Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 93 of 318
Found at i:30944899 original size:3 final size:3
Alignment explanation
Indices: 30944893--30945099 Score: 102
Period size: 3 Copynumber: 69.0 Consensus size: 3
30944883 ATGAAAACAG
* * * * * *
30944893 TAA TAA TAA TAA TAC TAA TGA TAT TAA TAG TAG TAA TAG TAA -AA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* ** * * **
30944941 TAA TAA TAA TAA TAA TGA TGG CAA TAA TAC TAA TAA T-A TGC TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * *
30944986 TAA TAA TAA TAA TAA -AA CAA TAA TAA TAG TAA TTA CAA -AA GTGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
30945030 TAA TAG TAA TAA -AA TAGGA TGA TAA TAA TAA TGA TGAA -AA TAA AAA
1 TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* *
30945076 TAG TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
30945100 AACCGTAATA
Statistics
Matches: 151, Mismatches: 41, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
2 12 0.08
3 132 0.87
4 5 0.03
5 2 0.01
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:30944975 original size:45 final size:43
Alignment explanation
Indices: 30944881--30945000 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 43
30944871 AATAACATAA
* ** * *
30944881 TAATGAAAACAGTAATAATAATAATACTAATGATATTAATAGTAG
1 TAAT-AAAA-AGTAATAATAATAATAATAATGATAGCAATAATAC
*
30944926 TAATAGTAAAAGTAATAATAATAATAATAATGATGGCAATAATAC
1 TAATA--AAAAGTAATAATAATAATAATAATGATAGCAATAATAC
* *
30944971 TAATAATATGCTAAATAATAATAATAATAA
1 TAATAAAAAG-T-AATAATAATAATAATAA
30945001 AACAATAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.05
44 2 0.03
45 55 0.87
46 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (43 bp):
TAATAAAAAGTAATAATAATAATAATAATGATAGCAATAATAC
Found at i:30945182 original size:25 final size:24
Alignment explanation
Indices: 30945135--30945197 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
30945125 ATAACATGTA
*
30945135 AATAGTAATAATA-ATATATTAAT
1 AATAATAATAATAGATATATTAAT
*
30945158 AATAATAATAATAGTATATGTTAAT
1 AATAATAATAATAG-ATATATTAAT
* *
30945183 AATTACAATAATAGA
1 AATAATAATAATAGA
30945198 AAGTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.35
24 1 0.03
25 21 0.62
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
AATAATAATAATAGATATATTAAT
Found at i:30945268 original size:18 final size:18
Alignment explanation
Indices: 30945247--30945293 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
30945237 GGATAATAAA
*
30945247 AATAACAGTAATAAAAAC
1 AATAATAGTAATAAAAAC
* * *
30945265 AATAATAATAATAAATAT
1 AATAATAGTAATAAAAAC
30945283 AATAATAGTAA
1 AATAATAGTAA
30945294 ATAACTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (18 bp):
AATAATAGTAATAAAAAC
Found at i:30945294 original size:15 final size:15
Alignment explanation
Indices: 30945266--30945296 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30945256 AATAAAAACA
30945266 ATAATAATAATAAAT
1 ATAATAATAATAAAT
*
30945281 ATAATAATAGTAAAT
1 ATAATAATAATAAAT
30945296 A
1 A
30945297 ACTAATTTGA
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:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:30946810 original size:45 final size:46
Alignment explanation
Indices: 30946678--30946846 Score: 234
Period size: 46 Copynumber: 3.7 Consensus size: 46
30946668 CCATAGTGTC
* * * *
30946678 CTTTCAACTACGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGGTAT
* * *
30946724 CTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
*
30946770 CTTTCAACCATGTTCTTA-TCATTTCATATCACGTTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
*
30946815 CTTTCAACCATGGTCTTACACATTTCATATCA
1 CTTTCAACCATGGTCTTACTCATTTCATATCA
30946847 GAGAGCACAC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 46 0.41
46 65 0.59
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTAT
Found at i:30948962 original size:11 final size:11
Alignment explanation
Indices: 30948946--30948970 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30948936 ATACTAAATA
30948946 AAAATAATAAT
1 AAAATAATAAT
30948957 AAAATAATAAT
1 AAAATAATAAT
30948968 AAA
1 AAA
30948971 TATCTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:30949002 original size:28 final size:29
Alignment explanation
Indices: 30948962--30949020 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
30948952 ATAATAAAAT
*
30948962 AATAATAAATATCTTATTAAAT-ATTAATA
1 AATAATAAATATCTAATTAAATAATT-ATA
*
30948991 AATAAT-ATTATCTAATTAAATAATTATA
1 AATAATAAATATCTAATTAAATAATTATA
30949019 AA
1 AA
30949021 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAATAAATATCTAATTAAATAATTATA
Found at i:30951054 original size:15 final size:14
Alignment explanation
Indices: 30951031--30951061 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
30951021 TAAATTAGAA
30951031 AAAATTTAAAATAT
1 AAAATTTAAAATAT
30951045 AAAATGTTAAAATAT
1 AAAAT-TTAAAATAT
30951060 AA
1 AA
30951062 TTTTAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAATTTAAAATAT
Found at i:30958011 original size:22 final size:21
Alignment explanation
Indices: 30957984--30958028 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30957974 TGGGTTCAAG
30957984 TTAAGTTATTTCAG-GTTTGGGT
1 TTAAGTT-TTT-AGTGTTTGGGT
*
30958006 TTAAGTTTTTTGTGTTTGGGT
1 TTAAGTTTTTAGTGTTTGGGT
30958027 TT
1 TT
30958029 TTTTAGGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 13 0.62
22 7 0.33
ACGTcount: A:0.13, C:0.02, G:0.27, T:0.58
Consensus pattern (21 bp):
TTAAGTTTTTAGTGTTTGGGT
Found at i:30965863 original size:1 final size:1
Alignment explanation
Indices: 30965857--30965881 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
30965847 CCGTTTCCCA
30965857 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
30965882 ACCTCTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:30997652 original size:12 final size:12
Alignment explanation
Indices: 30997635--30997660 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30997625 CTAAAAATTT
30997635 TAAATATTTTTA
1 TAAATATTTTTA
30997647 TAAATATTTTTA
1 TAAATATTTTTA
30997659 TA
1 TA
30997661 TCCATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:31007121 original size:22 final size:22
Alignment explanation
Indices: 31007096--31007138 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31007086 TGATTTCAAG
31007096 TTTAAATT-TGTATTAACTATTT
1 TTTAAATTATGT-TTAACTATTT
**
31007118 TTTATTTTATGTTTAACTATT
1 TTTAAATTATGTTTAACTATT
31007139 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTAAATTATGTTTAACTATTT
Found at i:31009579 original size:20 final size:21
Alignment explanation
Indices: 31009556--31009601 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
31009546 TTTGTTTATT
31009556 TTTTTAAAATTTTGT-ATAAA
1 TTTTTAAAATTTTGTAATAAA
* *
31009576 -TTTT-AATTTTTTTAATAAA
1 TTTTTAAAATTTTGTAATAAA
31009595 TTTTTAA
1 TTTTTAA
31009602 GCATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 4 0.19
21 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTAAAATTTTGTAATAAA
Found at i:31012957 original size:39 final size:39
Alignment explanation
Indices: 31012883--31012970 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
31012873 TTACCAGTAC
* *
31012883 AAGCCTGCGGGAATTTAAACCCGGTATAATGCCAGCTCG
1 AAGCCTGCGGGAATTTAAACCCGGCATAATGCCAGCACG
* * * *
31012922 AAGCCTGCGGGACTTT-AGCCCGGACATATTTCCAGCACG
1 AAGCCTGCGGGAATTTAAACCCGG-CATAATGCCAGCACG
*
31012961 TAGCCTGCGG
1 AAGCCTGCGG
31012971 ACCTTAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 6 0.15
39 35 0.85
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.20
Consensus pattern (39 bp):
AAGCCTGCGGGAATTTAAACCCGGCATAATGCCAGCACG
Found at i:31012994 original size:39 final size:39
Alignment explanation
Indices: 31012951--31013064 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
31012941 CCGGACATAT
* *
31012951 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCAGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
*
31012990 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
* * *
31013029 TTCCAGCATATAGCCTGCGGACCCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATA
31013065 AACATTACTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
Found at i:31021395 original size:18 final size:17
Alignment explanation
Indices: 31021352--31021395 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
31021342 AGCTCGGGCC
*
31021352 ATGTAATGTTTTATATT
1 ATGTAATTTTTTATATT
* *
31021369 ATATTATTTTTATATATT
1 ATGTAATTTTT-TATATT
31021387 ATGTAATTT
1 ATGTAATTT
31021396 ATATCACATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (17 bp):
ATGTAATTTTTTATATT
Found at i:31025369 original size:48 final size:47
Alignment explanation
Indices: 31025315--31025407 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
31025305 CTATTTGAGC
* * * *
31025315 TCGAGCTCAATTAAGTTCGTTTA-TCAATTTTTATACTTAAGCTCGAAT
1 TCGAGCTCAATTAAGCTCATTTACT-AAATTTCATAC-TAAGCTCGAAT
31025363 TCGAGCTCAATTAAGCTCATTTACTAAATTTCATACTAAGCTCGA
1 TCGAGCTCAATTAAGCTCATTTACTAAATTTCATACTAAGCTCGA
31025408 GCTCAACTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 9 0.22
48 30 0.75
49 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (47 bp):
TCGAGCTCAATTAAGCTCATTTACTAAATTTCATACTAAGCTCGAAT
Found at i:31028398 original size:23 final size:23
Alignment explanation
Indices: 31028367--31028412 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31028357 AATGGGAATT
*
31028367 TTAACATTTTAAAATCAAAATAA
1 TTAAAATTTTAAAATCAAAATAA
*
31028390 TTAAAATTTTAAAATTAAAATAA
1 TTAAAATTTTAAAATCAAAATAA
31028413 ACAACCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAAATTTTAAAATCAAAATAA
Found at i:31033617 original size:53 final size:53
Alignment explanation
Indices: 31033547--31033666 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
31033537 ATAAGTGTGC
* *
31033547 CCGTTTAAGACCTTAGCTGGGCTATGGCATCGGTACAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATATGACT
* * *
31033600 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATATGACT
*
31033653 CCATATAAGACCAT
1 CCGTATAAGACCAT
31033667 GTTTGGGATA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATATGACT
Found at i:31033686 original size:53 final size:53
Alignment explanation
Indices: 31033552--31033697 Score: 159
Period size: 53 Copynumber: 2.7 Consensus size: 53
31033542 TGTGCCCGTT
* * * * *
31033552 TAAGACCTTAGCTGGGCTATGGCATCGGTACAATGTGATAATATGACTCCGTA
1 TAAGACCATAGCTGGGATATGACATCGGTATAATGTGATAATATGACTCCATA
* * * *
31033605 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCATA
1 TAAGACCATAGCTGGGATATGACATCGGTATAATGTGATAATATGACTCCATA
* *
31033658 TAAGACCAT-GTTTGGGATATGACTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGATATGACATCGGTAT-A-ATGTGA
31033698 ACCGTGTAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 73 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (53 bp):
TAAGACCATAGCTGGGATATGACATCGGTATAATGTGATAATATGACTCCATA
Found at i:31049440 original size:70 final size:70
Alignment explanation
Indices: 31049320--31049450 Score: 226
Period size: 70 Copynumber: 1.9 Consensus size: 70
31049310 GGAAAATCAC
* *
31049320 ATACTTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTAGAATTACTACCAATCTCCA
1 ATACCTCGATGCTCACACAGAGCGACGGTAGTCCACAACATATGTAGAATTACTACCAATCTCCA
31049385 CACTT
66 CACTT
* *
31049390 ATACCTCGATGCTCACACAGAGCGACGGTAGTCCCCAACATATGTGGAATTACTACCAATC
1 ATACCTCGATGCTCACACAGAGCGACGGTAGTCCACAACATATGTAGAATTACTACCAATC
31049451 ACTATATTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (70 bp):
ATACCTCGATGCTCACACAGAGCGACGGTAGTCCACAACATATGTAGAATTACTACCAATCTCCA
CACTT
Found at i:31052929 original size:39 final size:39
Alignment explanation
Indices: 31052874--31053129 Score: 354
Period size: 39 Copynumber: 6.6 Consensus size: 39
31052864 TTCCAACCCA
* * *
31052874 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
31052913 AATGCCTTCGGGACTTAGCCTGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
31052952 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
31052991 AATGCCTTCGGGACTTAACCCGAATATAATATTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
31053030 AATGCCTTCGGGACTTAGCCCGTATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
31053069 AATGCCTTTGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
31053107 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
31053130 TTAAAATCCT
Statistics
Matches: 194, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
38 19 0.10
39 169 0.87
40 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:31056256 original size:6 final size:6
Alignment explanation
Indices: 31056241--31056273 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
31056231 GTACTTTGTG
*
31056241 TACTGC TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
31056274 CCTAACGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:31057378 original size:27 final size:27
Alignment explanation
Indices: 31057334--31057674 Score: 80
Period size: 27 Copynumber: 12.6 Consensus size: 27
31057324 TTAGTTTACC
* * *
31057334 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* *
31057361 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* *** *
31057388 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* **** ** *
31057415 GAATTACCGTTTTTTCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* *** * * *
31057442 GAATTACCATTTTACCATCAGTTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* * **** * *
31057469 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* *** * *
31057496 GAATTACCATTTTACCCTCGA-TTAGAA
1 AAATTACCAAAATACCCTCAATTTA-TA
* *
31057523 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
* * *
31057550 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTC-AATTTATA
* * *
31057577 AAATTACCAAAATACTCCT-GATTTGTG
1 AAATTACCAAAATAC-CCTCAATTTATA
*** * * * * *
31057604 AAATTATTGATATACCATCGACTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
** *
31057631 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
31057658 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
31057675 CTGTAGGGTA
Statistics
Matches: 255, Mismatches: 52, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
26 7 0.03
27 244 0.96
28 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTATA
Found at i:31057420 original size:54 final size:54
Alignment explanation
Indices: 31057373--31057518 Score: 222
Period size: 54 Copynumber: 2.7 Consensus size: 54
31057363 ATTACCAAAG
31057373 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
** * * *
31057427 TTTCCTCGATTTATAGAATTACCATTTTACCATC-AGTTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTATAGAATTACCGTTT
*
31057481 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
31057519 AGAAAAATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
Found at i:31057528 original size:81 final size:81
Alignment explanation
Indices: 31057382--31057531 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
31057372 GTACCCTCGA
* * * ** * *
31057382 TTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTTTCCTCGATTTATAGAATT
1 TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATT
31057447 ACCATTTTACCATCAG
66 ACCATTTTACCATCAG
* *
31057463 TTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTAGAAAAAT
1 TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA-AAAAAT
31057527 TACCA
65 TACCA
31057532 AAATACCCCT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.05
81 56 0.95
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATT
ACCATTTTACCATCAG
Found at i:31057539 original size:54 final size:53
Alignment explanation
Indices: 31057360--31057539 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 53
31057350 CTCAATTTGT
* *
31057360 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTAA
* *** ** * * *
31057414 AGAATTACCGTTTTTTCCTCGATTTATAGAATTACCATTTTACCATCAGTTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTC-GATTAA
* * *** *
31057468 AGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTAGA
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTA-A
*
31057522 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
31057540 CTAGTTTGTA
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
53 4 0.04
54 96 0.95
55 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (53 bp):
AAAATTACCAAATTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTAA
Found at i:31057555 original size:54 final size:52
Alignment explanation
Indices: 31057497--31057666 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 52
31057487 CGATTTACAG
* *
31057497 AATTACCATTTTACCCTCGA-TTAGAAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCA-TATACCCTCGACTT-GTAAAATTACCAAAATACCCCT-GTTTGTAA
* * * * * *
31057551 AATTACCAAAATACCC-CTAGTTTGTGAAATTACCAAAATACTCCTGATTTGTGA
1 AATTACC-ATATACCCTCGA-CTTGTAAAATTACCAAAATACCCCTG-TTTGTAA
** *
31057605 AATTATTGATATACCATCGACTTGTAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTA-CCATATACCCTCGACTTGTAAAATTACCAAAATACCCCT-GTTTGTAA
31057659 AATTACCA
1 AATTACCA
31057667 AAATACCCCT
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
53 4 0.04
54 81 0.89
55 6 0.07
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (52 bp):
AATTACCATATACCCTCGACTTGTAAAATTACCAAAATACCCCTGTTTGTAA
Found at i:31057555 original size:81 final size:80
Alignment explanation
Indices: 31057360--31057558 Score: 202
Period size: 81 Copynumber: 2.5 Consensus size: 80
31057350 CTCAATTTGT
* * * *
31057360 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTAG-TTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCAT
** *
31057425 TTTTTCCTCGATTTAT
65 TTTACCCTCGATTTAA
* *** * * * *
31057441 AGAATTACCATTTTACCATCAGTTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCT-AGTTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCAT
31057506 TTTACCCTCGA-TTAGA
65 TTTACCCTCGATTTA-A
* *
31057522 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATA-CCCTAGTTTATAGAATTACCA
31057559 AAATACCCCT
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
80 3 0.03
81 84 0.92
82 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTAGTTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATT
TTACCCTCGATTTAA
Found at i:31057608 original size:81 final size:81
Alignment explanation
Indices: 31057523--31057677 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 81
31057513 TCGATTAGAA
* * *
31057523 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTAGTTTGTGAAATTACCAA
1 AAATTACCAAAATA-CCATAGACTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
31057587 AATACTCCTGATTTGTG
65 AATACCCCTGATTTGTG
*** * * *
31057604 AAATTATTGATATACCATCGACTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCATAGACTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
31057669 ATACCCCTG
66 ATACCCCTG
31057678 TAGGGTAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.06
81 59 0.94
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCATAGACTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTGATTTGTG
Found at i:31057675 original size:27 final size:27
Alignment explanation
Indices: 31057522--31057677 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
31057512 CTCGATTAGA
*
31057522 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
31057549 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
31057576 GAAATTACCAAAATACTCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *** * * **
31057603 GAAATTATTGATATA-CCATCGACTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
31057630 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
31057657 AAAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
31057678 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 103 0.95
28 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:31057689 original size:27 final size:27
Alignment explanation
Indices: 31057632--31057828 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
31057622 CGACTTGTAA
** *
31057632 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
31057659 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
31057686 AATTACCGAAATAACCCTCTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
31057713 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
31057740 AAATATCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
31057767 AAATATCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
31057794 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
31057821 AATTACCA
1 AATTACCA
31057829 TTTTGCCCCT
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 144 0.99
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:31057690 original size:54 final size:54
Alignment explanation
Indices: 31057524--31057809 Score: 194
Period size: 54 Copynumber: 5.3 Consensus size: 54
31057514 CGATTAGAAA
* **
31057524 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGT-TTGT-G
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GTAGGGTAG
* * * *** * * ** *
31057577 AAATTACCAAAATACTCCTGATTTGTGAAATTATTGATATA-CCATCG-ACTTGTAA
1 -AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GTA-GGGTAG
31057632 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
31057686 AATTACCGAAATAACCCTCTAGG---GTAGAATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAAT-ACCC-CT-GGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * ** *
31057740 AAATATCAAAATACCCCT-GTAGGGTAGAAA-TATCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGGT-TTGTA-AAATTACCAAAATACCCCTGTAGGGTAG
* *
31057794 AATTACCGAGATACCC
1 AATTACCAAAATACCC
31057810 TTGTGGGGTA
Statistics
Matches: 180, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
50 1 0.01
52 2 0.01
53 8 0.04
54 155 0.86
55 10 0.06
56 2 0.01
57 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:31057810 original size:81 final size:80
Alignment explanation
Indices: 31057655--31057823 Score: 239
Period size: 81 Copynumber: 2.1 Consensus size: 80
31057645 CCCCTGGTTT
* * *
31057655 GTAAAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATAACCCTCTAGGGTAGAATGACC
1 GTAAAA-TATCAAAATACCCCTGTAGGGTAGAAATACCAAAATAACCCTCTAGGGTAGAATGACC
31057720 GAAATACCCTTGTAGG
65 GAAATACCCTTGTAGG
* * * *
31057736 GTAGAAATATCAAAATACCCCTGTAGGGTAGAAATATCAAAATACCCCTGTAGGGTAGAATTACC
1 GTA-AAATATCAAAATACCCCTGTAGGGTAGAAATACCAAAATAACCCTCTAGGGTAGAATGACC
* *
31057801 GAGATACCCTTGTGGG
65 GAAATACCCTTGTAGG
31057817 GTAAAAT
1 GTAAAAT
31057824 TACCATTTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.05
81 71 0.91
82 3 0.04
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (80 bp):
GTAAAATATCAAAATACCCCTGTAGGGTAGAAATACCAAAATAACCCTCTAGGGTAGAATGACCG
AAATACCCTTGTAGG
Found at i:31058106 original size:24 final size:25
Alignment explanation
Indices: 31058032--31058099 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
31058022 GAAGTGCTAC
* *
31058032 AAGGGCTATGCCCCAGTTTACCGAAA
1 AAGGGCTTTGCCCCAGTTTATC-AAA
31058058 AA-GGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTATCAAA
31058082 AAGGGCTTTGCCCCAGTT
1 AAGGGCTTTGCCCCAGTT
31058100 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
24 5 0.13
25 32 0.82
26 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTATCAAA
Found at i:31058112 original size:24 final size:23
Alignment explanation
Indices: 31058035--31058126 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 23
31058025 GTGCTACAAG
* *
31058035 GGCTATGCCCCAGTTTACCGAAAAA
1 GGCTTTGCCCCAG-TTATC-AAAAA
31058060 GGCTTTGCCCCAGTTTATCAAAAA
1 GGCTTTGCCCCAG-TTATCAAAAA
*
31058084 GGGCTTTGCCCCAGTTATTAAAAGA
1 -GGCTTTGCCCCAGTTATCAAAA-A
**
31058109 GGCTAGGCCTCCAGTTAT
1 GGCTTTGCC-CCAGTTAT
31058127 ATGATAAAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
24 20 0.34
25 39 0.66
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (23 bp):
GGCTTTGCCCCAGTTATCAAAAA
Found at i:31059028 original size:18 final size:18
Alignment explanation
Indices: 31058971--31059030 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
31058961 GACTGTCTGC
31058971 TACTGAATAATTGACTAT
1 TACTGAATAATTGACTAT
* **
31058989 TACAGAATAAACGACTGA-
1 TACTGAATAATTGACT-AT
*
31059007 TACTGAATAATTGAATAT
1 TACTGAATAATTGACTAT
31059025 TACTGA
1 TACTGA
31059031 TTAACCGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (18 bp):
TACTGAATAATTGACTAT
Found at i:31063096 original size:4 final size:4
Alignment explanation
Indices: 31063083--31063112 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
31063073 CATTTGTTAT
31063083 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
31063113 TGTTTCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:31063163 original size:29 final size:26
Alignment explanation
Indices: 31063095--31063164 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 26
31063085 TATTATTTAT
31063095 TTATTTATTTATTTATTTTGTTTCAA
1 TTATTTATTTATTTATTTTGTTTCAA
* * *
31063121 TT-TTTAATTAATTTTTTATTGATATTCAC
1 TTATTT-ATTTATTTATT-TTG-T-TTCAA
31063150 TTATTTATTTATTTA
1 TTATTTATTTATTTA
31063165 CTTAATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 3 0.09
26 11 0.32
27 3 0.09
28 1 0.03
29 13 0.38
30 3 0.09
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (26 bp):
TTATTTATTTATTTATTTTGTTTCAA
Found at i:31068678 original size:21 final size:21
Alignment explanation
Indices: 31068653--31068704 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
31068643 GGGTCTACAG
* *
31068653 GCCCATGTGGAGGCTACACAC
1 GCCCATGTGAAGGCCACACAC
*
31068674 GCCCATGTGAAGGCCCCACAC
1 GCCCATGTGAAGGCCACACAC
*
31068695 GCCCGTGTGA
1 GCCCATGTGA
31068705 GCAGAGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.13
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACACAC
Found at i:31071590 original size:58 final size:57
Alignment explanation
Indices: 31071487--31071599 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 57
31071477 CTATTTTGGG
* * *
31071487 CCTAAACTTGACAACTATTCCTACATTGGGGCCTAAACTTTTTTTGTCCAAGTTAGGC
1 CCTAAACTTCACAACTATTCCCACATTGAGGCC-AAACTTTTTTTGTCCAAGTTAGGC
* * *
31071545 CCTAAACTTCACAATTGTTCCCACATTGAGGCC-AACTTTTCTTTTGTTCAAGTTA
1 CCTAAACTTCACAACTATTCCCACATTGAGGCCAAAC-TTT-TTTTGTCCAAGTTA
31071600 ATCCTTGAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 3 0.06
57 3 0.06
58 41 0.87
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (57 bp):
CCTAAACTTCACAACTATTCCCACATTGAGGCCAAACTTTTTTTGTCCAAGTTAGGC
Found at i:31075372 original size:26 final size:26
Alignment explanation
Indices: 31075343--31075398 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
31075333 TGATACAAAT
*
31075343 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31075369 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31075395 TGAT
1 TGAT
31075399 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31080552 original size:21 final size:21
Alignment explanation
Indices: 31080520--31080559 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31080510 CGTGTGTCCA
*
31080520 CTGTATTTTGAAAATTTTTCT
1 CTGTATTTTGAAAAATTTTCT
31080541 CTGT-TTTCTGAAAAATTTT
1 CTGTATTT-TGAAAAATTTT
31080560 GTAACGCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (21 bp):
CTGTATTTTGAAAAATTTTCT
Found at i:31081175 original size:12 final size:13
Alignment explanation
Indices: 31081147--31081179 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31081137 TTATTTCTTT
31081147 TTCTCCATCTACC
1 TTCTCCATCTACC
*
31081160 TTCTCC-TCTTCC
1 TTCTCCATCTACC
31081172 TTCTCCAT
1 TTCTCCAT
31081180 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:31082278 original size:28 final size:28
Alignment explanation
Indices: 31082246--31082310 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
31082236 ATTTACTAGA
*
31082246 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* * *
31082274 ATACCCTTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
31082302 ATACCCCTA
1 ATACCCCTA
31082311 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:31082457 original size:28 final size:28
Alignment explanation
Indices: 31082416--31082506 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
31082406 AGGAATCGTC
31082416 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
31082444 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
* *
31082472 CTTGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
31082501 CTGGTG
1 CTGGTG
31082507 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 50 0.89
29 6 0.11
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:31088138 original size:43 final size:43
Alignment explanation
Indices: 31088037--31088142 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 43
31088027 TTATCGAGAG
* *
31088037 GTGATTACATGTAAGACCATGTCTGGGACATTGGAATCAATAT
1 GTGATTACATGTAAGACCATGTCTGGGACAGTGGAATCAATAC
* * * * * * * *
31088080 ATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATGC
1 GTGATTACATGTAAGACCATGTCTGGGACAGTGGAATCAATAC
*
31088123 GTGATAACATGTAAGACCAT
1 GTGATTACATGTAAGACCAT
31088143 ATCCGGGATA
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTGGGACAGTGGAATCAATAC
Found at i:31090517 original size:8 final size:8
Alignment explanation
Indices: 31090506--31090530 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31090496 TTTAATAAGA
31090506 TATTTTAT
1 TATTTTAT
31090514 TATTTTAT
1 TATTTTAT
31090522 TATTTTAT
1 TATTTTAT
31090530 T
1 T
31090531 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:31090553 original size:2 final size:2
Alignment explanation
Indices: 31090548--31090581 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31090538 TATATATATA
31090548 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31090582 GAAAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:31093239 original size:5 final size:5
Alignment explanation
Indices: 31093229--31093269 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
31093219 AAAGTGAACA
* * *
31093229 TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT GGAAT T
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
31093270 ATGATCAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (5 bp):
TGAAT
Found at i:31093390 original size:10 final size:10
Alignment explanation
Indices: 31093375--31093401 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31093365 CCTATTAACT
31093375 AGTCGGAATG
1 AGTCGGAATG
31093385 AGTCGGAATG
1 AGTCGGAATG
31093395 AGTCGGA
1 AGTCGGA
31093402 TATAGTTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.41, T:0.19
Consensus pattern (10 bp):
AGTCGGAATG
Found at i:31093765 original size:57 final size:57
Alignment explanation
Indices: 31093674--31093977 Score: 360
Period size: 57 Copynumber: 5.2 Consensus size: 57
31093664 TTATATGCTG
* * * * **
31093674 GTTACTATTACCGCTACTGCTACTATGACCGATTCGGCACTTTGTGTGTCGAATATT
1 GTTACTGTTACTGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCGAATATT
**
31093731 GTTACTGTTACTGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTTAAATATT
1 GTTACTGTTACTGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCGAATATT
*
31093788 GTTACTGTTATTGCTACTGCTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATT
1 GTTACTGTTACTGCTACTGCTACTGTTA----TA--GATTCGGCACTTTGTGTGTCGAATATT
* * * *
31093851 GTTACTGTTACCGCTATTGTTACTGTTACT-GATTCGGCATTTTGTGTGTCGAATATT
1 GTTACTGTTACTGCTACTGCTACTGTTA-TAGATTCGGCACTTTGTGTGTCGAATATT
** * **
31093908 GTTACTGTTA-TCGCTACTGCTACTGTTACCGATTCGGCACTTTCTGTGTAAAATATT
1 GTTACTGTTACT-GCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCGAATATT
31093965 GTTACTGTTACTG
1 GTTACTGTTACTG
31093978 TTACCGATTC
Statistics
Matches: 213, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
57 160 0.75
58 1 0.00
60 1 0.00
61 2 0.01
63 49 0.23
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (57 bp):
GTTACTGTTACTGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCGAATATT
Found at i:31093885 original size:120 final size:114
Alignment explanation
Indices: 31093674--31093975 Score: 408
Period size: 120 Copynumber: 2.6 Consensus size: 114
31093664 TTATATGCTG
* * * *
31093674 GTTACTATTACCGCTACTGCTACTATGACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGT
1 GTTACTGTTATCGCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGT
* *
31093739 TACTGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTTAAATATT
66 TACCGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCAAATATT
*
31093788 GTTACTGTTATTGCTACTGCTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 GTTACTGTTA----T-C-GCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
31093853 TACTGTTACCGCTATTGTTACTGTTACT-GATTCGGCATTTTGTGTGTCGAATATT
60 TACTGTTACCGCTACTGCTACTGTTA-TAGATTCGGCACTTTGTGTGTCAAATATT
* **
31093908 GTTACTGTTATCGCTACTGCTACTGTTACCGATTCGGCACTTTCTGTGTAAAATATTGTTACTGT
1 GTTACTGTTATCGCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGT
31093973 TAC
66 TAC
31093976 TGTTACCGAT
Statistics
Matches: 166, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
114 61 0.37
115 1 0.01
116 1 0.01
119 1 0.01
120 101 0.61
121 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (114 bp):
GTTACTGTTATCGCTACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGT
TACCGCTACTGCTACTGTTATAGATTCGGCACTTTGTGTGTCAAATATT
Found at i:31093986 original size:45 final size:45
Alignment explanation
Indices: 31093922--31094071 Score: 174
Period size: 45 Copynumber: 3.3 Consensus size: 45
31093912 CTGTTATCGC
* * *
31093922 TACTGCTACTGTTACCGATTCGGCACTTTCTGTGTAAAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTAAAATACTGT
* ***
31093967 TACTGTTACTGTTACCGATTCGACACTTTGTGTGCCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTAAAATACTGT
* * * * **
31094012 TACCGTTACTGTTTCAGATTCAGCACTTTGTGTGTTCAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTAAAATACTGT
*
31094057 TACTGTTACTATTAC
1 TACTGTTACTGTTAC
31094072 TGCTACTGTT
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTAAAATACTGT
Found at i:31094062 original size:6 final size:6
Alignment explanation
Indices: 31094051--31094094 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
31094041 GTGTGTTCAA
* * *
31094051 TACTGT TACTGT TACTAT TACTGC TACTGT TATTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
31094095 CTGGTACTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:31094078 original size:18 final size:19
Alignment explanation
Indices: 31094051--31094092 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
31094041 GTGTGTTCAA
*
31094051 TACTGTTACTGTTACT-AT
1 TACTGCTACTGTTACTGAT
*
31094069 TACTGCTACTGTTATTGAT
1 TACTGCTACTGTTACTGAT
31094088 TACTG
1 TACTG
31094093 TTCTGGTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (19 bp):
TACTGCTACTGTTACTGAT
Found at i:31095215 original size:74 final size:71
Alignment explanation
Indices: 31095122--31095270 Score: 262
Period size: 74 Copynumber: 2.1 Consensus size: 71
31095112 TGGGCCTCTT
*
31095122 ATAAAAAGGGAAATTTTCGTTATAAGGTATGTTCGCAATATTGAATTAAAAATAAATTGTGAAAT
1 ATAAAAAGGGAAATTTTCGTTATAAGGTATATTCGCAATATTGAATTAAAAATAAATTGTGAAAT
31095187 GAAAGG
66 GAAAGG
31095193 ATAAAAAGGGAAGCAATTTTCGTTATAAGGTATATTCGCAATATTGAATTAAAAATAAATTGTGA
1 ATAAAAAGGG-A--AATTTTCGTTATAAGGTATATTCGCAATATTGAATTAAAAATAAATTGTGA
31095258 AATGAAAGG
63 AATGAAAGG
31095267 ATAA
1 ATAA
31095271 GGAATGGATA
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
71 10 0.14
72 1 0.01
74 63 0.85
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (71 bp):
ATAAAAAGGGAAATTTTCGTTATAAGGTATATTCGCAATATTGAATTAAAAATAAATTGTGAAAT
GAAAGG
Found at i:31095500 original size:30 final size:30
Alignment explanation
Indices: 31095466--31095525 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
31095456 AAAGGAAATA
31095466 AAGTGACAAGAAGAGGAAAATTGAGTTATG
1 AAGTGACAAGAAGAGGAAAATTGAGTTATG
31095496 AAGTGACAAGAAGAGGAAAATTGAGTTATG
1 AAGTGACAAGAAGAGGAAAATTGAGTTATG
31095526 TCACTAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.30, T:0.20
Consensus pattern (30 bp):
AAGTGACAAGAAGAGGAAAATTGAGTTATG
Found at i:31096408 original size:13 final size:13
Alignment explanation
Indices: 31096365--31096411 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
31096355 CTTGATATGT
31096365 TAGTGAAGAGAAA
1 TAGTGAAGAGAAA
31096378 -A-T-AAGAG-AA
1 TAGTGAAGAGAAA
31096387 -AGTGAAGAGAAA
1 TAGTGAAGAGAAA
*
31096399 TAGTGTAGAGAAA
1 TAGTGAAGAGAAA
31096412 GATGATAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 3 0.10
10 6 0.21
11 6 0.21
12 3 0.10
13 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (13 bp):
TAGTGAAGAGAAA
Found at i:31098228 original size:43 final size:43
Alignment explanation
Indices: 31098181--31098262 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
31098171 ACAATGAAAT
31098181 GCTTGTATATGGTTATAAATTTAATTTTGAACATATTATGAAG
1 GCTTGTATATGGTTATAAATTTAATTTTGAACATATTATGAAG
31098224 GCTTGTATATGGTTATAAATTTAATTTTGAACATATTAT
1 GCTTGTATATGGTTATAAATTTAATTTTGAACATATTAT
31098263 TGATGTGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (43 bp):
GCTTGTATATGGTTATAAATTTAATTTTGAACATATTATGAAG
Found at i:31102627 original size:22 final size:22
Alignment explanation
Indices: 31102598--31102640 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
31102588 AGATCACATG
*
31102598 AAATTTC-ATTTTTTTTATTTT
1 AAATTTCAATTTTATTTATTTT
31102619 AAATGTTCAATTTTATTTATTT
1 AAAT-TTCAATTTTATTTATTT
31102641 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
AAATTTCAATTTTATTTATTTT
Found at i:31103723 original size:30 final size:30
Alignment explanation
Indices: 31103687--31103746 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
31103677 AGTCAAGACT
31103687 TTTATTTATAAAATTTATTACATTTATACC
1 TTTATTTATAAAATTTATTACATTTATACC
*
31103717 TTTATTTATAAGATTTATTACATTTATACC
1 TTTATTTATAAAATTTATTACATTTATACC
31103747 AATATAGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTATTTATAAAATTTATTACATTTATACC
Found at i:31103725 original size:21 final size:22
Alignment explanation
Indices: 31103699--31103743 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
31103689 TATTTATAAA
* *
31103699 ATTTATTACATTTA-TACCTTT
1 ATTTATAACATTTATTACATTT
*
31103720 ATTTATAAGATTTATTACATTT
1 ATTTATAACATTTATTACATTT
31103742 AT
1 AT
31103744 ACCAATATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTATAACATTTATTACATTT
Found at i:31103923 original size:35 final size:36
Alignment explanation
Indices: 31103884--31103951 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
31103874 TAACTGTTTT
*
31103884 TATTTAATTAAA-TTTTATAAAATCTATTTAAAAAC
1 TATTTAATTAAATTTTTATAAAATATATTTAAAAAC
* *
31103919 TATTTCATTAAATTTTTATAATATATATTTAAA
1 TATTTAATTAAATTTTTATAAAATATATTTAAA
31103952 TATTTATCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (36 bp):
TATTTAATTAAATTTTTATAAAATATATTTAAAAAC
Found at i:31104848 original size:19 final size:19
Alignment explanation
Indices: 31104796--31104848 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
31104786 ATATATCAAA
31104796 CTTTTATAGTTTATACAATCC
1 CTTTTATAG-TT-TACAATCC
* *
31104817 CTTTAATAATTTACAATCC
1 CTTTTATAGTTTACAATCC
31104836 CTTTTATAGTTTA
1 CTTTTATAGTTTA
31104849 ATTTACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 19 0.68
20 2 0.07
21 7 0.25
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (19 bp):
CTTTTATAGTTTACAATCC
Found at i:31104938 original size:16 final size:15
Alignment explanation
Indices: 31104917--31104959 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
31104907 TAATATAATT
31104917 TAATTATATTTATTAA
1 TAATTAT-TTTATTAA
*
31104933 TAATTATTTTGAATAA
1 TAATTATTTT-ATTAA
31104949 T-ATTATTTTAT
1 TAATTATTTTAT
31104960 ATTAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 11 0.46
16 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TAATTATTTTATTAA
Found at i:31104965 original size:16 final size:18
Alignment explanation
Indices: 31104927--31104965 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
31104917 TAATTATATT
31104927 TATTAATAATTATTTTGA
1 TATTAATAATTATTTTGA
31104945 -A-TAAT-ATTATTTT-A
1 TATTAATAATTATTTTGA
31104959 TATTAAT
1 TATTAAT
31104966 TACATAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.05
15 9 0.47
16 8 0.42
17 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TATTAATAATTATTTTGA
Found at i:31107750 original size:42 final size:42
Alignment explanation
Indices: 31107703--31107790 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
31107693 GGTGATCTTC
* *
31107703 GTAATTTTATATGTTGATGATATTCTACTCATTGGGAATGAT
1 GTAATTTTATATGTTGATGACATTCTACTCATTCGGAATGAT
31107745 GTAATTTTATATGTTGATGACATTCTACTCATTCGGAATGAT
1 GTAATTTTATATGTTGATGACATTCTACTCATTCGGAATGAT
31107787 GTAA
1 GTAA
31107791 GGACATTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (42 bp):
GTAATTTTATATGTTGATGACATTCTACTCATTCGGAATGAT
Found at i:31110083 original size:18 final size:17
Alignment explanation
Indices: 31110050--31110083 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31110040 AATTGTATTA
*
31110050 AGAAAATAATTTAATTG
1 AGAAAATAAATTAATTG
31110067 AGAAAATTAAATTAATT
1 AGAAAA-TAAATTAATT
31110084 AATTAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (17 bp):
AGAAAATAAATTAATTG
Found at i:31112786 original size:16 final size:16
Alignment explanation
Indices: 31112765--31112814 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
31112755 GTAACCTAAT
31112765 CTATGAGATTGTGATC
1 CTATGAGATTGTGATC
31112781 CTATGA-ATTAG-G-T-
1 CTATGAGATT-GTGATC
31112794 -TATGAGATTGTGATC
1 CTATGAGATTGTGATC
31112809 CTATGA
1 CTATGA
31112815 ATTAGGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 2 0.07
15 4 0.14
16 12 0.43
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (16 bp):
CTATGAGATTGTGATC
Found at i:31112806 original size:28 final size:28
Alignment explanation
Indices: 31112766--31112822 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
31112756 TAACCTAATC
31112766 TATGAGATTGTGATCCTATGAATTAGGT
1 TATGAGATTGTGATCCTATGAATTAGGT
31112794 TATGAGATTGTGATCCTATGAATTAGGT
1 TATGAGATTGTGATCCTATGAATTAGGT
31112822 T
1 T
31112823 CATATGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (28 bp):
TATGAGATTGTGATCCTATGAATTAGGT
Found at i:31120402 original size:30 final size:30
Alignment explanation
Indices: 31120368--31120429 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
31120358 ACTTATTTTA
31120368 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
*
31120398 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
31120428 TT
1 TT
31120430 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:31120538 original size:18 final size:20
Alignment explanation
Indices: 31120515--31120553 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
31120505 AATATTTATC
*
31120515 TTGATGT-TTTTA-ATATTT
1 TTGATGTATTATATATATTT
31120533 TTGATGTATTATATATATTT
1 TTGATGTATTATATATATTT
31120553 T
1 T
31120554 AAAATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (20 bp):
TTGATGTATTATATATATTT
Found at i:31120818 original size:14 final size:14
Alignment explanation
Indices: 31120799--31120830 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
31120789 AGGTCATTTA
31120799 GCCCAACCAAACTG
1 GCCCAACCAAACTG
31120813 GCCCAACCAAACTG
1 GCCCAACCAAACTG
31120827 GCCC
1 GCCC
31120831 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:31125943 original size:14 final size:14
Alignment explanation
Indices: 31125924--31125955 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
31125914 AGGTCATTTA
31125924 GCCCAACCAAACTG
1 GCCCAACCAAACTG
31125938 GCCCAACCAAACTG
1 GCCCAACCAAACTG
31125952 GCCC
1 GCCC
31125956 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:31126859 original size:20 final size:20
Alignment explanation
Indices: 31126823--31126861 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31126813 TTGTATATTT
*
31126823 TTTAAAAATACGTAAAAAGC
1 TTTAAAAATACGAAAAAAGC
31126843 TTTAAAAATATC-AAAAAAG
1 TTTAAAAATA-CGAAAAAAG
31126862 TTATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
TTTAAAAATACGAAAAAAGC
Found at i:31152292 original size:14 final size:12
Alignment explanation
Indices: 31152273--31152322 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
31152263 TAACTAAAGT
31152273 GAATAAAAGAAACA
1 GAAT-AAAGAAA-A
31152287 GAATAAAGAAAA
1 GAATAAAGAAAA
*
31152299 GAA-ACA-AAAA
1 GAATAAAGAAAA
*
31152309 GAATAGAGAAAA
1 GAATAAAGAAAA
31152321 GA
1 GA
31152323 GAACAGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 7 0.22
14 4 0.12
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (12 bp):
GAATAAAGAAAA
Found at i:31152312 original size:22 final size:23
Alignment explanation
Indices: 31152286--31152332 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
31152276 TAAAAGAAAC
31152286 AGAATAAAGAAAAGA-AACAAAA
1 AGAATAAAGAAAAGAGAACAAAA
* *
31152308 AGAATAGAGAAAAGAGAACAGAA
1 AGAATAAAGAAAAGAGAACAAAA
31152331 AG
1 AG
31152333 CATTCGAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (23 bp):
AGAATAAAGAAAAGAGAACAAAA
Found at i:31153896 original size:23 final size:23
Alignment explanation
Indices: 31153870--31153930 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
31153860 AGGCACTTTA
31153870 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
31153893 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
31153914 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
31153931 TTTATGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.72
22 1 0.03
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:31153942 original size:21 final size:21
Alignment explanation
Indices: 31153858--31153930 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
31153848 GCTTTACTGA
* *
31153858 TTAGGCACTTTATGTGTCGTAT
1 TTAGGCACCTCATGTGTCGT-T
* *
31153880 TTCAGGCACCTCGTGTGTCGTA
1 TT-AGGCACCTCATGTGTCGTT
* *
31153902 TCAGGCACCTCGTGTGTCGTT
1 TTAGGCACCTCATGTGTCGTT
31153923 TTAGGCAC
1 TTAGGCAC
31153931 TTTATGTATC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 25 0.58
22 3 0.07
23 15 0.35
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TTAGGCACCTCATGTGTCGTT
Found at i:31154832 original size:8 final size:8
Alignment explanation
Indices: 31154815--31154847 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
31154805 AAATTTTTGT
31154815 AAAAAT-A
1 AAAAATAA
31154822 AAAAATAA
1 AAAAATAA
31154830 AAAAATAA
1 AAAAATAA
31154838 AAAAATAA
1 AAAAATAA
31154846 AA
1 AA
31154848 TTAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:31160288 original size:23 final size:21
Alignment explanation
Indices: 31160243--31160290 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
31160233 TATGTATGCA
31160243 TGATAAATTATGCATGATGAC
1 TGATAAATTATGCATGATGAC
* *
31160264 TGATATATGTATGCATATATGAC
1 TGATAAAT-TATGCAT-GATGAC
31160287 TGAT
1 TGAT
31160291 GGTTGCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 7 0.30
23 9 0.39
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (21 bp):
TGATAAATTATGCATGATGAC
Found at i:31160591 original size:34 final size:34
Alignment explanation
Indices: 31160553--31160617 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
31160543 ATATTTGATG
* *
31160553 CTGAAATTGGAATGGGCTAAGGCCCAAACTGCTA
1 CTGAAACTGAAATGGGCTAAGGCCCAAACTGCTA
* *
31160587 CTGAAACTGAAATGGGCTTAGGCCCAGACTG
1 CTGAAACTGAAATGGGCTAAGGCCCAAACTG
31160618 TATTTGACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.20
Consensus pattern (34 bp):
CTGAAACTGAAATGGGCTAAGGCCCAAACTGCTA
Found at i:31167828 original size:32 final size:32
Alignment explanation
Indices: 31167742--31167839 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
31167732 AATTTTAATA
* *
31167742 AATTACTAAAT-CTTATCAAAATATTGATACTT
1 AATTACTAAATAATTATAAAAATATT-ATACTT
* * *
31167774 -ATT-C-AATATATTTATTAAAATATTTTACTT
1 AATTACTAA-ATAATTATAAAAATATTATACTT
*
31167804 AATTACTAAATAATTATAAAAATATTATACCT
1 AATTACTAAATAATTATAAAAATATTATACTT
31167836 AATT
1 AATT
31167840 TAAAAGCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.04
30 8 0.15
31 18 0.33
32 24 0.44
33 2 0.04
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (32 bp):
AATTACTAAATAATTATAAAAATATTATACTT
Found at i:31168255 original size:13 final size:14
Alignment explanation
Indices: 31168223--31168267 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
31168213 AGTTCAAAAC
* *
31168223 TTAATAATTAATTGA
1 TTAATAATAAAAT-A
31168238 TTAATAA-AAAATA
1 TTAATAATAAAATA
31168251 TTAATAATAAAATA
1 TTAATAATAAAATA
31168265 TTA
1 TTA
31168268 TAGGCCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 8 0.30
14 12 0.44
15 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TTAATAATAAAATA
Found at i:31172156 original size:13 final size:13
Alignment explanation
Indices: 31172138--31172217 Score: 69
Period size: 12 Copynumber: 6.0 Consensus size: 13
31172128 CAACCCAAAT
31172138 ACCACCCCACTAA
1 ACCACCCCACTAA
31172151 ACCACCCCACTAA
1 ACCACCCCACTAA
*
31172164 CTCCAACACCCCACTAA
1 ----ACCACCCCACTAA
31172181 ACCGA--CCACTAA
1 ACC-ACCCCACTAA
31172193 ACCGA--CCACTAA
1 ACC-ACCCCACTAA
31172205 ACCACCCCACTAA
1 ACCACCCCACTAA
31172218 CTCCATCACC
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
11 1 0.02
12 22 0.38
13 22 0.38
14 1 0.02
17 12 0.21
ACGTcount: A:0.39, C:0.50, G:0.03, T:0.09
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:31173080 original size:26 final size:25
Alignment explanation
Indices: 31173022--31173081 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
31173012 TCTATTTTAT
31173022 TTATTTATTTCAGATTTTTACATAA
1 TTATTTATTTCAGATTTTTACATAA
*
31173047 -TATCTATTTCCA-ACTTTTATACA-AA
1 TTATTTATTT-CAGA-TTTT-TACATAA
31173072 TTATTTATTT
1 TTATTTATTT
31173082 TAAATGTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 9 0.31
25 8 0.28
26 12 0.41
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.55
Consensus pattern (25 bp):
TTATTTATTTCAGATTTTTACATAA
Found at i:31173234 original size:27 final size:28
Alignment explanation
Indices: 31173177--31173234 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
31173167 CATTTTGTAT
* * *
31173177 ATTATTGATTTTCGGATTCTTTTCTTAC
1 ATTATTGATTTTCGAATTCATTTATTAC
31173205 ATTATT-ATTTT-GAATTCATTTATTATC
1 ATTATTGATTTTCGAATTCATTTATTA-C
31173232 ATT
1 ATT
31173235 TTCAAATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 9 0.35
28 6 0.23
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTATTGATTTTCGAATTCATTTATTAC
Found at i:31175046 original size:19 final size:19
Alignment explanation
Indices: 31175022--31175067 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
31175012 CTTACTTTCT
31175022 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
31175041 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
31175060 TGTGCATT
1 TTTGCATT
31175068 AAACTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:31189424 original size:27 final size:27
Alignment explanation
Indices: 31189389--31189500 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
31189379 AGCATGGCAG
* *
31189389 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
31189415 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
31189443 CCAG-GACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
31189470 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
31189497 CCAG
1 CCAG
31189501 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:31189452 original size:54 final size:54
Alignment explanation
Indices: 31189389--31189503 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
31189379 AGCATGGCAG
* *
31189389 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGGACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
31189443 CCAGGACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGGACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
31189497 CCAGGAC
1 CCAGGAC
31189504 GCTTCCTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGGACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:31196056 original size:26 final size:24
Alignment explanation
Indices: 31196018--31196084 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 24
31196008 AATAAAATGT
*
31196018 TTTAAAAATATAATAAATCAAATACA
1 TTTAAAAACATAA-AAA-CAAATACA
31196044 TTTAAAAACATAAAAACAAAT--A
1 TTTAAAAACATAAAAACAAATACA
31196066 -TT-AAAACA-AAAAACAAATA
1 TTTAAAAACATAAAAACAAATA
31196085 AAAAATGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
19 10 0.26
20 6 0.15
21 2 0.05
22 1 0.03
24 5 0.13
25 3 0.08
26 12 0.31
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATACA
Found at i:31196131 original size:41 final size:40
Alignment explanation
Indices: 31196056--31196140 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
31196046 TAAAAACATA
*
31196056 AAAACAAATATTAAAACAAAAAACAAATAAAAAATGATACT
1 AAAACAAATATTAAAACAAAAAACAAATAAAAAAT-ATAAT
* * * * **
31196097 AAAACAATTCTTAAAACAATACACAAATTGAAAATATAAT
1 AAAACAAATATTAAAACAAAAAACAAATAAAAAATATAAT
31196137 AAAA
1 AAAA
31196141 GTGGTTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.67, C:0.11, G:0.02, T:0.20
Consensus pattern (40 bp):
AAAACAAATATTAAAACAAAAAACAAATAAAAAATATAAT
Found at i:31205549 original size:20 final size:21
Alignment explanation
Indices: 31205505--31205565 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
31205495 AAATTTTAAC
* *
31205505 TTATCATATTAAAAATAAATTA
1 TTAT-ATATAAAAAATAAATCA
*
31205527 TTATTTATAAAAAATAAA-CA
1 TTATATATAAAAAATAAATCA
31205547 TTATATATAACAACAATAA
1 TTATATATAA-AA-AATAA
31205566 TGCCAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.30
21 14 0.42
22 9 0.27
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TTATATATAAAAAATAAATCA
Found at i:31205676 original size:189 final size:186
Alignment explanation
Indices: 31205290--31205720 Score: 711
Period size: 189 Copynumber: 2.3 Consensus size: 186
31205280 AAATATTAGG
*
31205290 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTCTTTATAAAAAT
1 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTATAAAAAT
*
31205355 AAACATTATATATAAAAAAATAATGCCAAAACAACTCTAATGTTTGAAATTTTATAAAAATAACG
66 AAACATTATATATAAAAAAATAATGCCAAAACAACTCTAATGTTTGAAATTTTATAAAAATAACA
* * *
31205420 TTAATTTAAATATTAGATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAATTCA
131 TTAATATAAATATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
* * *
31205476 TTTCAACTTGTGTTGGTCGAAATTTTAACTTATCATATTAAAAATAAATTATTATTTATAAAAAA
1 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTAT-AAAAA
*
31205541 TAAACATTATATATAACAACAATAATGCCAAAACAACTCTAA-GTTTTGAAATTTTATAAAAATA
65 TAAACATTATATATAA-AAAAATAATGCCAAAACAACTCTAATG-TTTGAAATTTTATAAAAATA
*
31205605 ACATTAATATAAAGTATTACATTGTTTACTTAATGAAAATATTAGTGTTTAAGAAACTCA
128 ACATTAATATAAA-TATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
* *
31205665 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCGTGTTAAAAATAAATTACTATT
1 TTTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATT
31205721 GATGTAAGAC
Statistics
Matches: 226, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
186 55 0.24
187 22 0.10
188 55 0.24
189 94 0.42
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (186 bp):
TTTCAACTTGTGTTGATCAAAATTTTAACTTATCATGTTAAAAATAAATTATTATTTATAAAAAT
AAACATTATATATAAAAAAATAATGCCAAAACAACTCTAATGTTTGAAATTTTATAAAAATAACA
TTAATATAAATATTACATTGTTTACTTAACGAAAATATTAGTGTTTAAGAAACTCA
Found at i:31206169 original size:36 final size:36
Alignment explanation
Indices: 31206122--31206198 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
31206112 ACATTATTCA
31206122 TGAAATGATGCGTAAAGGCTTTATACCTAATACTAG
1 TGAAATGATGCGTAAAGGCTTTATACCTAATACTAG
*
31206158 TGAAATGATGCGTAAAGGCTTTATACCTGATACTAG
1 TGAAATGATGCGTAAAGGCTTTATACCTAATACTAG
31206194 T-AAAT
1 TGAAAT
31206199 ACTCCAAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 4 0.10
36 36 0.90
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (36 bp):
TGAAATGATGCGTAAAGGCTTTATACCTAATACTAG
Found at i:31207479 original size:40 final size:40
Alignment explanation
Indices: 31207435--31207582 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
31207425 TTGACGACAA
*
31207435 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGT
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* *
31207475 TTCGGCTATGTATGGCATTTAGTGTGCAATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* * * *
31207515 TTCGACTATGTATGACACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGC--GATTCGAGATAGC
* *
31207556 TTCAGTTATGTATTGGCACTTAGTGTG
1 TTCGGCTATGTA-TGGCACTTAGTGTG
31207583 TGAGAATTCG
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 61 0.66
41 15 0.16
42 16 0.17
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
Found at i:31216393 original size:16 final size:15
Alignment explanation
Indices: 31216367--31216401 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
31216357 TGATGTGAAT
31216367 AATATAAAATATTAA
1 AATATAAAATATTAA
*
31216382 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
31216398 AATA
1 AATA
31216402 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:31216587 original size:20 final size:21
Alignment explanation
Indices: 31216545--31216587 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
31216535 CCTTTTTTAG
* *
31216545 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
31216566 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
31216586 AA
1 AA
31216588 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:31216804 original size:11 final size:11
Alignment explanation
Indices: 31216788--31216817 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31216778 TAACATTAAG
31216788 AATATATATAT
1 AATATATATAT
*
31216799 AATATAAATAT
1 AATATATATAT
31216810 AATATATA
1 AATATATA
31216818 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:31217603 original size:24 final size:24
Alignment explanation
Indices: 31217571--31217647 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
31217561 GTTTCTTGGT
31217571 TTTTTTTTGGAGGTTAGGTTTTTC
1 TTTTTTTTGGAGGTTAGGTTTTTC
*
31217595 TTTTTTTTGGGGGGGTTAGGTTTTTTC
1 TTTTTTTT--GGAGGTTAGG-TTTTTC
**
31217622 TTTTTTTT-TTGGTTAGGTTTTT-
1 TTTTTTTTGGAGGTTAGGTTTTTC
31217644 TTTT
1 TTTT
31217648 GGAGGGCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 4 0.09
23 5 0.11
24 15 0.32
26 9 0.19
27 14 0.30
ACGTcount: A:0.05, C:0.03, G:0.25, T:0.68
Consensus pattern (24 bp):
TTTTTTTTGGAGGTTAGGTTTTTC
Found at i:31218035 original size:40 final size:40
Alignment explanation
Indices: 31217962--31218059 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
31217952 ACGGTACCAT
* * *
31217962 TTGGTGTGTAGGGTTGGATGGGTTGATGTTATCCCCATAC
1 TTGGTGTGTAGGGCTGGATGAGTCGATGTTATCCCCATAC
*
31218002 TTGGTGTGTAGGGCTGGGTGAGTCGAT-TCTATCCCC--AC
1 TTGGTGTGTAGGGCTGGATGAGTCGATGT-TATCCCCATAC
* * *
31218040 ATGGTGTGTTGGGTTGGATG
1 TTGGTGTGTAGGGCTGGATG
31218060 GAGATGGTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 18 0.37
39 1 0.02
40 30 0.61
ACGTcount: A:0.13, C:0.13, G:0.38, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGAGTCGATGTTATCCCCATAC
Found at i:31218066 original size:23 final size:23
Alignment explanation
Indices: 31218040--31218083 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
31218030 CTATCCCCAC
**
31218040 ATGGTGTGTTGGGTTGGATGGAG
1 ATGGTGTGCAGGGTTGGATGGAG
31218063 ATGGTGTGCAGGGTTGGATGG
1 ATGGTGTGCAGGGTTGGATGG
31218084 GATAGCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.02, G:0.52, T:0.32
Consensus pattern (23 bp):
ATGGTGTGCAGGGTTGGATGGAG
Found at i:31218196 original size:27 final size:27
Alignment explanation
Indices: 31218129--31218196 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
31218119 TGTTACTGAG
* * *
31218129 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
31218155 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
31218182 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
31218197 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:31219752 original size:5 final size:5
Alignment explanation
Indices: 31219742--31219775 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
31219732 TGATACAACC
31219742 TTTTA TTTTA TTTTA TTTTA TTTTA CTTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT
31219776 ACTAATTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:31220223 original size:18 final size:18
Alignment explanation
Indices: 31220200--31220234 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31220190 AAATTAACTT
31220200 TTTTAAAAAATAATATTA
1 TTTTAAAAAATAATATTA
*
31220218 TTTTAAAAAATTATATT
1 TTTTAAAAAATAATATT
31220235 TAATTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAATAATATTA
Found at i:31220241 original size:19 final size:18
Alignment explanation
Indices: 31220201--31220242 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
31220191 AATTAACTTT
*
31220201 TTTAAAAAATAATATTAT
1 TTTAAAAAATAATATTAA
*
31220219 TTTAAAAAATTATATTTAA
1 TTTAAAAAATAATA-TTAA
31220238 TTTAA
1 TTTAA
31220243 TTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTAAAAAATAATATTAA
Found at i:31221529 original size:21 final size:21
Alignment explanation
Indices: 31221488--31221531 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
31221478 CCGCCCGTAT
*
31221488 TAATTTTTAAATTATTTTATA
1 TAATTTTTAAATTATTATATA
31221509 TAATTTTTAAA-TA-TATATA
1 TAATTTTTAAATTATTATATA
31221528 TAAT
1 TAAT
31221532 ACATCAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTTTAAATTATTATATA
Found at i:31221676 original size:30 final size:30
Alignment explanation
Indices: 31221642--31221706 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
31221632 ACTTAACAAG
31221642 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
31221672 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
31221702 -AAATA
1 CAAATA
31221707 AAATAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:31234152 original size:20 final size:20
Alignment explanation
Indices: 31234116--31234154 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31234106 TAAAAAAAAA
31234116 TCAATATTTTCGTTTTTTTC
1 TCAATATTTTCGTTTTTTTC
*
31234136 TCAATTATTTTTGTTTTTT
1 TCAA-TATTTTCGTTTTTT
31234155 ATATAAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (20 bp):
TCAATATTTTCGTTTTTTTC
Found at i:31241284 original size:14 final size:16
Alignment explanation
Indices: 31241246--31241277 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31241236 AATAATAATA
31241246 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
31241261 ATATAAAAATTACATT
1 ATATAAAAATTACATT
31241277 A
1 A
31241278 AAAAAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:31241668 original size:106 final size:104
Alignment explanation
Indices: 31241266--31241669 Score: 436
Period size: 113 Copynumber: 3.8 Consensus size: 104
31241256 ACATTATATA
* * *
31241266 AAAATTACATTA--AAAAAATCACAAAACACTAAACTA-GAAACACTAACAA--TT-T-A--TAA
1 AAAA-TACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAA
31241322 TCATAAATTACTAACACAAAATAACTA-AAAATTATTATTTTT
65 TCATAAATTACT-A-ACAAAATAACTATAAAATTATT-TTTTT
* * *
31241364 TAAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAGCAATTTATGTAACCTAA
1 AAAATACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTT-TGTAACCTAA
* *
31241429 TCATAAATTACTAATAAAATAGCTATAAAATTATTTTTTT
65 TCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
* *
31241469 AAAACATATTACTAAAAAATCACAATACACTAATATACTAAACCAC-AGAACACTAACAATTTTT
1 AAAATACATTACTAAAAAATCACAAT--AC------ACTAAACCACTA-AACACTAACAA-TTTT
*
31241533 ATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
56 GTAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
* *
31241582 AAAATTACATTACTAAAAAATCACAATACCCTAAACCACTAAACACTAACAA-TTTGTAACTTAA
1 AAAA-TACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAA
*
31241646 TCCCATAAATTATTAACAAAATAA
65 T--CATAAATTACTAACAAAATAA
31241670 ATAACTATAA
Statistics
Matches: 259, Mismatches: 22, Indels: 42
0.80 0.07 0.13
Matches are distributed among these distances:
97 7 0.03
98 3 0.01
99 21 0.08
100 11 0.04
102 1 0.00
103 1 0.00
104 12 0.05
105 38 0.15
106 50 0.19
107 18 0.07
112 3 0.01
113 71 0.27
114 23 0.09
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (104 bp):
AAAATACATTACTAAAAAATCACAATACACTAAACCACTAAACACTAACAATTTTGTAACCTAAT
CATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
Found at i:31241809 original size:167 final size:167
Alignment explanation
Indices: 31241520--31241918 Score: 703
Period size: 167 Copynumber: 2.4 Consensus size: 167
31241510 ACCACAGAAC
31241520 ACTAACAATTTTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
1 ACTAACAA--TTTATAACCTAATCATAAATTACTAACAAAATAACTAT-AAATT-TTTTTTT-AA
*
31241585 ATTACATTACTAAAAAATCACAATACCCTAAACCACTAAACACTAACAATTTGTAACTTAATCCC
61 ATTACATTACTAAAAAACCACAATACCCTAAACCACTAAACACTAACAATTTGTAACTTAATCCC
31241650 ATAAATTATTAACAAAATAAATAACTATAACAAAATACAAAA
126 ATAAATTATTAACAAAATAAATAACTATAACAAAATACAAAA
31241692 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAATTTTTTTTTAAATTAC
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAATTTTTTTTTAAATTAC
31241757 ATTACTAAAAAACCACAATACCCTAAACCACTAAACACTAACAATTTGTAACTTAATCCCATAAA
66 ATTACTAAAAAACCACAATACCCTAAACCACTAAACACTAACAATTTGTAACTTAATCCCATAAA
31241822 TTATTAACAAAATAAATAACTATAACAAAATACAAAA
131 TTATTAACAAAATAAATAACTATAACAAAATACAAAA
* *
31241859 ACTAACAATTTATAACCTAATCAT--ACTACTAACAAAATAACTATACAATTATTTTTTAAA
1 ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATA-AATTTTTTTTTAAA
31241919 AAAAAATTTA
Statistics
Matches: 223, Mismatches: 3, Indels: 8
0.95 0.01 0.03
Matches are distributed among these distances:
165 20 0.09
166 13 0.06
167 132 0.59
168 7 0.03
169 5 0.02
170 38 0.17
172 8 0.04
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.31
Consensus pattern (167 bp):
ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAATTTTTTTTTAAATTAC
ATTACTAAAAAACCACAATACCCTAAACCACTAAACACTAACAATTTGTAACTTAATCCCATAAA
TTATTAACAAAATAAATAACTATAACAAAATACAAAA
Found at i:31242019 original size:12 final size:12
Alignment explanation
Indices: 31241995--31242029 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
31241985 TACCTTTTTT
31241995 TTCTTCTTCCTTC
1 TTCTTC-TCCTTC
31242008 TTCTTCTCCTTC
1 TTCTTCTCCTTC
*
31242020 TCCTTCTCCT
1 TTCTTCTCCT
31242030 GTCTCTCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (12 bp):
TTCTTCTCCTTC
Found at i:31242767 original size:20 final size:20
Alignment explanation
Indices: 31242744--31242782 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31242734 TATGTATTTC
*
31242744 TATAATTTTAAAAATAATAA
1 TATAATTTTAAAAAAAATAA
*
31242764 TATAGTTTTAAAAAAAATA
1 TATAATTTTAAAAAAAATA
31242783 TAAATTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TATAATTTTAAAAAAAATAA
Found at i:31244383 original size:24 final size:24
Alignment explanation
Indices: 31244350--31244399 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
31244340 AAGTCTGTCT
31244350 GGAGAAGATTTAAGAGCTGATAAG
1 GGAGAAGATTTAAGAGCTGATAAG
* * *
31244374 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAAGAGCTGATAAG
31244398 GG
1 GG
31244400 TGAACTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAAGAGCTGATAAG
Found at i:31245918 original size:28 final size:26
Alignment explanation
Indices: 31245831--31245940 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 26
31245821 ATGAAGCGTC
* *
31245831 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGACTCTGCCAC-ATTATCTG-TT
* *
31245859 -TGGTGGCTCTAG-CATATATATCTGTT
1 CTGGTGACTCT-GCCACAT-TATCTGTT
**
31245885 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
*
31245913 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
31245939 CT
1 CT
31245941 AGCAGCCATG
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
26 8 0.12
27 44 0.64
28 17 0.25
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:31245935 original size:54 final size:54
Alignment explanation
Indices: 31245831--31245940 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 54
31245821 ATGAAGCGTC
* * *
31245831 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTAGCATATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTAGCACATATATCTGTT
* * *
31245885 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCT-GTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTAG-CACATATATCTGTT
31245939 CT
1 CT
31245941 AGCAGCCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
54 33 0.69
55 15 0.31
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTAGCACATATATCTGTT
Found at i:31252274 original size:24 final size:24
Alignment explanation
Indices: 31252202--31252266 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
31252192 AGTCTGTCTA
*
31252202 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
31252226 GAGAGGATTTAGGAGCTGATCAGG
1 GAGAGGATTTAGGAGCTGATAAGG
31252250 GAGAGGATTTAGGAGCT
1 GAGAGGATTTAGGAGCT
31252267 AATTAGGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.32, C:0.06, G:0.40, T:0.22
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Done.