Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 66 of 113
Found at i:15515172 original size:43 final size:43
Alignment explanation
Indices: 15515090--15515235 Score: 229
Period size: 43 Copynumber: 3.4 Consensus size: 43
15515080 AGTTCTTCTT
* *
15515090 AAAGATTCTCATTTGAAAAACTCAAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTG-AAAACTCAAAGATTCTTACTTGAAATTC
*
15515134 AAAGATTCTCATTTGAAAACTTAAAGATTCTTACTTGAAATTC
1 AAAGATTCTCATTTGAAAACTCAAAGATTCTTACTTGAAATTC
* *
15515177 AAAAATTCTCATTTGATAACTCAAAGATTCTTACTTGAAATTC
1 AAAGATTCTCATTTGAAAACTCAAAGATTCTTACTTGAAATTC
*
15515220 AAAGATTCTTATTTGA
1 AAAGATTCTCATTTGA
15515236 GGCTTCACAA
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 79 0.84
44 15 0.16
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (43 bp):
AAAGATTCTCATTTGAAAACTCAAAGATTCTTACTTGAAATTC
Found at i:15515770 original size:60 final size:60
Alignment explanation
Indices: 15515690--15515802 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
15515680 CATCATCTAT
* * * * *
15515690 CATTTGGTCATCACTTACAAGCTTTTTAGCACTAGCCATTTCAGAACAAATTTTATCCTC
1 CATTTGGTCACCACTCACAAGCTTCTTAGCACTAACCATTTCAAAACAAATTTTATCCTC
*
15515750 CATTTGGTCACCACTCACAAGCTTCTTAGCACTAACCGTTTCAAAACAAATTT
1 CATTTGGTCACCACTCACAAGCTTCTTAGCACTAACCATTTCAAAACAAATTT
15515803 CATCTGTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (60 bp):
CATTTGGTCACCACTCACAAGCTTCTTAGCACTAACCATTTCAAAACAAATTTTATCCTC
Found at i:15516474 original size:7 final size:7
Alignment explanation
Indices: 15516464--15516561 Score: 71
Period size: 7 Copynumber: 14.0 Consensus size: 7
15516454 TTTTTCCTTC
15516464 TCTTTTT
1 TCTTTTT
15516471 TCTTTTCAT
1 TCTTTT--T
15516480 T-TTTTT
1 TCTTTTT
*
15516486 CTCTTTTC
1 -TCTTTTT
15516494 TCTTTTT
1 TCTTTTT
15516501 TCTTTTTT
1 TC-TTTTT
*
15516509 TCATTTT
1 TCTTTTT
*
15516516 TC-ATTT
1 TCTTTTT
15516522 TC-TTTT
1 TCTTTTT
15516528 TC-TTTT
1 TCTTTTT
15516534 TCTTTTT
1 TCTTTTT
15516541 T-TTTCTT
1 TCTTT-TT
*
15516548 TTTTTTT
1 TCTTTTT
*
15516555 TATTTTT
1 TCTTTTT
15516562 CATCTATTAG
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
6 20 0.26
7 37 0.48
8 18 0.23
9 2 0.03
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TCTTTTT
Found at i:15516482 original size:6 final size:5
Alignment explanation
Indices: 15516468--15516553 Score: 56
Period size: 5 Copynumber: 16.8 Consensus size: 5
15516458 TCCTTCTCTT
*
15516468 TTTTC TTTTC ATTTT- TTTCTC TTTTC TCTT- TTTTC -TTT- TTTTC ATTTTTC
1 TTTTC TTTTC -TTTTC TTT-TC TTTTC TTTTC TTTTC TTTTC TTTTC --TTTTC
*
15516518 ATTTTC TTTTTC TTTTTC TTTTT TTTTC TTTT- TTTT
1 -TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTT
15516554 TTATTTTTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
4 16 0.24
5 23 0.34
6 23 0.34
7 5 0.07
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:15516523 original size:30 final size:29
Alignment explanation
Indices: 15516461--15516549 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
15516451 CTATTTTTCC
15516461 TTCTCTTTTTTCTTTTCATTTTTTTCTCTT
1 TTCTCTTTTTTCTTTT-ATTTTTTTCTCTT
*
15516491 TTCTCTTTTTTCTTTT-TTTCATTTT-TCAT
1 TTCTCTTTTTTCTTTTATTT--TTTTCTCTT
* *
15516520 TT-TC-TTTTTCTTTTTCTTTTTTTTTCTT
1 TTCTCTTTTTTC-TTTTATTTTTTTCTCTT
15516548 TT
1 TT
15516550 TTTTTTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
27 10 0.19
28 14 0.27
29 8 0.15
30 20 0.38
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (29 bp):
TTCTCTTTTTTCTTTTATTTTTTTCTCTT
Found at i:15516555 original size:16 final size:16
Alignment explanation
Indices: 15516466--15516562 Score: 86
Period size: 16 Copynumber: 5.8 Consensus size: 16
15516456 TTTCCTTCTC
* *
15516466 TTTTTTCTTTTCATTT
1 TTTTTTTTTTTCTTTT
* *
15516482 TTTTCTCTTTTCTCTTT
1 TTTTTTTTTTTCT-TTT
*
15516499 TTTCTTTTTTTCATTTT
1 TTTTTTTTTTTC-TTTT
*
15516516 TCATTTTCTTTTTCTTTT
1 T--TTTTTTTTTTCTTTT
*
15516534 TCTTTTTTTTTCTTTT
1 TTTTTTTTTTTCTTTT
15516550 TTTTTTATTTTTC
1 TTTTTT-TTTTTC
15516563 ATCTATTAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
16 29 0.44
17 22 0.33
18 6 0.09
19 9 0.14
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTTCTTTT
Found at i:15516561 original size:33 final size:33
Alignment explanation
Indices: 15516447--15516562 Score: 101
Period size: 35 Copynumber: 3.4 Consensus size: 33
15516437 CATTCTTTCA
* * *
15516447 TTTTCTATTTTTCCTTCTCTTTTTTCTTTTCATTT
1 TTTTCTATTTTTCTTTTTC-TTTTT-TTTTCTTTT
* *
15516482 TTTTCTCTTTTCTCTTTTT-TCTTTTTTTCATTTT
1 TTTTCTATTTT-TCTTTTTCTTTTTTTTTC-TTTT
*
15516516 TCATTT-TCTTTTTCTTTTTCTTTTTTTTTCTTTT
1 T--TTTCTATTTTTCTTTTTCTTTTTTTTTCTTTT
*
15516550 TTTTTTATTTTTC
1 TTTTCTATTTTTC
15516563 ATCTATTAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
32 3 0.04
33 12 0.18
34 20 0.29
35 25 0.37
36 8 0.12
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (33 bp):
TTTTCTATTTTTCTTTTTCTTTTTTTTTCTTTT
Found at i:15522087 original size:19 final size:19
Alignment explanation
Indices: 15522063--15522130 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 19
15522053 AACTTCTACT
15522063 TTTTCATCTTTTTT-TATTG
1 TTTTCAT-TTTTTTATATTG
15522082 TTTTCATTTTTTTATA-T-
1 TTTTCATTTTTTTATATTG
*
15522099 TTTT-ATATTTTTATATT-
1 TTTTCATTTTTTTATATTG
* *
15522116 TTTTTATTTTATTAT
1 TTTTCATTTTTTTAT
15522131 TTTTTGTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.23
17 9 0.21
18 15 0.35
19 9 0.21
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (19 bp):
TTTTCATTTTTTTATATTG
Found at i:15522100 original size:10 final size:8
Alignment explanation
Indices: 15522090--15522134 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
15522080 TGTTTTCATT
15522090 TTTTTATA
1 TTTTTATA
15522098 TTTTTATA
1 TTTTTATA
15522106 TTTTTATA
1 TTTTTATA
*
15522114 TTTTTTTA
1 TTTTTATA
15522122 -TTTTATTA
1 TTTTTA-TA
15522130 TTTTT
1 TTTTT
15522135 TGTTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATA
Found at i:15522101 original size:16 final size:16
Alignment explanation
Indices: 15522071--15522117 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
15522061 CTTTTTCATC
*
15522071 TTTTTTTATTGTTTTCA
1 TTTTTTTA-TATTTTCA
*
15522088 TTTTTTTATATTTTTA
1 TTTTTTTATATTTTCA
*
15522104 TATTTTTATATTTT
1 TTTTTTTATATTTT
15522118 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 19 0.70
17 8 0.30
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTATATTTTCA
Found at i:15522109 original size:24 final size:25
Alignment explanation
Indices: 15522073--15522133 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
15522063 TTTTCATCTT
*
15522073 TTTTTATTGTTTTCAT-TTTTTTATA
1 TTTTTATTATTTTCATATTTTTT-TA
*
15522098 TTTTTA-TATTTTTATATTTTTTTA
1 TTTTTATTATTTTCATATTTTTTTA
15522122 -TTTTATTATTTT
1 TTTTTATTATTTT
15522134 TTGTTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 15 0.47
25 12 0.38
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTATTATTTTCATATTTTTTTA
Found at i:15522135 original size:16 final size:16
Alignment explanation
Indices: 15522071--15522135 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
15522061 CTTTTTCATC
*
15522071 TTTTTTTATTGTTTTCA
1 TTTTTTTATT-TTTTTA
15522088 TTTTTTTATATTTTTATA
1 TTTTTTTAT-TTTTT-TA
*
15522106 TTTTTATATTTTTTTA
1 TTTTTTTATTTTTTTA
*
15522122 TTTTATTATTTTTT
1 TTTTTTTATTTTTT
15522136 GTTAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 14 0.33
17 18 0.43
18 10 0.24
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:15522713 original size:120 final size:120
Alignment explanation
Indices: 15522482--15522715 Score: 364
Period size: 121 Copynumber: 1.9 Consensus size: 120
15522472 TTATAATTAA
* * *
15522482 TTCTGTCTAATCAAGTCAGTCCGGAAAGCAAAATGCTTAGACGACCATCCAAGCGAATGCTAGCC
1 TTCTGTCTAAGCAAGTCAGTCCGGAAAGAAAAATGCTTAAACGACCATCCAAGCGAATGCTAGCC
*
15522547 ACTCAAGTTATATCCTTTTCGTCATGCGTCGTCACTAATAATTTTTTCGCAATGC
66 ACTCAAGTTATATCCGTTTCGTCATGCGTCGTCACTAATAATTTTTTCGCAATGC
*
15522602 TTCTGTCTAAGCAAGTCAGTCCGCG-AAGAAAAATGCTTAAATGACCATCCAAGC-AACTTGCTA
1 TTCTGTCTAAGCAAGTCAGTCCG-GAAAGAAAAATGCTTAAACGACCATCCAAGCGAA--TGCTA
* *
15522665 GCCACTCAAGTTCTATCCGTTTCGTCATGCTTCGTCACTAATAATTTTTTC
63 GCCACTCAAGTTATATCCGTTTCGTCATGCGTCGTCACTAATAATTTTTTC
15522716 ATAATAATTA
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
119 2 0.02
120 48 0.46
121 54 0.52
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (120 bp):
TTCTGTCTAAGCAAGTCAGTCCGGAAAGAAAAATGCTTAAACGACCATCCAAGCGAATGCTAGCC
ACTCAAGTTATATCCGTTTCGTCATGCGTCGTCACTAATAATTTTTTCGCAATGC
Found at i:15523022 original size:2 final size:2
Alignment explanation
Indices: 15523015--15523041 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15523005 AAATACTTGA
15523015 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15523042 AAGGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15523361 original size:18 final size:18
Alignment explanation
Indices: 15523340--15523391 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
15523330 CATGAAAATT
15523340 TTTATTTTAAATAAAAAA
1 TTTATTTTAAATAAAAAA
** *
15523358 TTTATTTGT-GTTAATAAA
1 TTTATTT-TAAATAAAAAA
15523376 TTTA-TTTAAATAAAAA
1 TTTATTTTAAATAAAAA
15523392 TAAAAAGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.27
18 17 0.65
19 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TTTATTTTAAATAAAAAA
Found at i:15523481 original size:29 final size:30
Alignment explanation
Indices: 15523366--15523482 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
15523356 AATTTATTTG
15523366 TGTTAATAAATTTATTTAAATAAAAATAAAAA
1 TGTTAA-AAATTTATTTAAAT-AAAATAAAAA
* * *
15523398 -GTTAAAGATTTATTTGAATAAAA-AGTAAA
1 TGTTAAAAATTTATTTAAATAAAATA-AAAA
* * * **
15523427 TGTTAATAATTTATTTGAGTGTAATAAAAA
1 TGTTAAAAATTTATTTAAATAAAATAAAAA
15523457 TG-TAAAAATTTATTTAAATAAAATAA
1 TGTTAAAAATTTATTTAAATAAAATAA
15523483 TAAAATATAT
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 26 0.38
30 35 0.51
31 6 0.09
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (30 bp):
TGTTAAAAATTTATTTAAATAAAATAAAAA
Found at i:15523530 original size:27 final size:29
Alignment explanation
Indices: 15523483--15523536 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
15523473 AATAAAATAA
**
15523483 TAAAATATATTTTTTTTATT-ATTTTAGT
1 TAAAATATATTTTCATTATTAATTTTAGT
15523511 TAAAATAT-TTTTCATTATTAATTTTA
1 TAAAATATATTTTCATTATTAATTTTA
15523537 AAAAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TAAAATATATTTTCATTATTAATTTTAGT
Found at i:15525862 original size:16 final size:17
Alignment explanation
Indices: 15525832--15525864 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15525822 TTAGTTATCT
15525832 TTCTAGTTGTTAATTAG
1 TTCTAGTTGTTAATTAG
15525849 TTCTAGTT-TTAATTAG
1 TTCTAGTTGTTAATTAG
15525865 AGAGCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (17 bp):
TTCTAGTTGTTAATTAG
Found at i:15528479 original size:23 final size:20
Alignment explanation
Indices: 15528439--15528481 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15528429 TTAACTTTTT
15528439 TTTTTGTTGACCAAAATTAA
1 TTTTTGTTGACCAAAATTAA
* *
15528459 TTTTTGTTGATCACAA-TAA
1 TTTTTGTTGACCAAAATTAA
15528478 TTTT
1 TTTT
15528482 AATCATCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTGTTGACCAAAATTAA
Found at i:15529623 original size:15 final size:15
Alignment explanation
Indices: 15529597--15529634 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
15529587 CATTTTAAAA
15529597 AATATT-TATATTCT
1 AATATTATATATTCT
*
15529611 AATATTATATATTTT
1 AATATTATATATTCT
15529626 AATA-TATAT
1 AATATTATAT
15529635 TTTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATTATATATTCT
Found at i:15529633 original size:14 final size:14
Alignment explanation
Indices: 15529597--15529639 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
15529587 CATTTTAAAA
* *
15529597 AATATTTATATTCT
1 AATATATATATTTT
15529611 AATATTATATATTTT
1 AATA-TATATATTTT
15529626 AATATATAT-TTTT
1 AATATATATATTTT
15529639 A
1 A
15529640 TTTATGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
AATATATATATTTT
Found at i:15535422 original size:113 final size:111
Alignment explanation
Indices: 15535213--15535425 Score: 248
Period size: 113 Copynumber: 1.9 Consensus size: 111
15535203 TCATCGAGAA
* * * *
15535213 AGTTTTAAGAAAAGGTCGAATTTCGGCATTAAGAAATTTTAATGAAATTCAAACTTGAATGCTCA
1 AGTTTTAAGAAAAGGTCAAATTTCGGCATAAAAAAAGTTTAATGAAATTCAAACTTGAATGCTCA
* *** *
15535278 GATATCACCATCATTTAATGAAAGGTCAAATTTTGCCACTGAGCGAG
66 GATATCACCATAAGAAAATGAAA-GTAAAATTTTGCCACTGAGCGAG
* * * *
15535325 AGTTTTAAGAAAAGGTCAAATTTTGTCATAAAAAAAAGTTTAATGAAATTCAGACTTGACTGCTC
1 AGTTTTAAGAAAAGGTCAAATTTCGGCAT-AAAAAAAGTTTAATGAAATTCAAACTTGAATGCTC
* *
15535390 AGGTATTACCACTAAGAAAATGTAAA-TAAAATTTTG
65 AGATATCACCA-TAAGAAAATG-AAAGTAAAATTTTG
15535426 TTAGAAAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
112 26 0.31
113 48 0.58
114 6 0.07
115 3 0.04
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (111 bp):
AGTTTTAAGAAAAGGTCAAATTTCGGCATAAAAAAAGTTTAATGAAATTCAAACTTGAATGCTCA
GATATCACCATAAGAAAATGAAAGTAAAATTTTGCCACTGAGCGAG
Found at i:15537520 original size:22 final size:22
Alignment explanation
Indices: 15537466--15537520 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
15537456 ATGGTGTAAT
* *
15537466 ATTCGACCAAGACCCATGCAAC
1 ATTCGACCATGATCCATGCAAC
15537488 ATTCGACCATGATCCATGCAAC
1 ATTCGACCATGATCCATGCAAC
*
15537510 ATTCGATCATG
1 ATTCGACCATG
15537521 TATTGGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.22
Consensus pattern (22 bp):
ATTCGACCATGATCCATGCAAC
Found at i:15543091 original size:5 final size:5
Alignment explanation
Indices: 15543083--15543118 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
15543073 TAGCAAATCG
15543083 AAATT AAATT AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT A
15543119 TGCAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:15554873 original size:6 final size:7
Alignment explanation
Indices: 15554827--15554856 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
15554817 GACTGCTGAG
15554827 ATAAAAA
1 ATAAAAA
15554834 ATAAAAA
1 ATAAAAA
15554841 ATAAAAA
1 ATAAAAA
15554848 ATAAAAA
1 ATAAAAA
15554855 AT
1 AT
15554857 TGATCGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:15558448 original size:53 final size:53
Alignment explanation
Indices: 15558328--15558440 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
15558318 TTTAAAATAA
*
15558328 AAATAATTAAAAAAAAGAAAAGGTTGAATTATTAATTTTCCTTTAAACAAAAG
1 AAATAATTAAAAAAAAGAAAAAGTTGAATTATTAATTTTCCTTTAAACAAAAG
* * *
15558381 AAATAATTAAAAAAAAGAAAAAGTTGAATTGTTAATTTTTCC-TT-AACCAAAT
1 AAATAATTAAAAAAAAGAAAAAGTTGAATTATTAA-TTTTCCTTTAAACAAAAG
15558433 AAATAATT
1 AAATAATT
15558441 TTAAAAAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
52 14 0.25
53 35 0.64
54 6 0.11
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATAATTAAAAAAAAGAAAAAGTTGAATTATTAATTTTCCTTTAAACAAAAG
Found at i:15558525 original size:56 final size:57
Alignment explanation
Indices: 15558445--15558603 Score: 166
Period size: 56 Copynumber: 2.8 Consensus size: 57
15558435 ATAATTTTAA
**
15558445 AAAATGTTTT-AAGAAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAAT-TTTTT
1 AAAATGTTTTGAAG--AAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTCC
* * *
15558502 AAAATGTTTTGAAGAAAAGTTGAAATATCAA-TTTCCTTAAA-GAAAAAATATTTCC
1 AAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTCC
** *
15558557 AAAAT-ACTTGAGGAAAATGTTGAAAGTATCAATTTTTCCTTAAATAA
1 AAAATGTTTTGAAGAAAA-GTTG-AAGTATCAATTTTT-CTTAAATAA
15558604 GACATTAATC
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
54 16 0.19
55 21 0.25
56 24 0.29
57 13 0.15
58 9 0.11
59 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAATGTTTTGAAGAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTCC
Found at i:15562612 original size:15 final size:15
Alignment explanation
Indices: 15562600--15562667 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
15562590 AAAAAAAAGA
15562600 AAAAAAGAAAAAAAT-
1 AAAAAAG-AAAAAATG
*
15562615 AAAAAGGTAAAAAATG
1 AAAAAAG-AAAAAATG
**
15562631 AAGAAAATGAAAATGTG
1 AA-AAAA-GAAAAAATG
*
15562648 AAAAAATAAAAAATG
1 AAAAAAGAAAAAATG
15562663 AAAAA
1 AAAAA
15562668 GAAGACTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 24 0.57
16 6 0.14
17 11 0.26
18 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (15 bp):
AAAAAAGAAAAAATG
Found at i:15562626 original size:24 final size:24
Alignment explanation
Indices: 15562599--15562668 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
15562589 GAAAAAAAAG
15562599 AAAAAAAGAAAAAAATAAAAAGGT
1 AAAAAAAGAAAAAAATAAAAAGGT
* * * *
15562623 AAAAAATGAAGAAAATGAAAATGT
1 AAAAAAAGAAAAAAATAAAAAGGT
* *
15562647 GAAAAAA-TAAAAAATGAAAAAG
1 AAAAAAAGAAAAAAAT-AAAAAG
15562669 AAGACTCAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (24 bp):
AAAAAAAGAAAAAAATAAAAAGGT
Found at i:15562643 original size:17 final size:15
Alignment explanation
Indices: 15562608--15562667 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
15562598 GAAAAAAAGA
*
15562608 AAAAAAT-AAAAAGGT
1 AAAAAATGAAAAA-AT
15562623 AAAAAATGAAGAAAAT
1 AAAAAATGAA-AAAAT
**
15562639 GAAAATGTGAAAAAAT
1 -AAAAAATGAAAAAAT
15562655 AAAAAATGAAAAA
1 AAAAAATGAAAAA
15562668 GAAGACTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 18 0.49
16 8 0.22
17 11 0.30
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:15562666 original size:8 final size:8
Alignment explanation
Indices: 15562591--15562667 Score: 61
Period size: 8 Copynumber: 9.6 Consensus size: 8
15562581 GATGACATGA
*
15562591 AAAAAAAG
1 AAAAAATG
*
15562599 AAAAAAAG
1 AAAAAATG
15562607 AAAAAA--
1 AAAAAATG
*
15562613 ATAAAAAGG
1 A-AAAAATG
15562622 TAAAAAATG
1 -AAAAAATG
15562631 AAGAAAATG
1 AA-AAAATG
**
15562640 AAAATGTG
1 AAAAAATG
15562648 AAAAAAT-
1 AAAAAATG
15562655 AAAAAATG
1 AAAAAATG
15562663 AAAAA
1 AAAAA
15562668 GAAGACTCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
6 1 0.02
7 12 0.21
8 30 0.52
9 14 0.24
10 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:15563465 original size:12 final size:13
Alignment explanation
Indices: 15563446--15563483 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
15563436 CTTTTATATT
15563446 TGCATTTGCATCA
1 TGCATTTGCATCA
*
15563459 TGC-TTTG-GTCA
1 TGCATTTGCATCA
15563470 TGCATTTGCATCA
1 TGCATTTGCATCA
15563483 T
1 T
15563484 ATAGTGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (13 bp):
TGCATTTGCATCA
Found at i:15564116 original size:17 final size:17
Alignment explanation
Indices: 15564065--15564116 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
15564055 CTTAATTCTA
*
15564065 GTGAATTTTCAAAATATT
1 GTGAA-TTTCAAAATTTT
** *
15564083 GTGAATTTTTAATTTTT
1 GTGAATTTCAAAATTTT
*
15564100 GTGAATTTGAAAATTTT
1 GTGAATTTCAAAATTTT
15564117 TGCAAAACTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
GTGAATTTCAAAATTTT
Found at i:15564209 original size:17 final size:17
Alignment explanation
Indices: 15564116--15564245 Score: 68
Period size: 17 Copynumber: 7.6 Consensus size: 17
15564106 TTGAAAATTT
*
15564116 TTGCAAAACTAAAAAATC
1 TTGCAAATCT-AAAAATC
**
15564134 TTGTGAATCTAAAAATTC
1 TTGCAAATCTAAAAA-TC
* * *
15564152 TTGCACACCTAAAATTC
1 TTGCAAATCTAAAAATC
*
15564169 TAATG--AATCT-AAAATT
1 T--TGCAAATCTAAAAATC
*
15564185 TTGAAAATCTAAAAATC
1 TTGCAAATCTAAAAATC
** *
15564202 TTGCAAATCTTCAATTC
1 TTGCAAATCTAAAAATC
* ** *
15564219 TTGTAAATCTAAAGTTT
1 TTGCAAATCTAAAAATC
15564236 TTGCAAATCT
1 TTGCAAATCT
15564246 GAGTTCTTGC
Statistics
Matches: 83, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
14 2 0.02
16 10 0.12
17 50 0.60
18 19 0.23
19 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (17 bp):
TTGCAAATCTAAAAATC
Found at i:15564227 original size:34 final size:33
Alignment explanation
Indices: 15564181--15564245 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
15564171 ATGAATCTAA
15564181 AATTTTGAAAATCTAAAAATCTTGCAAATCTTC
1 AATTTTGAAAATCTAAAAATCTTGCAAATCTTC
* ** *
15564214 AATTCTTGTAAATCTAAAGTTTTTGCAAATCT
1 AATT-TTGAAAATCTAAAAATCTTGCAAATCT
15564246 GAGTTCTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (33 bp):
AATTTTGAAAATCTAAAAATCTTGCAAATCTTC
Found at i:15564255 original size:16 final size:16
Alignment explanation
Indices: 15564200--15564255 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
15564190 AATCTAAAAA
15564200 TCTTGCAAATCTTCAA-T
1 TCTTGCAAATC-T-AAGT
*
15564217 TCTTGTAAATCTAAAGT
1 TCTTGCAAATCT-AAGT
* *
15564234 TTTTGCAAATCTGAGT
1 TCTTGCAAATCTAAGT
15564250 TCTTGC
1 TCTTGC
15564256 TAATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (16 bp):
TCTTGCAAATCTAAGT
Found at i:15565115 original size:14 final size:15
Alignment explanation
Indices: 15565096--15565124 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15565086 ATACCAGCAC
15565096 AAACACAAA-AAAAA
1 AAACACAAATAAAAA
15565110 AAACACAAATAAAAA
1 AAACACAAATAAAAA
15565125 TCAATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (15 bp):
AAACACAAATAAAAA
Found at i:15566265 original size:53 final size:52
Alignment explanation
Indices: 15566191--15566311 Score: 149
Period size: 52 Copynumber: 2.3 Consensus size: 52
15566181 TTTTTAAAAT
* *
15566191 AAAAATAA--TTAAAAAAGGAAAAGGTTGAATTATTAAT-TTTCTTTTAAACAA
1 AAAAATAATTTTAAAAAAGGAAAAAGTTGAATTA-TAATGTTT-TCTTAAACAA
* * *
15566242 CAAAATAATTTTAACAAAGGAAAAAGTTGAATTATAATGTTTTCTTAATCAA
1 AAAAATAATTTTAAAAAAGGAAAAAGTTGAATTATAATGTTTTCTTAAACAA
*
15566294 AAAAATAATTTCAAAAAA
1 AAAAATAATTTTAAAAAA
15566312 TTTTTTAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
51 7 0.12
52 27 0.46
53 25 0.42
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (52 bp):
AAAAATAATTTTAAAAAAGGAAAAAGTTGAATTATAATGTTTTCTTAAACAA
Found at i:15566441 original size:57 final size:57
Alignment explanation
Indices: 15566263--15566525 Score: 309
Period size: 57 Copynumber: 4.5 Consensus size: 57
15566253 TAACAAAGGA
* * * *
15566263 AAAAGTTGAATTAT-AATGTTTTCTT-AATCAAAAAAATAATTTCAAAAAATTTTTTAAGG
1 AAAAGTTGAAGTATCAAT-TTTCCTTAAAT--AAAAAA-AATTTCAAAAAATATTTTGAGG
* * *
15566322 AAAAGTTGAAGTATCAATTTTCCTTAAATATAAAAATATTTCAAATAATATTTTGAAG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATA-AAAAAAATTTCAAAAAATATTTTGAGG
*
15566380 AAAAGTTGAAGTATTAATTTTCCTTAAATAAAAAAAATTTCAAAAAATATTTTGAGG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAAATTTCAAAAAATATTTTGAGG
* * * * *
15566437 AAAAGTTGAAATATCACTTTTCCTTGAAGAAAAAATATTT-AAAAAATA-TTTGAGG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAAATTTCAAAAAATATTTTGAGG
15566492 AAAATGTTGAAAGTATCAATATTTCCTTAAATAA
1 AAAA-GTTG-AAGTATCAAT-TTTCCTTAAATAA
15566526 GACATTAATC
Statistics
Matches: 177, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
55 11 0.06
56 12 0.07
57 66 0.37
58 58 0.33
59 24 0.14
60 6 0.03
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (57 bp):
AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAAATTTCAAAAAATATTTTGAGG
Found at i:15566442 original size:115 final size:114
Alignment explanation
Indices: 15566263--15566525 Score: 327
Period size: 115 Copynumber: 2.3 Consensus size: 114
15566253 TAACAAAGGA
* * * *
15566263 AAAAGTTGAATTA-TAATGTTTTCTT-AATCAAAAAAATAATTTCAAAAAATTTTTTAAGGAAAA
1 AAAAGTTGAAGTATTAATATTTCCTTAAAT--AAAAAATAATTTCAAAAAATATTTTAAGGAAAA
* * *
15566326 GTTGAAGTATCAATTTTCCTTAAATATAAAAATATTTCAAATAATATTTTGAAG
64 GTTGAAATATCAATTTTCCTTAAAGA-AAAAATATTT-AAAAAATA-TTTGAAG
*
15566380 AAAAGTTGAAGTATTAAT-TTTCCTTAAATAAAAAA-AATTTCAAAAAATATTTTGAGGAAAAGT
1 AAAAGTTGAAGTATTAATATTTCCTTAAATAAAAAATAATTTCAAAAAATATTTTAAGGAAAAGT
* * *
15566443 TGAAATATCACTTTTCCTTGAAGAAAAAATATTTAAAAAATATTTGAGG
66 TGAAATATCAATTTTCCTTAAAGAAAAAATATTTAAAAAATATTTGAAG
*
15566492 AAAATGTTGAAAGTATCAATATTTCCTTAAATAA
1 AAAA-GTTG-AAGTATTAATATTTCCTTAAATAA
15566526 GACATTAATC
Statistics
Matches: 130, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
112 10 0.08
113 11 0.08
114 19 0.15
115 59 0.45
116 6 0.05
117 18 0.14
118 7 0.05
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (114 bp):
AAAAGTTGAAGTATTAATATTTCCTTAAATAAAAAATAATTTCAAAAAATATTTTAAGGAAAAGT
TGAAATATCAATTTTCCTTAAAGAAAAAATATTTAAAAAATATTTGAAG
Found at i:15567026 original size:35 final size:35
Alignment explanation
Indices: 15566987--15567056 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15566977 AAAGATTAAT
*
15566987 TGTGACTTCTTAAGTTATATTTAGCGATAGATTTA
1 TGTGACTTCTTAAGTTATATCTAGCGATAGATTTA
15567022 TGTGACTTCTTAAGTTATATCTAGCGATAGATTTA
1 TGTGACTTCTTAAGTTATATCTAGCGATAGATTTA
15567057 CGAATCTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (35 bp):
TGTGACTTCTTAAGTTATATCTAGCGATAGATTTA
Found at i:15567893 original size:64 final size:64
Alignment explanation
Indices: 15567763--15567886 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 64
15567753 GAAGTTGGTT
* * * * * *
15567763 GTTGTAACTCTCACCATTAATTGTAAGTTATTAGAATGAGTTACGTGATAGTTGTGAGATGAAA
1 GTTGTAACTCTCACCATTAATTATAAGTTAGTAGAAAGAGTTACGAGATAGTTGGGAAATGAAA
* * * *
15567827 GTTGTAACTCTTATCATTAATTATAAGTTGGTAGAAAGAGTTAGGAGAT-GATTGGGAAAT
1 GTTGTAACTCTCACCATTAATTATAAGTTAGTAGAAAGAGTTACGAGATAG-TTGGGAAAT
15567887 AGAAGTTTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
63 1 0.02
64 48 0.98
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (64 bp):
GTTGTAACTCTCACCATTAATTATAAGTTAGTAGAAAGAGTTACGAGATAGTTGGGAAATGAAA
Found at i:15571490 original size:64 final size:64
Alignment explanation
Indices: 15571389--15571522 Score: 189
Period size: 64 Copynumber: 2.1 Consensus size: 64
15571379 AAATTGGTTA
* * **
15571389 TTGTAACTCTTAGCATTAATTGTAAGTTGTTAGAAGGAATTAAATGAT-AGTTGAGAGATGAAAG
1 TTGTAACTCTCACCATTAATTGTAAGTTGTTAGAAGGAATTAAAAAATGA-TTGAGAGATGAAAG
* * *
15571453 TTGTAACTCTCACCATTAATTGTAAGTTGTTAGAAGGAGTTAAAAAATGATTGGGAGATGAAAT
1 TTGTAACTCTCACCATTAATTGTAAGTTGTTAGAAGGAATTAAAAAATGATTGAGAGATGAAAG
15571517 TTGTAA
1 TTGTAA
15571523 TTAATAGAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 61 0.98
65 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (64 bp):
TTGTAACTCTCACCATTAATTGTAAGTTGTTAGAAGGAATTAAAAAATGATTGAGAGATGAAAG
Found at i:15578048 original size:2 final size:2
Alignment explanation
Indices: 15577998--15578033 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15577988 ATATATGCTT
15577998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15578034 ATACAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15579448 original size:15 final size:14
Alignment explanation
Indices: 15579430--15579463 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15579420 ATAAATTAGT
15579430 AAAAAGTAAAAAAAA
1 AAAAAG-AAAAAAAA
*
15579445 AAAAAGAAGAAAAA
1 AAAAAGAAAAAAAA
15579459 AAAAA
1 AAAAA
15579464 CTCACACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:15584113 original size:56 final size:53
Alignment explanation
Indices: 15584051--15584161 Score: 141
Period size: 53 Copynumber: 2.0 Consensus size: 53
15584041 AATTTTAGGA
** * *
15584051 AAGATATTTCTAAATTTGGCCCAATTAATGGTGAAAAATTTAGAAATAAAACTTGT
1 AAGATATTTCTAAA-TTAACCCAA--AATAGTAAAAAATTTAGAAATAAAACTTGT
* *
15584107 AAGATATTTCTAAATTAACCCCAAATAGTAAAAAATTTAGAAATTAAACTTGT
1 AAGATATTTCTAAATTAACCCAAAATAGTAAAAAATTTAGAAATAAAACTTGT
15584160 AA
1 AA
15584162 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
53 29 0.59
55 6 0.12
56 14 0.29
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (53 bp):
AAGATATTTCTAAATTAACCCAAAATAGTAAAAAATTTAGAAATAAAACTTGT
Found at i:15588378 original size:46 final size:47
Alignment explanation
Indices: 15588326--15588432 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 47
15588316 TTCAAAATTT
15588326 TTTTATAAATGAAATTACT-T-AATTATCTTTTCCCTTTCACACAAA
1 TTTTATAAATGAAATTACTATCAATTATCTTTTCCCTTTCACACAAA
* * *
15588371 TTCTTATAAATTAATTTTCTAAAAGTCAATTATCTTTTCCCTTTCACACAAA
1 TT-TTATAAATGAAATTACT---A-TCAATTATCTTTTCCCTTTCACACAAA
15588423 TTTTATAAAT
1 TTTTATAAAT
15588433 TAATTTTCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
45 2 0.04
46 14 0.27
51 9 0.17
52 27 0.52
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.46
Consensus pattern (47 bp):
TTTTATAAATGAAATTACTATCAATTATCTTTTCCCTTTCACACAAA
Found at i:15588408 original size:52 final size:51
Alignment explanation
Indices: 15588346--15588449 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 51
15588336 GAAATTACTT
15588346 AATTATCTTTTCCCTTTCACACAAATTCTTATAAATTAATTTTCTAAAAGTC
1 AATTATCTTTTCCCTTTCACACAAATT-TTATAAATTAATTTTCTAAAAGTC
15588398 AATTATCTTTTCCCTTTCACACAAATTTTATAAATTAATTTTCTAAAAGTC
1 AATTATCTTTTCCCTTTCACACAAATTTTATAAATTAATTTTCTAAAAGTC
15588449 A
1 A
15588450 TAAATTTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 25 0.48
52 27 0.52
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (51 bp):
AATTATCTTTTCCCTTTCACACAAATTTTATAAATTAATTTTCTAAAAGTC
Found at i:15588480 original size:34 final size:32
Alignment explanation
Indices: 15588429--15588523 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
15588419 CAAATTTTAT
*
15588429 AAATTAATTTTCT-AAAAGTCATAAATTTTTCAG
1 AAATAAATTTT-TGAAAAGT-ATAAATTTTTCAG
** *
15588462 AAAATGGATTTTTGAAAAGTAATATAACTTTTCAG
1 -AAATAAATTTTTGAAAAGT-ATA-AATTTTTCAG
15588497 AAATAAATTTTTGAAAAGT-TAAATTTT
1 AAATAAATTTTTGAAAAGTATAAATTTT
15588524 CAAAAAGGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
31 5 0.10
32 2 0.04
33 1 0.02
34 35 0.67
35 9 0.17
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (32 bp):
AAATAAATTTTTGAAAAGTATAAATTTTTCAG
Found at i:15590888 original size:14 final size:13
Alignment explanation
Indices: 15590863--15590901 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15590853 TTAAAACATT
15590863 ATAAAT-ATAAAA
1 ATAAATAATAAAA
* *
15590875 TTAAATCATAAAA
1 ATAAATAATAAAA
15590888 ATAAATAATAAAA
1 ATAAATAATAAAA
15590901 A
1 A
15590902 AATTTATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAAATAATAAAA
Found at i:15591198 original size:19 final size:19
Alignment explanation
Indices: 15591165--15591217 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
15591155 GAAATCTTAG
**
15591165 GTGAAATCCGGAACCCCAA
1 GTGAAATCCTAAACCCCAA
*
15591184 GTGAAATCCTAAA-CCTAA
1 GTGAAATCCTAAACCCCAA
* *
15591202 GTAAAATCTTAAACCC
1 GTGAAATCCTAAACCC
15591218 TAAATGAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (19 bp):
GTGAAATCCTAAACCCCAA
Found at i:15594467 original size:23 final size:24
Alignment explanation
Indices: 15594437--15594483 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15594427 CATTTGATTT
15594437 TTCTTTAAACT-TGGAAAAAAAAA
1 TTCTTTAAACTATGGAAAAAAAAA
* *
15594460 TTCTTTAAGCTATGGAAAACAAAA
1 TTCTTTAAACTATGGAAAAAAAAA
15594484 GTTTACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (24 bp):
TTCTTTAAACTATGGAAAAAAAAA
Found at i:15599801 original size:3 final size:3
Alignment explanation
Indices: 15599793--15599826 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15599783 CAGTAGTGTT
* *
15599793 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
15599827 CCTCTCTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:15609684 original size:21 final size:21
Alignment explanation
Indices: 15609638--15609689 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
15609628 TTTAAGTTTA
*
15609638 AAATAAATTAATAATATTTTT
1 AAATAAATTAATAATATTTGT
* *
15609659 TAATAATTTAATAAT-TTATGT
1 AAATAAATTAATAATATT-TGT
*
15609680 AAATAGATTA
1 AAATAAATTA
15609690 GTTTATATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
AAATAAATTAATAATATTTGT
Found at i:15610325 original size:14 final size:14
Alignment explanation
Indices: 15610306--15610339 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15610296 TTTTAATTAC
15610306 TAAAAAT-AGAAAGA
1 TAAAAATAAG-AAGA
15610320 TAAAAATAAGAAGA
1 TAAAAATAAGAAGA
15610334 TAAAAA
1 TAAAAA
15610340 CCCATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (14 bp):
TAAAAATAAGAAGA
Found at i:15615916 original size:31 final size:31
Alignment explanation
Indices: 15615880--15615949 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
15615870 GTGGTAGATA
* *
15615880 TTGTTGGGAAATACCACAGCTCTGATACCAT
1 TTGTTGGGAAACACCACAGCTCTAATACCAT
* * *
15615911 TTGTTGGGGAACACCATAGCTCTAATACTAT
1 TTGTTGGGAAACACCACAGCTCTAATACCAT
*
15615942 TTATTGGG
1 TTGTTGGG
15615950 CTAAAAGTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (31 bp):
TTGTTGGGAAACACCACAGCTCTAATACCAT
Found at i:15616365 original size:71 final size:71
Alignment explanation
Indices: 15616247--15616389 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
15616237 ACCCATATGC
*
15616247 TCTCATACATCATACTTATGTGGACCTTCTCAGTCTCCTCTAATCCACTCACAAACAAACATACA
1 TCTCATACATCATACTTATGTGGACCCTCTCAGTCTCCTCTAATCCACTCACAAACAAACATACA
15616312 AACCTA
66 AACCTA
*
15616318 TCTCATACATCATACTTATGTGGACCCTCTCAGTCTCCTCTAGTCCACTCACAAACAAACATACA
1 TCTCATACATCATACTTATGTGGACCCTCTCAGTCTCCTCTAATCCACTCACAAACAAACATACA
15616383 AACCTA
66 AACCTA
15616389 T
1 T
15616390 AAGACGTAGA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (71 bp):
TCTCATACATCATACTTATGTGGACCCTCTCAGTCTCCTCTAATCCACTCACAAACAAACATACA
AACCTA
Found at i:15616658 original size:52 final size:52
Alignment explanation
Indices: 15616516--15616659 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 52
15616506 AACTTGCCCT
* * **
15616516 TTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAATTAAATTTATGTA
1 TTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTTAAACTTACCTA
*
15616568 TTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGTAAGTTAAACTTACCTA
1 TTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTTAAACTTACCTA
* * * *
15616620 TTAAGAATCTTCTTT-CTCTTAAAATTCTTATTTTGTAAGT
1 TTAAGAATC-CCTTTCCTCTTAGAATTCTTCTCTTGTAAGT
15616660 CTTCTTGTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 77 0.95
53 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (52 bp):
TTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTTAAACTTACCTA
Found at i:15616701 original size:11 final size:11
Alignment explanation
Indices: 15616685--15616726 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
15616675 GCAATATCTG
15616685 ACAAATCTCAA
1 ACAAATCTCAA
*
15616696 ACAAATCTCTA
1 ACAAATCTCAA
* *
15616707 ATAAATTTCAA
1 ACAAATCTCAA
15616718 ACAAATCTC
1 ACAAATCTC
15616727 TTATGAGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:15621940 original size:2 final size:2
Alignment explanation
Indices: 15621933--15621964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15621923 AAGGGACCTT
15621933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15621965 AACATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15631378 original size:22 final size:21
Alignment explanation
Indices: 15631353--15631397 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
15631343 ACTGTTGTTC
*
15631353 AAAACAAAAAGAAAATCAGAAA
1 AAAACAAAAAGAAAA-AAGAAA
* *
15631375 AAAACATAAGGAAAAAAGAAA
1 AAAACAAAAAGAAAAAAGAAA
15631396 AA
1 AA
15631398 GCGATCAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAACAAAAAGAAAAAAGAAA
Found at i:15632830 original size:56 final size:57
Alignment explanation
Indices: 15632765--15632923 Score: 180
Period size: 56 Copynumber: 2.8 Consensus size: 57
15632755 AAATTTCAAA
*
15632765 AAAATGTTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAAT-TTTTT
1 AAAATGTTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTTC
* * * * *
15632821 TAAATGTTTTGAAG-AAAAGTTAAAATATCAA-TTTCCTTAAAGAAAAAAATATTTTC
1 AAAATGTTTT-AAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTTC
** * *
15632877 AAAATACTTAAAGAAAATGTTGAAAGTATCAATTTTTCCTTAAATAA
1 AAAATGTTTTAAGAAAAAGTTG-AAGTATCAATTTTT-CTTAAATAA
15632924 GACATTAATC
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
55 20 0.24
56 40 0.49
57 11 0.13
58 3 0.04
59 8 0.10
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (57 bp):
AAAATGTTTTAAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATATTTTC
Found at i:15632891 original size:55 final size:56
Alignment explanation
Indices: 15632779--15632920 Score: 153
Period size: 55 Copynumber: 2.5 Consensus size: 56
15632769 TGTTTTAAGA
* * * ** ** *
15632779 AAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAATTTTTTTAAATGTTTTGAAG
1 AAAAGTTAAAGTATCAATTTTCCTTAAAGAAAAAAATTTTTCAAAATGACTTAAAG
*
15632835 AAAAGTTAAAATATCAA-TTTCCTTAAAGAAAAAAATATTTTCAAAAT-ACTTAAAG
1 AAAAGTTAAAGTATCAATTTTCCTTAAAGAAAAAAAT-TTTTCAAAATGACTTAAAG
15632890 AAAATGTTGAAAGTATCAATTTTTCCTTAAA
1 AAAA-GTT-AAAGTATCAA-TTTTCCTTAAA
15632921 TAAGACATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
55 26 0.37
56 26 0.37
57 9 0.13
59 10 0.14
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (56 bp):
AAAAGTTAAAGTATCAATTTTCCTTAAAGAAAAAAATTTTTCAAAATGACTTAAAG
Found at i:15633537 original size:4 final size:4
Alignment explanation
Indices: 15633515--15633554 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
15633505 GCCTAATAAA
* *
15633515 ATTT ATTT TTTT ATAT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
15633555 TTCTTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:15633984 original size:12 final size:12
Alignment explanation
Indices: 15633967--15633992 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15633957 ATTATCATTT
15633967 TAAAGTGTATGA
1 TAAAGTGTATGA
15633979 TAAAGTGTATGA
1 TAAAGTGTATGA
15633991 TA
1 TA
15633993 GTTGAATTTC
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (12 bp):
TAAAGTGTATGA
Found at i:15636923 original size:8 final size:8
Alignment explanation
Indices: 15636910--15636979 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
15636900 TGACATGGAA
15636910 AAAAAATG
1 AAAAAATG
15636918 AAAAAA--
1 AAAAAATG
*
15636924 ATAAAAAGG
1 A-AAAAATG
15636933 CAAAAAAATG
1 -A-AAAAATG
15636943 AAGAAAATG
1 AA-AAAATG
**
15636952 AAAATGTG
1 AAAAAATG
15636960 AAAAAAT-
1 AAAAAATG
15636967 AAAAAATG
1 AAAAAATG
15636975 AAAAA
1 AAAAA
15636980 GAAGACTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
6 1 0.02
7 12 0.24
8 21 0.42
9 9 0.18
10 7 0.14
ACGTcount: A:0.74, C:0.01, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:15636943 original size:25 final size:25
Alignment explanation
Indices: 15636909--15636980 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
15636899 ATGACATGGA
15636909 AAAAAAATGAAAAAAATAAAAAGGC
1 AAAAAAATGAAAAAAATAAAAAGGC
* * * *
15636934 AAAAAAATGAAGAAAATGAAAATGT
1 AAAAAAATGAAAAAAATAAAAAGGC
*
15636959 GAAAAAAT--AAAAAATGAAAAAG
1 AAAAAAATGAAAAAAAT-AAAAAG
15636981 AAGACTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 6 0.16
24 4 0.11
25 28 0.74
ACGTcount: A:0.74, C:0.01, G:0.14, T:0.11
Consensus pattern (25 bp):
AAAAAAATGAAAAAAATAAAAAGGC
Found at i:15636976 original size:15 final size:16
Alignment explanation
Indices: 15636935--15636979 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
15636925 TAAAAAGGCA
15636935 AAAAAATGAAGAAAATG
1 AAAAAATGAA-AAAATG
**
15636952 AAAATGTGAAAAAAT-
1 AAAAAATGAAAAAATG
15636967 AAAAAATGAAAAA
1 AAAAAATGAAAAA
15636980 GAAGACTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:15637430 original size:61 final size:59
Alignment explanation
Indices: 15637180--15637595 Score: 568
Period size: 60 Copynumber: 6.9 Consensus size: 59
15637170 ATGTGTGGGA
*
15637180 AAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTTGGAAATTTATTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTT-TATTTTTAAGG
* ** *
15637239 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTT-GAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGGAAATTTTATTTTTAAGG
* *
15637298 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTT-ATTTTTAAGG
* *
15637358 AAAATTGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTTCGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT--ATTTTTTTGGAAATTTTATTTTTAAGG
* * * *
15637419 AAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTT-ATTTTTAAGG
* **
15637479 AAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTTTTTAAA-TTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTTGGAAATTTTATTTTTAAGG
*
15637540 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTT-ATTTTT
15637596 CTTTAAAGAA
Statistics
Matches: 313, Mismatches: 32, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
58 17 0.05
59 90 0.29
60 94 0.30
61 83 0.27
62 18 0.06
63 11 0.04
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTTAAGG
Found at i:15637440 original size:121 final size:119
Alignment explanation
Indices: 15637180--15637594 Score: 674
Period size: 121 Copynumber: 3.5 Consensus size: 119
15637170 ATGTGTGGGA
* * *
15637180 AAAATTGATACTTTCAACTTTTCCC-CAAAATATTTTTTTGGAAATTTAT-TTTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT-TGATTTTCAAGGAAAA
*
15637243 TTGATACTTTCAACTTTTCCTCAAAAATCCC-TTTTTTGAAAATTTATTTTTAAGG
65 TTGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTTG-AAATTTATTTTTAAGG
15637298 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
15637363 TGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTTCGAAATTTTATTTTTAAGG
66 TGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTT-GAAA-TTTATTTTTAAGG
* *
15637419 AAAATTAATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
** *
15637484 TGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTTTTTAAATTTATTTTTAAGG
66 TGATACTTTCAACTTTTCCCCAAAAATC--CCTTTTTTTGAAATTTATTTTTAAGG
15637540 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT
15637595 TCTTTAAAGA
Statistics
Matches: 280, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
118 26 0.09
119 63 0.22
120 9 0.03
121 172 0.61
122 3 0.01
123 7 0.03
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTTGAAATTTATTTTTAAGG
Found at i:15637641 original size:10 final size:10
Alignment explanation
Indices: 15637614--15637732 Score: 59
Period size: 10 Copynumber: 11.6 Consensus size: 10
15637604 AAAATAGAAT
15637614 AATAAAAA-A
1 AATAAAAATA
*
15637623 AAGTGAAAATA
1 AA-TAAAAATA
15637634 AATAAAAATA
1 AATAAAAATA
*
15637644 AA-AAAATTA
1 AATAAAAATA
* *
15637653 AAGAAAAGT-
1 AATAAAAATA
*
15637662 AA-AACAA-A
1 AATAAAAATA
15637670 AATAAAAATA
1 AATAAAAATA
*
15637680 AGATAAAGAAAA
1 A-ATAAA-AATA
*
15637692 AATATTAAATA
1 AATA-AAAATA
*
15637703 AATCTAATCTAATA
1 AA--TAA--AAATA
15637717 AATAAAAATA
1 AATAAAAATA
15637727 AATAAA
1 AATAAA
15637733 GAATTCAAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
8 5 0.06
9 16 0.19
10 31 0.37
11 16 0.19
12 8 0.10
13 2 0.02
14 6 0.07
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (10 bp):
AATAAAAATA
Found at i:15637646 original size:23 final size:24
Alignment explanation
Indices: 15637603--15637648 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15637593 TTTCTTTAAA
15637603 GAAAATAGAATAATAAAAAAAAGT
1 GAAAATAGAATAATAAAAAAAAGT
*
15637627 GAAAATA-AATAAAAATAAAAAA
1 GAAAATAGAATAATAA-AAAAAA
15637649 ATTAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (24 bp):
GAAAATAGAATAATAAAAAAAAGT
Found at i:15637678 original size:46 final size:46
Alignment explanation
Indices: 15637628--15637732 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 46
15637618 AAAAAAAGTG
*
15637628 AAAATAAATAAAAATAAAAAAATTAAAGAAAAGTAAAAC-AA-AAATA
1 AAAATAAATAAAAA-AAAAAAATTAAAGAAAACT-AAACTAATAAATA
* * * * *
15637674 AAAATAAGATAAAGAAAAAATATTAAATAAATCTAATCTAATAAATA
1 AAAATAA-ATAAAAAAAAAAAATTAAAGAAAACTAAACTAATAAATA
15637721 AAAATAAATAAA
1 AAAATAAATAAA
15637733 GAATTCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
45 3 0.06
46 29 0.58
47 18 0.36
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (46 bp):
AAAATAAATAAAAAAAAAAAATTAAAGAAAACTAAACTAATAAATA
Found at i:15637686 original size:22 final size:21
Alignment explanation
Indices: 15637628--15637695 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 21
15637618 AAAAAAAGTG
* *
15637628 AAAATAAATAAAAAT-AA-AA
1 AAAATAAAGAAAAGTAAAGAA
*
15637647 AAATTAAAGAAAAGTAAA-ACA
1 AAAATAAAGAAAAGTAAAGA-A
15637668 AAAATAAA-AATAAGATAAAGAA
1 AAAATAAAGAA-AAG-TAAAGAA
15637690 AAAATA
1 AAAATA
15637696 TTAAATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 12 0.30
20 5 0.12
21 11 0.28
22 11 0.28
23 1 0.03
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAATAAAGAAAAGTAAAGAA
Found at i:15638720 original size:8 final size:8
Alignment explanation
Indices: 15638709--15638739 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
15638699 ACAGATATAC
15638709 AAAAAAGA
1 AAAAAAGA
15638717 AAAAAGAGA
1 AAAAA-AGA
15638726 AAAAAAGA
1 AAAAAAGA
15638734 AAAAAA
1 AAAAAA
15638740 ATACAGGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:15638844 original size:21 final size:20
Alignment explanation
Indices: 15638775--15638848 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
15638765 CTTACCCATT
15638775 TGGGCCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
* *
15638795 TGGGCCTGAACCC-A-T--T-
1 TGGGCCAG-GCCCAATTGATC
*
15638811 TGGGTCAGGCCCAATTGATC
1 TGGGCCAGGCCCAATTGATC
*
15638831 TGGGCCTGGACCCAATTG
1 TGGGCCAGG-CCCAATTG
15638849 GGTGTCTACA
Statistics
Matches: 40, Mismatches: 7, Indels: 13
0.67 0.12 0.22
Matches are distributed among these distances:
15 3 0.08
16 7 0.17
17 2 0.05
19 2 0.05
20 15 0.38
21 11 0.28
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.23
Consensus pattern (20 bp):
TGGGCCAGGCCCAATTGATC
Found at i:15638851 original size:36 final size:36
Alignment explanation
Indices: 15638760--15638851 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
15638750 AAAATTCAAT
* *
15638760 TGGGCCT-TACCCATTTGGGCCAGGCCCAATTGATC
1 TGGGCCTGAACCCATTTGGGTCAGGCCCAATTGATC
15638795 TGGGCCTGAACCCATTTGGGTCAGGCCCAATTGATC
1 TGGGCCTGAACCCATTTGGGTCAGGCCCAATTGATC
* *
15638831 TGGGCCTGGACCCAATTGGGT
1 TGGGCCTGAACCCATTTGGGT
15638852 GTCTACAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 7 0.13
36 45 0.87
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.25
Consensus pattern (36 bp):
TGGGCCTGAACCCATTTGGGTCAGGCCCAATTGATC
Found at i:15639871 original size:22 final size:22
Alignment explanation
Indices: 15639787--15639880 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
15639777 TACTAAAATT
15639787 TTTTGAATAAGAATCTTTGAAA
1 TTTTGAATAAGAATCTTTGAAA
* * ** ** *
15639809 TATTGGATGTGAATCAGTAAAA
1 TTTTGAATAAGAATCTTTGAAA
* *
15639831 TTTCTCTAATAAGATTCTTTGAAA
1 TTT-T-GAATAAGAATCTTTGAAA
*
15639855 TTTTGAATAGGAATCTTTG-AA
1 TTTTGAATAAGAATCTTTGAAA
15639876 TTTTG
1 TTTTG
15639881 GATGTGAATC
Statistics
Matches: 51, Mismatches: 19, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 7 0.14
22 29 0.57
23 2 0.04
24 13 0.25
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (22 bp):
TTTTGAATAAGAATCTTTGAAA
Found at i:15640067 original size:17 final size:17
Alignment explanation
Indices: 15640017--15640067 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
15640007 CTTAATTCTA
*
15640017 GTGAATTTCAAAATCTT
1 GTGAATTTCAAAATTTT
** *
15640034 GTGAATTTTTAATTTTT
1 GTGAATTTCAAAATTTT
*
15640051 GTGAATTTGAAAATTTT
1 GTGAATTTCAAAATTTT
15640068 TGCAAAACTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (17 bp):
GTGAATTTCAAAATTTT
Found at i:15640146 original size:16 final size:16
Alignment explanation
Indices: 15640111--15640149 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
15640101 TCTTGCGCAC
15640111 CTAAAATTTTAATGAAT
1 CTAAAATTTTAA-GAAT
15640128 CTAAAATTTTGAA-AAT
1 CTAAAATTTT-AAGAAT
15640144 CTAAAA
1 CTAAAA
15640150 ATCTTGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (16 bp):
CTAAAATTTTAAGAAT
Found at i:15642241 original size:53 final size:54
Alignment explanation
Indices: 15642162--15642264 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 54
15642152 AATAATTAGG
* * *
15642162 AAAAGGAAAAGGTTGAATTATTAATTTTCTT-TTAAACAACAAAATAATTTTAAC
1 AAAAGGAAAAAGTTGAATTATCAATTTT-TTCTTAAACAAAAAAATAATTTTAAC
*
15642216 AAAA-GAAAAAGTTGAATTATCAATTTTTTCTTAATCAAAAAAATAATTT
1 AAAAGGAAAAAGTTGAATTATCAATTTTTTCTTAAACAAAAAAATAATTT
15642265 CAAAAACTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 2 0.05
53 38 0.86
54 4 0.09
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAAGGAAAAAGTTGAATTATCAATTTTTTCTTAAACAAAAAAATAATTTTAAC
Found at i:15642401 original size:57 final size:58
Alignment explanation
Indices: 15642222--15642487 Score: 295
Period size: 57 Copynumber: 4.5 Consensus size: 58
15642212 TAACAAAAGA
* * * * *
15642222 AAAAGTTGAATTATCAATTTTTTCTT-AATCAAAAAAATAATTTCAAAAACTTTTTTAAGG
1 AAAAGTTGAAGTATCAA-TTTTCCTTAAAT-AAAAAAAT-ATTTCAAAAAATGTTTTGAGG
* * * *
15642282 AAAAGTTGAAGTATCAATTTTGCTTAAATATAAAAATATTTCAAATAATGTTTTGAAG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTGAGG
*
15642340 AAAAGTTGAAGTATTAATTTTCCTTAAATAAAAAAAT-TTTCAAAAAATGTTTTGAGG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTGAGG
* * * * * ***
15642397 AAAAGTTGAAATATCACTTTTCCTTGAA-GAAAAAATATTTAAAAAAAAAATTTGAGG
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTGAGG
15642454 AAAATGTTGAAAGTATCAATATTTCCTTAAATAA
1 AAAA-GTTG-AAGTATCAAT-TTTCCTTAAATAA
15642488 GACATTAATC
Statistics
Matches: 174, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
56 7 0.04
57 62 0.36
58 54 0.31
59 22 0.13
60 28 0.16
61 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTGAGG
Found at i:15642401 original size:115 final size:115
Alignment explanation
Indices: 15642222--15642487 Score: 302
Period size: 115 Copynumber: 2.3 Consensus size: 115
15642212 TAACAAAAGA
* * * *
15642222 AAAAGTTGAATTATCAATTTTTTCTT-AATCAAAAAAATAATTTCAAAAACTTTTTTAAGGAAAA
1 AAAAGTTGAAGTATCAA-TTTTCCTTAAAT-AAAAAAAT-ATTTCAAAAAATGTTTTAAGGAAAA
* * * * * ***
15642286 GTTGAAGTATCAATTTTGCTTAAATATAAAAATATTTCAAATAATGTTTTGAAG
63 GTTGAAATATCAATTTTCCTTAAAGA-AAAAATATTTAAAAAAAAAATTTGAAG
* *
15642340 AAAAGTTGAAGTATTAATTTTCCTTAAATAAAAAAAT-TTTCAAAAAATGTTTTGAGGAAAAGTT
1 AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTAAGGAAAAGTT
* * *
15642404 GAAATATCACTTTTCCTTGAAGAAAAAATATTTAAAAAAAAAATTTGAGG
66 GAAATATCAATTTTCCTTAAAGAAAAAATATTTAAAAAAAAAATTTGAAG
15642454 AAAATGTTGAAAGTATCAATATTTCCTTAAATAA
1 AAAA-GTTG-AAGTATCAAT-TTTCCTTAAATAA
15642488 GACATTAATC
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
114 25 0.20
115 46 0.37
116 9 0.07
117 28 0.22
118 18 0.14
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (115 bp):
AAAAGTTGAAGTATCAATTTTCCTTAAATAAAAAAATATTTCAAAAAATGTTTTAAGGAAAAGTT
GAAATATCAATTTTCCTTAAAGAAAAAATATTTAAAAAAAAAATTTGAAG
Found at i:15643829 original size:64 final size:64
Alignment explanation
Indices: 15643703--15643822 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 64
15643693 TTGGTTGTTG
* * * * *
15643703 TAACTCTCACCATTAATTGTAAGTTATTAGAATGAGTTAAGAGATAGTTGTGAGATGAAAGTTA
1 TAACTCTCACCATTAATTATAAGTTAGTAGAAGGAGTTAAGAGATAGTTGGGAAATGAAAGTTA
* * * *
15643767 TAACTCTTATCATTAATTATAAGTTGGTAGAAGGAGTTAGGAGAT-GATTGGGAAAT
1 TAACTCTCACCATTAATTATAAGTTAGTAGAAGGAGTTAAGAGATAG-TTGGGAAAT
15643823 ATAAGTTGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
63 1 0.02
64 45 0.98
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.34
Consensus pattern (64 bp):
TAACTCTCACCATTAATTATAAGTTAGTAGAAGGAGTTAAGAGATAGTTGGGAAATGAAAGTTA
Found at i:15648511 original size:63 final size:63
Alignment explanation
Indices: 15648438--15648556 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 63
15648428 TTTAATCTAT
*
15648438 CATTAATTGTAAGTTGTTGAAGGAATTAAGTGAT-AGTTGAGAGATGAAAGTTGTAACTCTCAC
1 CATTAATTGTAAGTTGTTGAAGGAATTAAGAGATGA-TTGAGAGATGAAAGTTGTAACTCTCAC
* * *
15648501 CATTAATTGTAAGTTGTTGAAGGAGTTAAGAGATGATTGAGAGATGGAATTTGTAA
1 CATTAATTGTAAGTTGTTGAAGGAATTAAGAGATGATTGAGAGATGAAAGTTGTAA
15648557 TTAATAGAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
63 50 0.98
64 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (63 bp):
CATTAATTGTAAGTTGTTGAAGGAATTAAGAGATGATTGAGAGATGAAAGTTGTAACTCTCAC
Found at i:15654949 original size:2 final size:2
Alignment explanation
Indices: 15654905--15654934 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15654895 AATATATGCT
15654905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15654935 ATTCAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15656667 original size:22 final size:22
Alignment explanation
Indices: 15656637--15656680 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15656627 TGTTGGCTAT
15656637 TAAACAAAATAGATAAATAAAAA
1 TAAACAAAATA-ATAAATAAAAA
*
15656660 TAAA-AAAATATTAAATAAAAA
1 TAAACAAAATAATAAATAAAAA
15656681 ACCAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 6 0.30
23 4 0.20
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAACAAAATAATAAATAAAAA
Found at i:15658463 original size:13 final size:12
Alignment explanation
Indices: 15658441--15658480 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
15658431 AAAACATTAG
15658441 AAATATAAAATT
1 AAATATAAAATT
*
15658453 AAATCATAAAAAT
1 AAAT-ATAAAATT
15658466 AAATAATAAAATT
1 AAAT-ATAAAATT
15658479 AA
1 AA
15658481 TAAATGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATATAAAATT
Found at i:15658484 original size:16 final size:16
Alignment explanation
Indices: 15658458--15658503 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
15658448 AAATTAAATC
*
15658458 ATAAAAATAAATAATA
1 ATAATAATAAATAATA
*
15658474 A-AATTAATAAATGATA
1 ATAA-TAATAAATAATA
15658490 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
15658504 TTTTTAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.28
16 16 0.64
17 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAATAATAAATAATA
Found at i:15658553 original size:24 final size:24
Alignment explanation
Indices: 15658526--15658571 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15658516 GAAGAAAAGA
*
15658526 AAAATAAATA-ATAAAATTATAATG
1 AAAA-AAATATATAAAAATATAATG
15658550 AAAAAAATATATAAAAATATAA
1 AAAAAAATATATAAAAATATAA
15658572 AAGTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAAAATATATAAAAATATAATG
Found at i:15659225 original size:2 final size:2
Alignment explanation
Indices: 15659218--15659251 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15659208 ATTACGCATA
* *
15659218 AT AT AT AT AT AT AT AT AC AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15659252 TATTGATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15671552 original size:37 final size:38
Alignment explanation
Indices: 15671504--15671583 Score: 135
Period size: 37 Copynumber: 2.1 Consensus size: 38
15671494 ACAGCAACTC
*
15671504 TTTCTTGCCTTCAATTTCTTTCCTAATGGCATCTCT-T
1 TTTCTTGCCTTCAATTTCTTTCCTAATGACATCTCTCT
*
15671541 TTTCTTGCCTTCAATTTCTTTCCTAATGACATCTGTCT
1 TTTCTTGCCTTCAATTTCTTTCCTAATGACATCTCTCT
15671579 TTTCT
1 TTTCT
15671584 AATGCAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 34 0.85
38 6 0.15
ACGTcount: A:0.14, C:0.26, G:0.07, T:0.53
Consensus pattern (38 bp):
TTTCTTGCCTTCAATTTCTTTCCTAATGACATCTCTCT
Found at i:15672516 original size:92 final size:92
Alignment explanation
Indices: 15672356--15672541 Score: 336
Period size: 92 Copynumber: 2.0 Consensus size: 92
15672346 CCACCTTGAG
*
15672356 CAATGTCTTTGGCTCATATTGTATCTATCTCCTTCTTCATATGAGCAATCTATATCCAGAACATG
1 CAATGTCTTTGGCTCATATTGTATCTATCTCCTTCTTCATATGAGCAATCTATATCCAGAACAAG
15672421 TAGTAAATGATACATAACAAGCACTGA
66 TAGTAAATGATACATAACAAGCACTGA
* * *
15672448 CAATGTCTTTGGCTCGTGTTGTATCTATCTCTTTCTTCATATGAGCAATCTATATCCAGAACAAG
1 CAATGTCTTTGGCTCATATTGTATCTATCTCCTTCTTCATATGAGCAATCTATATCCAGAACAAG
15672513 TAGTAAATGATACATAACAAGCACTGA
66 TAGTAAATGATACATAACAAGCACTGA
15672540 CA
1 CA
15672542 TGGAAAAGAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (92 bp):
CAATGTCTTTGGCTCATATTGTATCTATCTCCTTCTTCATATGAGCAATCTATATCCAGAACAAG
TAGTAAATGATACATAACAAGCACTGA
Found at i:15678008 original size:19 final size:18
Alignment explanation
Indices: 15677951--15678008 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
15677941 GTTGATACTT
* *
15677951 TTTTTTTTTTTGTTATTGG
1 TTTTTTTTTTTGTCATT-C
*
15677970 TTTTTTTTTTATTTCA-TC
1 TTTTTTTTTT-TGTCATTC
15677988 TTTTATTTTTTTGTCATTC
1 TTTT-TTTTTTTGTCATTC
15678007 TT
1 TT
15678009 AACTTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.25
19 21 0.66
20 3 0.09
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTTGTCATTC
Found at i:15679969 original size:12 final size:13
Alignment explanation
Indices: 15679952--15679980 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15679942 CTCAGTAGTG
15679952 TTTTCTTCT-TCT
1 TTTTCTTCTCTCT
15679964 TTTTCTTCTCTCT
1 TTTTCTTCTCTCT
15679977 TTTT
1 TTTT
15679981 GATGGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTCTCT
Found at i:15686963 original size:29 final size:31
Alignment explanation
Indices: 15686926--15686999 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 31
15686916 ATAAATTAAT
*
15686926 AATTCAAATATTATATTAAA-ATTTT-TTTA
1 AATTTAAATATTATATTAAATATTTTATTTA
* * *
15686955 AATTTAAATATCACATTAAATATTTTATTTT
1 AATTTAAATATTATATTAAATATTTTATTTA
*
15686986 AATTTAAAAATTAT
1 AATTTAAATATTAT
15687000 TAGTGATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 17 0.47
30 5 0.14
31 14 0.39
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
AATTTAAATATTATATTAAATATTTTATTTA
Found at i:15687258 original size:16 final size:18
Alignment explanation
Indices: 15687237--15687271 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15687227 CATTTTAATG
15687237 AAATTT-TTAAAAA-ATA
1 AAATTTATTAAAAAGATA
15687253 AAATTTATTAAAAAGATA
1 AAATTTATTAAAAAGATA
15687271 A
1 A
15687272 TTTTTGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATTTATTAAAAAGATA
Found at i:15688993 original size:14 final size:14
Alignment explanation
Indices: 15688974--15689010 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15688964 CGAAAAAAGT
*
15688974 TTTTTTTTAAAGGA
1 TTTTTTTTAAAGAA
15688988 TTTTTTTTAAAGAA
1 TTTTTTTTAAAGAA
15689002 TTTCTTTTT
1 TTT-TTTTT
15689011 TTTATTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (14 bp):
TTTTTTTTAAAGAA
Found at i:15689060 original size:21 final size:22
Alignment explanation
Indices: 15689031--15689071 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15689021 TTATAGAATC
*
15689031 ATTTTTTTTA-AAAGAAAATTT
1 ATTTATTTTAGAAAGAAAATTT
*
15689052 ATTTATTTTAGAAATAAAAT
1 ATTTATTTTAGAAAGAAAAT
15689072 AACAGGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTATTTTAGAAAGAAAATTT
Found at i:15689145 original size:5 final size:5
Alignment explanation
Indices: 15689137--15689178 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
15689127 AAATGGGTTA
15689137 AAAAT AAAAT AAAAT --AAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15689179 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.09
5 32 0.91
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:15689158 original size:18 final size:18
Alignment explanation
Indices: 15689137--15689171 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
15689127 AAATGGGTTA
15689137 AAAATAAAATAAAATAAT
1 AAAATAAAATAAAATAAT
15689155 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
15689172 AATAAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATAAAATAAAATAAT
Found at i:15689163 original size:23 final size:22
Alignment explanation
Indices: 15689137--15689180 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
15689127 AAATGGGTTA
15689137 AAAATAAAATAAAATAATAAAAT
1 AAAATAAAATAAAATAA-AAAAT
15689160 AAAATAAAATAAAATAAAAAA
1 AAAATAAAATAAAATAAAAAA
15689181 CATGTGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAAAAT
Found at i:15689348 original size:31 final size:31
Alignment explanation
Indices: 15689310--15689377 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
15689300 TTAATCCTTG
15689310 GAAACCTTCTGTCTCTTCTCTTTCTAAACCA
1 GAAACCTTCTGTCTCTTCTCTTTCTAAACCA
15689341 GAAACCTTCTGTCTCTTCTCTTTCTAAACCA
1 GAAACCTTCTGTCTCTTCTCTTTCTAAACCA
15689372 GAAACC
1 GAAACC
15689378 CTCTAATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.35
Consensus pattern (31 bp):
GAAACCTTCTGTCTCTTCTCTTTCTAAACCA
Found at i:15690556 original size:56 final size:56
Alignment explanation
Indices: 15690420--15690556 Score: 159
Period size: 56 Copynumber: 2.4 Consensus size: 56
15690410 AAGGTAAAAA
* * * *
15690420 ATGATCGGGACGAAACCATGAATCATAAGAGATCATCTGGATTGAGCCAAGATTAG
1 ATGATCGGGACAAAACCATGAATCATAAGAAATCATCTGGACTGAGCCAAGATAAG
* ** * *
15690476 ATGATCAGGACAAAATTATGAATCATAAGAAATGATTTGGACTGAGCCAAGATCAAG
1 ATGATCGGGACAAAACCATGAATCATAAGAAATCATCTGGACTGAGCCAAGAT-AAG
* *
15690533 -TGATCGGGATAAAACCATAAATCA
1 ATGATCGGGACAAAACCATGAATCA
15690557 AAATGAGGTG
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
56 64 0.97
57 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (56 bp):
ATGATCGGGACAAAACCATGAATCATAAGAAATCATCTGGACTGAGCCAAGATAAG
Found at i:15690695 original size:115 final size:114
Alignment explanation
Indices: 15690493--15690942 Score: 368
Period size: 115 Copynumber: 3.9 Consensus size: 114
15690483 GGACAAAATT
* * * * * * *
15690493 ATGAATCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTGA-TCGGGATAAAACCATAAATCA
1 ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAGTGACT-AGGATGAAATCATGAGTAA
* *** * * * * * *
15690557 AAATGAGGTGATCAGGATCGAGTTAAGGTCGAAAGTAACCAGGA-CAAAGCC
65 AAATAAAACGACCAAGATCGAGTTAAGGTAGAAAATGACC-GGATGAAA-CC
* * * * *
15690608 ATGAATCATAAGGAATAATTTAGACTAAGCCAAGATCAAGTGACCAGGATGAAATCATGAGTTAA
1 ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGATGAAATCATGAGTAAA
* * *
15690673 AATAAAACGACCAAGA-CTGAGTTTAGGTAAAAAATGACTTGGATGAAACC
66 AATAAAACGACCAAGATC-GAGTTAAGGTAGAAAATGAC-CGGATGAAACC
* ** * ** * *
15690723 ATGAATTATAAGAAATGATTCGGACTGAGCCATGATC-AGATGACTAGGACAAAAGCATGAGTCA
1 ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAG-TGACTAGGATGAAATCATGAGTAA
* * * * *
15690787 AAATGAAGCGACCAGGATCGAGTCAAGGTTGAAAATGACCGAGATGAAACC
65 AAATAAAACGACCAAGATCGAGTTAAGGTAGAAAATGACCG-GATGAAACC
* * *
15690838 ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAGTGACTTGAATGAAATCGTGAGTAAA
1 ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGATGAAATCATGAGT--A
* * * * * *
15690903 AAAATAAAGCAATCGAGATCAAGTTAAGGTAAAAAATGAC
64 AAAATAAAACGACCAAGATCGAGTTAAGGTAGAAAATGAC
15690943 TAACCGAGAT
Statistics
Matches: 261, Mismatches: 64, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
114 4 0.02
115 220 0.84
116 6 0.02
117 31 0.12
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (114 bp):
ATGAATCATAAGAAATGATTTAGACTGAGCCAAGATCAAGTGACTAGGATGAAATCATGAGTAAA
AATAAAACGACCAAGATCGAGTTAAGGTAGAAAATGACCGGATGAAACC
Found at i:15696316 original size:59 final size:59
Alignment explanation
Indices: 15696236--15696349 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
15696226 GAATTTATGA
* * * *
15696236 ATTTATTTTGTAAGATTTTTATTCGAAAAAGGTTTTTTTT-TAAGGATTTTTTTATAAAT
1 ATTTATTTTGTAAGATCTTTATTCG-AAAAGATTTTTTTTGAAAAGATTTTTTTATAAAT
* *
15696295 ATTTATTTTTTGAAGA-CTTTATTTGAAAAGATTTTTTTTGAAAAGATTTTTTTAT
1 ATTTATTTTGT-AAGATCTTTATTCGAAAAGATTTTTTTTGAAAAGATTTTTTTAT
15696350 TTGCTTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 13 0.28
59 30 0.64
60 4 0.09
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (59 bp):
ATTTATTTTGTAAGATCTTTATTCGAAAAGATTTTTTTTGAAAAGATTTTTTTATAAAT
Found at i:15696346 original size:14 final size:15
Alignment explanation
Indices: 15696316--15696347 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15696306 GAAGACTTTA
15696316 TTTGAAAAGATTTTT
1 TTTGAAAAGATTTTT
15696331 TTTGAAAAGATTTTT
1 TTTGAAAAGATTTTT
15696346 TT
1 TT
15696348 ATTTGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTGAAAAGATTTTT
Found at i:15696480 original size:44 final size:44
Alignment explanation
Indices: 15696432--15696527 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
15696422 TAAATGGCAG
** *
15696432 AAATAAAATTTCTTAAAAATAAAACCAAA-AAAATAATAT-ATAAA
1 AAATAAAATGGCTTAAAAATAAAACAAAATAAAATAA-ATCA-AAA
* *
15696476 AAATAAAATGGGTTAAAAATAAAATAAAATAAAATAAATCAAAA
1 AAATAAAATGGCTTAAAAATAAAACAAAATAAAATAAATCAAAA
15696520 AAATAAAA
1 AAATAAAA
15696528 ATAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 37 0.82
45 8 0.18
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (44 bp):
AAATAAAATGGCTTAAAAATAAAACAAAATAAAATAAATCAAAA
Found at i:15696499 original size:5 final size:5
Alignment explanation
Indices: 15696491--15696542 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
15696481 AAATGGGTTA
*
15696491 AAAAT AAAAT AAAAT AAAAT -AAAT CAAA- AAAAT AAAAAT AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
15696539 AAAA
1 AAAA
15696543 ACTTGCGATT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
4 11 0.26
5 27 0.63
6 5 0.12
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:15699101 original size:18 final size:18
Alignment explanation
Indices: 15699076--15699127 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
15699066 TTTTTGTAAT
15699076 TTAA-TTTTAATTTATAA
1 TTAATTTTTAATTTATAA
* *
15699093 TTAATTTTTTA-TAATTAA
1 TTAATTTTTAATTTA-TAA
*
15699111 TTAATTTTTATTTTATA
1 TTAATTTTTAATTTATA
15699128 TTTTTTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 6 0.22
18 19 0.70
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATTTTTAATTTATAA
Found at i:15699105 original size:14 final size:14
Alignment explanation
Indices: 15699086--15699112 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15699076 TTAATTTTAA
15699086 TTTATAATTAATTT
1 TTTATAATTAATTT
15699100 TTTATAATTAATT
1 TTTATAATTAATT
15699113 AATTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTATAATTAATTT
Found at i:15699175 original size:3 final size:3
Alignment explanation
Indices: 15699167--15699197 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15699157 CTAAATGATA
15699167 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15699198 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15699202 original size:3 final size:3
Alignment explanation
Indices: 15699196--15699239 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
15699186 ATAATAATAA
15699196 TAT TAT TAT 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 TA
15699240 AAATAACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15702905 original size:15 final size:16
Alignment explanation
Indices: 15702880--15702910 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15702870 GTTTATATTA
15702880 AAAATATAAATAAATT
1 AAAATATAAATAAATT
15702896 AAAA-ATAAATAAATT
1 AAAATATAAATAAATT
15702911 TTGTTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATATAAATAAATT
Found at i:15707166 original size:3 final size:3
Alignment explanation
Indices: 15707158--15707212 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
15707148 CAACCAATAT
15707158 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15707206 TTA TTA T
1 TTA TTA T
15707213 GTTTTAATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15707998 original size:14 final size:13
Alignment explanation
Indices: 15707968--15707997 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15707958 ATTTTTTTTA
15707968 TTTTGTTTTCATT
1 TTTTGTTTTCATT
15707981 TTTTGTTTTCATT
1 TTTTGTTTTCATT
15707994 TTTT
1 TTTT
15707998 TACTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTGTTTTCATT
Found at i:15708025 original size:5 final size:5
Alignment explanation
Indices: 15708017--15708045 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15708007 ATTTTTAAGC
15708017 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
15708046 CTACTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:15714284 original size:5 final size:5
Alignment explanation
Indices: 15714276--15714360 Score: 61
Period size: 5 Copynumber: 17.0 Consensus size: 5
15714266 TCCATTTTGT
* * *
15714276 TTTTA -TTT- TTTGA TTTTA TTTGA TTTTAA TTTTAA TTTT- TTGCTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA TT-TTA
* *
15714321 TTTTA TTTTA CTTTA TTTT- TAATTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
15714361 CTATTTTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
4 8 0.13
5 41 0.65
6 14 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:15714359 original size:30 final size:29
Alignment explanation
Indices: 15714275--15714371 Score: 99
Period size: 32 Copynumber: 3.2 Consensus size: 29
15714265 TTCCATTTTG
* *
15714275 TTTTT-ATTTTTTGATTTTATTTGATTTTA
1 TTTTTAATTTTTT-ATTTTATTTTACTTTA
*
15714304 ATTTTAATTTTTTGCTATTTTATTTTACTTTA
1 TTTTTAA-TTTTT--TATTTTATTTTACTTTA
*
15714336 TTTTTAATTATTTTATTTTATTTTACTAT-
1 TTTTTAATT-TTTTATTTTATTTTACTTTA
15714365 TTTTTAA
1 TTTTTAA
15714372 ATTGAGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
29 11 0.19
30 16 0.28
31 7 0.12
32 23 0.40
33 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (29 bp):
TTTTTAATTTTTTATTTTATTTTACTTTA
Found at i:15716068 original size:12 final size:12
Alignment explanation
Indices: 15716051--15716075 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15716041 AAAAAGAATA
15716051 TATTTTATTTTT
1 TATTTTATTTTT
15716063 TATTTTATTTTT
1 TATTTTATTTTT
15716075 T
1 T
15716076 TCAAAAAAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTATTTTT
Done.