Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 235 of 290
Found at i:76596600 original size:24 final size:24
Alignment explanation
Indices: 76596568--76596616 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
76596558 CTTTACAAAC
76596568 CCTAGGTATTTAACTCACTTCTTT
1 CCTAGGTATTTAACTCACTTCTTT
76596592 CCTAGGTATTTAACTCACTTCTTT
1 CCTAGGTATTTAACTCACTTCTTT
76596616 C
1 C
76596617 TAATTAGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.08, T:0.45
Consensus pattern (24 bp):
CCTAGGTATTTAACTCACTTCTTT
Found at i:76598352 original size:40 final size:40
Alignment explanation
Indices: 76598293--76598368 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
76598283 ATGCATACTG
**
76598293 TATCTGAGATGGACTAAGGCCTTAATTTATATCTGAAACTA
1 TATCTGAGATGGACTAAGGCC-TAAACTATATCTGAAACTA
*
76598334 TATCTGA-ATGGGCTAAGGCCTAAACTATATCTGAA
1 TATCTGAGATGGACTAAGGCCTAAACTATATCTGAA
76598369 TCTGTAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 13 0.41
40 12 0.38
41 7 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (40 bp):
TATCTGAGATGGACTAAGGCCTAAACTATATCTGAAACTA
Found at i:76599254 original size:20 final size:20
Alignment explanation
Indices: 76599225--76599263 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
76599215 CTTTTACTCT
76599225 TCTTGCC-AAATCTTTGATAA
1 TCTTGCCAAAATC-TTGATAA
*
76599245 TCTTGTCAAAATCTTGATA
1 TCTTGCCAAAATCTTGATA
76599264 TAAATCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTTGCCAAAATCTTGATAA
Found at i:76603565 original size:20 final size:22
Alignment explanation
Indices: 76603526--76603568 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
76603516 GTTTATAATT
76603526 TTTTTTACAAATTATGTATTAA
1 TTTTTTACAAATTATGTATTAA
*
76603548 TTTTTTA-AACTTAT-TATTAA
1 TTTTTTACAAATTATGTATTAA
76603568 T
1 T
76603569 AAAATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTTACAAATTATGTATTAA
Found at i:76608617 original size:27 final size:27
Alignment explanation
Indices: 76608579--76608637 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
76608569 TATTAGGGTC
*
76608579 ATATTAAAATTT-CTTAATCAAATTTTA
1 ATATTAAAATTTGATTAA-CAAATTTTA
*
76608606 ATATTAAAATTTGATTAAGAAATTTTA
1 ATATTAAAATTTGATTAACAAATTTTA
76608633 ATATT
1 ATATT
76608638 TAGATAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (27 bp):
ATATTAAAATTTGATTAACAAATTTTA
Found at i:76609887 original size:12 final size:12
Alignment explanation
Indices: 76609870--76609903 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
76609860 CGGCCTGCCC
76609870 ATATTAATTTTT
1 ATATTAATTTTT
*
76609882 ATATTATTTTTT
1 ATATTAATTTTT
76609894 ATA-TAATTTT
1 ATATTAATTTT
76609904 AAAATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:76610060 original size:30 final size:30
Alignment explanation
Indices: 76610024--76610084 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
76610014 CAATTTAGCA
*
76610024 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
76610054 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
76610084 A
1 A
76610085 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:76614429 original size:42 final size:43
Alignment explanation
Indices: 76614318--76614416 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 43
76614308 CGATATGTGT
* *
76614318 TTTCGTGTAAGACCATGTCTGGGACATCGGTATCAACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCAGCATCAACTTATGA
*
76614361 TTTACGTGTAAGACCATGTCTGGGACATCAGCATCGTA-TT-TGA
1 TTT-CGTGTAAGACCATGTCTGGGACATCAGCATC-AACTTATGA
76614404 TTTCGTGTAAGAC
1 TTTCGTGTAAGAC
76614417 TTTGTCTAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
42 10 0.20
43 9 0.18
44 31 0.61
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACATCAGCATCAACTTATGA
Found at i:76614438 original size:42 final size:43
Alignment explanation
Indices: 76614321--76614429 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
76614311 TATGTGTTTT
* * * *
76614321 CGTGTAAGACCATGTCTGGGACATCGGTATC-AACTTATGATTTA
1 CGTGTAAGACCATGTCTAGGACATCAGCATCGTA-TT-TGATTTA
*
76614365 CGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTT-
1 CGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGATTTA
**
76614407 CGTGTAAGACTTTGTCTAGGACA
1 CGTGTAAGACCATGTCTAGGACA
76614430 GTGGCATCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 20 0.34
43 6 0.10
44 31 0.53
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATCAGCATCGTATTTGATTTA
Found at i:76617259 original size:48 final size:48
Alignment explanation
Indices: 76617105--76617252 Score: 233
Period size: 48 Copynumber: 3.1 Consensus size: 48
76617095 ATATATACAC
* **
76617105 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
76617153 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
76617201 ATCTCATACATATTTTACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
76617249 ATCT
1 ATCT
76617253 TGTACATCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:76619606 original size:23 final size:23
Alignment explanation
Indices: 76619574--76619617 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
76619564 AAAATTTCAC
* *
76619574 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
76619597 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
76619618 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:76620175 original size:47 final size:47
Alignment explanation
Indices: 76620106--76620199 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
76620096 TGAGACGGAG
76620106 TCAGTATGCACGGGAATGTGTTTCAACTGAAGCAATTATGTGCAAGA
1 TCAGTATGCACGGGAATGTGTTTCAACTGAAGCAATTATGTGCAAGA
76620153 TCAGTATGCACGGGAATGTGTTTCAACTGAAGCAATTATGTGCAAGA
1 TCAGTATGCACGGGAATGTGTTTCAACTGAAGCAATTATGTGCAAGA
76620200 AATTTGAGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (47 bp):
TCAGTATGCACGGGAATGTGTTTCAACTGAAGCAATTATGTGCAAGA
Found at i:76625444 original size:44 final size:42
Alignment explanation
Indices: 76625396--76625546 Score: 164
Period size: 42 Copynumber: 3.5 Consensus size: 42
76625386 TATGTGTTTT
*
76625396 CGTGTAAGACCATGTCTGGGACATCGGTATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACAT-GGCATCGA-TTATGATTTA
*
76625440 CGTGTAAGACCATGTCTGGGACATTAGCATCGTATT-TGATTT-
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCG-ATTATGATTTA
* * *
76625482 CGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATATG-GTTA
1 CGTGTAAGACCATGTCTGGGACA-TGGCATCGAT-TATGATTTA
* *
76625525 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
76625547 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 26 0.29
44 30 0.33
45 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATGGCATCGATTATGATTTA
Found at i:76625553 original size:43 final size:43
Alignment explanation
Indices: 76625396--76625554 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
76625386 TATGTGTTTT
* *
76625396 CGTGTAAGACCATGTCTGGGACATCGGTATCGACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TATATGA-TTA
* * *
76625440 CGTGTAAGACCATGTCTGGGACATTAGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * * *
76625482 CGTGTAAGACCTTGTCTAGGACAGTGGCATCGATATATGGTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
* * *
76625525 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
76625555 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 31 0.33
43 35 0.37
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTA
Found at i:76639018 original size:16 final size:16
Alignment explanation
Indices: 76638990--76639029 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
76638980 AATACTTCAG
76638990 TTTAAAA-TTTTAAAA
1 TTTAAAATTTTTAAAA
76639005 TTTAAAATTTTTAAAA
1 TTTAAAATTTTTAAAA
*
76639021 ATTAAAATT
1 TTTAAAATT
76639030 GCTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAATTTTTAAAA
Found at i:76639532 original size:13 final size:14
Alignment explanation
Indices: 76639506--76639541 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
76639496 AATAATATTA
*
76639506 AAAATAATTTTTTT
1 AAAATAATTGTTTT
76639520 AAAA-AATTGTTTT
1 AAAATAATTGTTTT
76639533 AAAATAATT
1 AAAATAATT
76639542 CAACTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AAAATAATTGTTTT
Found at i:76642413 original size:21 final size:21
Alignment explanation
Indices: 76642368--76642414 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
76642358 TTAATAAATA
*
76642368 TAAAATTACATTTTGACCCTT
1 TAAAATTACATTTTCACCCTT
*
76642389 TAAAATTTCATTTTCA-CCTT
1 TAAAATTACATTTTCACCCTT
76642409 CTAAAA
1 -TAAAA
76642415 AATATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTACATTTTCACCCTT
Found at i:76642750 original size:18 final size:19
Alignment explanation
Indices: 76642727--76642762 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
76642717 TACATACCAA
76642727 AAAATTTCGTATT-ATATC
1 AAAATTTCGTATTGATATC
76642745 AAAATTTCGTATTGATAT
1 AAAATTTCGTATTGATAT
76642763 AATACGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
AAAATTTCGTATTGATATC
Found at i:76646195 original size:27 final size:27
Alignment explanation
Indices: 76646165--76646216 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
76646155 ATACAATATA
* *
76646165 AATATTCAAAATTTTCATTTATACCAT
1 AATATCCAAAATTTTAATTTATACCAT
*
76646192 AATATCCACAATTTTAATTTATACC
1 AATATCCAAAATTTTAATTTATACC
76646217 TAAGTAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATCCAAAATTTTAATTTATACCAT
Found at i:76655696 original size:16 final size:18
Alignment explanation
Indices: 76655670--76655702 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
76655660 TAGAATTGGG
76655670 TTGAGAAAATT-ATTAAA
1 TTGAGAAAATTAATTAAA
76655687 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
76655703 TTAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TTGAGAAAATTAATTAAA
Found at i:76656524 original size:30 final size:30
Alignment explanation
Indices: 76656451--76656526 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
76656441 TAGTGAGTAA
* *
76656451 GTTGCTCACACAAGCTGACATTATATAAGG
1 GTTGCTCACACAAGCTGAAATCATATAAGG
* * *
76656481 GTTACTCATACAAGCTGAAATCGTATCAA-G
1 GTTGCTCACACAAGCTGAAATCATAT-AAGG
*
76656511 GTTGCTCAGACAAGCT
1 GTTGCTCACACAAGCT
76656527 AACTTATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGAAATCATATAAGG
Found at i:76662790 original size:13 final size:13
Alignment explanation
Indices: 76662770--76662802 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
76662760 TCATTTGATG
76662770 AAAT-AATTTTAT
1 AAATAAATTTTAT
76662782 AAATAAATTTTAT
1 AAATAAATTTTAT
76662795 AATATAAA
1 AA-ATAAA
76662803 ATATTTTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAT
Found at i:76665999 original size:36 final size:36
Alignment explanation
Indices: 76665952--76666050 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
76665942 TGCTGCAGGT
* *
76665952 GCTGGAGGAGGCTGCAATGGGTCTGGAACTAGTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
76665988 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
* *
76666024 GCTGGTGGCGGCTGAAATGGGTTTGGA
1 GCTGGTGGAGGCTGCAATGGGTTTGGA
76666051 GGGAGCGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.19, C:0.12, G:0.45, T:0.23
Consensus pattern (36 bp):
GCTGGTGGAGGCTGCAATGGGTTTGGAACTAGTGGA
Found at i:76666105 original size:15 final size:15
Alignment explanation
Indices: 76666084--76666138 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
76666074 CGGGTTTGGA
76666084 GGAAGAATGGGCGGC
1 GGAAGAATGGGCGGC
* * *
76666099 GGTAGAAGTGGGTTTGGA
1 GGAAGAA-TGGG--CGGC
76666117 GGAAGAATGGGCGGC
1 GGAAGAATGGGCGGC
76666132 GGAAGAA
1 GGAAGAA
76666139 GCTGGTTGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.29, C:0.07, G:0.51, T:0.13
Consensus pattern (15 bp):
GGAAGAATGGGCGGC
Found at i:76666106 original size:33 final size:33
Alignment explanation
Indices: 76666069--76666145 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
76666059 TGGGGGTGGC
*
76666069 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGT
1 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
*
76666102 AGAAGTGGGTTTGGAGGAAGAATGGGCGGCGGA
1 AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
*
76666135 AGAAGCTGGTT
1 AGAAGCGGGTT
76666146 GGGATGAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.26, C:0.08, G:0.49, T:0.17
Consensus pattern (33 bp):
AGAAGCGGGTTTGGAGGAAGAATGGGCGGCGGA
Found at i:76666123 original size:18 final size:17
Alignment explanation
Indices: 76666075--76666127 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
76666065 TGGCAGAAGC
76666075 GGGTTTGGAGGAAGAAT
1 GGGTTTGGAGGAAGAAT
* * *
76666092 GGG--CGGCGGTAGAAGT
1 GGGTTTGGAGGAAGAA-T
76666108 GGGTTTGGAGGAAGAAT
1 GGGTTTGGAGGAAGAAT
76666125 GGG
1 GGG
76666128 CGGCGGAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 7 0.26
18 8 0.30
ACGTcount: A:0.25, C:0.04, G:0.53, T:0.19
Consensus pattern (17 bp):
GGGTTTGGAGGAAGAAT
Found at i:76669880 original size:27 final size:26
Alignment explanation
Indices: 76669836--76669890 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
76669826 TTCAATATAT
* *
76669836 ATATTAAAATTATTTATTTATTTAAAA
1 ATATTAAAATTATATATTT-TTGAAAA
76669863 ATATTAAAATCTA-ATATTTTTGAAAA
1 ATATTAAAAT-TATATATTTTTGAAAA
76669889 AT
1 AT
76669891 GGATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 15 0.60
28 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATTAAAATTATATATTTTTGAAAA
Found at i:76669917 original size:21 final size:21
Alignment explanation
Indices: 76669875--76669931 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
76669865 ATTAAAATCT
**
76669875 AATATTTTTGAAAAATGGATTTA
1 AATATTTTT--AAAATCAATTTA
76669898 AATATTTTTAAAATCAATTTA
1 AATATTTTTAAAATCAATTTA
* *
76669919 AATACTATTAAAA
1 AATATTTTTAAAA
76669932 ATGAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 21 0.70
23 9 0.30
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (21 bp):
AATATTTTTAAAATCAATTTA
Found at i:76671102 original size:247 final size:249
Alignment explanation
Indices: 76670613--76671327 Score: 1030
Period size: 247 Copynumber: 2.9 Consensus size: 249
76670603 GCGTTAGAGC
* * * **
76670613 CCTTCCCACAAGACCCAAGTTTTAGCCCTTC-TTTTTTTTTTAATTTTGTAAATTTTTGGCAAAA
1 CCTTCCCACAAGACCCAAGTTTGATCCC-TCATTTTCTTTTTAA-TTCATAAATTTTTGGCAAAA
* ** ** * * *
76670677 ATGCCCCAATATATATATATACACGATTAAGTGCCAAAAATAAATAATAAATGAGCTATAGGCTC
64 ACGCCCC-A-ATATATATAT--ACGATTAAGTGCCTGAAATAAGCAAGAAATAAGCTATACGCTC
* * * ** * ***
76670742 AATGGTTAAATGTTAGTGCCTTCTTCTTAAAGGTAC-ATGGTTCAAATCTCTCTTTTTTCATTAT
125 AATGGTTAAATGTTAGTGCCTT-TTCCTAGAGGT-CTAAGGTTTGAATCCCTCCCCTTTCATTAT
*
76670806 TTCTAATTTTTTGGAA-AA-CCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAAATT-TAA
188 TTCTAA-TTTTT-CAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGT-AAATTGTAA
*
76670868 CCTTTCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
1 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
76670933 GCCCC-A-ATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGCTATACGCTCAATGGT
66 GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGCTATACGCTCAATGGT
*
76670996 TAAACGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTCCCCTTTCATTATTTCTAATT
131 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTCCCCTTTCATTATTTCTAATT
76671061 TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAATTGTAA
196 TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAATTGTAA
76671115 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
1 CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
* *
76671180 GCCCCAATATATATATACGATTAAGTGCCTGAAACAAGCAAGAAATAAGCTATATGCTCAATGGT
66 GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGCTATACGCTCAATGGT
*
76671245 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTTCCCTTTCATTATTTCTAATT
131 TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTCCCCTTTCATTATTTCTAATT
76671310 TTTCAACAAGCCCTTAAT
196 TTTCAACAAGCCCTTAAT
76671328 CCTAGCCTTA
Statistics
Matches: 423, Mismatches: 30, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
245 2 0.00
246 13 0.03
247 143 0.34
248 58 0.14
249 136 0.32
250 8 0.02
251 1 0.00
254 26 0.06
255 36 0.09
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (249 bp):
CCTTCCCACAAGACCCAAGTTTGATCCCTCATTTTCTTTTTAATTCATAAATTTTTGGCAAAAAC
GCCCCAATATATATATACGATTAAGTGCCTGAAATAAGCAAGAAATAAGCTATACGCTCAATGGT
TAAATGTTAGTGCCTTTTCCTAGAGGTCTAAGGTTTGAATCCCTCCCCTTTCATTATTTCTAATT
TTTCAACAAGCCCTTAATTGCCACCCTTTTGTTCCAAATTTGGGTAAATTGTAA
Found at i:76680921 original size:16 final size:16
Alignment explanation
Indices: 76680894--76680933 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
76680884 TCCGTCCATC
76680894 TTTCTATTTC-TTCTCTT
1 TTTCT-TTTCTTTC-CTT
76680911 TTTCTTTTCTTTCCTT
1 TTTCTTTTCTTTCCTT
76680927 TTTCTTT
1 TTTCTTT
76680934 ACACAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTCCTT
Found at i:76681910 original size:34 final size:35
Alignment explanation
Indices: 76681833--76681916 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 35
76681823 CGAATACATG
* * *
76681833 ATAAACATGAC-TTTTGCTACTGCATTGATCTGTC
1 ATAAACATGTCATATTGCTACTACATTGATCTGTC
* *
76681867 ATAAACATGTC-TATTGCTACTATATTGATCTGTT
1 ATAAACATGTCATATTGCTACTACATTGATCTGTC
*
76681901 ATAATCATGTCATATT
1 ATAAACATGTCATATT
76681917 ACACTGCATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (35 bp):
ATAAACATGTCATATTGCTACTACATTGATCTGTC
Found at i:76682992 original size:11 final size:11
Alignment explanation
Indices: 76682963--76683005 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
76682953 AATTATAAAC
76682963 ATATTTAAATA
1 ATATTTAAATA
*
76682974 ATAATTAAATA
1 ATATTTAAATA
* *
76682985 ATGTTTAAAAA
1 ATATTTAAATA
76682996 CATATTTAAA
1 -ATATTTAAA
76683006 ATACCTTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATTTAAATA
Found at i:76683176 original size:18 final size:18
Alignment explanation
Indices: 76683153--76683200 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
76683143 TTTTCCTTAG
76683153 AATTAATTAAAATAATTT
1 AATTAATTAAAATAATTT
* *
76683171 AATTAA-AAAAATTATTT
1 AATTAATTAAAATAATTT
**
76683188 AAGAAATTAAAAT
1 AATTAATTAAAAT
76683201 GCTGTTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATTAATTAAAATAATTT
Found at i:76684027 original size:17 final size:18
Alignment explanation
Indices: 76684005--76684040 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
76683995 TCTACCATAC
76684005 TAATAAAATT-ATTTTTA
1 TAATAAAATTAATTTTTA
76684022 TAATAAAATTAATTTTTA
1 TAATAAAATTAATTTTTA
76684040 T
1 T
76684041 GATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAAAATTAATTTTTA
Found at i:76684304 original size:15 final size:16
Alignment explanation
Indices: 76684276--76684325 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
76684266 AAAACATAAC
76684276 TAAT-TTTAATTAAAA
1 TAATATTTAATTAAAA
76684291 TAATATTTAA-TAAAA
1 TAATATTTAATTAAAA
*
76684306 TAATA-ATAATTAATAA
1 TAATATTTAATTAA-AA
76684322 TAAT
1 TAAT
76684326 TTAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 17 0.55
16 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATTTAATTAAAA
Found at i:76684319 original size:10 final size:10
Alignment explanation
Indices: 76684289--76684326 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
76684279 TTTTAATTAA
*
76684289 AATAATATTT
1 AATAATAATT
76684299 AATAA-AA-T
1 AATAATAATT
76684307 AATAATAATT
1 AATAATAATT
76684317 AATAATAATT
1 AATAATAATT
76684327 TAATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 6 0.24
9 3 0.12
10 16 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATAATAATT
Found at i:76694624 original size:23 final size:23
Alignment explanation
Indices: 76694593--76694649 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
76694583 TATAAAATCT
*
76694593 AATAGAAATAAG-CTTAAAGAAAA
1 AATAAAAATAAGTCTTAAA-AAAA
* * *
76694616 AATAAAAATTAGTCTTAAAATAG
1 AATAAAAATAAGTCTTAAAAAAA
76694639 AATAAAAATAA
1 AATAAAAATAA
76694650 AAACATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.23
Consensus pattern (23 bp):
AATAAAAATAAGTCTTAAAAAAA
Found at i:76701601 original size:40 final size:40
Alignment explanation
Indices: 76701514--76701643 Score: 138
Period size: 41 Copynumber: 3.2 Consensus size: 40
76701504 AAACACATCT
* *
76701514 TTTTCATTCGTTAT-CTTTTCCGG-TAAACATCATTTTCAACC
1 TTTTCATTTGTTATCCTTTT-CGGAT-AACTTC-TTTTCAACC
* *
76701555 TTTTCATTTGTTATCCTTTTCGGATAACTTCCTTTCAACT
1 TTTTCATTTGTTATCCTTTTCGGATAACTTCTTTTCAACC
* * * *
76701595 TTTTCATATATTATCCTTTTTGAATAACTTTCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCGGATAAC-TTCTTTTCAACC
76701636 TTTTCATT
1 TTTTCATT
76701644 GATTTGGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
40 31 0.41
41 38 0.51
42 6 0.08
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.52
Consensus pattern (40 bp):
TTTTCATTTGTTATCCTTTTCGGATAACTTCTTTTCAACC
Found at i:76712573 original size:26 final size:26
Alignment explanation
Indices: 76712520--76712593 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
76712510 ATGAAAATAA
*
76712520 AAATCAAAAGAAAAATAAGAATAAAAT
1 AAAT-AAAAGAAAAATAAAAATAAAAT
*
76712547 ACATAAAAG-AAAATAAAAATAAGAAT
1 AAATAAAAGAAAAATAAAAATAA-AAT
*
76712573 AAATAAAAATAAAAATAAAAA
1 AAAT-AAAAGAAAAATAAAAA
76712594 AAATTGGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 12 0.30
26 11 0.28
27 7 0.17
28 10 0.25
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (26 bp):
AAATAAAAGAAAAATAAAAATAAAAT
Found at i:76712582 original size:6 final size:6
Alignment explanation
Indices: 76712508--76712593 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
76712498 GAGAAAATTG
* * * *
76712508 AAATGA AAATAA AAATCA AAAGAA AAATAA GAAT-A AAATACA TAAA-AGA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A -AAATA-A
*
76712557 AAATAA AAATAA GAAT-- AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
76712594 AAATTGGAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
4 3 0.05
5 4 0.06
6 50 0.78
7 4 0.06
8 3 0.05
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:76712596 original size:31 final size:32
Alignment explanation
Indices: 76712508--76712597 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 32
76712498 GAGAAAATTG
*
76712508 AAATGAAAATAAAAATCAAAAGAAAAATAAGAAT
1 AAATAAAAATAAAAAT--AAAGAAAAATAAGAAT
* * *
76712542 AAA-ATACATAAAAGA-AAATAAAAATAAGAAT
1 AAATAAAAATAAAA-ATAAAGAAAAATAAGAAT
76712573 AAATAAAAATAAAAATAAA-AAAAAT
1 AAATAAAAATAAAAATAAAGAAAAAT
76712598 TGGAAGATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
31 25 0.53
32 11 0.23
33 7 0.15
34 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.16
Consensus pattern (32 bp):
AAATAAAAATAAAAATAAAGAAAAATAAGAAT
Found at i:76717972 original size:10 final size:10
Alignment explanation
Indices: 76717957--76717988 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
76717947 TAAATACATT
76717957 TAATTAAAGA
1 TAATTAAAGA
76717967 TAATTAAAGA
1 TAATTAAAGA
76717977 TAATTAAA-A
1 TAATTAAAGA
76717986 TAA
1 TAA
76717989 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:76718000 original size:19 final size:18
Alignment explanation
Indices: 76717976--76718019 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
76717966 ATAATTAAAG
76717976 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
76717996 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
76718013 ATAATTA
1 ATAATTA
76718020 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:76718034 original size:15 final size:15
Alignment explanation
Indices: 76718014--76718043 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76718004 ATAATCCTAA
*
76718014 TAATTATCTTAATAT
1 TAATTATCCTAATAT
76718029 TAATTATCCTAATAT
1 TAATTATCCTAATAT
76718044 AAATAAAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:76721534 original size:20 final size:20
Alignment explanation
Indices: 76721487--76721530 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
76721477 AGAATTTTAT
76721487 TAATATAATAAAATAATTTAA
1 TAATATAATAAAATAA-TTAA
76721508 -AATATAATAAAATAA-TAA
1 TAATATAATAAAATAATTAA
76721526 TAATA
1 TAATA
76721531 ATAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATATAATAAAATAATTAA
Found at i:76727920 original size:10 final size:10
Alignment explanation
Indices: 76727905--76727936 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
76727895 TAAATACATT
76727905 TAATTAAAGA
1 TAATTAAAGA
76727915 TAATTAAAGA
1 TAATTAAAGA
76727925 TAATTAAA-A
1 TAATTAAAGA
76727934 TAA
1 TAA
76727937 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:76727948 original size:19 final size:18
Alignment explanation
Indices: 76727924--76727967 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
76727914 ATAATTAAAG
76727924 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
76727944 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
76727961 ATAATTA
1 ATAATTA
76727968 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:76727982 original size:15 final size:15
Alignment explanation
Indices: 76727962--76727991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76727952 ATAATCCTAA
*
76727962 TAATTATCTTAATAT
1 TAATTATCCTAATAT
76727977 TAATTATCCTAATAT
1 TAATTATCCTAATAT
76727992 AAATAAAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:76730241 original size:18 final size:18
Alignment explanation
Indices: 76730218--76730253 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76730208 GTATCCTTTG
76730218 ATTATTCAATAACAGTCA
1 ATTATTCAATAACAGTCA
* *
76730236 ATTATTCAGTAATAGTCA
1 ATTATTCAATAACAGTCA
76730254 GTCTTGTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (18 bp):
ATTATTCAATAACAGTCA
Found at i:76730405 original size:6 final size:6
Alignment explanation
Indices: 76730394--76730424 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
76730384 TACACCGTAT
*
76730394 CAGTAA CAGTAA CGGTAA CAGTAA CAGTAA C
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA C
76730425 GGTACACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (6 bp):
CAGTAA
Found at i:76730417 original size:18 final size:18
Alignment explanation
Indices: 76730394--76730428 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
76730384 TACACCGTAT
76730394 CAGTAACAGTAACGGTAA
1 CAGTAACAGTAACGGTAA
76730412 CAGTAACAGTAACGGTA
1 CAGTAACAGTAACGGTA
76730429 CACTAAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACGGTAA
Found at i:76733102 original size:21 final size:19
Alignment explanation
Indices: 76733068--76733129 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
76733058 TAAGTTATGT
76733068 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
76733090 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
76733112 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
76733130 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:76733191 original size:23 final size:22
Alignment explanation
Indices: 76733154--76733204 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
76733144 AAAATATGGT
* *
76733154 AAAATAATTAGTATAAAAAAAA
1 AAAATAAATAATATAAAAAAAA
* *
76733176 CAAAATAAATAATATATAAGAAA
1 -AAAATAAATAATATAAAAAAAA
76733199 AAAATA
1 AAAATA
76733205 TATGAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAA
Found at i:76733609 original size:20 final size:21
Alignment explanation
Indices: 76733575--76733614 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76733565 ATTTTCCATT
*
76733575 TACAAATTTAGTAAATAATAA
1 TACAAATTTAGTAAAAAATAA
*
76733596 TACAATTTTA-TAAAAAATA
1 TACAAATTTAGTAAAAAATA
76733615 TATAAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TACAAATTTAGTAAAAAATAA
Found at i:76737134 original size:17 final size:17
Alignment explanation
Indices: 76737112--76737153 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
76737102 AATCTGGGCT
* *
76737112 TGTGGGCCACACAGACG
1 TGTGGGCCACACAAACA
*
76737129 TGTGGGCCATACAAACA
1 TGTGGGCCACACAAACA
76737146 TGTGGGCC
1 TGTGGGCC
76737154 GACATGGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.17
Consensus pattern (17 bp):
TGTGGGCCACACAAACA
Found at i:76743692 original size:23 final size:23
Alignment explanation
Indices: 76743662--76743712 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
76743652 GTACAACATA
76743662 TGTTCAATTTTTTTTCCTAAATT
1 TGTTCAATTTTTTTTCCTAAATT
76743685 TGTTCAATTTTTTTTCCTAAATT
1 TGTTCAATTTTTTTTCCTAAATT
76743708 T-TTCA
1 TGTTCA
76743713 TATATATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.61
Consensus pattern (23 bp):
TGTTCAATTTTTTTTCCTAAATT
Found at i:76750758 original size:18 final size:19
Alignment explanation
Indices: 76750732--76750768 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
76750722 CCCACCTTCT
*
76750732 CTTTCCTCCTCCCC-CCTC
1 CTTTACTCCTCCCCTCCTC
76750750 CTTTACTCCTCCCCTCCTC
1 CTTTACTCCTCCCCTCCTC
76750769 TTTCACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.62, G:0.00, T:0.35
Consensus pattern (19 bp):
CTTTACTCCTCCCCTCCTC
Found at i:76750771 original size:18 final size:17
Alignment explanation
Indices: 76750730--76750771 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
76750720 CACCCACCTT
*
76750730 CTCTTTCCTCCTCCCCC
1 CTCTTTACTCCTCCCCC
76750747 CTCCTTTACTCCTCCCCTC
1 CT-CTTTACTCCTCCCC-C
76750766 CTCTTT
1 CTCTTT
76750772 CACCAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (17 bp):
CTCTTTACTCCTCCCCC
Found at i:76753609 original size:32 final size:32
Alignment explanation
Indices: 76753573--76753636 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
76753563 TGTTCTCCAT
76753573 ATTATACCGAGAGCTTTGTCGAGCAACGCAAC
1 ATTATACCGAGAGCTTTGTCGAGCAACGCAAC
76753605 ATTATACCGAGAGCTTTGTCGAGCAACGCAAC
1 ATTATACCGAGAGCTTTGTCGAGCAACGCAAC
76753637 CGAATAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (32 bp):
ATTATACCGAGAGCTTTGTCGAGCAACGCAAC
Found at i:76760483 original size:46 final size:46
Alignment explanation
Indices: 76760430--76760605 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
76760420 TATTTGGGCA
* *
76760430 TCCGAACTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
*
76760476 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGAT-ATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGAGAA-T--G
* * *
76760521 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
* *
76760569 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76760606 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 1 0.01
46 65 0.59
47 29 0.26
48 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
Found at i:76760585 original size:93 final size:93
Alignment explanation
Indices: 76760426--76760598 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
76760416 AGGATATTTG
* * *
76760426 GGCATCCGAACTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAG
76760491 TTGAGTCCGAGTTCAAGAGATATAACTA
66 TTGAGTCCGAGTTCAAGAGATATAACTA
* * *
76760519 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAG
76760584 TTGAGTCCGAGTTCA
66 TTGAGTCCGAGTTCA
76760599 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATATAACTA
Found at i:76766017 original size:21 final size:22
Alignment explanation
Indices: 76765973--76766023 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
76765963 TTACCTGCAT
76765973 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-TGAACTTA
* *
76765996 TTAAACACATTTAA-GCACTTA
1 TTAAACACATTAAATGAACTTA
*
76766017 TTGAACA
1 TTAAACA
76766024 TGCACTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (22 bp):
TTAAACACATTAAATGAACTTA
Found at i:76767036 original size:17 final size:17
Alignment explanation
Indices: 76767011--76767049 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
76767001 GAACACTTTC
* *
76767011 AAAATACCAAAAACCTT
1 AAAAAACCAAAAACCCT
76767028 AAAAAACCAAAAACCCT
1 AAAAAACCAAAAACCCT
76767045 AAAAA
1 AAAAA
76767050 CCTTAACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAACCAAAAACCCT
Found at i:76767954 original size:27 final size:27
Alignment explanation
Indices: 76767920--76767974 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
76767910 ATTAAAATGA
* *
76767920 TTTATTATGTAAAATTGTAAGTTAAAT
1 TTTATTATGTAAAAATATAAGTTAAAT
76767947 TTTATTATGTAAAAATATAAGTTAAAT
1 TTTATTATGTAAAAATATAAGTTAAAT
76767974 T
1 T
76767975 ATTGAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (27 bp):
TTTATTATGTAAAAATATAAGTTAAAT
Found at i:76768176 original size:26 final size:26
Alignment explanation
Indices: 76768147--76768200 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
76768137 CAAATTACAA
76768147 AATAAAACATTTATCTTAATTTAGTC
1 AATAAAACATTTATCTTAATTTAGTC
76768173 AATAAAACATTTATCTTAATTTAGTC
1 AATAAAACATTTATCTTAATTTAGTC
76768199 AA
1 AA
76768201 AAATTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (26 bp):
AATAAAACATTTATCTTAATTTAGTC
Found at i:76772713 original size:25 final size:25
Alignment explanation
Indices: 76772684--76772738 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
76772674 GATCAATCGT
* *
76772684 TTCATCAAGTAAATTTAGTCATGTA
1 TTCATCAAGTAAATTCAATCATGTA
76772709 TTCATCAAGTAAATTCAATCATGTA
1 TTCATCAAGTAAATTCAATCATGTA
76772734 TTCAT
1 TTCAT
76772739 AACTTGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (25 bp):
TTCATCAAGTAAATTCAATCATGTA
Found at i:76773182 original size:35 final size:35
Alignment explanation
Indices: 76773136--76773204 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
76773126 GCAATATAAA
76773136 TATATTGCAAGACATTCAGTCAATATATTGTTTAT
1 TATATTGCAAGACATTCAGTCAATATATTGTTTAT
76773171 TATATTGCAAGACATTCAGTCAATATATTGTTTA
1 TATATTGCAAGACATTCAGTCAATATATTGTTTA
76773205 CTTTTTTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (35 bp):
TATATTGCAAGACATTCAGTCAATATATTGTTTAT
Found at i:76774243 original size:18 final size:18
Alignment explanation
Indices: 76774220--76774254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76774210 TCGTCATCCT
* *
76774220 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
76774238 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
76774255 CTGACTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:76775812 original size:15 final size:15
Alignment explanation
Indices: 76775792--76775820 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
76775782 ATGCCTCACA
76775792 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
76775807 CACCGTGTTATCAA
1 CACCGTGTTATCAA
76775821 GAAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:76784832 original size:20 final size:20
Alignment explanation
Indices: 76784779--76784830 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
76784769 AATTGGGCCT
*
76784779 CGAGAACCCGAAA-CTGAGAC
1 CGAGAACCCAAAATC-GAGAC
76784799 CGAGAACCCAAAATCGAGAC
1 CGAGAACCCAAAATCGAGAC
*
76784819 TGAG-ACCCAAAA
1 CGAGAACCCAAAA
76784831 ATTGGTCGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.28
20 20 0.69
21 1 0.03
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (20 bp):
CGAGAACCCAAAATCGAGAC
Found at i:76785148 original size:61 final size:58
Alignment explanation
Indices: 76785076--76785208 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 58
76785066 TTCAAAATTA
** *
76785076 ATATTATTTTAATAGTTTTAATATTAAATTAAATTTAATATTTATCTTTTAAATAAGTATT
1 ATATTATTTTAATAAATTTAATATTAAATTAAATCTAATATTTATC--TT-AATAAGTATT
* * * *
76785137 TTATTAATTTAATAAATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATT
1 ATATTATTTTAATAAATTTAATATTAAATTAAATCTAATATTTATCTTAATAAGTATT
76785195 ATATTATTTTAATA
1 ATATTATTTTAATA
76785209 TTAAAGTGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 21 0.33
59 2 0.03
61 40 0.63
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (58 bp):
ATATTATTTTAATAAATTTAATATTAAATTAAATCTAATATTTATCTTAATAAGTATT
Found at i:76792108 original size:43 final size:43
Alignment explanation
Indices: 76792061--76792163 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
76792051 CGAGATAGAG
* **
76792061 TCTTACAAGAAATCATAATACGATGCCAATGTCCCAGACATGT
1 TCTTACAAGAAATCACAATAAAATGCCAATGTCCCAGACATGT
* * * *
76792104 TCTTACATGTAATCACAATAAAATGCCAATGTCCTAGACATGG
1 TCTTACAAGAAATCACAATAAAATGCCAATGTCCCAGACATGT
* * *
76792147 TGTTACATGTAATCACA
1 TCTTACAAGAAATCACA
76792164 TCTCAATAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (43 bp):
TCTTACAAGAAATCACAATAAAATGCCAATGTCCCAGACATGT
Found at i:76798926 original size:27 final size:27
Alignment explanation
Indices: 76798896--76798949 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
76798886 CATCTCTATC
*
76798896 GTTAATGCAGGCAAAGTCCTTTGTTAA
1 GTTAATGCAGGAAAAGTCCTTTGTTAA
76798923 GTTAATGCAGGAAAAGTCCTTTGTTAA
1 GTTAATGCAGGAAAAGTCCTTTGTTAA
76798950 CTTTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (27 bp):
GTTAATGCAGGAAAAGTCCTTTGTTAA
Found at i:76805490 original size:3 final size:3
Alignment explanation
Indices: 76805484--76805533 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
76805474 TTTTACATAA
* * *
76805484 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-A ATT -TT AAT ATG ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
76805530 ATT A
1 ATT A
76805534 AATATAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:76807477 original size:16 final size:17
Alignment explanation
Indices: 76807447--76807487 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
76807437 AAAATAGTTT
*
76807447 ATATTATAATTAAATTA
1 ATATTATAATAAAATTA
76807464 ATATT-TAATAAAATTA
1 ATATTATAATAAAATTA
76807480 AT-TTATAA
1 ATATTATAA
76807488 AATATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 5 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTATAATAAAATTA
Found at i:76807812 original size:25 final size:28
Alignment explanation
Indices: 76807780--76807834 Score: 89
Period size: 25 Copynumber: 2.1 Consensus size: 28
76807770 TTATAAAAAC
76807780 TAATAAATTAGTA-A-AAA-TATTTTTT
1 TAATAAATTAGTATACAAATTATTTTTT
76807805 TAATAAATTAGTATACAAATTATTTTTT
1 TAATAAATTAGTATACAAATTATTTTTT
76807833 TA
1 TA
76807835 TATTTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 13 0.48
26 1 0.04
27 3 0.11
28 10 0.37
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATAAATTAGTATACAAATTATTTTTT
Found at i:76811066 original size:26 final size:26
Alignment explanation
Indices: 76811029--76811112 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
76811019 TGATACAAAT
* *
76811029 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76811055 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76811081 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76811107 TGATAA
1 TGATAA
76811113 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:76812630 original size:26 final size:26
Alignment explanation
Indices: 76812601--76812653 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
76812591 TTTACAGTTT
*
76812601 TACCCCTAGGAGGTAAATT-ACCGAAA
1 TACCCATAGG-GGTAAATTGACCGAAA
* *
76812627 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGGTAAATTGACCGAAA
76812653 T
1 T
76812654 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGGTAAATTGACCGAAA
Found at i:76814341 original size:19 final size:19
Alignment explanation
Indices: 76814300--76814341 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
76814290 CAAACTCTTA
*
76814300 AAATGATAACCAAAAATAT
1 AAATGATAACCAAAAATAC
*
76814319 AAATGA-AACCATAAATTAC
1 AAATGATAACCA-AAAATAC
76814338 AAAT
1 AAAT
76814342 TTTAAACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATGATAACCAAAAATAC
Found at i:76814537 original size:24 final size:24
Alignment explanation
Indices: 76814510--76814564 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
76814500 ATATGCACAG
76814510 TCAGATACAAAT-ACAAATTCAGTT
1 TCAGATACAAATAACAAATTCAG-T
* * *
76814534 TCAGATTCAGATAACAGATTCAGT
1 TCAGATACAAATAACAAATTCAGT
76814558 TCAGATA
1 TCAGATA
76814565 TGCAGAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (24 bp):
TCAGATACAAATAACAAATTCAGT
Found at i:76815103 original size:32 final size:32
Alignment explanation
Indices: 76815062--76815131 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
76815052 TGGCCTAAAA
* *
76815062 TCCACACGCACAATACGGCCTAGCCCGTGTGG
1 TCCACACGCACAACACGGCCTAGCCCGCGTGG
* *
76815094 TCCACACGCACAACATGGCCTAGCTCGCGTGG
1 TCCACACGCACAACACGGCCTAGCCCGCGTGG
*
76815126 CCCACA
1 TCCACA
76815132 TGGCCACACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (32 bp):
TCCACACGCACAACACGGCCTAGCCCGCGTGG
Found at i:76816854 original size:43 final size:42
Alignment explanation
Indices: 76816786--76816928 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
76816776 CGGTTTAACC
*
76816786 GATGATGCACTTATGTGCCAATATATTTGCTTTGATTTATCT
1 GATGATGCACTTATGTGCCAGTATATTTGCTTTGATTTATCT
* * *
76816828 AATGATGCAC-TACGTGTGCCAGTATATTTG-TGTCGATTTATTT
1 GATGATGCACTTA--TGTGCCAGTATATTTGCT-TTGATTTATCT
* * * * *
76816871 GATGATACACTTATGTGTCAGTATAATCGCTTTGGTTTATCT
1 GATGATGCACTTATGTGCCAGTATATTTGCTTTGATTTATCT
76816913 GATGATGCAC-TATGTG
1 GATGATGCACTTATGTG
76816929 TGCCAATTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
41 8 0.10
42 40 0.48
43 33 0.40
44 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (42 bp):
GATGATGCACTTATGTGCCAGTATATTTGCTTTGATTTATCT
Found at i:76831479 original size:45 final size:44
Alignment explanation
Indices: 76831419--76831534 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
76831409 CCTAAACAAT
* *
76831419 AATCAGTATCAGTAACAGTAACAATATTCAACACACAACGTG-CTG
1 AATC-GTAACAGTAACAGTAACAATATTCAACACACAAAGTGTC-G
* * *
76831464 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCG
1 AATC-GTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCG
* *
76831509 AATCGATAATAGTAACAGGAACAATA
1 AATCG-TAACAGTAACAGTAACAATA
76831535 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (44 bp):
AATCGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCG
Found at i:76831796 original size:40 final size:40
Alignment explanation
Indices: 76831747--76831832 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
76831737 ATTCATTTCA
* * **
76831747 TCAGAAATTTTACAGTTCAATACAGTATACGTAACAATAT
1 TCAGTAATTTCACAGTTCAATACAGTATACAAAACAATAT
* * *
76831787 TCAGTAATTTCACAGTTCAATACGGTATTCAAAATAATAT
1 TCAGTAATTTCACAGTTCAATACAGTATACAAAACAATAT
76831827 TCAGTA
1 TCAGTA
76831833 TTCCATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (40 bp):
TCAGTAATTTCACAGTTCAATACAGTATACAAAACAATAT
Found at i:76832632 original size:5 final size:5
Alignment explanation
Indices: 76832622--76832747 Score: 238
Period size: 5 Copynumber: 25.6 Consensus size: 5
76832612 TTTCTTTTAT
76832622 ATATA ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
76832670 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
76832720 ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
76832748 ATATACTTAA
Statistics
Matches: 119, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 115 0.97
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:76836303 original size:29 final size:28
Alignment explanation
Indices: 76836270--76836328 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
76836260 ATATATAATT
76836270 AAAAT-ATCAAATCATAAAATTAAAAAAGA
1 AAAATAATC-AATC-TAAAATTAAAAAAGA
*
76836299 AAAATGAATCAATCTAAAATTAATAAAGA
1 AAAAT-AATCAATCTAAAATTAAAAAAGA
76836328 A
1 A
76836329 TCAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 20 0.74
30 4 0.15
31 3 0.11
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (28 bp):
AAAATAATCAATCTAAAATTAAAAAAGA
Found at i:76837138 original size:16 final size:17
Alignment explanation
Indices: 76837117--76837154 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
76837107 TTAAGCCCCC
76837117 ACCC-AAAAAAAACCTA
1 ACCCAAAAAAAAACCTA
76837133 ACCCAAAAAAAAAACCTA
1 ACCC-AAAAAAAAACCTA
76837151 ACCC
1 ACCC
76837155 CCCAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
18 16 0.80
ACGTcount: A:0.61, C:0.34, G:0.00, T:0.05
Consensus pattern (17 bp):
ACCCAAAAAAAAACCTA
Found at i:76839649 original size:12 final size:12
Alignment explanation
Indices: 76839632--76839667 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
76839622 ATTCATTTGA
76839632 CATTCATGCATT
1 CATTCATGCATT
76839644 CATTCATGCATT
1 CATTCATGCATT
*
76839656 CATTCATACATT
1 CATTCATGCATT
76839668 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:76848105 original size:62 final size:63
Alignment explanation
Indices: 76848008--76848130 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 63
76847998 CGTATGTTTC
* *
76848008 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACGCGCTGAGGT-ATTTTAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAAAA
*
76848070 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAA
76848131 TTTCTGTTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 50 0.88
63 7 0.12
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (63 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAAAA
Found at i:76848198 original size:138 final size:138
Alignment explanation
Indices: 76847932--76848203 Score: 361
Period size: 138 Copynumber: 2.0 Consensus size: 138
76847922 GTTTTATTTC
* * ** *
76847932 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTGTCAATTTC
*** * * * *
76847997 TCGTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACGCGCTGAGGTA
66 TCGTATGTCAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAGCACACGCCGAGGTA
76848062 TTTTAAAA
131 TTTTAAAA
*
76848070 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTGTCAATTT
* *
76848134 CT-GT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGAG
65 CTCGTATGTCAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAG--CACACGCCGAG
76848197 GTATTTT
128 GTATTTT
76848204 CAATTTTCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
136 40 0.34
137 2 0.02
138 71 0.61
139 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (138 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTGTCAATTTC
TCGTATGTCAAAAAAATCAACTCATATTGCGAGAAGCGAGTTGAGCCTCAGCACACGCCGAGGTA
TTTTAAAA
Found at i:76848344 original size:75 final size:77
Alignment explanation
Indices: 76848235--76848379 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 77
76848225 CTGCCTTTCA
* * *
76848235 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-GACACGCTGAGGTAATTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGTCACACGCCGAGGTAATTTC
76848298 AATTTCTGTTGT
66 AATTTCTGTTGT
* * *
76848310 AAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAAGTCACACGCCGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGTCACACGCCGAGGTAATTTC
76848375 AATTT
66 AATTT
76848380 TCGTTTTTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 39 0.63
76 2 0.03
77 21 0.34
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (77 bp):
AAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGTCACACGCCGAGGTAATTTC
AATTTCTGTTGT
Found at i:76848395 original size:169 final size:168
Alignment explanation
Indices: 76848066--76848442 Score: 625
Period size: 169 Copynumber: 2.2 Consensus size: 168
76848056 GAGGTATTTT
*
76848066 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAA
1 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
*
76848131 TTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGA
66 TTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGA
76848196 GGTATTTTCAATTTTCATTTTTCAAATTTCTGCCTTTC
131 GGTATTTTCAATTTTCATTTTTCAAATTTCTGCCTTTC
*
76848234 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 -AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*
76848299 ATTTCTGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCA-AGTCACACGC
65 ATTTCTGTTGT-AAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGA-TCACACGC
* *
76848363 CGAGGTATTTTCAATTTTCGTTTTTC-AATTTCTTCCTTTC
128 CGAGGTATTTTCAATTTTCATTTTTCAAATTTCTGCCTTTC
** *
76848403 -AAAAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
76848443 TTTAATTTTT
Statistics
Matches: 197, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
167 37 0.19
169 87 0.44
170 73 0.37
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (168 bp):
AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGA
GGTATTTTCAATTTTCATTTTTCAAATTTCTGCCTTTC
Found at i:76848474 original size:53 final size:53
Alignment explanation
Indices: 76848414--76848611 Score: 177
Period size: 53 Copynumber: 3.5 Consensus size: 53
76848404 AAAAAAATTG
76848414 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * * *
76848467 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGCTAAGGTATTTT-TAGTTTT--AAATT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT-------T-TTAA--T-TTTTGT--TTTTCAAAATC
*
76848529 G
53 A
* *
76848530 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
76848583 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
76848612 CAGGGCACGC
Statistics
Matches: 115, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
51 4 0.03
52 3 0.03
53 60 0.52
55 2 0.02
56 1 0.01
60 1 0.01
61 3 0.03
63 33 0.29
64 4 0.03
65 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:76848573 original size:116 final size:116
Alignment explanation
Indices: 76848408--76848632 Score: 405
Period size: 116 Copynumber: 1.9 Consensus size: 116
76848398 CTTTCAAAAA
*
76848408 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCAT
1 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGGTTTTTCAAAATCAACTCAT
* *
76848473 ATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGCTAAGGTATTTTTAGTTTT
66 ATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTTAGTTTT
*
76848524 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCAACTCAT
1 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGGTTTTTCAAAATCAACTCAT
*
76848589 ATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
66 ATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTT
76848633 CAATTTTTGT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 104 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (116 bp):
AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTGGTTTTTCAAAATCAACTCAT
ATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTTAGTTTT
Found at i:76848680 original size:72 final size:73
Alignment explanation
Indices: 76848563--76848752 Score: 260
Period size: 72 Copynumber: 2.6 Consensus size: 73
76848553 AAGCCTTTTT
* * * * *
76848563 ATTTTGGTTTTTCAA-AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTTTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
*
76848627 TATTTTCA
66 TAATTTCA
* **
76848635 ATTTTTGTGTT-TTAA-TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
1 ATTTTTGT-TTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
76848698 GTAATTTCA
65 GTAATTTCA
*
76848707 ATTTTTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGCGTTGA
1 ATTTTTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
76848753 ACCTTTTAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
71 2 0.02
72 72 0.70
73 29 0.28
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (73 bp):
ATTTTTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
TAATTTCA
Found at i:76849052 original size:55 final size:56
Alignment explanation
Indices: 76848992--76849113 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 56
76848982 TGAGGTATTC
* *
76848992 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTCTGTT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
76849047 TTAATTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTCTGTTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
76849104 TTAATTTCTG
1 TTAATTTCTG
76849114 CGAGAGTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.07
55 11 0.18
56 5 0.08
57 40 0.67
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAATTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:76849118 original size:30 final size:30
Alignment explanation
Indices: 76849082--76849142 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
76849072 CAACTCATAT
76849082 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
76849112 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
76849142 T
1 T
76849143 CTTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:76849161 original size:288 final size:280
Alignment explanation
Indices: 76848538--76849179 Score: 634
Period size: 288 Copynumber: 2.2 Consensus size: 280
76848528 TGACTCATAT
* * * *
76848538 TGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTC-AAAATCAACTCATATTGCTAGAGGTG
1 TGCGAGAGTTGAGTTAAGTCTTTTAATTTT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
* * * * * ** * *
76848602 AGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCG
65 AGTCGAGCCTCAAGCCACGCTGAAGTATTTTCAATTTATGTGTTCAAATTTCAACTCAAACTGCG
* ** *
76848667 AGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTTTGTTTGTCAAGAATCAACTC
130 AGAAGTGAGTCAAGCCTCAGGACACGATGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTC
* *
76848732 ATATTGCGAGAGGTGCGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGA
195 ATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGA
*
76848797 GGTGAGTTGAGCCTCAGGTCA
260 GGTGAGTTGAGCCTAAGGTCA
* ** * * *
76848818 CGCCGAG-GTAT-TTTTAATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGC
1 TG-CGAGAGT-TGAGTTAA-GTC--TTTT-A--ATTTTGTTTTTCAAA-AATCAACTCATATTGC
* * * **
76848881 GAGAGATGAGTCGAGCCTCAAGCCACGCGCTGAAGTATTTTTAGTTTATGT-TTCAAATTTTGAC
57 GAGAGGTGAGTCGAGCCTCAAGCCA--CGCTGAAGTATTTTCAATTTATGTGTTCAAATTTCAAC
* * * * *
76848945 TCAAACTGCGAGAAGTGAGTCAAGCCTTAGGTCACGCTGAGGT-ATTCTTAATTTTTGTTGTTTC
120 TCAAACTGCGAGAAGTGAGTCAAGCCTCAGGACACGATGAGGTAATT-TCAATTTTTGTT-TGTC
* *
76849009 AAAAATCAACTCATGTTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCT-GTTTTTCAAAAAAATT
183 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTC---AAAA-T
* **
76849072 CAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTC-
243 CAACTCATATTGCGAGAGGTGAGTTGAGC---CTAAGGTCA
* *
76849112 TGCGAGAGTTGAGTTGAGTCTTTTAATTTCTCTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
1 TGCGAGAGTTGAGTTAAGTCTTTTAATTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
76849177 AGT
65 AGT
76849180 TGAACCTCCA
Statistics
Matches: 287, Mismatches: 50, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
280 6 0.02
281 6 0.02
283 4 0.01
285 6 0.02
286 6 0.02
287 39 0.14
288 92 0.32
289 73 0.25
290 1 0.00
291 8 0.03
292 29 0.10
293 7 0.02
294 6 0.02
295 4 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (280 bp):
TGCGAGAGTTGAGTTAAGTCTTTTAATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTCGAGCCTCAAGCCACGCTGAAGTATTTTCAATTTATGTGTTCAAATTTCAACTCAAACTGCGA
GAAGTGAGTCAAGCCTCAGGACACGATGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCA
TATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTAAGGTCA
Found at i:76852225 original size:27 final size:26
Alignment explanation
Indices: 76852173--76852225 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
76852163 ATCAAAACAT
* * *
76852173 AATTTTTAATTAAAAAATTTAAATAG
1 AATTTTGAATTAAAAAACTCAAATAG
*
76852199 AATTTTGAATTTAAAAAACTCATATAG
1 AATTTTGAA-TTAAAAAACTCAAATAG
76852226 CCATTGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AATTTTGAATTAAAAAACTCAAATAG
Found at i:76856518 original size:28 final size:26
Alignment explanation
Indices: 76856487--76856550 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
76856477 AATTACTTGA
* **
76856487 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
76856515 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
76856541 ATACCCCTAG
1 ATACCCCTAG
76856551 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:76856738 original size:54 final size:54
Alignment explanation
Indices: 76856655--76856795 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
76856645 AGGAAGCGTC
*
76856655 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTCATCTGGTGGCTCTGCCACATATATCTGTT
76856709 CTGGTGGCTATGCCACAATTATCTCATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTCATCTGGTGGCTCTGCCACATATATCTGTT
* *
76856763 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCT-CATCTGGTG
76856796 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTCATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:76856806 original size:27 final size:27
Alignment explanation
Indices: 76856655--76856813 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
76856645 AGGAAGCGTC
*
76856655 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
76856682 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
76856709 CTGGTGGCTATGCCACAATTATCT-CAT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
76856736 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
76856763 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
76856790 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
76856814 GTAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:76856807 original size:81 final size:80
Alignment explanation
Indices: 76856655--76856812 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 80
76856645 AGGAAGCGTC
*
76856655 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTAT
76856720 GCCACAATTATCTCAT
66 GCCACAA-TATCTCAT
* *
76856736 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-TCTGGTGACT
*
76856799 -TCGTCACAATATCT
64 AT-GCCACAATATCT
76856813 GGTAGCCTCG
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
80 16 0.23
81 54 0.77
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTAT
GCCACAATATCTCAT
Found at i:76857805 original size:23 final size:23
Alignment explanation
Indices: 76857754--76857797 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
76857744 ATGTATGGCA
*
76857754 AAAATA-AAATACATGTGTATTT
1 AAAATATACATACATGTGTATTT
*
76857776 AAAATATACATACATTTGTATT
1 AAAATATACATACATGTGTATT
76857798 ATATATATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (23 bp):
AAAATATACATACATGTGTATTT
Found at i:76857851 original size:17 final size:17
Alignment explanation
Indices: 76857816--76857856 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
76857806 GCATTTACTT
76857816 ATTATATAAGAAATAATA
1 ATTAT-TAAGAAATAATA
76857834 ATTATTAAGATAAT-ATA
1 ATTATTAAGA-AATAATA
76857851 A-TATTA
1 ATTATTA
76857857 TAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 9 0.41
18 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
ATTATTAAGAAATAATA
Found at i:76858689 original size:5 final size:5
Alignment explanation
Indices: 76858674--76858718 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
76858664 TAATTGTAGT
* *
76858674 ATTGAA ATTGA ATTGA GTTGA ATTGA ATTGT ATTGA ATTGGA ATT
1 ATTG-A ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT-GA ATT
76858719 TATGAGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:76858699 original size:15 final size:15
Alignment explanation
Indices: 76858672--76858718 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
76858662 GATAATTGTA
76858672 GTATTGAAATTGAATT
1 GTATTG-AATTGAATT
76858688 G-AGTTGAATTGAATT
1 GTA-TTGAATTGAATT
76858703 GTATTGAATTGGAATT
1 GTATTGAATT-GAATT
76858719 TATGAGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (15 bp):
GTATTGAATTGAATT
Found at i:76861152 original size:14 final size:15
Alignment explanation
Indices: 76861133--76861161 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
76861123 GGTTTAATTA
76861133 TAATTAAAC-TTAAT
1 TAATTAAACATTAAT
76861147 TAATTAAACATTAAT
1 TAATTAAACATTAAT
76861162 CATTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATTAAACATTAAT
Found at i:76862134 original size:18 final size:19
Alignment explanation
Indices: 76862095--76862137 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
76862085 TTTATATTTT
*
76862095 TAAAAAATATTAATTACTA
1 TAAAAAATATTAAGTACTA
76862114 TAAAAAATATT-AGTA-TGA
1 TAAAAAATATTAAGTACT-A
76862132 TAAAAA
1 TAAAAA
76862138 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 10 0.45
19 11 0.50
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAAATATTAAGTACTA
Found at i:76864220 original size:12 final size:12
Alignment explanation
Indices: 76864203--76864228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
76864193 CACTTTTTTT
76864203 AATTAATTACAA
1 AATTAATTACAA
76864215 AATTAATTACAA
1 AATTAATTACAA
76864227 AA
1 AA
76864229 CAACATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTAATTACAA
Found at i:76865330 original size:13 final size:14
Alignment explanation
Indices: 76865295--76865327 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
76865285 GCGAAGATGT
*
76865295 AAAATTTATA-AAA
1 AAAATTTGTACAAA
76865308 AAAATTTGTACAAA
1 AAAATTTGTACAAA
76865322 AAAATT
1 AAAATT
76865328 GTAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (14 bp):
AAAATTTGTACAAA
Found at i:76865859 original size:2 final size:2
Alignment explanation
Indices: 76865854--76865879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76865844 TAGAGTTTAC
76865854 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
76865880 TATTTTCCAT
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:76865925 original size:20 final size:21
Alignment explanation
Indices: 76865896--76865951 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
76865886 CCATTTTTAA
*
76865896 TTTTCTAAATTTATATGTATT
1 TTTTCTAAATTTATATATATT
*
76865917 TTTTC-AAATTTTTATATATT
1 TTTTCTAAATTTATATATATT
76865937 TATTTACTATAATTT
1 T-TTT-CTA-AATTT
76865952 TTTAAGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 14 0.48
21 8 0.28
22 1 0.03
23 1 0.03
24 5 0.17
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTCTAAATTTATATATATT
Found at i:76866812 original size:15 final size:15
Alignment explanation
Indices: 76866784--76866817 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
76866774 ATGAGGATTA
*
76866784 ATTTTATCTTATTTT
1 ATTTTATCTCATTTT
*
76866799 ATTTTCTCTCATTTT
1 ATTTTATCTCATTTT
76866814 ATTT
1 ATTT
76866818 CCATCCAAAC
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:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTATCTCATTTT
Found at i:76867071 original size:14 final size:14
Alignment explanation
Indices: 76867027--76867075 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
76867017 TTCTATGCAC
*
76867027 CAATTAAATCGA-T
1 CAATTAATTCGATT
*
76867040 CAATTGATTCTTGATT
1 CAATTAATTC--GATT
76867056 CAATTAATTCGATT
1 CAATTAATTCGATT
76867070 CAATTA
1 CAATTA
76867076 TAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 8 0.27
14 10 0.33
15 2 0.07
16 10 0.33
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (14 bp):
CAATTAATTCGATT
Found at i:76868235 original size:17 final size:18
Alignment explanation
Indices: 76868213--76868259 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
76868203 TCTCCGTAGA
76868213 GAAATAAAATGTAT-GAT
1 GAAATAAAATGTATCGAT
* * *
76868230 GAAATACAACGTATCTAT
1 GAAATAAAATGTATCGAT
76868248 GAAATAATAATG
1 GAAATAA-AATG
76868260 AATTTAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (18 bp):
GAAATAAAATGTATCGAT
Found at i:76870414 original size:36 final size:36
Alignment explanation
Indices: 76870367--76870439 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
76870357 ACTACAGGTA
*
76870367 TGATTAATCTTTTCGTGGAAAAAAAACCCCCACTAT
1 TGATTAATCTTTTCATGGAAAAAAAACCCCCACTAT
* *
76870403 TGATTGATCTTTTCATGGAAGAAAAACCCCCACTAT
1 TGATTAATCTTTTCATGGAAAAAAAACCCCCACTAT
76870439 T
1 T
76870440 TACTGCTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (36 bp):
TGATTAATCTTTTCATGGAAAAAAAACCCCCACTAT
Found at i:76873670 original size:3 final size:3
Alignment explanation
Indices: 76873662--76873691 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
76873652 AAGCTTAAAA
76873662 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
76873692 TTCAAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:76873759 original size:4 final size:4
Alignment explanation
Indices: 76873750--76873792 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
76873740 AAAACAGCAA
* *
76873750 AAAG AAAG AAAG AAAG AAAG -AAG GAAG GAAG AAAG AAGAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAA
76873793 AAGGATTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
3 3 0.08
4 29 0.81
5 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:76875801 original size:25 final size:25
Alignment explanation
Indices: 76875763--76875822 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
76875753 TTTAAATTTA
* * **
76875763 TTAAATTTATTATTAAATATTATAT
1 TTAATTTTAGTATTAAATAAAATAT
*
76875788 TTAATTTTAGTATTAATTAAAATAT
1 TTAATTTTAGTATTAAATAAAATAT
*
76875813 TTTATTTTAG
1 TTAATTTTAG
76875823 AAAATATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
TTAATTTTAGTATTAAATAAAATAT
Done.