTATTTCGATCATTTTACCCT-TCTAGGGTATTT
* **
53104312 TGGTCATTTTACCCTTCAAAGGTATTTC-AGTCATTTTACCCTTC-AGGGCTATTT
1 CGGTCATTTTACCCTT-AGGGGTATTTCGA-TCATTTTACCCTTCTAGGG-TATTT
** *
53104366 TAGTCATTTTACCCTTAAGGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTT-AGGGGTATTTCGA-TCATTTTACCCTTCTAGGGTATTT
* * **
53104420 TGATCATTTTACCCTTTAGGGGTATTTCGGCCATTTTACCCTTCGT-GGGTATTT
1 CGGTCATTTTACCC-TTAGGGGTATTTCGATCATTTTACCCTTC-TAGGGTATTT
* * * * * * *
53104474 TGGTCAGTTTACCCTTCGAAGGTATTTCGATCATTTAACCATTCGAGGGTATTT
1 CGGTCATTTTACCCTTAG-GGGTATTTCGATCATTTTACCCTTCTAGGGTATTT
* * *
53104528 CGGTCATTTTACCTTTTAAGGGTATTTCGATCATTTTA-CCTTTTGAGGGTATTT
1 CGGTCATTTTACC-CTTAGGGGTATTTCGATCATTTTACCCTTCT-AGGGTATTT
53104582 CGGTCATTTTAC
1 CGGTCATTTTAC
53104594 AGCCCATTTT
Statistics
Matches: 284, Mismatches: 38, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
53 16 0.06
54 253 0.89
55 15 0.05
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (53 bp):
CGGTCATTTTACCCTTAGGGGTATTTCGATCATTTTACCCTTCTAGGGTATTT
Found at i:53104322 original size:81 final size:80
Alignment explanation
Indices: 53104223--53104593 Score: 381
Period size: 81 Copynumber: 4.6 Consensus size: 80
53104213 TACCCATTGG
* * *
53104223 GGGTATCTCGATCATTTTACCCTT-TAGGGTTATTTCGGTCATTTTACCCTTTAGGTGTATTTCG
1 GGGTATTTCGGTCATTTTACCCTTCGAGGG-TATTTCGGTCATTTTACCCTTTAGG-GTATTTCG
53104287 ATCATTTTA-CCTATCAA
64 ATCATTTTACCCT-TCAA
* * * * * *
53104304 GGGTATTTTGGTCATTTTACCCTTCAAAGGTATTTCAGTCATTTTACCCTTCAGGGCTATTT-TA
1 GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTAGGG-TATTTCGA
53104368 GTCATTTTACCCTT-AA
65 -TCATTTTACCCTTCAA
* * *
53104384 GGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCG
1 -GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTA-GGGTATTTCG
** **
53104449 GCCATTTTACCCTTCGT
64 ATCATTTTACCCTTCAA
* * * * * * * *
53104466 GGGTATTTTGGTCAGTTTACCCTTCGAAGGTATTTCGATCATTTAACCATTCGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTT-TAGGGTATTTCGA
* *
53104531 TCATTTTACCTTTTAA
65 TCATTTTACCCTTCAA
* * *
53104547 GGGTATTTCGATCATTTTACCTTTTGAGGGTATTTCGGTCATTTTAC
1 GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
53104594 AGCCCATTTT
Statistics
Matches: 239, Mismatches: 42, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
80 4 0.02
81 225 0.94
82 10 0.04
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (80 bp):
GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTAGGGTATTTCGAT
CATTTTACCCTTCAA
Found at i:53107301 original size:28 final size:28
Alignment explanation
Indices: 53107231--53107347 Score: 141
Period size: 28 Copynumber: 4.2 Consensus size: 28
53107221 CCTATTCAGT
*
53107231 TACAGT-ACAGTGTAGGCCTTAG-CC-A
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
*
53107256 GTACAGTAACAGTATGGGCCTTAGCCCTA
1 -TACAGTAACAGTGTGGGCCTTAGCCCTA
* * *
53107285 TACAGTAATAGTGTGGGACTTAGCCCAA
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
* *
53107313 TACAATAACAGTGTGGGCCTTAGCCTTA
1 TACAGTAACAGTGTGGGCCTTAGCCCTA
53107341 TACAGTA
1 TACAGTA
53107348 TGAGTATAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.08
27 14 0.18
28 55 0.72
29 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
TACAGTAACAGTGTGGGCCTTAGCCCTA
Found at i:53108318 original size:27 final size:27
Alignment explanation
Indices: 53107764--53108323 Score: 498
Period size: 27 Copynumber: 20.7 Consensus size: 27
53107754 CTTCAAGGGT
53107764 GGGTATTTCGATCATTTTACCCTTC-A
1 GGGTATTTCGATCATTTTACCCTTCGA
53107790 GGGGTATTTCGATCATTTTACCCTTC-A
1 -GGGTATTTCGATCATTTTACCCTTCGA
*
53107817 GAGGTATTTCAATCATTTTACCCTTCGA
1 G-GGTATTTCGATCATTTTACCCTTCGA
*
53107845 GGGTATTTCGATCATTTTACCTTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * * * *
53107872 GGATATTTCGGTCATTTCACCTTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGA
** *
53107899 GCATATTT-TAGTCATTTTACCCTTCGA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
*
53107926 GGGTATTTCAATCATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * **
53107953 GGGTATTTCGATTATTTTACCTTTTAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
53107980 GGGTATTTC-AGTTATTTTACCCTTCAA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
* **
53108007 GGGTATTTCGGTCA-TTTACCCTTTAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
53108033 TGGTATTTCGATCATTTTACCCTGCGA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * **
53108060 AGGTATTTTGATCATTTTA-CCTTTTA
1 GGGTATTTCGATCATTTTACCCTTCGA
* *
53108086 GGGGTATTTTGGA-CATTTTACCCTTCGG
1 -GGGTA-TTTCGATCATTTTACCCTTCGA
* *
53108114 GGGTATTTCGATCAATTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * * *
53108141 GGATTATTT-TAGTTATTTTACCCTTCGG
1 GG-GTATTTCGA-TCATTTTACCCTTCGA
* *
53108169 GGGTATTTCGATCAATTTACCCTTCAA
1 GGGTATTTCGATCATTTTACCCTTCGA
* * *
53108196 GGATTATTT-TAGTTATTTTACCCTTCG-
1 GG-GTATTTCGA-TCATTTTACCCTTCGA
* * *
53108223 GGGCTATTTTGGTTATTTTACCCTTTC-A
1 GGG-TATTTCGATCATTTTACCC-TTCGA
*
53108251 GGGTATTTC-AGTCA-TTTACCCTTCAA
1 GGGTATTTCGA-TCATTTTACCCTTCGA
* *
53108277 GGGTATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCGATCATTTTACCCTTCGA
*
53108304 GGGTATTTTGATCATTTTAC
1 GGGTATTTCGATCATTTTAC
53108324 GGCCCATTTC
Statistics
Matches: 436, Mismatches: 73, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.01
26 54 0.12
27 324 0.74
28 55 0.13
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCTTCGA
Found at i:53114423 original size:297 final size:298
Alignment explanation
Indices: 53113884--53114484 Score: 1168
Period size: 297 Copynumber: 2.0 Consensus size: 298
53113874 ATTTCCTTTA
53113884 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
1 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
53113949 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
66 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
53114014 TAATAAGCTCATTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
131 TAATAAGCTCATTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
*
53114079 ACTTTGTGAAGATGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
196 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
53114144 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
261 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
53114182 CCAT-TAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
1 CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
53114246 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
66 AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
* *
53114311 TAATGAGCTCCTTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
131 TAATAAGCTCATTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
53114376 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
196 ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
53114441 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
261 TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
53114479 CCATCT
1 CCATCT
53114485 TTTTTGCTAG
Statistics
Matches: 299, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
297 294 0.98
298 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (298 bp):
CCATCTAACTATTGCGATTTTAGAGGTGGATAATGTTCAGGCATATTCAAATGATAAATCCTCCA
AATGTATGACTTCGAGTATGTATATGAAGGCGGAGCAACACTTGTGACTTCTTTGATGGTTTCTT
TAATAAGCTCATTGAGGTGATCTAAAGAAACACTTTAAAGTCCTTCAACAATTTTGATTCCAACA
ACTTTGTGAAGAGGATGTTGAGTTTCGTTGGAAAAGGTTTGGTTACTTCCACTAAGATGTTCAAT
TTGATCATCCATTCCTTTTATGCTTGTAGTAAGACTCT
Found at i:53120269 original size:19 final size:20
Alignment explanation
Indices: 53120231--53120270 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
53120221 TCCTTATACG
* *
53120231 TTAAAGGTTATTAATTCAAT
1 TTAAAAGTTATTAATCCAAT
53120251 TTAAAAGTT-TTAATCCAAT
1 TTAAAAGTTATTAATCCAAT
53120270 T
1 T
53120271 ATTATCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
TTAAAAGTTATTAATCCAAT
Found at i:53120883 original size:44 final size:44
Alignment explanation
Indices: 53120829--53121434 Score: 444
Period size: 44 Copynumber: 13.7 Consensus size: 44
53120819 TCATTCTAAC
* * * *
53120829 CCACTACAACTTCAGAGG-TATAAGATCTGTTGCTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTGCTTTAATCTACT
* * * *
53120873 CCACTGCAACTTC-GAGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTGCTTTAATCTACT
* * * * ** *
53120917 CCACTGTAACTTTAGGGCGATAAGACTCATAT-CTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TGCTTTAATCTACT
* ** *
53120961 CCACTGCAACTTTAGGGAGATAAGATTTGTAACTTTAATCAACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGCTTTAATCTACT
* * * *
53121005 CCACTGCAACTTCAGAGAAATAAGATTTGTGGTTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGCTTTAATCTACT
* * * * * * *
53121049 CTACTGTAACTTTAGGGAGATAAGATTTATGGTTTTAATTTGA-T
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGCTTTAATCT-ACT
* * * * *
53121093 CTACTACAACTTCAGAGG-GATAAGATTTGTTATCTTCAATCTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTT-GCTTTAATCTACT
* * *
53121138 CCACTGCAGCTTCAGGGAGATAAGATTTGTAACCTGATTTAATCCGAC-
1 CCACTGCAACTTCAGGGAGATAAGATTTGT----TGCTTTAAT-CTACT
* * *
53121186 CCACTGTAACTTCAGAGG-TATAGGATTTG-T-CTTTAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTTGCTTTAATCTACT
* * * * *
53121228 CCACTGCAACTTTAGGGAAATAAGATTTGTTATCTTTAACCGACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTT-GCTTTAATCTACT
* * *
53121273 CCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTTGCTTTAATCTACT
* * * * * *
53121317 CTACTGCAACTTTAGAGAGATAAGATTT-TCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-T-GCTTTAATCTACT
* * * *
53121362 GCACTACAACTTCAGGGAGATAA-ATTT-TGTGCCTTTATTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-TG-CTTTAATCTACT
53121406 CCACTGCAACTTCAGGGAGATAAGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
53121435 CCACGATAAC
Statistics
Matches: 442, Mismatches: 95, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
41 5 0.01
42 28 0.06
43 7 0.02
44 265 0.60
45 105 0.24
48 27 0.06
49 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTTGCTTTAATCTACT
Found at i:53121922 original size:16 final size:16
Alignment explanation
Indices: 53121901--53121935 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
53121891 GCAAAAATCC
53121901 TTTTACTTGAATATTA
1 TTTTACTTGAATATTA
53121917 TTTTACTTGAATATTA
1 TTTTACTTGAATATTA
53121933 TTT
1 TTT
53121936 GTCCATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTTACTTGAATATTA
Found at i:53122559 original size:13 final size:13
Alignment explanation
Indices: 53122541--53122582 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
53122531 AAATATATTT
53122541 TATATGTAAAAAA
1 TATATGTAAAAAA
53122554 TATATGTAAAAAA
1 TATATGTAAAAAA
*
53122567 -ATAAGT-AAAAA
1 TATATGTAAAAAA
53122578 TATAT
1 TATAT
53122583 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
TATATGTAAAAAA
Found at i:53124002 original size:9 final size:9
Alignment explanation
Indices: 53123988--53124018 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
53123978 GTTAAACGAA
53123988 TCGAGTTAT
1 TCGAGTTAT
*
53123997 TCGAGTTAA
1 TCGAGTTAT
53124006 TCGAGTTAT
1 TCGAGTTAT
53124015 TCGA
1 TCGA
53124019 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:53124087 original size:9 final size:9
Alignment explanation
Indices: 53124070--53124106 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
53124060 TGAGTTTTCA
53124070 AATTCGAAT
1 AATTCGAAT
*
53124079 AACTCGAAT
1 AATTCGAAT
*
53124088 AATTCAAAT
1 AATTCGAAT
53124097 AATTCGAAT
1 AATTCGAAT
53124106 A
1 A
53124107 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:53129552 original size:624 final size:624
Alignment explanation
Indices: 53128344--53129809 Score: 2641
Period size: 624 Copynumber: 2.4 Consensus size: 624
53128334 AAAACATTGG
* * * * * *
53128344 TTTTTCGAC--TGTCTGCAGGTCAAATTCCTAAGGAAATTGGTAATCTTCTTAGTCTGGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
53128407 TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
*
53128472 CTGAAAACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
*
53128537 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACGTTCCATCAAGTA
196 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACATTCCATCAAGTA
53128602 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
261 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
53128667 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
326 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
53128732 TAAATTTTATTGGTTTCTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
391 TAAATTTTATTGGTTTCTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
*
53128797 ACAAAAGTAAGAGCATTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
456 ACAAAAGTAAGAGCAGTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
*
53128862 CAAATATGCTTAAAATATTAAAATCTAACATTTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
521 CAAATATGCTTAAAATATTAAAATCTAACATCTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
*
53128927 TTGACTTATGCTAACAAAATAGGTAGTTTGACACCTTGA
586 TTGACTTATGATAACAAAATAGGTAGTTTGACACCTTGA
53128966 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
* * * *
53129031 TTAATATTCAAGAAATTAAAGGCCTTATAGGTCGGATTCCAACTTTGATCTTCAACATTTCTTCT
66 TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
53129096 CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
*
53129161 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATTTGGTAACATTCCATCAAGTA
196 TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACATTCCATCAAGTA
**
53129226 TGGGCAAATGTTGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
261 TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
53129291 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
326 AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
* * *
53129356 TAAATTTTCTTGGTTTTTGAGTTTAAAGTATTTTTTTTATAAAAGAGTTTGATTAGTAATAGATA
391 TAAATTTTATTGGTTTCTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
*
53129421 A-TAAAGTAAGAGCAGTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
456 ACAAAAGTAAGAGCAGTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
53129485 CAAATATGCTTAAAAATATTAAAATCTAACATCTGCAAATTATGTAAAACAAAAAAGAAAACCTC
521 CAAATATGCTT-AAAATATTAAAATCTAACATCTGCAAATTATGTAAAACAAAAAAGAAAACCTC
53129550 TTTGACTTATGATAACAAAATAGGTAGTTTGACACCTTGA
585 TTTGACTTATGATAACAAAATAGGTAGTTTGACACCTTGA
*
53129590 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTAGAAATGC
1 TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
* *
53129655 TTAATATTAAAGCAATTAAAGGCCTTACAGGTCCGATTCCAACTTCGATCTTCAACATTTCTTCT
66 TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
* * *
53129720 CTGAAGGCCATTGATCTCTCCAGCAATAGCCTATTAGGTAGTTTGCCTAATGATATGTGTCAACA
131 CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
*
53129785 TCTTCCCAAGCTTGAAGTGCTTTAC
196 TCTTCCCAAGCTTGAAGGGCTTTAC
53129810 TTAGAAGATA
Statistics
Matches: 809, Mismatches: 32, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
622 9 0.01
623 72 0.09
624 728 0.90
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (624 bp):
TTTTTCGACTATGTGTGCAGGCCAAATTCCTGAGGAAATCGGTAATCTTCTTGGTTTGGAAATGC
TTAATATTCAAGCAATTAAAGGCCTTACAGGTCAGATTCCAACTTCGATCTTCAACATTTCTTCT
CTGAAGACCATTGATCTCTCCAACAATAGCCTATCAGGTAGTTTGCCTAATGATATGTGTCAACA
TCTTCCCAAGCTTGAAGGGCTTTACCTGGGTTTGAATGAATTATCTGGTAACATTCCATCAAGTA
TGGGCAAATGCAGCAACCTTAAAATTTTGTGGTTGTCCTCTAATCAATTGATGGGGATCATTCCA
AAAAGTATTGGAAATCTGACACGACTCAAAGAATTATATTTGGGGCTGAATAACCTAGAAGGTAT
TAAATTTTATTGGTTTCTGAGTTTAAAGTATTTTTTTAATAAAAGAGTTTGATTAGTAATAGATA
ACAAAAGTAAGAGCAGTTTATTTCATTCAAGGCAAAATAGTTCAAAATAGTTAATTTGATGAAAA
CAAATATGCTTAAAATATTAAAATCTAACATCTGCAAATTATGTAAAACAAAAAAGAAAACCTCT
TTGACTTATGATAACAAAATAGGTAGTTTGACACCTTGA
Found at i:53131217 original size:10 final size:10
Alignment explanation
Indices: 53131152--53131222 Score: 67
Period size: 10 Copynumber: 7.3 Consensus size: 10
53131142 AATAAATAAT
53131152 AAAA-TATTA
1 AAAATTATTA
*
53131161 AAAATTGTTA
1 AAAATTATTA
* *
53131171 GAAATTTTTA
1 AAAATTATTA
*
53131181 AATATT-TTAA
1 AAAATTATT-A
53131191 AAAATTATTA
1 AAAATTATTA
53131201 AAAATTATTA
1 AAAATTATTA
*
53131211 GAAATTA-TA
1 AAAATTATTA
53131220 AAA
1 AAA
53131223 GACGATAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
9 10 0.20
10 39 0.76
11 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:53131232 original size:40 final size:39
Alignment explanation
Indices: 53131147--53131233 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 39
53131137 TTTTTAATAA
* * * * **
53131147 ATAATAAAATATTAAAAATTGTTAGAAATTTTTAAATATT
1 ATAA-AAAATATTAAAAATTATTAGAAATTATAAAAGACG
*
53131187 TTAAAAAATTATTAAAAATTATTAGAAATTATAAAAGACG
1 ATAAAAAA-TATTAAAAATTATTAGAAATTATAAAAGACG
53131227 ATAAAAA
1 ATAAAAA
53131234 TTAAAAAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (39 bp):
ATAAAAAATATTAAAAATTATTAGAAATTATAAAAGACG
Found at i:53134947 original size:54 final size:54
Alignment explanation
Indices: 53134865--53134972 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
53134855 ACTCCCCTAG
53134865 GTACGGCCCTATTAACAAAGCCCTCAACAAATGATATTGTTCTCATGTTAGGGT
1 GTACGGCCCTATTAACAAAGCCCTCAACAAATGATATTGTTCTCATGTTAGGGT
*
53134919 GTACGGCCCTATTAACAAAGCCCTCAACAAATGGTATTGTTCTCATGTTAGGGT
1 GTACGGCCCTATTAACAAAGCCCTCAACAAATGATATTGTTCTCATGTTAGGGT
53134973 TTTGTCTCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (54 bp):
GTACGGCCCTATTAACAAAGCCCTCAACAAATGATATTGTTCTCATGTTAGGGT
Found at i:53138031 original size:16 final size:16
Alignment explanation
Indices: 53138001--53138038 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
53137991 TAAAAAAAAT
*
53138001 AAAAAAATATTTTTTA
1 AAAAAAATATATTTTA
53138017 ACAAAAAATA-ATTTTA
1 A-AAAAAATATATTTTA
53138033 AAAAAA
1 AAAAAA
53138039 CATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAAAATATATTTTA
Found at i:53139428 original size:32 final size:32
Alignment explanation
Indices: 53139379--53139454 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
53139369 TAACAAGTTC
* *
53139379 AATTAATCAAT-ATAAGTTATCAAATTAAATT
1 AATTAATTAATAATAAGTTATCAAATTAAAGT
*
53139410 AATTAATTAATAATAAGTTATTAAATTAAAGT
1 AATTAATTAATAATAAGTTATCAAATTAAAGT
* *
53139442 AATGAATTTATAA
1 AATTAATTAATAA
53139455 GTTTATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 10 0.26
32 29 0.74
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (32 bp):
AATTAATTAATAATAAGTTATCAAATTAAAGT
Found at i:53141326 original size:50 final size:50
Alignment explanation
Indices: 53141234--53141336 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
53141224 ATTTGGGTAA
* *
53141234 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCAAGATG
1 AGAGATCCCACGTAAGACCATGTCTGGGACATGGAGTGGGCACCAAGATG
* * *
53141284 AGAGATCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGGCACCGATATG
1 AGAGATCCCACGTAAGACCATGTCTGGGACATGG-AGTGGGCACCAAGATG
53141334 AGA
1 AGA
53141337 ACTCTCATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 46 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.18
Consensus pattern (50 bp):
AGAGATCCCACGTAAGACCATGTCTGGGACATGGAGTGGGCACCAAGATG
Found at i:53143995 original size:20 final size:20
Alignment explanation
Indices: 53143958--53143996 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53143948 ATATATGTAG
* **
53143958 ATATGTATATAAGTTATAAA
1 ATATATATATAAAATATAAA
53143978 ATATATATATAAAATATAA
1 ATATATATATAAAATATAA
53143997 GCATGCATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATATATATAAAATATAAA
Found at i:53145249 original size:17 final size:17
Alignment explanation
Indices: 53145227--53145259 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53145217 TATTGGGTAG
*
53145227 GTTTTGTTTTGTTTTGT
1 GTTTTGTCTTGTTTTGT
53145244 GTTTTGTCTTGTTTTG
1 GTTTTGTCTTGTTTTG
53145260 ATTTTGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.73
Consensus pattern (17 bp):
GTTTTGTCTTGTTTTGT
Found at i:53145795 original size:44 final size:45
Alignment explanation
Indices: 53145747--53145930 Score: 193
Period size: 44 Copynumber: 4.2 Consensus size: 45
53145737 GACCTACAGT
* * *
53145747 AACTTCAGAGG-TATAGGATTCA-TCGTTTTAATCCGCTCCACTGC
1 AACTTCAGAGGAGATAGGATT-AGTAGCTTTAATCCGCTCCACTGC
*
53145791 AACTTCA-AGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGC
1 AACTTCAGAGGAGATAGGATTAGTAGCTTTAATCCGCTCCACTGC
* * * *
53145835 AACTTCAG-GGAGATAAGATTGGTATCTTTAA-CCAGCTCCACTGT
1 AACTTCAGAGGAGATAGGATTAGTAGCTTTAATCC-GCTCCACTGC
* * *
53145879 AACTTCAG-GGAGATAGGATTAGTATCTTCAA-CCTGCCCCACTGC
1 AACTTCAGAGGAGATAGGATTAGTAGCTTTAATCC-GCTCCACTGC
53145923 AACTTCAG
1 AACTTCAG
53145931 GGGGATAAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
43 5 0.04
44 116 0.96
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AACTTCAGAGGAGATAGGATTAGTAGCTTTAATCCGCTCCACTGC
Found at i:53145931 original size:44 final size:43
Alignment explanation
Indices: 53145773--53146118 Score: 313
Period size: 44 Copynumber: 7.9 Consensus size: 43
53145763 GATTCATCGT
* * *
53145773 TTTAATCC-GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGC
1 TTTAA-CCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATC
*
53145817 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATC
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATC
* * *
53145861 TTTAACCAGCTCCACTGTAACTTCAGGGAGATAGGATTAGTATC
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATC
* * *
53145905 TTCAACCTGCCCCACTGCAACTTCAGGGGGATAA-AGTTGCTATC
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TATC
* ** * *
53145949 TTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTTGTATC
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATC
* * * * * *
53145993 TTTAACCTACCCCACTGCAACTTTAGGGGGCTAAAGTTTGTTAT-
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTG-TATC
* * * *
53146037 TTTAACCTGCTCTACTACAACTTCAGAGAGATAAGGTT-TATGGC
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAT--C
** *
53146081 TTTAATTTGCTCCACTGCAAGTTCAGGGAGATAAGATT
1 TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
53146119 TGTAGCCCAT
Statistics
Matches: 245, Mismatches: 48, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.01
43 8 0.03
44 224 0.91
45 10 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
TTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATC
Found at i:53146122 original size:132 final size:130
Alignment explanation
Indices: 53145772--53146122 Score: 354
Period size: 132 Copynumber: 2.7 Consensus size: 130
53145762 GGATTCATCG
*
53145772 TTTTAATCC-GCTCCACTGCAACTTCA-AGGAGAT-AGGATTAGTAGCTTTAATCTGCTCCACTG
1 TTTTAA-CCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTA-T-GCTTTAATCTGCTCCACTG
* * * *
53145834 CAACTTCAGGGAGATAAGATTGGTATCTTTAACCAGCTCCACTGTAACTTCAGGGAGATAGGATT
62 CAACTTCAGGGAGATAAGATTTGTATCTTTAACCAGCCCCACTGCAACTTCAGGGAGATAAGATT
53145899 AGTA
127 AGTA
* * * * * * * *
53145903 TCTTCAACCTGCCCCACTGCAACTTCAGGGGGATAAAGTTGCTAT-CTTCAGTCTGCTCCACTAC
1 T-TTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTT--TATGCTTTAATCTGCTCCACTGC
* * * * *
53145967 AACTTTAGGGAGATAAGACTTGTATCTTTAACCTA-CCCCACTGCAACTTTAGGGGGCTAA-AGT
63 AACTTCAGGGAGATAAGATTTGTATCTTTAACC-AGCCCCACTGCAACTTCAGGGAGATAAGA-T
*
53146030 TTGTTA
126 TAG-TA
* * *
53146036 TTTTAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTTATGGCTTTAATTTGCTCCACTGCAA
1 TTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTAT-GCTTTAATCTGCTCCACTGCAA
*
53146101 GTTCAGGGAGATAAGATTTGTA
65 CTTCAGGGAGATAAGATTTGTA
53146123 GCCCATCTTT
Statistics
Matches: 176, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
130 3 0.02
131 4 0.02
132 159 0.90
133 7 0.04
134 1 0.01
135 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (130 bp):
TTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTATGCTTTAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGTATCTTTAACCAGCCCCACTGCAACTTCAGGGAGATAAGATTAGTA
Found at i:53146264 original size:45 final size:45
Alignment explanation
Indices: 53146127--53146527 Score: 352
Period size: 45 Copynumber: 9.0 Consensus size: 45
53146117 TTTGTAGCCC
* * * *
53146127 ATCTTTGATTTACTTCGCTGCCAATACAGGAAGACAAGACCTGTT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
** * * * * *** *
53146172 ATCTTAAACCTACTCCACCGCTGCT-CAGGGAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* *
53146216 ATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATC-GATT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG-CT
* * * *
53146261 ATCTTGGACCTACTTCGCTGCCAATACAAGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* *
53146306 ATCTTCGACCTACTCTACTACTG-C--T-CAAGG-AGACAAGATCTGCT
1 ATCTTCGATCTACT-T-C-GCTGCCAATAC-AGGAAGACAAGATCTGCT
* * * *
53146350 ATATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * *
53146395 ATCTTC-AGTCTACTTCGTTGTCAATACAAGAAGACAAGA-CTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
* * * *
53146440 ATCTTTGATCTGCTTCACTGCCAATCCAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * *
53146485 ATCTTCTATCTACTTCGTTGCGAATACAGGAAGACAAGATCTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
53146528 TTGCTTTCAG
Statistics
Matches: 280, Mismatches: 60, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
41 4 0.01
42 2 0.01
43 1 0.00
44 63 0.22
45 202 0.72
46 3 0.01
47 2 0.01
48 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (45 bp):
ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
Found at i:53146374 original size:134 final size:132
Alignment explanation
Indices: 53146137--53146529 Score: 445
Period size: 134 Copynumber: 2.9 Consensus size: 132
53146127 ATCTTTGATT
* * * * * *
53146137 TACTTCGCTGCCAATACAGGAAGACAAGACCTGTTATCTTAAACCTACTCCACCGCTGCTCAGGG
1 TACTTCGCTGCCAATACAAGAAGACAAGA-CTGCTATCTTAGACCTACTCTA-CACTGCTCAAGG
* *
53146202 AGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATC-GATTATCTT
64 AGACAAGATCTGCTATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG-TTATCTT
*
53146266 -GGACC
128 CAG-CC
* *
53146271 TACTTCGCTGCCAATACAAGAAGACAAGATCTACTATCTTCGACCTACTCTACTACTGCTCAAGG
1 TACTTCGCTGCCAATACAAGAAGACAAGA-CTGCTATCTTAGACCTACTCTAC-ACTGCTCAAGG
* *
53146336 AGACAAGATCTGCTATATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTC
64 AGACAAGATCTGCTATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTC
*
53146401 AGTC
129 AGCC
* * * * * *
53146405 TACTTCGTTGTCAATACAAGAAGACAAGACTTGCTATCTTTGATCTGCT-T-CACTGCCAATCCA
1 TACTTCGCTGCCAATACAAGAAGACAAGAC-TGCTATCTTAGACCTACTCTACACTG-C--TCAA
* *
53146468 GGAAGACAAGATCTGCTATCTTCT-ATCTACTTCGTTGCGAATACAGGAAGACAAGATCTGTT
62 GG-AGACAAGATCTGCTATCTT-TGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTT
53146530 GCTTTCAGCA
Statistics
Matches: 224, Mismatches: 26, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
131 4 0.02
132 2 0.01
133 3 0.01
134 159 0.71
135 55 0.25
136 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
TACTTCGCTGCCAATACAAGAAGACAAGACTGCTATCTTAGACCTACTCTACACTGCTCAAGGAG
ACAAGATCTGCTATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCAG
CC
Found at i:53146758 original size:44 final size:44
Alignment explanation
Indices: 53146651--53146916 Score: 230
Period size: 44 Copynumber: 6.0 Consensus size: 44
53146641 GTGTATTCGA
* * * *
53146651 TCTGCTTCGCTGTCAGTACGGGAAGGTAAGATCTACTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTCAG
* ** * * *
53146696 TCTTCTTTACTATCAGTACAGGAAGGCAAGGCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTCAG
* * * *** *
53146739 ATCTACTTCACTGTCAGTACTGGAACATAAGACTTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGC-TGCTATCTTCAG
*
53146785 TCTGCTTCGCTGTCAGTACAGGAA-GCAAGACCTGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTCAG
* * * * * *
53146829 TTTACTTCGCTGTCAGTATAGGAAGGCAAGGCTGGTGTCTTCAA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTCAG
* * *
53146873 TCTGCTTCGCTATCAATACAGGAAGGCAAGATCTGCTATCTTCA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGCTATCTTCA
53146917 CTGATCTGTT
Statistics
Matches: 174, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
43 1 0.01
44 103 0.59
45 69 0.40
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGCTATCTTCAG
Found at i:53146801 original size:89 final size:90
Alignment explanation
Indices: 53146639--53146903 Score: 272
Period size: 89 Copynumber: 3.0 Consensus size: 90
53146629 CTGCAAACTA
* * * * *
53146639 TGGTGTATTCGATCTGCTTCGCTGTCAGTACGGGAAGGTAAGA-TCTACTATCTTCAGTCTTCTT
1 TGGTGTCTTCGATCTACTTCGCTGTCAGTACTGGAAGGTAAGACT-TGCTATCTTCAGTCTGCTT
** *
53146703 TACTATCAGTACAGGAAGGCAAG-GC
65 CGCTATCAGTACAGGAAGGCAAGACC
* **
53146728 TGGTGTCTTCGATCTACTTCACTGTCAGTACTGGAACATAAGACTTGCTATCTTCAGTCTGCTTC
1 TGGTGTCTTCGATCTACTTCGCTGTCAGTACTGGAAGGTAAGACTTGCTATCTTCAGTCTGCTTC
*
53146793 GCTGTCAGTACAGGAA-GCAAGACC
66 GCTATCAGTACAGGAAGGCAAGACC
* * * * * * * *
53146817 TGCTATCTTC-AGTTTACTTCGCTGTCAGTA-TAGGAAGGCAAGGC-TGGTGTCTTCAATCTGCT
1 TGGTGTCTTCGA-TCTACTTCGCTGTCAGTACT-GGAAGGTAAGACTTGCTATCTTCAGTCTGCT
*
53146879 TCGCTATCAATACAGGAAGGCAAGA
64 TCGCTATCAGTACAGGAAGGCAAGA
53146904 TCTGCTATCT
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
88 38 0.26
89 107 0.73
90 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (90 bp):
TGGTGTCTTCGATCTACTTCGCTGTCAGTACTGGAAGGTAAGACTTGCTATCTTCAGTCTGCTTC
GCTATCAGTACAGGAAGGCAAGACC
Found at i:53146910 original size:133 final size:134
Alignment explanation
Indices: 53146651--53146916 Score: 340
Period size: 133 Copynumber: 2.0 Consensus size: 134
53146641 GTGTATTCGA
* * * *
53146651 TCTGCTTCGCTGTCAGTACGGGAAGGTAAGATCTACTATCTTCAGTCTTCTTTACTATCAGTACA
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGACCTACTATCTTCAGTCTTCTTCACTATCAGTACA
* * * * *
53146716 GGAAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGTCAGTACTGGAACATAAGACTTGCTATCT
66 GGAAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATCAATACAGGAACACAAGACTTGCTATCT
53146781 TCAG
131 TCAG
* * * *
53146785 TCTGCTTCGCTGTCAGTACAGGAA-GCAAGACCTGCTATCTTCAGT-TTACTTCGCTGTCAGTAT
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGACCTACTATCTTCAGTCTT-CTTCACTATCAGTAC
* * **
53146848 AGGAAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTATCAATACAGGAAGGCAAGA-TCTGCTAT
65 AGGAAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATCAATACAGGAACACAAGACT-TGCTAT
53146912 CTTCA
129 CTTCA
53146917 CTGATCTGTT
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
132 3 0.03
133 87 0.77
134 23 0.20
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (134 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGACCTACTATCTTCAGTCTTCTTCACTATCAGTACA
GGAAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATCAATACAGGAACACAAGACTTGCTATCT
TCAG
Found at i:53152806 original size:74 final size:72
Alignment explanation
Indices: 53152667--53152809 Score: 196
Period size: 74 Copynumber: 2.0 Consensus size: 72
53152657 TTGGGTTTAG
* * *
53152667 AAAAGGGATCATGCCCAATAAGTTAGGACACGATCTTTTTTCAAATCCCGAGATCGTTTAAAACT
1 AAAAAGGATCATGCCCAATAAGTTAGCAAACGATCTTTTTTCAAATCCCGAGATCGTTTAAAACT
53152732 TGAGAGA
66 TGAGAGA
* * * * *
53152739 AAAAAGGATCATGCCCAGTAAGTTAGCAAATGATCTCTTTTTTTAATTCCTGAGATCGTTTAAAA
1 AAAAAGGATCATGCCCAATAAGTTAGCAAACGA--TCTTTTTTCAAATCCCGAGATCGTTTAAAA
53152804 CTTGAG
64 CTTGAG
53152810 TTTGAAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 28 0.46
74 33 0.54
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (72 bp):
AAAAAGGATCATGCCCAATAAGTTAGCAAACGATCTTTTTTCAAATCCCGAGATCGTTTAAAACT
TGAGAGA
Found at i:53154118 original size:20 final size:20
Alignment explanation
Indices: 53154081--53154118 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53154071 AAAAACTCAA
*
53154081 AAATAAAGTAAAATAAAAGT
1 AAATAAAGTAAAAGAAAAGT
53154101 AAAT-AAGTATAAAGAAAA
1 AAATAAAGTA-AAAGAAAA
53154119 AAAAACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
AAATAAAGTAAAAGAAAAGT
Found at i:53154549 original size:17 final size:17
Alignment explanation
Indices: 53154527--53154560 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53154517 GTATTGGGTA
*
53154527 GGTTTTGTTTTGTTTTG
1 GGTTTTGTCTTGTTTTG
53154544 GGTTTTGTCTTGTTTTG
1 GGTTTTGTCTTGTTTTG
53154561 ATTTCGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.68
Consensus pattern (17 bp):
GGTTTTGTCTTGTTTTG
Found at i:53161388 original size:3 final size:3
Alignment explanation
Indices: 53161370--53161420 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
53161360 GTTATTTTTG
* * * *
53161370 TAT TAT GAT AAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
53161416 TAT TA
1 TAT TA
53161421 GTTTTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:53161796 original size:15 final size:12
Alignment explanation
Indices: 53161762--53161814 Score: 61
Period size: 12 Copynumber: 4.1 Consensus size: 12
53161752 TTATATTCTT
53161762 TATATTTTATAA
1 TATATTTTATAA
53161774 TATATTTTATACA
1 TATATTTTATA-A
53161787 TAGGTATTTTATATA
1 TA--TATTTTATA-A
*
53161802 TATATATTATAA
1 TATATTTTATAA
53161814 T
1 T
53161815 TCACATATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 13 0.36
13 11 0.31
15 12 0.33
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATTTTATAA
Found at i:53169011 original size:57 final size:57
Alignment explanation
Indices: 53168923--53169037 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
53168913 TTTTAGTTTC
53168923 TAACAAAATCAATTGATTAATTACCTTAATCCATTGTAAGTGATTTTAAAATTGATT
1 TAACAAAATCAATTGATTAATTACCTTAATCCATTGTAAGTGATTTTAAAATTGATT
53168980 TAACAAAATCAATTGATTAATTACCTTAATCCATTGTAAGTGATTTTAAAATTGATT
1 TAACAAAATCAATTGATTAATTACCTTAATCCATTGTAAGTGATTTTAAAATTGATT
53169037 T
1 T
53169038 TCTCAATCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (57 bp):
TAACAAAATCAATTGATTAATTACCTTAATCCATTGTAAGTGATTTTAAAATTGATT
Found at i:53175175 original size:32 final size:32
Alignment explanation
Indices: 53175138--53175200 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
53175128 TAACCAATAT
*
53175138 AAGTTATCAAATTAAACTAATTAATTAATAAC
1 AAGTTATCAAATTAAACTAATGAATTAATAAC
* * * *
53175170 AAGTTATTAAATTCAAGTAATGAATTTATAA
1 AAGTTATCAAATTAAACTAATGAATTAATAA
53175201 GTTTATAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (32 bp):
AAGTTATCAAATTAAACTAATGAATTAATAAC
Found at i:53185013 original size:18 final size:17
Alignment explanation
Indices: 53184973--53185016 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
53184963 TTAAAATTTT
* *
53184973 GTTTATAATTTTTTTAT
1 GTTTTTAATTTTTTTAA
53184990 GATTTTTAATATTTTTTAA
1 G-TTTTTAAT-TTTTTTAA
53185009 GTTTTTAA
1 GTTTTTAA
53185017 AAGGGATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (17 bp):
GTTTTTAATTTTTTTAA
Found at i:53190799 original size:30 final size:30
Alignment explanation
Indices: 53190757--53190878 Score: 135
Period size: 30 Copynumber: 4.1 Consensus size: 30
53190747 TAACCATTGT
*
53190757 ACTTTT-TGAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
53190786 ACTTTTCTAAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
* * *
53190816 AATTTTCTAAAA-CTACATTTTGACCCTTAA
1 ACTTTTCTAAAATTTACATTTTGACCC-CAA
* *
53190846 AC-TTTCTCAAAATTT-CACTTTAACCCCTAA
1 ACTTTTCT-AAAATTTACATTTTGACCCC-AA
53190876 ACT
1 ACT
53190879 CTCAGGAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
29 24 0.31
30 53 0.68
31 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAA
Found at i:53191496 original size:20 final size:19
Alignment explanation
Indices: 53191473--53191518 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
53191463 AAATAGAAGA
*
53191473 GAAAGAAAAGAGAGGAAAGG
1 GAAAGAAAAGAGA-AAAAGG
*
53191493 GAAAGAGAAGAGAAAAAGG
1 GAAAGAAAAGAGAAAAAGG
*
53191512 AAAAGAA
1 GAAAGAA
53191519 GAGGAGAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAGAGAAAAAGG
Found at i:53191873 original size:19 final size:18
Alignment explanation
Indices: 53191844--53191879 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
53191834 GCTTTGGTAA
53191844 ATTTTTTTAATCTATTTT
1 ATTTTTTTAATCTATTTT
*
53191862 ATTTTATTTAATGTATTT
1 ATTTT-TTTAATCTATTT
53191880 AAATGGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATCTATTTT
Found at i:53192126 original size:21 final size:21
Alignment explanation
Indices: 53192101--53192145 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
53192091 AAAAATATTC
53192101 AAAAA-TCTTCGTATTTTAAAA
1 AAAAATTC-TCGTATTTTAAAA
*
53192122 AAAAATTCTCGTATTTTAATA
1 AAAAATTCTCGTATTTTAAAA
53192143 AAA
1 AAA
53192146 TCCCGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAAATTCTCGTATTTTAAAA
Found at i:53192410 original size:18 final size:18
Alignment explanation
Indices: 53192387--53192501 Score: 80
Period size: 17 Copynumber: 6.5 Consensus size: 18
53192377 AAAATTCGTA
*
53192387 TTTCAAAAATTGTCATGT
1 TTTCAAAAATTCTCATGT
* *
53192405 TTTC-AAAATTGTCGTGT
1 TTTCAAAAATTCTCATGT
*
53192422 TTT-AAAAATTCT-AGCGT
1 TTTCAAAAATTCTCA-TGT
* * *
53192439 TTTCAATAATTTTCGTGT
1 TTTCAAAAATTCTCATGT
53192457 TTTCAAAAATTCTC--GT
1 TTTCAAAAATTCTCATGT
*
53192473 ATTTCAAAAACTT-TCTTGT
1 -TTTCAAAAA-TTCTCATGT
53192492 TTTCAGAAAA
1 TTTCA-AAAA
53192502 AAAAATTTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
16 2 0.03
17 38 0.49
18 32 0.41
19 6 0.08
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTCAAAAATTCTCATGT
Found at i:53192478 original size:35 final size:33
Alignment explanation
Indices: 53192387--53192942 Score: 140
Period size: 35 Copynumber: 15.3 Consensus size: 33
53192377 AAAATTCGTA
* *
53192387 TTTCAAAAATTGTCATGTTTTCAAAATTGTCGTGT
1 TTTCAAAAATTCTC--GTTTTCAAAATTTTCGTGT
53192422 TTT-AAAAATTCTAGCGTTTTCAATAATTTTCGTGT
1 TTTCAAAAATTCT--CGTTTTCAA-AATTTTCGTGT
* *
53192457 TTTCAAAAATTCTCGTATTTCAAAAACTTTCTTGT
1 TTTCAAAAATTCTCGT-TTTC-AAAATTTTCGTGT
* *
53192492 TTTCAGAAAAAAAAATTTCCCTGTTTT-ATAAATTTCCGTGT
1 TTTC------AAAAA-TTCTC-GTTTTCA-AAATTTTCGTGT
* **
53192533 TTTCAAAAATTCTAGTATTTCAAAATAAAATTTTATGT
1 TTTCAAAAATTCTCGT-TTTCAAAAT----TTTCGTGT
* ** *
53192571 TTT-AAAAATTTTCTGTGTTTTTTTTTAAATTTCCCGTGT
1 TTTCAAAAA--TTCT-CG---TTTTCAAAATTT-TCGTGT
** * * *
53192610 TTTCAAAAATTCCCTTATTTTAAAAACTTTCTTGTT
1 TTTCAAAAATT--CTCGTTTTCAAAATTTTCGTG-T
*
53192646 TTTCAAAAAAATTTCCCTGTTTT-ATAAATTTTCGTGT
1 TTTC--AAAAA-TTCTC-GTTTTCA-AAATTTTCGTGT
* *
53192683 TTTCAAAAATTCTCGTGTTTTTAAAATTTTTGGTGAT
1 TTTCAAAAATTCTC--GTTTTCAAAA-TTTTCGTG-T
*** * *
53192720 ATAAAAAAAAATT-TCCTGTTTTCAAAGAAAATTTCATG-
1 -T-TTCAAAAATTCT-C-GTTTTC--A-AAATTTTCGTGT
* * *
53192758 TTTCAAAAATCCTCGTGTTTCAAAAAATTCCGTG-
1 TTTCAAAAATTCTCGT-TTTC-AAAATTTTCGTGT
* * *
53192792 TTTCAAAATTTTTGCGTTCTCAAAAATTTCTCGT-T
1 TTTCAAAAATTCT-CGTTTTC-AAAATTT-TCGTGT
* * *
53192827 TTTCAAAAATTGTCATGTTTCGCAAATTTTCGTGT
1 TTTCAAAAATTCTCGT-TTTC-AAAATTTTCGTGT
* *
53192862 TGT-AAAAATTTTCAGGTTTTCAGAAATTTTCGTGT
1 TTTCAAAAATTCTC--GTTTTCA-AAATTTTCGTGT
* * *
53192897 TTCTAAAAAATTCTCGTGTTTCACAAAAATTCCGTGT
1 TT-TCAAAAATTCTCGT-TTT--CAAAATTTTCGTGT
53192934 TTTCAAAAA
1 TTTCAAAAA
53192943 AAAATGGTGT
Statistics
Matches: 393, Mismatches: 66, Indels: 123
0.68 0.11 0.21
Matches are distributed among these distances:
33 2 0.01
34 77 0.20
35 108 0.27
36 56 0.14
37 36 0.09
38 40 0.10
39 21 0.05
40 15 0.04
41 21 0.05
42 14 0.04
43 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (33 bp):
TTTCAAAAATTCTCGTTTTCAAAATTTTCGTGT
Found at i:53192479 original size:17 final size:16
Alignment explanation
Indices: 53192382--53192501 Score: 71
Period size: 18 Copynumber: 6.8 Consensus size: 16
53192372 AAGAAAAAAT
*
53192382 TCGTATTTCAAAAATTG
1 TCGT-TTTCAAAAATTC
*
53192399 TCATGTTTTC-AAAATTG
1 TC--GTTTTCAAAAATTC
*
53192416 TCGTGTTTTAAAAATTC
1 TCGT-TTTCAAAAATTC
* *
53192433 TAGCGTTTTCAATAATTT
1 T--CGTTTTCAAAAATTC
53192451 TCGTGTTTTCAAAAATTC
1 TC--GTTTTCAAAAATTC
53192469 TCGTATTTCAAAAACTTTC
1 TCGT-TTTCAAAAA--TTC
*
53192488 TTGTTTTCAGAAAA
1 TCGTTTTCA-AAAA
53192502 AAAAATTTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 22
0.73 0.07 0.19
Matches are distributed among these distances:
15 2 0.02
16 6 0.07
17 27 0.33
18 33 0.40
19 15 0.18
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (16 bp):
TCGTTTTCAAAAATTC
Found at i:53192534 original size:76 final size:72
Alignment explanation
Indices: 53192446--53192698 Score: 269
Period size: 76 Copynumber: 3.4 Consensus size: 72
53192436 CGTTTTCAAT
*
53192446 AATTTTCGTGTTTTCAAAAATTCTCGTATTTCAAAAACTTTCTTGTTTTCAGAAAAAAAAATTTC
1 AATTTCCGTGTTTTCAAAAATTCTCGTATTTCAAAAACTTTCTTGTTTTC----AAAAAAATTTC
53192511 CCTGTTTTATA
62 CCTGTTTTATA
* * *
53192522 AATTTCCGTGTTTTCAAAAATTCTAGTATTTCAAAATAAAATTT-TATGTTTT--AAAAATTTTC
1 AATTTCCGTGTTTTCAAAAATTCTCGTATTTC--AA-AAACTTTCT-TGTTTTCAAAAAAATTTC
** *
53192584 TGTGTTTTTTTTTA
62 CCTG---TTTTATA
* * *
53192598 AATTTCCCGTGTTTTCAAAAATTCCCTTATTTTAAAAACTTTCTTGTTTTTCAAAAAAATTTCCC
1 AATTT-CCGTGTTTTCAAAAATTCTCGTATTTCAAAAACTTTCTTG-TTTTCAAAAAAATTTCCC
53192663 TGTTTTATA
64 TGTTTTATA
*
53192672 AATTTTCGTGTTTTCAAAAATTCTCGT
1 AATTTCCGTGTTTTCAAAAATTCTCGT
53192699 GTTTTTAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
73 30 0.21
74 19 0.13
75 7 0.05
76 41 0.28
77 34 0.23
78 3 0.02
79 12 0.08
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (72 bp):
AATTTCCGTGTTTTCAAAAATTCTCGTATTTCAAAAACTTTCTTGTTTTCAAAAAAATTTCCCTG
TTTTATA
Found at i:53192591 original size:18 final size:18
Alignment explanation
Indices: 53192568--53192712 Score: 64
Period size: 18 Copynumber: 7.8 Consensus size: 18
53192558 TAAAATTTTA
53192568 TGTTTTAAAAATTTTCTG
1 TGTTTTAAAAATTTTCTG
** * *
53192586 TGTTTTTTTTTAAATTTCCCG
1 TG---TTTTAAAAATTTTCTG
**
53192607 TGTTTTCAAAAATTCCCT-
1 TGTTTT-AAAAATTTTCTG
* *
53192625 TATTTTAAAAACTTTCT-
1 TGTTTTAAAAATTTTCTG
* **
53192642 TGTTTTTCAAAAAAATTTCCC
1 TG-TTTT--AAAAATTTTCTG
*
53192663 TGTTTTATAAATTTTC-G
1 TGTTTTAAAAATTTTCTG
*
53192680 TGTTTTCAAAAATTCTC-G
1 TGTTTT-AAAAATTTTCTG
*
53192698 TGTTTTTAAAATTTT
1 TGTTTTAAAAATTTT
53192713 TGGTGATATA
Statistics
Matches: 96, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
17 22 0.23
18 38 0.40
19 7 0.07
20 13 0.14
21 16 0.17
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (18 bp):
TGTTTTAAAAATTTTCTG
Found at i:53192594 original size:21 final size:21
Alignment explanation
Indices: 53192570--53192612 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
53192560 AAATTTTATG
* *
53192570 TTTTAAAAATTTTCTGTGTTT
1 TTTTAAAAATTTCCCGTGTTT
**
53192591 TTTTTTAAATTTCCCGTGTTT
1 TTTTAAAAATTTCCCGTGTTT
53192612 T
1 T
53192613 CAAAAATTCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (21 bp):
TTTTAAAAATTTCCCGTGTTT
Found at i:53192619 original size:56 final size:55
Alignment explanation
Indices: 53192559--53192708 Score: 123
Period size: 56 Copynumber: 2.7 Consensus size: 55
53192549 ATTTCAAAAT
****
53192559 AAAATTTTATGTTTTAAAAATTTTCTGTGTTTTT-TTTTAAATTTCCCGTGTTTTCA
1 AAAATTTTATGTTTTAAAAATTTTCTGTGTTTTTCAAAAAAATTTCCC-TGTTTT-A
*
53192615 AAAATTCCCTTA--TTTTAAAAACTTTCT-TGTTTTTCAAAAAAATTTCCCTGTTTTA
1 AAAATT---TTATGTTTTAAAAATTTTCTGTGTTTTTCAAAAAAATTTCCCTGTTTTA
* * *
53192670 TAAATTTTCGTGTTTTCAAAAATTCTC-GTGTTTTT-AAAA
1 AAAATTTT-ATGTTTT-AAAAATTTTCTGTGTTTTTCAAAA
53192709 TTTTTGGTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
52 2 0.03
55 14 0.18
56 34 0.45
57 23 0.30
59 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (55 bp):
AAAATTTTATGTTTTAAAAATTTTCTGTGTTTTTCAAAAAAATTTCCCTGTTTTA
Found at i:53192658 original size:38 final size:37
Alignment explanation
Indices: 53192605--53192691 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
53192595 TTAAATTTCC
53192605 CGTGTTTTC--AAAAA-TTCCCTTATTTTAAAAACTTT
1 CGTGTTTTCAAAAAAATTTCCC-TATTTTAAAAACTTT
* * * *
53192640 CTTGTTTTTCAAAAAAATTTCCCTGTTTTATAAATTTT
1 CGTG-TTTTCAAAAAAATTTCCCTATTTTAAAAACTTT
53192678 CGTGTTTTCAAAAA
1 CGTGTTTTCAAAAA
53192692 TTCTCGTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.07
36 5 0.12
37 10 0.23
38 20 0.47
39 5 0.12
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (37 bp):
CGTGTTTTCAAAAAAATTTCCCTATTTTAAAAACTTT
Found at i:53192763 original size:19 final size:20
Alignment explanation
Indices: 53192727--53192764 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53192717 GATATAAAAA
*
53192727 AAAATTTCCTGTTTTCAAAG
1 AAAATTTCATGTTTTCAAAG
53192747 AAAATTTCATG-TTTCAAA
1 AAAATTTCATGTTTTCAAA
53192765 AATCCTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAATTTCATGTTTTCAAAG
Found at i:53192777 original size:93 final size:92
Alignment explanation
Indices: 53192631--53192805 Score: 221
Period size: 93 Copynumber: 1.9 Consensus size: 92
53192621 CCCTTATTTT
* * * * * **
53192631 AAAAACTTTCTTGTTTTTCAAAAAAATTTCCCTGTTTTATAAATTTTCGTGTTTTC-AAAAATTC
1 AAAAAATTTCCTGTTTTTCAAAAAAATTTCCATGTTTCAAAAATCCTCGTG-TTTCAAAAAATTC
*
53192695 TCGTGTTTTTAAAATTTTTGGTGATATAAA
65 -CGTG-TTTCAAAATTTTTGGTGATATAAA
53192725 AAAAAATTTCCTG-TTTTCAAAGAAAATTT-CATGTTTCAAAAATCCTCGTGTTTCAAAAAATTC
1 AAAAAATTTCCTGTTTTTCAAA-AAAATTTCCATGTTTCAAAAATCCTCGTGTTTCAAAAAATTC
53192788 CGTGTTTCAAAATTTTTG
65 CGTGTTTCAAAATTTTTG
53192806 CGTTCTCAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
91 13 0.18
92 8 0.11
93 32 0.45
94 18 0.25
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (92 bp):
AAAAAATTTCCTGTTTTTCAAAAAAATTTCCATGTTTCAAAAATCCTCGTGTTTCAAAAAATTCC
GTGTTTCAAAATTTTTGGTGATATAAA
Found at i:53192826 original size:17 final size:19
Alignment explanation
Indices: 53192796--53192837 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
53192786 TCCGTGTTTC
*
53192796 AAAATTTTTGCG-TTCTCA
1 AAAATTTCTGCGTTTCTCA
*
53192814 AAAATTTCT-CGTTTTTCA
1 AAAATTTCTGCGTTTCTCA
53192832 AAAATT
1 AAAATT
53192838 GTCATGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (19 bp):
AAAATTTCTGCGTTTCTCA
Found at i:53192846 original size:52 final size:52
Alignment explanation
Indices: 53192760--53192904 Score: 127
Period size: 52 Copynumber: 2.8 Consensus size: 52
53192750 ATTTCATGTT
* * * *
53192760 TCAAAAA-TCCTCGTGTTTCAAAAAATTCCGTGTTTC-AAAATTTTTGCGTTC
1 TCAAAAATTTCTCGTTTTTC-AAAAATTTCGTGTTTCGAAAATTTTCGCGTTC
* * * *
53192811 TCAAAAATTTCTCGTTTTTCAAAAATTGTCATGTTTCGCAAATTTTCGTGTTG
1 TCAAAAATTTCTCGTTTTTCAAAAATT-TCGTGTTTCGAAAATTTTCGCGTTC
* * *
53192864 T-AAAAATTT-TCAGGTTTTCAGAAATTTTCGTGTTTCTAAAA
1 TCAAAAATTTCTC-GTTTTTCA-AAAATTTCGTGTTTCGAAAA
53192905 AATTCTCGTG
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
51 16 0.21
52 43 0.57
53 17 0.22
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (52 bp):
TCAAAAATTTCTCGTTTTTCAAAAATTTCGTGTTTCGAAAATTTTCGCGTTC
Found at i:53192847 original size:17 final size:17
Alignment explanation
Indices: 53192652--53192942 Score: 147
Period size: 17 Copynumber: 16.3 Consensus size: 17
53192642 TGTTTTTCAA
* * *
53192652 AAAAATTTCCCTGTTTT
1 AAAAATTTTCGTGTTTC
*
53192669 ATAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
53192687 AAAAATTCTCGTGTTTTT
1 AAAAATTTTCGTG-TTTC
* * **
53192705 AAAATTTTTGGTGATATAAA
1 AAAAATTTTCGTG-T-T-TC
* *
53192725 AAAAAATTTCCTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
53192743 AAAGAAAATTTCATGTTTC
1 -AA-AAATTTTCGTGTTTC
**
53192762 AAAAATCCTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
53192779 AAAAAATTCCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
53192796 AAAATTTTTGCGT-TCTC
1 AAAAATTTT-CGTGTTTC
*
53192813 AAAAATTTCTCGTTTTTC
1 AAAAATTT-TCGTGTTTC
* *
53192831 AAAAATTGTCATGTTTC
1 AAAAATTTTCGTGTTTC
**
53192848 GCAAATTTTCGTGTTGT-
1 AAAAATTTTCGTGTT-TC
53192865 AAAAATTTTCAG-GTTTTC
1 AAAAATTTTC-GTG-TTTC
*
53192883 AGAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
*
53192900 TAAAAAATTCTCGTGTTTC
1 --AAAAATTTTCGTGTTTC
* *
53192919 ACAAAAATTCCGTGTTTTC
1 A-AAAATTTTCGTG-TTTC
53192938 AAAAA
1 AAAAA
53192943 AAAATGGTGT
Statistics
Matches: 207, Mismatches: 50, Indels: 33
0.71 0.17 0.11
Matches are distributed among these distances:
17 87 0.42
18 72 0.35
19 28 0.14
20 20 0.10
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:53192943 original size:19 final size:19
Alignment explanation
Indices: 53192885--53192944 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
53192875 AGGTTTTCAG
* *
53192885 AAATTTTCGTGTTTCTAAA
1 AAATTCTCGTGTTTCAAAA
*
53192904 AAATTCTCGTGTTTCACAA
1 AAATTCTCGTGTTTCAAAA
53192923 AAATTC-CGTGTTTTCAAAA
1 AAATTCTCGTG-TTTCAAAA
53192942 AAA
1 AAA
53192945 AATGGTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.11
19 32 0.89
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
AAATTCTCGTGTTTCAAAA
Found at i:53204916 original size:77 final size:75
Alignment explanation
Indices: 53204723--53205275 Score: 602
Period size: 75 Copynumber: 7.3 Consensus size: 75
53204713 AATTAAATTC
* * *
53204723 TTTCAATTTCTATTTTTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACG
1 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACA
*
53204787 TC-GAGGTATT
66 CCTGAGGTA-T
* * *
53204797 TTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCGCA
1 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACA
53204862 CGCTGAGGTATT
66 C-CTGAGGTA-T
* * *
53204874 TTTCAATTTTTATTTTTTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCAC
1 TTTCAATTTCT-GTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCAC
53204938 -CAC-GAGGTATTTT
65 AC-CTGAGGTA---T
* *
53204951 TTTCAA-TTCTTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTCAATTTC-TGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
*
53205015 ACATCCTTAGGTAT
63 ACA-CCTGAGGTAT
* * * *
53205029 CTTCAATTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTGCA-
1 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT-CAC
*
53205093 TCCTGAGGTAT
65 ACCTGAGGTAT
** * *
53205104 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATAACGTGAGAGGTGAGTTGAGCCTC-AGGTCAT
1 TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GTCAC
53205168 ATCCTGAGGTAT
65 A-CCTGAGGTAT
* * * * * * * *
53205180 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATACTAGAAGTGAGCTGAGCTTCGGGTTAC
1 TTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCAC
*
53205245 -GCTGAGGTAT
65 ACCTGAGGTAT
* *
53205255 TTTCAATATCTATTTTTCAAA
1 TTTCAATTTCTGTTTTTCAAA
53205276 GGTAAACTCA
Statistics
Matches: 416, Mismatches: 43, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
74 20 0.05
75 138 0.33
76 80 0.19
77 108 0.26
78 18 0.04
79 45 0.11
80 1 0.00
81 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACA
CCTGAGGTAT
Found at i:53205720 original size:29 final size:29
Alignment explanation
Indices: 53205645--53205810 Score: 97
Period size: 29 Copynumber: 5.7 Consensus size: 29
53205635 ACCTCTGTAC
* * *
53205645 TTTT-TAAAATTTACAATTTAACCCCAAAC
1 TTTTCTAAAA-TTACATTTTGACCCCAAAA
** *
53205674 TTTTCTCTATTTACATTTTGACCCCAAAA
1 TTTTCTAAAATTACATTTTGACCCCAAAA
* **
53205703 TTTTCTAAAATTATATTTTGACCCTTAAA
1 TTTTCTAAAATTACATTTTGACCCCAAAA
* * * *
53205732 CTTTCTCAAAATTACACTTTAACCCCTAAA
1 TTTTCT-AAAATTACATTTTGACCCCAAAA
* * * *
53205762 CTCTC-AGGAAATTACATTTTG-GCCC-ATA
1 TTTTCTA--AAATTACATTTTGACCCCAAAA
53205790 TTTTGCTAAAATTACACTTTT
1 TTTT-CTAAAATTACA-TTTT
53205811 TCCCTAGAAG
Statistics
Matches: 106, Mismatches: 24, Indels: 14
0.74 0.17 0.10
Matches are distributed among these distances:
28 13 0.12
29 56 0.53
30 37 0.35
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTTCTAAAATTACATTTTGACCCCAAAA
Found at i:53205745 original size:30 final size:29
Alignment explanation
Indices: 53205619--53205782 Score: 107
Period size: 30 Copynumber: 5.5 Consensus size: 29
53205609 AAAAAAAATT
* * ** *
53205619 TAAAATTTACATTTTAACCTCTGTACTTTT
1 TAAAA-TTACATTTTGACCCCTAAACTTTC
* *
53205649 TAAAATTTACAATTTAACCCC-AAACTTTTC
1 TAAAA-TTACATTTTGACCCCTAAAC-TTTC
** * * *
53205679 TCTATTTACATTTTGACCCCAAAATTTTC
1 TAAAATTACATTTTGACCCCTAAACTTTC
* *
53205708 TAAAATTATATTTTGACCCTTAAACTTTC
1 TAAAATTACATTTTGACCCCTAAACTTTC
* * *
53205737 TCAAAATTACACTTTAACCCCTAAACTCTC
1 T-AAAATTACATTTTGACCCCTAAACTTTC
53205767 -AGGAAATTACATTTTG
1 TA--AAATTACATTTTG
53205783 GCCCATATTT
Statistics
Matches: 104, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
28 1 0.01
29 42 0.40
30 61 0.59
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.41
Consensus pattern (29 bp):
TAAAATTACATTTTGACCCCTAAACTTTC
Found at i:53206501 original size:10 final size:10
Alignment explanation
Indices: 53206445--53206526 Score: 65
Period size: 11 Copynumber: 7.4 Consensus size: 10
53206435 GCTGGGGCTC
53206445 AAAAGAAAGA
1 AAAAGAAAGA
53206455 AAAAGTAAAGGGA
1 AAAAG-AAA--GA
*
53206468 AGAAGAAGAAGA
1 AAAAG-A-AAGA
*
53206480 AAGGAGAAAGA
1 AA-AAGAAAGA
*
53206491 AAAAGAGAGA
1 AAAAGAAAGA
53206501 AAAAGAAAGAA
1 AAAAGAAAG-A
53206512 AAAAGAAAAGA
1 AAAAG-AAAGA
53206523 AAAA
1 AAAA
53206527 ACAATAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
10 19 0.33
11 20 0.34
12 8 0.14
13 9 0.16
14 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:53206504 original size:11 final size:11
Alignment explanation
Indices: 53206445--53206540 Score: 58
Period size: 10 Copynumber: 8.6 Consensus size: 11
53206435 GCTGGGGCTC
53206445 AAAAGAAAG-A
1 AAAAGAAAGAA
53206455 AAAAGTAAAGGGAA
1 AAAAG-AAA--GAA
53206469 GAAGAAG-AAGAA
1 -AA-AAGAAAGAA
**
53206481 AGGAGAAAG-A
1 AAAAGAAAGAA
*
53206491 AAAAGAGAG-A
1 AAAAGAAAGAA
53206501 AAAAGAAAGAA
1 AAAAGAAAGAA
53206512 AAAAGAAAAGAA
1 AAAAG-AAAGAA
* *
53206524 AAAA-CAATAA
1 AAAAGAAAGAA
53206534 AAAAGAA
1 AAAAGAA
53206541 TAAAAGCAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
10 31 0.46
11 14 0.21
12 13 0.19
13 1 0.01
14 3 0.04
15 2 0.03
16 3 0.04
ACGTcount: A:0.74, C:0.01, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:53206506 original size:27 final size:26
Alignment explanation
Indices: 53206445--53206527 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
53206435 GCTGGGGCTC
53206445 AAAAGAAAG-AAAAAGTAAAGGGAAGAAGA
1 AAAAGAAAGAAAAAAG-AAA---AAGAAGA
* * *
53206474 AGAAGAAAGGAGAAAGAAAAAGAGAGA
1 AAAAGAAAGAAAAAAGAAAAAGA-AGA
53206501 AAAAGAAAGAAAAAAG-AAAAGAA-A
1 AAAAGAAAGAAAAAAGAAAAAGAAGA
53206525 AAA
1 AAA
53206528 CAATAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 4 0.09
25 1 0.02
26 10 0.21
27 16 0.34
29 11 0.23
30 5 0.11
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (26 bp):
AAAAGAAAGAAAAAAGAAAAAGAAGA
Found at i:53207015 original size:20 final size:21
Alignment explanation
Indices: 53206990--53207033 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
53206980 AAAAATATTC
53206990 AAAAATCCTCATATTTTAA-A
1 AAAAATCCTCATATTTTAATA
* *
53207010 AAAAATTCTCGTATTTTAATA
1 AAAAATCCTCATATTTTAATA
53207031 AAA
1 AAA
53207034 TCCCGATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATCCTCATATTTTAATA
Found at i:53207311 original size:18 final size:18
Alignment explanation
Indices: 53207288--53207894 Score: 220
Period size: 17 Copynumber: 33.4 Consensus size: 18
53207278 AAAATTCGTA
*
53207288 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTTTCGTGT
*
53207306 TTTC-AAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
*
53207323 TTT-AAAAATTCTCGTGT
1 TTTCAAAAATTTTCGTGT
* ** *
53207340 TTTCAATAATTCCCCTGT
1 TTTCAAAAATTTTCGTGT
* * *
53207358 TTTCAAAAATTCTCAT-A
1 TTTCAAAAATTTTCGTGT
** *
53207375 TTTCAAAAACCTTCTTGT
1 TTTCAAAAATTTTCGTGT
* *
53207393 TTTCAGAAAAAAAATTTCCCTGT
1 TTTC-----AAAAATTTTCGTGT
* *
53207416 TTT-ATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
*
53207433 TTTCAAAAATTCT-G-GT
1 TTTCAAAAATTTTCGTGT
*
53207449 ATTTCAAAATAAAATTTT-ATGT
1 -TTTC---A-AAAATTTTCGTGT
53207471 TTT-AAAAATTTTCTGTGTTTTTTT
1 TTTCAAAAATTTTC-GTG------T
** **
53207495 TTTTTAAAATTCCCGTGT
1 TTTCAAAAATTTTCGTGT
** *
53207513 TTTCAAAAATTCCCGTAT
1 TTTCAAAAATTTTCGTGT
* *
53207531 TTT-AAAAACTTTCTTGTT
1 TTTCAAAAATTTTCGTG-T
* *
53207549 TTTCAGAAAAAATTTCCCTGT
1 TTTC---AAAAATTTTCGTGT
*
53207570 TTT-ATAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
53207587 TTTCAAAAATTCT-G-GT
1 TTTCAAAAATTTTCGTGT
*
53207603 ATTTCAAAAATTCTCGTGT
1 -TTTCAAAAATTTTCGTGT
*
53207622 TTTC-AAAATTTCTGGTGAT
1 TTTCAAAAATTT-TCGTG-T
* ** * *
53207641 ATAAAAAAAATTTCCTGT
1 TTTCAAAAATTTTCGTGT
* *
53207659 TTTCAAAGAAAATTTCATG-
1 TTTC-AA-AAATTTTCGTGT
* **
53207678 TTTAAAAAATCCTCGTG-
1 TTTCAAAAATTTTCGTGT
*
53207695 TTTCAAAAATTTCCGTG-
1 TTTCAAAAATTTTCGTGT
*
53207712 TTTC-AAAATTTTCGCGT
1 TTTCAAAAATTTTCGTGT
*
53207729 TCTCAAAAATTTCTCGT-T
1 TTTCAAAAATTT-TCGTGT
* *
53207747 TTTCAAAAATTGTCATG-
1 TTTCAAAAATTTTCGTGT
**
53207764 TTTCGCAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
53207782 TGT-AAAAATTTTCAG-GT
1 TTTCAAAAATTTTC-GTGT
*
53207799 TTTCAGAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
53207817 TTCTAAAAAATTCTCGTG-
1 TT-TCAAAAATTTTCGTGT
* *
53207835 TTTCACAAAAATTCCGTGT
1 TTTCA-AAAATTTTCGTGT
** *
53207854 TTTCAAAAA-AATGGTG-
1 TTTCAAAAATTTTCGTGT
*
53207870 TTTC-AAAATTCTCGTGT
1 TTTCAAAAATTTTCGTGT
53207887 TTTCAAAA
1 TTTCAAAA
53207895 CAAGAGATTC
Statistics
Matches: 440, Mismatches: 97, Indels: 104
0.69 0.15 0.16
Matches are distributed among these distances:
15 4 0.01
16 30 0.07
17 169 0.38
18 135 0.31
19 32 0.07
20 17 0.04
21 14 0.03
22 12 0.03
23 13 0.03
24 7 0.02
25 7 0.02
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:53207538 original size:17 final size:17
Alignment explanation
Indices: 53207495--53207538 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
53207485 GTGTTTTTTT
* *
53207495 TTTTTAAAATTCCCGTG
1 TTTTAAAAATTCCCGTA
53207512 TTTTCAAAAATTCCCGTA
1 TTTT-AAAAATTCCCGTA
53207530 TTTTAAAAA
1 TTTTAAAAA
53207539 CTTTCTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (17 bp):
TTTTAAAAATTCCCGTA
Found at i:53207614 original size:35 final size:35
Alignment explanation
Indices: 53207508--53207894 Score: 195
Period size: 35 Copynumber: 10.9 Consensus size: 35
53207498 TTAAAATTCC
* * * *
53207508 CGTGTTTTCAAAAATTCCCGTATTTTAAAAACTTT
1 CGTGTTTTCAAAAATTCTCGTGTTTCAAAAATTTT
* * * *
53207543 CTTGTTTTTCAGAAAAAATT-TCCCTGTTTTATAAATTTT
1 CGTG-TTTTC---AAAAATTCT-CGTGTTTCAAAAATTTT
* * *
53207582 CGTGTTTTCAAAAATTCTGGTATTTCAAAAATTCT
1 CGTGTTTTCAAAAATTCTCGTGTTTCAAAAATTTT
* * ** *
53207617 CGTGTTTTCAAAATTTCTGGTGATATAAAAAAAATTT
1 CGTGTTTTCAAAAATTCTCGTG-T-TTCAAAAATTTT
* * * **
53207654 CCTGTTTTCAAAGAAAATT-TCATGTTTAAAAAATCCT
1 CGTGTTTTC--A-AAAATTCTCGTGTTTCAAAAATTTT
53207691 CGTG-TTTCAAAAATT-TCCGTGTTTC-AAAATTTT
1 CGTGTTTTCAAAAATTCT-CGTGTTTCAAAAATTTT
* * * *
53207724 CGCGTTCTCAAAAATTTCTCGTTTTTCAAAAATTGT
1 CGTGTTTTCAAAAA-TTCTCGTGTTTCAAAAATTTT
* ** *
53207760 CATG-TTTCGCAAATTTTCGTGTTGT-AAAAATTTT
1 CGTGTTTTCAAAAATTCTCGTGTT-TCAAAAATTTT
* * *
53207794 CAG-GTTTTCAGAAATTTTCGTGTTTCTAAAAAATTCT
1 C-GTGTTTTCAAAAATTCTCGTGTTTC--AAAAATTTT
* **
53207831 CGTGTTTCACAAAAATTC-CGTGTTTTCAAAAA-AAT
1 CGTGTTT-TCAAAAATTCTCGTG-TTTCAAAAATTTT
*
53207866 GGTG-TTTC-AAAATTCTCGTGTTTTCAAAA
1 CGTGTTTTCAAAAATTCTCGTG-TTTCAAAA
53207895 CAAGAGATTC
Statistics
Matches: 271, Mismatches: 55, Indels: 54
0.71 0.14 0.14
Matches are distributed among these distances:
32 7 0.03
33 30 0.11
34 36 0.13
35 78 0.29
36 27 0.10
37 44 0.16
38 17 0.06
39 27 0.10
40 5 0.02
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (35 bp):
CGTGTTTTCAAAAATTCTCGTGTTTCAAAAATTTT
Found at i:53207753 original size:52 final size:51
Alignment explanation
Indices: 53207575--53207894 Score: 181
Period size: 52 Copynumber: 6.0 Consensus size: 51
53207565 CCTGTTTTAT
* *
53207575 AAATTT-TCGTGTTTTCAAAAATTCTGGTATTTCAAAAATTCTCGTGTTTTC-A
1 AAATTTCTCGT-TTTTCAAAAATT-TCGTGTTTCAAAAATTCTCGTG-TTTCAA
* *** * *
53207627 AAATTTCTGGTGATATAAAAAAAATTTCCTGTTTTCAAAGAAAATT-TCATGTTT-AA
1 AAATTTCTCGT--T-TTTCAAAAATTTCGTG-TTTC--A-AAAATTCTCGTGTTTCAA
* * * * *
53207683 AAAATCCTCGTGTTTCAAAAATTTCCGTGTTTC-AAAATTTTCGCGTTCTCAA
1 AAATTTCTCGTTTTTCAAAAATTT-CGTGTTTCAAAAATTCTCGTGTT-TCAA
* ** *
53207735 AAATTTCTCGTTTTTCAAAAATTGTCATGTTTCGCAAATTTTCGTGTTGT-AA
1 AAATTTCTCGTTTTTCAAAAATT-TCGTGTTTCAAAAATTCTCGTGTT-TCAA
* *
53207787 AAATTT-TCAGGTTTTCAGAAATTTTCGTGTTTCTAAAAAATTCTCGTGTTTCACA
1 AAATTTCTC-GTTTTTCA-AAAATTTCGTGTTTC--AAAAATTCTCGTGTTTCA-A
* ** *
53207842 AAAATTC-CGTGTTTTCAAAAAAATGGTGTTTC-AAAATTCTCGTGTTTTCAA
1 AAATTTCTCGT-TTTTCAAAAATTTCGTGTTTCAAAAATTCTCGTG-TTTCAA
53207893 AA
1 AA
53207895 CAAGAGATTC
Statistics
Matches: 207, Mismatches: 38, Indels: 47
0.71 0.13 0.16
Matches are distributed among these distances:
49 6 0.03
50 5 0.02
51 18 0.09
52 63 0.30
53 36 0.17
54 31 0.15
55 25 0.12
56 12 0.06
57 5 0.02
58 6 0.03
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (51 bp):
AAATTTCTCGTTTTTCAAAAATTTCGTGTTTCAAAAATTCTCGTGTTTCAA
Found at i:53207863 original size:19 final size:19
Alignment explanation
Indices: 53207591--53207865 Score: 83
Period size: 19 Copynumber: 15.3 Consensus size: 19
53207581 TCGTGTTTTC
* *
53207591 AAAAATTCTGGTATTTC--
1 AAAAATTCTCGTGTTTCAA
53207608 AAAAATTCTCGTGTTTTC--
1 AAAAATTCTCGTG-TTTCAA
* * * *
53207626 AAAATTTCTGGTGATATAAA
1 AAAAATTCTCGTG-TTTCAA
*
53207646 AAAAATT-TCCTGTTTTCAA
1 AAAAATTCTCGTG-TTTCAA
*
53207665 AGAAAATT-TCATGTTT--A
1 A-AAAATTCTCGTGTTTCAA
*
53207682 AAAAATCCTCGTGTTTC-A
1 AAAAATTCTCGTGTTTCAA
*
53207700 AAAATTTC-CGTGTTTC--
1 AAAAATTCTCGTGTTTCAA
* *
53207716 -AAAATTTTCGCGTTCTC-A
1 AAAAATTCTCGTGTT-TCAA
* *
53207734 AAAATTTCTCGTTTTTC--
1 AAAAATTCTCGTGTTTCAA
* *
53207751 AAAAATTGTCATGTTTC--
1 AAAAATTCTCGTGTTTCAA
** *
53207768 GCAAATTTTCGTGTTGT-AA
1 AAAAATTCTCGTGTT-TCAA
** **
53207787 AAATTTTCAGGT-TTTC--
1 AAAAATTCTCGTGTTTCAA
* * *
53207803 AGAAATTTTCGTGTTTCTA
1 AAAAATTCTCGTGTTTCAA
*
53207822 AAAAATTCTCGTGTTTCAC
1 AAAAATTCTCGTGTTTCAA
53207841 AAAAATTC-CGTGTTTTCAA
1 AAAAATTCTCGTG-TTTCAA
53207860 AAAAAT
1 AAAAAT
53207866 GGTGTTTCAA
Statistics
Matches: 189, Mismatches: 51, Indels: 34
0.69 0.19 0.12
Matches are distributed among these distances:
15 5 0.03
16 16 0.08
17 59 0.31
18 33 0.17
19 60 0.32
20 16 0.08
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (19 bp):
AAAAATTCTCGTGTTTCAA
Found at i:53228995 original size:21 final size:21
Alignment explanation
Indices: 53228955--53228995 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53228945 AAAATTTTTT
*
53228955 AAAATCATAAAGAATTATAAA
1 AAAATCATAAAGAATCATAAA
53228976 AAAATCATACAA-AATCATAA
1 AAAATCATA-AAGAATCATAA
53228996 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAATCATAAAGAATCATAAA
Found at i:53229008 original size:27 final size:26
Alignment explanation
Indices: 53228977--53229042 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
53228967 AATTATAAAA
*
53228977 AAATCATACAAAATCATAATATATAT
1 AAATCATAAAAAATCATAATATATAT
* *
53229003 ATAATCATATAAAACCATAATATATAT
1 A-AATCATAAAAAATCATAATATATAT
53229030 AAAT-ATAAAAAAT
1 AAATCATAAAAAAT
53229043 ATTAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.20
26 4 0.11
27 24 0.69
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATCATAAAAAATCATAATATATAT
Found at i:53230979 original size:24 final size:24
Alignment explanation
Indices: 53230952--53231018 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
53230942 CATAATCAAA
** *
53230952 TACAAATGTGGACACATATTTAGT
1 TACAAATGCAGACACAAATTTAGT
* *
53230976 TACAGATGCAGACACAAATTTAGA
1 TACAAATGCAGACACAAATTTAGT
* * *
53231000 TATATATGCAAACACAAAT
1 TACAAATGCAGACACAAAT
53231019 CTTGCCATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (24 bp):
TACAAATGCAGACACAAATTTAGT
Found at i:53233577 original size:20 final size:20
Alignment explanation
Indices: 53233552--53233593 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
53233542 CTAAAAAACA
53233552 TTATTTCTAGGTTAACTTAT
1 TTATTTCTAGGTTAACTTAT
53233572 TTATTTCTAGGTTAACTTAT
1 TTATTTCTAGGTTAACTTAT
53233592 TT
1 TT
53233594 CTACAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (20 bp):
TTATTTCTAGGTTAACTTAT
Found at i:53250614 original size:21 final size:22
Alignment explanation
Indices: 53250590--53250655 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
53250580 TTCCCTTCTC
*
53250590 TTTTCTCTTCTCTTCTCTTTTT
1 TTTTCTCTTCTCTTCTCTTATT
* *
53250612 TTTTC-CCTCTTTTCTCTTATT
1 TTTTCTCTTCTCTTCTCTTATT
53250633 TTCTTCCTCTTTCTCTTCCTCTT
1 TT-TT-CTC-TTCTCTT-CTCTT
53250656 CCTCTTCCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.44
22 7 0.21
23 1 0.03
24 1 0.03
25 5 0.15
26 5 0.15
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTCTTCTCTTCTCTTATT
Found at i:53250621 original size:19 final size:20
Alignment explanation
Indices: 53250585--53250649 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 20
53250575 GCGCCTTCCC
*
53250585 TTCTCTT-TTCTCTT-CTC-
1 TTCTCTTATTTTCTTCCTCT
*
53250602 TTCTCTT-TTTTTTTCCCTCTT
1 TTCTCTTATTTTCTT-CCTC-T
53250623 TTCTCTTATTTTCTTCCTCT
1 TTCTCTTATTTTCTTCCTCT
53250643 TTCTCTT
1 TTCTCTT
53250650 CCTCTTCCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 12 0.30
19 3 0.08
20 8 0.20
21 11 0.28
22 6 0.15
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTCTTATTTTCTTCCTCT
Found at i:53250648 original size:6 final size:6
Alignment explanation
Indices: 53250634--53250664 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
53250624 TCTCTTATTT
*
53250634 TCTTCC TCTTTC TCTTCC TCTTCC TCTTCC T
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC T
53250665 ACATTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
TCTTCC
Found at i:53253243 original size:20 final size:19
Alignment explanation
Indices: 53253199--53253244 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
53253189 TAACAAAGGC
* **
53253199 AAGTATCGGTACTTTTGTA
1 AAGTATCCGTACTTTTAAA
53253218 AAGTATCCGTACTTTTAAA
1 AAGTATCCGTACTTTTAAA
53253237 TAAGTATC
1 -AAGTATC
53253245 AATACTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (19 bp):
AAGTATCCGTACTTTTAAA
Found at i:53255023 original size:15 final size:15
Alignment explanation
Indices: 53255003--53255032 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53254993 AGAGATTGGA
53255003 TGCAGTTACTAATTC
1 TGCAGTTACTAATTC
53255018 TGCAGTTACTAATTC
1 TGCAGTTACTAATTC
53255033 ATGATCTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
TGCAGTTACTAATTC
Found at i:53261366 original size:2 final size:2
Alignment explanation
Indices: 53261359--53261385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
53261349 AAATTGATCA
53261359 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
53261386 TTGTTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:53262982 original size:16 final size:16
Alignment explanation
Indices: 53262961--53262991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53262951 TGCTTGTGGA
53262961 TTTTTTTGTTTTTTGT
1 TTTTTTTGTTTTTTGT
*
53262977 TTTTTTTTTTTTTTG
1 TTTTTTTGTTTTTTG
53262992 CAGTATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTGTTTTTTGT
Found at i:53270800 original size:17 final size:17
Alignment explanation
Indices: 53270778--53270812 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53270768 GTTAACTTTC
53270778 AGTTAGTACTCATTTGA
1 AGTTAGTACTCATTTGA
53270795 AGTTAGTACTCATTTGA
1 AGTTAGTACTCATTTGA
53270812 A
1 A
53270813 TGCTTAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (17 bp):
AGTTAGTACTCATTTGA
Found at i:53271058 original size:83 final size:83
Alignment explanation
Indices: 53270919--53271168 Score: 437
Period size: 83 Copynumber: 3.0 Consensus size: 83
53270909 AACATTAGGC
*
53270919 TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTCTCTCTGATAAACATGATGTATGAACT
1 TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTCTTTCTGATAAACATGATGTATGAACT
53270984 CATACTTCTCCATTTGCA
66 CATACTTCTCCATTTGCA
* *
53271002 TATCTTTTGTAGTATTTCAGTATTTCTATTCATTAACTCTTTCTGATTAACATGATGTATGAACT
1 TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTCTTTCTGATAAACATGATGTATGAACT
53271067 CATACTTCTCCATTTGCA
66 CATACTTCTCCATTTGCA
* *
53271085 TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTTTTTCTGATAAACATGCTGTATGAACT
1 TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTCTTTCTGATAAACATGATGTATGAACT
**
53271150 CATACTTCTTGATTTGCA
66 CATACTTCTCCATTTGCA
53271168 T
1 T
53271169 TCGAAGTATA
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 158 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (83 bp):
TATCTTTTGTAGTATTTCAGTATTTCAATTCATTAACTCTTTCTGATAAACATGATGTATGAACT
CATACTTCTCCATTTGCA
Found at i:53282736 original size:21 final size:23
Alignment explanation
Indices: 53282706--53282754 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
53282696 GAGTATGTTA
*
53282706 AAATTATTTTAATTAT-A-ATTT
1 AAATTATTTTAACTATAATATTT
* *
53282727 AAATTTTTTTTACTATAATATTT
1 AAATTATTTTAACTATAATATTT
53282750 AAATT
1 AAATT
53282755 GATAAGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 1 0.04
23 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATTATTTTAACTATAATATTT
Found at i:53286332 original size:21 final size:21
Alignment explanation
Indices: 53286306--53286346 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53286296 ATCTGCTCAA
* *
53286306 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
53286327 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
53286347 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:53300480 original size:30 final size:30
Alignment explanation
Indices: 53300444--53300507 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
53300434 TTCATGCATC
* *
53300444 AATTAATATATAAATATTAGGTATTAAA-AA
1 AATTAATACATAAATATTA-ATATTAAATAA
53300474 AATTAATACATAAATATTAATATTAAATAA
1 AATTAATACATAAATATTAATATTAAATAA
53300504 AATT
1 AATT
53300508 TCAAAGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (30 bp):
AATTAATACATAAATATTAATATTAAATAA
Found at i:53301197 original size:31 final size:31
Alignment explanation
Indices: 53301140--53301208 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
53301130 AACCATGAGT
* *
53301140 AAGTTTTCATTTTGATCACTGAACTATTCAA
1 AAGTTTTCATTTAGATCAATGAACTATTCAA
* * *
53301171 AAGTTTTCATTTA-AGTCAATGCACTATTTAC
1 AAGTTTTCATTTAGA-TCAATGAACTATTCAA
53301202 AAGTTTT
1 AAGTTTT
53301209 TATTCAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (31 bp):
AAGTTTTCATTTAGATCAATGAACTATTCAA
Found at i:53306995 original size:18 final size:18
Alignment explanation
Indices: 53306972--53307009 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
53306962 TTCAATTAAG
*
53306972 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
53306990 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
53307008 TC
1 TC
53307010 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:53307057 original size:12 final size:12
Alignment explanation
Indices: 53306997--53307097 Score: 60
Period size: 12 Copynumber: 7.8 Consensus size: 12
53306987 TTTTCTTTCT
53306997 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
53307011 TCTAGTTCTTTTA
1 TCAAGTT-TTTTA
53307024 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
53307039 CCAAGTTTTTTA
1 TCAAGTTTTTTA
**
53307051 TCAAGTTTTGCA
1 TCAAGTTTTTTA
*
53307063 GCAAGTTCTTTT-
1 TCAAGTT-TTTTA
* *
53307075 TAAAGTTTTTCA
1 TCAAGTTTTTTA
53307087 TCAAGTCTTTT
1 TCAAGT-TTTT
53307098 CATAAAATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
11 3 0.04
12 28 0.42
13 14 0.21
14 15 0.22
15 7 0.10
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:53307080 original size:24 final size:25
Alignment explanation
Indices: 53307040--53307118 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 25
53307030 TTTTAATTAC
*
53307040 CAAGTT-TTTTATCAAGTTTTGCAG
1 CAAGTTCTTTTATAAAGTTTTGCAG
* *
53307064 CAAGTTCTTTT-TAAAGTTTTTCAT
1 CAAGTTCTTTTATAAAGTTTTGCAG
* * *
53307088 CAAG-TCTTTTCATAAAATTTTCCAT
1 CAAGTTCTTTT-ATAAAGTTTTGCAG
53307113 CAAGTT
1 CAAGTT
53307119 TAATCATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
23 6 0.13
24 20 0.43
25 19 0.41
26 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (25 bp):
CAAGTTCTTTTATAAAGTTTTGCAG
Found at i:53307103 original size:25 final size:24
Alignment explanation
Indices: 53307004--53307117 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 24
53306994 TCTTCAAGTA
* *
53307004 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
53307029 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
53307056 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
53307080 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
53307105 TTTTCCATCAAGT
1 TTTTTCATCAAGT
53307118 TTAATCATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
23 6 0.08
24 18 0.25
25 27 0.38
26 1 0.01
27 16 0.23
28 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:53307125 original size:25 final size:25
Alignment explanation
Indices: 53307075--53307125 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
53307065 AAGTTCTTTT
* * *
53307075 TAAAGTTTTTCATCAAGTCTTTTCA
1 TAAAATTTTCCATCAAGTCTTATCA
53307100 TAAAATTTTCCATCAAGT-TTAATCA
1 TAAAATTTTCCATCAAGTCTT-ATCA
53307125 T
1 T
53307126 TTTGTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (25 bp):
TAAAATTTTCCATCAAGTCTTATCA
Found at i:53310452 original size:18 final size:19
Alignment explanation
Indices: 53310431--53310468 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
53310421 AATTAAATTT
*
53310431 ATATTAAATTTTATA-AAC
1 ATATTAAATTCTATATAAC
53310449 ATATTAAATTCTATATAAC
1 ATATTAAATTCTATATAAC
53310468 A
1 A
53310469 CCGACTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATTAAATTCTATATAAC
Found at i:53313033 original size:27 final size:29
Alignment explanation
Indices: 53313003--53313058 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
53312993 GAGTCATCAA
* *
53313003 ATTAAATT-AATTAATGAATC-ATAAGTT
1 ATTAAATTAAAGTAATCAATCTATAAGTT
53313030 ATTAAATTAAAGTAATCAATCTATAAGTT
1 ATTAAATTAAAGTAATCAATCTATAAGTT
53313059 TATGATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.32
28 10 0.40
29 7 0.28
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTAAATTAAAGTAATCAATCTATAAGTT
Found at i:53313417 original size:21 final size:21
Alignment explanation
Indices: 53313393--53313432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53313383 TAATGTCATA
*
53313393 TCAGTATTTTCATCCTAAATT
1 TCAGGATTTTCATCCTAAATT
*
53313414 TCAGGATTTTCATGCTAAA
1 TCAGGATTTTCATCCTAAA
53313433 AAAAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
TCAGGATTTTCATCCTAAATT
Found at i:53314704 original size:11 final size:11
Alignment explanation
Indices: 53314688--53314752 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
53314678 AATATATATT
53314688 TATTATTAAAA
1 TATTATTAAAA
53314699 TATTATTATAAA
1 TATTATTA-AAA
*
53314711 T-TTTTTAATAA
1 TATTATTAA-AA
*
53314722 CATT-TTAAGAA
1 TATTATTAA-AA
53314733 TATTATTTAAAA
1 TATTA-TTAAAA
53314745 TTATTATT
1 -TATTATT
53314753 GTTGAAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
10 1 0.02
11 24 0.55
12 10 0.23
13 9 0.20
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:53314806 original size:13 final size:13
Alignment explanation
Indices: 53314784--53314847 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 13
53314774 AATTTTGTAA
53314784 TATTAAATAAT-T
1 TATTAAATAATAT
53314796 TATTAAAATAATAT
1 TATT-AAATAATAT
*
53314810 TATATTAATAA-AT
1 TAT-TAAATAATAT
53314823 TATTAAAT-ATAT
1 TATTAAATAATAT
53314835 GT-TT-AATAATAT
1 -TATTAAATAATAT
53314847 T
1 T
53314848 GATATTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 5 0.11
12 16 0.36
13 13 0.30
14 9 0.20
15 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
TATTAAATAATAT
Found at i:53314822 original size:31 final size:31
Alignment explanation
Indices: 53314764--53314822 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
53314754 TTGAAAGTTA
* * *
53314764 TTATTAAAATAATTTTGTAATATTAAATAAT
1 TTATTAAAATAATATTATAATAATAAATAAT
*
53314795 TTATTAAAATAATATTATATTAATAAAT
1 TTATTAAAATAATATTATAATAATAAAT
53314823 TATTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
TTATTAAAATAATATTATAATAATAAATAAT
Found at i:53318283 original size:17 final size:18
Alignment explanation
Indices: 53318241--53318287 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
53318231 CTCGTGGTTG
53318241 GTGATATCATTGCTGTTC
1 GTGATATCATTGCTGTTC
*
53318259 G-G-TATCATT-TTGTTC
1 GTGATATCATTGCTGTTC
53318274 GTGATATCATTGCT
1 GTGATATCATTGCT
53318288 CGTGGTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 8 0.33
18 2 0.08
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (18 bp):
GTGATATCATTGCTGTTC
Found at i:53318432 original size:231 final size:231
Alignment explanation
Indices: 53318023--53318452 Score: 797
Period size: 231 Copynumber: 1.9 Consensus size: 231
53318013 AGCACATTAA
* * *
53318023 TGTTCGGTACCATTTTGTTCGTGATTTCATTGTTCGTGGTGATATTGTTGTGAGCAAAATTAGTG
1 TGTTCGGTACCATTTTGTTCGTGATATCATTGCTCGTGGTGATATTATTGTGAGCAAAATTAGTG
53318088 CTCATGAAAATCATATAGATATGGTGACTAAGTTGCTTCTCATAACCAAGTTTGAGCATTGCTTA
66 CTCATGAAAATCATATAGATATGGTGACTAAGTTGCTTCTCATAACCAAGTTTGAGCATTGCTTA
* *
53318153 GACTTGGTTGGTGTTCATTGTTGAAGTTAAACCCTTAAGGATTTTTACGGAGGAGGTGGAGAACT
131 GACTTGGTTGGTGTTCATTGTTGAAGTTAAACCCTTAAGAAGTTTTACGGAGGAGGTGGAGAACT
53318218 TGTTTGAGCATTGCTCGTGGTTGGTGATATCATTGC
196 TGTTTGAGCATTGCTCGTGGTTGGTGATATCATTGC
*
53318254 TGTTCGGTATCATTTTGTTCGTGATATCATTGCTCGTGGTGATATTATTGTGAGCAAAATTAGTG
1 TGTTCGGTACCATTTTGTTCGTGATATCATTGCTCGTGGTGATATTATTGTGAGCAAAATTAGTG
*
53318319 CTCATGAAAATCATATAGATATGGTGACTAATTTGCTTCTCATAACCAAGTTTGAGCATTGCTTA
66 CTCATGAAAATCATATAGATATGGTGACTAAGTTGCTTCTCATAACCAAGTTTGAGCATTGCTTA
53318384 GACTTGGTTGGTGTTCATTGTTGAAGTTAAACCCTTAAGAAGTTTTACGGAGGAGGTGGAGAACT
131 GACTTGGTTGGTGTTCATTGTTGAAGTTAAACCCTTAAGAAGTTTTACGGAGGAGGTGGAGAACT
53318449 TGTT
196 TGTT
53318453 CGTTGAGAGT
Statistics
Matches: 192, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
231 192 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.38
Consensus pattern (231 bp):
TGTTCGGTACCATTTTGTTCGTGATATCATTGCTCGTGGTGATATTATTGTGAGCAAAATTAGTG
CTCATGAAAATCATATAGATATGGTGACTAAGTTGCTTCTCATAACCAAGTTTGAGCATTGCTTA
GACTTGGTTGGTGTTCATTGTTGAAGTTAAACCCTTAAGAAGTTTTACGGAGGAGGTGGAGAACT
TGTTTGAGCATTGCTCGTGGTTGGTGATATCATTGC
Found at i:53318562 original size:14 final size:14
Alignment explanation
Indices: 53318543--53318569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53318533 CATGATAAAA
53318543 TAAAATACAAGTGG
1 TAAAATACAAGTGG
53318557 TAAAATACAAGTG
1 TAAAATACAAGTG
53318570 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:53323111 original size:9 final size:9
Alignment explanation
Indices: 53323095--53323129 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
53323085 TAGGTTGAAA
53323095 AATTAATTT
1 AATTAATTT
*
53323104 AGTTAATTT
1 AATTAATTT
*
53323113 AATTAATTA
1 AATTAATTT
53323122 AATTAATT
1 AATTAATT
53323130 GAATAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:53323366 original size:18 final size:18
Alignment explanation
Indices: 53323335--53323376 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
53323325 GTAAAAGTTG
53323335 TATTTTTAATTTAAATAT
1 TATTTTTAATTTAAATAT
*
53323353 TATTATTTAA-TTAAATCT
1 TATT-TTTAATTTAAATAT
53323371 TATTTT
1 TATTTT
53323377 AACATAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTAATTTAAATAT
Found at i:53325802 original size:12 final size:12
Alignment explanation
Indices: 53325785--53325809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53325775 CTGAATACTT
53325785 TCAACCCTCTCA
1 TCAACCCTCTCA
53325797 TCAACCCTCTCA
1 TCAACCCTCTCA
53325809 T
1 T
53325810 GGTTTGACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAACCCTCTCA
Found at i:53328077 original size:13 final size:13
Alignment explanation
Indices: 53328043--53328079 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
53328033 TTTCCATTTA
53328043 AAATAATATTTTT
1 AAATAATATTTTT
*
53328056 -AATTA-ATTTTT
1 AAATAATATTTTT
53328067 AAATAATATTTTT
1 AAATAATATTTTT
53328080 TATTATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:53344749 original size:3 final size:3
Alignment explanation
Indices: 53344743--53344777 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
53344733 TTAAAAAAGC
53344743 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
53344778 CAGAACTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:53346027 original size:313 final size:308
Alignment explanation
Indices: 53345501--53346139 Score: 727
Period size: 313 Copynumber: 2.1 Consensus size: 308
53345491 ATCGTTTTTA
* * * * * * *
53345501 TAATTAGTTTCGAATCACATGTTTCATTGTTTGTTGTATGTTACTTTTAAATAAGCATTTGTGTT
1 TAATTAGTTTCAAACCACACGTTTCATTATTTATTGTATGTTACTTTTAAACAAGCATTTATGTT
* * ** *
53345566 TTTAAATTTGTGATTTCCACACACATATGTGTGTGATAGAATTTTTAATATATATTAATAATATT
66 TTTAAATTAGTGATTTCCACACACATACGCATGTAATAGAA-TTTTAATATATATTAATAATATT
* * * * * *
53345631 GTTAATTGAGTTGGAGCACAAATCAACTCGATACTAACTCAAAATTGTTGACAAAGCCATGATTA
130 GCTAATTGAGTTGGAGCACAAATAAACTCAACACTAACTCAAAATTGTTGACAAAACCATGATAA
* * * * * * *
53345696 ATAATTGTAGTACATTTAGTATTGTTTATTTGATGTATTTATGTGCTTAATTTTTGTTTTACTCA
195 ATAATTGAAGTACATTTAGTATTATTTATCTAATGTATTTATGTGCTTAAATCTCGTTTTACTCA
*
53345761 CAATCTAATATATATTTTTATTTTAATATCATACATATTTCATATGTTATTATAAT
260 CAAT-T--TA-ATA--TTT-TTTTAATATCATACATATTTCATATGTAATTATAAT
*
53345817 TAATTAATTTCAAACCACACGTTTCATTATTTATTGTATGTTACTTTTAAACACA-CATTTATG-
1 TAATTAGTTTCAAACCACACGTTTCATTATTTATTGTATGTTACTTTTAAACA-AGCATTTATGT
* * * *
53345880 TTTTAAATTAGT-AGTTTCCACACGCATACGCATGTAATAGGA-TTT-CTA-GTATTAATAA-AG
65 TTTTAAATTAGTGA-TTTCCACACACATACGCATGTAATAGAATTTTAATATATATTAATAATA-
* * * *
53345940 TTGCTAATTTGAGTTGGTGACACAAGTAAACTCAACACTAACTCATAGTTGTTGACAAAACCATG
128 TTGCTAA-TTGAGTTGGAG-CACAAATAAACTCAACACTAACTCAAAATTGTTGACAAAACCATG
* *
53346005 ATAAAT-ATATGAAGTGCATTTAGTATTATTTATCTAATGTATTTATGTGTTTAAATCTCGTTTT
191 ATAAATAAT-TGAAGTACATTTAGTATTATTTATCTAATGTATTTATGTGCTTAAATCTCGTTTT
* * *
53346069 ACTCATAATTTAATATTTTTTTAATATTATACATATTTCATATGTAATTATGAT
255 ACTCACAATTTAATATTTTTTTAATATCATACATATTTCATATGTAATTATAAT
*
53346123 TAATTAGTTTTAAACCA
1 TAATTAGTTTCAAACCA
53346140 AGGGCGAAGC
Statistics
Matches: 275, Mismatches: 42, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
306 48 0.17
307 3 0.01
309 3 0.01
310 3 0.01
311 15 0.05
312 15 0.05
313 100 0.36
314 1 0.00
315 33 0.12
316 53 0.19
317 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (308 bp):
TAATTAGTTTCAAACCACACGTTTCATTATTTATTGTATGTTACTTTTAAACAAGCATTTATGTT
TTTAAATTAGTGATTTCCACACACATACGCATGTAATAGAATTTTAATATATATTAATAATATTG
CTAATTGAGTTGGAGCACAAATAAACTCAACACTAACTCAAAATTGTTGACAAAACCATGATAAA
TAATTGAAGTACATTTAGTATTATTTATCTAATGTATTTATGTGCTTAAATCTCGTTTTACTCAC
AATTTAATATTTTTTTAATATCATACATATTTCATATGTAATTATAAT
Found at i:53355664 original size:44 final size:44
Alignment explanation
Indices: 53355611--53355796 Score: 138
Period size: 43 Copynumber: 4.3 Consensus size: 44
53355601 ACGTCGCTAA
* * * * *
53355611 CTTTTGCGGCGCTTACA-GAAAAAAATGCCGCTAACGATCATTTT
1 CTTTAGCGGCGCTTA-AGGAAAAAAACGCCACTAAAGATCATGTT
* *
53355655 CTTTAGCGGCGC-TAAGGAAATACACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGGAAAAAAACGCCACTAAAGATCATGTT
* * *
53355698 CTTTAGCGGCGCTTTA-GAAGAAAACGCCTCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAAGGAAAAAAACGCCACTAAAGA-TCA-TGTT
*** *
53355741 CTTTAGCGGCGCTT--GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAAGGAAAAAAACGCCACTAAAGA-TCA-TGTT
53355783 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
53355797 GTTTCACAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
42 39 0.32
43 68 0.57
44 13 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTTAGCGGCGCTTAAGGAAAAAAACGCCACTAAAGATCATGTT
Found at i:53355725 original size:43 final size:43
Alignment explanation
Indices: 53355653--53355796 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
53355643 AACGATCATT
* *
53355653 TTCTTTAGCGGCGC-TA-AGGAAATACACGCCACT-AAAGATCA-TG
1 TTCTTTAGCGGCGCTTATA-GAAA-AAACGCCGCTAAAAG-T-AGTG
*
53355696 TTCTTTAGCGGCGCTT-TAGAAGAAAACGCCTCTAAAAGTAGTG
1 TTCTTTAGCGGCGCTTATAGAA-AAAACGCCGCTAAAAGTAGTG
* **
53355739 TTCTTTAGCGGCGCTTGT-TCAAAAACGCCGCTAAAAGTAGTG
1 TTCTTTAGCGGCGCTTATAGAAAAAACGCCGCTAAAAGTAGTG
53355781 TTCTTTAGCGGCGCTT
1 TTCTTTAGCGGCGCTT
53355797 GTTTCACAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
42 37 0.41
43 45 0.50
44 8 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (43 bp):
TTCTTTAGCGGCGCTTATAGAAAAAACGCCGCTAAAAGTAGTG
Done.