Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 204 of 250
Found at i:63516975 original size:12 final size:13
Alignment explanation
Indices: 63516957--63516986 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
63516947 TTAGTTCATG
63516957 GTTTTATTTTTTT
1 GTTTTATTTTTTT
63516970 -TTTTATTTTTTT
1 GTTTTATTTTTTT
63516982 GTTTT
1 GTTTT
63516987 TGGTTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (13 bp):
GTTTTATTTTTTT
Found at i:63520559 original size:18 final size:19
Alignment explanation
Indices: 63520526--63520562 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
63520516 TATATATATA
63520526 AGTAAAAACTTTACAAATT
1 AGTAAAAACTTTACAAATT
*
63520545 AGTAAATAC-TTACAAATT
1 AGTAAAAACTTTACAAATT
63520563 TTTAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAAAACTTTACAAATT
Found at i:63525855 original size:39 final size:39
Alignment explanation
Indices: 63525801--63525878 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
63525791 TGTATAATTT
63525801 CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
1 CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
63525840 CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
1 CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
63525879 GTTTTATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (39 bp):
CCAAATACTTTGGGGTATTATAGATGGAGATTTGCAAAA
Found at i:63531062 original size:12 final size:12
Alignment explanation
Indices: 63531045--63531069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63531035 AATATTTCCT
63531045 AATTTAGATTTA
1 AATTTAGATTTA
63531057 AATTTAGATTTA
1 AATTTAGATTTA
63531069 A
1 A
63531070 TCATATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTTAGATTTA
Found at i:63533519 original size:24 final size:25
Alignment explanation
Indices: 63533471--63533534 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
63533461 ATTATTTTGG
* *
63533471 AATGTTTCTTTATATTATATTATTT-
1 AATGTTT-TATATATTATATCATTTA
* *
63533496 TATGTTTTATATATTATCTCATTTA
1 AATGTTTTATATATTATATCATTTA
63533521 AATGTTTTTATATA
1 AATG-TTTTATATA
63533535 ATAGTACGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
25 9 0.28
26 9 0.28
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
AATGTTTTATATATTATATCATTTA
Found at i:63537051 original size:26 final size:26
Alignment explanation
Indices: 63537020--63537128 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
63537010 TGAAATTCCC
*
63537020 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
63537046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
63537072 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
63537098 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63537124 ATCAT
1 ATCAT
63537129 TTTGTATCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63540516 original size:8 final size:8
Alignment explanation
Indices: 63540474--63540498 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
63540464 ATATAGACTA
63540474 AATAAAAT
1 AATAAAAT
63540482 AATAAAAT
1 AATAAAAT
63540490 AATAAAAT
1 AATAAAAT
63540498 A
1 A
63540499 TCTTATTAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:63548111 original size:3 final size:3
Alignment explanation
Indices: 63548094--63548313 Score: 132
Period size: 3 Copynumber: 74.7 Consensus size: 3
63548084 ATATATATGT
* * * * * *
63548094 TAA TAA TGA TGA TAA TAA TAA TAG TAA TAGA AAA TAA AAA AAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * * * *
63548139 TAA TAA TAG CAA TAG CAA TAA AAA TAA AAA TAA TAG TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * *
63548188 -AA TAA TAG TAA AAA TAA -AGA -AA CAT TAA TAA TAA -AA TCAG GAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA
* * * * *
63548231 TAA TAA TAA CAA CAA TAG T-A TAA -AA -AA TAA TAA TAG TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63548276 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
63548314 TGTAAAGAAT
Statistics
Matches: 166, Mismatches: 41, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
2 12 0.07
3 150 0.90
4 4 0.02
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:63548503 original size:16 final size:15
Alignment explanation
Indices: 63548477--63548506 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
63548467 CAAATTTAAA
63548477 ATAAAAAATAAACAT
1 ATAAAAAATAAACAT
63548492 ATAAAGAAATAAACA
1 ATAAA-AAATAAACA
63548507 AATGAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
ATAAAAAATAAACAT
Found at i:63548578 original size:21 final size:22
Alignment explanation
Indices: 63548554--63548594 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
63548544 ATAACAATCT
63548554 ATAAA-GGTTGAAATT-AAATGA
1 ATAAAGGGTT-AAATTGAAATGA
63548575 ATAAAGGGTTAAATTGAAAT
1 ATAAAGGGTTAAATTGAAAT
63548595 TTGAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (22 bp):
ATAAAGGGTTAAATTGAAATGA
Found at i:63550479 original size:46 final size:44
Alignment explanation
Indices: 63550377--63550484 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
63550367 TGTCTTTGAC
* * * * *
63550377 ATGGACTTACATGAATTATTCCTGTCTCTAATGCCATATATAAT
1 ATGGACTTACATGACTCAATCCTGTCTCCAAAGCCATATATAAT
* * *
63550421 ATGAACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGACTCAATCCTGTCTCCAAAGCCATA--TATAAT
63550467 ATGGACTTACATGACTCA
1 ATGGACTTACATGACTCA
63550485 TTTCTGTTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 31 0.60
46 21 0.40
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGACTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:63552263 original size:21 final size:22
Alignment explanation
Indices: 63552239--63552280 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63552229 GTTTTCTTTA
*
63552239 GGTTTGGGT-TAATTGGGCTAG
1 GGTTTAGGTCTAATTGGGCTAG
*
63552260 GGTTTAGGTCTAGTTGGGCTA
1 GGTTTAGGTCTAATTGGGCTA
63552281 AGTCTGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGGTCTAATTGGGCTAG
Found at i:63552334 original size:31 final size:31
Alignment explanation
Indices: 63552296--63552385 Score: 144
Period size: 31 Copynumber: 2.9 Consensus size: 31
63552286 GTTGGGTTTG
* * *
63552296 GGTTTTGGGTTTTCATGGATTTAGGGATTTA
1 GGTTTTGGGTTGTAATGGGTTTAGGGATTTA
*
63552327 GGTTTTGGGTTGTAATGGGTTTAGGGATTTG
1 GGTTTTGGGTTGTAATGGGTTTAGGGATTTA
63552358 GGTTTTGGGTTGTAATGGGTTTAGGGAT
1 GGTTTTGGGTTGTAATGGGTTTAGGGAT
63552386 AAATTGGGCC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.14, C:0.01, G:0.39, T:0.46
Consensus pattern (31 bp):
GGTTTTGGGTTGTAATGGGTTTAGGGATTTA
Found at i:63553080 original size:75 final size:75
Alignment explanation
Indices: 63552992--63553153 Score: 225
Period size: 75 Copynumber: 2.1 Consensus size: 75
63552982 TGGCGAATAG
* * *
63552992 AAATTAAAAATACCTTAGCGTGTGACCCAAGGCTCAACTTACCTCTCATAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
*
63553057 TTTGAAGCAT
66 CTTGAAGCAT
* * * *
63553067 AAATTGAAGATACCTCAGCGTGTGACCCGAGGGTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
*
63553132 CTTGAAAAGCAG
66 CTTG--AAGCAT
63553144 AAATTAAAAA
1 AAATTAAAAA
63553154 ATAGAAATTG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 61 0.82
77 13 0.18
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (75 bp):
AAATTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
CTTGAAGCAT
Found at i:63553259 original size:64 final size:64
Alignment explanation
Indices: 63553154--63553347 Score: 264
Period size: 64 Copynumber: 3.0 Consensus size: 64
63553144 AAATTAAAAA
* * * * *
63553154 ATAGAAATTGAAAATATCTCGGCATGTGGCCCGAAGG-TCAACTCACCTCTCGCAATATGAGTTG
1 ATAGAAACTAAAAATATCTCAGCGTGTGACCCG-AGGCTCAACTCACCTCTCGCAATATGAGTTG
*
63553218 ATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 ATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * * * *
63553282 ATAGAAACTAAAAATACCTCAGAGTGTGATCCGGGGCTCAACTCACCTCTCACTATATGAGTTG
1 ATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
63553346 AT
1 AT
63553348 TTTTTTGAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
63 3 0.03
64 113 0.97
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
ATAGAAACTAAAAATATCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
Found at i:63559247 original size:53 final size:53
Alignment explanation
Indices: 63559162--63559285 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 53
63559152 AGCCATATCC
* * * *
63559162 CGGAATCACATTATCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATA
1 CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
*
63559215 CGGAGTCACATTATCACATTGCACCGATGCCATAGCCCAGCTACGGTCTTAAA
1 CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
63559268 CGG-G-CACACTTATCACAT
1 CGGAGTCACA-TTATCACAT
63559286 ATTTTTCGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 4 0.06
52 10 0.15
53 51 0.78
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (53 bp):
CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
Found at i:63566736 original size:53 final size:53
Alignment explanation
Indices: 63566651--63566774 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 53
63566641 AGCCATATCC
* * * *
63566651 CGGAATCACATTATCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATA
1 CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
*
63566704 CGGAGTCACATTATCACATTGCACCGATGCCATAGCCCAGCTACGGTCTTAAA
1 CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
63566757 CGG-G-CACACTTATCACAT
1 CGGAGTCACA-TTATCACAT
63566775 ATTTTTCGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 4 0.06
52 10 0.15
53 51 0.78
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (53 bp):
CGGAGTCACATTATCACATTACACCGATGCCATAGCCCAGCTACGGTCTTAAA
Found at i:63575634 original size:3 final size:3
Alignment explanation
Indices: 63575588--63575809 Score: 73
Period size: 3 Copynumber: 74.7 Consensus size: 3
63575578 ATATATATGT
* * * * * *
63575588 TAA TAA TGA TGA TAA TGA TAA TAG TAA TAGA AAA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * * * * * * *
63575633 T-A TAA TAT TAG CAA TAG CAA TAA AAA TAA AAA TAA TAG TCA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
63575680 TGA TAG TAGA -AA TAA TAG TAA AAA TAAA GAA TACA TTAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TA-A -TAA TAA TAA TAA
* * * *
63575728 -AA TCAG GAA TAA TAA TAA TAA CAA TAG T-A TAA -AA -AA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
63575770 TAG TGA TAA TGA CAA TAA -AA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
63575810 TCAATAAATA
Statistics
Matches: 152, Mismatches: 54, Indels: 26
0.66 0.23 0.11
Matches are distributed among these distances:
2 14 0.09
3 129 0.85
4 7 0.05
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:63577249 original size:31 final size:31
Alignment explanation
Indices: 63577214--63577276 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
63577204 GTCTGTTGGG
* *
63577214 TTTGGGTATTGGGTTTTCATGGATTTAGGGA
1 TTTGGGTATTGGGTTGTAATGGATTTAGGGA
* *
63577245 TTTGGGTTTTGGGTTGTAATGGGTTTAGGGA
1 TTTGGGTATTGGGTTGTAATGGATTTAGGGA
63577276 T
1 T
63577277 AAATTGGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.14, C:0.02, G:0.38, T:0.46
Consensus pattern (31 bp):
TTTGGGTATTGGGTTGTAATGGATTTAGGGA
Found at i:63579247 original size:25 final size:25
Alignment explanation
Indices: 63579196--63579248 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
63579186 TCTCTAGGTT
* *
63579196 AAACAGAGTTTAAATGGGAAACTAG
1 AAACAGAGTTTAAATAGGAAACAAG
* * *
63579221 AAACAGAGTTTAATTAGGAGAGAAG
1 AAACAGAGTTTAAATAGGAAACAAG
63579246 AAA
1 AAA
63579249 ATCAAAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.25, T:0.19
Consensus pattern (25 bp):
AAACAGAGTTTAAATAGGAAACAAG
Found at i:63586689 original size:25 final size:25
Alignment explanation
Indices: 63586626--63586692 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
63586616 CTTTGTTATT
*
63586626 TTATGTATATAGTTTCTTTTAAATCTA
1 TTATGTATATAG-TT-TATTAAATCTA
*
63586653 -T-T-TATATAGTTTATTAAATTTA
1 TTATGTATATAGTTTATTAAATCTA
63586675 TTATGTATATAGTTTATT
1 TTATGTATATAGTTTATT
63586693 TTTTAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 8 0.23
25 14 0.40
26 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATGTATATAGTTTATTAAATCTA
Found at i:63588373 original size:99 final size:99
Alignment explanation
Indices: 63588202--63588388 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 99
63588192 TAAAAATTTC
* * *
63588202 TCCTTGCATTTTGGATCGAGCCTCCATTGTTGGGAAGTCTCCACCTAATTCTTCACTAAATTTGG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
63588267 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
66 TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
* *
63588301 TCCTTGCATTTTGGATTGAGCCTCTATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
1 TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
*
63588366 TACATTTAAGTCTCTTTTTTTTA
66 TACATTTAAGTCTCCTTTTTTTA
63588389 TATTTTATCT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (99 bp):
TCCTTGCATTTTGGATCGAGCCTCCATGGTTGGGAAGTCTCCACCTAATTCTTCACCAAATTTAG
TACATTTAAGTCTCCTTTTTTTAGTAAGACTTTT
Found at i:63596212 original size:21 final size:21
Alignment explanation
Indices: 63596186--63596261 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
63596176 ACCATTGTTT
* *
63596186 CTAATCTCACCGCTATAGTAC
1 CTAATCTCACCGCTACAGTAA
*
63596207 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
63596228 CTAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
63596249 CTAATCTCACCGC
1 CTAATCTCACCGC
63596262 CACCGCTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.30, C:0.37, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:63600661 original size:21 final size:21
Alignment explanation
Indices: 63600635--63600675 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63600625 AGACAAGCGA
* *
63600635 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63600656 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63600676 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:63602616 original size:16 final size:16
Alignment explanation
Indices: 63602597--63602627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63602587 ACATTATTGA
*
63602597 TTAATGGCAGACAATT
1 TTAATGGCAAACAATT
63602613 TTAATGGCAAACAAT
1 TTAATGGCAAACAAT
63602628 CCAAGTGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TTAATGGCAAACAATT
Found at i:63605487 original size:46 final size:46
Alignment explanation
Indices: 63605435--63605702 Score: 358
Period size: 46 Copynumber: 5.8 Consensus size: 46
63605425 AGTGTGCTCT
* *
63605435 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
63605481 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
63605527 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63605573 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATTCCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
63605619 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
63605666 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
63605703 TATGACATCA
Statistics
Matches: 201, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 160 0.80
47 41 0.20
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63611833 original size:22 final size:22
Alignment explanation
Indices: 63611778--63611833 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
63611768 ATGACTTAAT
*
63611778 TATGGAAATTATAAATTAAAAA
1 TATGAAAATTATAAATTAAAAA
* *
63611800 T-TGGAGATTTATAAATTAAAAA
1 TAT-GAAAATTATAAATTAAAAA
63611822 TATGAAAATTAT
1 TATGAAAATTAT
63611834 GGTATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
TATGAAAATTATAAATTAAAAA
Found at i:63612499 original size:26 final size:24
Alignment explanation
Indices: 63612469--63612518 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
63612459 AAATAAAAAA
*
63612469 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
63612495 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
63612519 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:63612623 original size:15 final size:16
Alignment explanation
Indices: 63612593--63612625 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
63612583 AAATGGTTAT
63612593 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
63612610 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
63612625 A
1 A
63612626 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:63612660 original size:5 final size:5
Alignment explanation
Indices: 63612650--63612681 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
63612640 ATATATAATT
63612650 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC C
63612682 AAAAAACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:63614731 original size:140 final size:141
Alignment explanation
Indices: 63614479--63614743 Score: 514
Period size: 140 Copynumber: 1.9 Consensus size: 141
63614469 ATAATTTCCA
63614479 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
*
63614544 AGGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCC-CCCCCCCCCCAAAAA
66 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCGCCCCCCCCCCAAAAA
63614608 AAAAAAAACCC
131 AAAAAAAACCC
63614619 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
1 AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
63614684 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCGCCCCCCCCCC
66 ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCGCCCCCCCCCC
63614744 CCCAAACCCC
Statistics
Matches: 123, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
140 113 0.92
141 10 0.08
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (141 bp):
AAATAGTAGTATGTTTGGGCACAAAAAGGCAGCATAGCATTATATCATATCAATTATATTATTAA
ACGGGGAAATGATTTTAGGGATGTCTCTCTGCAGGGATTTAAGACCCCCGCCCCCCCCCCAAAAA
AAAAAAAACCC
Found at i:63625681 original size:44 final size:43
Alignment explanation
Indices: 63625609--63625731 Score: 142
Period size: 44 Copynumber: 2.9 Consensus size: 43
63625599 ATATGTGTTC
** * *
63625609 TCGTGTAAGACCACATCTGGGACGTTGGCATCGATTTATGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* *
63625652 TACGTGCAAGACCATGTCTGAGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* *
63625695 TCGTGTAAGACTC-TGTCTGGGACAGTGGAATCGATAT
1 TCGTGTAAGAC-CATGTCTGGGACATTGGCATCGATAT
63625732 TTAGTTACAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.39
43 14 0.21
44 27 0.40
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
Found at i:63634479 original size:17 final size:17
Alignment explanation
Indices: 63634459--63634514 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
63634449 ATTTGACACA
63634459 AATATATATTCAACATT
1 AATATATATTCAACATT
* *
63634476 AATAAATA-TCAACTTTT
1 AATATATATTCAAC-ATT
* * *
63634493 AATTTATATTCGACATG
1 AATATATATTCAACATT
63634510 AATAT
1 AATAT
63634515 TATAGAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (17 bp):
AATATATATTCAACATT
Found at i:63634886 original size:10 final size:10
Alignment explanation
Indices: 63634867--63634926 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
63634857 CTAAAAAATA
*
63634867 CAAAAAAATT
1 CAAAATAATT
63634877 CAAAATAATTT
1 CAAAATAA-TT
*
63634888 TAAAA-AATT
1 CAAAATAATT
63634897 CAAAATAATTT
1 CAAAATAA-TT
*
63634908 TAAAA-AATT
1 CAAAATAATT
63634917 CAAAATAATT
1 CAAAATAATT
63634927 TTTAAAATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 12 0.29
10 17 0.41
11 12 0.29
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.32
Consensus pattern (10 bp):
CAAAATAATT
Found at i:63634894 original size:20 final size:20
Alignment explanation
Indices: 63634869--63634954 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
63634859 AAAAAATACA
63634869 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
63634889 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
63634909 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* * *
63634929 -TAAAATT-GAAATTATTTAT
1 AAAAAATTCAAAATAATTT-T
63634948 AAAAAAT
1 AAAAAAT
63634955 CTAAAAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.13
19 7 0.12
20 45 0.75
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:63648352 original size:10 final size:10
Alignment explanation
Indices: 63648337--63648362 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
63648327 CTATATACCT
63648337 ACACACCCAC
1 ACACACCCAC
63648347 ACACACCCAC
1 ACACACCCAC
63648357 ACACAC
1 ACACAC
63648363 ATATACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (10 bp):
ACACACCCAC
Found at i:63652025 original size:24 final size:25
Alignment explanation
Indices: 63651906--63652035 Score: 140
Period size: 25 Copynumber: 5.2 Consensus size: 25
63651896 CATAGCTCTT
* *
63651906 ATGAGCTTCCCGATAGTT-AGCTCGC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
*
63651931 ATGAGCTTGCCGTTACTT-AGCTCAC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
63651956 ATGAGCTTCCCGTTATTCAGCTCAC
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
63651981 ATGAGTTTTCCGTTATTCAGCTCAG
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
63652006 AGGAGCTTCCCGTT-TACAGCTCAT
1 ATGAGCTTCCCGTTATTCAGCTCAC
63652030 ATGAGC
1 ATGAGC
63652036 ATATATGAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
24 15 0.17
25 75 0.83
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCAC
Found at i:63652985 original size:12 final size:12
Alignment explanation
Indices: 63652968--63652994 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63652958 AAAATAGTAG
63652968 TATATGTATATA
1 TATATGTATATA
63652980 TATATGTATATA
1 TATATGTATATA
63652992 TAT
1 TAT
63652995 TTATCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATGTATATA
Found at i:63655792 original size:20 final size:17
Alignment explanation
Indices: 63655767--63655819 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
63655757 TTCTTTATTA
63655767 AATATTGTTATTATTATTC
1 AATATT-TTATTATTA-TC
*
63655786 TAATATTATTAATATTATC
1 -AATATT-TTATTATTATC
63655805 AATATATTTATTATT
1 AATAT-TTTATTATT
63655820 TTTAGTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 12 0.41
19 3 0.10
20 14 0.48
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (17 bp):
AATATTTTATTATTATC
Found at i:63656343 original size:14 final size:14
Alignment explanation
Indices: 63656324--63656351 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63656314 TTATGTTATG
63656324 TTTTAATACCATAT
1 TTTTAATACCATAT
63656338 TTTTAATACCATAT
1 TTTTAATACCATAT
63656352 ATATTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAATACCATAT
Found at i:63656680 original size:26 final size:25
Alignment explanation
Indices: 63656642--63656713 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
63656632 TTTCTAATAC
*
63656642 TATATTATGTTTTCATATATAT-TATG
1 TATA-TAT-TTTTAATATATATATATG
63656668 TATATACATTTTTAATAT-TATATATG
1 TATAT--ATTTTTAATATATATATATG
*
63656694 TGTATATTTTTAATATATAT
1 TATATATTTTTAATATATAT
63656714 GCGTATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 11 0.28
25 7 0.17
26 20 0.50
27 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATATTTTTAATATATATATATG
Found at i:63656712 original size:21 final size:20
Alignment explanation
Indices: 63656686--63656730 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
63656676 TTTTTAATAT
* *
63656686 TATATATGTGTATATTTTTAA
1 TATATATGCGTATATATTT-A
63656707 TATATATGCGTATATATTTA
1 TATATATGCGTATATATTTA
63656727 TATA
1 TATA
63656731 GTATTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
TATATATGCGTATATATTTA
Found at i:63656722 original size:23 final size:24
Alignment explanation
Indices: 63656670--63656725 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
63656660 ATATTATGTA
* *
63656670 TATACATTTTTAATATTATATATG
1 TATATATTTTTAATATTATATACG
* *
63656694 TGTATATTTTTAATA-TATATGCG
1 TATATATTTTTAATATTATATACG
63656717 TATATATTT
1 TATATATTT
63656726 ATATAGTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (24 bp):
TATATATTTTTAATATTATATACG
Found at i:63657019 original size:11 final size:11
Alignment explanation
Indices: 63656999--63657030 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
63656989 CTAATATAGG
63656999 TATATATTATA
1 TATATATTATA
*
63657010 TATATTTTATA
1 TATATATTATA
63657021 TATATATTAT
1 TATATATTAT
63657031 GTACTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATATTATA
Found at i:63658722 original size:3 final size:3
Alignment explanation
Indices: 63658716--63658807 Score: 82
Period size: 3 Copynumber: 31.0 Consensus size: 3
63658706 AAAAGAAAGA
* * * *
63658716 AAT AAT AAT AGT AA- AAA AAT AAT AGT AAT AAT AAT AAT AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
63658761 AAT AAT AAT AA- AAT AAGG AAT AAT AAT AAT AA- AAC AAT AAT AGT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
63658805 AAT
1 AAT
63658808 TGTAACGACC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
2 6 0.08
3 62 0.86
4 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:63658731 original size:26 final size:26
Alignment explanation
Indices: 63658700--63658765 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
63658690 AATTTTAAAA
*
63658700 TAAAAAAAAAGAAAGAAATAATAATAG
1 TAAAAAAATA-AAAGAAATAATAATAG
* * *
63658727 TAAAAAAATAATAGTAATAATAATAA
1 TAAAAAAATAAAAGAAATAATAATAG
63658753 TAGAAAATAATAA
1 TA-AAAA-AATAA
63658766 TAATAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.45
27 13 0.39
28 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (26 bp):
TAAAAAAATAAAAGAAATAATAATAG
Found at i:63659134 original size:5 final size:5
Alignment explanation
Indices: 63659120--63659165 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
63659110 TATATTAAAT
*
63659120 TATTA TTATTA TATTA TAGTA TATTA TATTATA TATTA TATTA TAT
1 TATTA -TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TAT
63659166 AAATAAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 25 0.69
6 7 0.19
7 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:63659144 original size:10 final size:9
Alignment explanation
Indices: 63659107--63659166 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
63659097 ATGTGTTAAA
63659107 ATATATATT
1 ATATATATT
*
63659116 AAAT-TATT
1 ATATATATT
63659124 ATTATTATATT
1 A-TA-TATATT
63659135 ATAGTATATT
1 ATA-TATATT
63659145 ATAT-TA-T
1 ATATATATT
63659152 ATATTATATT
1 ATA-TATATT
63659162 ATATA
1 ATATA
63659167 AATAAGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 4 0.10
8 8 0.19
9 9 0.21
10 16 0.38
11 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATATATT
Found at i:63659156 original size:12 final size:12
Alignment explanation
Indices: 63659108--63659166 Score: 64
Period size: 12 Copynumber: 4.5 Consensus size: 12
63659098 TGTGTTAAAA
*
63659108 TATATATTAAAT
1 TATATATTATAT
63659120 TATTATTATTATATT
1 TA-TA-TATTATA-T
63659135 ATAGTATATTATAT
1 -TA-TATATTATAT
63659149 TATATATTATAT
1 TATATATTATAT
63659161 TATATA
1 TATATA
63659167 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 18 0.44
13 4 0.10
14 7 0.17
15 8 0.20
16 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:63660499 original size:18 final size:19
Alignment explanation
Indices: 63660476--63660514 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
63660466 ATATATAGAT
63660476 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
63660494 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
63660513 AT
1 AT
63660515 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:63660864 original size:39 final size:39
Alignment explanation
Indices: 63660754--63660888 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
63660744 GACCTCGAGT
* * * *
63660754 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
63660795 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
63660833 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
63660872 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
63660889 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:63661032 original size:18 final size:19
Alignment explanation
Indices: 63661011--63661051 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
63661001 AATGAAATGA
63661011 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
63661029 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
63661048 GAAA
1 GAAA
63661052 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:63661875 original size:3 final size:3
Alignment explanation
Indices: 63661764--63661854 Score: 92
Period size: 3 Copynumber: 30.0 Consensus size: 3
63661754 GGCGTTACAG
* * * *
63661764 TAA TAA TAA TAA TAA TGA TAG TAA TAA TAA TAG TAA TAA TAGA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * *
63661810 TAA TAG TAA TAG TAA TAG TAA AAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63661855 ATAAATAAAT
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
3 67 0.97
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:63662568 original size:12 final size:12
Alignment explanation
Indices: 63662551--63662585 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
63662541 ATTTAGTCCA
63662551 TTTTCTTTTTTC
1 TTTTCTTTTTTC
*
63662563 TTTTCTATTTTC
1 TTTTCTTTTTTC
63662575 -TTTCTTTTTTC
1 TTTTCTTTTTTC
63662586 CTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:63662589 original size:12 final size:12
Alignment explanation
Indices: 63662552--63662589 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
63662542 TTTAGTCCAT
*
63662552 TTTCTTTTTTCT
1 TTTCTTTTTTCC
*
63662564 TTTCTATTTT-C
1 TTTCTTTTTTCC
63662575 TTTCTTTTTTCC
1 TTTCTTTTTTCC
63662587 TTT
1 TTT
63662590 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTCC
Found at i:63674193 original size:5 final size:5
Alignment explanation
Indices: 63674183--63674210 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
63674173 CTGTGTGTTC
63674183 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
63674211 CACAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:63679926 original size:5 final size:5
Alignment explanation
Indices: 63679916--63679943 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
63679906 CTGTGTGTTC
63679916 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
63679944 CACAACTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:63681365 original size:21 final size:22
Alignment explanation
Indices: 63681339--63681379 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
63681329 ATGAAAAGAT
*
63681339 GATAATAAAATAAT-AATAATG
1 GATAATAAAAAAATCAATAATG
63681360 GATAATAAAAAAATCAATAA
1 GATAATAAAAAAATCAATAA
63681380 AAAGGAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
GATAATAAAAAAATCAATAATG
Found at i:63687157 original size:17 final size:17
Alignment explanation
Indices: 63687103--63687157 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
63687093 TTAAAAATAA
*
63687103 ATATAATATAATAGTA-
1 ATATAAAATAATAGTAT
63687119 ATATTAAAATAA-AGT-T
1 ATA-TAAAATAATAGTAT
*
63687135 AT-TAAAATAATACTAT
1 ATATAAAATAATAGTAT
63687151 ATATAAA
1 ATATAAA
63687158 TGTACGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 11 0.34
17 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (17 bp):
ATATAAAATAATAGTAT
Found at i:63687185 original size:13 final size:14
Alignment explanation
Indices: 63687167--63687197 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
63687157 ATGTACGAAT
63687167 ATATACATATA-TA
1 ATATACATATATTA
63687180 ATATACATATATTA
1 ATATACATATATTA
63687194 ATAT
1 ATAT
63687198 TAATATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:63687286 original size:3 final size:3
Alignment explanation
Indices: 63687243--63687343 Score: 63
Period size: 3 Copynumber: 34.3 Consensus size: 3
63687233 ACTTTTTAAA
* *
63687243 AAT AATT AAT AA- ATT AAT AA- AAT AAC AAT AAT GAA- AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *
63687287 AACT -GT AAT AAT AA- AGAT AAT AAT AGA- AAT AA- AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
*
63687331 AAT ATT AAT AAT A
1 AAT AAT AAT AAT A
63687344 TGTAAAAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
2 10 0.13
3 58 0.76
4 8 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:63689164 original size:23 final size:22
Alignment explanation
Indices: 63689138--63689180 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
63689128 AAATTAAAAA
*
63689138 TATTATTATTTTTTAATTTTACT
1 TATTATT-TTATTTAATTTTACT
*
63689161 TATTATTTTATTTATTTTTA
1 TATTATTTTATTTAATTTTA
63689181 AAATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTATTTTATTTAATTTTACT
Found at i:63689187 original size:23 final size:23
Alignment explanation
Indices: 63689134--63689192 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
63689124 TAAAAAATTA
*
63689134 AAAATATTATTATTTTTTAATTTT
1 AAAATATTATT-TTATTTAATTTT
** *
63689158 -ACTTATTATTTTATTTATTTTT
1 AAAATATTATTTTATTTAATTTT
*
63689180 AAAATATTTTTTT
1 AAAATATTATTTT
63689193 TATAGTTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
AAAATATTATTTTATTTAATTTT
Found at i:63704559 original size:25 final size:25
Alignment explanation
Indices: 63704531--63704603 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 25
63704521 ATGAATATGA
*
63704531 ATAAAAAATATTTAAAATTATATTT
1 ATAAAAAATATTTAAAATTATATAT
*
63704556 ATAAATAAATTTATATAAAATTACTATAT
1 ATAAA-AAA--TATTTAAAATTA-TATAT
*
63704585 AT-AAAAAT-TTAAAAATTAT
1 ATAAAAAATATTTAAAATTAT
63704604 GATGTTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
23 1 0.03
24 8 0.20
25 6 0.15
26 3 0.08
27 3 0.08
28 13 0.32
29 6 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
ATAAAAAATATTTAAAATTATATAT
Found at i:63705041 original size:2 final size:2
Alignment explanation
Indices: 63705034--63705064 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
63705024 TTCTGCAACT
63705034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63705065 TTTATTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63705602 original size:24 final size:23
Alignment explanation
Indices: 63705565--63705615 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
63705555 TACAATTAAG
* *
63705565 TTTTAAATATAATTTTATTTTTAT
1 TTTTAAATAGAA-TTTATTTATAT
*
63705589 TTTTAATTAGAATTTATTTATAT
1 TTTTAAATAGAATTTATTTATAT
63705612 TTTT
1 TTTT
63705616 TAATGATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTAAATAGAATTTATTTATAT
Found at i:63706616 original size:20 final size:21
Alignment explanation
Indices: 63706574--63706630 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
63706564 TTAGAATCTT
63706574 TTTAGAAAA-TTTTAAAACTTTA
1 TTTA-AAAATTTTTAAAAC-TTA
63706596 TTTAAAAATTTTTAAAA-TTA
1 TTTAAAAATTTTTAAAACTTA
*
63706616 -TTAAATATATTTTAA
1 TTTAAAAAT-TTTTAA
63706631 TTTATAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 4 0.12
22 12 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAAATTTTTAAAACTTA
Found at i:63706894 original size:21 final size:22
Alignment explanation
Indices: 63706856--63706897 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
63706846 TTTTATATGT
63706856 TAAATGTAATTTTGATTTTAAA
1 TAAATGTAATTTTGATTTTAAA
* *
63706878 TAAAT-TATTTTTTATTTTAA
1 TAAATGTAATTTTGATTTTAA
63706898 TATTTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TAAATGTAATTTTGATTTTAAA
Found at i:63711105 original size:24 final size:24
Alignment explanation
Indices: 63711065--63711110 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
63711055 ACAAGCATGT
*
63711065 AAGTGCTAATAATCACGAGCACTG
1 AAGTGCTAAGAATCACGAGCACTG
63711089 AAGTGCTAAGGAA-CACGAGCAC
1 AAGTGCTAA-GAATCACGAGCAC
63711111 ATAGATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (24 bp):
AAGTGCTAAGAATCACGAGCACTG
Found at i:63717782 original size:21 final size:19
Alignment explanation
Indices: 63717756--63717794 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
63717746 AATTAAGTAA
63717756 TTAAAATTATTAAAATTATAT
1 TTAAAATTA--AAAATTATAT
63717777 TTAAAATTAAAAATTATA
1 TTAAAATTAAAAATTATA
63717795 ATATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATTAAAAATTATAT
Found at i:63717784 original size:27 final size:27
Alignment explanation
Indices: 63717754--63717806 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63717744 TAAATTAAGT
*
63717754 AATT-AAAATTATTAAAATTATATTTAA
1 AATTAAAAATTA-TAAAATTAAATTTAA
*
63717781 AATTAAAAATTATAATATTAAATTTA
1 AATTAAAAATTATAAAATTAAATTTA
63717807 TATATTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTAAAAATTATAAAATTAAATTTAA
Found at i:63717801 original size:21 final size:21
Alignment explanation
Indices: 63717755--63717808 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
63717745 AAATTAAGTA
63717755 ATTAAAATTATTAAAATTATAT
1 ATTAAAATTA-TAAAATTATAT
63717777 -TTAAAATTA-AAAATTATAAT
1 ATTAAAATTATAAAATTAT-AT
*
63717797 ATTAAATTTATA
1 ATTAAAATTATA
63717809 TATTTGTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.29
20 2 0.07
21 17 0.61
22 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATTATAAAATTATAT
Found at i:63721289 original size:12 final size:12
Alignment explanation
Indices: 63721239--63721309 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
63721229 TTATTATTGC
63721239 TATTATTATCAT
1 TATTATTATCAT
* *
63721251 TAGTATTATTAT
1 TATTATTATCAT
*
63721263 TATTATTA-CTGT
1 TATTATTATC-AT
63721275 TATTATTATCAT
1 TATTATTATCAT
*
63721287 TATAGTATCATCAT
1 TAT--TATTATCAT
*
63721301 CATTATTAT
1 TATTATTAT
63721310 TGTCAAAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
12 35 0.76
13 1 0.02
14 10 0.22
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:63721310 original size:3 final size:3
Alignment explanation
Indices: 63721198--63721289 Score: 78
Period size: 3 Copynumber: 30.7 Consensus size: 3
63721188 TCCTATCAAC
* * * **
63721198 ATT ATT GTT ATT ATT ACT ATT ATG ATT -TCT ATT ATT ATT GCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * *
63721243 ATT ATC ATT AGT ATT ATT ATT ATT ATT ACT GTT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
63721290 AGTATCATCA
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
2 1 0.01
3 65 0.97
4 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:63722287 original size:26 final size:24
Alignment explanation
Indices: 63722258--63722386 Score: 99
Period size: 24 Copynumber: 5.4 Consensus size: 24
63722248 AAAAAATAAG
*
63722258 TTTAAAATAGATATTATAAAAAGCAA
1 TTTAAAATAGATAATAT-AAAA-CAA
* *
63722284 TTTAAAGT-GAATAGTATAAAACAA
1 TTTAAAATAG-ATAATATAAAACAA
63722308 TTTAAAATA-ATTAATATGTAAAACAA
1 TTTAAAATAGA-TAATA--TAAAACAA
*
63722334 TTTAAAAT--A-AA-ATAAAGCAA
1 TTTAAAATAGATAATATAAAACAA
* * *
63722354 CTTAAAATAAATAATATATAACAA
1 TTTAAAATAGATAATATAAAACAA
63722378 TTTAAAATA
1 TTTAAAATA
63722387 ACATGTTGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
20 14 0.16
22 2 0.02
23 5 0.06
24 29 0.34
25 6 0.07
26 29 0.34
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TTTAAAATAGATAATATAAAACAA
Found at i:63722369 original size:46 final size:46
Alignment explanation
Indices: 63722299--63722437 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 46
63722289 AGTGAATAGT
* * *
63722299 ATAAAACAATTTAAAATAATTAATATGTAAAACAATTTAAAATAAA
1 ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
* *
63722345 ATAAAGCAACTTAAAATAAATAATA--TATAACAATTTAAAATAAC
1 ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
*** * * * *
63722389 ATGTTGAAAGTCTAGAATAAATAATATGTCAAAAGAAATTTAAAATAAA
1 ATAAAGCAACT-TAAAATAAATAATATGT-AAAA-CAATTTAAAATAAA
63722438 TGACATGTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
44 23 0.31
45 13 0.18
46 22 0.30
47 1 0.01
48 3 0.04
49 12 0.16
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (46 bp):
ATAAAGCAACTTAAAATAAATAATATGTAAAACAATTTAAAATAAA
Found at i:63722494 original size:24 final size:23
Alignment explanation
Indices: 63722467--63722511 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
63722457 TATGAAAAGT
*
63722467 TTAATAGAAATAATATATAAAATC
1 TTAAAAGAAATAATA-ATAAAATC
**
63722491 TTAAAATTAATAATAATAAAA
1 TTAAAAGAAATAATAATAAAA
63722512 AGGTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAAGAAATAATAATAAAATC
Found at i:63724577 original size:23 final size:22
Alignment explanation
Indices: 63724547--63724593 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
63724537 TTCACTAGAA
*
63724547 TTTTCTTTGTTATTTCATTTAT
1 TTTTCTTTATTATTTCATTTAT
*
63724569 TTTTCCTTTATTATTTTATTTAT
1 TTTT-CTTTATTATTTCATTTAT
63724592 TT
1 TT
63724594 ATTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCTTTATTATTTCATTTAT
Found at i:63726470 original size:87 final size:87
Alignment explanation
Indices: 63726371--63726617 Score: 291
Period size: 87 Copynumber: 2.8 Consensus size: 87
63726361 ACTTAATTAC
* ** *
63726371 TTTTTTGAAAAAATTTGAGGGTCTTTTTGATGTATTTTGAAAGTTCAAATACTCAATTGAGTGAA
1 TTTTTTGAAAAAATTTAAGGGTCTTTTT-ATAAATTTTGAAAGTTCAAGTACTCAATTGAGTGAA
* *
63726436 AAAAAAGCAGGGGCCTAATTAAT
65 AAAAAAACAGGGACCTAATTAAT
* *
63726459 TTTTTTGAAAAAATTTAAGGG-CATTTTTATAAATTTTGAAAGTTTAAGTA-TCCAATTGAGTAA
1 TTTTTTGAAAAAATTTAAGGGTC-TTTTTATAAATTTTGAAAGTTCAAGTACT-CAATTGAGTGA
* *
63726522 AAAAAAAATAGGGACCTAATTACT
64 AAAAAAAACAGGGACCTAATTAAT
* * * * * * *
63726546 TTTTTTGAAGAAATTTAAGAGTTTTTTTATACATTTTAAAAGTTCAAGTGCTCAATTAAGTAGAA
1 TTTTTTGAAAAAATTTAAGGGTCTTTTTATAAATTTTGAAAGTTCAAGTACTCAATTGAGT-GAA
63726611 AAAAAAA
65 AAAAAAA
63726618 GCTTAATTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
86 1 0.01
87 99 0.73
88 35 0.26
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (87 bp):
TTTTTTGAAAAAATTTAAGGGTCTTTTTATAAATTTTGAAAGTTCAAGTACTCAATTGAGTGAAA
AAAAAACAGGGACCTAATTAAT
Found at i:63730525 original size:20 final size:20
Alignment explanation
Indices: 63730496--63730559 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
63730486 TTAATACTTG
* *
63730496 AAAGGCTACTTCAAATATTA
1 AAAGGTTACTTAAAATATTA
* * *
63730516 AAAGGTTACTTGTAAATAATG
1 AAAGGTTACTT-AAAATATTA
*
63730537 AAAGGTTACTTAAAACATTA
1 AAAGGTTACTTAAAATATTA
63730557 AAA
1 AAA
63730560 TAGTTTTTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAGGTTACTTAAAATATTA
Found at i:63730532 original size:21 final size:21
Alignment explanation
Indices: 63730508--63730547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63730498 AGGCTACTTC
*
63730508 AAATATTAAAAGGTTACTTGT
1 AAATAATAAAAGGTTACTTGT
*
63730529 AAATAATGAAAGGTTACTT
1 AAATAATAAAAGGTTACTT
63730548 AAAACATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (21 bp):
AAATAATAAAAGGTTACTTGT
Found at i:63731757 original size:26 final size:26
Alignment explanation
Indices: 63731696--63731762 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 26
63731686 ATTAAACCTT
*
63731696 TATTATTTAAT-TAATAATAATTAAAA
1 TATTA-TTAATATAATTATAATTAAAA
63731722 TATT-TT--TATAATTATAATTAAAA
1 TATTATTAATATAATTATAATTAAAA
63731745 -ATTATTAAATATAATTAT
1 TATTATT-AATATAATTAT
63731763 TGAATATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
22 4 0.11
23 16 0.46
24 2 0.06
26 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTATTAATATAATTATAATTAAAA
Found at i:63731852 original size:20 final size:21
Alignment explanation
Indices: 63731810--63731852 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
63731800 CAAATTATAA
*
63731810 AATTTTATTTAAAAATCATTT
1 AATTTTATTTAAAAATCAGTT
63731831 AATTTT-TTTAATAAAT-AGTT
1 AATTTTATTTAA-AAATCAGTT
63731851 AA
1 AA
63731853 CTCGAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTATTTAAAAATCAGTT
Found at i:63750629 original size:6 final size:6
Alignment explanation
Indices: 63750612--63750643 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
63750602 CGCCTTCTTC
63750612 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT T
63750644 GGGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:63753996 original size:22 final size:22
Alignment explanation
Indices: 63753971--63754013 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63753961 GGTCTTAAGA
63753971 ATTTAACTTCTGTTTTCTTTTC
1 ATTTAACTTCTGTTTTCTTTTC
* * *
63753993 ATTTCATTTCTGTTTTTTTTT
1 ATTTAACTTCTGTTTTCTTTT
63754014 AAATTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (22 bp):
ATTTAACTTCTGTTTTCTTTTC
Found at i:63755314 original size:30 final size:30
Alignment explanation
Indices: 63755280--63755341 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
63755270 TATTTTATTA
*
63755280 TTAATTTTGTTATTATTTTAAAAACATTTG
1 TTAATTTTGTTATTAATTTAAAAACATTTG
* *
63755310 TTAATTTTGTTATTAATTTAGAGACATTTG
1 TTAATTTTGTTATTAATTTAAAAACATTTG
63755340 TT
1 TT
63755342 TATTAAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (30 bp):
TTAATTTTGTTATTAATTTAAAAACATTTG
Found at i:63755728 original size:29 final size:30
Alignment explanation
Indices: 63755681--63755741 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
63755671 ACTTATTTTC
63755681 TTGTTAACTTTGTTATTATTTTAAAGGCAT
1 TTGTTAACTTTGTTATTATTTTAAAGGCAT
* *
63755711 TTGTTAA-TTTTTTATTATTTTAGAGGCAT
1 TTGTTAACTTTGTTATTATTTTAAAGGCAT
63755740 TT
1 TT
63755742 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAAAGGCAT
Found at i:63755860 original size:18 final size:18
Alignment explanation
Indices: 63755825--63755864 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
63755815 GAAATATTTA
*
63755825 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
63755843 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
63755863 TT
1 TT
63755865 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:63761688 original size:24 final size:24
Alignment explanation
Indices: 63761660--63761708 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
63761650 ATAGTAAGAG
63761660 TATTTTTCTCAAATAAATTATATT
1 TATTTTTCTCAAATAAATTATATT
63761684 TATTTTTCTCAAATAAATTATATT
1 TATTTTTCTCAAATAAATTATATT
63761708 T
1 T
63761709 TTGTGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTTTCTCAAATAAATTATATT
Found at i:63764319 original size:36 final size:36
Alignment explanation
Indices: 63764279--63764351 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
63764269 CATACTTCAA
63764279 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
1 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
63764315 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
1 GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
63764351 G
1 G
63764352 CCATCCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (36 bp):
GTTAACTTCTTTAGGGCTTTTTAGTAGGAGTCATAC
Found at i:63774625 original size:54 final size:54
Alignment explanation
Indices: 63774510--63774614 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
63774500 CGAAGCTGGG
* * *
63774510 ACACACGGCCGTGTCCCAACCCATGCCTTTACCCGTGTAACTCACTGACTTGAA
1 ACACACGGCCGTATCCCAACCCATACCTCTACCCGTGTAACTCACTGACTTGAA
* *
63774564 ACACACGGCCGTATCCCAACCCGTACCTCTGCCCGTGTAACAT-ACTGACTT
1 ACACACGGCCGTATCCCAACCCATACCTCTACCCGTGTAAC-TCACTGACTT
63774615 AGATCACACG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (54 bp):
ACACACGGCCGTATCCCAACCCATACCTCTACCCGTGTAACTCACTGACTTGAA
Found at i:63775607 original size:16 final size:17
Alignment explanation
Indices: 63775588--63775621 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63775578 AATGTCTATA
63775588 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
63775604 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
63775622 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:63778916 original size:17 final size:18
Alignment explanation
Indices: 63778896--63778933 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
63778886 TTAGTTAACT
*
63778896 TATAAATATA-ACATGTA
1 TATAAATATACACATGCA
63778913 TAT-AATATACACATGCA
1 TATAAATATACACATGCA
63778930 TATA
1 TATA
63778934 TCATTAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (18 bp):
TATAAATATACACATGCA
Found at i:63779817 original size:22 final size:22
Alignment explanation
Indices: 63779792--63779834 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63779782 TAGTTATACA
63779792 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
63779814 ATAATAGTAAAATTGTAGCAA
1 ATAATAACAAAATAGTAGCAA
63779835 AATGGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:63780540 original size:26 final size:26
Alignment explanation
Indices: 63780487--63780542 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
63780477 TTTTAGAATG
*
63780487 TTATTTTATTTTACTTTCAGAAAATA
1 TTATTTTATTTTACTTTAAGAAAATA
* *
63780513 TTATTTTATTTTTA-TTTAATAAATTA
1 TTATTTTA-TTTTACTTTAAGAAAATA
63780539 TTAT
1 TTAT
63780543 AGTCAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTTATTTTACTTTAAGAAAATA
Found at i:63781071 original size:22 final size:22
Alignment explanation
Indices: 63781043--63781085 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
63781033 ATTTAATTTT
63781043 TTAAAATTA-AAAATATAAATTA
1 TTAAAATTATAAAAT-TAAATTA
63781065 TTAAAATTATAAAATTAAATT
1 TTAAAATTATAAAATTAAATT
63781086 TTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATTATAAAATTAAATTA
Found at i:63789823 original size:16 final size:16
Alignment explanation
Indices: 63789802--63789853 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
63789792 TTTGGTTCGC
63789802 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
63789818 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
63789834 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
63789850 TGTA
1 TGTA
63789854 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:63790106 original size:16 final size:16
Alignment explanation
Indices: 63790069--63790110 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63790059 TTAATCATAT
*
63790069 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
63790085 TT-AAATATATTATAA
1 TTAAAATATATTATAA
63790100 TTAAAATATAT
1 TTAAAATATAT
63790111 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:63790117 original size:14 final size:15
Alignment explanation
Indices: 63790078--63790119 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
63790068 TTTAAACATA
*
63790078 ATTATTATTAAATAT
1 ATTATAATTAAATAT
63790093 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
63790107 A-TATAATTTAATA
1 ATTATAATTAAATA
63790120 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:63790168 original size:37 final size:35
Alignment explanation
Indices: 63790106--63790275 Score: 109
Period size: 37 Copynumber: 4.7 Consensus size: 35
63790096 ATAATTAAAA
* **
63790106 TATATAATTTAATAAAATTTTTAATAATTAATATTCT
1 TATATAATTTACTAAAA-TCATAATAATTAATATT-T
*
63790143 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTACTAAAATCATAATAATTA-AT-ATTT
* * * *
63790179 AACATAATTATTATTAAATAT-ATAATAATTAA-A--A
1 TATATAA-T-TTACTAAA-ATCATAATAATTAATATTT
* *
63790213 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTACTAAAA-TCATAATAATTAATATT-T
63790250 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTACTAAAATCATAATA
63790276 TATAATACTA
Statistics
Matches: 102, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 11 0.11
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.35
38 25 0.25
39 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTACTAAAATCATAATAATTAATATTT
Found at i:63790189 original size:107 final size:108
Alignment explanation
Indices: 63790067--63790277 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
63790057 ATTTAATCAT
* *
63790067 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATAATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
63790132 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATTAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
63790175 ATTT-AACATAATTATTATTAAATATATAATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATAATAATTAAAATATATAATTTAATAAAATTCTTAATA
63790239 ATTAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATTAATATTCTTATATGAATTTACTAAAATCATAATATA
63790278 TAATACTATA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 96 0.96
108 4 0.04
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATAATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:63791095 original size:13 final size:13
Alignment explanation
Indices: 63791077--63791103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63791067 TGAATAAAAG
63791077 TATATGGTTGGAT
1 TATATGGTTGGAT
63791090 TATATGGTTGGAT
1 TATATGGTTGGAT
63791103 T
1 T
63791104 TCTAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:63795627 original size:21 final size:23
Alignment explanation
Indices: 63795587--63795629 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
63795577 CAGTCCACGT
*
63795587 ATATTTTATACAAATTAATAAAA
1 ATATTTTATACAAATAAATAAAA
63795610 ATATTTTA-A-AAATAAATAAA
1 ATATTTTATACAAATAAATAAA
63795630 TTTCAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATTTTATACAAATAAATAAAA
Found at i:63799689 original size:29 final size:29
Alignment explanation
Indices: 63799647--63799706 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
63799637 GTTATAACCA
* * *
63799647 AACCTTTATATGCCATTGTTGACCA-AATT
1 AACCTATACATGCCATT-TTAACCATAATT
63799676 AACCTATACATGCCATTTTAACCATAATT
1 AACCTATACATGCCATTTTAACCATAATT
63799705 AA
1 AA
63799707 TTTACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (29 bp):
AACCTATACATGCCATTTTAACCATAATT
Found at i:63803440 original size:20 final size:20
Alignment explanation
Indices: 63803417--63803490 Score: 55
Period size: 20 Copynumber: 3.9 Consensus size: 20
63803407 TCTAAAAATC
*
63803417 TAAGGATTTATCAATATTTT
1 TAAGGATTTATCAATATATT
* *
63803437 TAAGAATTTCTCAA-A-ATT
1 TAAGGATTTATCAATATATT
*** * *
63803455 T-ATCTTTTACCAAAATATT
1 TAAGGATTTATCAATATATT
63803474 TAAGGATTTATCAATAT
1 TAAGGATTTATCAATAT
63803491 TTTTGGTAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
17 7 0.18
18 4 0.11
19 5 0.13
20 22 0.58
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (20 bp):
TAAGGATTTATCAATATATT
Found at i:63803913 original size:14 final size:15
Alignment explanation
Indices: 63803888--63803916 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63803878 AATTAAAAAA
63803888 TAAAATCAAATAAAT
1 TAAAATCAAATAAAT
63803903 TAAAATC-AATAAAT
1 TAAAATCAAATAAAT
63803917 GCTTTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAATCAAATAAAT
Found at i:63818198 original size:21 final size:21
Alignment explanation
Indices: 63818171--63818218 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
63818161 ATGATCTTTA
63818171 TTGACACATTGAACCAAATAAG
1 TTGACACATTGAA-CAAATAAG
* *
63818193 -TGACACCTTGAACAAATTAG
1 TTGACACATTGAACAAATAAG
63818213 TTGACA
1 TTGACA
63818219 TTTTTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (21 bp):
TTGACACATTGAACAAATAAG
Found at i:63831550 original size:8 final size:8
Alignment explanation
Indices: 63831537--63831565 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
63831527 TTATGTTTAG
63831537 TATATTAT
1 TATATTAT
63831545 TATATTAT
1 TATATTAT
63831553 TATATTAT
1 TATATTAT
63831561 TATAT
1 TATAT
63831566 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:63831598 original size:5 final size:5
Alignment explanation
Indices: 63831588--63831628 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
63831578 TTATGTTTTA
63831588 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
63831629 AAACTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:63832911 original size:15 final size:15
Alignment explanation
Indices: 63832891--63832947 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
63832881 CGATGAATTT
63832891 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
63832906 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
63832921 ATTGAATTTATATTG
1 ATTGAATTTATATTG
63832936 ATTGAA-TTATAT
1 ATTGAATTTATAT
63832948 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:63833365 original size:21 final size:21
Alignment explanation
Indices: 63833341--63833406 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
63833331 ATGTGTCATA
63833341 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
63833362 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
* * * **
63833383 TTTTAGGCACTTTATGTGTCG
1 TATCAGGCACCTCGTGTGTCG
63833404 TAT
1 TAT
63833407 ACTGATCAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:63837156 original size:16 final size:17
Alignment explanation
Indices: 63837125--63837157 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63837115 TTAATAAGTA
63837125 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
63837142 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
63837158 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:63837503 original size:46 final size:46
Alignment explanation
Indices: 63837453--63837711 Score: 376
Period size: 46 Copynumber: 5.6 Consensus size: 46
63837443 TGCCATAATG
* *
63837453 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTA
*
63837499 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* ** *
63837545 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
63837591 TCTTTCAACCACGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
63837637 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
*
63837683 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
63837712 ATCAGAGAGC
Statistics
Matches: 197, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 193 0.98
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
Found at i:63837600 original size:92 final size:92
Alignment explanation
Indices: 63837453--63837715 Score: 418
Period size: 92 Copynumber: 2.9 Consensus size: 92
63837443 TGCCATAATG
* *
63837453 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
63837518 TTCATTTCATGTCACGTTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
* * *
63837545 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCACGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
63837610 TTCATTTCATATCACGTTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
* * * *
63837637 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
63837702 CACATTTCATATCA
66 TTCATTTCATATCA
63837716 GAGAGCACAC
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 156 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCACGTTGCCATGGTA
Found at i:63841823 original size:18 final size:18
Alignment explanation
Indices: 63841789--63842084 Score: 159
Period size: 18 Copynumber: 16.1 Consensus size: 18
63841779 TCATTAACTC
* *
63841789 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
63841806 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* * *
63841824 TCGGTAACAATAAATTAT
1 TCAGTAACAATCAGTTAT
* * *
63841842 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
63841860 TCAGTATCGATCAATTGATTGGTTAT
1 TCAGTA---A-CAA-TCA---GTTAT
* * *
63841886 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
63841904 TCAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
*
63841921 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
63841940 TCAGTAGCAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
63841958 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
63841976 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
63841994 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
63842012 TCAGTAACAGCCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
63842030 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
63842048 CCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
63842066 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
63842084 T
1 T
63842085 TTATACCTTT
Statistics
Matches: 211, Mismatches: 53, Indels: 29
0.72 0.18 0.10
Matches are distributed among these distances:
17 21 0.10
18 154 0.73
19 17 0.08
21 3 0.01
22 4 0.02
23 2 0.01
26 10 0.05
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:63842017 original size:72 final size:71
Alignment explanation
Indices: 63841883--63842084 Score: 210
Period size: 72 Copynumber: 2.8 Consensus size: 71
63841873 ATTGATTGGT
* * * *
63841883 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
* *
63841947 CAGTC-AT
64 CAGCCTAA
* * * *
63841954 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
63842019 CAGCCTAA
64 CAGCCTAA
* * * * *
63842027 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
63842085 TTATACCTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GCCTAA
Found at i:63843812 original size:7 final size:7
Alignment explanation
Indices: 63843798--63843843 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
63843788 AACTTTCAAT
63843798 TTTC-TC
1 TTTCTTC
63843804 TTTCTTC
1 TTTCTTC
63843811 TTTCTTC
1 TTTCTTC
63843818 TTTC-T-
1 TTTCTTC
*
63843823 TTTCTCC
1 TTTCTTC
63843830 TTTCTTTC
1 TTTC-TTC
63843838 TTTCTT
1 TTTCTT
63843844 TCCCTGCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
5 4 0.12
6 5 0.15
7 19 0.56
8 6 0.18
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTTC
Found at i:63843843 original size:20 final size:19
Alignment explanation
Indices: 63843798--63843844 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
63843788 AACTTTCAAT
*
63843798 TTTCTCTTTCTTCTTTCTTC
1 TTTCT-TTTCTCCTTTCTTC
63843818 TTTCTTTTCTCCTTTCTTTC
1 TTTCTTTTCTCCTTTC-TTC
63843838 TTTCTTT
1 TTTCTTT
63843845 CCCTGCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTCTCCTTTCTTC
Found at i:63843845 original size:19 final size:18
Alignment explanation
Indices: 63843802--63843845 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
63843792 TTCAATTTTC
*
63843802 TCTTTCTTCTTTCTTCTT
1 TCTTTCTCCTTTCTTCTT
63843820 TCTTTTCTCCTTTCTTTCTT
1 TC-TTTCTCCTTTC-TTCTT
63843840 TCTTTC
1 TCTTTC
63843846 CCTGCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 7 0.30
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TCTTTCTCCTTTCTTCTT
Found at i:63845646 original size:12 final size:12
Alignment explanation
Indices: 63845603--63845638 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
63845593 AAAACAAATA
*
63845603 AAAGAAATAGAAT
1 AAAGAAA-AGAAC
63845616 AAAGAAAAGAAC
1 AAAGAAAAGAAC
63845628 AAAGAAAAGAA
1 AAAGAAAAGAA
63845639 AACAGAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.06
Consensus pattern (12 bp):
AAAGAAAAGAAC
Done.