Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 308 of 325
Found at i:97703275 original size:6 final size:6
Alignment explanation
Indices: 97703266--97703304 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
97703256 ATATAAGTAT
97703266 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
97703305 CACTCCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:97703334 original size:3 final size:3
Alignment explanation
Indices: 97703326--97703359 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
97703316 ATATAAAAGC
*
97703326 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
97703360 GGACTAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:97704997 original size:125 final size:124
Alignment explanation
Indices: 97704791--97705149 Score: 459
Period size: 125 Copynumber: 2.9 Consensus size: 124
97704781 CGTTATTGTA
* * * * * * *
97704791 GCTTTAATCTTTTTAACTGCAATATCGAAGAAACAAGATTCGCCAATTTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATGTAG-GGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
* *
97704856 ACTGCATCGCTTGGGGCGTAAGATTCGTTATTGTAGCTTTAATCAAGATTCATCGATGTG
65 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTTAATCAAGATTCACCGATGTG
* *
97704916 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATGTA-GGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCC
*
97704981 ACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTG
65 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTTAATCAAGATTCACCGATGTG
* * * *
97705041 GCTTTAATCCTTTTAACCGCAATGTCA-GAAAGGCAAGATTCACCGTTGTGGCTTTAATCTATTC
1 GCTTTAATCTTTTTAACTGCAATGT-AGGGAA-GCAAGATTCACCGATGTGGCTTTAATCTATTC
* * *** * * *
97705105 CACTGCACCGCGTGGAATGTAAGATCCGCTGTTGTAGCTTCAATC
64 CACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTTAATC
97705150 TTTTGAATTG
Statistics
Matches: 206, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
124 3 0.01
125 201 0.98
126 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (124 bp):
GCTTTAATCTTTTTAACTGCAATGTAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCA
CTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTTAATCAAGATTCACCGATGTG
Found at i:97705293 original size:44 final size:45
Alignment explanation
Indices: 97705167--97705282 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
97705157 TTGAAAACTA
* * * *
97705167 TGGTTTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
* * * *
97705212 TGCTATCTTC-ATTCTACTCCGCTGTCAGTACAGGAAGGCAAG-GC
1 TGGTATCTTCGA-TCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
*
97705256 TGGTGTCTTCGATCTGCTTCGCTGTCA
1 TGGTATCTTCGATCTGCTTCGCTGTCA
97705283 AGGCAAGAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
44 23 0.40
45 34 0.60
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (45 bp):
TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
Found at i:97705365 original size:88 final size:88
Alignment explanation
Indices: 97705247--97705915 Score: 864
Period size: 88 Copynumber: 7.6 Consensus size: 88
97705237 CAGTACAGGA
* * * * * **
97705247 AGGCAAGGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAAGGCAAGAAGGTAAGATCTGCTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
* *
97705311 AACCATCTCCA-CTACAACCGAGAG
65 AACCAGCTCCATC-ACAACCGACAG
* *
97705335 AGGCAAAGTTTGTGTCTTCGACTTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
97705400 ACCAGCTCCATCACAACCGAGAG
66 ACCAGCTCCATCACAACCGACAG
* * *
97705423 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTTTTGTTTTCA
1 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
97705488 ACCAGCTCCATCACAACCGACAG
66 ACCAGCTCCATCACAACCGACAG
* * * ** *
97705511 ATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACCCAGGAAGGCAAGATCTTTTGTTTTCA
1 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
97705576 AACAGCTCCATCACAACCGACAG
66 ACCAGCTCCATCACAACCGACAG
* * * ** *
97705599 ATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACCCAGGAAGGCAAGATCTTTTGTTTTCA
1 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
*
97705664 AACAGCTCCATCACAACCGACAG
66 ACCAGCTCCATCACAACCGACAG
* * * ** *
97705687 ATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACCCAGGAAGGCAAGATCTATTGTCTTCA
1 AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
97705752 ACCAGCTCCATCACAACCGACAG
66 ACCAGCTCCATCACAACCGACAG
* * *
97705775 AGGCAAGGTTTG-GTTTTCGA-TCTGCTTTGCTGTCAATGCAGGAAGGTAAGATCTTTTGTCTTC
1 AGGCAAGGTTTGTGTCTTCGACT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
97705838 AACCAGCTCCATCACAACCGAGAG
65 AACCAGCTCCATCACAACCGACAG
* * * * *
97705862 AGGCAAGGTTT-TGTTTTC-AATCTGCTTCACTGTTAATGCAGAAAGGCAAGATCT
1 AGGCAAGGTTTGTGTCTTCGACT-TGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
97705916 GCTATCTTCA
Statistics
Matches: 537, Mismatches: 39, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.00
87 111 0.21
88 423 0.79
89 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (88 bp):
AGGCAAGGTTTGTGTCTTCGACTTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
ACCAGCTCCATCACAACCGACAG
Found at i:97705398 original size:45 final size:45
Alignment explanation
Indices: 97705347--97705482 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 45
97705337 GCAAAGTTTG
*
97705347 TGTCTTCGACTTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTTT
1 TGTCTTCGACTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTTT
* ** * * * *
97705392 TGTCTTCAACCAGC-T--CCATCACA-ACCGAGAGAGGCAAGGT-TTG
1 TGTCTTCGACTTGCTTCGCCGTCA-ATACAG-GA-AGGCAAGATCTTT
97705435 TGTCTTCGACTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTTT
1 TGTCTTCGACTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTTT
97705480 TGT
1 TGT
97705483 TTTCAACCAG
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
42 7 0.10
43 16 0.24
44 18 0.26
45 19 0.28
46 8 0.12
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (45 bp):
TGTCTTCGACTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTTT
Found at i:97707187 original size:7 final size:7
Alignment explanation
Indices: 97707175--97707219 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
97707165 ATTTTTAGTC
97707175 TTTCATT
1 TTTCATT
97707182 TTTCATT
1 TTTCATT
97707189 TTTCATT
1 TTTCATT
*
97707196 TTCCA-T
1 TTTCATT
97707202 TTTCATT
1 TTTCATT
97707209 TTTCATCT
1 TTTCAT-T
97707217 TTT
1 TTT
97707220 TCTTTTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 5 0.15
7 25 0.74
8 4 0.12
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTCATT
Found at i:97707561 original size:6 final size:6
Alignment explanation
Indices: 97707550--97707591 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
97707540 TTAACCCCTC
*
97707550 CTTTTT CTTTTT CTTTTT C-TTCT CTTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT CTTTTT CTTTTT
97707592 TCTATTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:97707618 original size:8 final size:8
Alignment explanation
Indices: 97707603--97707644 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
97707593 CTATTTTGAC
97707603 TTTGATTT
1 TTTGATTT
*
97707611 TTTTA-TT
1 TTTGATTT
97707618 TTTGATTT
1 TTTGATTT
97707626 TTTGATTT
1 TTTGATTT
97707634 TTTGATTT
1 TTTGATTT
97707642 TTT
1 TTT
97707645 TCTAGTCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (8 bp):
TTTGATTT
Found at i:97710249 original size:19 final size:20
Alignment explanation
Indices: 97710220--97710268 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
97710210 CACTTCGTGA
* *
97710220 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
97710239 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
97710259 AAATG-AATGC
1 AAATGTAATGC
97710269 CTAAAGGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:97712058 original size:9 final size:9
Alignment explanation
Indices: 97712029--97712062 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
97712019 AAAATAAAGG
97712029 AAAATATAT
1 AAAATATAT
97712038 GAAAAT-TAT
1 -AAAATATAT
97712047 AAAATATAT
1 AAAATATAT
97712056 AAAATAT
1 AAAATAT
97712063 GTATGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:97712131 original size:13 final size:13
Alignment explanation
Indices: 97712113--97712172 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
97712103 AATTATGAAA
97712113 ATATATAAAATAT
1 ATATATAAAATAT
*
97712126 ATATAT-AAGTAT
1 ATATATAAAATAT
*
97712138 ATATTTTAAAAT-T
1 ATA-TATAAAATAT
97712151 ACTATATAAAATAT
1 A-TATATAAAATAT
*
97712165 ACATATAA
1 ATATATAA
97712173 GTACGCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 8 0.21
13 23 0.61
14 7 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATATAAAATAT
Found at i:97712397 original size:6 final size:6
Alignment explanation
Indices: 97712388--97712426 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
97712378 ATATAAGTAT
97712388 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
97712427 CACTCCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:97712456 original size:3 final size:3
Alignment explanation
Indices: 97712448--97712478 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
97712438 ATATAAAAGC
*
97712448 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
97712479 GGACTAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:97715108 original size:38 final size:38
Alignment explanation
Indices: 97715057--97715132 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
97715047 TCTTTATAAA
97715057 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
1 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
97715095 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
1 ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
97715133 CCATCTACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21
Consensus pattern (38 bp):
ACCCAAGATAACCTCCTCAAATTCCACCTCCTTCAAAC
Found at i:97717593 original size:14 final size:16
Alignment explanation
Indices: 97717559--97717599 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
97717549 AAGATTTTTT
97717559 TAATTAATATTAAAAA
1 TAATTAATATTAAAAA
97717575 TAATTAAT-TTAAAAA
1 TAATTAATATTAAAAA
97717590 -AATTAATATT
1 TAATTAATATT
97717600 TTATAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATTAATATTAAAAA
Found at i:97718199 original size:15 final size:14
Alignment explanation
Indices: 97718159--97718198 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
97718149 TAGACTTGAA
97718159 TTTTATATTTTAAT
1 TTTTATATTTTAAT
97718173 TTGATTA-ATTTTAAT
1 TT--TTATATTTTAAT
97718188 TTTTATATTTT
1 TTTTATATTTT
97718199 TTTTAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 10 0.43
16 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTATATTTTAAT
Found at i:97723719 original size:23 final size:23
Alignment explanation
Indices: 97723689--97723752 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
97723679 CCCAATTTTT
97723689 CCCCATGACCCATTTACACTAAA
1 CCCCATGACCCATTTACACTAAA
*
97723712 TCCCATGACCCATTTACACTAAA
1 CCCCATGACCCATTTACACTAAA
**
97723735 CCCCAAAACCCATTTACA
1 CCCCATGACCCATTTACA
97723753 ACATAAGCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.39, G:0.03, T:0.22
Consensus pattern (23 bp):
CCCCATGACCCATTTACACTAAA
Found at i:97724931 original size:15 final size:14
Alignment explanation
Indices: 97724911--97724982 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
97724901 ATTAATTTTG
97724911 ATATTTTCTATTATT
1 ATATTTT-TATTATT
*
97724926 ATATTTACTATTATT
1 ATATTT-TTATTATT
* **
97724941 -TATTGTTATTGGT
1 ATATTTTTATTATT
*
97724954 ATTATTATTATTATT
1 A-TATTTTTATTATT
97724969 ATATGTTTTATTAT
1 ATAT-TTTTATTAT
97724983 ATACGTATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
13 5 0.11
14 7 0.16
15 32 0.73
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (14 bp):
ATATTTTTATTATT
Found at i:97730049 original size:14 final size:14
Alignment explanation
Indices: 97730030--97730056 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97730020 AAGGCGATAG
97730030 AAGGCACTGAAGTC
1 AAGGCACTGAAGTC
97730044 AAGGCACTGAAGT
1 AAGGCACTGAAGT
97730057 ATTCCCTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (14 bp):
AAGGCACTGAAGTC
Found at i:97736956 original size:44 final size:44
Alignment explanation
Indices: 97736838--97736960 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 44
97736828 TATGCCTAAA
* *
97736838 AAAAAAGAGAATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
1 AAAAAAG-G-ATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAC
* *
97736884 AAAAAAGGGATCAAGGTGAAAACTCGAAAAGGGCATCTTTATTAAC
1 AAAAAA-GGATCAAGGTGAAAACCCGAAAAGGGCATCTTGA-TAAC
* *
97736930 ACAAAA-GAT-TAGGATGAAAACCCG-AAAGGGC
1 AAAAAAGGATCAAGG-TGAAAACCCGAAAAGGGC
97736961 GTTCTAATGA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 10 0.15
44 12 0.18
45 29 0.43
46 15 0.22
47 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.24, T:0.15
Consensus pattern (44 bp):
AAAAAAGGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAC
Found at i:97738797 original size:19 final size:19
Alignment explanation
Indices: 97738773--97738810 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
97738763 TAAATGAATA
*
97738773 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
97738792 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
97738811 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:97739979 original size:8 final size:8
Alignment explanation
Indices: 97739951--97740004 Score: 81
Period size: 8 Copynumber: 6.5 Consensus size: 8
97739941 AGAGCTTAGG
*
97739951 TTTTTTTC
1 TTTTTTTA
97739959 TTTTTCTTCA
1 TTTTT-TT-A
97739969 TTTTTTTA
1 TTTTTTTA
97739977 TTTTTTTA
1 TTTTTTTA
97739985 TTTTTTTA
1 TTTTTTTA
97739993 TTTTTTTA
1 TTTTTTTA
97740001 TTTT
1 TTTT
97740005 GGGTTGTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
8 34 0.79
9 4 0.09
10 5 0.12
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:97740432 original size:73 final size:73
Alignment explanation
Indices: 97740166--97740626 Score: 513
Period size: 73 Copynumber: 6.3 Consensus size: 73
97740156 TACTCTGATG
* * *
97740166 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCAT-TGGCTCACA
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
*
97740230 CGTTGAGGTAT
63 CGCTGAGGTAT
* * *
97740241 TTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTC
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
97740305 ACG-TCGAGGTAT
62 ACGCT-GAGGTAT
** * * * * *
97740317 TTTCAAAATCTGTTTTT----AATCAACTTACATTGCGAGAGGTGAGTTGGGCCTCAAGACAGGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
97740378 TGAGGTAA
66 TGAGGTAT
* *
97740386 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
97740451 TGAGGTAT
66 TGAGGTAT
* * * * * *
97740459 TTTCAATTTTTGCTTTTCAAAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
1 TTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
97740524 GTTGAGGTAA
64 GCTGAGGTAT
* * * *
97740534 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGGCACAC
1 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
97740599 TGAGGTAT
66 TGAGGTAT
*
97740607 TTTCAATTTCTGCTTTTCAA
1 TTTCAATTTCTGTTTTTCAA
97740627 TTTATGTGTT
Statistics
Matches: 325, Mismatches: 49, Indels: 26
0.81 0.12 0.06
Matches are distributed among these distances:
69 23 0.07
70 1 0.00
71 33 0.10
73 125 0.38
74 4 0.01
75 76 0.23
76 58 0.18
77 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAT
Found at i:97740530 original size:148 final size:146
Alignment explanation
Indices: 97740166--97740626 Score: 587
Period size: 148 Copynumber: 3.1 Consensus size: 146
97740156 TACTCTGATG
* * * * * *
97740166 TTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCATT-GGCTCACA
1 TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGG---ACA
* *
97740230 CGTTGAGGTATTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
63 CGTTGAGGTAATTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
97740294 CCTC-GGGTCTCACG-TCGAGGTAT
126 CCTCAGGG---CACGCT-GAGGTAT
** * * * * *
97740317 TTTCAAAATCTG-TTTT---TAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTCAAGACAGGC
1 TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACACGT
*
97740378 TGAGGTAATTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
97740443 GGGCACGCTGAGGTAT
131 GGGCACGCTGAGGTAT
*
97740459 TTTCAATTTTTGCTTTTCAAAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
1 TTTCAATTTCTGCTTTTC--AAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACAC
* *
97740524 GTTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCT
64 GTTGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
97740589 CAGGGCACACTGAGGTAT
129 CAGGGCACGCTGAGGTAT
97740607 TTTCAATTTCTGCTTTTCAA
1 TTTCAATTTCTGCTTTTCAA
97740627 TTTATGTGTT
Statistics
Matches: 272, Mismatches: 28, Indels: 25
0.84 0.09 0.08
Matches are distributed among these distances:
142 20 0.07
143 5 0.02
144 38 0.14
145 25 0.09
146 6 0.02
147 29 0.11
148 135 0.50
150 4 0.01
151 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (146 bp):
TTTCAATTTCTGCTTTTCAAAAATCAACTTACATTGCGAGAGGTGAGTTGGGCCTTAGGACACGT
TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
GGGCACGCTGAGGTAT
Found at i:97741824 original size:23 final size:22
Alignment explanation
Indices: 97741776--97741816 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
97741766 TTTCGAAATT
97741776 TTTTTATTTCTTTCTTTTTCCG
1 TTTTTATTTCTTTCTTTTTCCG
*
97741798 TTTTTATTTCATT-TTTTTC
1 TTTTTATTTCTTTCTTTTTC
97741817 TCTCTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTATTTCTTTCTTTTTCCG
Found at i:97742475 original size:15 final size:15
Alignment explanation
Indices: 97742455--97742494 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
97742445 ATTAATTTTG
97742455 ATATTTTCTATTATT
1 ATATTTTCTATTATT
97742470 ATATTTTCTATTATT
1 ATATTTTCTATTATT
97742485 -TATTTT-TATT
1 ATATTTTCTATT
97742495 GGTATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 4 0.16
14 6 0.24
15 15 0.60
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTTTCTATTATT
Found at i:97745455 original size:29 final size:29
Alignment explanation
Indices: 97745423--97745478 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
97745413 AATCCAAAAA
*
97745423 ATAAATTAAATATTAAAATAGATCATTCT
1 ATAAATTAAATATCAAAATAGATCATTCT
* *
97745452 ATAAATTAATTATCGAAATAGATCATT
1 ATAAATTAAATATCAAAATAGATCATT
97745479 TGTTACCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (29 bp):
ATAAATTAAATATCAAAATAGATCATTCT
Found at i:97746251 original size:21 final size:20
Alignment explanation
Indices: 97746227--97746266 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
97746217 TATACACTTT
97746227 GAAAAGTACA-TTATTGAGAGA
1 GAAAAGT-CATTTA-TGAGAGA
97746248 GAAAAGTCATTTATGAGAG
1 GAAAAGTCATTTATGAGAG
97746267 GCTCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (20 bp):
GAAAAGTCATTTATGAGAGA
Found at i:97746264 original size:20 final size:21
Alignment explanation
Indices: 97746227--97746266 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
97746217 TATACACTTT
97746227 GAAAAGTACATTATTGAGAGA
1 GAAAAGTACATTATTGAGAGA
97746248 GAAAAGT-CATT-TATGAGAG
1 GAAAAGTACATTAT-TGAGAG
97746267 GCTCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 10 0.56
21 7 0.39
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (21 bp):
GAAAAGTACATTATTGAGAGA
Found at i:97754557 original size:7 final size:7
Alignment explanation
Indices: 97754545--97754572 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
97754535 GAAATTGGGA
97754545 CTTTTGC
1 CTTTTGC
97754552 CTTTTGC
1 CTTTTGC
97754559 CTTTTGC
1 CTTTTGC
97754566 CTTTTGC
1 CTTTTGC
97754573 ATAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.14, T:0.57
Consensus pattern (7 bp):
CTTTTGC
Found at i:97757345 original size:3 final size:3
Alignment explanation
Indices: 97757337--97757370 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
97757327 AAAATTTCCT
97757337 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
97757371 GCATTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:97758824 original size:43 final size:43
Alignment explanation
Indices: 97758760--97758845 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
97758750 GTGACCAAAA
*
97758760 AATACAATATTGAATAGTTGGGTTACCATTTGTAACTTTTCAT
1 AATACAATATTGAATAATTGGGTTACCATTTGTAACTTTTCAT
*
97758803 AATACAATATTGAATAATTGGGTTGCCATTTGTAACTTTTCAT
1 AATACAATATTGAATAATTGGGTTACCATTTGTAACTTTTCAT
97758846 TGTTGGGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (43 bp):
AATACAATATTGAATAATTGGGTTACCATTTGTAACTTTTCAT
Found at i:97761425 original size:22 final size:22
Alignment explanation
Indices: 97761400--97761445 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
97761390 TCTTTAATGA
*
97761400 TTAATCCGATCATCGTGAGTGT
1 TTAATCCGATCATCATGAGTGT
97761422 TTAATCCGATCATCATGAGTGT
1 TTAATCCGATCATCATGAGTGT
97761444 TT
1 TT
97761446 TCTAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (22 bp):
TTAATCCGATCATCATGAGTGT
Found at i:97772099 original size:2 final size:2
Alignment explanation
Indices: 97772092--97772119 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
97772082 GCCCATTTCC
97772092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97772120 TTTCAAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97774736 original size:23 final size:24
Alignment explanation
Indices: 97774704--97774759 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
97774694 ATAATGATGT
97774704 GAATAATAAAATAT-ATAAATATTA
1 GAATAATAAAATATCA-AAATATTA
*
97774728 -AATATTAAAATATCAAAATATTA
1 GAATAATAAAATATCAAAATATTA
97774751 GAATAATAA
1 GAATAATAA
97774760 TAATTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
GAATAATAAAATATCAAAATATTA
Found at i:97775022 original size:31 final size:31
Alignment explanation
Indices: 97774960--97775040 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
97774950 TATAGTTAAG
* * *
97774960 ATATATACATAAGATAACATGTAAAAAATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
*
97774991 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAATATGTAAAAAATAT
* *
97775020 ATACATAAAATAGTATAATAT
1 ATATAT-AAATAATATAATAT
97775041 ATATACGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 12 0.28
30 14 0.33
31 17 0.40
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (31 bp):
ATATATAAATAATATAATATGTAAAAAATAT
Found at i:97775027 original size:25 final size:25
Alignment explanation
Indices: 97774902--97775120 Score: 106
Period size: 23 Copynumber: 9.0 Consensus size: 25
97774892 TAAATACGTG
*
97774902 ATAATATTAAA-ATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
97774926 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
97774951 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
97774973 ATAACATGTAAAAAATATATATATAAATAAT
1 ATAATAT-T----AA-AGATATATACATAAT
*
97775004 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
97775029 ATAGTA-T-AATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
97775052 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
97775075 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
97775097 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
97775120 A
1 A
97775121 ACAAAAAAGG
Statistics
Matches: 150, Mismatches: 27, Indels: 37
0.70 0.13 0.17
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 45 0.30
24 19 0.13
25 33 0.22
26 2 0.01
30 2 0.01
31 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:97775644 original size:30 final size:30
Alignment explanation
Indices: 97775608--97775782 Score: 269
Period size: 30 Copynumber: 5.8 Consensus size: 30
97775598 TAGGTACAAG
* *
97775608 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* * *
97775638 TGGTGGTGGAAAAAGAATGGCTAATGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
97775668 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
97775698 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
97775728 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
97775758 TGGTGGTAGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
97775783 TGAGAAAAGT
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 130 1.00
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:97775781 original size:60 final size:60
Alignment explanation
Indices: 97775608--97775782 Score: 305
Period size: 60 Copynumber: 2.9 Consensus size: 60
97775598 TAGGTACAAG
* * *
97775608 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAATGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
97775668 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
97775728 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTAGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
97775783 TGAGAAAAGT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 110 1.00
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:97782605 original size:16 final size:15
Alignment explanation
Indices: 97782584--97782631 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
97782574 GATGTGAATA
97782584 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
97782600 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
97782615 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
97782631 A
1 A
97782632 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:97782607 original size:24 final size:24
Alignment explanation
Indices: 97782580--97782635 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
97782570 TAATGATGTG
*
97782580 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
97782604 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
97782628 AATAATAA
1 AATAATAA
97782636 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:97782614 original size:8 final size:8
Alignment explanation
Indices: 97782580--97782631 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
97782570 TAATGATGTG
*
97782580 AATAATAA
1 AATATTAA
97782588 AATATATAA
1 AATAT-TAA
97782597 AATA-TAA
1 AATATTAA
97782604 AATATTAA
1 AATATTAA
*
97782612 AATATCAA
1 AATATTAA
*
97782620 AATATTAG
1 AATATTAA
97782628 AATA
1 AATA
97782632 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:97782812 original size:25 final size:25
Alignment explanation
Indices: 97782784--97782832 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
97782774 CGTGATAATA
**
97782784 TTAAAAATATGTAAATAATATAGTG
1 TTAAAAATACATAAATAATATAGTG
*
97782809 TTAAAAATACATACATAATATAGT
1 TTAAAAATACATAAATAATATAGT
97782833 TAAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATAAATAATATAGTG
Found at i:97782897 original size:23 final size:24
Alignment explanation
Indices: 97782869--97783002 Score: 75
Period size: 25 Copynumber: 5.5 Consensus size: 24
97782859 AAAAAAATAT
97782869 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATTAAAG
* * * *
97782894 ATATATACATAAAATAGTATAAAAT
1 ATATATA-ATAATATAATATTAAAG
97782919 ATATATATACGTAATATAGA-ATTTAAA-
1 ATATATA-A--TAATATA-ATA-TTAAAG
** *
97782946 ATATA-CCTAATAT-AT-TAAAAG
1 ATATATAATAATATAATATTAAAG
97782967 A-ATATATATAATATAATATT-AAG
1 ATATATA-ATAATATAATATTAAAG
*
97782990 AAATATAATAATA
1 ATATATAATAATA
97783003 ACAAAAAAAG
Statistics
Matches: 83, Mismatches: 14, Indels: 26
0.67 0.11 0.21
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 6 0.07
23 18 0.22
24 7 0.08
25 27 0.33
27 12 0.14
28 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATAATAATATAATATTAAAG
Found at i:97782905 original size:25 final size:25
Alignment explanation
Indices: 97782869--97783002 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
97782859 AAAAAAATAT
*
97782869 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
97782894 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
* *
97782921 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
97782945 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
97782967 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
97782990 AAATATA-ATAATA
1 ATATATACATAATA
97783003 ACAAAAAAAG
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 18 0.21
26 3 0.04
27 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:97782924 original size:27 final size:27
Alignment explanation
Indices: 97782798--97782937 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 27
97782788 AAATATGTAA
* * *
97782798 ATAATATAGTGTTAAA-A-ATACATAC
1 ATAATATAGTATAAAATATATATATAC
* * *
97782823 ATAATATAGT-TAAGATATATACATAAG
1 ATAATATAGTATAAAATATATATAT-AC
* * *
97782850 ATAACAT-GTAAAAAAATATATATATAA
1 ATAATATAGT-ATAAAATATATATATAC
* * *
97782877 ATAATATAATAT-TAA-AGATATATAC
1 ATAATATAGTATAAAATATATATATAC
*
97782902 ATAAAATAGTATAAAATATATATATAC
1 ATAATATAGTATAAAATATATATATAC
*
97782929 GTAATATAG
1 ATAATATAG
97782938 AATTTAAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
24 3 0.03
25 29 0.33
26 12 0.14
27 31 0.36
28 12 0.14
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (27 bp):
ATAATATAGTATAAAATATATATATAC
Found at i:97783525 original size:30 final size:30
Alignment explanation
Indices: 97783491--97783634 Score: 130
Period size: 30 Copynumber: 4.8 Consensus size: 30
97783481 CAAGTGGTGG
* *
97783491 TGGAGCAAGTGTGGTTAGTGAAGTAGGTAA
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* * * **
97783521 TGGAGCAAGTGTAGCTAGTGGATTTGGTGG
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
* *
97783551 TGGA-AAAGGTGTGGTTAGTGGAGTAGGTAA
1 TGGAGCAA-GTGTGGCTAGTGGAGTAGGTAA
* * **
97783581 TGGAGCAAGTGTGGCTAGTGGATTTGGTGG
1 TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
*
97783611 TGGA-AAAGGTGTGGCTAGTGGAGT
1 TGGAGCAA-GTGTGGCTAGTGGAGT
97783635 TGGTGGTGGA
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
29 4 0.04
30 83 0.93
31 2 0.02
ACGTcount: A:0.24, C:0.04, G:0.44, T:0.28
Consensus pattern (30 bp):
TGGAGCAAGTGTGGCTAGTGGAGTAGGTAA
Found at i:97783631 original size:60 final size:60
Alignment explanation
Indices: 97783485--97783634 Score: 248
Period size: 60 Copynumber: 2.5 Consensus size: 60
97783475 TAGGTACAAG
* *
97783485 TGGTGGTGGAGCAA-GTGTGGTTAGTGAAGTAGGTAATGGAGCAAGTGTAGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTAGCTAGTGGATT
*
97783545 TGGTGGTGGAAAAGGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGAAAAGGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTAGCTAGTGGATT
*
97783605 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGTTAGTGGAGT
97783635 TGGTGGTGGA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
59 2 0.02
60 83 0.98
ACGTcount: A:0.23, C:0.04, G:0.45, T:0.28
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTAGCTAGTGGATT
Found at i:97783638 original size:30 final size:30
Alignment explanation
Indices: 97783529--97783647 Score: 150
Period size: 30 Copynumber: 4.0 Consensus size: 30
97783519 AATGGAGCAA
* *
97783529 GTGTAGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* * ** *
97783559 GTGTGGTTAGTGGAGTAGGTAATGGAGCAA-
1 GTGTGGCTAGTGGAGTTGGTGGTGGA-AAAG
*
97783589 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
97783619 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
97783648 AGCTAAGATT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
29 2 0.03
30 69 0.95
31 2 0.03
ACGTcount: A:0.23, C:0.03, G:0.45, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:97789982 original size:12 final size:12
Alignment explanation
Indices: 97789952--97789985 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
97789942 TATATATTTT
97789952 AAAATT-ATATA
1 AAAATTAATATA
97789963 AAAA-TAATATA
1 AAAATTAATATA
97789974 AAAATTAATATA
1 AAAATTAATATA
97789986 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:97790616 original size:30 final size:30
Alignment explanation
Indices: 97790576--97790637 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
97790566 ATACATAGTT
* * * *
97790576 TAATATATTATATTTTAATATTATTTTATA
1 TAATACATTATAGTTTAATATGATTTGATA
*
97790606 TAATACATTATAGTTTGATATGATTTGATA
1 TAATACATTATAGTTTAATATGATTTGATA
97790636 TA
1 TA
97790638 TTTTTAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (30 bp):
TAATACATTATAGTTTAATATGATTTGATA
Found at i:97790912 original size:18 final size:19
Alignment explanation
Indices: 97790889--97790925 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
97790879 TTAAATTTTA
97790889 TCAAATCA-ACACTAAAAT
1 TCAAATCAGACACTAAAAT
*
97790907 TCAAATTAGACACTAAAAT
1 TCAAATCAGACACTAAAAT
97790926 GTTAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (19 bp):
TCAAATCAGACACTAAAAT
Found at i:97790912 original size:28 final size:28
Alignment explanation
Indices: 97790860--97790913 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
97790850 ATTATTTAAA
* *
97790860 ATCAAATCAATATTAACAATTAAATTTT
1 ATCAAATCAACACTAACAATTAAATTTT
97790888 ATCAAATCAACACTAA-AATTCAAATT
1 ATCAAATCAACACTAACAATT-AAATT
97790914 AGACACTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (28 bp):
ATCAAATCAACACTAACAATTAAATTTT
Found at i:97793696 original size:31 final size:30
Alignment explanation
Indices: 97793657--97793751 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 30
97793647 TTCCCCTATA
*
97793657 ATATAAAATTATATTTTAAGTCTTTAAAATT
1 ATATAAAATTATAATTTAA-TCTTTAAAATT
* *
97793688 TTATAAAATTATACTTTAATCCTTTAAAATT
1 ATATAAAATTATAATTTAAT-CTTTAAAATT
97793719 ATA-AAAATT-TAATTTAATCATTTACAAATT
1 ATATAAAATTATAATTTAATC-TTTA-AAATT
97793749 ATA
1 ATA
97793752 AATATATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 12 0.21
30 15 0.26
31 29 0.51
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (30 bp):
ATATAAAATTATAATTTAATCTTTAAAATT
Found at i:97794612 original size:14 final size:14
Alignment explanation
Indices: 97794593--97794637 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 14
97794583 TGACCCGCCC
97794593 ATATTAATTTTTTA
1 ATATTAATTTTTTA
*
97794607 ATATT-A-TTTTTC
1 ATATTAATTTTTTA
97794619 ATA-TAATTTTTTA
1 ATATTAATTTTTTA
*
97794632 AAATTA
1 ATATTA
97794638 TAATACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
11 1 0.04
12 9 0.36
13 8 0.32
14 7 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTAATTTTTTA
Found at i:97794646 original size:25 final size:26
Alignment explanation
Indices: 97794592--97794646 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
97794582 CTGACCCGCC
* ** *
97794592 CATATTAATTTTTTAATATTATTTTT
1 CATATTAATTTTTTAAAATTATAATA
97794618 CATA-TAATTTTTTAAAATTATAATA
1 CATATTAATTTTTTAAAATTATAATA
97794643 CATA
1 CATA
97794647 AAAAATACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (26 bp):
CATATTAATTTTTTAAAATTATAATA
Found at i:97795595 original size:31 final size:31
Alignment explanation
Indices: 97795557--97795616 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
97795547 ACTAAGAGAT
97795557 AGCGAAAAAATGTAAAATGTAAAAAAGTTTA
1 AGCGAAAAAATGTAAAATGTAAAAAAGTTTA
97795588 AGCGAAAAAATGTAAAATGTAAAAAAGTT
1 AGCGAAAAAATGTAAAATGTAAAAAAGTT
97795617 GAGCGGTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.17, T:0.22
Consensus pattern (31 bp):
AGCGAAAAAATGTAAAATGTAAAAAAGTTTA
Found at i:97796516 original size:18 final size:17
Alignment explanation
Indices: 97796493--97796534 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
97796483 TGTTTTTGGG
97796493 TTTAATTGCGTTGTGCTC
1 TTTAATTGCG-TGTGCTC
**
97796511 TTTAATTTTGTGTGCTC
1 TTTAATTGCGTGTGCTC
97796528 TTTAATT
1 TTTAATT
97796535 TTGTTTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.57
Consensus pattern (17 bp):
TTTAATTGCGTGTGCTC
Found at i:97796526 original size:17 final size:17
Alignment explanation
Indices: 97796504--97796538 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
97796494 TTAATTGCGT
97796504 TGTGCTCTTTAATTTTG
1 TGTGCTCTTTAATTTTG
97796521 TGTGCTCTTTAATTTTG
1 TGTGCTCTTTAATTTTG
97796538 T
1 T
97796539 TTACTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.60
Consensus pattern (17 bp):
TGTGCTCTTTAATTTTG
Found at i:97796545 original size:17 final size:17
Alignment explanation
Indices: 97796508--97796547 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
97796498 TTGCGTTGTG
*
97796508 CTCTTTAATTTTGTGTG
1 CTCTTTAATTTTGTGTA
*
97796525 CTCTTTAATTTTGTTTA
1 CTCTTTAATTTTGTGTA
97796542 CTCTTT
1 CTCTTT
97796548 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.12, C:0.15, G:0.10, T:0.62
Consensus pattern (17 bp):
CTCTTTAATTTTGTGTA
Found at i:97796938 original size:16 final size:16
Alignment explanation
Indices: 97796917--97796958 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
97796907 TTAGTATTGA
*
97796917 AATTAATTTATCAAGT
1 AATTAATTTATCAAAT
*
97796933 AATTAATTTATTAAAT
1 AATTAATTTATCAAAT
97796949 AATATAATTT
1 AAT-TAATTT
97796959 TTTGGTCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTAATTTATCAAAT
Found at i:97799782 original size:24 final size:24
Alignment explanation
Indices: 97799740--97799785 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
97799730 AAAAAAAATA
*
97799740 AATAAAATATAATTAAATATTTGG
1 AATAAAATATAAATAAATATTTGG
97799764 AATAAAATATAGAAT-AATATTT
1 AATAAAATATA-AATAAATATTT
97799786 ATCCTATTTC
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (24 bp):
AATAAAATATAAATAAATATTTGG
Found at i:97802047 original size:7 final size:7
Alignment explanation
Indices: 97802035--97802106 Score: 54
Period size: 7 Copynumber: 9.3 Consensus size: 7
97802025 AAACAATACT
97802035 AAAAATA
1 AAAAATA
97802042 AAAAATA
1 AAAAATA
97802049 CAAAAATA
1 -AAAAATA
*
97802057 AATAAACA
1 AA-AAATA
*
97802065 AAATATA
1 AAAAATA
97802072 AAAATATA
1 AAAA-ATA
*
97802080 AAATATCAGTC
1 AAA-A--A-TA
97802091 AAAAATA
1 AAAAATA
97802098 AAAAATA
1 AAAAATA
97802105 AA
1 AA
97802107 GATATTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 25 0.48
8 20 0.38
9 1 0.02
10 2 0.04
11 4 0.08
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:97802055 original size:15 final size:15
Alignment explanation
Indices: 97802023--97802075 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
97802013 TTTAACCTAC
97802023 TAAAACAATACTAAAAA
1 TAAAA-AATAC-AAAAA
97802040 TAAAAAATACAAAAA
1 TAAAAAATACAAAAA
*
97802055 TAAATAA-ACAAAATA
1 TAAAAAATACAAAA-A
97802070 TAAAAA
1 TAAAAA
97802076 TATAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 6 0.18
15 17 0.52
16 5 0.15
17 5 0.15
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAATACAAAAA
Found at i:97802082 original size:15 final size:15
Alignment explanation
Indices: 97802036--97802085 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
97802026 AACAATACTA
97802036 AAAATA-AAAAATAC
1 AAAATATAAAAATAC
97802050 AAAA-ATAAATAA-AC
1 AAAATATAAA-AATAC
*
97802064 AAAATATAAAAATAT
1 AAAATATAAAAATAC
97802079 AAAATAT
1 AAAATAT
97802086 CAGTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 1 0.03
14 15 0.48
15 15 0.48
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATATAAAAATAC
Found at i:97802445 original size:21 final size:20
Alignment explanation
Indices: 97802420--97802480 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
97802410 TAATAAAATT
97802420 TATAAACAAAATATATAATAA
1 TATAAACAAAATATATAAT-A
*
97802441 TATAAACAATATGATAGATAATA
1 TATAAACAA-A--ATATATAATA
* *
97802464 TATAAATAATATATATA
1 TATAAACAAAATATATA
97802481 CTATTTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 6 0.18
21 9 0.27
22 1 0.03
23 9 0.27
24 8 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAACAAAATATATAATA
Found at i:97815021 original size:13 final size:13
Alignment explanation
Indices: 97814995--97815041 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
97814985 ATAACATCAT
97814995 AATTAAAATCT-AA
1 AATTAAAAT-TAAA
*
97815008 ATTTAAAACTTAAA
1 AATTAAAA-TTAAA
*
97815022 ACTTAAAATTAAA
1 AATTAAAATTAAA
97815035 AATTAAA
1 AATTAAA
97815042 TTATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTAAAATTAAA
Found at i:97815022 original size:20 final size:20
Alignment explanation
Indices: 97814995--97815041 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
97814985 ATAACATCAT
*
97814995 AATTAAAA-TCTAAATTTAAA
1 AATTAAAACT-TAAAATTAAA
*
97815015 ACTTAAAACTTAAAATTAAA
1 AATTAAAACTTAAAATTAAA
97815035 AATTAAA
1 AATTAAA
97815042 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAAACTTAAAATTAAA
Found at i:97816255 original size:30 final size:30
Alignment explanation
Indices: 97816219--97816281 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
97816209 ATATATAGTT
*
97816219 TAATATATTAAAATTT-ACTATTATTTGATA
1 TAATATATTAAAATTTGA-TATGATTTGATA
* *
97816249 TAATATATTATAATTTGATATGATTTTATA
1 TAATATATTAAAATTTGATATGATTTGATA
97816279 TAA
1 TAA
97816282 GTAATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (30 bp):
TAATATATTAAAATTTGATATGATTTGATA
Found at i:97816991 original size:19 final size:19
Alignment explanation
Indices: 97816967--97817005 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
97816957 ATAGATTTTA
97816967 AATTAACATAT-ATAAAATT
1 AATTAA-ATATGATAAAATT
*
97816986 AATTAAATATGATATAATT
1 AATTAAATATGATAAAATT
97817005 A
1 A
97817006 TATAAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AATTAAATATGATAAAATT
Found at i:97818013 original size:42 final size:42
Alignment explanation
Indices: 97817963--97818089 Score: 168
Period size: 42 Copynumber: 3.0 Consensus size: 42
97817953 CTTCATTTTC
** *
97817963 TCGATGCCATAGTTCAACTATGGTCTTACACGTCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGTATTCACAT-A
* *
97818006 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGTATTCACATA
* *
97818047 TCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACGTATTCACATA
97818088 TC
1 TC
97818090 TCACTGATGC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 11 0.15
42 62 0.84
43 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACGTATTCACATA
Found at i:97818151 original size:47 final size:46
Alignment explanation
Indices: 97818048--97818171 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
97818038 ATTCATATAT
* * * * *
97818048 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
97818094 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
*
97818141 CGATGCCATATCCCAGATATAGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
97818172 GAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:97818224 original size:31 final size:31
Alignment explanation
Indices: 97818189--97818268 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
97818179 CTTGTCACTT
*
97818189 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTATTCACTGATCAG
* *
97818220 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTATTCACTGATCAG
* *
97818251 GTAGTCGGAGCCACCACT
1 GTAGCCGGAGCTACCACT
97818269 TTTTGTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTATTCACTGATCAG
Found at i:97822000 original size:24 final size:24
Alignment explanation
Indices: 97821956--97822041 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
97821946 AACTTAAACC
* *
97821956 GTTTTATATGTTATTCATTTTAAA
1 GTTTTATATATTATTTATTTTAAA
*
97821980 GTTTT-TATATTATTTATTTTTAA
1 GTTTTATATATTATTTATTTTAAA
*
97822003 GCTCCTT-T-TATTATTTATTTTAAA
1 G-T-TTTATATATTATTTATTTTAAA
* *
97822027 CTTTTATACATTATT
1 GTTTTATATATTATT
97822042 CATTCGAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.04
23 18 0.36
24 27 0.54
25 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.62
Consensus pattern (24 bp):
GTTTTATATATTATTTATTTTAAA
Found at i:97827459 original size:15 final size:16
Alignment explanation
Indices: 97827429--97827462 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
97827419 GCCACCTACT
97827429 CCACCAACTGTCTGCCA
1 CCACCAAC-GTCTGCCA
97827446 CCACCAAC-TCTGCCA
1 CCACCAACGTCTGCCA
97827461 CC
1 CC
97827463 GTTGACTCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.24, C:0.53, G:0.09, T:0.15
Consensus pattern (16 bp):
CCACCAACGTCTGCCA
Found at i:97828433 original size:3 final size:3
Alignment explanation
Indices: 97828420--97828595 Score: 85
Period size: 3 Copynumber: 57.3 Consensus size: 3
97828410 TTTCAAATTA
*
97828420 ATT ATTT ATT ATT A-T ATTT ATT ATT A-T ATCT ATT ATT ATT TTT ATT
1 ATT A-TT ATT ATT ATT A-TT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * * * *
97828466 ATT ATT ACT ATT ACT CTT ATT AACGT ATT ATT ACT ACT ACTT -TCT ATCA
1 ATT ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT A-TT AT-T AT-T
* * * * *
97828515 ATT ATT ATT A-T CTT ATT -TAA AAT ATT AGT ATT ATT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
97828559 CATG ATT ATT ATT ATT ATT A-T ATT ATT ATT CTT ATT A
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
97828596 ATACATTACT
Statistics
Matches: 130, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
2 9 0.07
3 104 0.80
4 16 0.12
5 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:97828520 original size:26 final size:25
Alignment explanation
Indices: 97828463--97828524 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
97828453 TATTATTTTT
* *
97828463 ATTATTATTACTATTACTCTTATTA
1 ATTATTATTACTACTACTCTTATCA
* *
97828488 ACGTATTATTACTACTACTTTCTATCA
1 A-TTATTATTACTACTACTCT-TATCA
97828515 ATTATTATTA
1 ATTATTATTA
97828525 TCTTATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.03
26 24 0.80
27 5 0.17
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATTATTACTACTACTCTTATCA
Found at i:97828743 original size:3 final size:3
Alignment explanation
Indices: 97828735--97828769 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
97828725 TTTTTACTTA
*
97828735 CAT CAT CAT TAT CAT CAT -AT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
97828770 TATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:97828758 original size:17 final size:17
Alignment explanation
Indices: 97828736--97828769 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97828726 TTTTACTTAC
*
97828736 ATCATCATTATCATCAT
1 ATCATCATCATCATCAT
97828753 ATCATCATCATCATCAT
1 ATCATCATCATCATCAT
97828770 TATTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCATCATCATCATCAT
Found at i:97828774 original size:3 final size:3
Alignment explanation
Indices: 97828768--97828844 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
97828758 CATCATCATC
* * *
97828768 ATT ATT ATT ATT ATT ATT -TAT ATT AAT A-T ATT ATT ACT CTT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
97828812 AATGT ATT GTT ATT TTT ATT -TT A-T ATT ATT ATT
1 -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
97828845 GTTTCATCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
2 7 0.12
3 45 0.78
4 5 0.09
5 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:97828801 original size:20 final size:19
Alignment explanation
Indices: 97828776--97828844 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
97828766 TCATTATTAT
97828776 TATTATTATTTATATTAATA
1 TATTATTATTT-TATTAATA
* *
97828796 TATTATTACTCTTATTAATG
1 TATTATTA-TTTTATTAATA
* *
97828816 TATTGTTATTTTTATT-TTA
1 TATTATTA-TTTTATTAATA
97828835 TATTATTATT
1 TATTATTATT
97828845 GTTTCATCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 28 0.70
21 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TATTATTATTTTATTAATA
Found at i:97832074 original size:40 final size:40
Alignment explanation
Indices: 97832009--97832118 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
97831999 TCGAGAATAT
* *
97832009 AAAGTGGATAGGATTCGTTCATGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* * * *
97832049 AAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAATTT
1 AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
* * *
97832089 AAAATGAATAGGATTTATTCATGATTCACT
1 AAAGTGGATAGGATTTGTTCATGATTCACT
97832119 TTGGTAACTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCATGATTCACTATAATAACTC
Found at i:97832140 original size:40 final size:40
Alignment explanation
Indices: 97832014--97832143 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 40
97832004 AATATAAAGT
** * * * **
97832014 GGATAGGATTCGTTCATGATTCACTATAATACCTCAAAGT
1 GGATAGGATTTATTCATGATTCACTATAGTAACTTAAAAC
* * * *
97832054 GGATAGGATTTGTTCCTGATTCACTATAGTAATTTAAAAT
1 GGATAGGATTTATTCATGATTCACTATAGTAACTTAAAAC
* * * **
97832094 GAATAGGATTTATTCATGATTCACTTTGGTAACTTAAGGC
1 GGATAGGATTTATTCATGATTCACTATAGTAACTTAAAAC
97832134 GGATAGGATT
1 GGATAGGATT
97832144 CGACTTGAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (40 bp):
GGATAGGATTTATTCATGATTCACTATAGTAACTTAAAAC
Found at i:97832258 original size:79 final size:78
Alignment explanation
Indices: 97832136--97832340 Score: 302
Period size: 79 Copynumber: 2.6 Consensus size: 78
97832126 CTTAAGGCGG
* *
97832136 ATAGGATTCGACTTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
1 ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
97832201 TAACCTAAGATGA
66 TAACCTAAGATGA
* ** *
97832214 ATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACTGTTACACAATATATGATTCTTTATG
1 ATAGGATTTGACCTGAAAA-GGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATG
* * *
97832279 ATAACTTAAGGTGG
65 ATAACCTAAGATGA
* *
97832293 GTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACAGTTACATGA
1 ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGA
97832341 GATGTGACTC
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
78 42 0.38
79 70 0.62
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (78 bp):
ATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACAGTTACATGATATATGATTCATTATGA
TAACCTAAGATGA
Found at i:97838391 original size:3 final size:3
Alignment explanation
Indices: 97838383--97838410 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
97838373 ATATTGTTCC
97838383 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97838411 TATTTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:97841427 original size:63 final size:63
Alignment explanation
Indices: 97841355--97841480 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
97841345 TCACATGGGT
* * * *
97841355 GTGTGTCTAGGCCGTGTAACTCACTGTTTGTGGTACAAAGACCACACGGCCAGGGATACGGGC
1 GTGTGTCTAGACCATGTAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGGGC
*
97841418 GTGTGTCTAGACCATGTAACTCACTGTTTGTGGTACAAAAACCATACGGCCAGGGACACGGGC
1 GTGTGTCTAGACCATGTAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGGGC
97841481 ATGTACCCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (63 bp):
GTGTGTCTAGACCATGTAACTCACTGTTTGTGGTACAAAAACCACACGGCCAGGGACACGGGC
Found at i:97844553 original size:34 final size:34
Alignment explanation
Indices: 97844445--97844550 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
97844435 TAATTATTCA
* *
97844445 CAAATCTATGGGAGACTTGGAGTGACAACACTCT
1 CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
* * *
97844479 CAAATTTACGGAAGACTTGGAGTGGGAACACTCT
1 CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
*
97844513 CAAATTTATGGGATGACTTGGAGTGGCAAAACTCT
1 CAAATTTATGGGA-GACTTGGAGTGGCAACACTCT
97844548 CAA
1 CAA
97844551 TTTCATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 40 0.65
35 22 0.35
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (34 bp):
CAAATTTATGGGAGACTTGGAGTGGCAACACTCT
Found at i:97846757 original size:91 final size:90
Alignment explanation
Indices: 97846647--97846812 Score: 246
Period size: 90 Copynumber: 1.8 Consensus size: 90
97846637 TTAAACTTAA
* * * * *
97846647 AAAAAAAAGTAATTAAGCTTCTG-TTTTCTTTTTGCA-TTCAATTGGCTATTTGAACTTTTAAAA
1 AAAAAAAAGCAATTAAGCTTCTGATTTT-TTTTT-CACTT-AAGTGGATATTTGAACTATCAAAA
97846710 TGTATCAAAAAGAGCCTCAAATTTTTTC
63 TGTATCAAAAAGAGCCTCAAATTTTTTC
97846738 AAAAAAAAGCAATTAAGCTTCTGATTTTTTTTTCACTTAAGTGGATATTTGAACTATCAAAATGT
1 AAAAAAAAGCAATTAAGCTTCTGATTTTTTTTTCACTTAAGTGGATATTTGAACTATCAAAATGT
97846803 ATCAAAAAGA
66 ATCAAAAAGA
97846813 CCCTTTGATC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
90 35 0.51
91 29 0.43
92 4 0.06
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (90 bp):
AAAAAAAAGCAATTAAGCTTCTGATTTTTTTTTCACTTAAGTGGATATTTGAACTATCAAAATGT
ATCAAAAAGAGCCTCAAATTTTTTC
Found at i:97849090 original size:18 final size:18
Alignment explanation
Indices: 97849048--97849090 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
97849038 TTTTTGCCCA
97849048 TATTGTTATTATTATTAT
1 TATTGTTATTATTATTAT
* * *
97849066 TAGTGTTATTTTTATTTT
1 TATTGTTATTATTATTAT
97849084 TATTGTT
1 TATTGTT
97849091 CAAGTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (18 bp):
TATTGTTATTATTATTAT
Found at i:97850586 original size:19 final size:21
Alignment explanation
Indices: 97850564--97850603 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
97850554 ACTTCACATT
*
97850564 AATATTTTAA-TCA-TAATAA
1 AATATTTAAACTCACTAATAA
97850583 AATATTTAAACTCACTAATAA
1 AATATTTAAACTCACTAATAA
97850604 TACTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATTTAAACTCACTAATAA
Found at i:97853436 original size:7 final size:6
Alignment explanation
Indices: 97853398--97853439 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
97853388 TTTTATAATT
*
97853398 AATTTA AATTTA AATTTA AATTTA ATTCTTA AATTTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AAT-TTA AA-TTTA AATT
97853440 ATTTAGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.69
7 9 0.28
8 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:97854641 original size:16 final size:16
Alignment explanation
Indices: 97854620--97854653 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
97854610 TATAGAGCTT
97854620 ATTAGGTTAAGAAGAA
1 ATTAGGTTAAGAAGAA
97854636 ATTAGGTTAAGAAGAA
1 ATTAGGTTAAGAAGAA
97854652 AT
1 AT
97854654 AATATGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (16 bp):
ATTAGGTTAAGAAGAA
Found at i:97854954 original size:19 final size:21
Alignment explanation
Indices: 97854918--97854957 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
97854908 TTTTATAATA
*
97854918 TTATTAGTGAGTTTAAATATT
1 TTATTAGTGAGTTGAAATATT
97854939 TTATTA-TGA-TTGAAATATT
1 TTATTAGTGAGTTGAAATATT
97854958 AATGTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (21 bp):
TTATTAGTGAGTTGAAATATT
Found at i:97855658 original size:50 final size:50
Alignment explanation
Indices: 97855583--97855677 Score: 181
Period size: 50 Copynumber: 1.9 Consensus size: 50
97855573 ATGGTTAAGT
97855583 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTCTTTGA
1 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTCTTTGA
*
97855633 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGTTAAGTTC
1 CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTC
97855678 ATTATGATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (50 bp):
CTGTGGACCCCATCTAAGAGACAAAAAATCTATTCGGATAAGTTCTTTGA
Found at i:97857274 original size:15 final size:14
Alignment explanation
Indices: 97857256--97857320 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
97857246 ATATAAAATC
97857256 ATATTAAATTCTAAT
1 ATATTAAA-TCTAAT
* *
97857271 ATATTATATCAAAT
1 ATATTAAATCTAAT
*
97857285 AATATTAATATATAAT
1 -ATATTAA-ATCTAAT
97857301 ATATTAAA-CT-AT
1 ATATTAAATCTAAT
97857313 ATATTAAA
1 ATATTAAA
97857321 AATATATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 10 0.24
13 1 0.02
14 6 0.14
15 20 0.48
16 5 0.12
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATTAAATCTAAT
Found at i:97857278 original size:30 final size:30
Alignment explanation
Indices: 97857243--97857306 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
97857233 TAATATTTTA
* *
97857243 ATTATATAAAATCATATTAA-ATTCTAATAT
1 ATTATATAAAATAATATTAATA-TATAATAT
*
97857273 ATTATATCAAATAATATTAATATATAATAT
1 ATTATATAAAATAATATTAATATATAATAT
97857303 ATTA
1 ATTA
97857307 AACTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
ATTATATAAAATAATATTAATATATAATAT
Found at i:97858283 original size:25 final size:25
Alignment explanation
Indices: 97858255--97858303 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
97858245 AATTTTAGTT
97858255 TAGCTTAGTTGCTAATTATGGCGAA
1 TAGCTTAGTTGCTAATTATGGCGAA
97858280 TAGCTTAGTTGCTAATTATGGCGA
1 TAGCTTAGTTGCTAATTATGGCGA
97858304 TTTATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (25 bp):
TAGCTTAGTTGCTAATTATGGCGAA
Found at i:97859174 original size:27 final size:29
Alignment explanation
Indices: 97859134--97859193 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
97859124 TATATGCATA
*
97859134 ATATATACGTAATATAGTA-CTAAGAATAT
1 ATATATACG-AATATAGTATCTAAAAATAT
*
97859163 ATATATAC-AATATAGTATTTAAAAATAT
1 ATATATACGAATATAGTATCTAAAAATAT
97859191 ATA
1 ATA
97859194 CATAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 11 0.39
29 8 0.29
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (29 bp):
ATATATACGAATATAGTATCTAAAAATAT
Found at i:97859833 original size:26 final size:25
Alignment explanation
Indices: 97859788--97859840 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
97859778 AAGTGTACAC
* *
97859788 ATGGCATTAAAAATATATACATAAT
1 ATGGCATGAAAAATACATACATAAT
*
97859813 ATGGCGATGAAAAATACATACGTAAT
1 ATGGC-ATGAAAAATACATACATAAT
97859839 AT
1 AT
97859841 AGTATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.28
Consensus pattern (25 bp):
ATGGCATGAAAAATACATACATAAT
Found at i:97859931 original size:3 final size:3
Alignment explanation
Indices: 97859919--97859965 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
97859909 TTATACAAAT
* **
97859919 ATA ATAA ATA ATA ATA ATA ATA ATA ACA ATA ATA GCA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
97859965 A
1 A
97859966 AGATACAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:97864305 original size:21 final size:21
Alignment explanation
Indices: 97864276--97864354 Score: 60
Period size: 20 Copynumber: 3.9 Consensus size: 21
97864266 TGTTATTTTA
97864276 AATTT-AATAAAATATATTAT
1 AATTTAAATAAAATATATTAT
***
97864296 AATTTAAATATTTTATATT-T
1 AATTTAAATAAAATATATTAT
* *
97864316 -ATCTCAAATAACATA-ATTAT
1 AAT-TTAAATAAAATATATTAT
97864336 AATTTTAAA-AAAATATATT
1 AA-TTTAAATAAAATATATT
97864355 TTTCAGAAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
19 5 0.11
20 20 0.45
21 18 0.41
22 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTAAATAAAATATATTAT
Found at i:97865963 original size:18 final size:18
Alignment explanation
Indices: 97865922--97865962 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
97865912 CTAGATGTTT
* *
97865922 TAAAAATATTAATTACTA
1 TAAAAATATCAATTACGA
97865940 TAAAAATATCAA-TACGA
1 TAAAAATATCAATTACGA
97865957 TAAAAA
1 TAAAAA
97865963 AAATTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATATCAATTACGA
Found at i:97866657 original size:21 final size:21
Alignment explanation
Indices: 97866625--97866666 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
97866615 TAATATAAAA
97866625 TTTATAATATAT-ATAACTTTT
1 TTTATAATATATAAT-ACTTTT
97866646 TTTA-AATAATATAATACTTTT
1 TTTATAAT-ATATAATACTTTT
97866667 ACAACACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.16
21 14 0.74
22 2 0.11
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATAATATATAATACTTTT
Found at i:97879895 original size:21 final size:20
Alignment explanation
Indices: 97879871--97879909 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
97879861 TTACTGTTTA
*
97879871 ATAATATTAATTCATTTTTTT
1 ATAAAATTAATT-ATTTTTTT
*
97879892 ATAAAATTTATTATTTTT
1 ATAAAATTAATTATTTTT
97879910 CAATATCCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATAAAATTAATTATTTTTTT
Found at i:97882891 original size:41 final size:41
Alignment explanation
Indices: 97882834--97882915 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
97882824 GAAAAAACGA
*
97882834 GATGAGAAAAGCAAAAAAGGAAATGGAGTACTCGTAAACCT
1 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
97882875 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
1 GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
97882916 AAAAGCATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.13, G:0.23, T:0.15
Consensus pattern (41 bp):
GATGAGAAAAGCAAAAAAGCAAATGGAGTACTCGTAAACCT
Found at i:97883337 original size:39 final size:39
Alignment explanation
Indices: 97883283--97883358 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
97883273 AAGAAACCGT
* * *
97883283 GCCACTGTGGCTCCAAATCATCTTGCTACTATCCCTGCG
1 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTGCG
97883322 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTG
1 GCCACTGTCGCTCCAAATCATCTTGATACTATACCTG
97883359 TGGTGGCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.21, C:0.34, G:0.16, T:0.29
Consensus pattern (39 bp):
GCCACTGTCGCTCCAAATCATCTTGATACTATACCTGCG
Found at i:97889693 original size:22 final size:22
Alignment explanation
Indices: 97889650--97889694 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
97889640 TCTTTGGGTA
* **
97889650 AAGGTGTAAACAAGAATTTCGC
1 AAGGCGTAAACAAGAACCTCGC
97889672 AAGGCGTAAACAAGAACCTCGC
1 AAGGCGTAAACAAGAACCTCGC
97889694 A
1 A
97889695 TTGCTCTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (22 bp):
AAGGCGTAAACAAGAACCTCGC
Found at i:97891414 original size:79 final size:79
Alignment explanation
Indices: 97891278--97891423 Score: 186
Period size: 79 Copynumber: 1.8 Consensus size: 79
97891268 TCACGGTTGC
* * * ***
97891278 AAATCAGAATCAGTAACAATCAGTCTAACATTTATAGATATTGTATATTCCTAATCAACAAAGTA
1 AAATCAGAATCAGTAACAATCAATCTAACATTAATAAATATCACATATTCCTAATCAACAAAGTA
97891343 ACATAAAGGGTTAT
66 ACATAAAGGGTTAT
* * * *
97891357 AAATCAGAATCAGTAACAATCAATCTAACA-TAATCAAATGTCACATATTCTTTATCAACAGAGT
1 AAATCAGAATCAGTAACAATCAATCTAACATTAAT-AAATATCACATATTCCTAATCAACAAAGT
97891421 AAC
65 AAC
97891424 CCAGAGGCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.05
79 53 0.95
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (79 bp):
AAATCAGAATCAGTAACAATCAATCTAACATTAATAAATATCACATATTCCTAATCAACAAAGTA
ACATAAAGGGTTAT
Found at i:97892149 original size:18 final size:18
Alignment explanation
Indices: 97892126--97892162 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
97892116 TAACTAGCAA
* *
97892126 AAAGAAAGATAACAAAAC
1 AAAGAAAAATAAAAAAAC
97892144 AAAGAAAAATAAAAAAAC
1 AAAGAAAAATAAAAAAAC
97892162 A
1 A
97892163 GAGGAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAGAAAAATAAAAAAAC
Found at i:97893608 original size:21 final size:21
Alignment explanation
Indices: 97893584--97893624 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97893574 TTTTTTTAAA
*
97893584 CTTGTAATAAAAAGTTTAGAG
1 CTTGAAATAAAAAGTTTAGAG
*
97893605 CTTGAAATAAAAATTTTAGA
1 CTTGAAATAAAAAGTTTAGA
97893625 TTATTACATC
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:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (21 bp):
CTTGAAATAAAAAGTTTAGAG
Found at i:97893670 original size:19 final size:20
Alignment explanation
Indices: 97893642--97893680 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
97893632 ATCTATTTTC
*
97893642 TTTAAATTAA-GAGTTATTT
1 TTTAAATTAATGAATTATTT
*
97893661 TTTAACTTAATGAATTATTT
1 TTTAAATTAATGAATTATTT
97893681 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTAAATTAATGAATTATTT
Found at i:97897473 original size:15 final size:15
Alignment explanation
Indices: 97897453--97897483 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
97897443 GTAGGGAAGA
*
97897453 ACCATTTTCAAAATT
1 ACCATTTCCAAAATT
97897468 ACCATTTCCAAAATT
1 ACCATTTCCAAAATT
97897483 A
1 A
97897484 TGGCCTGCAC
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:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
ACCATTTCCAAAATT
Found at i:97899306 original size:23 final size:23
Alignment explanation
Indices: 97899276--97899328 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
97899266 TTCTCCAGAT
*
97899276 AGCTTCTCCCG-ATAATCATGGTG
1 AGCTTCT-CCGAATAATCATAGTG
97899299 AGCTTCTCCGAATAATCATAGTG
1 AGCTTCTCCGAATAATCATAGTG
97899322 AGCTTCT
1 AGCTTCT
97899329 AAGAATACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (23 bp):
AGCTTCTCCGAATAATCATAGTG
Found at i:97899334 original size:23 final size:23
Alignment explanation
Indices: 97899287--97899335 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
97899277 GCTTCTCCCG
* **
97899287 ATAATCATGGTGAGCTTCTCCGA
1 ATAATCATAGTGAGCTTCTAAGA
97899310 ATAATCATAGTGAGCTTCTAAGA
1 ATAATCATAGTGAGCTTCTAAGA
97899333 ATA
1 ATA
97899336 CATTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (23 bp):
ATAATCATAGTGAGCTTCTAAGA
Found at i:97910865 original size:26 final size:24
Alignment explanation
Indices: 97910835--97910882 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
97910825 AATAAAAAAA
*
97910835 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
97910861 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
97910883 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:97910902 original size:21 final size:21
Alignment explanation
Indices: 97910853--97910911 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
97910843 ATAATAAATC
*
97910853 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
97910873 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
97910895 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
97910912 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:97918843 original size:3 final size:3
Alignment explanation
Indices: 97918835--97918880 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
97918825 TCCTGTTTGT
97918835 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
97918881 AATGGAGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:97923291 original size:14 final size:13
Alignment explanation
Indices: 97923274--97923313 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
97923264 CCATAACCAA
*
97923274 AAACCCTAAACCC
1 AAACCTTAAACCC
97923287 TAAACCTTAAAACCC
1 -AAACCTT-AAACCC
97923302 AAACCTTAAACC
1 AAACCTTAAACC
97923314 TTGGGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 13 0.54
15 6 0.25
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACCTTAAACCC
Found at i:97923292 original size:21 final size:20
Alignment explanation
Indices: 97923257--97923313 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
97923247 AACCATGAAC
97923257 CCCAAACCC-ATAACCAAAAA
1 CCCAAACCCTA-AACCAAAAA
*
97923277 CCCTAAACCCTAAACCTTAAAA
1 CCC-AAACCCTAAACC-AAAAA
*
97923299 CCCAAACCTTAAACC
1 CCCAAACCCTAAACC
97923314 TTGGGGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 21 0.66
22 8 0.25
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.12
Consensus pattern (20 bp):
CCCAAACCCTAAACCAAAAA
Done.