Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 37 of 207
Found at i:10660932 original size:21 final size:21
Alignment explanation
Indices: 10660900--10660969 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
10660890 TTGAGCTTCA
*
10660900 GTTTAACCCTTATGGGTTTCC
1 GTTTAGCCCTTATGGGTTTCC
* * *
10660921 ATTTAGCTCTTATGAGCTTT-C
1 GTTTAGCCCTTATG-GGTTTCC
* *
10660942 GTTCAACCCTTATGGGTTTCC
1 GTTTAGCCCTTATGGGTTTCC
10660963 GTTTAGC
1 GTTTAGC
10660970 ATTTATGTGC
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 4 0.11
21 28 0.78
22 4 0.11
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (21 bp):
GTTTAGCCCTTATGGGTTTCC
Found at i:10664181 original size:10 final size:11
Alignment explanation
Indices: 10664158--10664183 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10664148 AGGCTTTATC
10664158 AAAATAAATAA
1 AAAATAAATAA
10664169 AAAATAAATAA
1 AAAATAAATAA
10664180 AAAA
1 AAAA
10664184 AAGTCAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:10673934 original size:20 final size:19
Alignment explanation
Indices: 10673878--10673949 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
10673868 CACATACGTA
* *
10673878 TTTAATTAATTTTTTAA-AT
1 TTTAA-TAATTTTATAATTT
* *
10673897 TTTAAAAATATTTTTAATATT
1 TTTAATAAT-TTTATAAT-TT
10673918 TTT-ATAATGTTTATAATTT
1 TTTAATAAT-TTTATAATTT
10673937 TTTAATAATTTTA
1 TTTAATAATTTTA
10673950 ATGACTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 3 0.07
19 21 0.48
20 16 0.36
21 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTAATAATTTTATAATTT
Found at i:10704223 original size:109 final size:109
Alignment explanation
Indices: 10704038--10704236 Score: 335
Period size: 109 Copynumber: 1.8 Consensus size: 109
10704028 TTTGTATGTG
* * *
10704038 TATATATATACCTTGTTAGAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTCATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
10704103 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATA
66 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATA
* ** *
10704147 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAATAACCTTTCTTGTCTAATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
10704212 TATGTATATGTTGATATGAAATGAT
66 TATGTATATGTTGATATGAAATGAT
10704237 ATGGATCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 83 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (109 bp):
TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATA
Found at i:10711875 original size:27 final size:27
Alignment explanation
Indices: 10711844--10711896 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
10711834 AAATCGGTAC
10711844 GTTTATGCTAGTAATATATTTCACTAT
1 GTTTATGCTAGTAATATATTTCACTAT
10711871 GTTTATGCTAGTAATATATTTCACTA
1 GTTTATGCTAGTAATATATTTCACTA
10711897 AGAATTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (27 bp):
GTTTATGCTAGTAATATATTTCACTAT
Found at i:10716428 original size:16 final size:16
Alignment explanation
Indices: 10716409--10716476 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
10716399 TATTAAACTT
*
10716409 AATTACTTTAATATTA
1 AATTAATTTAATATTA
*
10716425 AATTTAATATAATATTTA
1 AA-TTAATTTAATA-TTA
** *
10716443 TCTTGA-TTAATATTA
1 AATTAATTTAATATTA
*
10716458 TATTAATTTAATATTA
1 AATTAATTTAATATTA
10716474 AAT
1 AAT
10716477 CTTATTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
15 7 0.17
16 18 0.45
17 12 0.30
18 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
AATTAATTTAATATTA
Found at i:10716567 original size:39 final size:36
Alignment explanation
Indices: 10716517--10716598 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
10716507 AATTAAATTA
10716517 AATATTAAGATAA-TCACTTTAATATTAAATTAATAAAAT
1 AATATTAAGATAAGT-A--TTAA-ATTAAATTAATAAAAT
* *
10716556 ACTATTAAGATAAGTATTAAATTAAATTATTAAAAT
1 AATATTAAGATAAGTATTAAATTAAATTAATAAAAT
10716592 AATATTA
1 AATATTA
10716599 TTTTTAGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 21 0.54
37 4 0.10
39 13 0.33
40 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (36 bp):
AATATTAAGATAAGTATTAAATTAAATTAATAAAAT
Found at i:10718172 original size:12 final size:12
Alignment explanation
Indices: 10718155--10718180 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10718145 AGTTTGAACT
10718155 TAAATACAAAAA
1 TAAATACAAAAA
10718167 TAAATACAAAAA
1 TAAATACAAAAA
10718179 TA
1 TA
10718181 CAAAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAATACAAAAA
Found at i:10718179 original size:8 final size:8
Alignment explanation
Indices: 10718168--10718215 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
10718158 ATACAAAAAT
10718168 AAATACAA
1 AAATACAA
10718176 AAATACAA
1 AAATACAA
10718184 AAATAC-A
1 AAATACAA
*
10718191 AAAGAC-A
1 AAATACAA
*
10718198 AAAGACAA
1 AAATACAA
10718206 AAATACAA
1 AAATACAA
10718214 AA
1 AA
10718216 GACATAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 13 0.35
8 24 0.65
ACGTcount: A:0.75, C:0.12, G:0.04, T:0.08
Consensus pattern (8 bp):
AAATACAA
Found at i:10718193 original size:7 final size:7
Alignment explanation
Indices: 10718156--10718215 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
10718146 GTTTGAACTT
10718156 AAATACA
1 AAATACA
*
10718163 AAA-A-T
1 AAATACA
10718168 AAATACAA
1 AAATAC-A
10718176 AAATACAA
1 AAATAC-A
10718184 AAATACA
1 AAATACA
*
10718191 AAAGACA
1 AAATACA
*
10718198 AAAGACAA
1 AAATAC-A
10718206 AAATACA
1 AAATACA
10718213 AAA
1 AAA
10718216 GACATAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.07
6 2 0.04
7 20 0.44
8 20 0.44
ACGTcount: A:0.75, C:0.12, G:0.03, T:0.10
Consensus pattern (7 bp):
AAATACA
Found at i:10718205 original size:22 final size:22
Alignment explanation
Indices: 10718175--10718219 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10718165 AATAAATACA
*
10718175 AAAATACAAAAATACAAAAGAC
1 AAAAGACAAAAATACAAAAGAC
10718197 AAAAGACAAAAATACAAAAGAC
1 AAAAGACAAAAATACAAAAGAC
10718219 A
1 A
10718220 TAATAGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.13, G:0.07, T:0.07
Consensus pattern (22 bp):
AAAAGACAAAAATACAAAAGAC
Found at i:10727573 original size:27 final size:27
Alignment explanation
Indices: 10727506--10727593 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
10727496 CGAAAAGGTT
*
10727506 GTAAAATTACCAAAATACCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCAAAGG
* * * **
10727533 ATAAAATTATCGAAATACCTTTGAAGG
1 GTAAAATTACCGAAATACCCTCAAAGG
* * *
10727560 GTAAAATGACCGAATTACCC-CATTAGG
1 GTAAAATTACCGAAATACCCTCA-AAGG
10727587 GTAAAAT
1 GTAAAAT
10727594 GTCTTTTTGG
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCAAAGG
Found at i:10728047 original size:28 final size:27
Alignment explanation
Indices: 10727998--10728052 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
10727988 ACATCTGATA
*
10727998 CTGGTTCTGTATTGGGCTTAGGTCCAG
1 CTGGTTCTGTATTGGGCTTAGGCCCAG
10728025 CTGGTTCTGT-TGATGGGCTTAGGCCCAG
1 CTGGTTCTGTAT--TGGGCTTAGGCCCAG
10728053 TCTTTTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 1 0.04
27 10 0.40
28 14 0.56
ACGTcount: A:0.11, C:0.20, G:0.35, T:0.35
Consensus pattern (27 bp):
CTGGTTCTGTATTGGGCTTAGGCCCAG
Found at i:10737035 original size:44 final size:44
Alignment explanation
Indices: 10736856--10737035 Score: 122
Period size: 44 Copynumber: 4.2 Consensus size: 44
10736846 TCCGCTCTAT
* ** *
10736856 TGCAACTTCAGAGAGATGAGATCTGCGGTTTTAATCCACTCCAT
1 TGCAACTTCAGAGAGATAAGATCTGTTGTTTTAATCCACTCCAC
* * * * * ** *
10736900 TGCAACTCCA-AGGAGATAAGACCGGTTATTTCT-GTCTGCTCTAC
1 TGCAACTTCAGA-GAGATAAGATCTGTTGTTT-TAATCCACTCCAC
* * ** * *
10736944 TGCAACTTCAGGGAGATAAGA-CTATATG---CGATCCGC-CCTC
1 TGCAACTTCAGAGAGATAAGATCTGT-TGTTTTAATCCACTCCAC
10736984 TGCAACTTCAGAGAGATAAGATCTGTTGTTTTAATCCACTCCAC
1 TGCAACTTCAGAGAGATAAGATCTGTTGTTTTAATCCACTCCAC
10737028 TGCAACTT
1 TGCAACTT
10737036 TGATCTACTT
Statistics
Matches: 98, Mismatches: 28, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
40 24 0.24
41 7 0.07
43 8 0.08
44 58 0.59
45 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATCTGTTGTTTTAATCCACTCCAC
Found at i:10737103 original size:44 final size:44
Alignment explanation
Indices: 10737055--10737590 Score: 181
Period size: 44 Copynumber: 12.2 Consensus size: 44
10737045 TCGCTGCCTT
* * *
10737055 GGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
* * *
10737099 GGGAGAT-AGA-AT-TACTAGCTTCAATGTACTCCACTG-TAACCTCA
1 GGGAGATAAGATCTGTA--ATCTTCAATCTACTCCACTGCT-ACC-CA
* * * ** * * * ** **
10737143 GTGAGGTAAAATCTGCCATCTTCGATTTGCTCCACTATTACTTA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
* *
10737187 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
* * * *
10737231 GGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCGCTG-TAACCTCA
1 GGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-ACC-CA
* * ** * * * * * **
10737275 GGGAGGTAAAATCTGCCATC-CCTGATCTGCTCCACTACTGCTTA
1 GGGAGATAAGATCTGTAATCTTC-AATCTACTCCACTGCTACCCA
* * * *
10737319 GGGAGATAAAATTACTG---GCTTCAATGTACTCCACTG-TAACCTTA
1 GGGAGATAAGA-T-CTGTAATCTTCAATCTACTCCACTGCT-ACC-CA
* * ** * ** * **
10737363 GGGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTGCTTA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
* *
10737407 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
* * *
10737451 GGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTCA
1 GGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-ACC-CA
* * * ** * * * **
10737495 GGGAGGTAAAATCCGCCATCCTT-GATCTACTCCACTACTGCTTA
1 GGGAGATAAGATCTGTAAT-CTTCAATCTACTCCACTGCTACCCA
* * *
10737539 GGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
10737583 GGGAGATA
1 GGGAGATA
10737591 GAATTACTGG
Statistics
Matches: 348, Mismatches: 109, Indels: 70
0.66 0.21 0.13
Matches are distributed among these distances:
41 8 0.02
42 10 0.03
43 79 0.23
44 174 0.50
45 63 0.18
46 12 0.03
47 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
GGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCCA
Found at i:10737292 original size:132 final size:132
Alignment explanation
Indices: 10737055--10737327 Score: 458
Period size: 132 Copynumber: 2.1 Consensus size: 132
10737045 TCGCTGCCTT
*
10737055 GGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTT
1 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTT
* * * *
10737120 CAATGTACTCCACTGTAACCTCAGTGAGGTAAAATCTGCCAT-CTTCGATTTGCTCCACTATTAC
66 CAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCT-GATCTGCTCCACTACTAC
10737184 TTA
130 TTA
*
10737187 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTT
1 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTT
* *
10737252 CAATGTACTCCGCTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTGCT
66 CAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTACT
10737317 TA
131 TA
10737319 GGGAGATAA
1 GGGAGATAA
10737328 AATTACTGGC
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 130 0.98
133 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (132 bp):
GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTT
CAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCCCTGATCTGCTCCACTACTACT
TA
Found at i:10737410 original size:132 final size:132
Alignment explanation
Indices: 10737318--10737657 Score: 592
Period size: 132 Copynumber: 2.6 Consensus size: 132
10737308 ACTACTGCTT
* * *
10737318 AGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* *
10737383 TTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
10737448 CC
131 CC
10737450 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCAT-
* *
10737515 CTT-GATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTG
65 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTG
10737579 CCC
130 CCC
*
10737582 AGGGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
10737647 TTCGATCTGCT
66 TTCGATCTGCT
10737658 TCGCTGTCAA
Statistics
Matches: 197, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
131 3 0.02
132 191 0.97
133 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
CC
Found at i:10737480 original size:220 final size:220
Alignment explanation
Indices: 10737079--10737547 Score: 803
Period size: 220 Copynumber: 2.1 Consensus size: 220
10737069 GTAATCTTCA
* * ** *
10737079 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
* * *
10737144 TGAGGTAAAATCTGCCATCTTCGATTTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTT
*
10737209 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCGCTGTAACCTC
131 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
*
10737274 AGGGAGGTAAAATCTGCCATCCCTG
196 AGGGAGGTAAAATCCGCCATCCCTG
* * *
10737299 ATCTGCTCCACTACTGCTTAGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
*
10737364 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTT
10737429 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
131 CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
*
10737494 AGGGAGGTAAAATCCGCCATCCTTG
196 AGGGAGGTAAAATCCGCCATCCCTG
10737519 ATCTACTCCACTACTGCTTAGGGAGATAA
1 ATCTACTCCACTACTGCTTAGGGAGATAA
10737548 GATCTATAAT
Statistics
Matches: 233, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
220 233 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (220 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAAATTACTAGCTTCAATGTACTCCACTGTAACCTCAG
GGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTT
CAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
AGGGAGGTAAAATCCGCCATCCCTG
Found at i:10737648 original size:88 final size:88
Alignment explanation
Indices: 10737186--10737654 Score: 305
Period size: 88 Copynumber: 5.3 Consensus size: 88
10737176 ACTATTACTT
* * ** *
10737186 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
*
10737251 TCAATGTACTCCGCTGTAACCTC
66 TCAATGTACTCCACTGTAACCTC
* * * * ** *
10737274 AGGGAGGTAAAATCTGCCATC-CCTGATCTGCTCCACTACTGCTTAGGGAGATAAAATTACTGGC
1 AGGGAGGTAAAATCTGCCATCTTC-AATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGGC
*
10737338 TTCAATGTACTCCACTGTAACCTT
65 TTCAATGTACTCCACTGTAACCTC
* ** ** * *
10737362 AGGGAGGTAAAATCTGCCATCTTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAAT-
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTG
* * *
10737426 -CTTCAATCTATTCCACTGCT-GCC-C
63 GCTTCAATGTACTCCACTG-TAACCTC
* * * *** * * * * * *
10737450 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTA-AAAT-CCGC
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAGAATTACTGG
** * *
10737511 CATCCTTGATCTACTCCAC--T-ACTGCTT
64 C-T--TCAATGTACTCCACTGTAAC--CTC
* * *** *
10737538 AGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
*
10737603 TTAATGTACTCCACTGTAACCTC
66 TCAATGTACTCCACTGTAACCTC
* *
10737626 AGGGAGGTAAAATCCGCCATCTTCGATCT
1 AGGGAGGTAAAATCTGCCATCTTCAATCT
10737655 GCTTCGCTGT
Statistics
Matches: 289, Mismatches: 69, Indels: 46
0.72 0.17 0.11
Matches are distributed among these distances:
84 1 0.00
85 3 0.01
86 3 0.01
87 33 0.11
88 192 0.66
89 46 0.16
90 8 0.03
91 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (88 bp):
AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
TCAATGTACTCCACTGTAACCTC
Found at i:10769505 original size:27 final size:27
Alignment explanation
Indices: 10769475--10769531 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
10769465 GAATAGTGAC
*
10769475 TCGGGAAGTTAAATAACTAAGAAGTAA
1 TCGGGAAGTTAAAGAACTAAGAAGTAA
10769502 TCGGGAAGTTAAAGAACTAAGAAGTAA
1 TCGGGAAGTTAAAGAACTAAGAAGTAA
10769529 TCG
1 TCG
10769532 AGTGCCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.21
Consensus pattern (27 bp):
TCGGGAAGTTAAAGAACTAAGAAGTAA
Found at i:10775453 original size:6 final size:6
Alignment explanation
Indices: 10775437--10775497 Score: 63
Period size: 7 Copynumber: 9.8 Consensus size: 6
10775427 TTCCACCATT
10775437 TTTTTA CTTTTTA TTTTTA -TTTTA -TTTTA TTTATTA TTTTTA CTTTTCTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA -TTTT-TA
*
10775487 TTTATA TTTTT
1 TTTTTA TTTTT
10775498 GTATATTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
5 10 0.21
6 17 0.35
7 19 0.40
8 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:10775465 original size:23 final size:24
Alignment explanation
Indices: 10775438--10775483 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10775428 TCCACCATTT
10775438 TTTTACTTT-TTATTTTTA-TTTTA
1 TTTTA-TTTATTATTTTTACTTTTA
10775461 TTTTATTTATTATTTTTACTTTT
1 TTTTATTTATTATTTTTACTTTT
10775484 CTATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 14 0.67
24 4 0.19
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTATTTATTATTTTTACTTTTA
Found at i:10775473 original size:17 final size:16
Alignment explanation
Indices: 10775445--10775476 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10775435 TTTTTTTACT
10775445 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
10775461 TTTTATTTATTATTTT
1 TTTTATTT-TTATTTT
10775477 TACTTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:10775497 original size:14 final size:13
Alignment explanation
Indices: 10775444--10775515 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
10775434 ATTTTTTTAC
10775444 TTTTTATTT-T-T
1 TTTTTATTTATAT
*
10775455 ATTTTATTT-TAT
1 TTTTTATTTATAT
* *
10775467 TTATTATTTTTACT
1 TTTTTATTTATA-T
*
10775481 TTTCTATTTATAT
1 TTTTTATTTATAT
10775494 TTTTGTATATTATAT
1 TTTT-TAT-TTATAT
10775509 TTTTTAT
1 TTTTTAT
10775516 GCCTAATTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.18
12 8 0.16
13 6 0.12
14 16 0.33
15 10 0.20
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTTTATTTATAT
Found at i:10780376 original size:21 final size:20
Alignment explanation
Indices: 10780318--10780376 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
10780308 ATCACATATC
*
10780318 TAATAATTTCTCAAT-TAAAT
1 TAATAATTT-TAAATATAAAT
* *
10780338 TAATTATTATTAATTATAAAT
1 TAATAATT-TTAAATATAAAT
10780359 TAATAATTTGTAAATATA
1 TAATAATTT-TAAATATA
10780377 CGAGGAGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATAATTTTAAATATAAAT
Found at i:10787159 original size:41 final size:41
Alignment explanation
Indices: 10787102--10787180 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
10787092 TATTCGCCCA
* * *
10787102 TTGTACTTTGTATTGAGTGATTTTAGATTATAGTTGGTCTG
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTCTG
*
10787143 TTGTACTTTGTTTTGAGTGATTCTACACTATAGTTGGT
1 TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGT
10787181 TAAACATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (41 bp):
TTGTACTTTGTATTGAGTGATTCTACACTATAGTTGGTCTG
Found at i:10787498 original size:10 final size:10
Alignment explanation
Indices: 10787466--10787522 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 10
10787456 TTATGTCCGA
*
10787466 ATCTATAAAT
1 ATCTACAAAT
10787476 ATCTAATCAAAAT
1 ATCT-A-C-AAAT
10787489 ATCTACAAATAT
1 ATCTAC-AA-AT
10787501 CATCTACAAAT
1 -ATCTACAAAT
10787512 ATCTACAAAT
1 ATCTACAAAT
10787522 A
1 A
10787523 GGACGGCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
10 15 0.37
11 7 0.17
12 5 0.12
13 14 0.34
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.32
Consensus pattern (10 bp):
ATCTACAAAT
Found at i:10787505 original size:13 final size:13
Alignment explanation
Indices: 10787489--10787514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10787479 TAATCAAAAT
10787489 ATCTACAAATATC
1 ATCTACAAATATC
10787502 ATCTACAAATATC
1 ATCTACAAATATC
10787515 TACAAATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ATCTACAAATATC
Found at i:10792503 original size:8 final size:8
Alignment explanation
Indices: 10792492--10792526 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
10792482 TATTATGATT
10792492 TTATAGTA
1 TTATAGTA
10792500 TTATAGTA
1 TTATAGTA
10792508 TTATAGTA
1 TTATAGTA
10792516 TTATA-TA
1 TTATAGTA
10792523 TTAT
1 TTAT
10792527 GATTTTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (8 bp):
TTATAGTA
Found at i:10792689 original size:121 final size:121
Alignment explanation
Indices: 10792499--10792741 Score: 425
Period size: 121 Copynumber: 2.0 Consensus size: 121
10792489 ATTTTATAGT
* *
10792499 ATTATAGTATTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAA
1 ATTATAGTATTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAA
10792564 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
* * *
10792620 ATTATA-TTTTATAGTATTTTATATTATGATTTTAGTAATTTAATATTAAGAATATCTAATATTA
1 ATTATAGTATTATAGTATTATATATTATGATTTTAGTAAATTAATA-TAAGAATATCTAATATTA
10792684 AGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
65 AGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
10792741 A
1 A
10792742 ATATGATTAA
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 35 0.30
121 81 0.70
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (121 bp):
ATTATAGTATTATAGTATTATATATTATGATTTTAGTAAATTAATATAAGAATATCTAATATTAA
GAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:10797543 original size:107 final size:107
Alignment explanation
Indices: 10797357--10797569 Score: 408
Period size: 107 Copynumber: 2.0 Consensus size: 107
10797347 TTGGTTTGAA
*
10797357 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTTGTTTTAGTCATTCAATT
1 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
*
10797422 GGAAATAACTTTTCCCTATACTCATATACAAATATGTATTTG
66 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTTG
10797464 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
1 TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
10797529 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTT
66 GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTT
10797570 ATAACAAATT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (107 bp):
TCGATAGATAAAGAGATACTCAAAAGGTCATTTTGTTTGAATAAATTGGTTTTAGTCATTCAATT
GGAAATAACTTTTCCCTATACTCATATACAAATATGCATTTG
Found at i:10798285 original size:20 final size:19
Alignment explanation
Indices: 10798262--10798300 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10798252 CCAAACAAAT
10798262 AAAAAATAATATAATAACCC
1 AAAAAATAATATAA-AACCC
* *
10798282 AAAACATTATATAAAACCC
1 AAAAAATAATATAAAACCC
10798301 TTTTAGGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATAATATAAAACCC
Found at i:10798513 original size:19 final size:20
Alignment explanation
Indices: 10798471--10798514 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10798461 TTATTTATAA
*
10798471 TATATATTTAAAATTTGATC
1 TATATATTTAAAATATGATC
* *
10798491 TATATATTT-TAATATGATT
1 TATATATTTAAAATATGATC
10798510 TATAT
1 TATAT
10798515 TAAATCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
TATATATTTAAAATATGATC
Found at i:10816308 original size:14 final size:13
Alignment explanation
Indices: 10816285--10816321 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
10816275 ACAAAAAAAT
10816285 ATGTTTTTTTTT-
1 ATGTTTTTTTTTA
10816297 -TGTTTGTTTTTTA
1 ATGTTT-TTTTTTA
10816310 ATGTTTTTTTTT
1 ATGTTTTTTTTT
10816322 GTTTTCTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.23
12 6 0.27
13 6 0.27
14 5 0.23
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (13 bp):
ATGTTTTTTTTTA
Found at i:10816470 original size:30 final size:30
Alignment explanation
Indices: 10816408--10816470 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
10816398 ACTTATTTTA
**
10816408 TTGTTAATTTTATTATTATTTTAAAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
10816438 TTGTTAATTTTTTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
10816468 TTG
1 TTG
10816471 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:10820000 original size:578 final size:578
Alignment explanation
Indices: 10818904--10821800 Score: 4812
Period size: 579 Copynumber: 5.0 Consensus size: 578
10818894 ACCATGTGTG
*
10818904 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACTGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * *
10818969 GGCACACACGGTCGTGTCGTAGGCTATGTGCTAGGTCATGTGGATATGCACCTATAATCAATAAT
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
* *
10819034 TACACACGGTCGTACGTGGTGACTGTGTGTGGCACATGGTCGTGTGCACCCTTTTTGACCCCCTA
131 TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGA-CCCCTA
*
10819099 AATCAAGCAATGTCATGCATTATTCCTTGCATAACAAGACATGCCATATCTAGATCAATTCCTAG
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
* *
10819164 GTTCAAAAACACATTTAAATCATCAAGTACATGCTAAAATTTCATTCATTTCACTCCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
*
10819229 ATGTCATTCAAATGTACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
10819294 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
10819359 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
*
10819424 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAATATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* * *
10819483 TATTCGAAGTTGGGTCATACGACAGTGTCGTAGGTCGTATTCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* *
10819548 GGCACACACGGTCGTGTCGTATGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
* * *
10819613 TATACACGATCGTGTGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
131 TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
* *
10819678 ATCAAGTAATGTCATGCATTATTCCTTGCACAACAAGACATGACATATCTAGATCAATTCCTAGG
196 ATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAGG
*
10819743 TTCAAAAACACATTTAAATCATCAAATACATG-TGAAAATTTCATTCATTTCACACCTAACCAAT
261 TTCAAAAACACATTTAAATCATCAAATACATGCT-AAAATTTCATTCATTTCACGCCTAACCAAT
*
10819807 ATGTCATTCAAATGCACCACAATTAAAGATAATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
**
10819872 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAGTATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
10819937 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
10820002 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* * * * * *
10820061 TATTCGAAGTTGGGTCACACAACAGTGTCATAGGTCGTGTGCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * * * *
10820126 GGCTCACACAGTCATGTCGCAGGCCATGTGTTAGGCTGTGTAGATACTGCACCTATAATCAATAA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATA-TGCACCTATAATCAATAA
* * * * *
10820191 TTACACAAGGCCGTACGTGGTGACTGTATGTGGCACATGGCCGTATGCACCCTTTTTGACCCCTA
130 TTACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTA
* * * *
10820256 AATCAAGCAATGTCATGCATTATTCCTTGCACAATAAGACATTCCATATCTAGATGAAATCCTAG
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
* * *
10820321 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAATTTTAATTCATTTCACGTCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
* *
10820386 ATGCCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGG
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
10820451 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
*
10820516 TACCATTTCAAAGTATTAACACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
*
10820581 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTATA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
* * ** * * * *
10820640 TATTCGAAGTTGGGTCACACAACAGTGTCACAAGCCGTGTGCTAGACCGTCTAACAATCTGTTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* * * * * ** *
10820705 GGCTCACATGGTCGTGTTGCAAGCCATGTGCTAGGCTTTGTGGATATTGCA-CTGATAATCAATA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATA-TGCACCT-ATAATCAATA
*
10820769 ATTACACACGG-CTGTGCGTGGTGACTGTGTGTGGTACATGGCCGTGTGCACCCTTTTTGACCCC
129 ATTACACACGGTC-GTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCC
* * *
10820833 TAAATCAAGTAATGTCATGCATTGTTCCTTGCACAACAAGACATGCCATATTTAGATCAATTCCT
193 TAAATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCT
* * * *
10820898 AGGCTCAAAAACACATTTAAATCATCAAATACATGTTAAAATTTAATTCATTTCACGCCTAACTA
258 AGGTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCA
* * * * *
10820963 ATATGCCATTCAAATGCACCACAATTAAATATCAGTAAATTACTAATTTAGCTAAGTAAACACAT
323 ATATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACAT
10821028 GACATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAA
388 GACATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAA
10821093 CTTACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACT
453 CTTACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACT
* *
10821158 TTAAACACATATTCAAAACCAAACATTTCACTAGAAACACCATTATAATATAACATTTACA
518 TTAAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
*
10821219 TATTCAAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
1 TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
* *
10821284 GGCACACACGGTCGTGTCGCATGCTATGTGCTAGGCCGTGT-GCATATGCACCTATAACCAATAA
66 GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAG-ATATGCACCTATAATCAATAA
* *
10821348 TTACACACGGTCGTGTGTGGTGACTGTGTGTGACACATGGCCGTGTGCACCCTTTTTGACCCCTA
130 TTACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTA
* *
10821413 AATCAAGCAATGTCATGTATTATTCCTTGCACAACAAGACATGGCATATCTAGATCAATTCCTAG
195 AATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAG
*
10821478 GTTTAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
260 GTTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAAT
* * *
10821543 ATGTCATTCAAATGTACCATAATTAAATATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
325 ATGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGA
10821608 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
390 CATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACT
* *
10821673 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCTAACCAAAAATACTTT
455 TACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTT
*
10821738 AAACCCATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
520 AAACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
10821797 TATT
1 TATT
10821801 TACAACAAAA
Statistics
Matches: 2167, Mismatches: 143, Indels: 17
0.93 0.06 0.01
Matches are distributed among these distances:
577 1 0.00
578 921 0.43
579 1244 0.57
580 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (578 bp):
TATTCGAAGTTGGGTCATACGACAGTGTCGTAAGCCGTGTTCTAAACCGTGTAACAATCTATTTT
GGCACACACGGTCGTGTCGCAGGCTATGTGCTAGGCCGTGTAGATATGCACCTATAATCAATAAT
TACACACGGTCGTGCGTGGTGACTGTGTGTGGCACATGGCCGTGTGCACCCTTTTTGACCCCTAA
ATCAAGCAATGTCATGCATTATTCCTTGCACAACAAGACATGCCATATCTAGATCAATTCCTAGG
TTCAAAAACACATTTAAATCATCAAATACATGCTAAAATTTCATTCATTTCACGCCTAACCAATA
TGTCATTCAAATGCACCACAATTAAAGATCATTCAATTACTAATTTAGCTAAGTAAGCACATGAC
ATTAAACATCTATTCATGCTCAACCATCAACCAAATTAACCAAAGTACAAACATATTCAAAACTT
ACCATTTCAAAGTATTACCACTTAGCTCTTGACCATTAAGAATCAATCCAACCAAAAACACTTTA
AACACATATTCAAAACCAAACATTTCACTAGGAACACCATTATAGTATAACATTTACA
Found at i:10822392 original size:20 final size:20
Alignment explanation
Indices: 10822327--10822449 Score: 97
Period size: 20 Copynumber: 6.2 Consensus size: 20
10822317 GCATCATAGA
* *
10822327 TGCATAACAGAAGCATCGAAG
1 TGCA-AACAGAGGCACCGAAG
* *
10822348 TACAAACAGAGACA-CGAATG
1 TGCAAACAGAGGCACCGAA-G
* * *
10822368 TGCAATCAGCGGCACTGAAG
1 TGCAAACAGAGGCACCGAAG
**
10822388 TGCAAACAGAGATACCGAAG
1 TGCAAACAGAGGCACCGAAG
* * *
10822408 TG-TAATAGAGGCACCAAAG
1 TGCAAACAGAGGCACCGAAG
*
10822427 TGCAAACAGAGGCACTGAAG
1 TGCAAACAGAGGCACCGAAG
10822447 TGC
1 TGC
10822450 GCGCATACTG
Statistics
Matches: 77, Mismatches: 22, Indels: 7
0.73 0.21 0.07
Matches are distributed among these distances:
19 18 0.23
20 53 0.69
21 6 0.08
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (20 bp):
TGCAAACAGAGGCACCGAAG
Found at i:10822399 original size:40 final size:39
Alignment explanation
Indices: 10822343--10822449 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 39
10822333 ACAGAAGCAT
* *
10822343 CGAAGTACAAACAGAGACA-CGAATGTGCAATCAGCGGCAC
1 CGAAGTGCAAACAGAGACACCGAA-GTGCAAT-AGAGGCAC
* * *
10822383 TGAAGTGCAAACAGAGATACCGAAGTGTAATAGAGGCAC
1 CGAAGTGCAAACAGAGACACCGAAGTGCAATAGAGGCAC
* * *
10822422 CAAAGTGCAAACAGAGGCACTGAAGTGC
1 CGAAGTGCAAACAGAGACACCGAAGTGC
10822450 GCGCATACTG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 29 0.53
40 22 0.40
41 4 0.07
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (39 bp):
CGAAGTGCAAACAGAGACACCGAAGTGCAATAGAGGCAC
Found at i:10827837 original size:92 final size:91
Alignment explanation
Indices: 10827678--10827845 Score: 257
Period size: 92 Copynumber: 1.8 Consensus size: 91
10827668 CACGCCATCC
* * *
10827678 GAGGCTCCTCGTCTCGAGGCTTGACAAGCCCTTGCCGCCATTTCACCAAAATGGCAAGGGCATCC
1 GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAGGGCA-CC
10827743 TTCTCTCCCCGCCATCTCACACCACCT
65 TTCTCTCCCCGCCATCTCACACCACCT
* *
10827770 GAGGCTCCTTGTCCCGAGGCCTGACACGCCCCTGCCGCCATTTCACCAAAATGGCAAAGGTGC-C
1 GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGC-AAGG-GCAC
10827834 CTTCTCTCCCCG
64 CTTCTCTCCCCG
10827846 ACGTTGACTG
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
92 63 0.91
93 4 0.06
94 2 0.03
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.21
Consensus pattern (91 bp):
GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAGGGCACCT
TCTCTCCCCGCCATCTCACACCACCT
Found at i:10827913 original size:14 final size:14
Alignment explanation
Indices: 10827894--10827922 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10827884 AAAGGACAGA
10827894 AACAACAAAGAAGC
1 AACAACAAAGAAGC
10827908 AACAACAAAGAAGC
1 AACAACAAAGAAGC
10827922 A
1 A
10827923 TTACCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.21, G:0.14, T:0.00
Consensus pattern (14 bp):
AACAACAAAGAAGC
Found at i:10828132 original size:17 final size:18
Alignment explanation
Indices: 10828110--10828144 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10828100 TTTTTATTTT
10828110 AGAAAAA-AAAAGAATAA
1 AGAAAAAGAAAAGAATAA
*
10828127 AGAAAAAGAAAATAATAA
1 AGAAAAAGAAAAGAATAA
10828145 GTAAAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAAGAATAA
Found at i:10829143 original size:3 final size:3
Alignment explanation
Indices: 10829116--10829193 Score: 63
Period size: 3 Copynumber: 26.3 Consensus size: 3
10829106 TGTATCCCTC
* * *
10829116 TTA TCA TTA TT- TTA TCTA CTTA TTA TTA TTA TTA TTA -TA ATA TGA
1 TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
10829161 TTA TTA ATA TTA TTA TTA -CA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10829194 AGTATTCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 5 0.08
3 49 0.83
4 4 0.07
5 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:10829186 original size:23 final size:23
Alignment explanation
Indices: 10829123--10829188 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
10829113 CTCTTATCAT
*
10829123 TATT-TTATCTAC-TTATTATTAT
1 TATTATTAT-TACATTATTATTAA
* * *
10829145 TATTATTATAATATGATTATTAA
1 TATTATTATTACATTATTATTAA
10829168 TATTATTATTACATTATTATT
1 TATTATTATTACATTATTATT
10829189 GTTATAGTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATTACATTATTATTAA
Found at i:10846219 original size:29 final size:29
Alignment explanation
Indices: 10846124--10847598 Score: 1110
Period size: 29 Copynumber: 54.3 Consensus size: 29
10846114 GGTTTTTACA
10846124 TTAATTAAATTAGGTTAGGGTTAGGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGG-TTT
** * ** * * *
10846154 CAAATAAAATGATAAATCAAGGTAAGGGTTT
1 TTAATTAAAT--TAGGTTAGGGTTAGGGTTT
* *
10846185 TCAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846214 TTAATTAAGA-TAGGTTAGAGTTAGGG-TT
1 TTAATTAA-ATTAGGTTAGGGTTAGGGTTT
* *
10846242 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10846272 TTAACT-AA-T---TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846295 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846324 TTAGTTAAA--A---TA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846347 TT-ATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10846376 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
10846399 TTAATTAAATTAAAATAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** * *
10846428 TTAATTAAATTAAAATAGGGTAAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10846457 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846485 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846514 TTAATTAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10846542 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10846572 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
10846595 TTAATTAAATTAAAATAGGGTAAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTTAGGG--TTT
*
10846626 AATTAAATTAAATTAGGTTAGGGTTAGGGATT
1 --TT-AATTAAATTAGGTTAGGGTTAGGGTTT
*
10846658 TTAATTAAAATAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846687 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
10846710 TTAATTAAATTAAAATAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846739 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10846768 TTAATAAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10846796 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10846826 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** * *
10846849 TTAATTAAATTAAAATAGGGTAAGGGTCT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* **
10846878 TTAATTAATTTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10846906 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10846934 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10846962 TTAATT--A--A-GTTA-AGTTAGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10846985 TTAATTAAAATAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847014 TTAACTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** **
10847037 TTAATTAAATTAAATTA-GGTTAGATTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10847065 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10847093 TTAATT--A--A-GTTA-AGTTAGGGCTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847116 TTAATTAAAATAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847145 TTAACTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10847168 TTAATTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** * * *
10847191 TTAATTAAATTAAATTA-AGTTGGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10847219 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10847247 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847275 TTAATT--A--A-GTTA-AGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10847298 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847327 TT-ATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
10847356 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10847379 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10847407 TTAATT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
10847430 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** *
10847458 TTAATT--A--A-GTTA-ATTTAGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847481 TTAATTAAATTAGGTTAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
10847510 TTAATTAAATTAAGTTA-GGTTA-GGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847537 TTAATT--A--A-GTTA-AGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
10847560 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
10847589 TTAATCAAAT
1 TTAATTAAAT
10847599 AATGTCAAAA
Statistics
Matches: 1211, Mismatches: 125, Indels: 219
0.78 0.08 0.14
Matches are distributed among these distances:
22 12 0.01
23 270 0.22
24 39 0.03
25 9 0.01
26 15 0.01
27 21 0.02
28 299 0.25
29 471 0.39
30 27 0.02
31 13 0.01
32 13 0.01
33 2 0.00
34 20 0.02
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.43
Consensus pattern (29 bp):
TTAATTAAATTAGGTTAGGGTTAGGGTTT
Found at i:10846289 original size:52 final size:51
Alignment explanation
Indices: 10846173--10847581 Score: 893
Period size: 52 Copynumber: 26.2 Consensus size: 51
10846163 TGATAAATCA
* * *
10846173 AGGTAAGGGTTTTCAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAGATAGGTT
1 AGGTTAGGGTTTT-AATTAAATTAAGTTAGGGTTAGGGTTTTTAATT-A-A-A--TT
* * * * *
10846230 AGAGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAACTAATTT
1 AG-GTTAGGGTTTTAAT-TAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* * * *
10846283 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAGTTAAAAT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* * * *
10846335 AGGTTAGGGTTTTTATGTAAAATAGGTTAGGGTTAGGGTTTTTAACTAAATT
1 AGGTTAGGGTTTTAAT-TAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
** *
10846387 AGGTTAGGGTTTTTAATTAAATTAAAATAGGGTAAGGGTTTTTAATTAAATTAAAAT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAA-T----T
* * *
10846444 AGGGTAAGAGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGTTAG-GGTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATT-AA--A--TT
* * * *
10846501 AGGGTTAGGGATTTTAATTAAAATAGGTTAGGGTTAGGG-TTTTCATGTAAAAT
1 A-GGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAAT-TAAATT
* * *
10846554 AGGTTAGGGTTAGGGTT--TTTAACTAAATTA-GGTTAGGGTTTTTAATTAAATTAAAAT
1 AGGTTAGGGTT----TTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAA-T----T
* * *
10846611 AGGGTAAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTAGGGATTTTAATTAAAAT
1 A-GGTTAGGG-TTTTAATTAAATT--A--A-GTTAGGGTTAGGGTTTTTAATTAAATT
* * *
10846669 AGGTTAGGGTTAGGGTT--TTTAACTAAATTA-GGTTAGGGTTTTTAATTAAATTAAAAT
1 AGGTTAGGGTT----TTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAA-T----T
* * * *
10846726 AGGGTAAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGATTTTAATAAAAATAGGTT
1 A-GGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAAT--TAA-A--TT
* * * *
10846784 AGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAACTAAATT
1 A-GGTTAGGGTTTTAAT-TAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
** *
10846837 AGGTTAGGGTTTTTAATTAAATTAAAATAGGGTAAGGGTCTTTAATTAATTTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGG--TTT--TTAA-TTAAATT
*
10846894 AGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGG--TTT--TT-AATTAAATT
* * *
10846950 AGGTTAGGG-TTT--TT-AATTAAGTTA-AGTTAGGATTTTTAATTAAAAT
1 AGGTTAGGGTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* * *
10846996 AGGTTAGGGTTAGGGTT--TTTAACTAAATTA-GGTTAGGGATTTTAATTAAATTAAATT
1 AGGTTAGGGTT----TTAATTAAATTAAGTTAGGGTTAGGG--TTT--TT-AATTAAATT
** * *
10847053 AGGTTAGATTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAGTT
1 AGGTTAG-GGTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* * * *
10847104 AAGTTAGGGCTTTTAATTAAAATAGGTTAGGGTTAGGGTTTTTAACTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* *
10847156 AGGTTAGGGATTTTAATTAAATTAGGTTAGGGATT----TTAATTAAATTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGG-TTAGGGTT--TTTAATTAAATT
* * *
10847207 AAGTTGGGGATTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGG--TTT--TT-AATTAAATT
*
10847263 AGGTTAGGG-TTT--TT-AATTAAGTTA-AGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATT-AA--A--TT
* * * *
10847314 AGGGTTAGGGTTTTTATGTAAAATAGGTTAGGGTTAGGGTTTTTAACTAAATT
1 A-GGTTAGGGTTTTAAT-TAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
*
10847367 AGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* *
10847418 AGGTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAGTT
1 AGGTTAGGG-TTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
** * * *
10847469 AATTTAGGATTTTTAATTAAATTAGGTTAGGGTAAGGGTTTTTAATTAAATT
1 AGGTTAGG-GTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
* ** * * *
10847521 AAGTTA-GGTTAGGATTTTAATTAAGTTA-AGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTT-TTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
10847571 AGGTTAGGGTT
1 AGGTTAGGGTT
10847582 AGGGTTTTTA
Statistics
Matches: 1099, Mismatches: 143, Indels: 226
0.75 0.10 0.15
Matches are distributed among these distances:
46 21 0.02
47 7 0.01
49 11 0.01
50 29 0.03
51 222 0.20
52 293 0.27
53 61 0.06
54 18 0.02
55 13 0.01
56 80 0.07
57 147 0.13
58 160 0.15
59 6 0.01
60 5 0.00
61 3 0.00
62 4 0.00
63 19 0.02
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (51 bp):
AGGTTAGGGTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATT
Found at i:10846407 original size:23 final size:23
Alignment explanation
Indices: 10846261--10847581 Score: 565
Period size: 23 Copynumber: 49.4 Consensus size: 23
10846251 AATAGGTTAG
* *
10846261 GGTTAGGGTTTTTAACTAATTTA
1 GGTTAGGGTTTTTAATTAAATTA
10846284 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
10846307 GGTTAGGGTTAGGGATTTTAGTTAAAATA
1 GGTTAGGG-T-----TTTTAATTAAATTA
10846336 GGTTAGGGTTTTT-ATGTAAAATAGGTTA
1 GGTTAGGGTTTTTAAT-T--AA-A--TTA
*
10846364 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10846388 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
10846416 GGGTAAGGGTTTTTAATTAAATTAAAATA
1 -GGTTAGGGTTTTTAATTAAA-T----TA
* *
10846445 GGGTAAGAGTTTTTAATTAAATTAAATTA
1 -GGTTAGGGTTTTT-----AATTAAATTA
10846474 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
10846497 GGTTAGGGTTAGGGATTTTAATTAAAATA
1 GGTTAGGG-T-----TTTTAATTAAATTA
*
10846526 GGTTAGGGTTAGGGTTTTCATGTAAAATAGGTTA
1 GGTTAGGG-T----TTTTAAT-T-AA--A--TTA
*
10846560 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10846584 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
10846612 GGGTAAGGGTTTTTAATTAAATTAAATTA
1 -GGTTAGGG-T-TT--TT-AATTAAATTA
10846641 GGTTAGGGTTAGGGATTTTAATTAAAATAGGTTA
1 GGTTAGGG-T-----TTTTAATT--AA-A--TTA
*
10846675 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10846699 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
10846727 GGGTAAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
* *
10846751 GGTTAGGGTTAGGGATTTTAATAAAAATA
1 GGTTAGGG-T-----TTTTAATTAAATTA
*
10846780 GGTTAGGGTTAGGGTTTTCATGTAAAATAGGTTA
1 GGTTAGGG-T----TTTTAAT-T-AA--A--TTA
*
10846814 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10846838 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
* *
10846866 GGGTAAGGGTCTTTAATTAATTTAAATTA
1 -GGTTAGGGTTTTTAA-T----TAAATTA
10846895 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
10846923 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
10846951 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
10846974 AGTTAGGATTTTTAATTAAAATAGGTTA
1 GGTTAGGGTTTTTAATT--AA-A--TTA
*
10847002 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10847026 GGTTAGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
**
10847054 GGTTAGATTTTTTAATTAAATTAAATTA
1 GGTTAG--GGTTT--TT-AATTAAATTA
*
10847082 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
10847105 AGTTAGGGCTTTTAATTAAAATAGGTTA
1 GGTTAGGGTTTTTAATT--AA-A--TTA
*
10847133 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
10847157 GGTTAGGGATTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
10847180 GGTTAGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
* *
10847208 AGTTGGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
10847236 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
10847264 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
10847287 AGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
10847310 GGTTAGGGTTAGGGTTTTTATGTAAAATAGGTTA
1 GGTTAGGG-T----TTTTAAT-T-AA--A--TTA
*
10847344 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
10847368 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
10847396 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
10847419 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
10847447 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
** *
10847470 ATTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
10847493 GGTTAGGGTAAGGGTTTTTAATTAAATTA
1 GG-T----T-AGGGTTTTTAATTAAATTA
* * *
10847522 AGTTAGGTTAGGATTTTAATTAAGTTA
1 GGTTA-G---GGTTTTTAATTAAATTA
*
10847549 AGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
10847572 GGTTAGGGTT
1 GGTTAGGGTT
10847582 AGGGTTTTTA
Statistics
Matches: 1058, Mismatches: 90, Indels: 300
0.73 0.06 0.21
Matches are distributed among these distances:
22 1 0.00
23 336 0.32
24 44 0.04
25 17 0.02
26 24 0.02
27 36 0.03
28 261 0.25
29 227 0.21
30 28 0.03
31 4 0.00
32 9 0.01
33 7 0.01
34 32 0.03
35 32 0.03
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:10849761 original size:14 final size:15
Alignment explanation
Indices: 10849744--10849777 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10849734 AATAAATATC
10849744 TAAAAATAT-ATAAA
1 TAAAAATATCATAAA
*
10849758 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
10849773 TAAAA
1 TAAAA
10849778 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:10850005 original size:22 final size:22
Alignment explanation
Indices: 10849975--10850016 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10849965 ATTTGGAGAT
*
10849975 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
10849997 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
10850017 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:10850024 original size:30 final size:30
Alignment explanation
Indices: 10849988--10850046 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10849978 TTGAAGGAAA
*
10849988 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
10850018 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
10850047 AATTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:10850037 original size:52 final size:51
Alignment explanation
Indices: 10849966--10850068 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
10849956 TTAATATGGA
* * * * *
10849966 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGAAATTGAGAG
* *
10850017 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAACGAAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGAAATTGAGAG
10850069 AATTTTTGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 4 0.09
52 40 0.91
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.34
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGAAATTGAGAG
Found at i:10850042 original size:22 final size:22
Alignment explanation
Indices: 10850018--10850087 Score: 113
Period size: 22 Copynumber: 3.2 Consensus size: 22
10850008 ATTTGAGAGT
* *
10850018 TTGAGAGAATTTTGGAAGGAAT
1 TTGAGAGAATTTTTGAAGGAAA
*
10850040 TTGAGAGAATTTTTGAACGAAA
1 TTGAGAGAATTTTTGAAGGAAA
10850062 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
10850084 TTGA
1 TTGA
10850088 TATTGAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.39, C:0.01, G:0.27, T:0.33
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:10854255 original size:25 final size:24
Alignment explanation
Indices: 10854223--10854290 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
10854213 ATATAATAAG
**
10854223 ATAATTAAATTAATTATTATGTA-
1 ATAATTAAATTAATTAAAATGTAC
10854246 ATATGATTAAATTGAATTAAAATGTAC
1 ATA--ATTAAATT-AATTAAAATGTAC
10854273 ATAATTAAATTAAGTTAA
1 ATAATTAAATTAA-TTAA
10854291 GTTAATAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 3 0.08
24 2 0.05
25 20 0.53
26 10 0.26
27 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (24 bp):
ATAATTAAATTAATTAAAATGTAC
Found at i:10870316 original size:26 final size:24
Alignment explanation
Indices: 10870271--10870318 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
10870261 ATATTATTGG
10870271 TATATAAAAATTGAATTAAAATTT
1 TATATAAAAATTGAATTAAAATTT
* *
10870295 TATATATACAATTGTATATAAAAT
1 TATATA-AAAATTGAAT-TAAAAT
10870319 CAAAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 8 0.40
26 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TATATAAAAATTGAATTAAAATTT
Found at i:10881147 original size:11 final size:11
Alignment explanation
Indices: 10881131--10881160 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
10881121 CTGCTTTTCT
10881131 GCATTTTCTTG
1 GCATTTTCTTG
10881142 GCATTTTCTTG
1 GCATTTTCTTG
10881153 GCATTTTC
1 GCATTTTC
10881161 CTGGATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.20, G:0.17, T:0.53
Consensus pattern (11 bp):
GCATTTTCTTG
Found at i:10885854 original size:21 final size:20
Alignment explanation
Indices: 10885826--10885864 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10885816 TTTTTTTTTG
*
10885826 AATTGAGTCGAGTAAAATAA
1 AATTGAGTCAAGTAAAATAA
*
10885846 AATTCGAGTCAAGTTAAAT
1 AATT-GAGTCAAGTAAAAT
10885865 CGAGTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (20 bp):
AATTGAGTCAAGTAAAATAA
Found at i:10885879 original size:16 final size:16
Alignment explanation
Indices: 10885833--10885875 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
10885823 TTGAATTGAG
*
10885833 TCGAGTAAAATAAAAT
1 TCGAGTAAAATTAAAT
* *
10885849 TCGAGTCAAGTTAAA-
1 TCGAGTAAAATTAAAT
10885864 TCGAGTAAAATT
1 TCGAGTAAAATT
10885876 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (16 bp):
TCGAGTAAAATTAAAT
Found at i:10886039 original size:15 final size:17
Alignment explanation
Indices: 10886011--10886046 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
10886001 TTTAGGCCCT
10886011 AAAATTATTATTTTA-A
1 AAAATTATTATTTTATA
10886027 AAAATTATT-TTTTATA
1 AAAATTATTATTTTATA
10886043 AAAA
1 AAAA
10886047 GAAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTATTATTTTATA
Found at i:10886479 original size:11 final size:11
Alignment explanation
Indices: 10886431--10886487 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
10886421 CCGTCATGAA
10886431 TTTTAAAATTT
1 TTTTAAAATTT
*
10886442 TTTTATATATATT
1 TTTTA-AAAT-TT
*
10886455 TTTTAGAAA-AT
1 TTTTA-AAATTT
10886466 TTTTAAAATTT
1 TTTTAAAATTT
*
10886477 TTTTATAATTT
1 TTTTAAAATTT
10886488 CTTAAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.08
11 22 0.59
12 3 0.08
13 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:10886781 original size:24 final size:24
Alignment explanation
Indices: 10886753--10886803 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
10886743 AACTCAAAAG
10886753 TCAGATTTTTTTCAATTTTTTTAA
1 TCAGATTTTTTTCAATTTTTTTAA
*
10886777 TCAGATTTTTTTTAATTTTTTTAA
1 TCAGATTTTTTTCAATTTTTTTAA
10886801 TCA
1 TCA
10886804 AATTGAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (24 bp):
TCAGATTTTTTTCAATTTTTTTAA
Found at i:10893268 original size:9 final size:9
Alignment explanation
Indices: 10893254--10893286 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10893244 AAGTGTTATG
10893254 ATAAACTAT
1 ATAAACTAT
10893263 ATAAACTAT
1 ATAAACTAT
10893272 ATAAA-TAT
1 ATAAACTAT
10893280 ACTAAAC
1 A-TAAAC
10893287 CTTTAGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAAACTAT
Found at i:10898016 original size:27 final size:28
Alignment explanation
Indices: 10897966--10898035 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 28
10897956 AATAAAAAAA
*
10897966 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
10897994 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
10898021 TTACCAAAATATATA
1 TTACCAAAATATATA
10898036 AAAAAAACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.60
28 11 0.28
29 5 0.12
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:10898132 original size:27 final size:27
Alignment explanation
Indices: 10898100--10898168 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
10898090 GGAGGGAATA
10898100 CTGTTGGCGGCACCAAACAAAGGAACC
1 CTGTTGGCGGCACCAAACAAAGGAACC
* * **
10898127 CTGTTGGCGGCACCAACCAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAAGGAACC
*
10898154 CTGTTGGTGGCACCA
1 CTGTTGGCGGCACCA
10898169 CTCGTGTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.17
Consensus pattern (27 bp):
CTGTTGGCGGCACCAAACAAAGGAACC
Found at i:10898463 original size:3 final size:3
Alignment explanation
Indices: 10898455--10898500 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
10898445 AATTTTATAG
10898455 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10898501 AGATGTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10898527 original size:12 final size:12
Alignment explanation
Indices: 10898452--10898629 Score: 86
Period size: 12 Copynumber: 14.7 Consensus size: 12
10898442 AAAAATTTTA
10898452 TAGTATTATTAT
1 TAGTATTATTAT
10898464 TA-TATTATTAT
1 TAGTATTATTAT
*
10898475 TATTATTATTAT
1 TAGTATTATTAT
*
10898487 TATTATTATTAT
1 TAGTATTATTAT
*
10898499 TAAG-A-TGTTACT
1 T-AGTATTATTA-T
*
10898511 TAGTATTATTGT
1 TAGTATTATTAT
* **
10898523 TAGTA-AAAAAT
1 TAGTATTATTAT
*
10898534 TAGTATTATTTT
1 TAGTATTATTAT
10898546 TA-TAGTTAGTTAT
1 TAGTA-TTA-TTAT
*
10898559 TAATAATT-TTAGT
1 TAGT-ATTATTA-T
10898572 TAGTATTATT-T
1 TAGTATTATTAT
10898583 T-GTATATAAAATTAT
1 TAGTAT-T---ATTAT
*
10898598 TAATATTATTAT
1 TAGTATTATTAT
*
10898610 T-GTGTTAGTTAT
1 TAGTATTA-TTAT
*
10898622 TAGGATTA
1 TAGTATTA
10898630 GTGGTTAAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
10 4 0.03
11 33 0.26
12 58 0.46
13 19 0.15
14 6 0.05
15 4 0.03
16 3 0.02
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.55
Consensus pattern (12 bp):
TAGTATTATTAT
Found at i:10899258 original size:18 final size:18
Alignment explanation
Indices: 10899230--10899274 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10899220 TTGATATGGT
* *
10899230 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
10899248 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
10899266 TGGTGGCGA
1 TGGTGGCGA
10899275 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:10901673 original size:14 final size:14
Alignment explanation
Indices: 10901654--10901682 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10901644 TAACTGAAAC
10901654 TAGAATAATTAAAT
1 TAGAATAATTAAAT
10901668 TAGAATAATTAAAT
1 TAGAATAATTAAAT
10901682 T
1 T
10901683 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:10902804 original size:28 final size:29
Alignment explanation
Indices: 10902773--10902842 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
10902763 CTTTTTTTTG
*
10902773 ATATATTTTGGTAAAT-AAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
10902801 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
10902830 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
10902843 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:10902909 original size:19 final size:19
Alignment explanation
Indices: 10902881--10902928 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10902871 AAACCCATAA
* * *
10902881 TAAAACATTACAAAAATAT
1 TAAAATATTAAAAAAATAC
10902900 TAAAATATTAAAAAAATAC
1 TAAAATATTAAAAAAATAC
*
10902919 CAAAATATTA
1 TAAAATATTA
10902929 TATATATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAATATTAAAAAAATAC
Found at i:10903681 original size:10 final size:10
Alignment explanation
Indices: 10903609--10903766 Score: 80
Period size: 10 Copynumber: 15.9 Consensus size: 10
10903599 AATTACCTTA
*
10903609 TTTTCTTT-T
1 TTTTCTTTCC
*
10903618 TTTTCCTTCC
1 TTTTCTTTCC
*
10903628 TTTCCTCTT-C
1 TTTTCT-TTCC
*
10903638 TTCTTCTTTCTT
1 TT-TTCTTTC-C
*
10903650 TTTTTTTTCTC
1 TTTTCTTTC-C
*
10903661 TTCTCCTTTCC
1 TT-TTCTTTCC
10903672 TTTTCTTTCC
1 TTTTCTTTCC
10903682 TTATT-TTT-C
1 TT-TTCTTTCC
10903691 -TTTCTTTCC
1 TTTTCTTTCC
***
10903700 TCCCCTTTCC
1 TTTTCTTTCC
10903710 TTTTCTTTCC
1 TTTTCTTTCC
10903720 TTCTT-TTT-C
1 TT-TTCTTTCC
10903729 -TTTCTTTCC
1 TTTTCTTTCC
* *
10903738 TCTCCTTTCC
1 TTTTCTTTCC
* *
10903748 TTTTCCTTCT
1 TTTTCTTTCC
10903758 TTTTCTTTC
1 TTTTCTTTC
10903767 TTCCTTTCTT
Statistics
Matches: 111, Mismatches: 24, Indels: 27
0.69 0.15 0.17
Matches are distributed among these distances:
7 4 0.04
8 8 0.07
9 11 0.10
10 60 0.54
11 21 0.19
12 7 0.06
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:10903714 original size:38 final size:38
Alignment explanation
Indices: 10903665--10903774 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
10903655 TTTCTCTTCT
10903665 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* *
10903703 CCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
10903741 CCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 CCTTTCCTTTTCTTTCCTTATT-TTTCTTTCTTTC
10903775 TTTCTTCTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 5 0.08
38 61 0.92
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
Found at i:10903727 original size:14 final size:14
Alignment explanation
Indices: 10903710--10903783 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
10903700 TCCCCTTTCC
10903710 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
10903724 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
10903739 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
10903758 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
10903770 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
10903783 T
1 T
10903784 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:10903735 original size:28 final size:28
Alignment explanation
Indices: 10903704--10903783 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
10903694 CTTTCCTCCC
10903704 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
10903732 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
10903766 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
10903784 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:10903743 original size:76 final size:76
Alignment explanation
Indices: 10903604--10903774 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 76
10903594 ATAAAAATTA
* * * *
10903604 CCTTA-TTTTCTTTTTTTTCCTTCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTTTCTCTTCTCCT
1 CCTTATTTTTC-TTTCTTTCCTCCCTTTCCTCTTCTTCTTCCTTCTTTTTTTTTTCTCCTCTCCT
*
10903668 TTCCTTTTCTTT
65 TTCCTTTTCCTT
*
10903680 CCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTC-T-TTCCTTCTTTTTCTTTCTT-TCCTCTC
1 CCTTATTTTTCTTTCTTTCCT-CCCTTTCCTCTTCTTCTTCCTTCTTTTT-TTT-TTCTCCTCTC
10903742 CTTTCCTTTTCCTT
63 CTTTCCTTTTCCTT
* *
10903756 -CTTTTTCTTTCTTCCTTTC
1 CCTTATT-TTTCTTTCTTTC
10903775 TTTCTTCTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
75 16 0.20
76 48 0.59
77 18 0.22
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (76 bp):
CCTTATTTTTCTTTCTTTCCTCCCTTTCCTCTTCTTCTTCCTTCTTTTTTTTTTCTCCTCTCCTT
TCCTTTTCCTT
Found at i:10903767 original size:10 final size:10
Alignment explanation
Indices: 10903609--10903786 Score: 56
Period size: 10 Copynumber: 16.7 Consensus size: 10
10903599 AATTACCTTA
10903609 TTTTCTTT-T
1 TTTTCTTTCT
* *
10903618 TTTTCCTTCC
1 TTTTCTTTCT
*
10903628 TTTCCTCTTCT
1 TTTTCT-TTCT
*
10903639 TCTTCTTTCTT
1 TTTTCTTTC-T
*
10903650 TTTTTTTTCT
1 TTTTCTTTCT
* *
10903660 CTTCTCCTTTCC
1 -TT-TTCTTTCT
10903672 TTTTCTTTCCTTAT
1 TTTTCTTT-C---T
10903686 TTTTCTTTC-
1 TTTTCTTTCT
* ** *
10903695 TTTCCTCCCC
1 TTTTCTTTCT
*
10903705 TTTCCTTT-T
1 TTTTCTTTCT
* *
10903714 CTTTCCTTCT
1 TTTTCTTTCT
10903724 TTTTCTTTCT
1 TTTTCTTTCT
*
10903734 TTCCTCTCCTTTCC
1 TT--T-T-CTTTCT
*
10903748 TTTTCCTTCT
1 TTTTCTTTCT
10903758 TTTTCTTTCT
1 TTTTCTTTCT
10903768 TCCTTTCTTTCT
1 T--TTTCTTTCT
*
10903780 TCTTCTT
1 TTTTCTT
10903787 CCCCTCTCCT
Statistics
Matches: 122, Mismatches: 30, Indels: 33
0.66 0.16 0.18
Matches are distributed among these distances:
9 18 0.15
10 49 0.40
11 21 0.17
12 17 0.14
13 2 0.02
14 15 0.12
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:10903779 original size:22 final size:23
Alignment explanation
Indices: 10903744--10903786 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10903734 TTCCTCTCCT
*
10903744 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
10903767 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
10903787 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:10903784 original size:28 final size:30
Alignment explanation
Indices: 10903706--10903787 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
10903696 TTCCTCCCCT
*
10903706 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
10903738 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
10903767 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
10903788 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:10903797 original size:42 final size:40
Alignment explanation
Indices: 10903685--10903800 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
10903675 TCTTTCCTTA
* *
10903685 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
10903723 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
10903763 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
10903801 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:10903908 original size:27 final size:27
Alignment explanation
Indices: 10903835--10903911 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
10903825 AATTCAAGGG
** * *
10903835 TGGTGCCGCCAACAGGGAACCTTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTATT
10903862 TGGTGCCGCCAACAGGGTTCCCTTATT
1 TGGTGCCGCCAACAGGGTTCCCTTATT
*
10903889 TGGTGCCGCCAACAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
10903912 CCACCCAGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTATT
Found at i:10903965 original size:18 final size:18
Alignment explanation
Indices: 10903942--10903977 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10903932 TCAATCCAGT
* *
10903942 TTTTTTTTCTATTTTTTG
1 TTTTTTTTATATATTTTG
10903960 TTTTTTTTATATATTTTG
1 TTTTTTTTATATATTTTG
10903978 GTAAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTTTTTATATATTTTG
Found at i:10904607 original size:19 final size:18
Alignment explanation
Indices: 10904585--10904625 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
10904575 TTGATTAAGA
* *
10904585 AATTAGTTGTTGAATGTT
1 AATTAATTGTTCAATGTT
10904603 CAATTAATTGTTCAATGTT
1 -AATTAATTGTTCAATGTT
10904622 AATT
1 AATT
10904626 CATGTGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (18 bp):
AATTAATTGTTCAATGTT
Found at i:10906511 original size:21 final size:21
Alignment explanation
Indices: 10906486--10906533 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 21
10906476 AGTAATAATG
10906486 ATATTGTCAACATATATCATA
1 ATATTGTCAACATATATCATA
10906507 ATATTGTCAACATATATCATA
1 ATATTGTCAACATATATCATA
10906528 AGTATT
1 A-TATT
10906534 ATTTGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (21 bp):
ATATTGTCAACATATATCATA
Found at i:10909773 original size:3 final size:3
Alignment explanation
Indices: 10909765--10909805 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10909755 TACAAAACAA
10909765 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10909806 AGTAATGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10915704 original size:21 final size:21
Alignment explanation
Indices: 10915680--10915723 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10915670 TTTACACATC
10915680 ATCTTCATTT-TTTT-TCCATTT
1 ATCTTC-TTTATTTTCTCC-TTT
10915701 ATCTTCTTTATTTTCTCCTTT
1 ATCTTCTTTATTTTCTCCTTT
10915722 AT
1 AT
10915724 TATTTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 15 0.71
22 3 0.14
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (21 bp):
ATCTTCTTTATTTTCTCCTTT
Found at i:10916176 original size:17 final size:17
Alignment explanation
Indices: 10916139--10916178 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10916129 GAAAAAGTGC
* *
10916139 AAAAATAGAAAAATATG
1 AAAAAAAGAAAAAAATG
*
10916156 AAAAAAAGAAAAAAATT
1 AAAAAAAGAAAAAAATG
10916173 AAAAAA
1 AAAAAA
10916179 TATTATGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAAGAAAAAAATG
Found at i:10917420 original size:96 final size:96
Alignment explanation
Indices: 10917301--10917476 Score: 289
Period size: 96 Copynumber: 1.8 Consensus size: 96
10917291 AATTGATCTC
*
10917301 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATGAGGGTTTTCAATGTCCAATTAA
1 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
10917366 ATATCCAAATAGAGAGAATACGATTAAGCTA
66 ATATCCAAATAGAGAGAATACGATTAAGCTA
* * * **
10917397 TCACCTTTTGTGCAATGTTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCTTTTAA
1 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
*
10917462 ATATCCAACTAGAGA
66 ATATCCAAATAGAGA
10917477 AGAAAGTAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (96 bp):
TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
ATATCCAAATAGAGAGAATACGATTAAGCTA
Found at i:10927632 original size:39 final size:39
Alignment explanation
Indices: 10927583--10927660 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
10927573 GGAACGAAGG
*
10927583 AAAAGAAGAAAAAGAAAAGAAAAGAA-AAGAATGAGAAAA
1 AAAAGAAGAAAAAG-AAAGAAAAGAAGAAGAAGGAGAAAA
* **
10927622 AAAATAAGAAAAAGAAAGAAGGGAAGAAGAAGGAGAAAA
1 AAAAGAAGAAAAAGAAAGAAAAGAAGAAGAAGGAGAAAA
10927661 GAAACATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 9 0.26
39 25 0.74
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (39 bp):
AAAAGAAGAAAAAGAAAGAAAAGAAGAAGAAGGAGAAAA
Found at i:10931836 original size:12 final size:12
Alignment explanation
Indices: 10931819--10931843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10931809 CAATGTGAGT
10931819 TTTTTTTTAAAA
1 TTTTTTTTAAAA
10931831 TTTTTTTTAAAA
1 TTTTTTTTAAAA
10931843 T
1 T
10931844 ATCAGTGAAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTTTAAAA
Found at i:10940482 original size:14 final size:14
Alignment explanation
Indices: 10940463--10940493 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10940453 CTTGTGATCA
10940463 TGCGACACATTTGT
1 TGCGACACATTTGT
10940477 TGCGACACATTTGT
1 TGCGACACATTTGT
10940491 TGC
1 TGC
10940494 CTGACAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (14 bp):
TGCGACACATTTGT
Found at i:10944939 original size:21 final size:22
Alignment explanation
Indices: 10944898--10944940 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
10944888 TAAATAAATG
10944898 TGTAATAAATATATGTATACATT
1 TGTAATAAATATATG-ATACATT
*
10944921 TGTAATTAATATATG-TACAT
1 TGTAATAAATATATGATACAT
10944941 ACTTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (22 bp):
TGTAATAAATATATGATACATT
Found at i:10945081 original size:26 final size:27
Alignment explanation
Indices: 10945019--10945089 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
10945009 AAAAGAGAAT
* *
10945019 AGAAACAGAATGACAAAACGAAAACAGGGG
1 AGAAA-AGAAAGA-AAAA-GAAAACAGGGA
10945049 AGAAAAGAAAGAAAAAGAAAA-AGGGA
1 AGAAAAGAAAGAAAAAGAAAACAGGGA
*
10945075 AGGAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
10945090 TTTGGGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 18 0.47
27 5 0.13
28 4 0.11
29 6 0.16
30 5 0.13
ACGTcount: A:0.66, C:0.06, G:0.27, T:0.01
Consensus pattern (27 bp):
AGAAAAGAAAGAAAAAGAAAACAGGGA
Found at i:10945966 original size:25 final size:25
Alignment explanation
Indices: 10945938--10946017 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
10945928 ACTTTAGCGC
10945938 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
10945963 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
10945988 GCTCTCTG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
10946010 GCTCTCTG
1 GCTCTCTG
10946018 TATAACACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 18 0.36
23 1 0.02
25 31 0.62
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:10946011 original size:22 final size:22
Alignment explanation
Indices: 10945950--10946041 Score: 103
Period size: 22 Copynumber: 4.0 Consensus size: 22
10945940 TCTCTGATTA
10945950 TTAGCACATCAGTGCTCTCTGAT
1 TTAGCACATCAGTGCTCTCTG-T
*
10945973 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
10945997 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* * * *
10946019 ATAACACTTTAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
10946041 T
1 T
10946042 CATTAGTGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 36 0.62
23 1 0.02
24 2 0.03
25 19 0.33
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:10946012 original size:47 final size:44
Alignment explanation
Indices: 10945950--10946041 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 44
10945940 TCTCTGATTA
*
10945950 TTAGCACATCAGTGCTCTCTGATTACTAGCACGTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTG--TA-TAACACGTCAGTGCTCTCTGT
* * *
10945997 TTAGCACATCTGTGCTCTCTGTATAACACTTTAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGTATAACACGTCAGTGCTCTCTGT
10946041 T
1 T
10946042 CATTAGTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
44 19 0.46
45 2 0.05
47 20 0.49
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (44 bp):
TTAGCACATCAGTGCTCTCTGTATAACACGTCAGTGCTCTCTGT
Found at i:10947652 original size:20 final size:19
Alignment explanation
Indices: 10947596--10947653 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
10947586 GAACAAAAAT
*
10947596 CAAAGGTATCGATACCCTTCA
1 CAAA-GTATCAATA-CCTTCA
* *
10947617 TAAAGTATCAGTACCTTCTA
1 CAAAGTATCAATACCTTC-A
10947637 CAAAGTATCAATACCTT
1 CAAAGTATCAATACCTT
10947654 ACCCCTGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.29
Consensus pattern (19 bp):
CAAAGTATCAATACCTTCA
Found at i:10949865 original size:17 final size:17
Alignment explanation
Indices: 10949843--10949875 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10949833 AGTTTACTTT
10949843 TATAATTTATAA-TTTAA
1 TATAA-TTATAAGTTTAA
10949860 TATAATTATAAGTTTA
1 TATAATTATAAGTTTA
10949876 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAATTATAAGTTTAA
Found at i:10951182 original size:32 final size:32
Alignment explanation
Indices: 10951146--10951214 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
10951136 TTTGGGTAGA
*
10951146 GGTTGCTTGATTCTCTCTA-TGGCTGATTCAGT
1 GGTTGCTTGATTCTCTC-ACTGACTGATTCAGT
10951178 GGTTGCTTGATTCTCTCACTGACTGATTCAGT
1 GGTTGCTTGATTCTCTCACTGACTGATTCAGT
10951210 GGTTG
1 GGTTG
10951215 AGGTAGGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.13, C:0.19, G:0.26, T:0.42
Consensus pattern (32 bp):
GGTTGCTTGATTCTCTCACTGACTGATTCAGT
Found at i:10956017 original size:29 final size:29
Alignment explanation
Indices: 10955962--10956018 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
10955952 GGCTGTCGAT
* * *
10955962 ACCACACGGCCGTTTTTCAGGCCGTGTGA
1 ACCACACGACCGTTTGTCAAGCCGTGTGA
* *
10955991 ACCACTCGACCGTTTGTCAAGCTGTGTG
1 ACCACACGACCGTTTGTCAAGCCGTGTG
10956019 GGTCGTGTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.26
Consensus pattern (29 bp):
ACCACACGACCGTTTGTCAAGCCGTGTGA
Found at i:10956183 original size:63 final size:63
Alignment explanation
Indices: 10956106--10956229 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
10956096 CACGGGTCAG
*
10956106 GGACACAGGCGCGTGTCAAGACCTTGTGACTCACTGTTCACCAATTAGAGACATATAGGCCAA
1 GGACACAGGCGCGTGTCAAGACCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCCAA
* * ** * * *
10956169 GGACACGGGGGCGTGTCTGGGCCTTGTGACTCACTGTTCAAGAATTAGAGGCATATAGGCC
1 GGACACAGGCGCGTGTCAAGACCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCC
10956230 CGACACCCGG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (63 bp):
GGACACAGGCGCGTGTCAAGACCTTGTGACTCACTGTTCAACAATTAGAGACATATAGGCCAA
Found at i:10956261 original size:63 final size:62
Alignment explanation
Indices: 10956131--10956269 Score: 145
Period size: 63 Copynumber: 2.2 Consensus size: 62
10956121 TCAAGACCTT
* * * ** **
10956131 GTGACTCACTGTTCACCAATTAGAGACATATAGGCCAAGGACACGGGGGCGTGTCTGGGCCTT
1 GTGACTCACTGTTCAACAATTAGAGACATATAGGCC-ACGACACGGGGGCATGTCCAGGCCGC
* * *
10956194 GTGACTCACTGTTCAAGAATTAGAGGCATATAGGCC-CGACACCCGGGTGCATGTCCAGGCCGC
1 GTGACTCACTGTTCAACAATTAGAGACATATAGGCCACGACA--CGGGGGCATGTCCAGGCCGC
*
10956257 GTGACTTACTGTT
1 GTGACTCACTGTT
10956270 GCATAATAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
61 4 0.06
63 59 0.94
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (62 bp):
GTGACTCACTGTTCAACAATTAGAGACATATAGGCCACGACACGGGGGCATGTCCAGGCCGC
Found at i:10962192 original size:30 final size:31
Alignment explanation
Indices: 10962144--10962203 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
10962134 AAACCTTTTA
**
10962144 TTTTCCCCCAAAGTTTTTACT-CTTTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCTTTCCCAC
* *
10962174 TTTTCCCCTAAAACTTTTATTCCTTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCTTTCCCA
10962204 TCCTACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCTTTCCCAC
Found at i:10962597 original size:18 final size:17
Alignment explanation
Indices: 10962574--10962644 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
10962564 CAATTTCACA
10962574 TTTTATTTTTAAAATAAT
1 TTTTA-TTTTAAAATAAT
**
10962592 TTTTATTAAAAAATCATAT
1 TTTTATTTTAAAAT-A-AT
* * *
10962611 TTTTACATTTAATATATT
1 TTTTA-TTTTAAAATAAT
10962629 TTTTAATTTTAAAATA
1 TTTT-ATTTTAAAATA
10962645 CATAGTGACA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
17 7 0.17
18 19 0.47
19 9 0.22
20 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTTTAAAATAAT
Found at i:10966888 original size:42 final size:41
Alignment explanation
Indices: 10966842--10966980 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 41
10966832 ATGTAGCACT
*
10966842 GAAGCACATAAGTACTAAACGAAAACCCATAAGGGTTAAATA
1 GAAGCTCATAAG-ACTAAACGAAAACCCATAAGGGTTAAATA
*
10966884 GAAGCTCATAGGAGATTAATA-G-AAACCCATAAGGGTTAATATA
1 GAAGCTCATA--AGACTAA-ACGAAAACCCATAAGGGTTAA-ATA
* * * *
10966927 -ATGCTCAGAAGAGCTAAACTAAAACCCATTAGGGTTAAACTA
1 GAAGCTCATAAGA-CTAAACGAAAACCCATAAGGGTTAAA-TA
*
10966969 -AAGCTCAAAAGA
1 GAAGCTCATAAGA
10966981 GCTGAATTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
40 4 0.05
41 4 0.05
42 61 0.76
43 8 0.10
44 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (41 bp):
GAAGCTCATAAGACTAAACGAAAACCCATAAGGGTTAAATA
Found at i:10966893 original size:21 final size:21
Alignment explanation
Indices: 10966864--10966922 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
10966854 TACTAAACGA
10966864 AAACCCATAAGGGTTAAATAG
1 AAACCCATAAGGGTTAAATAG
* *
10966885 AAGCTCAT-AGGAGATT-AATAG
1 AAACCCATAAGG-G-TTAAATAG
10966906 AAACCCATAAGGGTTAA
1 AAACCCATAAGGGTTAA
10966923 TATAATGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAATAG
Found at i:10967009 original size:42 final size:41
Alignment explanation
Indices: 10966864--10967007 Score: 144
Period size: 42 Copynumber: 3.4 Consensus size: 41
10966854 TACTAAACGA
* * * * *
10966864 AAACCCATAAGGGTTAAATAGAAGCTCATAGGAGATTAATAG
1 AAACCCATAAGGGTTAAATA-AAGCTCAAAAGAGCTAAATTG
* * * *
10966906 AAACCCATAAGGGTTAATATAATGCTCAGAAGAGCTAAACTA
1 AAACCCATAAGGGTTAA-ATAAAGCTCAAAAGAGCTAAATTG
* *
10966948 AAACCCATTAGGGTTAAACTAAAGCTCAAAAGAGCTGAATTG
1 AAACCCATAAGGGTTAAA-TAAAGCTCAAAAGAGCTAAATTG
* *
10966990 AAACCCAGAATGGTTAAA
1 AAACCCATAAGGGTTAAA
10967008 CTGAAACTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 79 0.95
43 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAATAAAGCTCAAAAGAGCTAAATTG
Found at i:10968918 original size:28 final size:28
Alignment explanation
Indices: 10968852--10968925 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
10968842 GAGGCTCTAA
* * *
10968852 AAGGAAAGCATTTGTAGCAATTTTTGGAT
1 AAGG-AAGCCTTTGTGGCAATTTCTGGAT
*
10968881 AA-TAAGGCCTTTGTGGCAATTTCTGGAT
1 AAGGAA-GCCTTTGTGGCAATTTCTGGAT
10968909 AAGGAAGCCTTTGTGGC
1 AAGGAAGCCTTTGTGGC
10968926 TATCTCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 32 0.84
29 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (28 bp):
AAGGAAGCCTTTGTGGCAATTTCTGGAT
Found at i:10970432 original size:13 final size:12
Alignment explanation
Indices: 10970403--10970451 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
10970393 TTCAAAACTT
10970403 ATAAAAAT--AA
1 ATAAAAATAAAA
*
10970413 A-AAAAATCAAA
1 ATAAAAATAAAA
10970424 ATCAAAAATAAAA
1 AT-AAAAATAAAA
10970437 ATAAAAATATAAA
1 ATAAAAATA-AAA
10970450 AT
1 AT
10970452 GTTTATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 6 0.18
10 1 0.03
11 3 0.09
12 7 0.21
13 16 0.48
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:10970450 original size:7 final size:6
Alignment explanation
Indices: 10970403--10970451 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
10970393 TTCAAAACTT
*
10970403 ATAAAA AT--AA A-AAAA ATCAAA ATCAAAA ATAAAA ATAAAA ATATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA ATA-AAA
10970450 AT
1 AT
10970452 GTTTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 3 0.08
5 3 0.08
6 20 0.56
7 10 0.28
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:10970620 original size:31 final size:32
Alignment explanation
Indices: 10970561--10970622 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
10970551 AATCATTTCT
* *
10970561 ACTCTTTTTCAAAAGGTTGGTGGTCAAATTTG
1 ACTCTTTTTCAAAAGGTCGGTGGCCAAATTTG
10970593 ACTCTTTTT-AAAAGGTCGAG-GGCCAAATTT
1 ACTCTTTTTCAAAAGGTCG-GTGGCCAAATTT
10970623 AGCTCCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (32 bp):
ACTCTTTTTCAAAAGGTCGGTGGCCAAATTTG
Found at i:10972417 original size:21 final size:21
Alignment explanation
Indices: 10972393--10972432 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10972383 GTTTTGATAT
10972393 GGAAAATGGAGAAA-AAGTGAA
1 GGAAAAT-GAGAAACAAGTGAA
*
10972414 GGAAAGTGAGAAACAAGTG
1 GGAAAATGAGAAACAAGTG
10972433 GAGAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.10
Consensus pattern (21 bp):
GGAAAATGAGAAACAAGTGAA
Found at i:10972467 original size:3 final size:3
Alignment explanation
Indices: 10972461--10972517 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
10972451 GGAGCCAAAG
10972461 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10972509 GAA GAA GAA
1 GAA GAA GAA
10972518 AGCTCAACTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10975170 original size:19 final size:19
Alignment explanation
Indices: 10975135--10975216 Score: 50
Period size: 18 Copynumber: 4.4 Consensus size: 19
10975125 AACCATTTTT
10975135 TTTCAATATCTTATGTT-AA
1 TTTCAA-ATCTTATGTTCAA
* *
10975154 TTTCAAATCGTTTTGTTCAT
1 TTTCAAATC-TTATGTTCAA
*
10975174 TTTCAAAACATTA--TTC-A
1 TTTCAAATC-TTATGTTCAA
10975191 TTTACAAATCATTA--TTCAA
1 TTT-CAAATC-TTATGTTCAA
10975210 TTTCAAA
1 TTTCAAA
10975217 ATGTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 3 0.06
18 22 0.42
19 16 0.31
20 11 0.21
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTCAAATCTTATGTTCAA
Found at i:10975192 original size:18 final size:18
Alignment explanation
Indices: 10975169--10975217 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
10975159 AATCGTTTTG
10975169 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* *
10975187 TTCATTTACAAATCATTA
1 TTCATTTTCAAAACATTA
*
10975205 TTCAATTTCAAAA
1 TTCATTTTCAAAA
10975218 TGTTTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:10982426 original size:24 final size:24
Alignment explanation
Indices: 10982395--10982442 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10982385 GATTCTGAGG
10982395 ACATTTTGCACATTATTCAAGATT
1 ACATTTTGCACATTATTCAAGATT
*
10982419 ACATTTTGCACATTATTCGAGATT
1 ACATTTTGCACATTATTCAAGATT
10982443 GTACTTTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (24 bp):
ACATTTTGCACATTATTCAAGATT
Found at i:10987787 original size:22 final size:21
Alignment explanation
Indices: 10987759--10987855 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 21
10987749 ATTTTTACTA
10987759 CGGTGCCTATTGTTCTGCACTT
1 CGGTGCCTATTGTT-TGCACTT
*
10987781 CGGTGCCTATTAATTTGCACTAT
1 CGGTGCCTATT-GTTTGCACT-T
* *
10987804 -GCTGCCTACTGCTTTGCACTT
1 CGGTGCCTATTG-TTTGCACTT
* *
10987825 TGGTGCCTACTAGTTAT-CACTT
1 CGGTGCCTA-TTGTT-TGCACTT
*
10987847 CGATGCCTA
1 CGGTGCCTA
10987856 CTGGTGTGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
21 1 0.02
22 54 0.90
23 5 0.08
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (21 bp):
CGGTGCCTATTGTTTGCACTT
Found at i:10990259 original size:15 final size:16
Alignment explanation
Indices: 10990239--10990268 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10990229 TTAAAAAATA
10990239 ATTTTTA-ATTATTTT
1 ATTTTTACATTATTTT
10990254 ATTTTTACATTATTT
1 ATTTTTACATTATTT
10990269 CTCTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTACATTATTTT
Found at i:10990623 original size:16 final size:16
Alignment explanation
Indices: 10990602--10990635 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10990592 CGGTTTTCTC
10990602 TATTTTTAAAAATTTT
1 TATTTTTAAAAATTTT
*
10990618 TATTTTTAATAATTTT
1 TATTTTTAAAAATTTT
10990634 TA
1 TA
10990636 AATAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAAAAATTTT
Found at i:10993663 original size:32 final size:32
Alignment explanation
Indices: 10993598--10993665 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
10993588 TGGAAGTTTG
* * *
10993598 TATTTGTTTTTTCCAAAAAAATTGGAAGTTTA
1 TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
** *
10993630 TATTTGCTTTTTCCTCAAAATTTAGAAGCTTA
1 TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
10993662 TATT
1 TATT
10993666 CAATAAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (32 bp):
TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
Found at i:10993906 original size:24 final size:24
Alignment explanation
Indices: 10993872--10993923 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10993862 TTTCTAGAAG
* **
10993872 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
10993896 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
10993920 ATTT
1 ATTT
10993924 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:10998308 original size:24 final size:24
Alignment explanation
Indices: 10998246--10998297 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10998236 TTTTTAGAAG
* **
10998246 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
10998270 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
10998294 ATTT
1 ATTT
10998298 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:10999003 original size:26 final size:26
Alignment explanation
Indices: 10998967--10999018 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10998957 ATAGAAGAAG
10998967 AAAAAAAACTAAGATTTCTTTTGGTT
1 AAAAAAAACTAAGATTTCTTTTGGTT
10998993 AAAAAAAACTAAGATTTCTTTTGGTT
1 AAAAAAAACTAAGATTTCTTTTGGTT
10999019 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AAAAAAAACTAAGATTTCTTTTGGTT
Done.