Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 14 of 770
Found at i:3669679 original size:31 final size:31
Alignment explanation
Indices: 3669644--3669792 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
3669634 CTTGTCACTT
* *
3669644 GTAGCCGAAGCTACCACTATTCACTGATAAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3669675 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
3669706 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
3669737 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
3669768 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
3669793 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 3 0.03
31 102 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:3669874 original size:50 final size:51
Alignment explanation
Indices: 3669768--3669896 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
3669758 CACTGATCAG
* * *
3669768 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
3669819 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
3669869 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
3669897 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:3670031 original size:14 final size:15
Alignment explanation
Indices: 3670012--3670040 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3670002 TTTTATCATC
3670012 AACACAT-ATGAAAT
1 AACACATCATGAAAT
3670026 AACACATCATGAAAT
1 AACACATCATGAAAT
3670041 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AACACATCATGAAAT
Found at i:3677486 original size:27 final size:28
Alignment explanation
Indices: 3677453--3677522 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
3677443 ATAGTGATTC
3677453 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
3677480 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
3677508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3677523 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:3685470 original size:27 final size:28
Alignment explanation
Indices: 3685437--3685506 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
3685427 ATAGTGATTC
3685437 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
3685464 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
3685492 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3685507 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:3691564 original size:41 final size:41
Alignment explanation
Indices: 3691499--3691692 Score: 325
Period size: 41 Copynumber: 4.7 Consensus size: 41
3691489 CTAAAAACAG
*
3691499 TAGCGGCACTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
*
3691540 TAGTGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
* *
3691581 TAGCGACGCTTTTGGTAAAATGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
**
3691622 TAGCGGCGCTTTTATTAAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
*
3691663 TAACGGCGCTTTTGGTAAAACGCCGCTAAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAA
3691693 AGTCATATAA
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
Found at i:3691768 original size:78 final size:78
Alignment explanation
Indices: 3691666--3691822 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
3691656 AGAGCATTAA
3691666 CGGCGCTTTTGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAACCTCAAAAATATCATAAACA
1 CGGCGCTTTTGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAACCTCAAAAATATCATAAACA
3691731 CTAATCTATAACC
66 CTAATCTATAACC
*
3691744 CGGCGCTTTTGGTAAAACGTCGCTAAAAGTCATATAACCCCTAAACCTCAAAAATATCATAAACA
1 CGGCGCTTTTGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAACCTCAAAAATATCATAAACA
3691809 CTAATCTATAACC
66 CTAATCTATAACC
3691822 C
1 C
3691823 CTAAAATAAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (78 bp):
CGGCGCTTTTGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAACCTCAAAAATATCATAAACA
CTAATCTATAACC
Found at i:3691967 original size:14 final size:14
Alignment explanation
Indices: 3691934--3691961 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3691924 TATCATTGTA
3691934 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
3691948 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
3691962 AGTTAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:3691973 original size:25 final size:25
Alignment explanation
Indices: 3691944--3692033 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
3691934 GTTTAAGGTT
3691944 TATGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGGTTTATGAGTTAAC
* *
3691969 TATGGTTTAAGATATAT-AGTT---
1 TATGGTTTAAGGTTTATGAGTTAAC
* *
3691990 TAGGGTTTAA-GTTTAAGAGTTAAC
1 TATGGTTTAAGGTTTATGAGTTAAC
*
3692014 TA-GTATTTGAAGGTTTATGA
1 TATG-GTTT-AAGGTTTATGA
3692034 TAAATTATGG
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
20 3 0.06
21 13 0.26
23 1 0.02
24 9 0.18
25 17 0.34
26 7 0.14
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.43
Consensus pattern (25 bp):
TATGGTTTAAGGTTTATGAGTTAAC
Found at i:3692206 original size:2 final size:2
Alignment explanation
Indices: 3692199--3692241 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3692189 GTCCCTTGTA
3692199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3692241 A
1 A
3692242 GGGTTTAAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3692351 original size:7 final size:7
Alignment explanation
Indices: 3692324--3692369 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
3692314 TGATTTAATT
3692324 TTTAGGG
1 TTTAGGG
*
3692331 TTTGGGG
1 TTTAGGG
*
3692338 ATTAGGG
1 TTTAGGG
3692345 TTTAGGG
1 TTTAGGG
3692352 TTTAGGG
1 TTTAGGG
*
3692359 TTTAGGC
1 TTTAGGG
3692366 TTTA
1 TTTA
3692370 TAATTTAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.15, C:0.02, G:0.39, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:3697922 original size:9 final size:9
Alignment explanation
Indices: 3697905--3697960 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
3697895 CTTCTCTCAT
3697905 ATAACTTAC
1 ATAACTTAC
*
3697914 ATAATTTAC
1 ATAACTTAC
*
3697923 ATAACTCAC
1 ATAACTTAC
*
3697932 ATAACGTAC
1 ATAACTTAC
3697941 ATAACAACTTAC
1 AT---AACTTAC
3697953 ATAACTTA
1 ATAACTTA
3697961 ACTAATACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 30 0.79
12 8 0.21
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:3703523 original size:21 final size:21
Alignment explanation
Indices: 3703497--3703544 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
3703487 TCAACTCAAA
3703497 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
3703518 GCGGAGGCAGCAGTGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
3703539 GAGGAG
1 GCGGAG
3703545 CAGAACAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:3703910 original size:43 final size:42
Alignment explanation
Indices: 3703837--3703935 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
3703827 ACTGGGCAAA
* * *
3703837 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGACCAAGACTT
1 TTAGCGGCGTTTTTTAAAAAACGCCACTAAAGAACAAGACTT
* * *
3703879 TTAGTGGCGCTTTTTTAAAAAATGTCACTAAAGAACAAGACTT
1 TTAGCGGCG-TTTTTTAAAAAACGCCACTAAAGAACAAGACTT
*
3703922 TTAGCGACGTTTTT
1 TTAGCGGCGTTTTT
3703936 ATATAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 13 0.27
43 35 0.73
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAACGCCACTAAAGAACAAGACTT
Found at i:3704045 original size:43 final size:43
Alignment explanation
Indices: 3703921--3704061 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
3703911 GAACAAGACT
* * *
3703921 TTTAGCGACG-TTTTTATATAAGTGTCGCTATAAGTCCT-AGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGA-TC
* * * *
3703963 TTTAGTGGCGTTTTTAAAAAAAAGCGCCGCTATAAGTCCTGATC
1 TTTAGCGGCGTTTTT-TATATAAGCGCCGCTATAAGTCCTGATC
*
3704007 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGATC
3704050 TTTAGCGGCGTT
1 TTTAGCGGCGTT
3704062 ACATATAGCG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 8 0.10
43 40 0.48
44 35 0.42
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGATC
Found at i:3705298 original size:21 final size:21
Alignment explanation
Indices: 3705269--3705319 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
3705259 ATTTCAGATC
*
3705269 TGATTGTGGAGTTGGATGCTT
1 TGATCGTGGAGTTGGATGCTT
3705290 TGATCGTGGAGTTGGATGCTT
1 TGATCGTGGAGTTGGATGCTT
3705311 TGATCGTGG
1 TGATCGTGG
3705320 CTCGGTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.14, C:0.08, G:0.39, T:0.39
Consensus pattern (21 bp):
TGATCGTGGAGTTGGATGCTT
Found at i:3706134 original size:28 final size:27
Alignment explanation
Indices: 3706084--3706142 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
3706074 AATATACCGA
*
3706084 AAAATTATAGTTTAATCTCAAAAATAAT
1 AAAATTATAATTTAATCTCAAAAAT-AT
* * * *
3706112 AAAATTTTAATTTAATTTTAAAACTAT
1 AAAATTATAATTTAATCTCAAAAATAT
3706139 AAAA
1 AAAA
3706143 ATGTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
AAAATTATAATTTAATCTCAAAAATAT
Found at i:3710931 original size:32 final size:32
Alignment explanation
Indices: 3710890--3710954 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3710880 CTCATCAATA
3710890 AGAAAGTTAGAGGAACTAGTATAAATGATATC
1 AGAAAGTTAGAGGAACTAGTATAAATGATATC
3710922 AGAAAGTTAGAGGAACTAGTATAAATGATATC
1 AGAAAGTTAGAGGAACTAGTATAAATGATATC
3710954 A
1 A
3710955 TCAACGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.25
Consensus pattern (32 bp):
AGAAAGTTAGAGGAACTAGTATAAATGATATC
Found at i:3719566 original size:21 final size:21
Alignment explanation
Indices: 3719541--3719609 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
3719531 TATAATGATT
3719541 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
3719562 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
3719582 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
3719602 ATTATTAT
1 ATTATTAT
3719610 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:3719622 original size:15 final size:14
Alignment explanation
Indices: 3719596--3719626 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
3719586 TATGGTTTTA
3719596 TATTAGATTATTAT
1 TATTAGATTATTAT
3719610 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
3719625 TA
1 TA
3719627 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:3730368 original size:3 final size:3
Alignment explanation
Indices: 3730362--3730416 Score: 60
Period size: 3 Copynumber: 17.7 Consensus size: 3
3730352 ACTTTAAAAA
3730362 AAT AAT AAAT AAAT AAAT AAT AAT AAT AA- AAT AAT AAT AAT AA- ATAT
1 AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
3730409 AAT AAT AA
1 AAT AAT AA
3730417 ATAAAATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 3 0.06
3 33 0.69
4 12 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3730385 original size:18 final size:18
Alignment explanation
Indices: 3730362--3730413 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
3730352 ACTTTAAAAA
3730362 AATAATAAATAAATAAAT
1 AATAATAAATAAATAAAT
3730380 AATAAT-AATAAA-ATAAT
1 AATAATAAATAAATA-AAT
3730397 AATAATAAATATAATAA
1 AATAATAAATA-AATAA
3730414 TAAATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 15 0.50
18 10 0.33
19 3 0.10
20 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAAATAAATAAAT
Found at i:3730410 original size:29 final size:32
Alignment explanation
Indices: 3730357--3730423 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
3730347 CTTTCACTTT
*
3730357 AAAAAAATAATAAATAAATAAATAATAAT-AAT
1 AAAATAATAATAAATAAAT-AATAATAATAAAT
3730389 AAAATAATAAT-AATAAAT-ATAATAATAAAT
1 AAAATAATAATAAATAAATAATAATAATAAAT
3730419 AAAAT
1 AAAAT
3730424 TTAAGACGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 8 0.24
30 8 0.24
31 7 0.21
32 10 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (32 bp):
AAAATAATAATAAATAAATAATAATAATAAAT
Found at i:3730414 original size:18 final size:17
Alignment explanation
Indices: 3730362--3730416 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 17
3730352 ACTTTAAAAA
3730362 AATAATAAATAAATAAAT
1 AATAATAAATAAAT-AAT
3730380 AATAAT-AATAAAATAAT
1 AATAATAAAT-AAATAAT
3730397 AATAATAAATATAATAAT
1 AATAATAAATA-AATAAT
3730415 AA
1 AA
3730417 ATAAAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAATAAATAAATAAT
Found at i:3731044 original size:23 final size:23
Alignment explanation
Indices: 3731015--3731065 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
3731005 AAATAGAAGA
3731015 TATTATTT-TGTTTTA-TTTAGTTT
1 TATTATTTAT-TTTTATTTTA-TTT
3731038 TATTATTTATTTTTATTTTATTT
1 TATTATTTATTTTTATTTTATTT
3731061 TATTA
1 TATTA
3731066 ATTCAGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (23 bp):
TATTATTTATTTTTATTTTATTT
Found at i:3733872 original size:31 final size:31
Alignment explanation
Indices: 3733818--3733897 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
3733808 ACGGGCTAAA
* * * *
3733818 CCAAACTGGGCGTGTGGGTCCACATGAGTAGT
1 CCAAAC-GGGCATATGGGCCCACACGAGTAGT
* *
3733850 CCACACGGGCATATGGGCCCACACGGGTAGT
1 CCAAACGGGCATATGGGCCCACACGAGTAGT
* *
3733881 CCAAACTGGTATATGGG
1 CCAAACGGGCATATGGG
3733898 TTGCTAGGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.19
Consensus pattern (31 bp):
CCAAACGGGCATATGGGCCCACACGAGTAGT
Found at i:3737237 original size:16 final size:16
Alignment explanation
Indices: 3737215--3737248 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3737205 AACTAAAACT
3737215 TTAT-TTTTAATTTT-
1 TTATATTTTAATTTTA
3737229 TTATATTTTAATTTTA
1 TTATATTTTAATTTTA
3737245 TTAT
1 TTAT
3737249 GCATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 10 0.56
16 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATATTTTAATTTTA
Found at i:3741584 original size:132 final size:132
Alignment explanation
Indices: 3741347--3741585 Score: 352
Period size: 132 Copynumber: 1.8 Consensus size: 132
3741337 CTCGCTTTGA
* * * * * * *
3741347 AAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCAG
1 AAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAA
* *
3741412 CATGATAGGGCACGATTTCCCAAATTGCCAAACGTCGAACATTTCCTTCGTTTTAAAATTTTTTT
66 CACGATAGGGCACGATTCCCCAAATTGCCAAACGTCGAACATTTCCTTCGTTTTAAAATTTTTTT
3741477 AG
131 AG
* **
3741479 AAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCAA
1 AAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAA
* *
3741544 CACGATAGGGCACGATTCCCCGAATTGCTAAACGTCGAACAT
66 CACGATAGGGCACGATTCCCCAAATTGCCAAACGTCGAACAT
3741586 CGTCTCCGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 93 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (132 bp):
AAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAA
CACGATAGGGCACGATTCCCCAAATTGCCAAACGTCGAACATTTCCTTCGTTTTAAAATTTTTTT
AG
Found at i:3741899 original size:3 final size:3
Alignment explanation
Indices: 3741886--3741942 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
3741876 ACAAACAATG
* *
3741886 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
3741932 ATA ATA ATA AT
1 ATA ATA ATA AT
3741943 GCAATGATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3742572 original size:3 final size:3
Alignment explanation
Indices: 3742564--3742621 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
3742554 TGTATACATG
3742564 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3742612 AAT AAT AAT A
1 AAT AAT AAT A
3742622 GTAAAATCGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3743578 original size:26 final size:26
Alignment explanation
Indices: 3743533--3743604 Score: 117
Period size: 26 Copynumber: 2.7 Consensus size: 26
3743523 ACCAAAAAAA
3743533 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCC-TTTTTTTATTCCATTACC
3743560 AACTTTCCTTTTTTTATTCCATTACC
1 AACTTTCCTTTTTTTATTCCATTACC
*
3743586 AACTTTCCCCTTTTTTATT
1 AACTTT-CCTTTTTTTATT
3743605 TTTTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 24 0.56
27 19 0.44
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (26 bp):
AACTTTCCTTTTTTTATTCCATTACC
Found at i:3754636 original size:21 final size:21
Alignment explanation
Indices: 3754612--3754652 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3754602 AATCTCATTG
*
3754612 CTATAGTATCCAATCTCACCA
1 CTATAGTAACCAATCTCACCA
*
3754633 CTATAGTAACTAATCTCACC
1 CTATAGTAACCAATCTCACC
3754653 GGAGGTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (21 bp):
CTATAGTAACCAATCTCACCA
Found at i:3755791 original size:126 final size:126
Alignment explanation
Indices: 3755566--3755938 Score: 401
Period size: 126 Copynumber: 3.0 Consensus size: 126
3755556 GTGTGTCTCA
* * * ** * *
3755566 AATATAAACTCAGTGAGTCACACGGCCTAGACACACGCCTGTGTGTC-CTGCCTATATGCCTCTA
1 AATATGAACTCAGTGAGTCACACGGCCTGGACACACGCCTGTGTGTCTC-ACCCGTGTGACTCTA
* * * ** *
3755630 ATACAAACTCAGTGAGTTATACGGCTTGGACACACGCCCATGTGTCTTGTCTATGTG-CATCT
65 ATATAAACTCAGTGAGTTACACGGCCTGGACACACGCCCATGTGTCTTACCTATATGAC-TCT
* *
3755692 AATATGAACTCAGTGAGTGACACGGCCTGGACACACGCCTATGTGTCTCACCCGTGTGACTCTAA
1 AATATGAACTCAGTGAGTCACACGGCCTGGACACACGCCTGTGTGTCTCACCCGTGTGACTCTAA
* * * *
3755757 TATGAATTCAGTGAGTTACACGGCCTGGACACACGCCCGTGTGTCTTACCTGTATGACTCT
66 TATAAACTCAGTGAGTTACACGGCCTGGACACACGCCCATGTGTCTTACCTATATGACTCT
* * ** * * * *
3755818 AATATGAACTTAGTGAGTTACA-AACCTGGACATACGCTTGTGTGTCTTACTCGTGTGACTCTAA
1 AATATGAACTCAGTGAGTCACACGGCCTGGACACACGCCTGTGTGTCTCACCCGTGTGACTCTAA
* * * * * * *
3755882 TATAAACTCAGTGTGCTACACGGCCTAGATACATGCCCATGTGTCTCACCCATATGA
66 TATAAACTCAGTGAGTTACACGGCCTGGACACACGCCCATGTGTCTTACCTATATGA
3755939 TTCTTGTATC
Statistics
Matches: 206, Mismatches: 39, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
125 81 0.39
126 123 0.60
127 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (126 bp):
AATATGAACTCAGTGAGTCACACGGCCTGGACACACGCCTGTGTGTCTCACCCGTGTGACTCTAA
TATAAACTCAGTGAGTTACACGGCCTGGACACACGCCCATGTGTCTTACCTATATGACTCT
Found at i:3755877 original size:62 final size:62
Alignment explanation
Indices: 3755554--3755907 Score: 343
Period size: 63 Copynumber: 5.6 Consensus size: 62
3755544 TGTGCCTTGC
* * * * * * *
3755554 CCGTGTGTCTCAAATATAAACTCAGTGAGTCACACGGCCTAGACACACGCCTGTGTGTCCTG
1 CCGTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTTA
* * * ** * * ** *
3755616 CCTATATGCCTCTAATACAAACTCAGTGAGTTATACGGCTTGGACACACGCCCATGTGTCTTGT
1 CC-GTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTT-A
** * * *
3755680 CTATGTG-CATCTAATATGAACTCAGTGAGTGACACGGCCTGGACACACGCCTATGTGTCTCA
1 CCGTGTGAC-TCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTTA
* *
3755742 CCCGTGTGACTCTAATATGAATTCAGTGAGTTACACGGCCTGGACACACGCCCGTGTGTCTTA
1 -CCGTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTTA
* * ** * *
3755805 CCTGTATGACTCTAATATGAACTTAGTGAGTTACA-AACCTGGACATACGCTTGTGTGTCTTA
1 CC-GTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTTA
* * *
3755867 CTCGTGTGACTCTAATATAAACTCAGTGTGCTACACGGCCT
1 C-CGTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCT
3755908 AGATACATGC
Statistics
Matches: 239, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
62 55 0.23
63 182 0.76
64 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (62 bp):
CCGTGTGACTCTAATATGAACTCAGTGAGTTACACGGCCTGGACACACGCCTGTGTGTCTTA
Found at i:3771162 original size:66 final size:66
Alignment explanation
Indices: 3771083--3771206 Score: 239
Period size: 66 Copynumber: 1.9 Consensus size: 66
3771073 ATCATTTGTG
*
3771083 ACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCAT
1 ACACATCTAGTTAGGAGCACTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCAT
3771148 A
66 A
3771149 ACACATCTAGTTAGGAGCACTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA
1 ACACATCTAGTTAGGAGCACTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA
3771207 TAAGCATAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (66 bp):
ACACATCTAGTTAGGAGCACTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCAT
A
Found at i:3771327 original size:44 final size:44
Alignment explanation
Indices: 3771270--3771829 Score: 274
Period size: 44 Copynumber: 12.8 Consensus size: 44
3771260 ATTCACAAGC
*
3771270 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * * * *** *
3771314 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGGCT
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAAGAT
* * * *
3771359 -TTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTAC-AGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
*
3771401 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * * *
3771445 CTTATCTCCCTAAGCAGTAGGGAAACA-GATCAA---ACATGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * *
3771485 GGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTAC-AGAT
1 ---C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * *** * *
3771532 TTTAACCCCCTAAGTAGTAGGGAAACA-GATCAAAGAAGATAAG-C
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAA-TTTACAAGAT
3771576 CTTGAA-CCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * *** *
3771620 CTTATCTCCCTAAACAGTAGGGTAACAGGCTGAAGAGCGACGAG-T
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAAGAT
* * * ** * ** * *** *
3771665 CTTAACCCCTTAAACAGTAGGGAAACAAATCGAAGGTGATGGGCT
1 CTTAACCCCCTAAGCAGTAGGGTAAC-AGGCTAAATTTACAAGAT
* * *
3771710 -TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTAC-AGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
* * * * * *
3771752 CTTAAACCCCTAAGTAGTAGGGAAACA-GATCAA---AGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
*
3771792 GGGCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAA
1 ----CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA
3771830 AATCAAATAT
Statistics
Matches: 381, Mismatches: 104, Indels: 61
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 10 0.03
42 10 0.03
43 104 0.27
44 195 0.51
45 48 0.13
46 8 0.02
47 3 0.01
48 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGAT
Found at i:3771496 original size:87 final size:88
Alignment explanation
Indices: 3771400--3771647 Score: 338
Period size: 87 Copynumber: 2.8 Consensus size: 88
3771390 AATTTACAGA
*
3771400 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTGAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
* *
3771465 GGAAACAGATCAAACATGAT-GG
66 GGAAACAGATCAAACAAGATAAG
* * * * * * * * *
3771487 GCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTAC-AGATTTTAACCCCCTAAGTAGTA
1 CCTTGAA-CCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTA
*
3771551 GGGAAACAGATCAAAGAAGATAAG
65 GGGAAACAGATCAAACAAGATAAG
*
3771575 CCTTGAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAACAGTAG
1 CCTTGAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
*
3771640 GGTAACAG
66 GGAAACAG
3771648 GCTGAAGAGC
Statistics
Matches: 135, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
87 73 0.54
88 62 0.46
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (88 bp):
CCTTGAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
GGAAACAGATCAAACAAGATAAG
Found at i:3771527 original size:131 final size:131
Alignment explanation
Indices: 3771269--3771559 Score: 465
Period size: 131 Copynumber: 2.2 Consensus size: 131
3771259 AATTCACAAG
3771269 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
* * *
3771334 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTACAG
66 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
3771399 A
131 A
* *
3771400 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
* *** *
3771465 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAG
66 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
3771530 A
131 A
** *
3771531 TTTTAACCCCCTAAGTAGTAGGGAAACAG
1 CCTTAACCCCCTAAGTAGTAGGGTAACAG
3771560 ATCAAAGAAG
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 145 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (131 bp):
CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
A
Found at i:3771587 original size:131 final size:131
Alignment explanation
Indices: 3771269--3771603 Score: 361
Period size: 131 Copynumber: 2.6 Consensus size: 131
3771259 AATTCACAAG
* * * *** * *
3771269 CCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAAAAGACAAGACCTTAACTCCCTAAGCAGTAG
* * *
3771334 GGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTACAG
66 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
3771399 A
131 A
* *** * *
3771400 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAAAAGACAAGACCTTAACTCCCTAAGCAGTAG
* *** *
3771465 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAG
66 GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
3771530 A
131 A
** * * * *
3771531 TTTTAACCCCCTAAGTAGTAGGGAAACA-GATCAAAGAAGATAAG-CCTTGAAC-CCCTAAGCAG
1 CCTTAAACCCCTAAGCAGTAGGGAAACAGGCT-AAA-AAGACAAGACCTT-AACTCCCTAAGCAG
*
3771593 TAGGGTAACAG
63 TAGGGAAACAG
3771604 GCTAAATTTA
Statistics
Matches: 178, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
130 2 0.01
131 170 0.96
132 6 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (131 bp):
CCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAAAAAGACAAGACCTTAACTCCCTAAGCAGTAG
GGAAACAGATCAAACATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAG
A
Found at i:3771794 original size:87 final size:87
Alignment explanation
Indices: 3771271--3771822 Score: 260
Period size: 87 Copynumber: 6.3 Consensus size: 87
3771261 TTCACAAGCC
* * *
3771271 TTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAGATCTT-ATCTCCCTAAGCAGTAGG
1 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTAC-AGATCTTAAAC-CCCTAAGCAGTAGG
* *
3771335 GAAACAGATCGAAGATGATGGGCT
64 GAAACAGATCAAAGAAGATGGGCT
** * *
3771359 TTAACCCCCTAAGTAGTAGGGTAACAAGCCAAATTTACAGACCTTAAACCCCTAAGCAGTAGGGT
1 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
* * *
3771424 AACAGGCTAAATTTACAAGAT---C-
66 AACA-GATCAA---AGAAGATGGGCT
* * * * * * *
3771446 TTATCTCCCTAAGCAGTAGGGAAAC-AGATCAA---ACATGATGGGCTTTAACCCCCTAAGCAGT
1 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACA-GAT---C-TTAAACCCCTAAGCAGT
* * ** *** ** **
3771507 AGGGTAACAGGT-TGAGTTTACAGATT
61 AGGGAAACAGATCAAAGAAGATGGGCT
* * * ** * *
3771533 TTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGAAGATA-AG-CCTTGAACCCCTAAGCAGTAG
1 TTAACCCCCTAAGTAGTAGGGTAACA-AGC--TGAATTTACAGATCTTAAACCCCTAAGCAGTAG
* * * *
3771596 GGTAACAGGCTAAATTTACAAGAT---C-
63 GGAAACA-GATCAA---AGAAGATGGGCT
* * ** * * *
3771621 TTATCTCCCTAAACAGTAGGGTAACAGGCTGAA--GAGCGACGAGTCTT-AACCCCTTAAACAGT
1 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTA-C-A-GA-TCTTAAACCCC-TAAGCAGT
* * **
3771683 AGGGAAACAAATCGAAGGTGATGGGCT
61 AGGGAAACAGATCAAAGAAGATGGGCT
*
3771710 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGTAGTAGGGA
1 TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
*
3771775 AACAGATCAAAGAAGATGGGCC
66 AACAGATCAAAGAAGATGGGCT
* *
3771797 TTAACCCTCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGTAGTAGGGTAACA
3771823 GGCTAAAAAT
Statistics
Matches: 343, Mismatches: 81, Indels: 81
0.68 0.16 0.16
Matches are distributed among these distances:
83 6 0.02
84 2 0.01
85 7 0.02
86 5 0.01
87 153 0.45
88 108 0.31
89 48 0.14
90 1 0.00
91 8 0.02
92 3 0.01
93 1 0.00
94 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (87 bp):
TTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGA
AACAGATCAAAGAAGATGGGCT
Found at i:3773393 original size:2 final size:2
Alignment explanation
Indices: 3773386--3773410 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3773376 TTGATACTTT
3773386 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3773411 CATACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3775356 original size:12 final size:12
Alignment explanation
Indices: 3775308--3775357 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
3775298 GTGTTATTGT
*
3775308 TATTATTATTAT
1 TATTATTATTAC
3775320 TATTTATTATTAC
1 TA-TTATTATTAC
* *
3775333 CACTATTATTAC
1 TATTATTATTAC
*
3775345 TATTATTTTTAC
1 TATTATTATTAC
3775357 T
1 T
3775358 TTTTGCTACC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:3775420 original size:3 final size:3
Alignment explanation
Indices: 3775412--3775514 Score: 57
Period size: 3 Copynumber: 34.7 Consensus size: 3
3775402 TACTATTGTC
* * * * * * *
3775412 ATT ATT ATT AAT ACT AAT ATT AAT ATT TTT ATT ACT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * *
3775460 ATT AGT ATT ATC ATT -TT -TT GCT ACT ATT TTT ATT ATT ATT AAT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
3775507 ATT ATT AT
1 ATT ATT AT
3775515 CGTTTTCATC
Statistics
Matches: 75, Mismatches: 23, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
2 4 0.05
3 68 0.91
4 3 0.04
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:3779129 original size:38 final size:38
Alignment explanation
Indices: 3779067--3779167 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
3779057 ATTTGATGTG
*
3779067 TATCCGGGCTTAAAGTACCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTAGAATTA
* * *
3779107 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
*
3779145 TATCAGGGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
3779168 CTAGTGCTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.02
38 41 0.75
39 5 0.09
40 8 0.15
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
Found at i:3779175 original size:38 final size:38
Alignment explanation
Indices: 3779103--3779223 Score: 161
Period size: 38 Copynumber: 3.1 Consensus size: 38
3779093 ATATGCTAGA
*
3779103 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
3779141 ATTATATCAGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
3779179 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC-AGGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
3779219 GTTAT
1 ATTAT
3779224 GTTCGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 43 0.60
39 7 0.10
40 22 0.31
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCAGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:3780831 original size:43 final size:43
Alignment explanation
Indices: 3780773--3780942 Score: 270
Period size: 43 Copynumber: 4.0 Consensus size: 43
3780763 AACTCGGTGA
*
3780773 TGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
3780815 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
** * *
3780858 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGTCAGTGATG
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
* *
3780901 TGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCGGTGAT
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGAT
3780943 TCGAGCAAGG
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 7 0.06
43 110 0.94
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (43 bp):
TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
Found at i:3781169 original size:58 final size:58
Alignment explanation
Indices: 3781096--3781263 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
3781086 CGAATGATTA
*
3781096 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
3781154 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
3781212 GAGGCA-TGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
3781264 CAGTGGGCAC
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
56 31 0.29
57 13 0.12
58 63 0.59
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:3781199 original size:29 final size:28
Alignment explanation
Indices: 3781099--3781256 Score: 115
Period size: 29 Copynumber: 5.5 Consensus size: 28
3781089 ATGATTAGAG
* *
3781099 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
3781128 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
3781156 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
3781186 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
3781214 GGCA-TGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
3781242 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
3781257 GATCGGTCAG
Statistics
Matches: 97, Mismatches: 24, Indels: 17
0.70 0.17 0.12
Matches are distributed among these distances:
27 3 0.03
28 39 0.40
29 47 0.48
30 8 0.08
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:3781273 original size:28 final size:28
Alignment explanation
Indices: 3781128--3781281 Score: 107
Period size: 28 Copynumber: 5.4 Consensus size: 28
3781118 CTTTAACCGA
*
3781128 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTG-G
* ** * *
3781157 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-CGGTAACTGG
*
3781186 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTG-G
* * * * *
3781215 GCA-TGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGT-AACTGG
* *
3781242 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTAACTGG
*
3781270 GCACTAAGTGTG
1 GCACTATGTGTG
3781282 TGAAATGAGA
Statistics
Matches: 92, Mismatches: 26, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
27 4 0.04
28 48 0.52
29 34 0.37
30 6 0.07
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTAACTGG
Found at i:3784931 original size:76 final size:78
Alignment explanation
Indices: 3784832--3784996 Score: 183
Period size: 78 Copynumber: 2.1 Consensus size: 78
3784822 ATTTGATGTG
**
3784832 TATCCGGGCTTAAAGACCGCAGG-CTATATGCTAGAATTATATC-CGGGTTAAA-TCCCGCAGGC
1 TATCCGGG-TTAAAGACCGCAGGCCTA-ATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGGC
3784894 TTCGTGCTGGTATTA
64 TTCGTGCTGGTATTA
** * * * * *
3784909 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTAAGTTTAAAGTCCCGTAGGCTT
1 TATCCGGGTTAAAGACCGCAGGCCTAATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGGCTT
*
3784974 CGTGCTGGTGTTA
66 CGTGCTGGTATTA
* *
3784987 TGTTCGGGTT
1 TATCCGGGTT
3784997 TTATACCTCG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
76 25 0.34
77 17 0.23
78 31 0.42
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (78 bp):
TATCCGGGTTAAAGACCGCAGGCCTAATGCTAGAATTATATCTAAGGTTAAAGTCCCGCAGGCTT
CGTGCTGGTATTA
Found at i:3784939 original size:38 final size:38
Alignment explanation
Indices: 3784832--3784950 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 38
3784822 ATTTGATGTG
** * * *
3784832 TATCCGGGCTTAAAGACCGCAGG-CTATATGCTAGAATTA
1 TATCCGGG-TTAAATCCCGCAGGCCTA-GTGCTGGTATTA
* *
3784871 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
3784909 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
3784947 TATC
1 TATC
3784951 TAAGTTTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 61 0.87
39 9 0.13
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:3784979 original size:40 final size:38
Alignment explanation
Indices: 3784867--3784987 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
3784857 ATATGCTAGA
**
3784867 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
** * *
3784905 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
3784943 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC-AAGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
3784983 GTTAT
1 ATTAT
3784988 GTTCGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 44 0.61
39 6 0.08
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:3787250 original size:21 final size:19
Alignment explanation
Indices: 3787203--3787252 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
3787193 TTATATATTT
*
3787203 TATTATATTTTTTTA-ATA
1 TATTATATTTTTTTATAAA
3787221 TATTAATATTTTTTTATAAA
1 TATT-ATATTTTTTTATAAA
3787241 TTCATTATATTT
1 -T-ATTATATTT
3787253 ATTAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 2 0.07
21 7 0.26
22 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATATTTTTTTATAAA
Found at i:3790579 original size:15 final size:14
Alignment explanation
Indices: 3790559--3790588 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3790549 AAATCTGGTG
3790559 GTGTTGTTGTGTAGA
1 GTGTTGTTG-GTAGA
3790574 GTGTTGTTGGTAGA
1 GTGTTGTTGGTAGA
3790588 G
1 G
3790589 CTTTTCCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
GTGTTGTTGGTAGA
Found at i:3790769 original size:21 final size:21
Alignment explanation
Indices: 3790745--3790787 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3790735 TGGTTTACCA
3790745 TCTTGTTCTGTAAATTTCATT
1 TCTTGTTCTGTAAATTTCATT
3790766 TCTTGTTCTGTAAATTTCATT
1 TCTTGTTCTGTAAATTTCATT
3790787 T
1 T
3790788 GAAGTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (21 bp):
TCTTGTTCTGTAAATTTCATT
Found at i:3797646 original size:3 final size:3
Alignment explanation
Indices: 3797638--3797677 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
3797628 GTATGTCCAT
*
3797638 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC AT- TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
3797678 TTTTGCTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:3800877 original size:28 final size:28
Alignment explanation
Indices: 3800820--3800882 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
3800810 TAAAATTAAA
*
3800820 AAAAATATTTTTTTAAAATTTTATATTTTT
1 AAAAATA--TTTTTAAAATTTTATAATTTT
* *
3800850 TAAAATATTTTTAATGATTTT-TAATTTT
1 AAAAATATTTTTAA-AATTTTATAATTTT
3800878 AAAAA
1 AAAAA
3800883 AACTAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 17 0.61
29 5 0.18
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
AAAAATATTTTTAAAATTTTATAATTTT
Found at i:3801190 original size:16 final size:16
Alignment explanation
Indices: 3801151--3801195 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
3801141 AATATTATAA
* *
3801151 TAATCTTTTTATTAGT
1 TAATCTTTTTATAAAT
*
3801167 T-ATTTTTTTATAAAT
1 TAATCTTTTTATAAAT
3801182 TAATCTTTTTATAA
1 TAATCTTTTTATAA
3801196 TATCATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TAATCTTTTTATAAAT
Found at i:3811891 original size:50 final size:51
Alignment explanation
Indices: 3811814--3811942 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
3811804 GACCATGGCA
*
3811814 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
3811865 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
3811915 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
3811943 CTGATTAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:3811956 original size:31 final size:31
Alignment explanation
Indices: 3811918--3812035 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
3811908 ACAAATGACA
* *
3811918 AGTGAAAAGTGGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
3811949 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
3811980 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
3812011 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
3812036 AAATGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:3812168 original size:42 final size:42
Alignment explanation
Indices: 3812064--3812221 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
3812054 GATTTCCGTA
* * * * *
3812064 TAAGACCATATCTGGGATATGGCATCGGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
*
3812110 TAAGACCATAGTTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* * *
3812152 TAAGACCATAACTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
* **
3812194 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
3812222 GAAAACGAAG
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 64 0.67
43 8 0.08
46 23 0.24
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:3814021 original size:47 final size:47
Alignment explanation
Indices: 3813952--3814045 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
3813942 CAAAAAAGAA
3813952 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
3813999 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
1 AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
3814046 TTCTTTATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (47 bp):
AAAAATAAAGTTGAAATGATTTAAGTGGAAGGAGAGAGAAGATTGTC
Found at i:3820683 original size:28 final size:28
Alignment explanation
Indices: 3820633--3820687 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
3820623 GTTGCAATAC
3820633 CTTTCTTTTCCATATAATTTTACCCTTTT
1 CTTTCTTTTCCA-ATAATTTTACCCTTTT
3820662 CTTTCTTTTCTC-ATAATTTTACCCTT
1 CTTTCTTTTC-CAATAATTTTACCCTT
3820688 CACCTTGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 14 0.56
29 10 0.40
30 1 0.04
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.58
Consensus pattern (28 bp):
CTTTCTTTTCCAATAATTTTACCCTTTT
Found at i:3821957 original size:31 final size:31
Alignment explanation
Indices: 3821914--3821987 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
3821904 GATTTGGAAT
*
3821914 AATTATATACATGAAACTTAAATTGTGATTC
1 AATTGTATACATGAAACTTAAATTGTGATTC
* * *
3821945 -ATATGTATACATGAAGCTTTAATTTTGATTC
1 AAT-TGTATACATGAAACTTAAATTGTGATTC
3821976 AATTGTATACAT
1 AATTGTATACAT
3821988 TTAAAGAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 33 0.89
32 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (31 bp):
AATTGTATACATGAAACTTAAATTGTGATTC
Found at i:3831140 original size:23 final size:23
Alignment explanation
Indices: 3831113--3831157 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
3831103 GAATTTTTTA
3831113 TTTTATTTAATATTAATATAATT
1 TTTTATTTAATATTAATATAATT
*
3831136 TTTTATTTAATATTGATATAAT
1 TTTTATTTAATATTAATATAAT
3831158 CATTTGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTTAATATTAATATAATT
Found at i:3831431 original size:31 final size:31
Alignment explanation
Indices: 3831366--3831432 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
3831356 TTAATGGAGT
* * *
3831366 GTGACCCAAATAAAAATGATCTAAAACGTGA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
* * *
3831397 GTGACCAAAATAGAAATTATCTAAAATATCA
1 GTGACCAAAATAAAAATGATCTAAAACATCA
3831428 GTGAC
1 GTGAC
3831433 TAAATTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (31 bp):
GTGACCAAAATAAAAATGATCTAAAACATCA
Found at i:3833035 original size:19 final size:19
Alignment explanation
Indices: 3833013--3833095 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 19
3833003 ATAATAATAT
3833013 AAAATAATAATATGTACAA
1 AAAATAATAATATGTACAA
* * *
3833032 AAAATACATATATATATGCAT
1 AAAATA-ATA-ATATGTACAA
*
3833053 ATAATAA-AAGTATGTA-ATA
1 AAAATAATAA-TATGTACA-A
* *
3833072 ATAATAATAATATCTACAA
1 AAAATAATAATATGTACAA
3833091 TAAAA
1 -AAAA
3833096 GAAAATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
18 2 0.04
19 24 0.50
20 10 0.21
21 12 0.25
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATAATAATATGTACAA
Found at i:3833177 original size:17 final size:17
Alignment explanation
Indices: 3833155--3833189 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3833145 ACAATAATAT
3833155 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
3833172 AAAATATATATATGTAC
1 AAAATATATATATGTAC
3833189 A
1 A
3833190 TATGTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:3833332 original size:2 final size:2
Alignment explanation
Indices: 3833289--3833313 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3833279 GTATTTTTAA
3833289 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 A
3833314 ATAGTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3833418 original size:22 final size:22
Alignment explanation
Indices: 3833291--3833436 Score: 95
Period size: 24 Copynumber: 6.4 Consensus size: 22
3833281 ATTTTTAAAT
* *
3833291 ATATATATATATATATATATATA
1 ATATATATA-AAATATATACATA
*
3833314 ATAGTATTTAAGAATATATACATA
1 ATA-TATATAA-AATATATACATA
* *
3833338 AGATGATATAAAATACATACATGGA
1 ATAT-ATATAAAATATATACAT--A
3833363 ATAGTATA-AGAAATATATA-ACTA
1 ATA-TATATA-AAATATATACA-TA
**
3833386 ATGGCAT-TAAAATATATACATA
1 AT-ATATATAAAATATATACATA
*
3833408 ATATATATAAAATACAT--ATA
1 ATATATATAAAATATATACATA
3833428 ATATATATA
1 ATATATATA
3833437 TACGTATTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
20 12 0.12
21 2 0.02
22 22 0.22
23 22 0.22
24 24 0.24
25 15 0.15
26 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATATATAAAATATATACATA
Found at i:3833421 original size:11 final size:11
Alignment explanation
Indices: 3833393--3833438 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
3833383 CTAATGGCAT
3833393 TAAAATATATA
1 TAAAATATATA
* *
3833404 CATAATATATA
1 TAAAATATATA
*
3833415 TAAAATACATA
1 TAAAATATATA
*
3833426 TAATATATATA
1 TAAAATATATA
3833437 TA
1 TA
3833439 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAATATATA
Found at i:3834207 original size:17 final size:16
Alignment explanation
Indices: 3834157--3834207 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 16
3834147 GAAAAAGGGA
*
3834157 AAAAATAAAATAAAAAT
1 AAAAATAAGAT-AAAAT
3834174 AAAAATAAGAGTAAAAT
1 AAAAATAAGA-TAAAAT
3834191 AATAAATAAGATAAAAT
1 AA-AAATAAGATAAAAT
3834208 CACCTTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAAATAAGATAAAAT
Found at i:3836333 original size:22 final size:22
Alignment explanation
Indices: 3836304--3836366 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
3836294 GCAACCATGA
3836304 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
3836326 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
3836348 AGCAGTCTCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
3836367 AGCCCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.11, T:0.14
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:3848013 original size:86 final size:86
Alignment explanation
Indices: 3847868--3848032 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 86
3847858 TATGTGGATG
* * *
3847868 TTTCATTTCTGTTTTCAAAAAATTAACTCATAATTGCGAGAGGTGAGTTGAACCTCGGGGCACGC
1 TTTCATTACTGTTTTCAAAAAATCAACTCATAATTGCGAGAAGTGAGTTGAACCTCGGGGCACGC
3847933 CAAGGTATTTTCAAATTCTAC
66 CAAGGTATTTTCAAATTCTAC
* *
3847954 TTTCAATTACTGTTTGTC-AAAAATCAACTCAT-ATTGCGGGAAGTGAGTTGAGCCTCGGGGCAC
1 TTTC-ATTACTGTTT-TCAAAAAATCAACTCATAATTGCGAGAAGTGAGTTGAACCTCGGGGCAC
**
3848017 GCTGAGGTATTTTCAA
64 GCCAAGGTATTTTCAA
3848033 TTACTGTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 46 0.66
87 22 0.31
88 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (86 bp):
TTTCATTACTGTTTTCAAAAAATCAACTCATAATTGCGAGAAGTGAGTTGAACCTCGGGGCACGC
CAAGGTATTTTCAAATTCTAC
Found at i:3848073 original size:73 final size:73
Alignment explanation
Indices: 3847954--3848266 Score: 479
Period size: 73 Copynumber: 4.3 Consensus size: 73
3847944 CAAATTCTAC
* *
3847954 TTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGGGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
3848019 TGAGGTAT
66 TGAGGTAT
3848027 TTTCAATTACTGTTTGTCAAAAATCAACTCATACTT-C-AGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTACTGTTTGTCAAAAATCAACTCATA-TTGCGA-GAGGTGAGTTGAGCCTCGGGGCAC
*
3848090 ACTGAGGTAT
64 GCTGAGGTAT
3848100 TTTCAATTACTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTACTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
3848165 GCTGAGGTAT
64 GCTGAGGTAT
* * * *
3848175 TTTCAATTACTGTTTGTC-AAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
3848239 TGAGGTAT
66 TGAGGTAT
* * *
3848247 TTTCGATTTCTGTTTTTCAA
1 TTTCAATTACTGTTTGTCAA
3848267 TTTATGTTTT
Statistics
Matches: 222, Mismatches: 11, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
72 65 0.29
73 85 0.38
74 4 0.02
75 67 0.30
76 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (73 bp):
TTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTAT
Found at i:3848352 original size:86 final size:86
Alignment explanation
Indices: 3848174--3848349 Score: 214
Period size: 86 Copynumber: 2.0 Consensus size: 86
3848164 CGCTGAGGTA
* *
3848174 TTTTCAATTACTGTTTGTCAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTTTCAATTACTGTTTGTCAAAATCAACTCATACTGCGAAAGGTGAATTGAGCCTCAGGACATGC
* *
3848239 TGAGGTATTTTCGATTTCTGT
66 TGAGGTATTTTCAATTTATGT
* * * * *
3848260 TTTTCAATTTA-TGTTT-TCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCGCA
1 TTTTCAA-TTACTGTTTGTC-AAAATCAACTCATACTGCGAAAGGTGAATTGAGCCTCAGG-ACA
3848323 TAGC-GAGGTATTTTCAATTTATGT
63 T-GCTGAGGTATTTTCAATTTATGT
3848347 TTT
1 TTT
3848350 CAAAGATCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
85 2 0.03
86 46 0.60
87 27 0.35
88 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (86 bp):
TTTTCAATTACTGTTTGTCAAAATCAACTCATACTGCGAAAGGTGAATTGAGCCTCAGGACATGC
TGAGGTATTTTCAATTTATGT
Found at i:3848379 original size:73 final size:73
Alignment explanation
Indices: 3848260--3848496 Score: 334
Period size: 73 Copynumber: 3.2 Consensus size: 73
3848250 CGATTTCTGT
*
3848260 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCGCATA
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCACATA
3848325 GCGAGGTA
66 GCGAGGTA
* *
3848333 TTTTCAATTTATGTTTTCAAAGATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACAT
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGG-CACAT
3848398 AGCGAGGTA
65 AGCGAGGTA
* * * * * *
3848407 TTTTCAATTTATG-TTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCAGG-TCATA
1 TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCACATA
3848470 CGCCGAGGTA
66 -G-CGAGGTA
**
3848480 TTTTCAATAGATGTTTT
1 TTTTCAATTTATGTTTT
3848497 TTTCAATTTC
Statistics
Matches: 147, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
71 4 0.03
72 1 0.01
73 113 0.77
74 29 0.20
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTATGTTTTCAAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCACATA
GCGAGGTA
Found at i:3848425 original size:159 final size:157
Alignment explanation
Indices: 3848120--3848422 Score: 398
Period size: 159 Copynumber: 1.9 Consensus size: 157
3848110 TGTTTGTCAA
* * *
3848120 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTAC
1 AAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTCGGGGCAAGCTGAGGTATTTTCAATTAC
*
3848185 TGTTTGTCAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTT
66 TGTTTGTCAAAATCAACTCATACTGCGAGAGGTGAATTGAGCCTCAGGACATGCTGAGGTATTTT
* *
3848250 CGATTTCTGTTTTTCAATTTATGTTTTC
131 CAATTTATG-TTTTCAATTTATGTTTTC
* *
3848278 AAAAATCAATTCATATTGCTAAAGGTGAATTGAGCCTCGGGCGCATAGC-GAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTCGGG-GCA-AGCTGAGGTATTTTCAA-T
* * * *
3848342 TA-TGTTT-TCAAAGATCAATTCATATTGCTAGAGGTGAATTGAGCCTCGGGTCACATAGC-GAG
63 TACTGTTTGTCAAA-ATCAACTCATACTGCGAGAGGTGAATTGAGCCTCAGG--ACAT-GCTGAG
3848404 GTATTTTCAATTTATGTTT
124 GTATTTTCAATTTATGTTT
3848423 CAAAAATCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
158 42 0.33
159 53 0.42
160 8 0.06
161 21 0.17
162 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (157 bp):
AAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTCGGGGCAAGCTGAGGTATTTTCAATTAC
TGTTTGTCAAAATCAACTCATACTGCGAGAGGTGAATTGAGCCTCAGGACATGCTGAGGTATTTT
CAATTTATGTTTTCAATTTATGTTTTC
Found at i:3848480 original size:306 final size:306
Alignment explanation
Indices: 3847886--3848487 Score: 737
Period size: 306 Copynumber: 2.0 Consensus size: 306
3847876 CTGTTTTCAA
* * * *
3847886 AAAATTAACTCATAATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCCAAGGTATTTTCAAATTC
1 AAAATCAACTCATAACTGCGAGAGGTGAGTTGAACCTCAGGACACGCCAAGGTATTTTCAAATTC
* *
3847951 TACTTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGGGAAGTGAGTTGAGCCTCGGGGCA
66 TACTTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGGAAAGTGAATTGAGCCTCGGGGCA
* *
3848016 CGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCAACTCATACTTCAGGAGGTGAGTTGAGCC
131 AGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCAACTCATACTTCAGGAGGTGAATTGAGCC
*
3848081 TCGGGGCACACTGAGGTATTTTCAATTACTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGT
196 TCGGGGCACACTGAGGTATTTTCAATTACTGTTTGTC-AAAAAATCAACTCATATTGCGAAAGGT
* * *
3848146 GAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGTC
260 GAGTTAAGCCTCAGGGCACGCCGAGGTATTTTCAATTACTGTTTGTC
* * ** * *
3848193 AAAATCAACTCAT-ACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCGATTTC
1 AAAATCAACTCATAACTGCGAGAGGTGAGTTGAACCTCAGGACACGCCAAGGTATTTTCAAATTC
** * *
3848257 TGTTTTTCAATTTA-TGTTT-TCAAAAATCAATTCATATTGC-TAAAGGTGAATTGAGCCTCGGG
66 T-ACTTTCAA-TTACTGTTTGTCAAAAATCAACTCATATTGCGGAAA-GTGAATTGAGCCTCGGG
* *
3848319 CGCATAGC-GAGGTATTTTCAATTTA-TGTTT-TCAAAGATCAATTCATA-TTGCTA-GAGGTGA
128 -GCA-AGCTGAGGTATTTTCAA-TTACTGTTTGTCAAAAATCAACTCATACTT-C-AGGAGGTGA
*
3848379 ATTGAGCCTCGGGTCACA-TAGCGAGGTATTTTCAATTTA-TG-TT-TC-AAAAATCAACTCATA
188 ATTGAGCCTCGGGGCACACT---GAGGTATTTTCAA-TTACTGTTTGTCAAAAAATCAACTCATA
*
3848439 TTGCGAAAGGTGAGTTAAGCCTCAGGTCATACGCCGAGGTATTTTCAAT
249 TTGCGAAAGGTGAGTTAAGCCTCAGGGC--ACGCCGAGGTATTTTCAAT
3848488 AGATGTTTTT
Statistics
Matches: 255, Mismatches: 26, Indels: 29
0.82 0.08 0.09
Matches are distributed among these distances:
304 39 0.15
305 5 0.02
306 138 0.54
307 47 0.18
308 23 0.09
309 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (306 bp):
AAAATCAACTCATAACTGCGAGAGGTGAGTTGAACCTCAGGACACGCCAAGGTATTTTCAAATTC
TACTTTCAATTACTGTTTGTCAAAAATCAACTCATATTGCGGAAAGTGAATTGAGCCTCGGGGCA
AGCTGAGGTATTTTCAATTACTGTTTGTCAAAAATCAACTCATACTTCAGGAGGTGAATTGAGCC
TCGGGGCACACTGAGGTATTTTCAATTACTGTTTGTCAAAAAATCAACTCATATTGCGAAAGGTG
AGTTAAGCCTCAGGGCACGCCGAGGTATTTTCAATTACTGTTTGTC
Found at i:3848625 original size:79 final size:77
Alignment explanation
Indices: 3848496--3848658 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 77
3848486 ATAGATGTTT
* * * * * * * *
3848496 TTTTCAATTTCTGCTTCTCAAAAAACTTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTA
1 TTTTCAAGTTCTGCTTCTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGCTCA
3848561 CACGCTGAGGTA
66 CACGCTGAGGTA
*
3848573 TTTTCAAGTTCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGCT
1 TTTTCAAGTTCTGCTTCTC--AAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGCT
*
3848638 CGCACGCTGAGGTA
64 CACACGCTGAGGTA
3848652 TTTTCAA
1 TTTTCAA
3848659 TTTTCGTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 17 0.23
79 57 0.77
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTTCAAGTTCTGCTTCTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGCTCA
CACGCTGAGGTA
Found at i:3848848 original size:89 final size:89
Alignment explanation
Indices: 3848678--3848848 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 89
3848668 TTTCAATTTA
** * * *
3848678 TGCTTTTCAAATTCTGTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGT
1 TGCTTTTCAAATTAAG-TTTTCAAAAAACCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
*
3848743 CACATGTCGAGGTATTTTCAAAATC
65 CACATGTCGAGCTATTTTCAAAATC
* *
3848768 TGCTTTTCAAATTAAG-TTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCT
1 TGCTTTTCAAATTAAGTTTTC-AAAAAACCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
3848832 CACATG-CTGAGCTATTT
65 CACATGTC-GAGCTATTT
3848849 CTGTTTTAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
88 5 0.07
89 52 0.73
90 14 0.20
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (89 bp):
TGCTTTTCAAATTAAGTTTTCAAAAAACCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCTC
ACATGTCGAGCTATTTTCAAAATC
Found at i:3849479 original size:22 final size:22
Alignment explanation
Indices: 3849450--3849512 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
3849440 GCAACAATGA
3849450 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
3849472 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
3849494 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
3849513 AGCCCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:3851846 original size:26 final size:27
Alignment explanation
Indices: 3851785--3851849 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
3851775 CCCGGCTCAA
*
3851785 ATATAT-TATGTTATAAAAATTATTAT
1 ATATATATATGTTATAAAAATAATTAT
*
3851811 ATTAATTATATATGTTA-AATAATAATTAT
1 A-T-A-TATATATGTTATAAAAATAATTAT
3851840 ATATATATAT
1 ATATATATAT
3851850 ATATTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 8 0.24
27 2 0.06
28 2 0.06
29 14 0.42
30 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATATATATGTTATAAAAATAATTAT
Found at i:3851989 original size:39 final size:39
Alignment explanation
Indices: 3851943--3852019 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
3851933 AATTTTTAAT
* *
3851943 AAAATATTTATTTTATTTATTTGTA-TCTTTTAATATAAC
1 AAAATATTTATTATATTTA-TGGTAGTCTTTTAATATAAC
*
3851982 AAAATATTTATTATATTTATGGTAGTTTTTTAATATAA
1 AAAATATTTATTATATTTATGGTAGTCTTTTAATATAA
3852020 ATACTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.12
39 30 0.88
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (39 bp):
AAAATATTTATTATATTTATGGTAGTCTTTTAATATAAC
Found at i:3852022 original size:35 final size:35
Alignment explanation
Indices: 3851935--3852022 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 35
3851925 CAATTTAAAA
* *
3851935 TTTTTAATA-AAATATTTATTTTATTTATTTGTAT
1 TTTTTAATATAAATATTTATTATATTTATTGGTAT
*
3851969 CTTTTAATATAACAAAATATTTATTATATTTA-TGGTAGT
1 TTTTTAATAT----AAATATTTATTATATTTATTGGTA-T
3852008 TTTTTAATATAAATA
1 TTTTTAATATAAATA
3852023 CTTTTTAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
34 8 0.18
35 5 0.11
38 4 0.09
39 27 0.61
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (35 bp):
TTTTTAATATAAATATTTATTATATTTATTGGTAT
Found at i:3853818 original size:87 final size:88
Alignment explanation
Indices: 3853727--3853922 Score: 256
Period size: 88 Copynumber: 2.2 Consensus size: 88
3853717 CTTAAGGGTG
* *
3853727 CAAAAAG-CCCTTAAACTTTTTTAAAAAAAATAATTAAG-CCTCCTTTTTTTTTACATTCAATTT
1 CAAAAAGACCCTAAAACTTTTTTAAAAAAAATAATTAAGCCCTCCTTTTTTTTT-CACTCAA-TT
*
3853790 AGCA-A-TTGAACTTTCAAAATGTAT
64 -GCATACTTGAACTTTCAAAATGCAT
* * * *
3853814 CAAAAAGTCCCTCAAACTTTTTTAAAAAAAATAATTAAGCCCTGCTTTTTTTTTCACTCAATTGG
1 CAAAAAGACCCTAAAACTTTTTTAAAAAAAATAATTAAGCCCTCCTTTTTTTTTCACTCAATTGC
3853879 ATACTTGAACTTTCAAAATGCAT
66 ATACTTGAACTTTCAAAATGCAT
* *
3853902 TAAAAAGACCCTAAAAATTTT
1 CAAAAAGACCCTAAAACTTTT
3853923 CAAAAAAGCA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
86 2 0.02
87 10 0.10
88 71 0.74
89 13 0.14
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (88 bp):
CAAAAAGACCCTAAAACTTTTTTAAAAAAAATAATTAAGCCCTCCTTTTTTTTTCACTCAATTGC
ATACTTGAACTTTCAAAATGCAT
Found at i:3854277 original size:10 final size:9
Alignment explanation
Indices: 3854262--3854342 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
3854252 TTCTTACGAC
3854262 TTTATAAAAT
1 TTTAT-AAAT
*
3854272 TTTATAATT
1 TTTATAAAT
* *
3854281 TTTTTATATT
1 TTTATA-AAT
*
3854291 TTTATATAT
1 TTTATAAAT
*
3854300 TTTATATAT
1 TTTATAAAT
* *
3854309 TTTATGATT
1 TTTATAAAT
3854318 TTTATAAAAT
1 TTTAT-AAAT
*
3854328 TTTAAAAAAT
1 TTT-ATAAAT
3854338 TTTAT
1 TTTAT
3854343 TTATTTTTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
9 30 0.54
10 25 0.45
11 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTATAAAT
Found at i:3854292 original size:9 final size:9
Alignment explanation
Indices: 3854271--3854392 Score: 70
Period size: 9 Copynumber: 13.2 Consensus size: 9
3854261 CTTTATAAAA
3854271 TTTTATAATT
1 TTTTAT-ATT
3854281 TTTT-TATAT
1 TTTTATAT-T
*
3854290 TTTTATATA
1 TTTTATATT
*
3854299 TTTTATATA
1 TTTTATATT
3854308 TTTTATGATT
1 TTTTAT-ATT
* *
3854318 TTTATAAAAT
1 TTT-TATATT
* * **
3854328 TTTAAAAAA
1 TTTTATATT
*
3854337 TTTTATTTAT
1 TTTTATAT-T
3854347 TTTTA-ATT
1 TTTTATATT
3854355 TTTTATATT
1 TTTTATATT
* *
3854364 TTTTCTAAT
1 TTTTATATT
3854373 TTTTA-ATAT
1 TTTTATAT-T
3854382 TTTTATATT
1 TTTTATATT
3854391 TT
1 TT
3854393 ATTAAAATTT
Statistics
Matches: 88, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
8 9 0.10
9 53 0.60
10 24 0.27
11 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Found at i:3854323 original size:56 final size:55
Alignment explanation
Indices: 3854262--3854377 Score: 144
Period size: 56 Copynumber: 2.1 Consensus size: 55
3854252 TTCTTACGAC
* * *
3854262 TTTATAAAATTTT-ATAATTTTTTTATATTTTTATATATTTTATATATTTTATGATT
1 TTTATAAAATTTTAAAAATTTTATT-TATTTTTA-ATATTTTATATATTTTATAATT
* * *
3854318 TTTATAAAATTTTAAAAAATTTTATTTATTTTTAATTTTTTATATTTTTTCTAATT
1 TTTATAAAATTTT-AAAAATTTTATTTATTTTTAATATTTTATATATTTTATAATT
3854374 TTTA
1 TTTA
3854378 ATATTTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 35 0.67
57 8 0.15
58 9 0.17
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (55 bp):
TTTATAAAATTTTAAAAATTTTATTTATTTTTAATATTTTATATATTTTATAATT
Found at i:3854356 original size:16 final size:16
Alignment explanation
Indices: 3854335--3854392 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 16
3854325 AATTTTAAAA
3854335 AATTTTATT-TATTTTT
1 AATTTT-TTATATTTTT
3854351 AATTTTTTATATTTTTTCT
1 AATTTTTTATA--TTTT-T
*
3854370 AATTTTTAATATTTTT
1 AATTTTTTATATTTTT
3854386 ATATTTT
1 A-ATTTT
3854393 ATTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.06
16 10 0.28
17 9 0.25
18 4 0.11
19 11 0.31
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTTTTTATATTTTT
Found at i:3854397 original size:19 final size:17
Alignment explanation
Indices: 3854280--3854392 Score: 77
Period size: 17 Copynumber: 6.2 Consensus size: 17
3854270 ATTTTATAAT
3854280 TTTTTTATATTTTTATA
1 TTTTTTATATTTTTATA
*
3854297 TATTTTATATATTTTATGA
1 TTTTTTATAT-TTTTAT-A
* * *
3854316 TTTTTATAAAATTTTAAAAAA
1 TTTTT-T-ATATTTT--TATA
3854337 TTTTATT-TATTTTTA-A
1 TTTT-TTATATTTTTATA
*
3854353 TTTTTTATATTTTTTCTAA
1 TTTTTTATA-TTTTTAT-A
*
3854372 TTTTTAATATTTTTATA
1 TTTTTTATATTTTTATA
3854389 TTTT
1 TTTT
3854393 ATTAAAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.03
16 7 0.09
17 20 0.27
18 12 0.16
19 19 0.25
20 4 0.05
21 9 0.12
22 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTTTTATATTTTTATA
Found at i:3854402 original size:19 final size:18
Alignment explanation
Indices: 3854266--3854402 Score: 64
Period size: 18 Copynumber: 7.4 Consensus size: 18
3854256 TACGACTTTA
3854266 TAAAA-TTTTATAATTTTT
1 TAAAATTTTTAT-ATTTTT
* * *
3854284 TTATATTTTTATATATTT
1 TAAAATTTTTATATTTTT
*
3854302 T-ATATATTTTATGATTTTT
1 TAAAAT-TTTTAT-ATTTTT
* * **
3854321 ATAAAATTTTAAAAAATTT
1 -TAAAATTTTTATATTTTT
**
3854340 TATTTATTTTTA-ATTTTT
1 TA-AAATTTTTATATTTTT
* * * *
3854358 TATATTTTTTCTAATTTT
1 TAAAATTTTTATATTTTT
*
3854376 TAATATTTTTATATTTTAT
1 TAAAATTTTTATATTTT-T
3854395 TAAAATTT
1 TAAAATTT
3854403 AATCATATTT
Statistics
Matches: 87, Mismatches: 24, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
17 10 0.11
18 40 0.46
19 29 0.33
20 5 0.06
21 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.65
Consensus pattern (18 bp):
TAAAATTTTTATATTTTT
Found at i:3854413 original size:27 final size:26
Alignment explanation
Indices: 3854348--3854424 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
3854338 TTTATTTATT
* * **
3854348 TTTAAT-TTTTTATATTTTTTCTAATT
1 TTTAATATATTTATATTTTAT-TAAAA
*
3854374 TTTAATATTTTTATATTTTATTAAAA
1 TTTAATATATTTATATTTTATTAAAA
3854400 TTTAATCATATTTATAGCTTTTATT
1 TTTAAT-ATATTTATA--TTTTATT
3854425 GATTTTAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 15 0.35
27 21 0.49
29 7 0.16
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTAATATATTTATATTTTATTAAAA
Found at i:3860341 original size:2 final size:2
Alignment explanation
Indices: 3860330--3860366 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3860320 ATCAAAATTT
3860330 TA TA -A 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 TA
3860367 AATTTATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3860785 original size:2 final size:2
Alignment explanation
Indices: 3860778--3860804 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3860768 ATAATTTGGA
3860778 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
3860805 ATGAAGGACA
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:3866783 original size:46 final size:46
Alignment explanation
Indices: 3866716--3866890 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
3866706 TGTAACCCGC
*
3866716 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
3866762 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
3866812 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
3866855 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
3866891 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:3866836 original size:93 final size:93
Alignment explanation
Indices: 3866723--3866894 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
3866713 CGCCCATAAG
* *
3866723 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
3866788 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
3866816 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
3866881 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
3866895 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:3868292 original size:132 final size:127
Alignment explanation
Indices: 3867977--3868292 Score: 393
Period size: 127 Copynumber: 2.4 Consensus size: 127
3867967 GCCAAACGGT
* * * * * * *
3867977 AAATCAAAACCCAGCACGATTGGGCACGATTTGTC-GAATTTCAAGATACGAAATATTGTCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCAA-ACACGAAATATTGCCTCAT
* ** *
3868041 TTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTTGAATGAAAA
65 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
* * * * *
3868104 AAATCGAAACCTAGCACGATTGGGCACGA-CATCTCAAACTCCCAAACACAAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATC-TCTCAGACTTCCAAACACGAAATATTGCCTCAT
*
3868168 TTTAATTTAAGAAAACATGGACGAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAAA
65 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATG----AA
3868233 AA
126 AA
*
3868235 AAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCAAACATGAAATATT
1 AAA-TCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCAAACACGAAATATT
3868293 TCCTTATGTT
Statistics
Matches: 159, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
127 99 0.62
128 5 0.03
131 7 0.04
132 47 0.30
133 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCAAACACGAAATATTGCCTCATT
TTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTTGAATGAAAA
Found at i:3868622 original size:3 final size:3
Alignment explanation
Indices: 3868616--3868782 Score: 74
Period size: 3 Copynumber: 55.3 Consensus size: 3
3868606 CATATAAAAA
* * * * *
3868616 AAT AAT -AT AA- AAT AAC AGT AAA AAT AAT AAT AAC AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
3868659 AAT AAT AAT AAT -GT ATAT AAAT AAT AGT AAT AAA AAT AAT AAT GAA-
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * **
3868705 AAT AGT AAT GAT AAT AAT ATAT AAT AGT AAC GAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
3868751 ATAT AAT AGC AAG AAT AAT AAT AAT GAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3868783 TATTAGCGAT
Statistics
Matches: 117, Mismatches: 36, Indels: 22
0.67 0.21 0.13
Matches are distributed among these distances:
2 8 0.07
3 96 0.82
4 12 0.10
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3868688 original size:52 final size:53
Alignment explanation
Indices: 3868616--3868727 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 53
3868606 CATATAAAAA
3868616 AATA-ATATAAAATAACAGTAA-AAATAATAATAACAG-AAATAGTAATAATAAT
1 AATATATATAAAATAACAGTAATAAA-AATAATAA-AGAAAATAGTAATAATAAT
* * * *
3868668 AATGTATAT-AAATAATAGTAATAAAAATAATAATGAAAATAGTAATGATAAT
1 AATATATATAAAATAACAGTAATAAAAATAATAAAGAAAATAGTAATAATAAT
3868720 AATATATA
1 AATATATA
3868728 ATAGTAACGA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
51 1 0.02
52 44 0.85
53 7 0.13
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (53 bp):
AATATATATAAAATAACAGTAATAAAAATAATAAAGAAAATAGTAATAATAAT
Found at i:3868758 original size:16 final size:15
Alignment explanation
Indices: 3868737--3868773 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
3868727 AATAGTAACG
*
3868737 ATAATAGCAATAATA
1 ATAATAGCAAGAATA
3868752 TATAATAGCAAGAATA
1 -ATAATAGCAAGAATA
3868768 ATAATA
1 ATAATA
3868774 ATGATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (15 bp):
ATAATAGCAAGAATA
Found at i:3868768 original size:28 final size:28
Alignment explanation
Indices: 3868717--3868770 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
3868707 TAGTAATGAT
*
3868717 AATAATATATAATAGTAACGATAATAGC
1 AATAATATATAATAGCAACGATAATAGC
3868745 AATAATATATAATAGCAA-GAATAATA
1 AATAATATATAATAGCAACG-ATAATA
3868771 ATAATGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (28 bp):
AATAATATATAATAGCAACGATAATAGC
Found at i:3868773 original size:25 final size:25
Alignment explanation
Indices: 3868715--3868775 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 25
3868705 AATAGTAATG
*
3868715 ATAATAATATATAATAGTAACGATA
1 ATAATAATATATAATAGCAACGATA
3868740 ATAGCAATAATATATAATAGCAA-GAATA
1 AT---AATAATATATAATAGCAACG-ATA
3868768 ATAATAAT
1 ATAATAAT
3868776 GATAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
25 8 0.26
27 1 0.03
28 22 0.71
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (25 bp):
ATAATAATATATAATAGCAACGATA
Found at i:3870493 original size:84 final size:85
Alignment explanation
Indices: 3870322--3871117 Score: 943
Period size: 84 Copynumber: 9.4 Consensus size: 85
3870312 TAATTTTTAA
* *
3870322 CCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCT-CTGTCTTCGATCTACTCCACTACTGTTTAG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGCTGTCTTCGATCTGCTCCACTACTGTTTAG
*
3870386 GGATAAGATCTGTATTTTTCAG
65 GGA-AAGATCTGTATTTTCCAG
* *
3870408 CCTGTTACCCTACTGCTCA-GGGGTTAAGGCTTGCTGTCTTCGATCTGCTCTACTACT-TTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
3870471 GATAAGATCTGTATTTTCCAG
66 GA-AAGATCTGTATTTTCCAG
* * * * * * * *
3870492 CCTATTACCCTATTGCTTAGGGAGTTAAGGC-T-CATCGTCTTCAACCTACCCCACTACTGTATA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGC-T-GTCTTCGATCTGCTCCACTACTGTTTA
*
3870555 GGGAGATAGTGTCTGTATTTTCCAG
64 GGGA-A-AG-ATCTGTATTTTCCAG
* * *
3870580 CCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATTTGCTCCATTACTGTTTAGA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG-
*
3870645 GG--AGATCTGTATTTTCTAG
65 GGAAAGATCTGTATTTTCCAG
* * * *
3870664 CCTGTTACCTTACTGCTCAAGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCACTACTGTTTACG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTA-G
3870729 GG--AGATCTGTATTTTCCAG
65 GGAAAGATCTGTATTTTCCAG
* * * * *
3870748 CCTATTACCCTACTACTTAGGGGGTTAAAGCTTGCTGTCTTCGATCTGCTGCACTATTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* * **
3870813 G-GAGATTTGTATTTTTTAG
66 GAAAGATCTGTATTTTCCAG
* *
3870832 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCAATCTGCTCCACTACTGTTTAGA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* **
3870897 G-AATATCTGTATTTTTTAG
66 GAAAGATCTGTATTTTCCAG
* * ** *
3870916 CATGTTACCCTACTGCTTAGGGGGTTAAAGCTTGCTACCTTCAATCTGCTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
3870981 G-AAGATCTGTATTTTCCAG
66 GAAAGATCTGTATTTTCCAG
** ** * *
3871000 CCTGTTACATTACTGCTT-GAGGGGTTAAGGCTCACTGTCTTTGATCTGCTCCGCTACTGTTTAG
1 CCTGTTACCCTACTGCTTAG-GGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG
*
3871064 GGATAAGATCTGTATTTTCCAA
65 GGA-AAGATCTGTATTTTCCAG
* *
3871086 CTTGTTACCCTACTTCTTAGGGGGTTAAGGCT
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
3871118 CGTGAATTCA
Statistics
Matches: 610, Mismatches: 84, Indels: 32
0.84 0.12 0.04
Matches are distributed among these distances:
83 5 0.01
84 403 0.66
85 63 0.10
86 69 0.11
87 3 0.00
88 62 0.10
89 4 0.01
90 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.37
Consensus pattern (85 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
GAAAGATCTGTATTTTCCAG
Found at i:3871288 original size:64 final size:64
Alignment explanation
Indices: 3871187--3871311 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
3871177 TCCTGTATTT
* *
3871187 ATGCTTATGCCAAATAATCAGGATGCTATTATCGAAATGAATCAAATGCTTCTAACTAGATATA
1 ATGCTTATGCCAAATAATCAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
* *
3871251 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATCAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
3871312 GTATCATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATCAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATATA
Found at i:3883234 original size:35 final size:35
Alignment explanation
Indices: 3883188--3883293 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
3883178 CACTTGCCTC
*
3883188 TTCCCACTCTCCCATGCTGTCTGCCACCAGCATCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
3883223 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
3883258 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
3883293 T
1 T
3883294 CACACACCCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.16, C:0.48, G:0.12, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:3883720 original size:14 final size:14
Alignment explanation
Indices: 3883703--3883770 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
3883693 GGAAGCAAAA
3883703 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
3883717 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
3883733 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
3883748 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
3883763 AAAAAAAA
1 AAAAAAAA
3883771 AACCAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 14 0.33
16 1 0.02
17 6 0.14
19 5 0.12
ACGTcount: A:0.62, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:3883747 original size:32 final size:32
Alignment explanation
Indices: 3883696--3883772 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
3883686 AAAGAGGGGA
*
3883696 AGCAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
* **
3883727 AGCACCAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA-AAAAAAAAAAATCCAGAAAAAAATTTCC
3883760 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
3883773 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.10
32 27 0.69
33 8 0.21
ACGTcount: A:0.64, C:0.18, G:0.06, T:0.12
Consensus pattern (32 bp):
AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:3884058 original size:11 final size:11
Alignment explanation
Indices: 3884029--3884078 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
3884019 CGACCGGATT
* *
3884029 TCCCTTCCCCC
1 TCCCTTCTCTC
3884040 TCCCTTCTCTC
1 TCCCTTCTCTC
3884051 TCCCTTCTCTC
1 TCCCTTCTCTC
3884062 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
3884073 TTCCTT
1 TCCCTT
3884079 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:3884622 original size:24 final size:25
Alignment explanation
Indices: 3884602--3884657 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
3884592 CTAATATGTA
3884602 TATATATATATATATATATATTATG
1 TATATATATATATATATATATTATG
*
3884627 TGTAT-TATATATATATATATTATG
1 TATATATATATATATATATATTATG
3884651 TATATAT
1 TATATAT
3884658 GCCATTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATATATATATATATATATTATG
Found at i:3884673 original size:2 final size:2
Alignment explanation
Indices: 3884595--3884657 Score: 69
Period size: 2 Copynumber: 33.0 Consensus size: 2
3884585 ATCATTTCTA
* * *
3884595 AT AT GT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3884635 AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
3884658 GCCATTAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3886644 original size:128 final size:128
Alignment explanation
Indices: 3886462--3886775 Score: 412
Period size: 128 Copynumber: 2.4 Consensus size: 128
3886452 GCCAAACGGT
** * * * * * * *
3886462 AAATCGAAACCCAACACGATTGAACACTATTTGTCGAATTTCCAGATACGAAATATTGCCTCATT
1 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
* ** ** *
3886527 TTAATTTAAGAAAGCATAGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAA
66 TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
* * *
3886590 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
* * *
3886655 TTAATTTAAGAAAACATGGACAAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAA
66 TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
* *
3886718 AAAGTCGAAACCCAGCACGATTGGGCACGATCTCTCAGACTTCCAAACACGAAATATT
1 AAA-TCGAAACCCAACACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATT
3886776 TCCTTACGTT
Statistics
Matches: 160, Mismatches: 25, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
128 110 0.69
129 50 0.31
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (128 bp):
AAATCGAAACCCAACACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
TTAATTTAAGAAAACATAGACAAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
Found at i:3887160 original size:3 final size:3
Alignment explanation
Indices: 3887134--3887309 Score: 106
Period size: 3 Copynumber: 57.3 Consensus size: 3
3887124 GCATATAAAA
* * * * *
3887134 AAT AAT AGT AAA AAA AAT AGT AAT AAT AAT AAT AAT AGA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
3887179 AAT AAT AAT -GT ATAT AAAT AATT AAT AGT AAT AAA AAT AAT AAT GAA-
1 AAT AAT AAT AAT A-AT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * **
3887226 AAT AGT AAT GAT AAT AAT AAT ATAT AAT AGT AAT GAT AAT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
** * *
3887272 AAT ATAT AAT AGC AAG AAT AAT AAT AAT AAT GAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3887310 TATTAGCGAT
Statistics
Matches: 130, Mismatches: 33, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
2 4 0.03
3 110 0.85
4 15 0.12
5 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3887281 original size:28 final size:25
Alignment explanation
Indices: 3887149--3887309 Score: 125
Period size: 24 Copynumber: 6.2 Consensus size: 25
3887139 TAGTAAAAAA
* *
3887149 AATAGTAATAATAATAATAATAGA-
1 AATAGTAATGATAATAATAATATAT
*
3887173 AATAGTAATAATAATGTATATAA-ATAATT
1 AATAGTAATGATAA--TA-ATAATAT-A-T
* *
3887202 AATAGTAATAAAAATAATAATGA-A-
1 AATAGTAATGATAATAATAAT-ATAT
3887226 AATAGTAATGATAATAATAATATAT
1 AATAGTAATGATAATAATAATATAT
3887251 AATAGTAATGATAATAGCAATAATATAT
1 AATAGTAATGATAAT---AATAATATAT
*
3887279 AATAGCAA-GAATAATAATAATAATGAT
1 AATAGTAATG-ATAATAATAAT-AT-AT
3887306 AATA
1 AATA
3887310 TATTAGCGAT
Statistics
Matches: 116, Mismatches: 5, Indels: 29
0.77 0.03 0.19
Matches are distributed among these distances:
23 1 0.01
24 34 0.29
25 21 0.18
26 10 0.09
27 14 0.12
28 23 0.20
29 13 0.11
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (25 bp):
AATAGTAATGATAATAATAATATAT
Found at i:3887282 original size:16 final size:16
Alignment explanation
Indices: 3887241--3887297 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
3887231 TAATGATAAT
3887241 AATAATATATAATAG-
1 AATAATATATAATAGC
*
3887256 --TAAT-GATAATAGC
1 AATAATATATAATAGC
3887269 AATAATATATAATAGC
1 AATAATATATAATAGC
*
3887285 AAGAATA-ATAATA
1 AATAATATATAATA
3887298 ATAATGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 7 0.20
13 4 0.11
15 10 0.29
16 14 0.40
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.30
Consensus pattern (16 bp):
AATAATATATAATAGC
Found at i:3888089 original size:17 final size:17
Alignment explanation
Indices: 3888062--3888094 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
3888052 GGACCCAAAT
3888062 GGAAAAAAGAA-AAAAA
1 GGAAAAAAGAATAAAAA
3888078 GGAAAAATAGAATAAAA
1 GGAAAAA-AGAATAAAA
3888095 TTGCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
GGAAAAAAGAATAAAAA
Found at i:3890680 original size:18 final size:18
Alignment explanation
Indices: 3890624--3890682 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 18
3890614 ACATATGGTG
*
3890624 AAAATTGATAAAA--ATA
1 AAAATTAATAAAATTATA
*
3890640 AAAATTAATAAAGTTATAGA
1 AAAATTAATAAAATTAT--A
3890660 AAATATTAA-AAAATTATA
1 AAA-ATTAATAAAATTATA
3890678 AAAAT
1 AAAAT
3890683 AATTATAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 11 0.31
17 2 0.06
18 6 0.17
20 11 0.31
21 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAATTAATAAAATTATA
Found at i:3890687 original size:20 final size:22
Alignment explanation
Indices: 3890642--3890687 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
3890632 TAAAAATAAA
*
3890642 AATTAATAAAGTTATAGAAAAT
1 AATTAATAAAATTATAGAAAAT
3890664 -ATTAA-AAAATTATA-AAAAT
1 AATTAATAAAATTATAGAAAAT
3890683 AATTA
1 AATTA
3890688 TAGAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTAATAAAATTATAGAAAAT
Found at i:3891226 original size:26 final size:28
Alignment explanation
Indices: 3891189--3891256 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 28
3891179 GTTTGGGTAG
* *
3891189 AAATTGGTTTGATATA-C-AAAGCAA-GA
1 AAATTGGGTTGATA-AGCAAAACCAATGA
3891215 AAATTGGGTTGATAAGCAAAACCAATGA
1 AAATTGGGTTGATAAGCAAAACCAATGA
3891243 AACATTGGGTTGAT
1 AA-ATTGGGTTGAT
3891257 TACGATCTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 1 0.03
26 14 0.39
27 6 0.17
28 4 0.11
29 11 0.31
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (28 bp):
AAATTGGGTTGATAAGCAAAACCAATGA
Found at i:3891320 original size:8 final size:9
Alignment explanation
Indices: 3891297--3891485 Score: 69
Period size: 10 Copynumber: 19.8 Consensus size: 9
3891287 AAATAATTTT
*
3891297 TTTTTACAA
1 TTTTTATAA
*
3891306 ATTTTAT-A
1 TTTTTATAA
3891314 TTTTTATAA
1 TTTTTATAA
3891323 TTTTCT-TACA
1 TTTT-TATA-A
*
3891333 ATTTTATAAA
1 TTTTTAT-AA
*
3891343 ATTTTATAAA
1 TTTTTAT-AA
*
3891353 TTTTTCTATA
1 TTTTTATA-A
*
3891363 TTTCTAT-A
1 TTTTTATAA
3891371 TATTTTATAA
1 T-TTTTATAA
*
3891381 TTTTTACAA
1 TTTTTATAA
*
3891390 TTTTTTTAAA
1 TTTTTAT-AA
* *
3891400 ATTTTACAA
1 TTTTTATAA
*
3891409 TTTTTTCTAA
1 -TTTTTATAA
*
3891419 TTTTTAACAA
1 TTTTT-ATAA
* *
3891429 CTTTTAAATAT
1 -TTTT-TATAA
3891440 TTTTTATTAAA
1 TTTTTA-T-AA
** *
3891451 ACTTAATAA
1 TTTTTATAA
3891460 TTTTTATAA
1 TTTTTATAA
*
3891469 CTTTTACTAA
1 TTTTTA-TAA
3891479 TTTTTAT
1 TTTTTAT
3891486 TTTTATCATT
Statistics
Matches: 131, Mismatches: 33, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
8 9 0.07
9 53 0.40
10 58 0.44
11 11 0.08
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Done.