Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 18 of 255
Found at i:4783791 original size:33 final size:34
Alignment explanation
Indices: 4783728--4783838 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 34
4783718 CATTAAACCA
* * *
4783728 ACAATTATACATACACCAGCAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
4783762 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
4783794 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
4783827 TCAATTATACAT
1 ACAATTATACAT
4783839 GCTTTATAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
32 10 0.15
33 50 0.75
34 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:4785838 original size:121 final size:120
Alignment explanation
Indices: 4785175--4786280 Score: 1930
Period size: 120 Copynumber: 9.2 Consensus size: 120
4785165 TTTTCAAGTT
*
4785175 ATATATTTAATAATAATTATGTTAATTTATATCTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4785240 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
* *
4785295 ATACATTTAATAATAATTATGTTAATTTATATCTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4785360 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4785415 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
4785480 TAATATAAGAACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4785535 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4785600 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4785655 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
4785720 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4785776 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4785841 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4785896 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
4785961 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4786017 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
4786082 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
4786138 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4786203 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
4786258 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
4786281 TAAATATGAT
Statistics
Matches: 958, Mismatches: 22, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.00
120 604 0.63
121 346 0.36
122 4 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:4785869 original size:241 final size:240
Alignment explanation
Indices: 4785175--4786280 Score: 1939
Period size: 241 Copynumber: 4.6 Consensus size: 240
4785165 TTTTCAAGTT
*
4785175 ATATATTTAATAATAATTATGTTAATTTATATCTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
4785240 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATACATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
4785305 TAATAATTATGTTAATTTATATCTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
**
4785370 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
4785415 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
4785480 TAATATAAGAACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4785545 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
4785610 ATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
4785655 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
4785720 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTT
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
*
4785784 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAA
129 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAA
**
4785849 GAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
194 GAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
4785896 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
4785961 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTT
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
4786025 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAA
129 AATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAA
* *
4786090 GAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
194 GAATATTAAT--TATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
4786138 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
4786203 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4786268 TAATAATTATGTT
131 TAATAATTATGTT
4786281 TAAATATGAT
Statistics
Matches: 837, Mismatches: 24, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
239 2 0.00
240 313 0.37
241 407 0.49
242 113 0.14
243 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
Found at i:4786257 original size:18 final size:17
Alignment explanation
Indices: 4786229--4786263 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4786219 ATTATTAAGA
*
4786229 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4786246 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4786264 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4786477 original size:44 final size:45
Alignment explanation
Indices: 4786428--4786518 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4786418 ACCTCTATTC
* * *
4786428 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
4786472 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
4786517 CA
1 CA
4786519 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:4786520 original size:16 final size:16
Alignment explanation
Indices: 4786499--4786567 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
4786489 GATTAGCTAT
4786499 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4786515 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
4786532 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4786548 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
4786564 TACA
1 TACA
4786568 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4786541 original size:33 final size:32
Alignment explanation
Indices: 4786499--4786567 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
4786489 GATTAGCTAT
4786499 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
4786532 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
4786564 TACA
1 TACA
4786568 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:4794230 original size:16 final size:16
Alignment explanation
Indices: 4794209--4794239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4794199 AGTTTGTTTT
*
4794209 TATAATATATAAATTA
1 TATAATATAAAAATTA
4794225 TATAATATAAAAATT
1 TATAATATAAAAATT
4794240 TTGAAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATATAAAAATTA
Found at i:4794618 original size:35 final size:35
Alignment explanation
Indices: 4794576--4794649 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
4794566 AATTACAACG
*
4794576 TTTTACAGGGAA-TCTCACTGTTTATTCTTTGGTTT-
1 TTTTACAGGGAACT-TCACTGTTCATTC-TTGGTTTC
*
4794611 TTTTACAGGGAACTTTACTGTTCATTCTTGGTTTC
1 TTTTACAGGGAACTTCACTGTTCATTCTTGGTTTC
4794646 TTTT
1 TTTT
4794650 GGCAAGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.20
35 27 0.77
36 1 0.03
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.53
Consensus pattern (35 bp):
TTTTACAGGGAACTTCACTGTTCATTCTTGGTTTC
Found at i:4794708 original size:73 final size:73
Alignment explanation
Indices: 4794631--4794845 Score: 315
Period size: 73 Copynumber: 2.9 Consensus size: 73
4794621 AACTTTACTG
* * *
4794631 TTCATTCTTGGTTTCTTTTGGCAAGGAATCATTCTCGTTCATTTCTGTCTTTGCTCCGCAGGGAA
1 TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
*
4794696 TCTCATTA
66 TCTCACTA
* *
4794704 TTCATTCTTGGTTGT-TTTTGGCAGGGAATCACTCTTGTTCATTTCTGTTTTTGCTCTGCAGGGA
1 TTCATTCTTGGTT-TCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGA
4794768 ATCTCACTA
65 ATCTCACTA
* * * * *
4794777 TTCATTCTTGGTTGCTTTTGGCATGGAATCACTCTTGTTCATTTTTGTCTTTGCTTTGTAGGGAA
1 TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
4794842 TCTC
66 TCTC
4794846 TCCTGTTTAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
73 127 0.99
74 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (73 bp):
TTCATTCTTGGTTTCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAGGGAA
TCTCACTA
Found at i:4794728 original size:36 final size:36
Alignment explanation
Indices: 4794688--4794806 Score: 113
Period size: 36 Copynumber: 3.3 Consensus size: 36
4794678 TCTTTGCTCC
4794688 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
1 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
*
4794724 GCAGGGAATCACTC-TTGTTCATT-TCT-GTT-TTTGCTCT-
1 GCAGGGAAT--CTCATTATTCATTCT-TGGTTGTTT--T-TG
* *
4794761 GCAGGGAATCTCACTATTCATTCTTGGTTGCTTTTG
1 GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
*
4794797 GCATGGAATC
1 GCAGGGAATC
4794807 ACTCTTGTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
35 7 0.10
36 31 0.46
37 23 0.34
38 6 0.09
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (36 bp):
GCAGGGAATCTCATTATTCATTCTTGGTTGTTTTTG
Found at i:4794765 original size:37 final size:37
Alignment explanation
Indices: 4794655--4794852 Score: 113
Period size: 37 Copynumber: 5.4 Consensus size: 37
4794645 CTTTTGGCAA
* * *
4794655 GGAATCATTCTCGTTCATTTCTGTCTTTGCTCCGCAG
1 GGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAG
* ** * *
4794692 GGAAT--CTCATTATTCA-TTCT-TGGTTGTTTTTGGCAG
1 GGAATCACTC-TTGTTCATTTCTGTCTTTG-CTCT-GCAG
*
4794728 GGAATCACTCTTGTTCATTTCTGTTTTTGCTCTGCAG
1 GGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAG
* * * ** * *
4794765 GGAATCTCAC-TATTCA-TTCT-TGGTTGCTTTTGGCAT
1 GGAATCACTCTTGTTCATTTCTGTCTTTGC-TCT-GCAG
* * *
4794801 GGAATCACTCTTGTTCATTTTTGTCTTTGCTTTGTAG
1 GGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAG
* *
4794838 GGAATCTCTCCTGTT
1 GGAATCACTCTTGTT
4794853 TATATTTTGT
Statistics
Matches: 119, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
34 9 0.08
35 13 0.11
36 30 0.25
37 43 0.36
38 15 0.13
39 9 0.08
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (37 bp):
GGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGCAG
Found at i:4795271 original size:20 final size:20
Alignment explanation
Indices: 4795234--4795273 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4795224 ATTTATATAT
*
4795234 TATAAAAACATGATATAAAA
1 TATAAAAACATGAAATAAAA
**
4795254 TATAAAAAGTTGAAATAAAA
1 TATAAAAACATGAAATAAAA
4795274 CGAAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
TATAAAAACATGAAATAAAA
Found at i:4795366 original size:26 final size:26
Alignment explanation
Indices: 4795313--4795367 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
4795303 AGATTCCAAC
* * *
4795313 AATATATAAATTCTGAAAAATTATAA
1 AATATATAAATTCTAAAAAATCAAAA
4795339 AATATATAAATTCTAAAAAATCAAAA
1 AATATATAAATTCTAAAAAATCAAAA
4795365 AAT
1 AAT
4795368 TTAAAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (26 bp):
AATATATAAATTCTAAAAAATCAAAA
Found at i:4795372 original size:17 final size:17
Alignment explanation
Indices: 4795346--4795391 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
4795336 TAAAATATAT
4795346 AAATTCTAAAAAATCAAA
1 AAATT-TAAAAAATCAAA
**
4795364 AAATTTAAAAAATGTAA
1 AAATTTAAAAAATCAAA
4795381 AAATTTAAAAA
1 AAATTTAAAAA
4795392 TAATTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTTAAAAAATCAAA
Found at i:4795373 original size:9 final size:9
Alignment explanation
Indices: 4795346--4795391 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
4795336 TAAAATATAT
4795346 AAATTCTAAA
1 AAATT-TAAA
*
4795356 AAA-TCAAA
1 AAATTTAAA
4795364 AAATTTAAA
1 AAATTTAAA
*
4795373 AAATGT-AA
1 AAATTTAAA
4795381 AAATTTAAA
1 AAATTTAAA
4795390 AA
1 AA
4795392 TAATTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 13 0.43
9 14 0.47
10 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATTTAAA
Found at i:4795401 original size:18 final size:18
Alignment explanation
Indices: 4795362--4795410 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
4795352 TAAAAAATCA
4795362 AAAAATTT-AAAAAATGT
1 AAAAATTTAAAAAAATGT
4795379 AAAAATTTAAAAATAAT-T
1 AAAAATTTAAAAA-AATGT
*
4795397 GAAAATTTAGAAAA
1 AAAAATTTA-AAAA
4795411 CTTCAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATTTAAAAAAATGT
Found at i:4795880 original size:148 final size:145
Alignment explanation
Indices: 4795533--4795899 Score: 601
Period size: 148 Copynumber: 2.5 Consensus size: 145
4795523 TCCAATCAAG
*
4795533 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACT
*
4795598 CTCACCGCATTTTAGTTTTCTTTCCTTTAAAGATTTAATATTGAAATATTAAATATATTTTCTTC
66 CTCACCGCATTTTAGTTTTCTTTCCTTTAAAGATTTAATATTGAAATAGTAAATATATTTTCTTC
*
4795663 CAAAAGAATAGCACT
131 CAAAAGAAGAGCACT
4795678 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACT
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACT
** *
4795743 CTCACCGCATTTTAGTTTTCTTTAATTTTTGAAAGATTTAATATTGAAATAGTAATTATATTTTC
66 CTCACCGCATTTTAGTTTTCTTT--CCTTT-AAAGATTTAATATTGAAATAGTAAATATATTTTC
* * *
4795808 TTCCCAAAGTAGAGTACT
128 TTCCAAAAGAAGAGCACT
*
4795826 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCACGTGTTCGATCCACG
1 TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCAC-
4795891 T-TCACCGCA
65 TCTCACCGCA
4795900 AGATTTTTAG
Statistics
Matches: 208, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
145 87 0.42
147 3 0.01
148 117 0.56
149 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (145 bp):
TGCGGGGATAGCTCAGTTGGGAGAGCGTCAGACTGAAGATCTGAAGGTCGCGTGTTCGATCCACT
CTCACCGCATTTTAGTTTTCTTTCCTTTAAAGATTTAATATTGAAATAGTAAATATATTTTCTTC
CAAAAGAAGAGCACT
Found at i:4796519 original size:21 final size:22
Alignment explanation
Indices: 4796472--4796524 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
4796462 ATAATATAAT
*
4796472 ATAAAAAATTATAAAAAGATGAT
1 ATAAAAAATTAT-AAAAGATGAA
* *
4796495 ATAAAATATTAT-AAAGTTGAA
1 ATAAAAAATTATAAAAGATGAA
4796516 ATAATAAAA
1 ATAA-AAAA
4796525 CGAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 11 0.44
22 3 0.12
23 11 0.44
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (22 bp):
ATAAAAAATTATAAAAGATGAA
Found at i:4804728 original size:98 final size:99
Alignment explanation
Indices: 4804556--4804747 Score: 242
Period size: 98 Copynumber: 1.9 Consensus size: 99
4804546 AAATTCCTTT
* ** * * * *
4804556 GTGAATTCTCATTTTTGAGAGTAAGGTTGATTTAGGTGGATTTGAAATAAAGAAATAACCTAAGG
1 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGATGGATTTGAAACAAAGAAATAACCTAAGG
*** * * *
4804621 TTGCGTGGTTTGCTAGAC-TTAAGTTCTAATCCC
66 CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
* *
4804654 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGATGGATTTGAAGCAAAGAAATCACCTAAGG
1 GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGATGGATTTGAAACAAAGAAATAACCTAAGG
4804719 CCACATGGTTTACCAGACTTTAAGTTCTA
66 CCACATGGTTTACCAGACTTTAAGTTCTA
4804748 GCAAAACAAC
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
98 68 0.87
99 10 0.13
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (99 bp):
GTGAATTCCCATTTTCAAGAGTAAGGCTGACTTAGATGGATTTGAAACAAAGAAATAACCTAAGG
CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
Found at i:4816085 original size:22 final size:25
Alignment explanation
Indices: 4816059--4816115 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
4816049 AAGCCCGATC
4816059 ATATTATTTTTAA-ATTT-AT-ATG
1 ATATTATTTTTAATATTTAATAATG
*
4816081 ATATTA-TTTTAATATTTAATAATT
1 ATATTATTTTTAATATTTAATAATG
4816105 ATATT-TTTTTA
1 ATATTATTTTTA
4816116 TTTATTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.20
22 10 0.33
23 2 0.07
24 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATATTATTTTTAATATTTAATAATG
Found at i:4816109 original size:21 final size:21
Alignment explanation
Indices: 4816061--4816111 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
4816051 GCCCGATCAT
*
4816061 ATTAT-TTTTAAATTTATATG
1 ATTATATTTTAAATTTATATA
4816081 A-TATTATTTTAATATTTA-ATA
1 ATTA-TATTTTAA-ATTTATATA
4816102 ATTATATTTT
1 ATTATATTTT
4816112 TTTATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 15 0.58
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTATATTTTAAATTTATATA
Found at i:4818882 original size:31 final size:31
Alignment explanation
Indices: 4818847--4818906 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
4818837 TTGTTTAGCT
4818847 ATATGCTCTGTTCATTCAATAAAATATGAAA
1 ATATGCTCTGTTCATTCAATAAAATATGAAA
4818878 ATATGCTCTGTTCATTCAATAAAATATGA
1 ATATGCTCTGTTCATTCAATAAAATATGA
4818907 TTTCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (31 bp):
ATATGCTCTGTTCATTCAATAAAATATGAAA
Found at i:4820676 original size:2 final size:2
Alignment explanation
Indices: 4820669--4820770 Score: 204
Period size: 2 Copynumber: 51.0 Consensus size: 2
4820659 CACTCTAAAT
4820669 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4820711 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4820753 CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA
4820771 TATATATATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 100 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4821949 original size:87 final size:86
Alignment explanation
Indices: 4821782--4821950 Score: 232
Period size: 86 Copynumber: 2.0 Consensus size: 86
4821772 TGGTGATGTG
** * *
4821782 AGAATTTTTACTTTTAGTGACGTTAAAAAGTGTCACAAAAAGATCACATTTTGTAATGTTCTAAA
1 AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
* *
4821847 GCGTCATGAATTTTTTTTTTT
66 GCGTCACGAAATTTTTTTTTT
* *
4821868 AGAATTTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAA-AGCACATTTTGTGATGTTTTAA
1 AGAA-TTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAA
* *
4821932 AGTGTCACGAAAATTTTTT
65 AGCGTCACGAAATTTTTTT
4821951 CATTACTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 38 0.53
87 34 0.47
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (86 bp):
AGAATTTTTACTTTTAGTGACAATAAAAAATGTCACAAAAAGAGCACATTTTGTAATGTTCTAAA
GCGTCACGAAATTTTTTTTTT
Found at i:4824407 original size:5 final size:6
Alignment explanation
Indices: 4824379--4824414 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4824369 CGTAAATATG
* *
4824379 CAAAAA CATAAC CAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
4824415 GAAACTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.78, C:0.19, G:0.00, T:0.03
Consensus pattern (6 bp):
CAAAAA
Found at i:4827043 original size:15 final size:15
Alignment explanation
Indices: 4827023--4827052 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4827013 TTTTTCTTTC
*
4827023 AAAAAAGTTCAAAAA
1 AAAAAAGTCCAAAAA
4827038 AAAAAAGTCCAAAAA
1 AAAAAAGTCCAAAAA
4827053 GTCAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAGTCCAAAAA
Found at i:4832994 original size:105 final size:104
Alignment explanation
Indices: 4832845--4833037 Score: 291
Period size: 105 Copynumber: 1.8 Consensus size: 104
4832835 TCCTCATTGA
*
4832845 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACGTTTCACAACTCGGTAT
1 AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
*
4832910 GGGA-AATGCCATACCTACATTTCTTAACTCAGTATGGAC
66 -GGATAATACCATACCTACATTTCTTAACTCAGTATGGAC
* ** *
4832949 AATACCATACCTATATTTCTCA-ACTCGGTATGGATGATATCATACCTACATTTCACAACTCGGT
1 AATACCATACCTACATTT-T-ATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGT
4833013 ATGGATAATACCATACCTACATTTC
64 ATGGATAATACCATACCTACATTTC
4833038 GCACTTTGCC
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 20 0.25
105 59 0.74
106 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (104 bp):
AATACCATACCTACATTTTATACTCGGTATGGAAAATACCATACCTACATTTCACAACTCGGTAT
GGATAATACCATACCTACATTTCTTAACTCAGTATGGAC
Found at i:4833053 original size:35 final size:35
Alignment explanation
Indices: 4832845--4833037 Score: 246
Period size: 35 Copynumber: 5.5 Consensus size: 35
4832835 TCCTCATTGA
* * *
4832845 AATACCATACCTACATTTTA-TACTCGGTATGGAA
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
4832879 AATACCATACCTACGTTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* ** * *
4832914 AATGCCATACCTACATTTCTTAACTCAGTATGGAC
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
4832949 AATACCATACCTATATTTCTCAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
4832984 GATATCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
4833019 AATACCATACCTACATTTC
1 AATACCATACCTACATTTC
4833038 GCACTTTGCC
Statistics
Matches: 137, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
34 21 0.15
35 113 0.82
36 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:4847404 original size:38 final size:38
Alignment explanation
Indices: 4847357--4847434 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
4847347 ACTTTCGTTT
*
4847357 CAACTTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
1 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
4847395 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
1 CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
4847433 CA
1 CA
4847435 GACTTATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (38 bp):
CAACCTATCGGGGTTGCTATAGACAAAAGAAATAAGAA
Found at i:4856193 original size:29 final size:29
Alignment explanation
Indices: 4856151--4856210 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
4856141 ATTGGCTGGT
4856151 GGGTTGGATTCCAAAGATAGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
* *
4856180 GGGTTGGATTCCAATGATGGAAAAATAAA
1 GGGTTGGATTCCAAAGATAGAAAAATAAA
4856209 GG
1 GG
4856211 ATCATTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.22
Consensus pattern (29 bp):
GGGTTGGATTCCAAAGATAGAAAAATAAA
Found at i:4868752 original size:28 final size:31
Alignment explanation
Indices: 4868698--4868761 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
4868688 CAAAAATTAG
* * *
4868698 TTTATTATTAATAAAGACGTAAGTTAATTTA
1 TTTATTATTAATAAAGACATAAATTAATATA
4868729 TTTATT-TTAATAAA-A-ATAAATTAATATA
1 TTTATTATTAATAAAGACATAAATTAATATA
4868757 TTTAT
1 TTTAT
4868762 ATCAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 15 0.50
29 1 0.03
30 8 0.27
31 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTATTATTAATAAAGACATAAATTAATATA
Found at i:4873134 original size:17 final size:19
Alignment explanation
Indices: 4873112--4873149 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
4873102 CATGGTAGAG
4873112 AAAAAGTAAC-TTCT-AAA
1 AAAAAGTAACATTCTCAAA
*
4873129 AAAAAGTTACATTCTCAAA
1 AAAAAGTAACATTCTCAAA
4873148 AA
1 AA
4873150 TTTTCCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAAGTAACATTCTCAAA
Found at i:4881347 original size:9 final size:10
Alignment explanation
Indices: 4881333--4881364 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
4881323 AAAAAAGAAA
4881333 ATATACAT-T
1 ATATACATAT
4881342 ATATACATAT
1 ATATACATAT
4881352 ATATA-ATAT
1 ATATACATAT
4881361 ATAT
1 ATAT
4881365 GAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATACATAT
Found at i:4882584 original size:50 final size:50
Alignment explanation
Indices: 4882529--4882628 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
4882519 TTTGCTGCAC
4882529 CTTGAGTATGTATTTGGATCTATTTTTGTTGATAAAAGTTTGCTTGATGG
1 CTTGAGTATGTATTTGGATCTATTTTTGTTGATAAAAGTTTGCTTGATGG
4882579 CTTGAGTATGTATTTGGATCTATTTTTGTTGATAAAAGTTTGCTTGATGG
1 CTTGAGTATGTATTTGGATCTATTTTTGTTGATAAAAGTTTGCTTGATGG
4882629 TTTGTATTGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.48
Consensus pattern (50 bp):
CTTGAGTATGTATTTGGATCTATTTTTGTTGATAAAAGTTTGCTTGATGG
Found at i:4887235 original size:29 final size:29
Alignment explanation
Indices: 4887172--4887239 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4887162 TAATCAACCA
4887172 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* * **
4887201 CACACACTTAGTGTCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
4887230 CGCACACTTA
1 CGCACACTTA
4887240 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:4887380 original size:29 final size:30
Alignment explanation
Indices: 4887341--4887419 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
4887331 CTTAATAATC
4887341 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
4887371 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
4887400 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
4887420 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:4890615 original size:18 final size:18
Alignment explanation
Indices: 4890579--4890621 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
4890569 AGCGCGTATG
4890579 ATGCAATGCTGATGCATGA
1 ATGCAATGC-GATGCATGA
4890598 ATGCAATG-GATGCAATGA
1 ATGCAATGCGATGC-ATGA
4890616 ATGCAA
1 ATGCAA
4890622 AAAAGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 8 0.35
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (18 bp):
ATGCAATGCGATGCATGA
Found at i:4891636 original size:18 final size:18
Alignment explanation
Indices: 4891612--4891657 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
4891602 TTATAAATAG
*
4891612 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
4891631 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
4891649 TATTATTTT
1 TATTATTTT
4891658 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:4899649 original size:17 final size:18
Alignment explanation
Indices: 4899604--4899655 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 18
4899594 TATATATGAA
*
4899604 ATATATACATAATATAGT
1 ATATATGCATAATATAGT
*
4899622 -TAT-TG-AAAATATA-T
1 ATATATGCATAATATAGT
4899636 ATATATGCATAATATAGT
1 ATATATGCATAATATAGT
4899654 AT
1 AT
4899656 TAAGACTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
14 1 0.04
15 10 0.37
16 3 0.11
17 10 0.37
18 3 0.11
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (18 bp):
ATATATGCATAATATAGT
Found at i:4901424 original size:24 final size:24
Alignment explanation
Indices: 4901397--4901448 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
4901387 AGTCAATGTC
* *
4901397 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
4901421 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
4901445 AAAT
1 AAAT
4901449 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:4909671 original size:18 final size:18
Alignment explanation
Indices: 4909647--4909692 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
4909637 TTATAAATAG
*
4909647 TATTATTTTCATATATCCT
1 TATTATTTTCAT-TATACT
4909666 TA-TATTTATCATTATACT
1 TATTATTT-TCATTATACT
4909684 TATTATTTT
1 TATTATTTT
4909693 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTTTCATTATACT
Found at i:4914264 original size:2 final size:2
Alignment explanation
Indices: 4914257--4914282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4914247 AACACAATAC
4914257 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
4914283 TTAAAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4914779 original size:23 final size:23
Alignment explanation
Indices: 4914740--4914784 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4914730 TTTTGACATT
** *
4914740 AAAATAAATTAGTTTTTTAAAAC
1 AAAATAAATTAAATTTTAAAAAC
4914763 AAAATAAATTAAATTTTAAAAA
1 AAAATAAATTAAATTTTAAAAA
4914785 TATATAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAAATTAAATTTTAAAAAC
Found at i:4916776 original size:13 final size:13
Alignment explanation
Indices: 4916758--4916783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4916748 CAAATCGCTA
4916758 TTATACAAATAAT
1 TTATACAAATAAT
4916771 TTATACAAATAAT
1 TTATACAAATAAT
4916784 GCTTGAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATACAAATAAT
Found at i:4921326 original size:16 final size:16
Alignment explanation
Indices: 4921305--4921336 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4921295 AATAAATAGA
4921305 ATGTTGAAATTACTAG
1 ATGTTGAAATTACTAG
4921321 ATGTTGAAATTACTAG
1 ATGTTGAAATTACTAG
4921337 GTTTTCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
ATGTTGAAATTACTAG
Found at i:4925582 original size:30 final size:30
Alignment explanation
Indices: 4925520--4925582 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
4925510 TTATAGCCTA
* * * *
4925520 ATTTGCATGCTAGAATCATGTTATAATCAG
1 ATTTACATGCTAGAATCAAGCTAGAATCAG
*
4925550 ATTTACATGCTAGAATCAAGCTAGAATTAG
1 ATTTACATGCTAGAATCAAGCTAGAATCAG
4925580 ATT
1 ATT
4925583 AATACAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (30 bp):
ATTTACATGCTAGAATCAAGCTAGAATCAG
Found at i:4926931 original size:19 final size:20
Alignment explanation
Indices: 4926909--4926948 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4926899 TTTAAATAAC
*
4926909 ATTTATAT-AATATATTTAA
1 ATTTATATAAATAAATTTAA
*
4926928 ATTTATTTAAATAAATTTAA
1 ATTTATATAAATAAATTTAA
4926948 A
1 A
4926949 AATATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTATATAAATAAATTTAA
Found at i:4926945 original size:10 final size:10
Alignment explanation
Indices: 4926917--4926955 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
4926907 ACATTTATAT
4926917 AATATATTTA
1 AATATATTTA
*
4926927 AATTTATTTA
1 AATATATTTA
*
4926937 AATAAATTTA
1 AATATATTTA
*
4926947 AAAATATTT
1 AATATATTT
4926956 TGAAATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AATATATTTA
Found at i:4929972 original size:17 final size:17
Alignment explanation
Indices: 4929952--4929985 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4929942 AGGTTTAGGT
4929952 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
4929969 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
4929986 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:4932886 original size:15 final size:16
Alignment explanation
Indices: 4932866--4932903 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4932856 TACATTATTA
4932866 TTATTTTCTTT-CTAT
1 TTATTTTCTTTCCTAT
* *
4932881 TTATTTTTTTTCCTTT
1 TTATTTTCTTTCCTAT
4932897 TTATTTT
1 TTATTTT
4932904 ATTTTCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTCTTTCCTAT
Found at i:4932901 original size:20 final size:20
Alignment explanation
Indices: 4932869--4932908 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4932859 ATTATTATTA
4932869 TTTTCTTTCTA-TTTATTTT
1 TTTTCTTTCTATTTTATTTT
*
4932888 TTTTCCTTTTTATTTTATTTT
1 TTTT-CTTTCTATTTTATTTT
4932909 CGAATTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCTTTCTATTTTATTTT
Found at i:4933964 original size:64 final size:64
Alignment explanation
Indices: 4933887--4934010 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
4933877 TCATTCGTGA
* **
4933887 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
4933951 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
4934011 ACATAGTTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:4934222 original size:44 final size:44
Alignment explanation
Indices: 4934074--4934383 Score: 208
Period size: 44 Copynumber: 7.1 Consensus size: 44
4934064 GTGGAATCGG
*
4934074 TGAATTCACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
4934117 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
4934159 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
4934204 TGAATTTACAAGATCTTAACCCCCTAAGTAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
4934247 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * * *
4934292 TGAATTTACAAGATCTTAACCCCCTAAGAAGTAGGGAAATA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
4934335 TCGAA--GGCGATGGACCTTAAACCCCTAACCAGTAGGGTAACAGGC
1 T-GAATTTAC-A-AGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
4934380 TGAA
1 TGAA
4934384 AATTATAGAT
Statistics
Matches: 196, Mismatches: 55, Indels: 31
0.70 0.20 0.11
Matches are distributed among these distances:
42 4 0.02
43 47 0.24
44 136 0.69
45 8 0.04
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:4934243 original size:88 final size:88
Alignment explanation
Indices: 4934086--4934383 Score: 483
Period size: 88 Copynumber: 3.4 Consensus size: 88
4934076 AATTCACAAG
* *
4934086 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTAG
** *
4934150 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
*
4934173 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGTAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTAG
*
4934238 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
4934261 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTA
*
4934325 GGGAAATAGATCGAAGGCGATGGA
65 GGGAAACAGATCGAAGGCGATGGA
* *
4934349 CCTTAAACCCCTAACCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
4934384 AATTATAGAT
Statistics
Matches: 197, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
87 47 0.24
88 145 0.74
89 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGAAGTAG
GGAAACAGATCGAAGGCGATGGA
Found at i:4935113 original size:21 final size:21
Alignment explanation
Indices: 4935087--4935130 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4935077 TGATATTACA
4935087 TTATTATTATTTT-CTTTCTAT
1 TTATTATT-TTTTCCTTTCTAT
*
4935108 TTATTATTTTTTCCTTTTTAT
1 TTATTATTTTTTCCTTTCTAT
4935129 TT
1 TT
4935131 TATTTTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTATTTTTTCCTTTCTAT
Found at i:4935513 original size:22 final size:22
Alignment explanation
Indices: 4935485--4935526 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4935475 TAACGTGCTA
* *
4935485 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
4935507 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
4935527 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:4938776 original size:327 final size:327
Alignment explanation
Indices: 4938175--4938829 Score: 1247
Period size: 327 Copynumber: 2.0 Consensus size: 327
4938165 TGTTCTCTAG
*
4938175 GCCGATTGAAGCTACAGGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
*
4938240 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
* *
4938305 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGGTGTTTCGGAATCTATTCATTAGTAACGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTAACGGTTG
4938370 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
4938435 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4938500 TT
326 TT
4938502 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
4938567 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
* *
4938632 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTAACGGTTG
4938697 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
*
4938762 ATGCTCCGACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4938827 TT
326 TT
4938829 G
1 G
4938830 TTTGAATTGT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
327 321 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (327 bp):
GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTAACGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
TT
Found at i:4944346 original size:9 final size:9
Alignment explanation
Indices: 4944332--4944363 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4944322 CAACGCTTTT
4944332 TTGCATTCA
1 TTGCATTCA
4944341 TTGCATTCA
1 TTGCATTCA
4944350 TTGCATTCA
1 TTGCATTCA
4944359 -TGCAT
1 TTGCAT
4944364 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:4952000 original size:64 final size:64
Alignment explanation
Indices: 4951885--4952008 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
4951875 TCATTCGTGA
**
4951885 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCACAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCACAGCATCCTAATTATTTGACATAAGCAT
* * * * * *
4951949 CACATTTAGTTAGGATCATTTGATTCATTTC-AGTGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGA-TCACAGCATCCTAATTATTTGACATAA
4952009 ACATAGTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 1 0.02
64 50 0.98
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCACAGCATCCTAATTATTTGACATAAGCAT
Found at i:4952220 original size:44 final size:44
Alignment explanation
Indices: 4952072--4952325 Score: 216
Period size: 44 Copynumber: 5.8 Consensus size: 44
4952062 GTGGAATCGG
*
4952072 TGAATTCACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
4952115 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
4952157 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
4952202 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
4952245 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* *
4952290 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGG
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGG
4952326 AAATAGATCG
Statistics
Matches: 158, Mismatches: 41, Indels: 23
0.71 0.18 0.10
Matches are distributed among these distances:
42 3 0.02
43 43 0.27
44 105 0.66
45 6 0.04
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:4952241 original size:88 final size:88
Alignment explanation
Indices: 4952082--4952337 Score: 426
Period size: 88 Copynumber: 2.9 Consensus size: 88
4952072 TGAATTCACA
*
4952082 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGT
1 AGCCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGT
* *
4952146 AAGGAAACAGATCGAAGATGATG
66 AGGGAAACAGATCGAAGACGATG
*
4952169 GGCCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGT
1 AGCCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGT
*
4952234 AGGGAAACAGATCGAAGGCGATG
66 AGGGAAACAGATCGAAGACGATG
*
4952257 AACCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAG
1 AGCCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAG
*
4952321 TAGGGAAATAGATCGAA
65 TAGGGAAACAGATCGAA
4952338 AATTATAGAT
Statistics
Matches: 159, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
87 48 0.30
88 111 0.70
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (88 bp):
AGCCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGT
AGGGAAACAGATCGAAGACGATG
Found at i:4953129 original size:12 final size:12
Alignment explanation
Indices: 4953114--4953161 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
4953104 TATTTATCTC
4953114 TTTATATTTATG
1 TTTATATTTATG
4953126 TTTATATTTTATG
1 TTTATA-TTTATG
** *
4953139 TATTATACATATC
1 T-TTATATTTATG
4953152 TTTATATTTA
1 TTTATATTTA
4953162 CACATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:4953341 original size:22 final size:22
Alignment explanation
Indices: 4953313--4953354 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4953303 TAACGTGCTA
* *
4953313 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
4953335 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
4953355 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:4956604 original size:327 final size:327
Alignment explanation
Indices: 4956003--4956657 Score: 1256
Period size: 327 Copynumber: 2.0 Consensus size: 327
4955993 TGTTCTCTAG
*
4956003 GCCGATTGAAGCTACAGGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
*
4956068 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
* *
4956133 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTTCGGAATCTATTCATTAGTATCGGTTG
131 GAGGGGTTGTTGGATAAGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4956198 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
4956263 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4956328 TT
326 TT
4956330 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
4956395 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
4956460 GAGGGGTTGTTGGATAAGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAAGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4956525 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
*
4956590 ATGCTCCGACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4956655 TT
326 TT
4956657 G
1 G
4956658 TTTGAATTGT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
327 322 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (327 bp):
GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAAGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
TT
Found at i:4958605 original size:5 final size:5
Alignment explanation
Indices: 4958570--4958603 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4958560 GGAATATTTT
* *
4958570 TGTTC TGTTC TGTTC TGTTC TGTTT TGTTG TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
4958604 GTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (5 bp):
TGTTC
Found at i:4961781 original size:15 final size:15
Alignment explanation
Indices: 4961761--4961795 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4961751 AGTCTACTAA
4961761 TTTTGATAAAGGGCT
1 TTTTGATAAAGGGCT
* *
4961776 TTTTGATAGAGGGGT
1 TTTTGATAAAGGGCT
4961791 TTTTG
1 TTTTG
4961796 CATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTGATAAAGGGCT
Found at i:4967923 original size:9 final size:9
Alignment explanation
Indices: 4967909--4967940 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4967899 CAACGCTTTT
4967909 TTGCATTCA
1 TTGCATTCA
4967918 TTGCATTCA
1 TTGCATTCA
4967927 TTGCATTCA
1 TTGCATTCA
4967936 -TGCAT
1 TTGCAT
4967941 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:4975926 original size:64 final size:64
Alignment explanation
Indices: 4975849--4975972 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
4975839 TCATTCGTGA
* **
4975849 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
4975913 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
4975973 ACATAGTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:4976182 original size:44 final size:44
Alignment explanation
Indices: 4976035--4976343 Score: 183
Period size: 44 Copynumber: 7.1 Consensus size: 44
4976025 GTGGAATCGG
*
4976035 TGAATTCACAAG-CCTT-AAACCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
* ** * * *
4976077 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
* * ** *
4976119 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
* ** * *
4976164 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
** *
4976207 TCGAA--GGCGATGAACCTT-AAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAAACCC-TAAGCAGTAGGGTAACAGGC
* ** * * *
4976252 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAATA-GA
1 TGAATTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
** * *
4976295 TCGAA--GGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-A-AGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
4976340 TGAA
1 TGAA
4976344 AATTATAGAT
Statistics
Matches: 195, Mismatches: 53, Indels: 36
0.69 0.19 0.13
Matches are distributed among these distances:
42 17 0.09
43 35 0.18
44 130 0.67
45 12 0.06
46 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAAACCCTAAGCAGTAGGGTAACAGGC
Found at i:4976225 original size:88 final size:87
Alignment explanation
Indices: 4976047--4976343 Score: 506
Period size: 88 Copynumber: 3.4 Consensus size: 87
4976037 AATTCACAAG
*
4976047 CCTTAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAG
1 CCTTAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
** *
4976111 GAAACAGATCGAAGATGATGGG
66 GAAACAGATCGAAGGCGATGGA
4976133 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTT-AAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
4976198 GGAAACAGATCGAAGGCGATGAA
65 GGAAACAGATCGAAGGCGATGGA
4976221 CCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTTAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
4976286 GGAAATAGATCGAAGGCGATGGA
65 GGAAACAGATCGAAGGCGATGGA
4976309 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCTTAAA-CCCTAAGCAGTAGGGTAACAGGCTGAA
4976344 AATTATAGAT
Statistics
Matches: 200, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
86 4 0.02
87 43 0.22
88 150 0.75
89 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (87 bp):
CCTTAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
GAAACAGATCGAAGGCGATGGA
Found at i:4978246 original size:326 final size:326
Alignment explanation
Indices: 4977646--4978298 Score: 1236
Period size: 326 Copynumber: 2.0 Consensus size: 326
4977636 ATGTTCTTAG
*
4977646 GCCGATTGAAGCTACAGGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
*
4977711 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
4977776 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTTCGGAATCTATTCATTAGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4977841 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
4977906 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGT-TGATGGTGATTATTGTGA
4977971 TT
325 TT
4977973 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCA-AAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
4978037 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
* *
4978102 GAGGGGTTGTTGGATATGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4978167 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
*
4978232 ATGCTCCGACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTTGATGGTGATTATTGTGAT
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTTGATGGTGATTATTGTGAT
4978297 T
326 T
4978298 G
1 G
4978299 TTTGAATTGT
Statistics
Matches: 320, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
325 21 0.07
326 256 0.80
327 43 0.13
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (326 bp):
GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTTGATGGTGATTATTGTGAT
T
Found at i:4980236 original size:5 final size:5
Alignment explanation
Indices: 4980201--4980234 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4980191 GGAATATTTT
* *
4980201 TGTTC TGTTC TGTTC TGTTC TGTTT TGTTG TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
4980235 GTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (5 bp):
TGTTC
Found at i:4983382 original size:15 final size:15
Alignment explanation
Indices: 4983362--4983395 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4983352 AGTCTACTAA
4983362 TTTGATAAAGGGCTT
1 TTTGATAAAGGGCTT
* *
4983377 TTTGATAGAGGGGTT
1 TTTGATAAAGGGCTT
4983392 TTTG
1 TTTG
4983396 CATATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.44
Consensus pattern (15 bp):
TTTGATAAAGGGCTT
Found at i:4988830 original size:9 final size:9
Alignment explanation
Indices: 4988816--4988847 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4988806 TCAACGCTTT
4988816 TTGCATTCA
1 TTGCATTCA
4988825 TTGCATTCA
1 TTGCATTCA
4988834 TTGCATTCA
1 TTGCATTCA
4988843 -TGCAT
1 TTGCAT
4988848 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:4996815 original size:64 final size:64
Alignment explanation
Indices: 4996738--4996861 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
4996728 TCATTCGTGA
* **
4996738 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTGGTTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
4996802 CACATTTAGTTAGGATCATTTGATTCATTTCAATGATAGCGTCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAA
4996862 ACATAGTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:4997073 original size:44 final size:44
Alignment explanation
Indices: 4996925--4997234 Score: 226
Period size: 44 Copynumber: 7.1 Consensus size: 44
4996915 GTGGAATCGG
*
4996925 TGAATTCACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
4996968 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
4997010 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
4997055 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
4997098 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
4997143 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAATA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** *
4997186 TCGAA--GGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-A-AGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
4997231 TGAA
1 TGAA
4997235 AATTATAGAT
Statistics
Matches: 199, Mismatches: 52, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
42 4 0.02
43 46 0.23
44 140 0.70
45 8 0.04
46 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:4997094 original size:88 final size:88
Alignment explanation
Indices: 4996937--4997234 Score: 501
Period size: 88 Copynumber: 3.4 Consensus size: 88
4996927 AATTCACAAG
* *
4996937 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
** *
4997001 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
4997024 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
4997089 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
4997112 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
*
4997176 GGGAAATAGATCGAAGGCGATGGA
65 GGGAAACAGATCGAAGGCGATGGA
*
4997200 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
4997235 AATTATAGAT
Statistics
Matches: 199, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
87 47 0.24
88 147 0.74
89 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGGCGATGGA
Found at i:4999145 original size:327 final size:327
Alignment explanation
Indices: 4998544--4999198 Score: 1229
Period size: 327 Copynumber: 2.0 Consensus size: 327
4998534 TGTTCTTTAG
* *
4998544 GCCGATTGAAGCTACAGGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCACAAAAATAGTCGTGGAGATGT
*
4998609 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
4998674 GAGGGGTTGTTGGATAGGAGCTATAAACCATGGATGTTTCGGAATCTATTCATTAGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAAACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4998739 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
4998804 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4998869 TT
326 TT
4998871 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCACAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCACAAAAATAGTCGTGGAGATGT
4998936 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
* * *
4999001 GAGGGGTTGTTGGATATGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAAACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
4999066 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
* *
4999131 ATGCTCCGACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTTTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
4999196 TT
326 TT
4999198 G
1 G
4999199 TTTGAATTGT
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
327 319 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (327 bp):
GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCACAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAGGAGCTATAAACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
TT
Found at i:5001144 original size:5 final size:5
Alignment explanation
Indices: 5001109--5001142 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
5001099 GGAATATTTT
* *
5001109 TGTTC TGTTC TGTTC TGTTC TGTTT TGTTG TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
5001143 GTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (5 bp):
TGTTC
Found at i:5004321 original size:15 final size:15
Alignment explanation
Indices: 5004301--5004335 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5004291 AGTCTACTAA
5004301 TTTTGATAAAGGGCT
1 TTTTGATAAAGGGCT
* *
5004316 TTTTGATAGAGGGGT
1 TTTTGATAAAGGGCT
5004331 TTTTG
1 TTTTG
5004336 CATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTGATAAAGGGCT
Found at i:5009800 original size:9 final size:9
Alignment explanation
Indices: 5009786--5009817 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
5009776 CAATGCTTTT
5009786 TTGCATTCA
1 TTGCATTCA
5009795 TTGCATTCA
1 TTGCATTCA
5009804 TTGCATTCA
1 TTGCATTCA
5009813 -TGCAT
1 TTGCAT
5009818 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:5018047 original size:44 final size:44
Alignment explanation
Indices: 5017899--5018208 Score: 208
Period size: 44 Copynumber: 7.1 Consensus size: 44
5017889 GTGGAATTGG
* *
5017899 TGAATTCACAAG-CCTTAAACCCCTAAGTAGTAGGGTAACAGGC
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
5017942 TGAATTTACAA-ATCTTAACCCCCTAAGCAGTAAGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * ** * *
5017984 TCGAAGATGA-TGGGCCTTAAAACCCTAAGCAGTAGGGTAACAGGC
1 T-GAA-TTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
5018029 TGAATTTACAAGATCTTAACCCCCTAAGTAGTAGGGAAACA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * *
5018072 TCGAA--GGCGATGAACCTTAAACCCTTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-AAG-ACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
5018117 TGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAATA-GA
1 TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** *
5018160 TCGAA--GGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
1 T-GAATTTAC-A-AGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
5018205 TGAA
1 TGAA
5018209 AATTATAGAT
Statistics
Matches: 196, Mismatches: 55, Indels: 31
0.70 0.20 0.11
Matches are distributed among these distances:
42 4 0.02
43 45 0.23
44 138 0.70
45 8 0.04
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (44 bp):
TGAATTTACAAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:5018073 original size:88 final size:88
Alignment explanation
Indices: 5017911--5018208 Score: 483
Period size: 88 Copynumber: 3.4 Consensus size: 88
5017901 AATTCACAAG
* * *
5017911 CCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAA-ATCTTAACCCCCTAAGCAGTAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
** *
5017975 GGAAACAGATCGAAGATGATGGG
66 GGAAACAGATCGAAGGCGATGGA
*
5017998 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGTAGTAG
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
*
5018063 GGAAACAGATCGAAGGCGATGAA
66 GGAAACAGATCGAAGGCGATGGA
5018086 CCTT-AAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
1 CCTTAAAACCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTA
*
5018150 GGGAAATAGATCGAAGGCGATGGA
65 GGGAAACAGATCGAAGGCGATGGA
*
5018174 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
1 CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAA
5018209 AATTATAGAT
Statistics
Matches: 196, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
87 46 0.23
88 145 0.74
89 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (88 bp):
CCTTAAAACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGGCGATGGA
Found at i:5019000 original size:12 final size:12
Alignment explanation
Indices: 5018985--5019032 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
5018975 TATTTATCTC
5018985 TTTATATTTATG
1 TTTATATTTATG
5018997 TTTATATTTTATG
1 TTTATA-TTTATG
** *
5019010 TATTATACATATC
1 T-TTATATTTATG
5019023 TTTATATTTA
1 TTTATATTTA
5019033 CACATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:5019213 original size:22 final size:22
Alignment explanation
Indices: 5019185--5019226 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5019175 TAACGTGCTA
* *
5019185 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
5019207 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
5019227 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:5022468 original size:327 final size:327
Alignment explanation
Indices: 5021867--5022521 Score: 1256
Period size: 327 Copynumber: 2.0 Consensus size: 327
5021857 TGTTCTCTAG
*
5021867 GCCGATTGAAGCTACAAGATTGGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAAGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
*
5021932 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTTGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
5021997 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTTCGGAATCTATTCATTAGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
5022062 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
5022127 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
5022192 TT
326 TT
*
5022194 GCCGATTGAAGCTACAGGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
1 GCCGATTGAAGCTACAAGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
5022259 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
66 TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
*
5022324 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTGGTATCGGTTG
131 GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
5022389 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
196 TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
*
5022454 ATGCTCCGACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
261 ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
5022519 TT
326 TT
5022521 G
1 G
5022522 TTTGAATTGT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
327 322 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (327 bp):
GCCGATTGAAGCTACAAGATTAGGAAAAGCAGAGGTAAGAGCCATAAAAATAGTCGTGGAGATGT
TTATGAGTATAGGTTGGCATGAAAAAGTTCCTCTAGTTATTGAGTCTAGCTCGAGTGTTGTTCTG
GAGGGGTTGTTGGATAGGAGCTATAGACCATGGATGTTGCGGAATCTATTCATTAGTATCGGTTG
TGATATTAATCTATTGTTGCGTGCTCAATTCACAATTATTCAATGACAAGGTAATATTATAGCTA
ATGCTCCAACAAAAGTAGGTATAAGGAGACCTTTGCTATTTAAAGTCTGATGGTGATTATTGTGA
TT
Found at i:5024472 original size:5 final size:5
Alignment explanation
Indices: 5024432--5024470 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
5024422 GGAATATTTT
* *
5024432 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTT TGTTG TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
5024471 GTTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.13, G:0.23, T:0.64
Consensus pattern (5 bp):
TGTTC
Found at i:5027647 original size:15 final size:15
Alignment explanation
Indices: 5027627--5027661 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5027617 AGTCTGCTAA
5027627 TTTTGATAAAGGGCT
1 TTTTGATAAAGGGCT
* *
5027642 TTTTGATAGAGGGGT
1 TTTTGATAAAGGGCT
5027657 TTTTG
1 TTTTG
5027662 CATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTGATAAAGGGCT
Found at i:5036150 original size:11 final size:10
Alignment explanation
Indices: 5036104--5036154 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
5036094 TTGTTAAACG
*
5036104 TGATTGATTA
1 TGATTAATTA
5036114 TGATTAATTAA
1 TGATTAATT-A
*
5036125 AGATTAATTA
1 TGATTAATTA
*
5036135 -GTTTAATTA
1 TGATTAATTA
*
5036144 TGATTTATTA
1 TGATTAATTA
5036154 T
1 T
5036155 ATAATAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (10 bp):
TGATTAATTA
Found at i:5037581 original size:20 final size:20
Alignment explanation
Indices: 5037556--5037597 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
5037546 TATCAGAGCT
5037556 ACAAATTAACCGATTCTAAG
1 ACAAATTAACCGATTCTAAG
*
5037576 ACAAATTAGCCGATTCTAAG
1 ACAAATTAACCGATTCTAAG
5037596 AC
1 AC
5037598 TGGAACGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAAATTAACCGATTCTAAG
Found at i:5041384 original size:36 final size:36
Alignment explanation
Indices: 5041344--5041416 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
5041334 GAACAGTCTT
5041344 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
5041380 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
1 ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
5041416 A
1 A
5041417 GTATATTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (36 bp):
ATTGTGAGTAATATTGGCACGAGAAAGTAAATCGGA
Found at i:5042308 original size:25 final size:26
Alignment explanation
Indices: 5042280--5042347 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
5042270 TCTCTAAAGT
*
5042280 TAGTGTTAGCAGCATCG-TACT-AAGC
1 TAGTGTTAGCAACATCGAT-CTGAAGC
* *
5042305 TAGTGTTAGCAACTTTGATCTGAAGC
1 TAGTGTTAGCAACATCGATCTGAAGC
5042331 TAGTGTTAGCAAC-TCGA
1 TAGTGTTAGCAACATCGA
5042348 ATATGTTAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
TAGTGTTAGCAACATCGATCTGAAGC
Found at i:5046102 original size:18 final size:18
Alignment explanation
Indices: 5046079--5046128 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
5046069 TTAAGGTGTT
*
5046079 TAATAATATAAAACAGTC
1 TAATAATATAAAAAAGTC
5046097 TAATAATTACTATAAAAAGTC
1 TAATAA-TA-TA-AAAAAGTC
5046118 TAATAAT-TAAA
1 TAATAATATAAA
5046129 GTTTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 2 0.07
20 3 0.11
21 13 0.46
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (18 bp):
TAATAATATAAAAAAGTC
Found at i:5046117 original size:21 final size:22
Alignment explanation
Indices: 5046085--5046126 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
5046075 TGTTTAATAA
5046085 TATAAAACAGTCTAATAATTAC
1 TATAAAACAGTCTAATAATTAC
5046107 TATAAAA-AGTCTAATAATTA
1 TATAAAACAGTCTAATAATTA
5046127 AAGTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAAAACAGTCTAATAATTAC
Found at i:5047326 original size:33 final size:33
Alignment explanation
Indices: 5047284--5047350 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
5047274 AAGTGAAAAG
5047284 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
5047317 TAGTTCTCTATCTACTTATCATTTTCCATACTT
1 TAGTTCTCTATCTACTTATCATTTTCCATACTT
5047350 T
1 T
5047351 TTCATTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (33 bp):
TAGTTCTCTATCTACTTATCATTTTCCATACTT
Found at i:5051581 original size:21 final size:21
Alignment explanation
Indices: 5051547--5051586 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
5051537 TAAAAAAATC
*
5051547 AAAATTAATAATG-TATATAA
1 AAAATAAATAATGTTATATAA
5051567 AAAATAAAGTAATGTTATAT
1 AAAATAAA-TAATGTTATAT
5051587 GAGTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAATAAATAATGTTATATAA
Found at i:5052945 original size:21 final size:23
Alignment explanation
Indices: 5052921--5052964 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
5052911 TTTACCCTTT
5052921 TTCCTTC-CCTAA-ATGCAGCCG
1 TTCCTTCACCTAATATGCAGCCG
5052942 TTCCTTCAACCTAATATGCAGCC
1 TTCCTTC-ACCTAATATGCAGCC
5052965 CCCAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (23 bp):
TTCCTTCACCTAATATGCAGCCG
Found at i:5053978 original size:22 final size:21
Alignment explanation
Indices: 5053953--5053994 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
5053943 TTTATTTTGG
* *
5053953 TTTATTTTTTTGTTTGTTTTTT
1 TTTAATTTTTTGGTT-TTTTTT
5053975 TTTAATTTTTTGGTTTTTTT
1 TTTAATTTTTTGGTTTTTTT
5053995 GGTTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (21 bp):
TTTAATTTTTTGGTTTTTTTT
Found at i:5054000 original size:23 final size:23
Alignment explanation
Indices: 5053947--5054000 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
5053937 ATTGTTTTTA
*
5053947 TTTTGG-TTTATTTTTTTGTTTG
1 TTTTGGTTTTATTTTTTGGTTTG
*
5053969 TTTT-TTTTTAATTTTTTGGTTT-
1 TTTTGGTTTT-ATTTTTTGGTTTG
5053991 TTTTGGTTTT
1 TTTTGGTTTT
5054001 CTAACAGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.80
Consensus pattern (23 bp):
TTTTGGTTTTATTTTTTGGTTTG
Found at i:5055859 original size:25 final size:23
Alignment explanation
Indices: 5055822--5055869 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
5055812 AAATGCATTT
5055822 TTGTTCTAAAAAGATTTTAAAATTA
1 TTGTTCTAAAAAG--TTTAAAATTA
* *
5055847 TTGTTGTATAAAGTTTAAAATTA
1 TTGTTCTAAAAAGTTTAAAATTA
5055870 CTCATATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
TTGTTCTAAAAAGTTTAAAATTA
Found at i:5060191 original size:18 final size:18
Alignment explanation
Indices: 5060168--5060203 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5060158 ACAAGAGAGG
5060168 GAAAAGAGAAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
*
5060186 GAAAAGAGGAGAAAGAAA
1 GAAAAGAGAAGAAAGAAA
5060204 AGGTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAAGAGAAGAAAGAAA
Found at i:5062588 original size:18 final size:18
Alignment explanation
Indices: 5062565--5062629 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
5062555 AGAATGTGTC
5062565 ATTCATTTTCATAACGTT
1 ATTCATTTTCATAACGTT
* *
5062583 ATTCATTATT-ATAAAGCT
1 ATTCATT-TTCATAACGTT
* *
5062601 ATAC-TATTTCAAAACGTT
1 ATTCAT-TTTCATAACGTT
*
5062619 ATTAATTTTCA
1 ATTCATTTTCA
5062630 AAATATCACT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 3 0.09
18 29 0.83
19 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTCATTTTCATAACGTT
Found at i:5072826 original size:64 final size:64
Alignment explanation
Indices: 5072705--5072921 Score: 357
Period size: 64 Copynumber: 3.4 Consensus size: 64
5072695 AGTCCATGTG
* * * *
5072705 ATTTATATAAAAAAAATTATATTACAAAGTTTGTTCCAATT--TTTAATGTTGTAATGTATTTA
1 ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
5072767 ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
1 ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
* *
5072831 ATTTATATAACAAAATTTATATTACAATGTTTATTTCAATTAGATTAATGTTGTAATGTATTTA
1 ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
*
5072895 ATTTATATAACAAAATTTATATTACAA
1 ATTTATATAAAAAAATTTATATTACAA
5072922 AACTAAGTTT
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
62 38 0.26
64 109 0.74
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (64 bp):
ATTTATATAAAAAAATTTATATTACAATGTTTATTCCAATTAGATTAATGTTGTAATGTATTTA
Found at i:5072913 original size:14 final size:14
Alignment explanation
Indices: 5072894--5072923 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5072884 TAATGTATTT
5072894 AATTTATATAACAA
1 AATTTATATAACAA
*
5072908 AATTTATATTACAA
1 AATTTATATAACAA
5072922 AA
1 AA
5072924 CTAAGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:5077031 original size:21 final size:20
Alignment explanation
Indices: 5077005--5077057 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
5076995 AAAAAAGGTG
*
5077005 ATTCTTTTGTTTTTTTCTTCT
1 ATTCTTTTGTTTTCTT-TTCT
5077026 ATTCTTTTGGTTTTCTTTTCT
1 ATTCTTTT-GTTTTCTTTTCT
5077047 A-TCTTTTGTTT
1 ATTCTTTTGTTT
5077058 CAAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 13 0.43
22 7 0.23
ACGTcount: A:0.06, C:0.13, G:0.08, T:0.74
Consensus pattern (20 bp):
ATTCTTTTGTTTTCTTTTCT
Found at i:5077070 original size:3 final size:3
Alignment explanation
Indices: 5077062--5077114 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5077052 TTGTTTCAAA
5077062 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
5077110 AAT AA
1 AAT AA
5077115 AGGAAGCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5077146 original size:11 final size:12
Alignment explanation
Indices: 5077130--5077159 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
5077120 GCTTTTTTGC
5077130 CTTTTTTTCTAT
1 CTTTTTTTCTAT
5077142 CTTTTTTTCTAT
1 CTTTTTTTCTAT
5077154 CTTTTT
1 CTTTTT
5077160 ATTGCCGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTTTTCTAT
Found at i:5077881 original size:4 final size:4
Alignment explanation
Indices: 5077872--5077905 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
5077862 GATTAAGTCC
* *
5077872 TTTA TTTA TTTA TTTA CTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
5077906 AGTTCTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:5078021 original size:17 final size:18
Alignment explanation
Indices: 5078001--5078041 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
5077991 TGTGCCATTA
5078001 TTATTTTTATC-AT-TATT
1 TTATTTTTATCTATATA-T
*
5078018 TTATTATTATCTATATAT
1 TTATTTTTATCTATATAT
5078036 TTATTT
1 TTATTT
5078042 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 8 0.40
19 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTTATCTATATAT
Found at i:5078042 original size:4 final size:4
Alignment explanation
Indices: 5078033--5078058 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5078023 ATTATCTATA
5078033 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
5078059 CACATACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:5078318 original size:12 final size:12
Alignment explanation
Indices: 5078301--5078327 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5078291 GAAAATAGGG
5078301 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5078313 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5078325 TTT
1 TTT
5078328 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:5078419 original size:41 final size:42
Alignment explanation
Indices: 5078351--5078560 Score: 252
Period size: 41 Copynumber: 5.1 Consensus size: 42
5078341 ACAAAAATTG
* * * **
5078351 TAAAACACAGATCAATAGCGGCG-TTTTTGGTAAAATGCCAT
1 TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
*
5078392 TAAAA-ACAGAGCAATAGCGGCGCTTTTTGTTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
*
5078433 TAAAA-ACAGAGCAATAGCGGCAC-TTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
* * *
5078473 TAAAAGTCGGAGCAATAGCGGCGCTTTCT-GTAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
* * * *
5078514 TAAAAGTCGGAGCATTAGCGGCGC-TTTTGATAAAACGCCGC
1 TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
5078555 TAAAAG
1 TAAAAG
5078561 TCATATAACC
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
40 40 0.26
41 108 0.72
42 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
TAAAAGACAGAGCAATAGCGGCGCTTTTTGGTAAAACGCCGC
Found at i:5078507 original size:81 final size:83
Alignment explanation
Indices: 5078351--5078563 Score: 279
Period size: 82 Copynumber: 2.6 Consensus size: 83
5078341 ACAAAAATTG
* * * ** *
5078351 TAAAACACAGATCAATAGCGGCGTTTTTGGTAAAATGCCATTAAAA-ACAGAGCAATAGCGGCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGC
*
5078415 TTTTTGTTAAAACGCCGC
66 TTTCTGTTAAAACGCCGC
* *
5078433 TAAAA-ACAGAGCAATAGCGGCACTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCGC
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGC
5078497 TTTCTG-TAAAACGCCGC
66 TTTCTGTTAAAACGCCGC
** * * *
5078514 TAAAAGTCGGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAGTCA
1 TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCA
5078564 TATAACCCCT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 50 0.44
82 64 0.56
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (83 bp):
TAAAACACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGC
TTTCTGTTAAAACGCCGC
Found at i:5078650 original size:37 final size:37
Alignment explanation
Indices: 5078576--5078652 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
5078566 TAACCCCTAA
* * * *
5078576 AACCCTAAACCCTAAAAAATCATGAACCCTAATCTAT
1 AACCCTAAACCCTAAAAAACCATAAACCATAAACTAT
*
5078613 AACCCTTAAACCCT-AAAAACCTTAAACCATAAACTAT
1 AACCC-TAAACCCTAAAAAACCATAAACCATAAACTAT
5078650 AAC
1 AAC
5078653 TTCTAAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (37 bp):
AACCCTAAACCCTAAAAAACCATAAACCATAAACTAT
Found at i:5078796 original size:7 final size:7
Alignment explanation
Indices: 5078784--5078847 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
5078774 TTTATTTTTT
*
5078784 GGTTTAC
1 GGTTTAA
5078791 GGTTTAA
1 GGTTTAA
**
5078798 TATTTAA
1 GGTTTAA
5078805 GGTTTAA
1 GGTTTAA
* *
5078812 GGTCTAT
1 GGTTTAA
*
5078819 GGTTTAG
1 GGTTTAA
*
5078826 GGTTTTAT
1 GG-TTTAA
5078834 GGTTTAA
1 GGTTTAA
5078841 GGTTTAA
1 GGTTTAA
5078848 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:5078836 original size:15 final size:15
Alignment explanation
Indices: 5078800--5078850 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
5078790 CGGTTTAATA
*
5078800 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
5078814 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
5078829 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
5078844 TTAATGG
1 TTTATGG
5078851 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:5079455 original size:7 final size:7
Alignment explanation
Indices: 5079445--5079525 Score: 92
Period size: 7 Copynumber: 11.3 Consensus size: 7
5079435 AAATAAACTC
5079445 AAAAA-T
1 AAAAATT
5079451 AAAAATTT
1 AAAAA-TT
*
5079459 AAAATTT
1 AAAAATT
5079466 AAAAATT
1 AAAAATT
5079473 AAAAATT
1 AAAAATT
*
5079480 AAAATTT
1 AAAAATT
*
5079487 AAAAATA
1 AAAAATT
*
5079494 AAAAATA
1 AAAAATT
5079501 AAAAACTT
1 AAAAA-TT
5079509 AAAAACTT
1 AAAAA-TT
5079517 AAAAATT
1 AAAAATT
5079524 AA
1 AA
5079526 TATTTTAGTC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.08
7 42 0.64
8 19 0.29
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:5079470 original size:8 final size:8
Alignment explanation
Indices: 5079450--5079523 Score: 70
Period size: 8 Copynumber: 10.0 Consensus size: 8
5079440 AACTCAAAAA
5079450 TAAAAATT
1 TAAAAATT
5079458 T-AAAATT
1 TAAAAATT
5079465 TAAAAA-T
1 TAAAAATT
5079472 TAAAAA-T
1 TAAAAATT
5079479 T-AAAATT
1 TAAAAATT
5079486 TAAAAA--
1 TAAAAATT
*
5079492 TAAAAAAT
1 TAAAAATT
* *
5079500 AAAAAACT
1 TAAAAATT
*
5079508 TAAAAACT
1 TAAAAATT
5079516 TAAAAATT
1 TAAAAATT
5079524 AATATTTTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
6 10 0.18
7 18 0.32
8 29 0.51
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAAATT
Found at i:5079504 original size:21 final size:21
Alignment explanation
Indices: 5079428--5079525 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
5079418 CATTAAATCG
*
5079428 AAATAAAAAA-T-AAACTCAA
1 AAATAAAAAATTAAAACTTAA
* *
5079447 AAATAAAAATTTAAAATTTAA
1 AAATAAAAAATTAAAACTTAA
* *
5079468 AAATTAAAAATTAAAATTTAA
1 AAATAAAAAATTAAAACTTAA
*
5079489 AAATAAAAAATAAAAAACTTAA
1 AAATAAAAAAT-TAAAACTTAA
*
5079511 AAACTTAAAAATTAA
1 AAA-TAAAAAATTAA
5079526 TATTTTAGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
19 9 0.14
20 1 0.02
21 35 0.54
22 13 0.20
23 7 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAAAAAATTAAAACTTAA
Done.