Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 264 of 378
Found at i:79201134 original size:40 final size:41
Alignment explanation
Indices: 79201018--79201158 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
79201008 CAGAGCATTA
79201018 GCTAAAAACCAGAGCATTAGCGGCG-TTTCTGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTT-TGGTAAAACGCC
*
79201059 GCTAAAAACCAGAGCATTAGCGGCGCTTCTGGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
* *
79201100 GCTAAAAACCAAAGCATTA-CGGCGCTTTTTGTAAAACGCC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
*
79201140 GCTAAAAACCATAGCATTA
1 GCTAAAAACCAGAGCATTA
79201159 TTTATATTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
40 37 0.39
41 55 0.59
42 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCC
Found at i:79201446 original size:21 final size:23
Alignment explanation
Indices: 79201420--79201467 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
79201410 TGATTTATGA
79201420 TTTATGGTTC-AAGGGTT-GGGG
1 TTTATGGTTCAAAGGGTTAGGGG
79201441 TTTATGGTTCAAAGGGTTAGGGG
1 TTTATGGTTCAAAGGGTTAGGGG
79201464 TTTA
1 TTTA
79201468 GGCCTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.40
22 7 0.28
23 8 0.32
ACGTcount: A:0.19, C:0.04, G:0.38, T:0.40
Consensus pattern (23 bp):
TTTATGGTTCAAAGGGTTAGGGG
Found at i:79202431 original size:13 final size:13
Alignment explanation
Indices: 79202413--79202445 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
79202403 ATTGGAACCT
*
79202413 CTAAAATTTCCCC
1 CTAAAATCTCCCC
79202426 CTAAAATCTCCCC
1 CTAAAATCTCCCC
79202439 CTAAAAT
1 CTAAAAT
79202446 GGGTATCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (13 bp):
CTAAAATCTCCCC
Found at i:79202494 original size:14 final size:14
Alignment explanation
Indices: 79202475--79202504 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79202465 CTAATTTTTC
*
79202475 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
79202489 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
79202503 CC
1 CC
79202505 TTCCACCATT
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:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:79202591 original size:14 final size:14
Alignment explanation
Indices: 79202572--79202615 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
79202562 ATTTCTTGCT
79202572 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
**
79202586 TCTCTAAATCTCTT
1 TCTCTAAATCTCCA
79202600 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
79202614 TC
1 TC
79202616 CCTTTGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:79205800 original size:22 final size:23
Alignment explanation
Indices: 79205749--79205801 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
79205739 AGAAAACCAT
79205749 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
* *
79205771 TTTA-GGTGTTAAATG-TTATAA
1 TTTATGGTGTTAAATGCTGAAAA
79205792 TTTATGGTGT
1 TTTATGGTGT
79205802 CTGAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:79206819 original size:43 final size:43
Alignment explanation
Indices: 79206722--79206819 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
79206712 TTTTATGACC
* **
79206722 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCCCGGCT
1 TTTAGCGGCGTTTATGGAAAAAGCGTCGCTAAAGGTCCCAACT
** *
79206765 TTTAGTAGCGTTTATGGAAAAAGCGTCGCTAAAGGTCGCAACT
1 TTTAGCGGCGTTTATGGAAAAAGCGTCGCTAAAGGTCCCAACT
79206808 TTTAGCGGCGTT
1 TTTAGCGGCGTT
79206820 CGTAAGAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTATGGAAAAAGCGTCGCTAAAGGTCCCAACT
Found at i:79206964 original size:15 final size:15
Alignment explanation
Indices: 79206944--79206973 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
79206934 TTAAAAAACG
79206944 CCGCTAAAAGTCAGT
1 CCGCTAAAAGTCAGT
79206959 CCGCTAAAAGTCAGT
1 CCGCTAAAAGTCAGT
79206974 TTTGCTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
CCGCTAAAAGTCAGT
Found at i:79218719 original size:24 final size:25
Alignment explanation
Indices: 79218677--79218738 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
79218667 AATTGTATAG
*
79218677 TATTTATAATAAATTATTTCTATTAAT
1 TATTTATATTAAA--ATTTCTATTAAT
* *
79218704 TTTTTA-ATTAAAATTTTTATTAAT
1 TATTTATATTAAAATTTCTATTAAT
79218728 TATTTATATTA
1 TATTTATATTA
79218739 CAGTAAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 16 0.53
25 4 0.13
26 5 0.17
27 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTATATTAAAATTTCTATTAAT
Found at i:79218732 original size:13 final size:13
Alignment explanation
Indices: 79218688--79218738 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
79218678 ATTTATAATA
*
79218688 AATTATTTCTATT
1 AATTATTTTTATT
*
79218701 AATT-TTTTAATT
1 AATTATTTTTATT
*
79218713 AA-AATTTTTATT
1 AATTATTTTTATT
*
79218725 AATTATTTATATT
1 AATTATTTTTATT
79218738 A
1 A
79218739 CAGTAAGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATTTTTATT
Found at i:79221072 original size:41 final size:41
Alignment explanation
Indices: 79220999--79221080 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
79220989 AACAAAGACA
79220999 ATTCAATTATACATCTGCCACATTTGGATGAATCTAATTAT
1 ATTCAATTATACATCTGCCACATTTGGATGAATCTAATTAT
* * *
79221040 ATTCAATTATACATTTGGCACTTTTAGG-TGAATCTAATTAT
1 ATTCAATTATACATCTGCCACATTT-GGATGAATCTAATTAT
79221081 GTCTATTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (41 bp):
ATTCAATTATACATCTGCCACATTTGGATGAATCTAATTAT
Found at i:79226657 original size:59 final size:59
Alignment explanation
Indices: 79226594--79226719 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
79226584 GTACTTAGTT
* ** *
79226594 TTTTTTTTGTCCAATTTGATACATAAATTTGACGCTTTTTCGTAATTTGGCATCTAAGC
1 TTTTTTTTGTCCAAATTGATACATAAACGTGACACTTTTTCGTAATTTGGCATCTAAGC
* * * * * * *
79226653 TTTTTTTTGTCTAAATTGGTACTTGAACGTGACACTTTTTCTTTATTTGGTATCTAAGC
1 TTTTTTTTGTCCAAATTGATACATAAACGTGACACTTTTTCGTAATTTGGCATCTAAGC
79226712 TTTTTTTT
1 TTTTTTTT
79226720 TTAGTTCAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.52
Consensus pattern (59 bp):
TTTTTTTTGTCCAAATTGATACATAAACGTGACACTTTTTCGTAATTTGGCATCTAAGC
Found at i:79227234 original size:7 final size:7
Alignment explanation
Indices: 79227222--79227273 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
79227212 TCAAGTTGTT
79227222 TAATAAA
1 TAATAAA
*
79227229 TAATAAG
1 TAATAAA
79227236 TAATAAA
1 TAATAAA
79227243 TAATAAA
1 TAATAAA
79227250 TAATAAA
1 TAATAAA
79227257 TAATAAA
1 TAATAAA
*
79227264 T-TTAAA
1 TAATAAA
79227270 TAAT
1 TAAT
79227274 TATATTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:79227887 original size:1 final size:1
Alignment explanation
Indices: 79227881--79227908 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
79227871 TTGGAAACTT
79227881 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
79227909 GAAACAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:79237962 original size:19 final size:18
Alignment explanation
Indices: 79237918--79237971 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
79237908 CCTGGATAGT
*
79237918 AGAAGAAGAAGAGAAAAAA
1 AGAAGAA-AAGAGAAGAAA
79237937 AGAAGAATAAGAGAAGAAA
1 AGAAGAA-AAGAGAAGAAA
* *
79237956 TGGAGAAAA-AGAAGAA
1 AGAAGAAAAGAGAAGAA
79237972 GAGGAGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 7 0.23
18 2 0.06
19 22 0.71
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.04
Consensus pattern (18 bp):
AGAAGAAAAGAGAAGAAA
Found at i:79237992 original size:28 final size:28
Alignment explanation
Indices: 79237921--79237992 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
79237911 GGATAGTAGA
* *
79237921 AGAAGAAGA-GAAAAAAAGAAGAATAAG
1 AGAAGAAAATGAAAAAAAGAAGAAGAAG
* *
79237948 AGAAG-AAATGGAGAAAAAGAAGAAGAGG
1 AGAAGAAAAT-GAAAAAAAGAAGAAGAAG
79237976 AGAAGAAAATGAAAAAA
1 AGAAGAAAATGAAAAAA
79237993 TGGAAGGAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 5 0.14
28 26 0.70
29 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (28 bp):
AGAAGAAAATGAAAAAAAGAAGAAGAAG
Found at i:79241012 original size:50 final size:49
Alignment explanation
Indices: 79240854--79241168 Score: 188
Period size: 46 Copynumber: 6.7 Consensus size: 49
79240844 TATGATGCCA
* * *
79240854 ATGCCATGTCCCAGACATGGTTTTACACTGGCTCGTTCATCA-A-GT---TG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC--TCA-CATATGTAGCCG
* * * *
79240901 ATGCCACGT-CCAGATATGGTCTTACACT-GACTATCA-AAAT-TGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCACATATGT-A-GCCG
* *
79240949 ACGCCATGTCCCAGACATGGTCTTACACTATCTCTCACATATCCGT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT--GTAGCCG
* * *
79240999 ATGCTATGTCCCAGACATGGTCTTACACT-G---ACACATCTTGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATGTAGCCG
* * *
79241045 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TCA-ATA-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACAT-ATGTAGCCG
* * * * *
79241091 ATGCCATGTCCCAGACATGATTTTACACTGGCTCTCATA-ATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATGTAGCCG
*
79241139 ATG-TATGTCCCAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
79241169 ACACAAATAA
Statistics
Matches: 211, Mismatches: 31, Indels: 53
0.72 0.11 0.18
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 13 0.06
45 17 0.08
46 48 0.23
47 39 0.18
48 32 0.15
49 24 0.11
50 34 0.16
53 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATGTAGCCG
Found at i:79241117 original size:92 final size:93
Alignment explanation
Indices: 79240996--79241165 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 93
79240986 CATATCCGTG
* *
79240996 CCGATGCTATGTCCCAGACATGGTCTTACACTGACACATC-T-TGTAGCCGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGATCTTACACTGACAC-TCATATGTAGCCGATGCATGTCCCAGA
79241059 CATGTCTTACACTGGCTCTCGTCTCAATA
65 CATGTCTTACACTGGCTCTCGTCTCAATA
* * * * *
79241088 CCGATGCCATGTCCCAGACATGATTTTACACTGGCTCTCATAATGTGGCCGATGTATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGATCTTACACTGACACTCAT-ATGTAGCCGATGCATGTCCCAGA
79241153 CATGTCTTACACT
65 CATGTCTTACACT
79241166 AGCACACAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
91 2 0.03
92 33 0.49
94 33 0.49
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGATCTTACACTGACACTCATATGTAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTCTCGTCTCAATA
Found at i:79242546 original size:29 final size:30
Alignment explanation
Indices: 79242513--79242584 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
79242503 ACCTTACATT
79242513 TTGGTCACTCAA-T-TTTAAAAAGTTACAAG
1 TTGGTCACTCAACTATTT-AAAAGTTACAAG
* *
79242542 TTGGTCACTAAACTATTTGAAAGTTACAAG
1 TTGGTCACTCAACTATTTAAAAGTTACAAG
*
79242572 TTGTTCA-TCAACT
1 TTGGTCACTCAACT
79242585 GTAATGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 16 0.43
30 18 0.49
31 3 0.08
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (30 bp):
TTGGTCACTCAACTATTTAAAAGTTACAAG
Found at i:79244593 original size:34 final size:33
Alignment explanation
Indices: 79244542--79244615 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
79244532 GTTCGTAGCT
* *
79244542 AAAATTCAAATCAACTTACCTCAATTAAACATTTG
1 AAAATTAAAATCAACTTACATCAATTAAAC--TTG
* *
79244577 AAAATTAAAAT-AACTTAGATTAATTAAACTTG
1 AAAATTAAAATCAACTTACATCAATTAAACTTG
79244609 AAAATTA
1 AAAATTA
79244616 TTTACGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 10 0.29
34 15 0.43
35 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.32
Consensus pattern (33 bp):
AAAATTAAAATCAACTTACATCAATTAAACTTG
Found at i:79245384 original size:8 final size:8
Alignment explanation
Indices: 79245371--79245401 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
79245361 ATGATTAAGT
79245371 TCAATTTA
1 TCAATTTA
79245379 TCAATTTA
1 TCAATTTA
79245387 TCAATTTA
1 TCAATTTA
79245395 TCAATTT
1 TCAATTT
79245402 TATTTTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTA
Found at i:79247592 original size:20 final size:20
Alignment explanation
Indices: 79247557--79247596 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
79247547 AAGCCATATA
79247557 CAAATAAGCATATCATTCAAAG
1 CAAATAAG-ATATCA-TCAAAG
79247579 CAAATAAG-TATCATCAAA
1 CAAATAAGATATCATCAAA
79247597 TTATTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
22 8 0.44
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (20 bp):
CAAATAAGATATCATCAAAG
Found at i:79250486 original size:41 final size:41
Alignment explanation
Indices: 79250373--79250486 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
79250363 AGGCTCAATG
* * * * *
79250373 CCTAATAATTTACACTAGCAAAAAGCCTACTAGACACAAAG
1 CCTAATAATATACACTGGCACAAAGCCTGCTAGACACAAAA
* * * *
79250414 CCTAATAATATACACCGACACAAAGCATGCTAGGCACAAAA
1 CCTAATAATATACACTGGCACAAAGCCTGCTAGACACAAAA
* *
79250455 CTTGATAATATACACTGGCACAAAGCCTGCTA
1 CCTAATAATATACACTGGCACAAAGCCTGCTA
79250487 ATATTTTCTT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.43, C:0.25, G:0.12, T:0.19
Consensus pattern (41 bp):
CCTAATAATATACACTGGCACAAAGCCTGCTAGACACAAAA
Found at i:79253644 original size:20 final size:20
Alignment explanation
Indices: 79253588--79253655 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
79253578 TTTATTTCTA
*
79253588 TTAATTTAGTCATTTTTATTT
1 TTAATTTAAT-ATTTTTATTT
* *
79253609 TTATTTTAATACTTTTATTT
1 TTAATTTAATATTTTTATTT
* *
79253629 TTAATTTAATTTTTTTAATT
1 TTAATTTAATATTTTTATTT
*
79253649 TTGATTT
1 TTAATTT
79253656 TTCTTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 31 0.79
21 8 0.21
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTAATTTAATATTTTTATTT
Found at i:79256920 original size:20 final size:18
Alignment explanation
Indices: 79256880--79256921 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
79256870 ACCCTAATTT
*
79256880 TCCC-TTTTCTTTTTCTT
1 TCCCTTTTTCTTTTTCTC
79256897 TCCCTTTTTCCTTCTTTCTC
1 TCCCTTTTT-CTT-TTTCTC
79256917 TCCCT
1 TCCCT
79256922 GATAATCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 3 0.14
20 10 0.48
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (18 bp):
TCCCTTTTTCTTTTTCTC
Found at i:79260880 original size:46 final size:44
Alignment explanation
Indices: 79260821--79260935 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
79260811 ACAGGACAGA
* *
79260821 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * *
79260867 ACAGGATTGAGCCATATAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
79260911 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
79260936 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:79260931 original size:44 final size:45
Alignment explanation
Indices: 79260821--79260954 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
79260811 ACAGGACAGA
* * *
79260821 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
79260867 ACAGGATTGAGCCATATAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
79260911 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
79260955 TAGGATATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:79266551 original size:43 final size:42
Alignment explanation
Indices: 79266504--79266587 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
79266494 GGGATCTTAA
*
79266504 ATCGATGCCAATAGCCCA-ACTATGGTCTTACACG-AAATCTCAT
1 ATCGATGCC-ATAGCCCAGA-TATGATCTTACACGTAAA-CTCAT
*
79266547 ATCGATGCCATATCCCAGATATGATCTTACACGTAAACTCA
1 ATCGATGCCATAGCCCAGATATGATCTTACACGTAAACTCA
79266588 AATAACCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 24 0.65
43 13 0.35
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.26
Consensus pattern (42 bp):
ATCGATGCCATAGCCCAGATATGATCTTACACGTAAACTCAT
Found at i:79269546 original size:22 final size:23
Alignment explanation
Indices: 79269521--79269563 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
79269511 TATCCCCACA
*
79269521 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
79269543 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
79269564 GTAGGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:79269641 original size:34 final size:34
Alignment explanation
Indices: 79269602--79269682 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
79269592 TGTACTAAAT
79269602 TGGGCTAAGGCCCACACTAATACTGCTACTG-TAA
1 TGGGCTAAGGCCCACACTAATACTGCTACTGAT-A
* * *
79269636 TGGGCTAAGGCCTACACTGATATTGCTACTGATA
1 TGGGCTAAGGCCCACACTAATACTGCTACTGATA
*
79269670 TGGGCTTAGGCCC
1 TGGGCTAAGGCCC
79269683 TGACTGTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
34 40 0.98
35 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTAATACTGCTACTGATA
Found at i:79271122 original size:42 final size:42
Alignment explanation
Indices: 79271047--79271192 Score: 103
Period size: 42 Copynumber: 3.5 Consensus size: 42
79271037 ATGCCATGTC
* * ** ** *
79271047 CCAGACGTGGTCTTACATGGGATCTCACATCGATGCCATATA
1 CCAGACATGGTATTACATGAAATCTCATTTCGATGACATATA
* * * * * *
79271089 TCAGATATGGTATTATATGAAATCTCATTTCGATTACATGTC
1 CCAGACATGGTATTACATGAAATCTCATTTCGATGACATATA
* ** * * *
79271131 CCAGACATGGTCTTACATGAAATCTCATAACAATGTCATATC
1 CCAGACATGGTATTACATGAAATCTCATTTCGATGACATATA
* *
79271173 CCAGATATGGTCTTACATGA
1 CCAGACATGGTATTACATGA
79271193 TAATACATAC
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
CCAGACATGGTATTACATGAAATCTCATTTCGATGACATATA
Found at i:79279361 original size:45 final size:45
Alignment explanation
Indices: 79279297--79279455 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 45
79279287 GGTGCCTTGG
79279297 TGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAA
* * * * * *
79279342 TGTCTTTCAACCATGGTCTTATTCATTTCCCATCGTGTTTCCATAG
1 TGTCTTTCAACCATGGTCTTATTTA-TTCTCATCTTGATGCCATAA
* * * * *
79279388 TTTCTTTCAACTATGGTCTTATTTCTT-TGATTTGTGATGCCATAA
1 TGTCTTTCAACCATGGTCTTATTTATTCTCATCT-TGATGCCATAA
* * *
79279433 CGTCTTTCAGCTATGGTCTTATT
1 TGTCTTTCAACCATGGTCTTATT
79279456 CGATAGAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
44 2 0.02
45 54 0.59
46 36 0.39
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (45 bp):
TGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAA
Found at i:79279470 original size:45 final size:45
Alignment explanation
Indices: 79279421--79279592 Score: 254
Period size: 45 Copynumber: 3.8 Consensus size: 45
79279411 TCTTTGATTT
*
79279421 GTGATGCCATAACGTCTTTCAGCTATGGTCTTATTCGATAGAATC
1 GTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
79279466 GTGATGCCATAACATCTTTTAGCTATGGTCTTACTCGATAGAATT
1 GTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
79279511 GTGATGCCATAACTTCTTTTAGCTGTGGTCTTACTCGATAGAATC
1 GTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
* * *
79279556 ATGATGCCATAATGTCTTTCAGCTATGGTTTTACTCG
1 GTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCG
79279593 TTTAGTTTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 114 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (45 bp):
GTGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATC
Found at i:79279618 original size:90 final size:90
Alignment explanation
Indices: 79279422--79279629 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
79279412 CTTTGATTTG
* * * *
79279422 TGATGCCATAACGTCTTTCAGCTATGGTCTTATTCGATAGAATCGTGATGCCATAACATCTTTTA
1 TGATGCCATAACTTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTTTCA
*
79279487 GCTATGGTCTTACTCGATAGAATTG
66 GCTATGGTCTTACTCGATAGAATTA
* * **
79279512 TGATGCCATAACTTCTTTTAGCTGTGGTCTTACTCGATAGAATCATGATGCCATAATGTCTTTCA
1 TGATGCCATAACTTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTTTCA
* * *
79279577 GCTATGGTTTTACTCGTTTAG-TTTA
66 GCTATGGTCTTACTCG-ATAGAATTA
* ** *
79279602 TGGTGCCATAGTTTCTTTCAACTATGGT
1 TGATGCCATAACTTCTTTCAGCTATGGT
79279630 ATTATCTATT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 96 0.97
91 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (90 bp):
TGATGCCATAACTTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTTTCA
GCTATGGTCTTACTCGATAGAATTA
Found at i:79280545 original size:15 final size:17
Alignment explanation
Indices: 79280508--79280543 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
79280498 TTTAAGAACC
*
79280508 AAAATGAATATATATAA
1 AAAATAAATATATATAA
79280525 AAAATAAAT-TATATAA
1 AAAATAAATATATATAA
79280541 AAA
1 AAA
79280544 TACGATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATAAATATATATAA
Found at i:79287961 original size:39 final size:38
Alignment explanation
Indices: 79287906--79287993 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 38
79287896 GACTTAATGT
* * *
79287906 CTAGCAGGCCTTGTGCCGGTGATAAATTCATGTTTATAC
1 CTAGCAGG-CTTGTGCCGATAATAAATTCAAGTTTATAC
*
79287945 CTAGCAGGCTTCGTGCCGATAATAAGTTCAAGTTTATAC
1 CTAGCAGGCTT-GTGCCGATAATAAATTCAAGTTTATAC
79287984 CTAGCAGGCT
1 CTAGCAGGCT
79287994 AATTGCCGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 3 0.07
39 41 0.93
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (38 bp):
CTAGCAGGCTTGTGCCGATAATAAATTCAAGTTTATAC
Found at i:79293102 original size:3 final size:3
Alignment explanation
Indices: 79293094--79293147 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
79293084 AGGGTTTTAC
*
79293094 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79293142 TTA TTA
1 TTA TTA
79293148 ATTAAAATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:79293918 original size:4 final size:4
Alignment explanation
Indices: 79293909--79293936 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
79293899 TACACTGTTG
79293909 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
79293937 CACATTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:79302155 original size:15 final size:15
Alignment explanation
Indices: 79302123--79302151 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79302113 ATTTTTTATG
79302123 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
79302138 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
79302152 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:79302402 original size:23 final size:21
Alignment explanation
Indices: 79302350--79302404 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
79302340 ATTCATATTA
79302350 TATAATAAAGGTTAAATATGT
1 TATAATAAAGGTTAAATATGT
* *
79302371 AATTAAATAATATGTTAATATATGT
1 TA-T-AATAA-AGGTTAA-ATATGT
79302396 TATAATAAA
1 TATAATAAA
79302405 ACATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.04
22 2 0.07
23 10 0.37
24 7 0.26
25 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
TATAATAAAGGTTAAATATGT
Found at i:79302696 original size:15 final size:15
Alignment explanation
Indices: 79302676--79302706 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79302666 AAATATGAAA
79302676 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
79302691 GATATGTTTTGTATT
1 GATATGTTTTGGATT
79302706 G
1 G
79302707 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:79304501 original size:2 final size:2
Alignment explanation
Indices: 79304489--79304532 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
79304479 TATTGGTATG
*
79304489 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79304531 AT
1 AT
79304533 GATAAGGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:79310267 original size:24 final size:24
Alignment explanation
Indices: 79310240--79310326 Score: 131
Period size: 24 Copynumber: 3.6 Consensus size: 24
79310230 CTTATTATGT
*
79310240 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
79310264 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
79310288 TCGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
*
79310312 TTGCACACATAGTGC
1 TCGCACACATAGTGC
79310327 ATTTGAGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:79310327 original size:24 final size:24
Alignment explanation
Indices: 79310218--79310329 Score: 122
Period size: 24 Copynumber: 4.7 Consensus size: 24
79310208 ACCGAATGTG
* **
79310218 GCACACATAGTGC-TTATTATGTTC
1 GCACACATAGTGCATTAGTA-AATC
*
79310242 GCACACATAGTGCCA-TAGCAAATC
1 GCACACATAGTG-CATTAGTAAATC
79310266 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAGTAAATC
* *
79310290 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAGTAAATC
79310314 GCACACATAGTGCATT
1 GCACACATAGTGCATT
79310330 TGAGATAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.92
25 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCATTAGTAAATC
Found at i:79318044 original size:24 final size:24
Alignment explanation
Indices: 79318017--79318103 Score: 131
Period size: 24 Copynumber: 3.6 Consensus size: 24
79318007 CTTATTATGT
*
79318017 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
79318041 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
79318065 TCGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
*
79318089 TTGCACACATAGTGC
1 TCGCACACATAGTGC
79318104 ATTTGAGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:79318104 original size:24 final size:24
Alignment explanation
Indices: 79317995--79318106 Score: 122
Period size: 24 Copynumber: 4.7 Consensus size: 24
79317985 ACCGAATGTG
* **
79317995 GCACACATAGTGC-TTATTATGTTC
1 GCACACATAGTGCATTAGTA-AATC
*
79318019 GCACACATAGTGCCA-TAGCAAATC
1 GCACACATAGTG-CATTAGTAAATC
79318043 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAGTAAATC
* *
79318067 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAGTAAATC
79318091 GCACACATAGTGCATT
1 GCACACATAGTGCATT
79318107 TGAGATAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.92
25 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCATTAGTAAATC
Found at i:79322209 original size:40 final size:39
Alignment explanation
Indices: 79322154--79322277 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 39
79322144 TGAATGATAC
* *
79322154 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
79322194 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * * *
79322234 CTGGGCTAAGACCCGAAGGTAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
79322274 CCGG
1 CCGG
79322278 TTAAATCCCA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 68 0.96
41 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:79330274 original size:39 final size:40
Alignment explanation
Indices: 79330178--79330275 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
79330168 TGAATGATAC
* * *
79330178 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATAT
*
79330218 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATAT
*
79330258 -TGGGCTAAGACCCGAAGG
1 CCGGGCTAAGACCCGAAGG
79330276 TAATTGTGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 17 0.33
40 33 0.63
41 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATAT
Found at i:79338159 original size:40 final size:40
Alignment explanation
Indices: 79338104--79338267 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
79338094 TGAATGATAC
* * *
79338104 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
79338144 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
79338184 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
79338224 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
79338264 CCGG
1 CCGG
79338268 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:79339707 original size:17 final size:17
Alignment explanation
Indices: 79339685--79339724 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
79339675 TCAATGGTGG
79339685 AGTACCTTGGTGTCTGT
1 AGTACCTTGGTGTCTGT
79339702 AGTACCTTGGTGTCTGT
1 AGTACCTTGGTGTCTGT
79339719 AGTACC
1 AGTACC
79339725 AAGAGAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (17 bp):
AGTACCTTGGTGTCTGT
Found at i:79342141 original size:21 final size:21
Alignment explanation
Indices: 79342115--79342159 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
79342105 AGTTGAAGCC
79342115 GTACGAAAAGAATTATCCGAT
1 GTACGAAAAGAATTATCCGAT
*
79342136 GTACGATAAGAATTATCCGAT
1 GTACGAAAAGAATTATCCGAT
79342157 GTA
1 GTA
79342160 TGATCTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (21 bp):
GTACGAAAAGAATTATCCGAT
Found at i:79345142 original size:40 final size:40
Alignment explanation
Indices: 79345077--79345168 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
79345067 ACTATTGGTA
* *
79345077 GCACTTAGTGTGCGAATCGACATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAATCGACATAGCTTCGACTATATACG
* * * *
79345117 GCACTTAGTGTGCGATTTGAGATAGCTTCGACTATGTACG
1 GCACTTAGTGTGCGAATCGACATAGCTTCGACTATATACG
79345157 GCACTTAGTGTG
1 GCACTTAGTGTG
79345169 TGAGATATCG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGACATAGCTTCGACTATATACG
Found at i:79345200 original size:28 final size:28
Alignment explanation
Indices: 79345156--79345267 Score: 120
Period size: 28 Copynumber: 4.0 Consensus size: 28
79345146 GACTATGTAC
*
79345156 GGCACTTAGTGTGTGAGATATCGAGTAT
1 GGCACTTAGTGTATGAGATATCGAGTAT
* **
79345184 GACACTTAGTGTATGAGATAGT-GAAAAT
1 GGCACTTAGTGTATGAGATA-TCGAGTAT
79345212 GGCACTTAGTGTGA-GAGATATCGAGTAT
1 GGCACTTAGTGT-ATGAGATATCGAGTAT
* ** *
79345240 GGCACTTAGTATGCGAGATATTGAGTAT
1 GGCACTTAGTGTATGAGATATCGAGTAT
79345268 TCAACTGCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 67 0.96
29 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTATGAGATATCGAGTAT
Found at i:79349212 original size:28 final size:28
Alignment explanation
Indices: 79349164--79349247 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
79349154 ATGTCCTAAA
*
79349164 ATTACATAAATTGCTACTTTTCAGATAAC
1 ATTACAT-AATTGCTACTTTTCAGAGAAC
* *
79349193 ATTACATAATTGCTATTTTTCATAGAAC
1 ATTACATAATTGCTACTTTTCAGAGAAC
* * *
79349221 ATTACATAATTGTTGCTTATCAGAGAA
1 ATTACATAATTGCTACTTTTCAGAGAA
79349248 TATATTCTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 40 0.85
29 7 0.15
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (28 bp):
ATTACATAATTGCTACTTTTCAGAGAAC
Found at i:79349320 original size:23 final size:23
Alignment explanation
Indices: 79349290--79349378 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
79349280 ACTTTTTTTT
* *
79349290 AGAGAATATTCACTGTTCATGGC
1 AGAGAATATTTACTATTCATGGC
* *
79349313 AGAGAATATTTAATGTTCAT-GC
1 AGAGAATATTTACTATTCATGGC
* *
79349335 TAGAGAATATTTACTATTCACGTC
1 -AGAGAATATTTACTATTCATGGC
*
79349359 AAAGAATATTTACTATTCAT
1 AGAGAATATTTACTATTCAT
79349379 TGATTTTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.04
23 53 0.95
24 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (23 bp):
AGAGAATATTTACTATTCATGGC
Found at i:79349378 original size:46 final size:46
Alignment explanation
Indices: 79349289--79349378 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
79349279 AACTTTTTTT
* * * *
79349289 TAGAGAATATTCACTGTTCATGGCAGAGAATATTTAATGTTCATGC
1 TAGAGAATATTCACTATTCACGGCAAAGAATATTTAATATTCATGC
* * *
79349335 TAGAGAATATTTACTATTCACGTCAAAGAATATTTACTATTCAT
1 TAGAGAATATTCACTATTCACGGCAAAGAATATTTAATATTCAT
79349379 TGATTTTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (46 bp):
TAGAGAATATTCACTATTCACGGCAAAGAATATTTAATATTCATGC
Found at i:79349630 original size:13 final size:13
Alignment explanation
Indices: 79349612--79349641 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
79349602 AAACTAGATT
*
79349612 TTAACTAAGTAAA
1 TTAACTAAGAAAA
79349625 TTAACTAAGAAAA
1 TTAACTAAGAAAA
79349638 TTAA
1 TTAA
79349642 AAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:79351105 original size:30 final size:30
Alignment explanation
Indices: 79351047--79351105 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
79351037 ATTTTCAGGC
* **
79351047 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
79351077 CTAGGGGCGAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
79351106 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:79353361 original size:18 final size:18
Alignment explanation
Indices: 79353320--79353380 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
79353310 TCAGTTACAA
* *
79353320 TAAATAGTGCAGAAT-AG
1 TAAACAGTGCAGTATCAG
79353337 TAAACAGTGCAGTATCAG
1 TAAACAGTGCAGTATCAG
* *
79353355 TATACAGTGCAATATCAG
1 TAAACAGTGCAGTATCAG
79353373 TAAACAGT
1 TAAACAGT
79353381 ATGCAAGTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
17 13 0.34
18 25 0.66
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (18 bp):
TAAACAGTGCAGTATCAG
Found at i:79353751 original size:27 final size:26
Alignment explanation
Indices: 79353721--79353809 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
79353711 GACAAAATAG
* *
79353721 TCATTTTACCTTATAATGCAAAAACAA
1 TCATTTTACCTCATAAGGC-AAAACAA
**
79353748 TCATTTTACCTCATAAAGGCAAAACTG
1 TCATTTTACCTCAT-AAGGCAAAACAA
* *
79353775 TCATTTTATCTCATAAGGGTAAAACAA
1 TCATTTTACCTCATAA-GGCAAAACAA
79353802 TCATTTTA
1 TCATTTTA
79353810 TCAATTTGAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.04
27 46 0.88
28 4 0.08
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (26 bp):
TCATTTTACCTCATAAGGCAAAACAA
Found at i:79355213 original size:12 final size:12
Alignment explanation
Indices: 79355198--79355237 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
79355188 TTCCTCCCCT
79355198 AATCTCTCCTAA
1 AATCTCTCCTAA
* *
79355210 AATCCCTCCTCA
1 AATCTCTCCTAA
79355222 AATCTCTCCTAA
1 AATCTCTCCTAA
79355234 AATC
1 AATC
79355238 CCTCAACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.30
Consensus pattern (12 bp):
AATCTCTCCTAA
Found at i:79360383 original size:17 final size:17
Alignment explanation
Indices: 79360361--79360395 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
79360351 CAAGCAAGGT
79360361 GCGAGCAGGGATGGTGC
1 GCGAGCAGGGATGGTGC
* *
79360378 GCGAGCTGGTATGGTGC
1 GCGAGCAGGGATGGTGC
79360395 G
1 G
79360396 TGCAGGGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.51, T:0.17
Consensus pattern (17 bp):
GCGAGCAGGGATGGTGC
Found at i:79360892 original size:16 final size:15
Alignment explanation
Indices: 79360871--79360904 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
79360861 AAAGTTGATA
79360871 ATAATAAATATACATT
1 ATAATAAATATA-ATT
79360887 ATAATAAATATAATT
1 ATAATAAATATAATT
79360902 ATA
1 ATA
79360905 TATTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:79363218 original size:45 final size:44
Alignment explanation
Indices: 79363154--79363326 Score: 195
Period size: 45 Copynumber: 3.8 Consensus size: 44
79363144 TGTAACCCGC
* *
79363154 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTC-CAT
*
79363199 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCC-A--T
* *** * *
79363245 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGCATTC-CAT
*
79363291 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
79363327 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 62 0.58
46 10 0.09
47 26 0.24
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCCAT
Found at i:79363272 original size:92 final size:92
Alignment explanation
Indices: 79363161--79363331 Score: 297
Period size: 92 Copynumber: 1.9 Consensus size: 92
79363151 CGCCCATAAG
* *
79363161 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
79363226 CGAGCTCGGATGCCTAGTTACATCTCT
66 CGAGCTCGGATGCCTAGTTACATCTCT
* *
79363253 CGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
79363318 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
79363332 CAAATATCCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCT
Found at i:79365733 original size:29 final size:29
Alignment explanation
Indices: 79365694--79365781 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
79365684 CAAAGATAAC
*
79365694 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
79365723 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
79365752 AAGATATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
79365782 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:79365752 original size:15 final size:15
Alignment explanation
Indices: 79365694--79365772 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
79365684 CAAAGATAAC
*
79365694 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79365708 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
79365723 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
79365737 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79365752 AAGATATCCAGGATA
1 AAGAAATCCAGAATA
79365767 AAGAAA
1 AAGAAA
79365773 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:79365781 original size:15 final size:15
Alignment explanation
Indices: 79365705--79365781 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
79365695 AGAAAACCGA
79365705 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
79365720 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
79365734 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
79365748 AATAAAGATATCCAGG
1 -ATAAAGAAATCCAAG
*
79365764 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79365779 ATA
1 ATA
79365782 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:79368756 original size:46 final size:47
Alignment explanation
Indices: 79368689--79368865 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 47
79368679 TGTAACCCGC
79368689 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-TCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCGTTCGCAT
* * *
79368735 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT-GCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCG-TTCGCAT
* *** * * *
79368781 ACATCTCTCGAACTCGGACTCAACTCAACGAG-TTGGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATCGTTCGCAT
* *
79368828 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
79368866 GCCCAAATAT
Statistics
Matches: 105, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATCGTTCGCAT
Found at i:79368809 original size:93 final size:93
Alignment explanation
Indices: 79368697--79368868 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
79368687 GCCCATAAGT
* * *
79368697 GAACTCGGACTCAACTCAACGAGCTCGG-TCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TCGGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
79368761 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
79368790 GAACTCGGACTCAACTCAACGAGTTGGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTCGGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
79368855 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
79368869 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCGGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:79381948 original size:40 final size:40
Alignment explanation
Indices: 79381852--79382066 Score: 295
Period size: 40 Copynumber: 5.3 Consensus size: 40
79381842 CGAATGGTAT
* * * * * *
79381852 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
79381893 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
79381933 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
79381973 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
79382013 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
79382053 CCGGGCTATGTCCC
1 CCGGGTTAAGTCCC
79382067 AAAGACAATC
Statistics
Matches: 158, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 134 0.85
41 24 0.15
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:79400062 original size:10 final size:10
Alignment explanation
Indices: 79400047--79400107 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
79400037 ATATTGTTAT
79400047 ACATGATATG
1 ACATGATATG
79400057 ACATGATATG
1 ACATGATATG
79400067 CACATGATATG
1 -ACATGATATG
** *
79400078 TTATGAGATG
1 ACATGATATG
79400088 CACATGATAT-
1 -ACATGATATG
79400098 ACTATGATAT
1 AC-ATGATAT
79400108 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 2 0.05
10 24 0.57
11 16 0.38
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:79400072 original size:21 final size:21
Alignment explanation
Indices: 79400047--79400107 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
79400037 ATATTGTTAT
79400047 ACATGATATGACATGATATGC
1 ACATGATATGACATGATATGC
** *
79400068 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGATATGC
79400089 ACATGATAT-ACTATGATAT
1 ACATGATATGAC-ATGATAT
79400108 ACTCATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (21 bp):
ACATGATATGACATGATATGC
Found at i:79404184 original size:40 final size:40
Alignment explanation
Indices: 79404099--79404249 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
79404089 AATTGAATGA
* * *
79404099 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
79404139 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
79404180 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
79404219 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
79404250 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:79404263 original size:40 final size:40
Alignment explanation
Indices: 79404135--79404265 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
79404125 TATGCTGGAA
* * *
79404135 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
79404175 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
79404215 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
79404255 ATTATATCCGG
1 ATTATATCCGG
79404266 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:79415527 original size:29 final size:29
Alignment explanation
Indices: 79415493--79415624 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
79415483 TACTCGATTT
** * *
79415493 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
79415522 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
79415551 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
79415580 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79415609 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
79415625 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:79423456 original size:29 final size:29
Alignment explanation
Indices: 79423422--79423553 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
79423412 TACTCGATTT
** * *
79423422 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
79423451 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
79423480 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
79423509 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
79423538 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
79423554 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:79427188 original size:40 final size:40
Alignment explanation
Indices: 79427115--79427296 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
79427105 TGAATGATGA
*
79427115 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
79427155 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
79427194 CCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
79427234 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
79427274 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
79427297 CGAACGAGTA
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:79427250 original size:79 final size:81
Alignment explanation
Indices: 79427114--79427296 Score: 259
Period size: 79 Copynumber: 2.3 Consensus size: 81
79427104 TTGAATGATG
*
79427114 ACCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
79427178 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
79427193 TCCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGAT-CCGAAGGCA
79427255 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
*
79427273 ACCGGGCTATGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATT
79427297 CGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 62 0.67
80 29 0.32
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ACCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:79427320 original size:79 final size:79
Alignment explanation
Indices: 79427144--79427331 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
79427134 CTTTGTGCTA
** *
79427144 AGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCC
1 AGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCC
* **
79427208 GAAGGCATTGGTGCG
65 GAAGGCATTCGAACG
* *
79427223 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCC
1 AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CC
79427287 CGAAGGCATTCGAACG
64 CGAAGGCATTCGAACG
* *
79427303 AG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AGTTA-CTAAATCCGGGTTAAATCCCGAAGG
79427332 TACGTGATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 67 0.71
80 24 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCG
AAGGCATTCGAACG
Found at i:79430097 original size:10 final size:10
Alignment explanation
Indices: 79430082--79430142 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
79430072 ATATTGTTAT
79430082 ACATGATATG
1 ACATGATATG
79430092 ACATGATATG
1 ACATGATATG
*
79430102 CAGATGATATG
1 -ACATGATATG
** *
79430113 TTATGAGATG
1 ACATGATATG
79430123 CACATGATATG
1 -ACATGATATG
79430134 -CTATGATAT
1 AC-ATGATAT
79430143 ACTCATTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.59
11 16 0.39
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:79430109 original size:21 final size:20
Alignment explanation
Indices: 79430082--79430158 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
79430072 ATATTGTTAT
79430082 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* * *
79430103 AGATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
79430124 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
79430145 TCATTATATGCATG
1 ACATGATATGCATG
79430159 GGTTGGGTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 3 0.07
21 42 0.93
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:79430247 original size:24 final size:25
Alignment explanation
Indices: 79430190--79430247 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
79430180 AGGAAGTGCG
79430190 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTACC
**
79430214 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTACC
79430238 AAAAGAGGCT
1 AAAAGAGGCT
79430248 AGGGCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTACC
Found at i:79432395 original size:40 final size:39
Alignment explanation
Indices: 79432332--79432435 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
79432322 TAACAACTTA
*
79432332 TCGGCTAAAATGGCACTTAGTGTGC-ATTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTT-GAAACAGCT
* * *
79432371 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGACACAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTTGAAACAGCT
*
79432411 TCGGCTATATAT-GCACTTAGTGTGC
1 TCGGCTA-AAATGGCACTTAGTGTGC
79432436 GAAACATCCA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 21 0.38
40 28 0.51
41 6 0.11
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAACAGCT
Found at i:79432537 original size:28 final size:28
Alignment explanation
Indices: 79432460--79432538 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
79432450 ATCACTAATG
* * *
79432460 GCACTTAGTGTGCGAAACATCCAGAATA
1 GCACATAGTGTGCGAGACATCGAGAATA
* * ** *
79432488 GCACTTAGCGTGCGAGGTATCGAGTATA
1 GCACATAGTGTGCGAGACATCGAGAATA
*
79432516 GTACATAGTGTGCGAGACATCGA
1 GCACATAGTGTGCGAGACATCGA
79432539 AGATACAACA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (28 bp):
GCACATAGTGTGCGAGACATCGAGAATA
Found at i:79435223 original size:50 final size:50
Alignment explanation
Indices: 79435157--79435335 Score: 170
Period size: 50 Copynumber: 3.6 Consensus size: 50
79435147 TGATATTTGT
* *
79435157 CAGTGTAAGACCATGTCTGGGACATGCCATCAGCACGGAA-A-AAGGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CGCAATATAA-GAGAGC
* * * *
79435207 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCAATATAAGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCAATATAAGAGAGC
* * * * ** ***
79435257 CAGTGTAAGACCGTGTATGGGACATGGCATC-GACTCAATATGTG-GTTA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCAATATAAGAGAGC
79435305 CA-TGTAAGACCATGTCTGGGACATGGCATCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCA
79435336 ACTAAATATG
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
47 26 0.24
48 3 0.03
49 13 0.12
50 65 0.60
51 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCGCAATATAAGAGAGC
Found at i:79435325 original size:47 final size:47
Alignment explanation
Indices: 79435210--79435381 Score: 204
Period size: 47 Copynumber: 3.6 Consensus size: 47
79435200 GGAGAGCCAG
* * *
79435210 TGTAAGACCATGTCTGGGATATGGCATCGGCCTCAATATAAGAGAG-T-CA
1 TGTAAGACCATGTCTGGGACATGGCATC-GACTCAATAT--GTG-GTTACA
* *
79435259 GTGTAAGACCGTGTATGGGACATGGCATCGACTCAATATGTGGTTACA
1 -TGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGGTTACA
* *
79435307 TGTAAGACCATGTCTGGGACATGGCATCAACTAAATATGTGGTTACA
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGGTTACA
*
79435354 TGTAAGACCATGTCTAGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACA-TGGCAT
79435382 TGTATTGTGA
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.01
47 66 0.61
48 8 0.07
49 9 0.08
50 25 0.23
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGGTTACA
Found at i:79435434 original size:43 final size:43
Alignment explanation
Indices: 79435354--79435455 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
79435344 TGTGGTTACA
* *
79435354 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGTGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATTTCG
* * * ** *
79435397 TGTAAGACCCTGTGTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTAT-TGTGATTTCG
*
79435440 TGTAAGACCATATCTA
1 TGTAAGACCATGTCTA
79435456 TGGTATGGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATTTCG
Found at i:79441603 original size:50 final size:50
Alignment explanation
Indices: 79441538--79441672 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
79441528 CTTGATATGT
* * * *
79441538 GTCAGTGTAAGACCATGTCTGGAACATGGCATTGACAC-GGAAAGAGGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCGAAAGAAGAGA
* * * *
79441588 G-CTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATATAAGAGA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAAAGAAGAGA
79441638 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGA
79441673 TTCAATATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.03
50 69 0.96
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAAAGAAGAGA
Found at i:79445924 original size:28 final size:28
Alignment explanation
Indices: 79445827--79445940 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 28
79445817 AGCATGGCTG
* *
79445827 CCAG-AACAGATA-TTGTGACAG-AGTCA
1 CCAGAAACAGATATTTGTGGC-GTAGCCA
79445853 CCA-AATACAGATA-TTGTGGCAG-AGCCA
1 CCAGAA-ACAGATATTTGTGGC-GTAGCCA
79445880 CCAG-AACAGATATTTGTGGCGTAGCCA
1 CCAGAAACAGATATTTGTGGCGTAGCCA
* *
79445907 TCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCGTAGCCA
79445935 CCAGAA
1 CCAGAA
79445941 CGCTTCCTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
26 12 0.16
27 38 0.49
28 27 0.35
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCGTAGCCA
Found at i:79447809 original size:27 final size:28
Alignment explanation
Indices: 79447753--79447811 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
79447743 TCAAACAGTC
* * *
79447753 AAAA-CACAGAAATTCCAAAATTCATTG
1 AAAATCACAGAAATCCCAAAAATCATCG
79447780 AAAATCACAGAAATCCCAAAAATC-TCG
1 AAAATCACAGAAATCCCAAAAATCATCG
79447807 AAAAT
1 AAAAT
79447812 TGGGGCGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.19
Consensus pattern (28 bp):
AAAATCACAGAAATCCCAAAAATCATCG
Found at i:79448203 original size:28 final size:28
Alignment explanation
Indices: 79448119--79448204 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 28
79448109 GTAGATTATT
* *
79448119 GAGTATGGTACATAGTGTGCGAAACATC
1 GAGTATGGTACATAGTATGCGAGACATC
* * * * * * **
79448147 CAGAATAGCACTTAGCATGCGAGGTATC
1 GAGTATGGTACATAGTATGCGAGACATC
79448175 GAGTATGGTACATAGTATGCGAGACATC
1 GAGTATGGTACATAGTATGCGAGACATC
79448203 GA
1 GA
79448205 AGATGCAACG
Statistics
Matches: 40, Mismatches: 18, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (28 bp):
GAGTATGGTACATAGTATGCGAGACATC
Found at i:79451312 original size:27 final size:27
Alignment explanation
Indices: 79451206--79451314 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
79451196 CAAGGGCAAA
* * *
79451206 CAGTCATTTTACCCTAC-AGAGGTATGT
1 CAGTAATTTTACACTACAAG-GGTATTT
* *
79451233 CGGTCATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
* * *
79451260 CGGTAATTTTACATTGCAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
*
79451287 CAGTAATTTTATACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
79451314 C
1 C
79451315 GATAATGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 69 0.97
28 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:79451325 original size:27 final size:27
Alignment explanation
Indices: 79451238--79451326 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
79451228 TATGTCGGTC
* *
79451238 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTATACTACAAGGGTATTTCGATA
* * *
79451265 ATTTTACATTGCAAGGGTATTTC-AGTA
1 ATTTTATACTACAAGGGTATTTCGA-TA
79451292 ATTTTATACTACAAGGGTATTTCGATA
1 ATTTTATACTACAAGGGTATTTCGATA
*
79451319 ATGTTATA
1 ATTTTATA
79451327 AATCCGGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTATACTACAAGGGTATTTCGATA
Found at i:79451336 original size:27 final size:27
Alignment explanation
Indices: 79451306--79451592 Score: 169
Period size: 27 Copynumber: 10.6 Consensus size: 27
79451296 TATACTACAA
* *
79451306 GGGTATTTCGATAATGTTATAAATCCG
1 GGGTATTTCGATAATTTTACAAATCCG
*
79451333 GGGTGTTTC-AGTAATTTTACAAAT-CG
1 GGGTATTTCGA-TAATTTTACAAATCCG
* * **
79451359 GGAGTGTTTCGGTAATTTTACAAATCAA
1 GG-GTATTTCGATAATTTTACAAATCCG
79451387 GGGTATTTCGATAATTTTACAAAT-CG
1 GGGTATTTCGATAATTTTACAAATCCG
* *
79451413 AGAGTATTTCGGTAATTTTACAAAT-CG
1 -GGGTATTTCGATAATTTTACAAATCCG
* * * * * ***
79451440 AAGGTGTTTTGGTAATTTTTCAAATAAA
1 -GGGTATTTCGATAATTTTACAAATCCG
* * * * *
79451468 GAGTGTTTTGGTAAATTTACAAAT-CG
1 GGGTATTTCGATAATTTTACAAATCCG
* * * *
79451494 AGGGTGTTTTGGTAATTTTACAAATCGG
1 -GGGTATTTCGATAATTTTACAAATCCG
*
79451522 GGGTATTTC-AGTAATTTTAC-AATCTGG
1 GGGTATTTCGA-TAATTTTACAAATC-CG
*
79451549 GGGTACTTT-GGTAATTTTACAAAT-CG
1 GGGTA-TTTCGATAATTTTACAAATCCG
*
79451575 GGGTTATTTCGGTAATTT
1 GGG-TATTTCGATAATTT
79451593 CTCTTTATTA
Statistics
Matches: 212, Mismatches: 33, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
26 16 0.08
27 187 0.88
28 9 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCCG
Found at i:79451436 original size:54 final size:54
Alignment explanation
Indices: 79451254--79451592 Score: 255
Period size: 54 Copynumber: 6.3 Consensus size: 54
79451244 CACTACAAGG
* * * * *
79451254 GTATTTCGGTAATTTTAC-ATTGCAAGGGTATTTC-AGTAATTTTA-TACTACAAGG
1 GTATTTCGGTAATTTTACAAAT-CAAGGGTATTTCGA-TAATTTTACAAAT-CGAGA
* * * ** * *
79451308 GTATTTCGATAATGTTATAAATCCGGGGTGTTTC-AGTAATTTTACAAATCGGGA
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATCGAGA
*
79451362 GTGTTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGA
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGA
* * **
79451416 GTATTTCGGTAATTTTACAAATCGAAGGTGT-TTT-GGTAATTTTTCAAATAAAGA
1 GTATTTCGGTAATTTTACAAATC-AAGG-GTATTTCGATAATTTTACAAATCGAGA
* * * * * * * * *
79451470 GTGTTTTGGTAAATTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGGGG
1 GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGA
* ** * *
79451524 GTATTTCAGTAATTTTAC-AATCTGGGGGTACTTT-GGTAATTTTACAAATCG-GG
1 GTATTTCGGTAATTTTACAAATC-AAGGGTA-TTTCGATAATTTTACAAATCGAGA
79451577 GTTATTTCGGTAATTT
1 G-TATTTCGGTAATTT
79451593 CTCTTTATTA
Statistics
Matches: 234, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.01
53 13 0.06
54 202 0.86
55 15 0.06
56 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
GTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGA
Found at i:79451559 original size:81 final size:80
Alignment explanation
Indices: 79451305--79451592 Score: 287
Period size: 81 Copynumber: 3.5 Consensus size: 80
79451295 TTATACTACA
* * * * *
79451305 AGGGTATTTCGATAATGTTATAAATCCG-GGGTGTTTCAGTAATTTTACAAATCGGGAGTGTTTC
1 AGGGTATTT-GGTAATTTTACAAAT-CGAGGGTGTTTCGGTAATTTTACAAATCGGGGGTGTTTC
*
79451369 GGTAATTTTACAAATCA
64 GGTAATTTTACAAATCG
* * * ** *
79451386 AGGGTATTTCGATAATTTTACAAATCGAGAGTATTTCGGTAATTTTACAAATCGAAGGTGTTTTG
1 AGGGTATTT-GGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGGGGGTGTTTCG
* *
79451451 GTAATTTTTCAAATAAAG
65 GTAATTTTACAAAT--CG
* * * * *
79451469 AGTGT-TTTGGTAAATTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCGGGGGTATTTCAG
1 AGGGTATTTGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGGGGGTGTTTCGG
79451533 TAATTTTAC-AATCTG
66 TAATTTTACAAATC-G
* *
79451548 GGGGTACTTTGGTAATTTTACAAATCG-GGGTTATTTCGGTAATTT
1 AGGGTA-TTTGGTAATTTTACAAATCGAGGG-TGTTTCGGTAATTT
79451593 CTCTTTATTA
Statistics
Matches: 170, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
79 4 0.02
80 8 0.05
81 151 0.89
82 3 0.02
83 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (80 bp):
AGGGTATTTGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGGGGGTGTTTCGG
TAATTTTACAAATCG
Found at i:79454107 original size:16 final size:16
Alignment explanation
Indices: 79454069--79454108 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
79454059 AAATGCAATT
*
79454069 ATAAAAATAAAAAGTA
1 ATAAAAATAAAAAATA
* *
79454085 GTTAAAATAAAAAATA
1 ATAAAAATAAAAAATA
79454101 ATAAAAAT
1 ATAAAAAT
79454109 TCCACTTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAAATAAAAAATA
Found at i:79461907 original size:40 final size:40
Alignment explanation
Indices: 79461852--79462015 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
79461842 TGAATGATAC
* * *
79461852 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
79461892 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
79461932 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
79461972 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
79462012 CCGG
1 CCGG
79462016 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:79461985 original size:80 final size:80
Alignment explanation
Indices: 79461852--79462029 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
79461842 TGAATGATAC
* * * * * *
79461852 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
79461916 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
79461932 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
79461997 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
79462012 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
79462030 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:79471838 original size:80 final size:80
Alignment explanation
Indices: 79471754--79471902 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
79471744 TATGGTAACC
* * * *
79471754 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
79471818 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
79471834 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
79471899 CCGG
66 CCGG
79471903 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:79471844 original size:40 final size:38
Alignment explanation
Indices: 79471795--79471902 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
79471785 ATCACGATTT
*
79471795 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
79471835 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
79471875 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
79471903 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:79475086 original size:68 final size:65
Alignment explanation
Indices: 79474880--79475101 Score: 218
Period size: 64 Copynumber: 3.4 Consensus size: 65
79474870 CATAATTTTG
* * *
79474880 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
** * * * * * * *
79474943 GCTCTCTTGTTTACATGGTGTCCTTCACCTAGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
79475007 GTA
63 GTA
* *
79475010 GTTCTCTTGT-CTACATGGTGTACACATAGTATGACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
79475074 CGTA
62 CGTA
*
79475078 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
79475102 TCCCGTATTA
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 18 0.14
64 27 0.22
65 1 0.01
66 24 0.19
67 27 0.22
68 27 0.22
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:79475123 original size:68 final size:68
Alignment explanation
Indices: 79474979--79475129 Score: 161
Period size: 68 Copynumber: 2.3 Consensus size: 68
79474969 ACCTAGAACC
* * * * *
79474979 ACACATGCAACCTAGCTACATC-T-A--TCTCGTAGTTCTCTTGTCTACATGGTGTACACATAGT
1 ACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAGT
79475040 ATG
66 ATG
* *
79475043 ACCCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CC
1 ACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACA
*
79475106 GTATT
64 GTATG
*
79475111 ACACATGTGACCTAGCTAC
1 ACACATGCGACCTAGCTAC
79475130 ATACCATCTG
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
64 19 0.27
65 1 0.01
66 1 0.01
68 48 0.68
69 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (68 bp):
ACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAGT
ATG
Found at i:79480062 original size:40 final size:40
Alignment explanation
Indices: 79480007--79480256 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
79479997 AACATTGGAA
79480007 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79480047 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79480087 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79480127 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
79480167 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
79480206 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
79480247 CTATATCCGG
1 ATATATCCGG
79480257 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:79488236 original size:40 final size:40
Alignment explanation
Indices: 79488181--79488430 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
79488171 AACATTGGAA
79488181 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79488221 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79488261 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
79488301 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
79488341 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
79488380 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
79488421 CTATATCCGG
1 ATATATCCGG
79488431 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:79499720 original size:66 final size:66
Alignment explanation
Indices: 79499609--79499737 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
79499599 TTCTTATCCA
* *
79499609 GACAGTTGTCAGGTGTGATGAAAATTCTTGACGCAATCTGAAATTAACCCATGCAGTGACATTGC
1 GACAGTTGTCAGGTGCGATGAAAATTCTGGACGCAATCTGAAATTAACCCATGCAGTGACATTGC
79499674 G
66 G
* * * * *
79499675 GACATTTGTCAGGTGCGGT-AATAATTCTGGATGCAATCTGGAATTAACTCATGCAGTGACATT
1 GACAGTTGTCAGGTGCGATGAA-AATTCTGGACGCAATCTGAAATTAACCCATGCAGTGACATT
79499738 AATGCAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 2 0.04
66 53 0.96
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (66 bp):
GACAGTTGTCAGGTGCGATGAAAATTCTGGACGCAATCTGAAATTAACCCATGCAGTGACATTGC
G
Found at i:79501241 original size:26 final size:26
Alignment explanation
Indices: 79501175--79501241 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
79501165 TACATCATTT
* *
79501175 CTCACATGAGCTATGAAATGGGCTTG
1 CTCACACGAGCTGTGAAATGGGCTTG
79501201 CTCACACGAGCTGTGAAATGGGCTTG
1 CTCACACGAGCTGTGAAATGGGCTTG
*
79501227 CTCACACGAGTTGTG
1 CTCACACGAGCTGTG
79501242 GAGTATCCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGGGCTTG
Found at i:79505730 original size:39 final size:39
Alignment explanation
Indices: 79505638--79505799 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
79505628 TGTGAATGAA
*
79505638 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGG-AAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
79505676 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79505715 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79505754 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
79505794 TGTGCG
1 TGTGCG
79505800 GGTTACCATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 35 0.30
39 63 0.55
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79505815 original size:40 final size:39
Alignment explanation
Indices: 79505638--79505829 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
79505628 TGTGAATGAA
* *
79505638 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGG-AAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79505676 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
79505715 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
79505754 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
79505794 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
79505830 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 35 0.25
39 63 0.46
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79508284 original size:40 final size:40
Alignment explanation
Indices: 79508195--79508402 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
79508185 TCTTCGGAAT
* ** * *
79508195 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *** *
79508234 TTAACACGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
79508274 TTAGCCCGGATATAACAACTCGCACGAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
79508314 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
79508354 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
79508394 TTAGCCCGG
1 TTAGCCCGG
79508403 TATCATTCAA
Statistics
Matches: 142, Mismatches: 25, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:79516301 original size:40 final size:39
Alignment explanation
Indices: 79516252--79516458 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
79516242 TCTTCGGAAT
* *
79516252 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
79516291 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
79516331 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
79516371 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
79516411 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
79516450 TTAGCCCGG
1 TTAGCCCGG
79516459 GTATCATTCA
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 13 0.09
40 131 0.89
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:79518538 original size:32 final size:32
Alignment explanation
Indices: 79518497--79518560 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
79518487 AGAAAGATGT
79518497 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
1 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
*
79518529 TAGATTTGTCTGGTCTGAGAAGTGCCAACATA
1 TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
79518561 GTTTTGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (32 bp):
TAGATTTGTCTAGTCTGAGAAGTGCCAACATA
Found at i:79527327 original size:29 final size:27
Alignment explanation
Indices: 79527282--79527372 Score: 119
Period size: 29 Copynumber: 3.2 Consensus size: 27
79527272 GTGAGCATGA
79527282 ATATAAATGTGAATTGGGCCTGATGGGCC
1 ATATAAATGTG-ATTGGGCCT-ATGGGCC
*
79527311 ATATAAATATGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCT-ATGGGCC
*
79527340 ATACAAATGTGATTGGGCCTAGTGGGCC
1 ATATAAATGTGATTGGGCCTA-TGGGCC
79527368 ATATA
1 ATATA
79527373 CAGGTATTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 19 0.35
29 35 0.64
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (27 bp):
ATATAAATGTGATTGGGCCTATGGGCC
Found at i:79528460 original size:36 final size:36
Alignment explanation
Indices: 79528420--79528493 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
79528410 TAGAAGTAGA
79528420 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
1 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
79528456 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
1 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
79528492 AC
1 AC
79528494 TACGTTTCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (36 bp):
ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
Found at i:79528501 original size:36 final size:36
Alignment explanation
Indices: 79528420--79528502 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
79528410 TAGAAGTAGA
*
79528420 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
1 ACGTCGTTTCCTAAACTATAACTATTTTTTTAAAAT
*
79528456 ACGTGGTTTCCTAAACTATAACTATTTTTTTAAAAT
1 ACGTCGTTTCCTAAACTATAACTATTTTTTTAAAAT
79528492 AC-TACGTTTCC
1 ACGT-CGTTTCC
79528503 GTAACTCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 1 0.02
36 44 0.98
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.43
Consensus pattern (36 bp):
ACGTCGTTTCCTAAACTATAACTATTTTTTTAAAAT
Found at i:79531326 original size:29 final size:28
Alignment explanation
Indices: 79531282--79531370 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 28
79531272 TGAGCATGAC
*
79531282 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
* *
79531311 TATAAATATGATTTGGG-CTTATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
79531339 TACAAATGTGATTGGGCC-AAGTGGGCCA
1 TATAAATGTGATTGGGCCTAA-TGGGCCA
79531367 TATA
1 TATA
79531371 CTGGTACGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 6 0.12
28 31 0.61
29 14 0.27
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:79535438 original size:43 final size:42
Alignment explanation
Indices: 79535349--79535455 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 42
79535339 TGTGATTACA
* *
79535349 TGTAAGACCATGTCTAGGACATTAGCATTGTATTGTAATTATG
1 TGTAAGACCATGTCTGGGACATTAGCATCGTATTG-AATTATG
*
79535392 TGTAAGACCATGTCTGGGACATTAGTATCGTTATATG-ATT-TCG
1 TGTAAGACCATGTCTGGGACATTAGCATCG-TAT-TGAATTAT-G
*
79535435 TGTAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
79535456 GTGCATCAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 1 0.02
43 51 0.89
44 3 0.05
45 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTAGCATCGTATTGAATTATG
Found at i:79549017 original size:48 final size:48
Alignment explanation
Indices: 79548943--79549172 Score: 211
Period size: 48 Copynumber: 4.9 Consensus size: 48
79548933 ACATGGTAGG
* * *
79548943 ATGCCAATGCCATATCCCAGATATGGTTTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * ** * *
79548991 ATGCCAATGCCATGTCCTAGACATGGTCTCACATGGGATCGTAGATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
*
79549039 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * * ** * *
79549087 ATGTCGAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATCG
1 ATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCA
* * * * *
79549130 ATGCCAAAGCCATGTCCCATACGTAGTCCTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
79549173 CATAACCCTA
Statistics
Matches: 144, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.74
49 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
Found at i:79551457 original size:40 final size:40
Alignment explanation
Indices: 79551356--79551570 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
79551346 CGAATGGTAT
* * * * * *
79551356 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
79551397 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
79551437 CTGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
79551477 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
79551517 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
79551557 CCGGGCTATGTCCC
1 CCGGGTTAAGTCCC
79551571 AAGACAATCG
Statistics
Matches: 154, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 130 0.84
41 24 0.16
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Done.