Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 230 of 332
Found at i:76318239 original size:16 final size:16
Alignment explanation
Indices: 76318226--76318260 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
76318216 ACAAAAGCTG
76318226 AAAAGCTAAAAAGCCA
1 AAAAGCTAAAAAGCCA
*
76318242 AAAAGGTAAAAAGCCA
1 AAAAGCTAAAAAGCCA
76318258 AAA
1 AAA
76318261 TGTGGGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.14, G:0.14, T:0.06
Consensus pattern (16 bp):
AAAAGCTAAAAAGCCA
Found at i:76319034 original size:34 final size:34
Alignment explanation
Indices: 76318962--76319034 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
76318952 CATATTGCAC
* *
76318962 TGAAATGGGCTAAGGCCCAGACTGCCTCTATTAC
1 TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
* * *
76318996 TGAAATGGGCTCAGGCCTAGACTG-ATACTGTTAA
1 TGAAATGGGCTAAGGCCCAGACTGCAT-CTATTAA
76319030 TGAAA
1 TGAAA
76319035 AGGGGTTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCAGACTGCATCTATTAA
Found at i:76321708 original size:40 final size:40
Alignment explanation
Indices: 76321610--76321872 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
76321600 CTCCTGTTCA
* * * * *
76321610 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
76321649 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
76321689 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
76321729 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
76321769 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
76321809 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
76321849 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
76321873 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:76329019 original size:40 final size:40
Alignment explanation
Indices: 76328921--76329183 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
76328911 TCCTTGTTCA
* * * * *
76328921 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
76328960 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
76329000 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
76329040 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
76329080 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
76329120 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
76329160 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
76329184 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:76335010 original size:6 final size:6
Alignment explanation
Indices: 76335001--76335054 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
76334991 ACAATAAACG
* * *
76335001 TAAAAA TAAAAA TAAAAC TAAAAA TAAGAAAA TAAAAT TGAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAAA
76335051 TAAA
1 TAAA
76335055 TGATAAATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 33 0.82
7 2 0.05
8 5 0.12
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:76335014 original size:18 final size:17
Alignment explanation
Indices: 76334983--76335054 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
76334973 AAGAAGTCTA
*
76334983 AAAACATAACAATAAACGT
1 AAAA-ATAAAAATAAAC-T
76335002 AAAAATAAAAATAAAACT
1 AAAAATAAAAAT-AAACT
*
76335020 AAAAATAAGAAAATAAAATT
1 AAAAAT-A-AAAAT-AAACT
*
76335040 GAAAATAAAAATAAA
1 AAAAATAAAAATAAA
76335055 TGATAAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.06
18 19 0.40
19 10 0.21
20 15 0.32
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAATAAACT
Found at i:76335032 original size:26 final size:26
Alignment explanation
Indices: 76335003--76335053 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
76334993 AATAAACGTA
76335003 AAAATAAAAAT-AAAACTAAAAATAAG
1 AAAATAAAAATGAAAA-TAAAAATAAG
*
76335029 AAAATAAAATTGAAAATAAAAATAA
1 AAAATAAAAATGAAAATAAAAATAA
76335054 ATGATAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAATAAAAATGAAAATAAAAATAAG
Found at i:76335189 original size:23 final size:23
Alignment explanation
Indices: 76335162--76335205 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
76335152 AGTGTCGCAT
76335162 CAATACGGTCGAACCTCTGATCG
1 CAATACGGTCGAACCTCTGATCG
*
76335185 CAATACGGTCGAACCTTTGAT
1 CAATACGGTCGAACCTCTGAT
76335206 TGTAGTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (23 bp):
CAATACGGTCGAACCTCTGATCG
Found at i:76342464 original size:37 final size:37
Alignment explanation
Indices: 76342400--76342475 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
76342390 TCAAAAGTGA
* ** *
76342400 TAGGTTTTATGTAAATATAGAGTATATATTGTTTGTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
* *
76342437 TAGGTTTTATGTAAGTATACAACATATATTATTTTTC
1 TAGGTTTTATGTAAATATACAACATATATTATTTGTC
76342474 TA
1 TA
76342476 TCTTAATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (37 bp):
TAGGTTTTATGTAAATATACAACATATATTATTTGTC
Found at i:76342847 original size:22 final size:22
Alignment explanation
Indices: 76342798--76342841 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
76342788 TTTTTGTTCA
76342798 TGATTTGTTAATTAGATTTATT
1 TGATTTGTTAATTAGATTTATT
76342820 TGATTTGTTACA-TA-ATTTATT
1 TGATTTGTTA-ATTAGATTTATT
76342841 T
1 T
76342842 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TGATTTGTTAATTAGATTTATT
Found at i:76344316 original size:9 final size:9
Alignment explanation
Indices: 76344304--76344329 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
76344294 ATAACTATTC
76344304 AAACTAACA
1 AAACTAACA
76344313 AAACTAACA
1 AAACTAACA
76344322 AAACTAAC
1 AAACTAAC
76344330 TCTCTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
AAACTAACA
Found at i:76352558 original size:46 final size:46
Alignment explanation
Indices: 76352507--76352625 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 46
76352497 AGAGCTAGTA
76352507 TAAGACATGTCTGGGACATGCATCGGCCT-CGAGATG-TAAACCAGTG
1 TAAGACATGTCTGGGACATGCATCGG-CTACGAGATGAT-AACCAGTG
* * ***
76352553 TAAGACATGTCTAGGACATGCATCGGCTATGAGATGATAGTGAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAACCAGTG
76352599 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGA-CATGTCTGGGACAT-GCATCG
76352626 ACACCTTACC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.03
46 41 0.65
47 14 0.22
48 6 0.10
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAACCAGTG
Found at i:76360054 original size:47 final size:45
Alignment explanation
Indices: 76359988--76360209 Score: 168
Period size: 47 Copynumber: 4.8 Consensus size: 45
76359978 ATTGTTGGCT
*
76359988 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCACCTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CA-CTTATGAGAGCC
* *
76360034 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACTT---ATGAGAGCC
* *** * *
76360082 AGTGTAAGACATGTCTGGGACAT-ACATCGGCTAAGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC--ACTTATGAGAGCC
*
76360128 AGTGTAAGATAATGTCTGGGACATGGCATC-G-ACTTGA-GATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACTT-ATG--A-GAGCC
**
76360175 AGTGTAAGACCATGTCTAAGACATGGCATCGGCAC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC
76360210 CTTACCCACG
Statistics
Matches: 139, Mismatches: 21, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 31 0.22
47 72 0.52
48 29 0.21
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACTTATGAGAGCC
Found at i:76360146 original size:94 final size:93
Alignment explanation
Indices: 76359985--76360191 Score: 254
Period size: 94 Copynumber: 2.2 Consensus size: 93
76359975 GTTATTGTTG
* * * ** *
76359985 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCAACAGATGAGAGCCAGTGTAAGACAATGTC
*
76360050 TGGGACATGGCATCGGCATTGAGACGA-GA
66 TGGGACATGGCATCGAC-TTGAGA-GATGA
* * * * *
76360079 GCTAGTGTAAGACATGTCTGGGACATACATCGGCTAAGAGATGATAGTCAGTGTAAGATAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATACATCGGCCAACAGATGAGAGCCAGTGTAAGACAATGTC
*
76360144 TGGGACATGGCATCGACTTGAGATATGA
66 TGGGACATGGCATCGACTTGAGAGATGA
*
76360172 GCCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGA-CATGTCT
76360192 AAGACATGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
92 1 0.01
93 19 0.20
94 77 0.79
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCGGCCAACAGATGAGAGCCAGTGTAAGACAATGTC
TGGGACATGGCATCGACTTGAGAGATGA
Found at i:76361280 original size:13 final size:13
Alignment explanation
Indices: 76361262--76361286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76361252 AATTCTACAC
76361262 GGGTGTGGGACAA
1 GGGTGTGGGACAA
76361275 GGGTGTGGGACA
1 GGGTGTGGGACA
76361287 CGGGCATGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.56, T:0.16
Consensus pattern (13 bp):
GGGTGTGGGACAA
Found at i:76363838 original size:34 final size:34
Alignment explanation
Indices: 76363795--76363864 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
76363785 GACTAAATGT
76363795 CATCATAGTGTCCTGATTATGGACCTACAAGGTC
1 CATCATAGTGTCCTGATTATGGACCTACAAGGTC
*
76363829 CATCATAGTGTCCTGATTATGGGCCTACAAGGTC
1 CATCATAGTGTCCTGATTATGGACCTACAAGGTC
76363863 CA
1 CA
76363865 AAACAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (34 bp):
CATCATAGTGTCCTGATTATGGACCTACAAGGTC
Found at i:76369337 original size:20 final size:20
Alignment explanation
Indices: 76369312--76369357 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
76369302 TGCACACAAA
*
76369312 GAAGAACGAAGAAAAGACTC
1 GAAGAACAAAGAAAAGACTC
*
76369332 GAAGAACAAAGAAAAGACTT
1 GAAGAACAAAGAAAAGACTC
76369352 GAAGAA
1 GAAGAA
76369358 AGCCATCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.59, C:0.11, G:0.24, T:0.07
Consensus pattern (20 bp):
GAAGAACAAAGAAAAGACTC
Found at i:76374345 original size:22 final size:22
Alignment explanation
Indices: 76374305--76374346 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
76374295 TATTTGTTTT
* **
76374305 TTTTCCTTATTCTTTTTACTTG
1 TTTTCATTATTCTGATTACTTG
76374327 TTTTCATTATTCTGATTACT
1 TTTTCATTATTCTGATTACT
76374347 GTTATTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTCATTATTCTGATTACTTG
Found at i:76377218 original size:80 final size:79
Alignment explanation
Indices: 76376986--76377244 Score: 283
Period size: 80 Copynumber: 3.3 Consensus size: 79
76376976 TCGAATGATG
* * * * * * *
76376986 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
76377049 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* * *
76377066 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
76377130 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
*
76377146 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
** *
76377211 GAACGAGTAGCTATA
66 GTGCGAGTA-CTAAA
* *
76377226 TCC-GGTTAAATTCCAAAGG
1 TCCGGGTTAAGTCCCAAAGG
76377245 TACGTGATTT
Statistics
Matches: 155, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
79 18 0.12
80 128 0.83
81 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:76377225 original size:40 final size:40
Alignment explanation
Indices: 76376986--76377211 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
76376976 TCGAATGATG
* * * * *
76376986 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
76377026 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76377066 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
76377106 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76377146 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
76377187 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
76377212 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:76387343 original size:33 final size:33
Alignment explanation
Indices: 76387296--76387360 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
76387286 CATGCAGTAA
*
76387296 CAGTCTGGGCCTTAGCCCTATACAATATCAGTG
1 CAGTCTGGGCCTTAGCCCTATACAATAACAGTG
*
76387329 CAGTTTGGGCCTTAGCCCTATACAATAACAGT
1 CAGTCTGGGCCTTAGCCCTATACAATAACAGT
76387361 ATGGGCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (33 bp):
CAGTCTGGGCCTTAGCCCTATACAATAACAGTG
Found at i:76387373 original size:28 final size:28
Alignment explanation
Indices: 76387293--76387380 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 28
76387283 CAGCATGCAG
*
76387293 TAACAGTCTGGGCCTTAGCCCTATACAA
1 TAACAGTATGGGCCTTAGCCCTATACAA
*
76387321 TATCAGTGCAGTTTGGGCCTTAGCCCTATACAA
1 TA--A---CAGTATGGGCCTTAGCCCTATACAA
* *
76387354 TAACAGTATGGGCCTAAGCCCAATACA
1 TAACAGTATGGGCCTTAGCCCTATACA
76387381 GTATCAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 23 0.45
30 1 0.02
31 1 0.02
33 26 0.51
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (28 bp):
TAACAGTATGGGCCTTAGCCCTATACAA
Found at i:76387589 original size:27 final size:27
Alignment explanation
Indices: 76387527--76387581 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
76387517 AACAGTGGCA
* *
76387527 AGCCACCAGTATCAATAATTGTGGCAT
1 AGCCACCAGTAACAATAATTGTGACAT
76387554 AGCCACCAGTAACAATGAA-TGTGACAT
1 AGCCACCAGTAACAAT-AATTGTGACAT
76387581 A
1 A
76387582 TTCACCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (27 bp):
AGCCACCAGTAACAATAATTGTGACAT
Found at i:76387783 original size:27 final size:27
Alignment explanation
Indices: 76387733--76387903 Score: 184
Period size: 27 Copynumber: 6.3 Consensus size: 27
76387723 GGCATAATCA
*
76387733 TCATTTTACCATACATGGGGTATTACGG
1 TCATTTTACCTTACA-GGGGTATTACGG
* *
76387761 TTATTTTACCTTACGGGGGTATTACGG
1 TCATTTTACCTTACAGGGGTATTACGG
* * *
76387788 TCATCTTACCCTACAGGGGCATTACGG
1 TCATTTTACCTTACAGGGGTATTACGG
* *
76387815 TTATTTTACCTTATAGGGGTATTACGG
1 TCATTTTACCTTACAGGGGTATTACGG
* ** *
76387842 TCA-TTTACCCTACAGGGCCATTACGA
1 TCATTTTACCTTACAGGGGTATTACGG
* *
76387868 CCATTTTAGCC-TACAGGGGTATTATGG
1 TCATTTTA-CCTTACAGGGGTATTACGG
76387895 TCATTTTAC
1 TCATTTTAC
76387904 AACCTAAGGA
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.18
27 81 0.70
28 14 0.12
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGTATTACGG
Found at i:76387816 original size:54 final size:54
Alignment explanation
Indices: 76387733--76387903 Score: 220
Period size: 54 Copynumber: 3.2 Consensus size: 54
76387723 GGCATAATCA
* * *
76387733 TCATTTTACCATACATGGGGTATTACGGTTATTTTACCTTACGGGGGTATTACGG
1 TCATTTTACCCTACA-GGGGCATTACGGTTATTTTACCTTACAGGGGTATTACGG
* *
76387788 TCATCTTACCCTACAGGGGCATTACGGTTATTTTACCTTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGGTTATTTTACCTTACAGGGGTATTACGG
* *** *
76387842 TCA-TTTACCCTACAGGGCCATTACGACCATTTTAGCC-TACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGCATTACGGTTATTTTA-CCTTACAGGGGTATTACGG
76387895 TCATTTTAC
1 TCATTTTAC
76387904 AACCTAAGGA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
53 43 0.42
54 46 0.45
55 13 0.13
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGCATTACGGTTATTTTACCTTACAGGGGTATTACGG
Found at i:76387874 original size:53 final size:53
Alignment explanation
Indices: 76387763--76387900 Score: 188
Period size: 53 Copynumber: 2.6 Consensus size: 53
76387753 TATTACGGTT
* * ***
76387763 ATTTTACCTTACGGGGGTATTACGGTCATCTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCTTACAGGGGTATTACGGTCAT-TTACCCTACAGGGCCATTACGACC
*
76387817 ATTTTACCTTATAGGGGTATTACGGTCATTTACCCTACAGGGCCATTACGACC
1 ATTTTACCTTACAGGGGTATTACGGTCATTTACCCTACAGGGCCATTACGACC
*
76387870 ATTTTAGCC-TACAGGGGTATTATGGTCATTT
1 ATTTTA-CCTTACAGGGGTATTACGGTCATTT
76387901 TACAACCTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
53 46 0.61
54 29 0.39
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (53 bp):
ATTTTACCTTACAGGGGTATTACGGTCATTTACCCTACAGGGCCATTACGACC
Found at i:76387927 original size:27 final size:27
Alignment explanation
Indices: 76387897--76387960 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
76387887 TATTATGGTC
*
76387897 ATTTTACAACCTAAGGATATTTC-GATA
1 ATTTTACAAACTAAGGATATTTCAG-TA
* * * *
76387924 ATTTCACAAATTAGGGGTATTTCAGTA
1 ATTTTACAAACTAAGGATATTTCAGTA
76387951 ATTTTACAAA
1 ATTTTACAAA
76387961 TCGAGGTCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
ATTTTACAAACTAAGGATATTTCAGTA
Found at i:76388215 original size:10 final size:10
Alignment explanation
Indices: 76388202--76388228 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
76388192 TGGCCCCACA
76388202 AGGCCCATCG
1 AGGCCCATCG
76388212 AGGCCCATCG
1 AGGCCCATCG
76388222 AGGCCCA
1 AGGCCCA
76388229 AAACAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.41, G:0.30, T:0.07
Consensus pattern (10 bp):
AGGCCCATCG
Found at i:76390729 original size:7 final size:7
Alignment explanation
Indices: 76390702--76390740 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
76390692 GGATTTTATC
*
76390702 TTTATTC
1 TTTATTT
76390709 TTTATTT
1 TTTATTT
76390716 TTTATTT
1 TTTATTT
76390723 TTTATTT
1 TTTATTT
76390730 ATTTATTT
1 -TTTATTT
76390738 TTT
1 TTT
76390741 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:76390730 original size:18 final size:20
Alignment explanation
Indices: 76390695--76390740 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
76390685 TTAAGTAGGA
*
76390695 TTTTATCTTTATTCTTTATT
1 TTTTATCTTTATTATTTATT
*
76390715 TTTTATTTTTTATTTATTTATT
1 TTTTA-TCTTTA-TTATTTATT
76390737 TTTT
1 TTTT
76390741 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 12 0.55
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTATCTTTATTATTTATT
Found at i:76394709 original size:40 final size:40
Alignment explanation
Indices: 76394602--76394804 Score: 270
Period size: 40 Copynumber: 5.1 Consensus size: 40
76394592 CGGATGATAA
* * *
76394602 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
76394642 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
*
76394681 CTGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
76394721 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
76394761 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
76394801 CCGG
1 CCGG
76394805 TTAAATTCCG
Statistics
Matches: 146, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 34 0.23
40 112 0.77
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:76394816 original size:119 final size:119
Alignment explanation
Indices: 76394602--76394818 Score: 280
Period size: 119 Copynumber: 1.8 Consensus size: 119
76394592 CGGATGATAA
* * *
76394602 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAATTGA
* * *
76394667 GCGAGTTATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
66 GCGAGTTACTATATCTCGGCTAAATCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
76394721 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCAATT
* *
76394784 CGAGCGAG-TAGCTATATC-CGGTTAAATTCCGAAGG
64 -GAGCGAGTTA-CTATATCTCGGCTAAATCCCGAAGG
76394819 TACTTTATTT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 61 0.73
120 21 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAATTGA
GCGAGTTACTATATCTCGGCTAAATCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:76398548 original size:40 final size:40
Alignment explanation
Indices: 76398463--76398717 Score: 385
Period size: 40 Copynumber: 6.5 Consensus size: 40
76398453 TGGATGATAA
76398463 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAG--ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
76398500 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
76398540 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
76398580 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76398620 CCGGGCTAAGCCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
76398660 CCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
76398700 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
76398718 TACTTGGCTT
Statistics
Matches: 202, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
37 11 0.05
38 19 0.09
39 15 0.07
40 157 0.78
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:76399738 original size:18 final size:18
Alignment explanation
Indices: 76399715--76399751 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
76399705 TATAAACAAA
76399715 CGGCATAAGTATTTAAGC
1 CGGCATAAGTATTTAAGC
76399733 CGGCATAAGTATTTAAGC
1 CGGCATAAGTATTTAAGC
76399751 C
1 C
76399752 CTGTATAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (18 bp):
CGGCATAAGTATTTAAGC
Found at i:76405299 original size:40 final size:40
Alignment explanation
Indices: 76405192--76405394 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
76405182 CGGATGATAA
* * * *
76405192 CCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
76405232 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
* *
76405271 CCAGGCTAAGTCCCGGAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
76405311 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
76405351 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
76405391 CCGG
1 CCGG
76405395 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 33 0.23
40 110 0.77
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:76418752 original size:43 final size:43
Alignment explanation
Indices: 76418647--76418754 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
76418637 TAGCCCAGCT
* * * *
76418647 ATGGTCTTATACAAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
* * *
76418690 ATGGTCTTACACGTAATCACATAATGATGCGAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
76418733 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
76418755 CTCTTTAATC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAC
Found at i:76420203 original size:13 final size:13
Alignment explanation
Indices: 76420185--76420210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76420175 TATTTCGCAA
76420185 AATTTTATACCAT
1 AATTTTATACCAT
76420198 AATTTTATACCAT
1 AATTTTATACCAT
76420211 GAGGTTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTTATACCAT
Found at i:76421153 original size:5 final size:5
Alignment explanation
Indices: 76421143--76421186 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
76421133 TTAATTTCGG
*
76421143 TTTTC TTTTC TTTTC TCTTC TTTTC -TTTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
76421187 TGTTTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:76426289 original size:46 final size:46
Alignment explanation
Indices: 76426042--76426396 Score: 188
Period size: 46 Copynumber: 7.5 Consensus size: 46
76426032 TGTCGACGCT
* ** *
76426042 ATGTCCCAGACATGGTCTTACACTAGCTTTCCTATAGCAAGGCCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCT-C-ATCTCAATGCCGATG-C
* * * ** *
76426092 ATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGTGTCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATC--TCAATGCCGATG-C
* * * * * * * * **
76426141 ATGTCCCAAACAGGTCTTACA-TTG-ACACACCACAA-GCTGACACC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGA-TGC
* * * * * *
76426185 ATGTCCCAGACAGGTTTTACACTAGCT-TGTATATTGCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CAT-CT-CAATGCCGATGC
* *
76426233 ATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGC
* *
76426279 ATGTCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGAT--TGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT---CATCTC-A-ATGCCGATGC
* * *
76426327 ATATCCCAGACATGTCTTACACTAGCTCTCATGCT--GTGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT-GCCGATGC
76426373 ATGTCCCAGACATGTCTTACACTA
1 ATGTCCCAGACATGTCTTACACTA
76426397 TCACTCATAT
Statistics
Matches: 233, Mismatches: 52, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.00
44 23 0.10
45 4 0.02
46 68 0.29
47 8 0.03
48 65 0.28
49 50 0.21
50 14 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGC
Found at i:76426299 original size:94 final size:94
Alignment explanation
Indices: 76426184--76426396 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 94
76426174 AAGCTGACAC
* * ** * * *
76426184 CATGTCCCAGACAGGTTTTACACTAGCTTGTATAT-TGCGAGGCCGATGCATGTCTCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCT-CGAGACCGATGCATATCCCAGACATGT
*
76426248 CTTACACTAGCTCTCGT-CTCAAT-GCCGATG
65 CTTACACTAGCTCTCATGCT--ATGGCCGATG
**
76426278 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGATTGATGCATATCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGACCGATGCATATCCCAGACATGTC
* *
76426343 TTACACTAGCTCTCATGCTGTGGCTGATG
66 TTACACTAGCTCTCATGCTATGGCCGATG
76426372 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
76426397 TCACTCATAT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 100 0.96
95 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGACCGATGCATATCCCAGACATGTC
TTACACTAGCTCTCATGCTATGGCCGATG
Found at i:76428014 original size:27 final size:27
Alignment explanation
Indices: 76427976--76428050 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
76427966 CAACATATGG
76427976 AGTCCA-CTGGGACAATAAACACAAGGT
1 AGTCCATC-GGGACAATAAACACAAGGT
* * * *
76428003 AGTGCATCGGGATAGTAAACACGAGGT
1 AGTCCATCGGGACAATAAACACAAGGT
* *
76428030 AGTCCATCAGGACATTAAACA
1 AGTCCATCGGGACAATAAACA
76428051 TGGGGTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (27 bp):
AGTCCATCGGGACAATAAACACAAGGT
Found at i:76433110 original size:40 final size:40
Alignment explanation
Indices: 76433066--76433383 Score: 492
Period size: 40 Copynumber: 7.8 Consensus size: 40
76433056 ATAGGAACTC
*
76433066 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
76433106 GCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
76433146 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGT--C-ACTA
* *
76433189 GCACAAATGCCTTCGGGACTTCGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
*
76433229 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGT--C-ACTA
* *
76433272 GCACAAATGCCTTCGGGACTTCGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* *
76433312 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
76433352 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
76433384 CATCCGAATA
Statistics
Matches: 255, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
40 179 0.70
41 2 0.01
42 2 0.01
43 72 0.28
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:76433223 original size:83 final size:81
Alignment explanation
Indices: 76433066--76433381 Score: 546
Period size: 83 Copynumber: 3.9 Consensus size: 81
76433056 ATAGGAACTC
* *
76433066 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT-CACTAGCACAAATGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACACTCGCACAAATGCCTTCGGGACTTAGC
76433130 CCGGATGTAGTCACTA
66 CCGGATGTAGTCACTA
*
76433146 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGT-AC-ACTCGCACAAATGCCTTCGGGACTTA
76433211 GCCCGGATGTAGTCACTA
64 GCCCGGATGTAGTCACTA
*
76433229 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGT-AC-ACTCGCACAAATGCCTTCGGGACTTA
76433294 GCCCGGATGTAGTCACTA
64 GCCCGGATGTAGTCACTA
76433312 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATGCCTTCGGGACTTAGC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACACTCGCACAAATGCCTTCGGGACTTAGC
76433376 CCGGAT
66 CCGGAT
76433382 ATCATCCGAA
Statistics
Matches: 229, Mismatches: 4, Indels: 6
0.96 0.02 0.03
Matches are distributed among these distances:
80 67 0.29
82 2 0.01
83 160 0.70
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACACTCGCACAAATGCCTTCGGGACTTAGC
CCGGATGTAGTCACTA
Found at i:76433236 original size:123 final size:122
Alignment explanation
Indices: 76433036--76433383 Score: 504
Period size: 123 Copynumber: 2.8 Consensus size: 122
76433026 AACCCAAGTA
* * * ** *
76433036 CCTTTGGGATTTAG-CCAGATATAGGAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
76433100 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGT-C-ACTAGCACAAATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACTACTAGCACAAATG
* *
76433155 CCTTCGGGACTTAGCCCGGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATG
1 CCTTCGGGACTTAGCCCGGATATAGT--C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
*
76433220 TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTACTCGCACAAATG
63 TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTACTAGCACAAATG
* * *
76433281 CCTTCGGGACTTCGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
76433346 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
76433384 CATCCGAATA
Statistics
Matches: 205, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
119 12 0.06
120 9 0.04
123 146 0.71
124 1 0.00
125 1 0.00
126 36 0.18
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (122 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTACTACTAGCACAAATG
Found at i:76441093 original size:49 final size:49
Alignment explanation
Indices: 76441000--76441316 Score: 155
Period size: 49 Copynumber: 6.7 Consensus size: 49
76440990 ACATTAAAGT
* * * * *
76441000 CGATGCCGTGTCCCAGATAGGTTTTACACTGACT-TTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTT-ATCTATCGAGGC
*
76441049 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGAG-GC
* * * * * * *
76441098 CAATGCCATGTCTCAGACATGTCTTACACTGACAC--A-C-AAC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGAGGC
* * * * * *
76441142 TGACGCCATGTCCTAGACAGGTCTTACGCTAGCT-TGTA--TATCCTAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-TATCTAT-C-GAGGC
* * * * ** * *
76441191 TGCTG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-T-AATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGAGGC
* * * * * *
76441237 CGATG-CATGCCCCAGACACGTCTTACACTGGCACTCAT-GAT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGAGGC
* *
76441283 CGATG-CATGTCCCAGACATGTTTTACACTGGCTC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTC
76441317 ACATACCACC
Statistics
Matches: 205, Mismatches: 49, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
44 25 0.12
45 2 0.01
46 71 0.35
47 2 0.01
48 26 0.13
49 76 0.37
50 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGAGGC
Found at i:76450696 original size:41 final size:41
Alignment explanation
Indices: 76450639--76450716 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
76450629 CTCATCGGAT
* *
76450639 AATTCGAAGTAATAAATTGACACCCAGTGTCTTATCAAATA
1 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCAAATA
76450680 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCA
1 AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCA
76450717 GTTAAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (41 bp):
AATTCGAAGTAATAAATTGACACCAAGTGTCTCATCAAATA
Found at i:76450893 original size:25 final size:25
Alignment explanation
Indices: 76450865--76450923 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
76450855 AATACAACCA
*
76450865 ATATCCAATT-ATCATATTTACACAT
1 ATAT-CAATTCATAATATTTACACAT
*
76450890 ATAT--ATTCATAATATTTATACAT
1 ATATCAATTCATAATATTTACACAT
76450913 ATATCAATTCA
1 ATATCAATTCA
76450924 ACCCAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
25 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATCAATTCATAATATTTACACAT
Found at i:76451619 original size:4 final size:4
Alignment explanation
Indices: 76451610--76451656 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
76451600 TTTGCGTCTG
*
76451610 TTTC TTTC -TTC TTTC TCTC TTTC TTT- TTTC TTT- TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
76451654 TTT
1 TTT
76451657 TTTTTTCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 12 0.32
4 25 0.68
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:76451647 original size:26 final size:24
Alignment explanation
Indices: 76451610--76451674 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
76451600 TTTGCGTCTG
*
76451610 TTTCTTTCTTCTTTCTCTCTTTCTTT
1 TTTCTTTTTTCTTT-TCTCTTT-TTT
*
76451636 TTTCTTTTTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTCTCTTTTTT
* *
76451660 TTTCCTTTTTGTTTT
1 TTTCTTTTTTCTTTT
76451675 GTTTTACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 16 0.46
25 6 0.17
26 13 0.37
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTTCTTTTCTCTTTTTT
Found at i:76451658 original size:15 final size:15
Alignment explanation
Indices: 76451614--76451660 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
76451604 CGTCTGTTTC
* * *
76451614 TTTCTTCTTTCTCTC
1 TTTCTTTTTTCTTTT
76451629 TTTCTTTTTTC-TTT
1 TTTCTTTTTTCTTTT
76451643 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
76451658 TTT
1 TTT
76451661 TTCCTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:76451661 original size:18 final size:18
Alignment explanation
Indices: 76451627--76451707 Score: 60
Period size: 17 Copynumber: 4.5 Consensus size: 18
76451617 CTTCTTTCTC
*
76451627 TCTTTCTTT-TTTCTTTTT
1 TCTTT-TTTCTTTTTTTTT
76451645 TCTTTTTTC-TTTTTTTT
1 TCTTTTTTCTTTTTTTTT
* * *
76451662 TCCTTTTTGTTTTGTTTT
1 TCTTTTTTCTTTTTTTTT
* *
76451680 AC-TTTCTCTCTTTTTTTT
1 TCTTTTTTCT-TTTTTTTT
76451698 TCTTTATTTC
1 TCTTT-TTTC
76451708 ATTTACTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
17 22 0.46
18 21 0.44
19 2 0.04
20 3 0.06
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (18 bp):
TCTTTTTTCTTTTTTTTT
Found at i:76451669 original size:7 final size:7
Alignment explanation
Indices: 76451614--76451659 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
76451604 CGTCTGTTTC
*
76451614 TTTCTTC
1 TTTCTTT
*
76451621 TTTCTCTC
1 TTTCT-TT
76451629 TTTCTTT
1 TTTCTTT
76451636 TTTCTTT
1 TTTCTTT
76451643 TTTCTTT
1 TTTCTTT
76451650 TTTCTTT
1 TTTCTTT
76451657 TTT
1 TTT
76451660 TTTCCTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:76451699 original size:14 final size:13
Alignment explanation
Indices: 76451611--76451701 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 13
76451601 TTGCGTCTGT
*
76451611 TTCTTTCTTCTTTC
1 TTCTTT-TTTTTTC
76451625 TCTCTTTCTTTTTTC
1 T-TCTTT-TTTTTTC
*
76451640 TT-TTTTCTTTT-
1 TTCTTTTTTTTTC
76451651 TTCTTTTTTTTTC
1 TTCTTTTTTTTTC
*
76451664 --C-TTTTTGTT-
1 TTCTTTTTTTTTC
* **
76451673 TTGTTTTACTTTC
1 TTCTTTTTTTTTC
76451686 TCTCTTTTTTTTTC
1 T-TCTTTTTTTTTC
76451700 TT
1 TT
76451702 TATTTCATTT
Statistics
Matches: 58, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
10 7 0.12
11 3 0.05
12 18 0.31
13 5 0.09
14 12 0.21
15 13 0.22
ACGTcount: A:0.01, C:0.19, G:0.02, T:0.78
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:76451831 original size:38 final size:36
Alignment explanation
Indices: 76451736--76451833 Score: 89
Period size: 38 Copynumber: 2.7 Consensus size: 36
76451726 TTTATTATAA
76451736 TTAATTTATT-AT-AT-TATATAA-ATATATTTACT
1 TTAATTTATTAATAATATATATAATATATATTTACT
* * *
76451768 TAAATATTAAGTAA-AACATATTATAATATATATTTTAACT
1 TTAAT-TT-ATTAATAATATA-TATAATATATA-TTT-ACT
76451808 TTAATTTATTAATAATATATATAATA
1 TTAATTTATTAATAATATATATAATA
76451834 ATTTACACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
32 4 0.08
33 2 0.04
34 2 0.04
35 2 0.04
36 2 0.04
37 5 0.10
38 16 0.32
39 10 0.20
40 7 0.14
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (36 bp):
TTAATTTATTAATAATATATATAATATATATTTACT
Found at i:76451845 original size:29 final size:28
Alignment explanation
Indices: 76451786--76451845 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
76451776 AAGTAAAACA
** *
76451786 TATTATAATATATATTTTAACTTTAATT
1 TATTATAATATATATAATAACTTTAACT
76451814 TATTAATAATATATATAATAA-TTTACACT
1 TATT-ATAATATATATAATAACTTTA-ACT
76451843 TAT
1 TAT
76451846 ACTGCCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATAATAACTTTAACT
Found at i:76458584 original size:25 final size:25
Alignment explanation
Indices: 76458527--76458585 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 25
76458517 AACACAACTA
*
76458527 ATATCCAATT-ATGATATTTACACAT
1 ATAT-CAATTCATAATATTTACACAT
*
76458552 ATAT--ATTCATAATATTTATACAT
1 ATATCAATTCATAATATTTACACAT
76458575 ATATCAATTCA
1 ATATCAATTCA
76458586 ATCCAATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
25 9 0.31
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATCAATTCATAATATTTACACAT
Found at i:76459280 original size:4 final size:4
Alignment explanation
Indices: 76459271--76459342 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
76459261 TTTGCGTCTA
*
76459271 TTTC TTTC -TTC TTTC TATTT TTTC TTT- TTTC TTTC TTTCC TTTC TGTTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTT-C TTTC --TTTC
* * *
76459321 ATT- TTAC TTTC TCTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTT
76459343 TTCTTTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
3 7 0.13
4 35 0.66
5 7 0.13
6 4 0.08
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:76459296 original size:16 final size:17
Alignment explanation
Indices: 76459267--76459302 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
76459257 AGCTTTTGCG
76459267 TCTATTTCTTTCTTCTT
1 TCTATTTCTTTCTTCTT
*
76459284 TCTATTT-TTTCTTTTT
1 TCTATTTCTTTCTTCTT
76459300 TCT
1 TCT
76459303 TTCTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTATTTCTTTCTTCTT
Found at i:76459330 original size:26 final size:25
Alignment explanation
Indices: 76459291--76459345 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
76459281 CTTTCTATTT
* * *
76459291 TTTCTTTTTTCTTTCTTTCCTTTCTG
1 TTTCATTTTACTTTCTCT-CTTTCTG
*
76459317 TTTCATTTTACTTTCTCTCTTTCTT
1 TTTCATTTTACTTTCTCTCTTTCTG
76459342 TTTC
1 TTTC
76459346 TTTATTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTCATTTTACTTTCTCTCTTTCTG
Found at i:76459406 original size:26 final size:26
Alignment explanation
Indices: 76459356--76459414 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
76459346 TTTATTTCAT
*
76459356 TTACTTATTCATTTGTTTTATTATAA
1 TTACTTATTCATTTGTATTATTATAA
76459382 TTACTTTATT-ATTT-TATTA-TATATA
1 TTAC-TTATTCATTTGTATTATTATA-A
76459407 TTAACTTA
1 TT-ACTTA
76459415 AATGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
25 10 0.34
26 10 0.34
27 5 0.17
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (26 bp):
TTACTTATTCATTTGTATTATTATAA
Found at i:76459490 original size:29 final size:28
Alignment explanation
Indices: 76459431--76459491 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
76459421 AAGTAAAACA
** *
76459431 TATTATAATATATATTTTAACTTTAATT
1 TATTATAATATATATAATAACTTTAACT
76459459 TATTAATAATATATATAATAA-TTTACACT
1 TATT-ATAATATATATAATAACTTTA-ACT
76459488 TATT
1 TATT
76459492 CCATCTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATAATAACTTTAACT
Found at i:76464888 original size:115 final size:115
Alignment explanation
Indices: 76464686--76464916 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
76464676 TGAATCGGTA
76464686 TCCTGAATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
1 TCCTGAATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
76464751 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
66 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
76464801 TCCTGAATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
1 TCCTGAATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
76464866 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
66 TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
76464916 T
1 T
76464917 TAGGGGATTT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (115 bp):
TCCTGAATATCAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAA
TTCAGAAAATAATAACAAGATTCATCTTAGGTTTCATTCCCCTTAGATAT
Found at i:76465221 original size:13 final size:13
Alignment explanation
Indices: 76465203--76465227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76465193 CTCAGTAGGG
76465203 ACACGCCCGTGTA
1 ACACGCCCGTGTA
76465216 ACACGCCCGTGT
1 ACACGCCCGTGT
76465228 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:76482192 original size:48 final size:47
Alignment explanation
Indices: 76482089--76482408 Score: 231
Period size: 47 Copynumber: 6.8 Consensus size: 47
76482079 TTATTTGTGT
*
76482089 GCTAGTGTAAGA-CATGTC-GGGACAT-GCATCAGCCATATTATGAG-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATATGA-GAGTA
* *
76482134 GCCAGTGTAAGACCATGTCTGGGACATGGCACCAGCAT-TGAGACGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGA-G-TA
* * *
76482182 GCTAGTGTAAGA-CATGTCTCGGACAT-GCATCGGC-TACGAGATGT-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGA-GTA
* *
76482226 G-TCAGTGTAAGACCATGTCTTGGACATGGCATCGGCACGTAT-AGAGGTA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCA--TATGAGA-GTA
* * * *
76482275 TC-AGTGTAAGATCATGTCTGGGACATGGCATCGACACGGATATGTGAG-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT---CA-GCATATGAGAGTA
*
76482324 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATG-GA-TGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT-ATGAGAGT-A
* * * *
76482371 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
76482409 CATACCCTAT
Statistics
Matches: 223, Mismatches: 26, Indels: 50
0.75 0.09 0.17
Matches are distributed among these distances:
43 1 0.00
44 10 0.04
45 29 0.13
46 31 0.14
47 60 0.27
48 51 0.23
49 4 0.02
50 32 0.14
51 3 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATATGAGAGTA
Found at i:76482281 original size:92 final size:96
Alignment explanation
Indices: 76482131--76482404 Score: 255
Period size: 92 Copynumber: 2.9 Consensus size: 96
76482121 CCATATTATG
* *
76482131 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCACCAGCATTGAGACGATAGCTAGTGTAAGA-C
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATAGCTAGTGTAAGATC
*
76482195 ATGTCTCGGACAT-GCATCGGCTAC-GAGATGT
65 ATGTCTCGGACATGGCATCGAC-ACGGAGATGT
* * * *
76482226 -G-TCAGTGTAAGACCATGTCTTGGACATGGCATCGGCACGTAT-AGA-GGTATC-AGTGTAAGA
1 AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGACGATAGCTAGTGTAAGA
* *
76482286 TCATGTCTGGGACATGGCATCGACACGGATATGT
63 TCATGTCTCGGACATGGCATCGACACGGAGATGT
* * *
76482320 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GATGAGCCAATGTAAG
1 -AGAGC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAT-AGCTAGTGTAAG
* * *
76482382 ACCATGTTTGGGACATGGCATCG
62 ATCATGTCTCGGACATGGCATCG
76482405 GCATCATACC
Statistics
Matches: 148, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
92 41 0.28
93 19 0.13
94 19 0.13
95 5 0.03
96 4 0.03
97 29 0.20
98 31 0.21
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (96 bp):
AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGATAGCTAGTGTAAGATCA
TGTCTCGGACATGGCATCGACACGGAGATGT
Found at i:76483607 original size:20 final size:21
Alignment explanation
Indices: 76483568--76483607 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76483558 GTTATAATGA
*
76483568 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
76483589 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
76483608 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:76489610 original size:48 final size:48
Alignment explanation
Indices: 76489456--76489603 Score: 242
Period size: 48 Copynumber: 3.1 Consensus size: 48
76489446 ATATATACAC
* **
76489456 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
76489504 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
76489552 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
76489600 ATCT
1 ATCT
76489604 TGTACATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:76495007 original size:17 final size:17
Alignment explanation
Indices: 76494985--76495017 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
76494975 AAAAGAAAAG
76494985 AAAAAAAGAAAACAAAC
1 AAAAAAAGAAAACAAAC
*
76495002 AAAAAACGAAAACAAA
1 AAAAAAAGAAAACAAA
76495018 AGCAGAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAACAAAC
Found at i:76496010 original size:19 final size:20
Alignment explanation
Indices: 76495986--76496028 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
76495976 AATGAGAATT
*
76495986 TAAAAAAAATT-AAAATTAA
1 TAAAAAAAATTGAAAATAAA
*
76496005 TAAAAAAATTTGAAAATAAA
1 TAAAAAAAATTGAAAATAAA
76496025 TAAA
1 TAAA
76496029 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAAAAAATTGAAAATAAA
Found at i:76496012 original size:20 final size:20
Alignment explanation
Indices: 76495987--76496054 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
76495977 ATGAGAATTT
76495987 AAAAAAAATTAAAATTAAT-
1 AAAAAAAATTAAAATTAATA
* *
76496006 AAAAAAATTTGAAAATAAATA
1 AAAAAAAATT-AAAATTAATA
* *
76496027 AATAAATAA--AAAATT-TTA
1 AA-AAAAAATTAAAATTAATA
76496045 AAAAAAAATT
1 AAAAAAAATT
76496055 GAAGGATTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 14 0.38
20 8 0.22
21 2 0.05
22 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAAAAAATTAAAATTAATA
Found at i:76496034 original size:28 final size:28
Alignment explanation
Indices: 76495982--76496053 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
76495972 GATTAATGAG
* *
76495982 AATTTAAAAAAAATTAAAATTAATAAAAA
1 AATTTAAAAAAAAAT-AAATAAATAAAAA
* *
76496011 AATTTGAAAATAAATAAATAAATAAAAA
1 AATTTAAAAAAAAATAAATAAATAAAAA
*
76496039 ATTTTAAAAAAAAAT
1 AATTTAAAAAAAAAT
76496054 TGAAGGATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (28 bp):
AATTTAAAAAAAAATAAATAAATAAAAA
Found at i:76498772 original size:8 final size:9
Alignment explanation
Indices: 76498753--76498911 Score: 51
Period size: 9 Copynumber: 17.7 Consensus size: 9
76498743 AAAATTAGAA
76498753 AAAAAATAT
1 AAAAAATAT
76498762 AAAAAAT-T
1 AAAAAATAT
**
76498770 AAAAGCTAT
1 AAAAAATAT
* *
76498779 AAATATTAT
1 AAAAAATAT
* * *
76498788 -TAAATTTT
1 AAAAAATAT
*
76498796 AATAAAAAAT
1 AA-AAAATAT
*
76498806 AAAATAT-T
1 AAAAAATAT
* *
76498814 AAAAATTTT
1 AAAAAATAT
76498823 AATAAAAATTAT
1 AA--AAAA-TAT
76498835 AAAAAATAT
1 AAAAAATAT
*
76498844 -AAAAATCGT
1 AAAAAAT-AT
76498853 AAAAAA-AT
1 AAAAAATAT
* *
76498861 AAAAATTGT
1 AAAAAATAT
**
76498870 AAAATTTTAT
1 AAAA-AATAT
76498880 AAAAAATAT
1 AAAAAATAT
*
76498889 AAAATATAT
1 AAAAAATAT
**
76498898 -AGCAATAT
1 AAAAAATAT
76498906 AAAAAA
1 AAAAAA
76498912 ATTATAAAAT
Statistics
Matches: 106, Mismatches: 32, Indels: 24
0.65 0.20 0.15
Matches are distributed among these distances:
8 34 0.32
9 43 0.41
10 22 0.21
11 3 0.03
12 4 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAAATAT
Found at i:76498807 original size:27 final size:27
Alignment explanation
Indices: 76498779--76498887 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 27
76498769 TAAAAGCTAT
*
76498779 AAATATTATTAAATTTTAATAAAAAATA
1 AAATATTA-AAAATTTTAATAAAAAATA
76498807 AAATATTAAAAATTTTAATAAAAATTATA
1 AAATATTAAAAATTTTAATAAAAA--ATA
* **
76498836 AAAAATATAAAAATCGT-A-AAAAAATA
1 AAATAT-TAAAAATTTTAATAAAAAATA
*
76498862 AAA-ATTGTAAAATTTT-ATAAAAAATA
1 AAATATT-AAAAATTTTAATAAAAAATA
76498888 TAAAATATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.01
25 9 0.13
26 14 0.20
27 15 0.22
28 13 0.19
29 9 0.13
30 8 0.12
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (27 bp):
AAATATTAAAAATTTTAATAAAAAATA
Found at i:76498848 original size:19 final size:19
Alignment explanation
Indices: 76498826--76498967 Score: 57
Period size: 17 Copynumber: 7.6 Consensus size: 19
76498816 AAATTTTAAT
76498826 AAAAATTATAAAAAATAT-
1 AAAAATTATAAAAAATATA
**
76498844 AAAAATCGTAAAAAA-AT-
1 AAAAATTATAAAAAATATA
* **
76498861 AAAAATTGTAAAATTTTATA
1 AAAAATTATAAAA-AATATA
*
76498881 AAAAA-TATAAAATATAT-
1 AAAAATTATAAAAAATATA
**
76498898 AGCAA-TATAAAAAA-ATTA
1 AAAAATTATAAAAAATA-TA
* * * *
76498916 TAAAATTTTATAAAGTCATA
1 AAAAATTATAAAAAAT-ATA
* *
76498936 AGAAAATTATACAAAATGTA
1 A-AAAATTATAAAAAATATA
76498956 AAGAAA-TATAAA
1 AA-AAATTATAAA
76498968 TTTCGTAAAA
Statistics
Matches: 92, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
16 1 0.01
17 26 0.28
18 19 0.21
19 20 0.22
20 13 0.14
21 13 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAAATATA
Found at i:76498856 original size:17 final size:17
Alignment explanation
Indices: 76498823--76498873 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
76498813 TAAAAATTTT
**
76498823 AATAAAAATTATAAAAA
1 AATAAAAATCGTAAAAA
76498840 ATATAAAAATCGTAAAAA
1 A-ATAAAAATCGTAAAAA
*
76498858 AATAAAAATTGTAAAA
1 AATAAAAATCGTAAAA
76498874 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (17 bp):
AATAAAAATCGTAAAAA
Found at i:76498908 original size:45 final size:46
Alignment explanation
Indices: 76498831--76498929 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 46
76498821 TTAATAAAAA
* *
76498831 TTATAAAAAATATAAAAATCGTAAAAAAAT-AAAAATTGTAAAATT
1 TTATAAAAAATATAAAAATCATAAAAAAATAAAAAATTATAAAATT
** *
76498876 TTATAAAAAATATAAAATAT-ATAGCAATATAAAAAAATTATAAAATT
1 TTATAAAAAATATAAAA-ATCATAAAAAAAT-AAAAAATTATAAAATT
76498923 TTATAAA
1 TTATAAA
76498930 GTCATAAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 23 0.50
46 2 0.04
47 21 0.46
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (46 bp):
TTATAAAAAATATAAAAATCATAAAAAAATAAAAAATTATAAAATT
Found at i:76498911 original size:54 final size:54
Alignment explanation
Indices: 76498799--76498922 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
76498789 AAATTTTAAT
* *
76498799 AAAAAATAAAATATTAAAAATTTTAATAAAAATTATAAAAAATATAAAAATCGTA
1 AAAAAATAAAA-ATTAAAAATTTTAATAAAAAATATAAAAAATATAAAAATCATA
* * **
76498854 AAAAAATAAAAATTGTAAAATTTT-ATAAAAAATATAAAATATATAGCAAT-ATA
1 AAAAAATAAAAATT-AAAAATTTTAATAAAAAATATAAAAAATATAAAAATCATA
76498907 AAAAAATTATAAAATT
1 AAAAAA-TA-AAAATT
76498923 TTATAAAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
53 8 0.13
54 27 0.45
55 25 0.42
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (54 bp):
AAAAAATAAAAATTAAAAATTTTAATAAAAAATATAAAAAATATAAAAATCATA
Found at i:76499183 original size:34 final size:31
Alignment explanation
Indices: 76499115--76499185 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 31
76499105 AGGGTCATTT
* *
76499115 ATTTTTTTTATGATTTTTATAAAATTTTACA
1 ATTTTTTTTAAGATTTTTATAAAAATTTACA
76499146 ATTTTTTTTAAAGATTTTTATTAAAAAATTT-CTA
1 ATTTTTTTT-AAGATTTTTA-T-AAAAATTTAC-A
76499180 ATTTTT
1 ATTTTT
76499186 AGTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 9 0.26
32 9 0.26
33 2 0.06
34 14 0.41
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (31 bp):
ATTTTTTTTAAGATTTTTATAAAAATTTACA
Found at i:76499231 original size:27 final size:25
Alignment explanation
Indices: 76499170--76499231 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
76499160 TTTTTATTAA
*
76499170 AAAATTTCTAATTTTTAGTAAAATTT
1 AAAATTT-TAATTTTTAATAAAATTT
*
76499196 AAATTTTTTATATTTTTAATAAAATTT
1 AAA-ATTTTA-ATTTTTAATAAAATTT
76499223 AATAATTTT
1 AA-AATTTT
76499232 TCTAACATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 24 0.80
28 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
AAAATTTTAATTTTTAATAAAATTT
Found at i:76499242 original size:46 final size:46
Alignment explanation
Indices: 76499166--76499259 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 46
76499156 AAGATTTTTA
* *
76499166 TTAAAAAATTTCTAATTTTTAGTAAAATTTAA-ATTTTTTAT-ATTT
1 TTAAAAAATTTATAATTTTTACTAAAATTTAATA-TTTTTATGATTT
* *
76499211 TTAATAAAATTTAATAATTTTT-CTAACATTTATTATTTTTATGATTT
1 TTAA-AAAATTT-ATAATTTTTACTAAAATTTAATATTTTTATGATTT
76499258 TT
1 TT
76499260 TTCTAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.10
46 22 0.54
47 15 0.37
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.57
Consensus pattern (46 bp):
TTAAAAAATTTATAATTTTTACTAAAATTTAATATTTTTATGATTT
Found at i:76499726 original size:31 final size:31
Alignment explanation
Indices: 76499691--76499751 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
76499681 CAAATGAAAT
*
76499691 ATTATTAAAATAAGAGATTATGGCTAGATTC
1 ATTATTAAAATAAGAGATTATAGCTAGATTC
76499722 ATTATTAAAATAAGAGATTATAGCTAGATT
1 ATTATTAAAATAAGAGATTATAGCTAGATT
76499752 TATTTTGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (31 bp):
ATTATTAAAATAAGAGATTATAGCTAGATTC
Found at i:76500428 original size:17 final size:17
Alignment explanation
Indices: 76500377--76500417 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
76500367 ACACGAGCTG
76500377 GGCACACGACCGTGTGA
1 GGCACACGACCGTGTGA
76500394 GGCACACGACCGTGTGA
1 GGCACACGACCGTGTGA
76500411 GGCACAC
1 GGCACAC
76500418 AACCTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.10
Consensus pattern (17 bp):
GGCACACGACCGTGTGA
Found at i:76501545 original size:14 final size:12
Alignment explanation
Indices: 76501505--76501547 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
76501495 AATTTAGAAT
* *
76501505 TTTTTATTTTTA
1 TTTTTAATTTAA
76501517 TTTTTAATTTAA
1 TTTTTAATTTAA
76501529 TTTTTACATTCTAA
1 TTTTTA-ATT-TAA
76501543 TTTTT
1 TTTTT
76501548 CTTTTTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:76505004 original size:18 final size:18
Alignment explanation
Indices: 76504904--76505024 Score: 120
Period size: 18 Copynumber: 6.4 Consensus size: 18
76504894 TTATATTTTA
76504904 TTTA-TTTTGTTTTTTGTTT
1 TTTATTTTTG-TTTTTG-TT
*
76504923 TTTGTTTTTTGTTTTTGTT
1 TTT-ATTTTTGTTTTTGTT
*
76504942 TTTGTTTTTGTTTTTGTT
1 TTTATTTTTGTTTTTGTT
*
76504960 TTTGTTTTTGTTTTTGTT
1 TTTATTTTTGTTTTTGTT
*
76504978 TTT-TCTTTTTTTTTTGTT
1 TTTAT-TTTTGTTTTTGTT
*
76504996 TTTAATTTTAATTTTTTTGTT
1 TTT-ATTTT--TGTTTTTGTT
76505017 TTTATTTT
1 TTTATTTT
76505025 ATTATGCACT
Statistics
Matches: 92, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.01
18 50 0.54
19 11 0.12
20 12 0.13
21 18 0.20
ACGTcount: A:0.05, C:0.01, G:0.11, T:0.83
Consensus pattern (18 bp):
TTTATTTTTGTTTTTGTT
Found at i:76505013 original size:1 final size:1
Alignment explanation
Indices: 76504908--76504998 Score: 65
Period size: 1 Copynumber: 91.0 Consensus size: 1
76504898 ATTTTATTTA
* * * * * * * * * *
76504908 TTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
76504973 TTGTTTTTTCTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
76504999 AATTTTAATT
Statistics
Matches: 64, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:76505018 original size:6 final size:6
Alignment explanation
Indices: 76504908--76504998 Score: 130
Period size: 6 Copynumber: 14.7 Consensus size: 6
76504898 ATTTTATTTA
76504908 TTTTGTT TTTTGTT TTTTGTT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
1 TTTTG-T TTTTG-T TTTTG-T TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
*
76504959 TTTTGT TTTTGT TTTTGT TTTT-T CTTTTTT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT -TTTTGT TTTTGT TTTT
76504999 AATTTTAATT
Statistics
Matches: 81, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
5 1 0.01
6 60 0.74
7 20 0.25
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:76506058 original size:24 final size:24
Alignment explanation
Indices: 76506031--76506099 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
76506021 CAATCAAAGA
*
76506031 AAAAAAAAGAGAAAAAGAAAAAAT
1 AAAAAAAAGAAAAAAAGAAAAAAT
**
76506055 AAAAAAGGGAAAAAAAGAAAAAAT
1 AAAAAAAAGAAAAAAAGAAAAAAT
* *
76506079 ATAAAAATATAAAAAAA-AAAA
1 A-AAAAAAAGAAAAAAAGAAAA
76506100 CTTGATTGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 26 0.68
25 12 0.32
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (24 bp):
AAAAAAAAGAAAAAAAGAAAAAAT
Found at i:76506077 original size:8 final size:8
Alignment explanation
Indices: 76506032--76506099 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
76506022 AATCAAAGAA
76506032 AAAAAAAG
1 AAAAAAAG
*
76506040 AGAAAAAG
1 AAAAAAAG
76506048 AAAAAATA-
1 AAAAAA-AG
**
76506056 AAAAAGGG
1 AAAAAAAG
76506064 AAAAAAAG
1 AAAAAAAG
*
76506072 AAAAAATAT
1 AAAAAA-AG
* *
76506081 AAAAATAT
1 AAAAAAAG
76506089 AAAAAAA-
1 AAAAAAAG
76506096 AAAA
1 AAAA
76506100 CTTGATTGAG
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
7 4 0.08
8 37 0.77
9 7 0.15
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (8 bp):
AAAAAAAG
Found at i:76508404 original size:17 final size:17
Alignment explanation
Indices: 76508382--76508425 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
76508372 ACATTTATGC
*
76508382 ATATATATATAA-TTTTT
1 ATATATAT-TAACTTATT
*
76508399 ATATATGTTAACTTATT
1 ATATATATTAACTTATT
76508416 ATATATATTA
1 ATATATATTA
76508426 TATATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATATATTAACTTATT
Found at i:76509675 original size:19 final size:18
Alignment explanation
Indices: 76509639--76509689 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
76509629 GAAATGGAAA
76509639 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
76509657 AGATGAGAAATGTAATATG
1 AGATGAGAAATG-AATATG
*
76509676 AAATGATGAAATGA
1 AGATGA-GAAATGA
76509690 GATGTGAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.40
19 12 0.40
20 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:76510196 original size:23 final size:25
Alignment explanation
Indices: 76510154--76510207 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
76510144 TGAGGCTATG
*
76510154 TTGGTATGTAGCTTAGCTTG-TAGT
1 TTGGTATGTAGCTTAGCTTGAAAGT
*
76510178 TTGGTATGT-GTTTAGCTTGAAAGT
1 TTGGTATGTAGCTTAGCTTGAAAGT
76510202 TTGGTA
1 TTGGTA
76510208 GCCTAAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.19, C:0.06, G:0.30, T:0.46
Consensus pattern (25 bp):
TTGGTATGTAGCTTAGCTTGAAAGT
Found at i:76525787 original size:49 final size:49
Alignment explanation
Indices: 76525734--76525865 Score: 239
Period size: 49 Copynumber: 2.7 Consensus size: 49
76525724 ATAGCGAGGC
76525734 CGATGCCAT-CTCCCAGACAGGTCTTACGCTAGCTCTCATCTATCGGTGT
1 CGATGCCATGC-CCCAGACAGGTCTTACGCTAGCTCTCATCTATCGGTGT
76525783 CGATGCCATGCCCCAGACAGGTCTTACGCTAGCTCTCATCTATCGGTGT
1 CGATGCCATGCCCCAGACAGGTCTTACGCTAGCTCTCATCTATCGGTGT
*
76525832 CGATGCCATGCCCCAGACAGGTCTTACACTAGCT
1 CGATGCCATGCCCCAGACAGGTCTTACGCTAGCT
76525866 TGTCTACAGC
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
49 80 0.99
50 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (49 bp):
CGATGCCATGCCCCAGACAGGTCTTACGCTAGCTCTCATCTATCGGTGT
Found at i:76525886 original size:49 final size:49
Alignment explanation
Indices: 76525704--76525915 Score: 211
Period size: 49 Copynumber: 4.3 Consensus size: 49
76525694 TCCTAGAGAT
* * * *
76525704 GGTCTTACACTGGCTTTCATATAGC-GAGGCCGATGCCAT-CTCCCAGACA
1 GGTCTTACACTAGCTCTCATCTATCGGAGG-CGATGCCATGC-CCCAGACA
* * *
76525753 GGTCTTACGCTAGCTCTCATCTATCGGTGTCGATGCCATGCCCCAGACA
1 GGTCTTACACTAGCTCTCATCTATCGGAGGCGATGCCATGCCCCAGACA
* * *
76525802 GGTCTTACGCTAGCTCTCATCTATCGGTGTCGATGCCATGCCCCAGACA
1 GGTCTTACACTAGCTCTCATCTATCGGAGGCGATGCCATGCCCCAGACA
* *
76525851 GGTCTTACACTAGCT-T-GTCTA-CAGCGAGGCTGATG-CATGTCCCAGACA
1 GGTCTTACACTAGCTCTCATCTATC-G-GAGGC-GATGCCATGCCCCAGACA
* *
76525899 TGTCTTACACTGGCTCT
1 GGTCTTACACTAGCTCT
76525916 TATACTGTGG
Statistics
Matches: 143, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
46 1 0.01
47 5 0.03
48 29 0.20
49 105 0.73
50 3 0.02
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.27
Consensus pattern (49 bp):
GGTCTTACACTAGCTCTCATCTATCGGAGGCGATGCCATGCCCCAGACA
Found at i:76531894 original size:16 final size:16
Alignment explanation
Indices: 76531875--76531905 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76531865 TAAATAGTAA
*
76531875 TATAAATTTTATATAT
1 TATAAAATTTATATAT
76531891 TATAAAATTTATATA
1 TATAAAATTTATATA
76531906 ATACGTTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAAAATTTATATAT
Found at i:76532028 original size:22 final size:21
Alignment explanation
Indices: 76532003--76532048 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
76531993 AAGTTATGAT
76532003 TGAAAAACTATAATATTATTTA
1 TGAAAAACTATAATATT-TTTA
* * *
76532025 TGAATAAGTATATTATTTTTA
1 TGAAAAACTATAATATTTTTA
76532046 TGA
1 TGA
76532049 TTTATAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (21 bp):
TGAAAAACTATAATATTTTTA
Found at i:76532581 original size:17 final size:18
Alignment explanation
Indices: 76532559--76532598 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
76532549 CAAATACTAC
76532559 TAAAATAAAAT-TATTAA
1 TAAAATAAAATATATTAA
*
76532576 TAAAATAAGATGATATTAA
1 TAAAATAAAAT-ATATTAA
76532595 TAAA
1 TAAA
76532599 TGATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAAATAAAATATATTAA
Found at i:76532820 original size:18 final size:18
Alignment explanation
Indices: 76532789--76532846 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
76532779 TTTTAAAGAA
76532789 ATAT-AAATATAAAATAAT
1 ATATAAAATA-AAAATAAT
76532807 ATATAAAATAAAAA-AATT
1 ATATAAAATAAAAATAA-T
*
76532825 TTATAAAA-AAATTAATAAT
1 ATATAAAATAAA--AATAAT
76532844 ATA
1 ATA
76532847 GAGATAACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 10 0.30
20 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATAAAATAAAAATAAT
Found at i:76548873 original size:16 final size:16
Alignment explanation
Indices: 76548854--76548899 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
76548844 TAAAATGTTA
76548854 TTATTCTAAACAATAG
1 TTATTCTAAACAATAG
* **
76548870 TTATTCCAAACTTTAG
1 TTATTCTAAACAATAG
*
76548886 CTATTCTAAACAAT
1 TTATTCTAAACAAT
76548900 TGTTCTCAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (16 bp):
TTATTCTAAACAATAG
Found at i:76556282 original size:67 final size:68
Alignment explanation
Indices: 76556151--76556286 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 68
76556141 CGAAAGTCTA
* * * * * *
76556151 CCAGGATAATAAACATGGGATTACACTATGTAATACCATAGCTAAGCTATGATAACATATGAAGT
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
76556216 CCG
66 CCG
* * * *
76556219 CCAGGAAAATAAACAT-GGATCATACTATGTAAGACTATAAC-AGGGCTATGGCAACAAATGAAG
1 CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTA-AGCTATGACAACAAATGAAG
76556282 TCCG
65 TCCG
76556286 C
1 C
76556287 ATGATAGTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
66 1 0.02
67 41 0.72
68 15 0.26
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (68 bp):
CCAGGAAAATAAACATGGGATCACACTATGTAAGACCATAACTAAGCTATGACAACAAATGAAGT
CCG
Found at i:76560858 original size:55 final size:57
Alignment explanation
Indices: 76560791--76560903 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
76560781 ATATTATAAG
76560791 AAGTTGAAGAACGGAAGAAGAAG-A-AGACTTACCTGGATGAAGAAGGAGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGAGATGGAAA
*
76560846 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGGGATGGAAA
1 AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGAGATGGAAA
76560903 A
1 A
76560904 TGTCTTACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 23 0.42
56 1 0.02
57 31 0.56
ACGTcount: A:0.47, C:0.07, G:0.34, T:0.12
Consensus pattern (57 bp):
AAGTTGAAGAACGGAAGAAGAAGAAGAGACTTACCTGGATGAAGAAGGAGATGGAAA
Found at i:76568570 original size:22 final size:23
Alignment explanation
Indices: 76568544--76568586 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
76568534 TATTTGGCCA
*
76568544 TGTGA-TATGACTTGGTTTTGGT
1 TGTGATTATGACTTGATTTTGGT
*
76568566 TGTGATTATGATTTGATTTTG
1 TGTGATTATGACTTGATTTTG
76568587 ACATACGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (23 bp):
TGTGATTATGACTTGATTTTGGT
Found at i:76572701 original size:3 final size:3
Alignment explanation
Indices: 76572693--76572717 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
76572683 GCTGAGCCGC
76572693 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
76572718 AATTGCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:76574434 original size:21 final size:20
Alignment explanation
Indices: 76574410--76574478 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
76574400 TTTTTAGAGT
76574410 TTTATATGATATATTAAATTA
1 TTTATAT-ATATATTAAATTA
* *
76574431 TTTAAATAT-TATTTATCATTATA
1 TTTATATATATA-TTA--AAT-TA
76574454 TTTAATATATATATTAAATTA
1 TTT-ATATATATATTAAATTA
76574475 TTTA
1 TTTA
76574479 CATTTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
19 2 0.05
20 6 0.16
21 11 0.29
22 4 0.11
23 5 0.13
24 8 0.21
25 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTATATATATATTAAATTA
Found at i:76574439 original size:23 final size:22
Alignment explanation
Indices: 76574413--76574478 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
76574403 TTAGAGTTTT
76574413 ATATGATATATTAAATTATTTAA
1 ATAT-ATATATTAAATTATTTAA
* *
76574436 ATAT-TAT-TTATCATTATATTTA
1 ATATATATATTA-AATTAT-TTAA
76574458 ATATATATATTAAATTATTTA
1 ATATATATATTAAATTATTTA
76574479 CATTTCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
22 9 0.26
23 12 0.34
24 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATATATATTAAATTATTTAA
Found at i:76577613 original size:30 final size:30
Alignment explanation
Indices: 76577562--76577623 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
76577552 AAAACTTTTT
*
76577562 ATTTTCCCCAAAAATTTTTAC-TCCCTCCC
1 ATTTTCCCCAAAAACTTTTACTTCCCTCCC
*
76577591 ATTTTCCCCTTAAAACTTTTACTTCCCTCCC
1 ATTTTCCCC-AAAAACTTTTACTTCCCTCCC
76577622 AT
1 AT
76577624 CCCACCCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.31
30 10 0.34
31 10 0.34
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (30 bp):
ATTTTCCCCAAAAACTTTTACTTCCCTCCC
Found at i:76578132 original size:69 final size:69
Alignment explanation
Indices: 76578049--76578187 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
76578039 TTTCACGGAA
*
76578049 TAATTTCATGAAAATTTCGTTCAAAAATTTTGACTTTTGGGCACTTAATTTGGTAAAAAAGGACT
1 TAATTTCATAAAAATTTCGTTCAAAAATTTTGACTTTTGGGCACTTAATTTGGTAAAAAAGGACT
76578114 AAAT
66 AAAT
* *
76578118 TAATTTCGTAAAAATTTCGTTCGAAAATTTTGACTTTTGGGCACTTAATTTGGTAAAAAAGGACT
1 TAATTTCATAAAAATTTCGTTCAAAAATTTTGACTTTTGGGCACTTAATTTGGTAAAAAAGGACT
76578183 AAAT
66 AAAT
76578187 T
1 T
76578188 GTAAAAGGTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (69 bp):
TAATTTCATAAAAATTTCGTTCAAAAATTTTGACTTTTGGGCACTTAATTTGGTAAAAAAGGACT
AAAT
Found at i:76579447 original size:43 final size:42
Alignment explanation
Indices: 76579311--76579459 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
76579301 TGTGATATCG
* * *
76579311 TGTAAGACCACGTTTGGGAC-GTTGGCATCGACTTTTGTTTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TTTTG-ATTACA
* * * *
76579355 TGTAAGACCATGTCTGGGACA-TCGGTATCG-TATCTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGAT-TTTGATTACA
* *
76579397 TATAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGAT-TTTGATTACA
76579440 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
76579460 GTTGACATTG
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.35
43 31 0.37
44 24 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATTTTGATTACA
Found at i:76579457 original size:85 final size:86
Alignment explanation
Indices: 76579303--76579459 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
76579293 TTCCGATATG
* * *
76579303 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
76579368 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGGTATCGTATC
*
76579389 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATATCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
76579450 TGTCTGGGAC
63 TGTCTGGGAC
76579460 GTTGACATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
85 27 0.42
86 36 0.56
87 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (86 bp):
TGATATCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGGTATCGTATC
Found at i:76579482 original size:86 final size:86
Alignment explanation
Indices: 76579303--76579475 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 86
76579293 TTCCGATATG
* * * *
76579303 TGATATCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTTTGTTTTACATGTAAGACCATGT
1 TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
** *
76579368 CTGGGACATCGGTATCGTATC
66 CTGGGACATCGACATCGTATA
76579389 TGATTTCGTATAAGACC-CTGTCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATTTCGTATAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
* * *
76579450 TGTCTGGGACGTTGACATTGTATA
63 TGTCTGGGACATCGACATCGTATA
76579474 TG
1 TG
76579476 CTTTTCGAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 37 0.50
86 36 0.49
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (86 bp):
TGATTTCGTATAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCATGT
CTGGGACATCGACATCGTATA
Found at i:76580022 original size:25 final size:24
Alignment explanation
Indices: 76579982--76580028 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
76579972 TTCTTTCCAC
76579982 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
*
76580006 TTTCATTT-TATTATCTTTGTTAT
1 TTTC-TTTCTATT-TCTTTATTAT
76580029 TATTATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:76584591 original size:30 final size:30
Alignment explanation
Indices: 76584548--76584620 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
76584538 TCACAAATGA
* * * *
76584548 CACACGGCCGTGTTGCTAGGCTGTGTGTCT
1 CACACGACCGTGTTGCCAAGCTGTATGTCT
* *
76584578 CACACGACTGTGTTGCCAAGTTGTATGTCT
1 CACACGACCGTGTTGCCAAGCTGTATGTCT
*
76584608 CACACGGCCGTGT
1 CACACGACCGTGT
76584621 GACAGCTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (30 bp):
CACACGACCGTGTTGCCAAGCTGTATGTCT
Found at i:76586522 original size:29 final size:29
Alignment explanation
Indices: 76586490--76586547 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
76586480 CTTTACTTAA
76586490 TTTTCTTTTAATTGTTTATTTATCATTTT
1 TTTTCTTTTAATTGTTTATTTATCATTTT
76586519 TTTTCTTTTAATTGTTTATTTATCATTTT
1 TTTTCTTTTAATTGTTTATTTATCATTTT
76586548 AACCTTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (29 bp):
TTTTCTTTTAATTGTTTATTTATCATTTT
Found at i:76588215 original size:43 final size:43
Alignment explanation
Indices: 76588154--76588240 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
76588144 AAGAGTAGAT
* * *
76588154 CTTGCATAATTGAATGGAGTTACCTGTAATCCTGGAAATAGGA
1 CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
* *
76588197 CTTGCGTAATTGAATGGAGTTTCATGAAATCCTAGAAATAGGA
1 CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
76588240 C
1 C
76588241 GACATAAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (43 bp):
CTTGCATAATTGAATGGAGTTACATGAAATCCTAGAAATAGGA
Found at i:76603758 original size:30 final size:30
Alignment explanation
Indices: 76603722--76603781 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
76603712 TTCCCGAGCC
*
76603722 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
76603752 TAGGGGCAAAAATGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
76603782 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:76606681 original size:19 final size:19
Alignment explanation
Indices: 76606659--76606725 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
76606649 TTTTCGAAAA
76606659 TTTTTAAATTTTTA-ACATT
1 TTTTTAAATTTTTATA-ATT
*
76606678 TTTTATATATTATTTATAATT
1 TTTT-TAAATT-TTTATAATT
*
76606699 TTTTTAAATTGTTATAATT
1 TTTTTAAATTTTTATAATT
76606718 TTTTTAAA
1 TTTTTAAA
76606726 AAATATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 20 0.48
20 10 0.24
21 11 0.26
22 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTAAATTTTTATAATT
Found at i:76606720 original size:20 final size:20
Alignment explanation
Indices: 76606659--76606722 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
76606649 TTTTCGAAAA
76606659 TTTTTAAATTTTTA-ACATTT
1 TTTTTAAATTTTTATA-ATTT
* *
76606679 TTTATATATTATTTATAA-TT
1 TTTTTAAATT-TTTATAATTT
*
76606699 TTTTTAAATTGTTATAATTT
1 TTTTTAAATTTTTATAATTT
76606719 TTTT
1 TTTT
76606723 AAAAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 6 0.17
20 24 0.67
21 5 0.14
22 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTAAATTTTTATAATTT
Found at i:76606754 original size:18 final size:20
Alignment explanation
Indices: 76606733--76606783 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
76606723 AAAAAATATA
*
76606733 TATTTTTAA-TTTT-AAAAT
1 TATTTTGAATTTTTGAAAAT
76606751 TATTTTGAATTTTTGAAAAT
1 TATTTTGAATTTTTGAAAAT
76606771 TATTTTG-ATTTTT
1 TATTTTGAATTTTT
76606784 TTTTGTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.27
19 10 0.33
20 12 0.40
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
TATTTTGAATTTTTGAAAAT
Found at i:76607206 original size:23 final size:23
Alignment explanation
Indices: 76607178--76607235 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
76607168 AAGAGGTTTG
*
76607178 AAAAAAT-TAAAAGAAT-ATTTAA
1 AAAAAATATAAAA-AATCATTCAA
76607200 AATAAAATATAAAAAATCATTCAA
1 AA-AAAATATAAAAAATCATTCAA
*
76607224 AAAAAATCTAAA
1 AAAAAATATAAA
76607236 TCCAAATGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.06
23 17 0.55
24 12 0.39
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAATATAAAAAATCATTCAA
Found at i:76610940 original size:40 final size:40
Alignment explanation
Indices: 76610896--76611166 Score: 264
Period size: 40 Copynumber: 6.8 Consensus size: 40
76610886 GGATATAGCT
* *
76610896 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
76610936 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
76610976 ACTCGCACAAATGCCTTCGGG-CTTAG-CCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * ** * * *
76611014 GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * * *
76611054 GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
76611094 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-A
* * *
76611135 CCTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
76611167 ATATCATTCG
Statistics
Matches: 193, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
38 26 0.13
39 11 0.06
40 126 0.65
41 27 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:76611097 original size:118 final size:121
Alignment explanation
Indices: 76610903--76611170 Score: 337
Period size: 118 Copynumber: 2.2 Consensus size: 121
76610893 GCTACTCGCT
* * * * *
76610903 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * * *
76610968 ATTTGGTAACTCGCACAAATGCCTTCGG-GCTTAG-CCGGA-ATTAGTC-GCTAGCA
66 ATATAGCAACTCGCACAAATGCCTTCGGAGCTTAGTCCGGATA-TAGTCACCTAGCA
** ** *
76611021 CAAATGCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
76611086 ATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCA
66 ATATAGCAACTCGCACAAATGCCTTCGGAGCTTAGTCCGGATATAGTCACCTAGCA
*
76611142 CAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
76611171 CATTCGAATA
Statistics
Matches: 126, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
118 79 0.63
119 5 0.04
120 9 0.07
121 33 0.26
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGCAACTCGCACAAATGCCTTCGGAGCTTAGTCCGGATATAGTCACCTAGCA
Done.