Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 97 of 295
Found at i:31129162 original size:43 final size:42
Alignment explanation
Indices: 31129030--31129184 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
31129020 TAGAGACTAT
31129030 GTGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTC
*
31129072 GTGTAAGACCATATCTGGGATATGGCATCGATATGATATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * **
31129114 GTGTAAGACCATAGCTTGGCTATAGGCATCGATATGAGATCCC
1 GTGTAAGACCATATCTGGGATAT-GGCATCGATATGAGATTTC
* * *
31129157 ATGTAAGACCAAATCTTGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
31129185 TGGTGTGGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 64 0.64
43 36 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:31129178 original size:85 final size:84
Alignment explanation
Indices: 31129030--31129184 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 84
31129020 TAGAGACTAT
* ** * *
31129030 GTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTCGTGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGGGATAT
31129095 GGCATCGATATGATATTTC
66 GGCATCGATATGATATTTC
* * *
31129114 GTGTAAGACCATAGCTTGGCTATAGGCATCGA-TATGAGATCCCATGTAAGACCAAATCTTGGAT
1 GTGTAAGACCATAGCTGGGATAT-GGCATC-ATTATGAGATCCCATGTAAGACCAAATCTGGGAT
31129178 ATGGCAT
64 ATGGCAT
31129185 TGGTGTGGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 20 0.33
85 40 0.66
86 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGGGATAT
GGCATCGATATGATATTTC
Found at i:31129203 original size:85 final size:84
Alignment explanation
Indices: 31129025--31129203 Score: 200
Period size: 85 Copynumber: 2.1 Consensus size: 84
31129015 GGTTATAGAG
* ** * *
31129025 ACTATGTGTAAGACCATATCTGGGATATGGCATCATTATGAGATTTCGTGTAAGACCATATCTGG
1 ACTATGTGTAAGACCATAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGG
31129090 GATATGGCATCGATATGAT
66 GATATGGCATCGATATGAT
* * *
31129109 A-TTTCGTGTAAGACCATAGCTTGGCTATAGGCATCGA-TATGAGATCCCATGTAAGACCAAATC
1 ACTAT-GTGTAAGACCATAGCTGGGATAT-GGCATC-ATTATGAGATCCCATGTAAGACCAAATC
* * * * *
31129172 TTGGATATGGCATTGGTGTGGT
63 TGGGATATGGCATCGATATGAT
31129194 ACTATGTGTA
1 ACTATGTGTA
31129204 CGAGATACCC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
83 2 0.03
84 21 0.27
85 51 0.66
86 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (84 bp):
ACTATGTGTAAGACCATAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGG
GATATGGCATCGATATGAT
Found at i:31131104 original size:47 final size:49
Alignment explanation
Indices: 31131032--31131348 Score: 240
Period size: 47 Copynumber: 6.7 Consensus size: 49
31131022 TTATTTGTGT
*
31131032 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACATTATGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGATGA
*
31131078 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GACGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATGATG--A
* * * * *
31131126 GCTAGTGTAAGA-TATGTCTGGGACA-GGCATCGGCTAC--GA-GATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGATGA
* * * * *
31131170 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACACAGATATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACAT-TATGATGA
* * * * * *
31131220 GCTAGTGTATGACTATGTCTAGGACATGGCGTCGGCCTCGATT-TCGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTAT-GATGA
*
31131269 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GATGA
*
31131316 GCCAGTGTAAGACCATGTCTGGGACATGCCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
31131349 AGCATTAGTG
Statistics
Matches: 213, Mismatches: 36, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 39 0.18
47 58 0.27
48 21 0.10
49 33 0.15
50 31 0.15
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGATGA
Found at i:31131279 original size:99 final size:96
Alignment explanation
Indices: 31131035--31131304 Score: 304
Period size: 94 Copynumber: 2.8 Consensus size: 96
31131025 TTTGTGTGCC
* * *
31131035 AGTGTAAGAC-ATGTCTAGGACAT-GCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACTATGTCTAGGACATGGCATCGGCCTCGATT-TGATAGTCAGTGTAAGACCATGTC
* **
31131097 TGGGACATGGCATCGGCATTGAGACGAAAGCT
65 TGGGACATGGCATCGACACAGAGACGAAAGCT
* ** *
31131129 AGTGTAAGA-TATGTCTGGGACA-GGCATCGG-CTACGAGATG-T-GTCAGTGTAAGACCATGTT
1 AGTGTAAGACTATGTCTAGGACATGGCATCGGCCT-CGATTTGATAGTCAGTGTAAGACCATGTC
* * *
31131189 TGGGACATGGCATCGACACAGATATGTGAGAGCT
65 TGGGACATGGCATCGACACAGAGA--CGAAAGCT
* *
31131223 AGTGTATGACTATGTCTAGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTGTAAGACCATGTC
1 AGTGTAAGACTATGTCTAGGACATGGCATCGGCCTCGATTT-GATAGTCAGTGTAAGACCATGTC
31131288 TGGGACATGGCATCGAC
65 TGGGACATGGCATCGAC
31131305 TTGATGGATG
Statistics
Matches: 145, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
92 37 0.26
93 1 0.01
94 44 0.30
95 13 0.09
96 11 0.08
97 3 0.02
98 1 0.01
99 35 0.24
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACTATGTCTAGGACATGGCATCGGCCTCGATTTGATAGTCAGTGTAAGACCATGTCT
GGGACATGGCATCGACACAGAGACGAAAGCT
Found at i:31134826 original size:46 final size:46
Alignment explanation
Indices: 31134679--31134807 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
31134669 TGTAACCCGC
* *
31134679 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
*
31134725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
31134771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31134808 TGCTCAATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:31142321 original size:93 final size:93
Alignment explanation
Indices: 31142209--31142380 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
31142199 CGCCCATAAG
*
31142209 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
31142273 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
31142302 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31142367 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31142381 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31142375 original size:46 final size:46
Alignment explanation
Indices: 31142202--31142377 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
31142192 TGTAACCCGC
* *
31142202 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
31142248 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31142298 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31142341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31142378 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31147824 original size:31 final size:32
Alignment explanation
Indices: 31147767--31147828 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
31147757 ATGAAGTCAC
* *
31147767 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
31147799 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
31147829 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:31150549 original size:33 final size:32
Alignment explanation
Indices: 31150498--31150561 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
31150488 ACGAAGTCAC
* *
31150498 CAGATACAAATATTGTGGCTAGGCCACCAGAA
1 CAGATACAAATATTGTGGCGAAGCCACCAGAA
* *
31150530 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAAATAT-TGTGGCGAAGCCACCAGA
31150562 TTGTAGCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGATACAAATATTGTGGCGAAGCCACCAGAA
Found at i:31152186 original size:182 final size:182
Alignment explanation
Indices: 31151875--31152211 Score: 548
Period size: 182 Copynumber: 1.9 Consensus size: 182
31151865 CTAGATTTGA
* * * *
31151875 ACCCAAGACTTCTCTAACACTTCTGAGCATACTTAAACACTAAAACAAGCCTTCATTAGCGAAAT
1 ACCCAAGAATTCTCCAACACTTCTCAGCACACTTAAACACTAAAACAAGCCTTCATTAGCGAAAT
* **
31151940 TTACACGCACAACAAAATATTATAAGCTACCTTCAACCGCTCTAATGCTCAAGGCCTGAAACTTC
66 TTACACGCACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
*
31152005 TAGGCCCAAATTCATAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
131 TAGGCCCAAATTCAGAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
* *
31152057 ACCCAAGAATTTTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAGCGAAAT
1 ACCCAAGAATTCTCCAACACTTCTCAGCACACTTAAACACTAAAACAAGCCTTCATTAGCGAAAT
* *
31152122 TTACACGCACAACAAAATATTATAAGCTGCCTTCAACCGCTCCCATGCTCAAGGCCCAAAACTTC
66 TTACACGCACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
* *
31152187 TAGGCCGAAATTCAGGGTGTTACAA
131 TAGGCCCAAATTCAGAGTGTTACAA
31152212 TTCGTGTTAT
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
182 141 1.00
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (182 bp):
ACCCAAGAATTCTCCAACACTTCTCAGCACACTTAAACACTAAAACAAGCCTTCATTAGCGAAAT
TTACACGCACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
TAGGCCCAAATTCAGAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
Found at i:31153673 original size:37 final size:37
Alignment explanation
Indices: 31153618--31153693 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
31153608 TCCGAGAAGT
31153618 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
1 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
* *
31153655 CAAATTTTTGGGATATATTGTTTCAGGTGATTGTATC
1 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
31153692 CA
1 CA
31153694 TGTTGATCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (37 bp):
CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
Found at i:31157088 original size:42 final size:42
Alignment explanation
Indices: 31157042--31157196 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
31157032 CCGAGACTAT
* *
31157042 GTGTAAGACCATAACTGGGATATGGCATC-ATTATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTC
*
31157084 GTGTAAGACCATATCTGGGATATGGCATCGATATGATATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * *
31157126 GTGTAAGACCATAGT-TGGGCTATAGGCATCGATACGAGATCTC
1 GTGTAAGACCATA-TCTGGGATAT-GGCATCGATATGAGATTTC
* * *
31157169 ATTTAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
31157197 TGATGTGGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:31157215 original size:85 final size:84
Alignment explanation
Indices: 31157037--31157215 Score: 200
Period size: 85 Copynumber: 2.1 Consensus size: 84
31157027 GGTTACCGAG
* * ** *
31157037 ACTATGTGTAAGACCATAACTGGGATATGGCATCATTATGAGATTTTGTGTAAGACCATATCTGG
1 ACTATGTGTAAGACCATAACTGGGATATGGCATCATTACGAGATCTCATGTAAGACCATATCTAG
31157102 GATATGGCATCGATATGAT
66 GATATGGCATCGATATGAT
* ** * *
31157121 A-TTTCGTGTAAGACCATAGTTGGGCTATAGGCATCGA-TACGAGATCTCATTTAAGACCATATC
1 ACTAT-GTGTAAGACCATAACTGGGATAT-GGCATC-ATTACGAGATCTCATGTAAGACCATATC
* * *
31157184 TAGGATATGGCATTGATGTGGT
63 TAGGATATGGCATCGATATGAT
31157206 ACTATGTGTA
1 ACTATGTGTA
31157216 CGAGATACCC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
83 2 0.03
84 21 0.27
85 51 0.66
86 3 0.04
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (84 bp):
ACTATGTGTAAGACCATAACTGGGATATGGCATCATTACGAGATCTCATGTAAGACCATATCTAG
GATATGGCATCGATATGAT
Found at i:31161668 original size:40 final size:40
Alignment explanation
Indices: 31161624--31161814 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 40
31161614 GATATAGCTC
* *
31161624 CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAA
*
31161664 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA
* * * *
31161704 CTCGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTAT
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA
* * * * *
31161743 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAA
* * *
31161783 CTTAGAACAAA-GCCTTCGGGACTTAGCTCGGA
1 C-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
31161815 CATCATTCAA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 81 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA
Found at i:31166298 original size:46 final size:46
Alignment explanation
Indices: 31166244--31166419 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
31166234 TGGTTGAGCA
31166244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
31166290 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31166335 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31166383 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31166420 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31166400 original size:93 final size:93
Alignment explanation
Indices: 31166241--31166412 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
31166231 GGATGGTTGA
* *
31166241 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
31166306 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
31166334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
31166399 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31166413 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31169602 original size:14 final size:14
Alignment explanation
Indices: 31169583--31169619 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
31169573 AGTTTCCAAT
* *
31169583 TATAATAGATATAA
1 TATAATAAATAAAA
31169597 TATAATAAATAAAA
1 TATAATAAATAAAA
31169611 TATAATAAA
1 TATAATAAA
31169620 ATATACCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TATAATAAATAAAA
Found at i:31183853 original size:82 final size:84
Alignment explanation
Indices: 31183713--31183873 Score: 272
Period size: 82 Copynumber: 1.9 Consensus size: 84
31183703 ATCAAATAAA
*
31183713 GAAAGTAAAATTATGTTAAAAAAAAAGAGTGAGACTCAAATAAACAAAACTAAAAGATACATATA
1 GAAAGTAAAATTATGTT-AAAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATA
31183778 GCAAGTGCTTACATTTATTT
65 GCAAGTGCTTACATTTATTT
*
31183798 GAAAGTAAAATTATGTT-AAAAAAA-AGTGAGAATCAAATAAACAAAGCTAAAAGATACATATAG
1 GAAAGTAAAATTATGTTAAAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATAG
*
31183861 CATGTGCTTACAT
66 CAAGTGCTTACAT
31183874 ATTGCATTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
82 49 0.67
83 7 0.10
85 17 0.23
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (84 bp):
GAAAGTAAAATTATGTTAAAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATAG
CAAGTGCTTACATTTATTT
Found at i:31183996 original size:32 final size:32
Alignment explanation
Indices: 31183951--31184022 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
31183941 ACTAGTTTTT
* * *
31183951 TTAATTGA-TATGAGTTATCAAATTAAATTAA
1 TTAATTTATTATGAGCTATCAAATTAAAGTAA
** *
31183982 TTAATTTATTATGAGCTATTGAATTCAAGTAA
1 TTAATTTATTATGAGCTATCAAATTAAAGTAA
31184014 TTAATTTAT
1 TTAATTTAT
31184023 AAGCTTATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (32 bp):
TTAATTTATTATGAGCTATCAAATTAAAGTAA
Found at i:31184181 original size:17 final size:17
Alignment explanation
Indices: 31184150--31184192 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
31184140 AAATTTAAAC
31184150 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
31184166 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
*
31184183 -TTTTATTTAA
1 ATTTTAATTAA
31184193 TAAATCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:31184192 original size:16 final size:16
Alignment explanation
Indices: 31184150--31184189 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
31184140 AAATTTAAAC
31184150 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
31184166 ATTTTAATTAAGATAAT
1 ATTTT-ATTAAAATAAT
31184183 -TTTTATT
1 ATTTTATT
31184190 TAATAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:31184684 original size:43 final size:42
Alignment explanation
Indices: 31184604--31184685 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
31184594 TCAATAGAAA
* * *
31184604 TAAAAGTTTAATATTGAATAAAAAATTGAATTTTTAATGAAC
1 TAAAAGTTTAATATTGAATAAAAAAATAAAATTTTAATGAAC
*
31184646 TAAAAGTTTAA-ATTTACATAAAAAAGATAAAATTTTAATG
1 TAAAAGTTTAATATTGA-ATAAAAAA-ATAAAATTTTAATG
31184686 GGTATTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.12
42 19 0.56
43 11 0.32
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (42 bp):
TAAAAGTTTAATATTGAATAAAAAAATAAAATTTTAATGAAC
Found at i:31184737 original size:43 final size:45
Alignment explanation
Indices: 31184663--31184753 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 45
31184653 TTAAATTTAC
31184663 ATAAAAAAGATAAAATTTTAATGGGTATTTAATGAAAATAA-TAA
1 ATAAAAAAGATAAAATTTTAATGGGTATTTAATGAAAATAATTAA
* *** * *
31184707 ATAAAAAA-CTAAAATTTTAATTTTTGTTTAATGAGAATAATTAA
1 ATAAAAAAGATAAAATTTTAATGGGTATTTAATGAAAATAATTAA
31184751 ATA
1 ATA
31184754 TTATGATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.54, C:0.01, G:0.09, T:0.36
Consensus pattern (45 bp):
ATAAAAAAGATAAAATTTTAATGGGTATTTAATGAAAATAATTAA
Found at i:31185731 original size:22 final size:22
Alignment explanation
Indices: 31185706--31185773 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
31185696 CTTGTATCGA
31185706 TAAAAGGGTTCCCATGTATTGG
1 TAAAAGGGTTCCCATGTATTGG
* *
31185728 TAAAAAGGTTCCCATGTTTTGG
1 TAAAAGGGTTCCCATGTATTGG
31185750 TAAAAGGGTTCCCATGTATTGG
1 TAAAAGGGTTCCCATGTATTGG
31185772 TA
1 TA
31185774 GAAGTTTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (22 bp):
TAAAAGGGTTCCCATGTATTGG
Found at i:31189412 original size:29 final size:28
Alignment explanation
Indices: 31189316--31189414 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 28
31189306 CAACCACAAG
* *
31189316 ATCGCCACAAAGGTATCCTTTTAACAGAG
1 ATCGCCACAAAGCT-TCCTTTTAACAGAA
* * * *
31189345 GTCACCCCAAAGGCTTCCTTTTAACAGAT
1 ATCGCCACAAA-GCTTCCTTTTAACAGAA
* * *
31189374 ATTGCTACAAATGCTTCCTTTTAATAGAA
1 ATCGCCACAAA-GCTTCCTTTTAACAGAA
31189403 ATCGCCACAAAG
1 ATCGCCACAAAG
31189415 ACGTCTTTTC
Statistics
Matches: 54, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
28 1 0.02
29 51 0.94
30 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (28 bp):
ATCGCCACAAAGCTTCCTTTTAACAGAA
Found at i:31192559 original size:40 final size:40
Alignment explanation
Indices: 31192504--31192687 Score: 244
Period size: 40 Copynumber: 4.5 Consensus size: 40
31192494 TATTCGGATG
31192504 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31192544 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* ** * *
31192587 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
31192627 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
31192667 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
31192688 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 13 0.10
40 76 0.61
41 1 0.01
43 35 0.28
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:31192647 original size:83 final size:80
Alignment explanation
Indices: 31192508--31192687 Score: 263
Period size: 83 Copynumber: 2.2 Consensus size: 80
31192498 CGGATGATAT
** * *
31192508 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
31192573 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTGCTATAC
*
31192591 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
*
31192656 TGCGAGTTGCTATAT
66 TGCGAGTTGCTATAC
*
31192671 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
31192688 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 14 0.16
80 12 0.13
81 1 0.01
83 63 0.70
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:31201942 original size:22 final size:23
Alignment explanation
Indices: 31201917--31202015 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
31201907 GTCATGGTTG
31201917 GTAAGCTCCT-CTGAGCT-AAACA
1 GTAAGCT-CTACTGAGCTGAAACA
*
31201939 GTAAGCTCTATTGAGCTGAAACA
1 GTAAGCTCTACTGAGCTGAAACA
* * *
31201962 GTAAGCACTATTGAGCCG-AAC-
1 GTAAGCTCTACTGAGCTGAAACA
* *
31201983 GATAAGCTCTAATGAGCTGAAATA
1 G-TAAGCTCTACTGAGCTGAAACA
31202007 GTAAGCTCT
1 GTAAGCTCT
31202016 TACAAGCTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.05
22 30 0.46
23 31 0.48
24 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTACTGAGCTGAAACA
Found at i:31201964 original size:23 final size:23
Alignment explanation
Indices: 31201928--31202015 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
31201918 TAAGCTCCTC
31201928 TGAGCT-AAACAGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAT
*
31201950 TGAGCTGAAACAGTAAGCACTAT
1 TGAGCTGAAACAGTAAGCTCTAT
* *
31201973 TGAGCCG-AAC-GATAAGCTCTAA
1 TGAGCTGAAACAG-TAAGCTCTAT
*
31201995 TGAGCTGAAATAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
31202016 TACAAGCTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.02
22 23 0.41
23 31 0.55
24 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:31211704 original size:20 final size:20
Alignment explanation
Indices: 31211681--31211722 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31211671 CATGTATGGC
31211681 TATATTATAGCATGCTATTT
1 TATATTATAGCATGCTATTT
31211701 TATATTATAGCATGCTATTT
1 TATATTATAGCATGCTATTT
31211721 TA
1 TA
31211723 ACTACATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TATATTATAGCATGCTATTT
Found at i:31213366 original size:43 final size:43
Alignment explanation
Indices: 31213318--31213467 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
31213308 CAATGCTAAC
* * *
31213318 GTCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAAT
* *
31213361 GTCCCAGACAG-GTTCTTACACGAAATCAAATAT-GATGCCAAT
1 GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCGATGCCAAT
* *
31213403 GTCCCAGACATGGTCTTACACGTAAATCAAAAATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACACGT-AATCAAATATCGATGCCAAT
31213447 GTCCC-GACGTGGTCTTACACG
1 GTCCCAGACGTGGTCTTACACG
31213468 ATAACACATA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.29
43 51 0.55
44 15 0.16
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAAT
Found at i:31228087 original size:27 final size:27
Alignment explanation
Indices: 31228057--31228234 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31228047 ATATTGAGTC
* * * *
31228057 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31228084 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31228111 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31228139 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31228166 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31228193 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31228220 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31228235 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31228196 original size:82 final size:81
Alignment explanation
Indices: 31228078--31228233 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31228068 TGCTATATAA
* *
31228078 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31228143 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31228160 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31228224 CACTTAGTGC
65 CACTTAGTGC
31228234 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31236275 original size:27 final size:27
Alignment explanation
Indices: 31236245--31236422 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31236235 ATATTGAGTC
* * * *
31236245 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31236272 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31236299 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31236327 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31236354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31236381 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31236408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31236423 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31236384 original size:82 final size:81
Alignment explanation
Indices: 31236266--31236421 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31236256 TGCTATATAA
* *
31236266 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31236331 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31236348 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31236412 CACTTAGTGC
65 CACTTAGTGC
31236422 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31243949 original size:48 final size:48
Alignment explanation
Indices: 31243832--31244053 Score: 268
Period size: 48 Copynumber: 4.6 Consensus size: 48
31243822 TGAGATCCCA
* * * * * *
31243832 TGTAAGACCATGTCT-GCGACATGGCATCGGCATCCGAGATGAGAGCCAG
1 TGTAAGACCATGTCTAG-GACATGGCATCAGCGT-TGATATGTGTGCCAG
*
31243881 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCAGCGTTGATATGTGTGCCAG
*
31243929 TGTAAGACCATGTCTAGGACATGGCATC-GATGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCAG-CGTTGATATGTGTGCCAG
* ** * * * *
31243977 TATAAGATGATGTCTGGGACATGGCATTAGCGATGATATGTGTGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCAGCGTTGATATGTGTGCCAG
31244025 TGTAAGACCATGTCTAGGACATGGCATCA
1 TGTAAGACCATGTCTAGGACATGGCATCA
31244054 ACATCGATAT
Statistics
Matches: 149, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 117 0.79
49 30 0.20
50 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCAGCGTTGATATGTGTGCCAG
Found at i:31244001 original size:96 final size:97
Alignment explanation
Indices: 31243832--31244139 Score: 309
Period size: 96 Copynumber: 3.3 Consensus size: 97
31243822 TGAGATCCCA
*
31243832 TGTAAGACCATGTCT-GCGACATGGCATCGGCATCCGAGATGAGAGCCAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTAG-GACATGGCATCGGCATCCGAGATGAGAGCCAGTATAAGACCATGTCT
*
31243896 GGGACATGGCATCAGCGTTGATATGTGTGCCAG
65 GGGACATGGCATCAGCGATGATATGTGTGCCAG
** * * * **
31243929 TGTAAGACCATGTCTAGGACATGGCATC-G-ATGTTGATATGTGTGCCAGTATAAGATGATGTCT
1 TGTAAGACCATGTCTAGGACATGGCATCGGCAT-CCGAGATGAGAGCCAGTATAAGACCATGTCT
* *
31243992 GGGACATGGCATTAGCGATGATATGTGTGCTAG
65 GGGACATGGCATCAGCGATGATATGTGTGCCAG
** * * *
31244025 TGTAAGACCATGTCTAGGACATGGCATCAACAT-CGATATAAGA-CTTC-GTATAAGACCATATC
1 TGTAAGACCATGTCTAGGACATGGCATCGGCATCCGAGATGAGAGC--CAGTATAAGACCATGTC
* *
31244087 TGGGATATGGCAT---CGAT-ATGTG-GAT-CCA-
64 TGGGACATGGCATCAGCGATGATATGTG-TGCCAG
*
31244115 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTAGGACATGGC
31244140 TTTGGTACTT
Statistics
Matches: 181, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
90 24 0.13
91 3 0.02
92 5 0.03
93 4 0.02
95 3 0.02
96 112 0.62
97 27 0.15
98 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (97 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCATCCGAGATGAGAGCCAGTATAAGACCATGTCTG
GGACATGGCATCAGCGATGATATGTGTGCCAG
Found at i:31247011 original size:49 final size:46
Alignment explanation
Indices: 31246893--31247065 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 46
31246883 GAGATATGTT
* ** * *
31246893 AGTGTAAGACCATGTCTGGAACATGGCATCGACACGGATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCA-CGAC-TTGAT-CGAT--GAGCC
* * * *
31246943 AGGGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGC-AC-GACTTGA--TCGATGAGCC
* *
31246992 AGTGTAATACCATGTCTGGGACATGGCACGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCACGACTTGATCGATGAGCC
31247038 AGTGTAAGACCATGTCTGGGACATGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCA
31247066 TCGGCATTAT
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 4 0.04
46 30 0.30
47 6 0.06
48 1 0.01
49 27 0.27
50 28 0.28
51 3 0.03
52 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCACGACTTGATCGATGAGCC
Found at i:31250024 original size:50 final size:50
Alignment explanation
Indices: 31249959--31250252 Score: 313
Period size: 50 Copynumber: 5.8 Consensus size: 50
31249949 ACCGAAGCCC
* **
31249959 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * *
31250009 TCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * ** * *
31250059 TC-GGATACACGTAGTAGCCTGCATTTAGTACTACACACGTGGTCGAAGCTA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* * * * *
31250110 TCGGGTACGCATAGGAGCCTACACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
*
31250160 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** *
31250209 CCATTTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TC-TGGT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
31250253 TTCTCACAAC
Statistics
Matches: 204, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.02
50 127 0.62
51 36 0.18
52 36 0.18
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:31250202 original size:151 final size:152
Alignment explanation
Indices: 31249962--31250248 Score: 432
Period size: 151 Copynumber: 1.9 Consensus size: 152
31249952 GAAGCCCTCT
* * * *
31249962 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGGAGCCTACACTTAGTACTACACATGCAACCTAACAATCTGATACACATAGTAGC
* * * **
31250027 CTGTACTTAGTACTACACACGTGACCT-AACCATCGGATACACGTAGTAGCCTGCATTTAGTACT
66 CTGCACTTAGTACTACACACGTGACCTAAACCATCGGAAACACATAGTAGCCTGCACATAGTACT
31250091 ACACACGTGGTCGAAGCTATCG
131 ACACACGTGGTCGAAGCTATCG
*
31250113 GGTACGCATAGGAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGATACACATAGTAGC
1 GGTACGCATAGGAGCCTACACTTAGTACTACACATGCAACCTAACAATCTGATACACATAGTAGC
* ***
31250178 CTGCACTTAGTACTACACATGTGACCTAAAACCATTTTAAACACATAGTAGCCTGCACATAGTAC
66 CTGCACTTAGTACTACACACGTGACCT-AAACCATCGGAAACACATAGTAGCCTGCACATAGTAC
31250243 TACACA
130 TACACA
31250249 TGTGTTCTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 85 0.71
153 35 0.29
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (152 bp):
GGTACGCATAGGAGCCTACACTTAGTACTACACATGCAACCTAACAATCTGATACACATAGTAGC
CTGCACTTAGTACTACACACGTGACCTAAACCATCGGAAACACATAGTAGCCTGCACATAGTACT
ACACACGTGGTCGAAGCTATCG
Found at i:31250247 original size:26 final size:26
Alignment explanation
Indices: 31250165--31250249 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
31250155 AACAATCTGA
*
31250165 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
** **
31250191 TACACAT-GT-GACCTAAAACCATTTTA-
1 TACACATAGTAG-CCT-GCA-CATAGTAC
*
31250217 AACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
31250243 TACACAT
1 TACACAT
31250250 GTGTTCTCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
24 1 0.02
25 10 0.24
26 21 0.50
27 9 0.21
28 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:31256963 original size:29 final size:29
Alignment explanation
Indices: 31256929--31257002 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31256919 TAATCAACCG
*
31256929 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
31256958 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
31256987 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
31257003 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:31267948 original size:47 final size:47
Alignment explanation
Indices: 31267799--31268100 Score: 209
Period size: 47 Copynumber: 6.5 Consensus size: 47
31267789 TACGAGGGCT
* * * *
31267799 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATTATAG-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGA-AGATAGCC
* * * * * *
31267845 AATATAAGATCATGTCTGGGACATGGCATCGGCGTAGA-GAGGAGCA-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGAAGA-TAGCC
* * *
31267893 AATATAAGAAATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCC
* * *
31267940 AGTGTAAGACGTGTCTGGGACATGCATCGG-CT--AAGCATAG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATG-A-AGATAGCC
* * *
31267984 AGTGTAAGACATGTCTGGGACATGCATCGG-CACG-T--ATATATG-A
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGAAGATA-GCC
* *
31268027 AGTGTAAGACCATATCTAGGACATGGCATCGGCCTCGATGAAGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGAAGATAGCC
**
31268076 AGTGTAAGACCATGAATGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
31268101 GCATTGACAA
Statistics
Matches: 200, Mismatches: 35, Indels: 40
0.73 0.13 0.15
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 9 0.05
44 47 0.23
45 9 0.05
46 26 0.13
47 60 0.30
48 21 0.10
49 26 0.13
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCC
Found at i:31268104 original size:49 final size:46
Alignment explanation
Indices: 31267897--31268100 Score: 156
Period size: 44 Copynumber: 4.4 Consensus size: 46
31267887 AGCACCAATA
* *
31267897 TAAGAAATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCCAGTG
1 TAAGACATGACTGGGACATGCATCGG-CTCGATGAAGATAGCCAGTG
* * * *
31267944 TAAGACGTGTCTGGGACATGCATCGGCT--AAGCATAG-T-GCTAGTG
1 TAAGACATGACTGGGACATGCATCGGCTCGATG-A-AGATAGCCAGTG
* * * *
31267988 TAAGACATGTCTGGGACATGCATCGGCACG-T--ATATATG-AAGTG
1 TAAGACATGACTGGGACATGCATCGGCTCGATGAAGATA-GCCAGTG
*
31268031 TAAGACCAT-ATCTAGGACATGGCATCGGCCTCGATGAAGATAGCCAGTG
1 TAAGA-CATGA-CTGGGACAT-GCATCGG-CTCGATGAAGATAGCCAGTG
*
31268080 TAAGACCATGAATGGGACATG
1 TAAGA-CATGACTGGGACATG
31268101 GCATTGACAA
Statistics
Matches: 125, Mismatches: 16, Indels: 31
0.73 0.09 0.18
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 9 0.07
44 46 0.37
45 9 0.07
46 7 0.06
47 25 0.20
48 2 0.02
49 24 0.19
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
TAAGACATGACTGGGACATGCATCGGCTCGATGAAGATAGCCAGTG
Found at i:31268948 original size:55 final size:55
Alignment explanation
Indices: 31268839--31268949 Score: 163
Period size: 55 Copynumber: 2.0 Consensus size: 55
31268829 ATTGTCACGA
*
31268839 GTAGGCCACACGGGCGTGGGCCATAGCCGTGTCTATAAGTCAATTTTGTCCACAG
1 GTAGGCCACACGGGCGTGGGCCATAGCCGTGTCTATAAGTCAATGTTGTCCACAG
* *
31268894 GTAGGCCACACGGGCGTGTGCCATGGCCGTGTCCTA-AAGTCAATGTTG-CACACAG
1 GTAGGCCACACGGGCGTGGGCCATAGCCGTGT-CTATAAGTCAATGTTGTC-CACAG
31268949 G
1 G
31268950 CTAAGGGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 1 0.02
55 47 0.92
56 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.22
Consensus pattern (55 bp):
GTAGGCCACACGGGCGTGGGCCATAGCCGTGTCTATAAGTCAATGTTGTCCACAG
Found at i:31269482 original size:22 final size:23
Alignment explanation
Indices: 31269457--31269502 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31269447 CAACCAAACC
31269457 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31269479 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31269502 A
1 A
31269503 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31269508 original size:23 final size:23
Alignment explanation
Indices: 31269464--31269508 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31269454 ACCAATTCAA
*
31269464 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31269487 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31269509 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31277258 original size:22 final size:23
Alignment explanation
Indices: 31277233--31277278 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31277223 CAACCAAACC
31277233 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31277255 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31277278 A
1 A
31277279 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31277284 original size:23 final size:23
Alignment explanation
Indices: 31277240--31277284 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31277230 ACCAATTCAA
*
31277240 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31277263 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31277285 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31277333 original size:16 final size:16
Alignment explanation
Indices: 31277312--31277343 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31277302 GTTTGTTAAT
31277312 CATACTAATGGCTAAC
1 CATACTAATGGCTAAC
31277328 CATACTAATGGCTAAC
1 CATACTAATGGCTAAC
31277344 TTTACATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CATACTAATGGCTAAC
Found at i:31308624 original size:43 final size:43
Alignment explanation
Indices: 31308532--31308615 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
31308522 TCCTAATTAG
31308532 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* * *
31308575 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
31308616 GTAAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:31308670 original size:19 final size:18
Alignment explanation
Indices: 31308641--31308685 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
31308631 GAATATGAAT
*
31308641 TAAACTTATCTATCC-AAA
1 TAAATTTATCTA-CCTAAA
31308659 TAAGATTTATCTACCTAAA
1 TAA-ATTTATCTACCTAAA
31308678 TAAATTTA
1 TAAATTTA
31308686 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAATTTATCTACCTAAA
Found at i:31313336 original size:43 final size:44
Alignment explanation
Indices: 31313267--31313359 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
31313257 TCCTAATTGG
31313267 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
31313310 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
31313354 -AAAATA
1 GAAAATA
31313360 TTTCTACAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:31313403 original size:19 final size:18
Alignment explanation
Indices: 31313381--31313420 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
31313371 TGAATAAAAC
31313381 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
31313400 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
31313418 TTA
1 TTA
31313421 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:31314003 original size:28 final size:29
Alignment explanation
Indices: 31313967--31314027 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
31313957 TCACATACCT
*
31313967 ATATCGGCCCATTAAGCCCAATCATATTC
1 ATATCGGCCCATTAAGCCCAATCACATTC
* *
31313996 ATAT-GGCCCATTAGGCCCAGTCACATTC
1 ATATCGGCCCATTAAGCCCAATCACATTC
31314024 ATAT
1 ATAT
31314028 TCATGCTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
ATATCGGCCCATTAAGCCCAATCACATTC
Found at i:31315574 original size:16 final size:17
Alignment explanation
Indices: 31315546--31315584 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
31315536 ATAAAGAAAG
*
31315546 TTTAGGATTTCGGGGTT
1 TTTAGGATTTCGGGATT
31315563 TTTAGG-TTTCGGGATT
1 TTTAGGATTTCGGGATT
31315579 TTTAGG
1 TTTAGG
31315585 GCGTTACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (17 bp):
TTTAGGATTTCGGGATT
Found at i:31315894 original size:18 final size:19
Alignment explanation
Indices: 31315868--31315908 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
31315858 GGCCTCTCGG
31315868 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
31315886 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
31315905 CGGT
1 CGGT
31315909 CCACGGCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:31316127 original size:22 final size:23
Alignment explanation
Indices: 31316102--31316147 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31316092 CAACCAAATC
31316102 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
31316124 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
31316147 A
1 A
31316148 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:31316153 original size:23 final size:23
Alignment explanation
Indices: 31316109--31316153 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31316099 ATCAATTCAA
*
31316109 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
31316132 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
31316154 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:31321303 original size:16 final size:17
Alignment explanation
Indices: 31321275--31321313 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
31321265 ATAAAGAAAG
31321275 TTTGGGATTTCGAGATT
1 TTTGGGATTTCGAGATT
31321292 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCGAGATT
31321308 TTTGGG
1 TTTGGG
31321314 GCGTTACAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCGAGATT
Found at i:31330291 original size:27 final size:27
Alignment explanation
Indices: 31330261--31330438 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31330251 ATATTGAGTC
* * * *
31330261 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31330288 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31330315 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31330343 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31330370 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31330397 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31330424 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31330439 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31330400 original size:82 final size:81
Alignment explanation
Indices: 31330282--31330437 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31330272 TGCTATATAA
* *
31330282 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31330347 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31330364 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31330428 CACTTAGTGC
65 CACTTAGTGC
31330438 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31338481 original size:27 final size:27
Alignment explanation
Indices: 31338451--31338628 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31338441 ATATTGAGTC
* * * *
31338451 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31338478 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31338505 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31338533 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31338560 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31338587 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31338614 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31338629 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31338590 original size:82 final size:81
Alignment explanation
Indices: 31338472--31338627 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31338462 TGCTATATAA
* *
31338472 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31338537 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31338554 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31338618 CACTTAGTGC
65 CACTTAGTGC
31338628 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31348345 original size:27 final size:27
Alignment explanation
Indices: 31348304--31348357 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
31348294 GGAAAAAATC
31348304 ACCATGTCTCACAAAAGAACAAGATCT
1 ACCATGTCTCACAAAAGAACAAGATCT
* *
31348331 ACCATGTCTCGCAAAAGAACTAGATCT
1 ACCATGTCTCACAAAAGAACAAGATCT
31348358 TCTAAGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (27 bp):
ACCATGTCTCACAAAAGAACAAGATCT
Found at i:31362374 original size:7 final size:7
Alignment explanation
Indices: 31362364--31362388 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31362354 CCGTTCAAAG
31362364 CATCCCT
1 CATCCCT
31362371 CATCCCT
1 CATCCCT
31362378 CATCCCT
1 CATCCCT
31362385 CATC
1 CATC
31362389 ACCCACTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (7 bp):
CATCCCT
Found at i:31370609 original size:11 final size:11
Alignment explanation
Indices: 31370593--31370636 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
31370583 AAGGAAACCC
*
31370593 TAGAAAAAGTA
1 TAGAAAAACTA
31370604 TAGAAAAACTAA
1 TAGAAAAACT-A
*
31370616 AAGAAAAACTA
1 TAGAAAAACTA
31370627 -AGAAAAACTA
1 TAGAAAAACTA
31370637 AAGCTAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 10 0.33
11 10 0.33
12 10 0.33
ACGTcount: A:0.68, C:0.07, G:0.11, T:0.14
Consensus pattern (11 bp):
TAGAAAAACTA
Found at i:31370622 original size:22 final size:22
Alignment explanation
Indices: 31370594--31370638 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
31370584 AGGAAACCCT
*
31370594 AGAAAAAGTATAGAAAAACTAAA
1 AGAAAAACTA-AGAAAAACTAAA
31370617 AGAAAAACTAAGAAAAACTAAA
1 AGAAAAACTAAGAAAAACTAAA
31370639 GCTAAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (22 bp):
AGAAAAACTAAGAAAAACTAAA
Found at i:31374823 original size:42 final size:41
Alignment explanation
Indices: 31374761--31374882 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
31374751 TAAGGTTAGT
* *
31374761 TGAGATTGCGTGTAACACCATATTTAGGATATGGCATCAATA
1 TGAGATT-CGTGTAAGACCATATCTAGGATATGGCATCAATA
* * *
31374803 TGAGACTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTAGGATA-TGGCATCAATA
* * * *
31374846 TGAGATCCCATGTAAGACCACATCTGGGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTAGGATATGGCAT
31374883 TAGTATGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTAGGATATGGCATCAATA
Found at i:31374849 original size:43 final size:42
Alignment explanation
Indices: 31374761--31374851 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
31374751 TAAGGTTAGT
**
31374761 TGAGATTGCGTGTAACACCATATTTAGGATATGGCATCAATA
1 TGAGATTGCGTGTAACACCATAGCTAGGATATGGCATCAATA
* * *
31374803 TGAGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGA-TTGCGTGTAACACCATAGCTAGGATA-TGGCATCAATA
31374846 TGAGAT
1 TGAGAT
31374852 CCCATGTAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.60
43 17 0.40
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTGCGTGTAACACCATAGCTAGGATATGGCATCAATA
Found at i:31375967 original size:20 final size:20
Alignment explanation
Indices: 31375940--31375993 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
31375930 CACGACCTAC
31375940 CCACATGGGCGTGTCCCAAG
1 CCACATGGGCGTGTCCCAAG
* *
31375960 CTACATGGGCATGTCCCAAG
1 CCACATGGGCGTGTCCCAAG
*
31375980 CCACACGGGCGTGT
1 CCACATGGGCGTGT
31375994 GACCCTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (20 bp):
CCACATGGGCGTGTCCCAAG
Found at i:31378094 original size:27 final size:27
Alignment explanation
Indices: 31378050--31378146 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
31378040 AAAACATGCC
* *
31378050 ATGAAAGAGTAGCATTCATGGCAAAAT
1 ATGAAAGAGTAGCCTTCATGGCGAAAT
* * *
31378077 ATGAAAGAGCAGCCTTCATCGTGAAAT
1 ATGAAAGAGTAGCCTTCATGGCGAAAT
31378104 ATGAAAGAGTAGCCTTCATGGCGAAAT
1 ATGAAAGAGTAGCCTTCATGGCGAAAT
* *
31378131 ATAAAAAAGTAGCCTT
1 ATGAAAGAGTAGCCTT
31378147 TGTGGAGTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTCATGGCGAAAT
Found at i:31380342 original size:34 final size:33
Alignment explanation
Indices: 31380277--31380352 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 33
31380267 ACTGTACTAA
*
31380277 AATGGGCTAAGGCCCACACTGTTAATACTACTG
1 AATGGGCTAAGGCCCACACTGATAATACTACTG
* *
31380310 TAATGGGCTAAGGCCCACACTGATATTGCTACTG
1 -AATGGGCTAAGGCCCACACTGATAATACTACTG
31380344 ATATGGGCT
1 A-ATGGGCT
31380353 TATGCCAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (33 bp):
AATGGGCTAAGGCCCACACTGATAATACTACTG
Found at i:31387969 original size:34 final size:33
Alignment explanation
Indices: 31387904--31387985 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
31387894 ACTGTACTAA
* **
31387904 AATGGGCTAAGGCCCACACTGTTAATACTACTG
1 AATGGGCTAAAGCCCACACTAATAATACTACTG
* *
31387937 TAATGGGCTAAAGCCCACACTAATATTGCTACTG
1 -AATGGGCTAAAGCCCACACTAATAATACTACTG
*
31387971 ATATGGGCTTAAGCC
1 A-ATGGGCTAAAGCC
31387986 AGCTGTATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 1 0.02
34 40 0.98
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (33 bp):
AATGGGCTAAAGCCCACACTAATAATACTACTG
Found at i:31400158 original size:27 final size:27
Alignment explanation
Indices: 31400128--31400187 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
31400118 CGCCGATTTA
* *
31400128 TAAAATTACCAAAATAACCTTGTAGTG
1 TAAAATTACCAAAATAACCCTGTAGGG
** *
31400155 TAAAATTACTGAAATACCCCTGTAGGG
1 TAAAATTACCAAAATAACCCTGTAGGG
31400182 TAAAAT
1 TAAAAT
31400188 GACAGTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATAACCCTGTAGGG
Found at i:31402296 original size:30 final size:28
Alignment explanation
Indices: 31402250--31402309 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
31402240 TAACTTTGGT
* *
31402250 CCTTCAAATTTTAATATTTTCAATTTAA
1 CCTTCAAATTTTAATATTTACAATTGAA
*
31402278 CCTTTAAACTTTTGAATATTTACAATTGAA
1 CCTTCAAA-TTTT-AATATTTACAATTGAA
31402308 CC
1 CC
31402310 CTTTTTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.26
29 4 0.15
30 16 0.59
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (28 bp):
CCTTCAAATTTTAATATTTACAATTGAA
Found at i:31414987 original size:14 final size:14
Alignment explanation
Indices: 31414968--31414997 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31414958 AAGAGAGAAT
*
31414968 GATGATGGATGAGG
1 GATGATGAATGAGG
31414982 GATGATGAATGAGG
1 GATGATGAATGAGG
31414996 GA
1 GA
31414998 ATGAAGGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:31433574 original size:29 final size:29
Alignment explanation
Indices: 31433536--31433597 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
31433526 AGAGGTGGTT
31433536 TAGAAAGCCATTCATAGGGTTTTAGTTAG
1 TAGAAAGCCATTCATAGGGTTTTAGTTAG
31433565 TAGAAAGCCATTCATAGGGTTTTAGTTAG
1 TAGAAAGCCATTCATAGGGTTTTAGTTAG
31433594 TAGA
1 TAGA
31433598 TTTACTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (29 bp):
TAGAAAGCCATTCATAGGGTTTTAGTTAG
Found at i:31437209 original size:12 final size:12
Alignment explanation
Indices: 31437187--31437217 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
31437177 CTGTTTTAAA
31437187 TTTTA-TTTCAT
1 TTTTATTTTCAT
31437198 TTTTATTTTCAT
1 TTTTATTTTCAT
31437210 TTTTATTT
1 TTTTATTT
31437218 GTTTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTCAT
Found at i:31440122 original size:39 final size:39
Alignment explanation
Indices: 31440063--31440186 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
31440053 ATTAGCCCGG
* * *
31440063 ATATAATTCCAGCACATAGCC-AGCGAACCCGAAGTTCGA
1 ATATAATTCCCGCATATAGCCTA-CGAACCCGAAGTCCGA
* * ** *
31440102 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGAACCCGAAGTCCGA
* **
31440141 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGA
1 ATATAATTCCCGCATATAGCCTACGAACCCGAAGTCCGA
31440180 ATATAAT
1 ATATAAT
31440187 CACCATATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 73 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGAACCCGAAGTCCGA
Found at i:31443525 original size:28 final size:28
Alignment explanation
Indices: 31443493--31443607 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 28
31443483 TACCTGTATC
* *
31443493 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
31443521 TGGCCCATTAGGCCCACATCACCTGTC-TA
1 TGGCCCATTAGGCCCA-ATCACAT-TCATA
*
31443550 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
31443579 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
31443607 T
1 T
31443608 TCATGCTTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 28 0.37
29 44 0.59
30 3 0.04
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:31443545 original size:57 final size:57
Alignment explanation
Indices: 31443479--31443594 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 57
31443469 CAAACAAATT
* *
31443479 CACATACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCC
1 CACATACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
* * * *
31443535 CACATCACCTGTCTATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 CACAT-ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
31443593 CA
1 CA
31443595 GTCACATTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 5 0.10
57 21 0.40
58 26 0.50
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (57 bp):
CACATACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
Found at i:31443552 original size:29 final size:29
Alignment explanation
Indices: 31443479--31443594 Score: 121
Period size: 29 Copynumber: 4.1 Consensus size: 29
31443469 CAAACAAATT
* * *
31443479 CACAT-ACCTGTATCTGGCCCATTAAGCC
1 CACATCACATGTATATGGCCCATTAGGCC
*
31443507 CA-ATCATAT-TCATATGGCCCATTAGGCC
1 CACATCACATGT-ATATGGCCCATTAGGCC
* *
31443535 CACATCACCTGTCTATGGCCCATTAGGCC
1 CACATCACATGTATATGGCCCATTAGGCC
* * *
31443564 CAAATCACATTTATATGGCCCGTTAGGCC
1 CACATCACATGTATATGGCCCATTAGGCC
31443593 CA
1 CA
31443595 GTCACATTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.04
28 21 0.29
29 47 0.65
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CACATCACATGTATATGGCCCATTAGGCC
Found at i:31454588 original size:14 final size:14
Alignment explanation
Indices: 31454569--31454596 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31454559 AAAGTAGTCT
31454569 TAAAATAAAATAAA
1 TAAAATAAAATAAA
31454583 TAAAATAAAATAAA
1 TAAAATAAAATAAA
31454597 AGTAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:31454591 original size:19 final size:19
Alignment explanation
Indices: 31454569--31454614 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
31454559 AAAGTAGTCT
31454569 TAAAATAAAA-TAAATAAAA
1 TAAAATAAAAGTAAA-AAAA
*
31454588 TAAAATAAAAGTAAAAACA
1 TAAAATAAAAGTAAAAAAA
31454607 TAAAATAA
1 TAAAATAA
31454615 TAAATGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
TAAAATAAAAGTAAAAAAA
Found at i:31454593 original size:10 final size:10
Alignment explanation
Indices: 31454569--31454603 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
31454559 AAAGTAGTCT
31454569 TAAAATAAAA
1 TAAAATAAAA
31454579 T-AAATAAAA
1 TAAAATAAAA
31454588 TAAAATAAAA
1 TAAAATAAAA
31454598 GTAAAA
1 -TAAAA
31454604 ACATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 9 0.39
11 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:31454614 original size:5 final size:5
Alignment explanation
Indices: 31454569--31454603 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
31454559 AAAGTAGTCT
31454569 TAAAA TAAAA T-AAA TAAAA TAAAA TAAAA GTAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -TAAAA
31454604 ACATAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:31456474 original size:13 final size:13
Alignment explanation
Indices: 31456456--31456480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31456446 TGTGGGTACA
31456456 CACGACCGTGTCG
1 CACGACCGTGTCG
31456469 CACGACCGTGTC
1 CACGACCGTGTC
31456481 TGGATTCGTT
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:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:31463669 original size:12 final size:12
Alignment explanation
Indices: 31463654--31463679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31463644 ATCATCCTCT
31463654 TCATCAGATTCA
1 TCATCAGATTCA
31463666 TCATCAGATTCA
1 TCATCAGATTCA
31463678 TC
1 TC
31463680 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:31465412 original size:9 final size:9
Alignment explanation
Indices: 31465398--31465673 Score: 78
Period size: 9 Copynumber: 31.0 Consensus size: 9
31465388 TAAGTATAAC
31465398 TAAGTTATG
1 TAAGTTATG
*
31465407 TAAGTTGTG
1 TAAGTTATG
* * *
31465416 ATATGATATA
1 -TAAGTTATG
*
31465426 T-ATTTATG
1 TAAGTTATG
31465434 T-A-TTATG
1 TAAGTTATG
*
31465441 TAAGTTATC
1 TAAGTTATG
31465450 TGAA-TTATG
1 T-AAGTTATG
*
31465459 TAAATTATG
1 TAAGTTATG
* *
31465468 TACGATATG
1 TAAGTTATG
*
31465477 ATATATATCTATG
1 -TA-A-GT-TATG
31465490 T-A-TTATG
1 TAAGTTATG
31465497 TAAGTTATG
1 TAAGTTATG
*
31465506 TAAATTATG
1 TAAGTTATG
*
31465515 TAAGTTGT-
1 TAAGTTATG
**
31465523 TCATCTTATG
1 T-AAGTTATG
*
31465533 TAAATTATG
1 TAAGTTATG
*
31465542 TAAGATATGATA
1 TAAG-T-T-ATG
*
31465554 TATATTTATG
1 TA-AGTTATG
31465564 T-A-TTATG
1 TAAGTTATG
31465571 TAAGTTATG
1 TAAGTTATG
*
31465580 TAAATTATG
1 TAAGTTATG
* * *
31465589 TAATTTGTT
1 TAAGTTATG
**
31465598 TATCTTATG
1 TAAGTTATG
*
31465607 TAAATTATG
1 TAAGTTATG
*
31465616 TAAGATATG
1 TAAGTTATG
*
31465625 --A--TATA
1 TAAGTTATG
*
31465630 TATATTTATG
1 TA-AGTTATG
31465640 T-A-TTATG
1 TAAGTTATG
31465647 TAAGTTATG
1 TAAGTTATG
*
31465656 TAAATTATG
1 TAAGTTATG
*
31465665 TAAGATATG
1 TAAGTTATG
31465674 ATATATATTT
Statistics
Matches: 195, Mismatches: 46, Indels: 52
0.67 0.16 0.18
Matches are distributed among these distances:
5 3 0.02
7 24 0.12
8 16 0.08
9 120 0.62
10 19 0.10
11 2 0.01
12 6 0.03
13 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:31465514 original size:18 final size:18
Alignment explanation
Indices: 31465436--31465673 Score: 102
Period size: 18 Copynumber: 13.3 Consensus size: 18
31465426 TATTTATGTA
* *
31465436 TTATGTAAGTTATCTGAA-
1 TTATGTAAATTATGT-AAG
*
31465454 TTATGTAAATTATGTACG
1 TTATGTAAATTATGTAAG
*
31465472 ATATGATATATATCTATGT-A-
1 TTATG-TA-A-AT-TATGTAAG
* *
31465492 TTATGTAAGTTATGTAAA
1 TTATGTAAATTATGTAAG
* * **
31465510 TTATGTAAGTTGT-TCATC
1 TTATGTAAATTATGT-AAG
31465528 TTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAG
*
31465546 ATATGATATATATTTATGT-A-
1 TTATG-TA-A-A-TTATGTAAG
* *
31465566 TTATGTAAGTTATGTAAA
1 TTATGTAAATTATGTAAG
* * * **
31465584 TTATGTAATTTGTTTATC
1 TTATGTAAATTATGTAAG
31465602 TTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAG
* * * *
31465620 ATATG-ATA-TATAT-AT
1 TTATGTAAATTATGTAAG
31465635 TTATGT--ATTATGTAAG
1 TTATGTAAATTATGTAAG
31465651 TTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAG
*
31465669 ATATG
1 TTATG
31465674 ATATATATTT
Statistics
Matches: 165, Mismatches: 35, Indels: 40
0.69 0.15 0.17
Matches are distributed among these distances:
14 1 0.01
15 9 0.05
16 22 0.13
17 7 0.04
18 92 0.56
19 9 0.05
20 10 0.06
21 4 0.02
22 11 0.07
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATGTAAATTATGTAAG
Found at i:31465555 original size:74 final size:74
Alignment explanation
Indices: 31465454--31465668 Score: 376
Period size: 74 Copynumber: 2.9 Consensus size: 74
31465444 GTTATCTGAA
* *
31465454 TTATGTAAATTATGTACGATATGATATATATCTATGTATTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
31465519 TTGTTCATC
66 TTGTTCATC
*
31465528 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAT
1 TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
*
31465593 TTGTTTATC
66 TTGTTCATC
31465602 TTATGTAAATTATGTAAGATATGATATATATATTTATGTATTATGTAAGTTATGTAAATTATGTA
1 TTATGTAAATTATGTAAGATATG--ATATATATTTATGTATTATGTAAGTTATGTAAATTATGTA
31465667 AG
64 AG
31465669 ATATGATATA
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
74 93 0.69
76 41 0.31
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.47
Consensus pattern (74 bp):
TTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
TTGTTCATC
Found at i:31466062 original size:106 final size:104
Alignment explanation
Indices: 31465940--31467232 Score: 2074
Period size: 106 Copynumber: 12.4 Consensus size: 104
31465930 CAATATTTAA
* *
31465940 AAATATAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
*
31466005 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
31466046 AAATACAATTTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAAGTAGACAATATTTTTCA-TG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTT-AGTG
*
31466109 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
65 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
31466149 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
*
31466214 GATTAAATTAAAATAAAATAAAATATTCAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
31466255 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTTAGTGA
*
31466320 TTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
31466359 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTCGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
*
31466424 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
31466465 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTTAGTGA
* *
31466530 TTAAAATAAAATGAAATAAAATATTTAAAATAAAACTTT
66 TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* *
31466569 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAATGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
*
31466634 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
31466675 AAATACAATTTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAAGTAGACAATATTTTTCA-TG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTT-AGTG
*
31466738 ATTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
65 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
31466778 AAATACAATTTAATTTTATTAGATAATATAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
* *
31466843 GATTAAATTAAAATCAAATAAAATATTCAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
31466884 AAATACAATTTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAAGTAGACAATATTTTTCGTG-
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTTAGTGA
31466947 ----ATTAAAAT--AA-AAAATATTTAAAATAAAACTTT
66 TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
31466979 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGAC--AATATTTTTAGT
*
31467044 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTT
64 GATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
31467085 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAAATAATAGTAGACAATATTTTTCGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTTAGTGA
*
31467150 TTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
31467189 AAATACAATTTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAA
31467233 TATTTAAAAT
Statistics
Matches: 1111, Mismatches: 51, Indels: 53
0.91 0.04 0.04
Matches are distributed among these distances:
95 54 0.05
96 18 0.02
98 20 0.02
103 190 0.17
104 316 0.28
105 51 0.05
106 462 0.42
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (104 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATTAAAATAAAAGTAGACAATATTTTTAGTGA
TTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:31466235 original size:209 final size:210
Alignment explanation
Indices: 31465940--31467232 Score: 2385
Period size: 210 Copynumber: 6.2 Consensus size: 210
31465930 CAATATTTAA
*
31465940 AAATATAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
31466005 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
*
31466070 AATTTAAAAAT-AAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAATAAAATAAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31466134 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
31466149 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
* *
31466214 GATTAAATTAAAATAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
31466279 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31466344 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
*
31466359 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTCGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
31466424 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
*
31466489 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATGAAATAAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31466554 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
*
31466569 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAATGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
31466634 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
*
31466699 AATTTAAAAAT-AAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAATAAAATAAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31466763 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
* *
31466778 AAATACAATTTAATTTTATTAGATAATATAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
*
31466843 GATTAAATTAAAATCAAATAAAATATTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
31466908 AATTTAAAAAT-AAAATAAAAGTAGACAATATTTTTCGTGA-T----TAAAAT--AA-AAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31466964 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
31466979 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
31467044 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
66 GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
*
31467109 AATTTAAAAATAAAAATAATAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
131 AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
31467174 TTAAAATAAAACTTT
196 TTAAAATAAAACTTT
*
31467189 AAATACAATTTAATTTAATTAGGTAATTTAAAAA-TAAAATAAAA
1 AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAA
31467233 TATTTAAAAT
Statistics
Matches: 1052, Mismatches: 22, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
201 160 0.15
202 30 0.03
203 1 0.00
204 6 0.01
207 6 0.01
208 1 0.00
209 381 0.36
210 467 0.44
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (210 bp):
AAATACAATTTAATTTAATTAGATAATTTAAAAATTAAAATAAAAGTAGACAAAATATTTTTAGT
GATTAAATTAAAATCAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGT
AATTTAAAAATAAAAATAAAAGTAGACAATATTTTTCGTGATTAAAATAAAATAAAATAAAATAT
TTAAAATAAAACTTT
Found at i:31467706 original size:18 final size:18
Alignment explanation
Indices: 31467683--31467733 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
31467673 TAAAGTAAGT
31467683 AAAATGATTCAATATTTG
1 AAAATGATTCAATATTTG
31467701 AAAATGATTCAATATTTG
1 AAAATGATTCAATATTTG
*
31467719 AAAATGATCCAATAT
1 AAAATGATTCAATAT
31467734 GTAAAGTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (18 bp):
AAAATGATTCAATATTTG
Found at i:31470372 original size:43 final size:43
Alignment explanation
Indices: 31470325--31470417 Score: 143
Period size: 44 Copynumber: 2.2 Consensus size: 43
31470315 GGGAACAGAT
* *
31470325 TTAGGGAAA-AAGTATGGGGAAAAGAGGGGATTTGGGGAAAATG
1 TTAGGGAAATAACTATGGGGAAAAAAGGGGATTTGGGG-AAATG
*
31470368 TTAGGGAAATGACTATGGGGAAAAAAGGGGATTTGGGGAAATG
1 TTAGGGAAATAACTATGGGGAAAAAAGGGGATTTGGGGAAATG
31470411 TTAGGGA
1 TTAGGGA
31470418 TTTCGGGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 21 0.46
44 25 0.54
ACGTcount: A:0.38, C:0.01, G:0.41, T:0.20
Consensus pattern (43 bp):
TTAGGGAAATAACTATGGGGAAAAAAGGGGATTTGGGGAAATG
Found at i:31471279 original size:15 final size:15
Alignment explanation
Indices: 31471252--31471287 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
31471242 TTTAAAATAA
31471252 TTAT-TTATATATAT
1 TTATCTTATATATAT
*
31471266 TTATCTTATTTATAT
1 TTATCTTATATATAT
31471281 TTATCTT
1 TTATCTT
31471288 CTAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATCTTATATATAT
Found at i:31471350 original size:19 final size:19
Alignment explanation
Indices: 31471323--31471376 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
31471313 CTAAACCCTA
* *
31471323 AACCATAAATCATATACCT
1 AACCATAAACCATAAACCT
*
31471342 AACCTTAAACCATAAACCTT
1 AACCATAAACCATAAACC-T
*
31471362 AAACCCTAAACCATA
1 -AACCATAAACCATA
31471377 TCCCCAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 15 0.52
20 1 0.03
21 13 0.45
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (19 bp):
AACCATAAACCATAAACCT
Found at i:31471361 original size:14 final size:14
Alignment explanation
Indices: 31471314--31471373 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
31471304 AATTATACTC
*
31471314 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* * *
31471328 TAAATCATATACC-
1 TAAACCTTAAACCA
31471341 T-AACCTTAAACCA
1 TAAACCTTAAACCA
*
31471354 TAAACCTTAAACCC
1 TAAACCTTAAACCA
31471368 TAAACC
1 TAAACC
31471374 ATATCCCCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 8 0.22
13 2 0.05
14 27 0.73
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:31472317 original size:154 final size:154
Alignment explanation
Indices: 31472101--31472488 Score: 442
Period size: 154 Copynumber: 2.5 Consensus size: 154
31472091 AAAAATACCG
* * * * * *
31472101 CTAATGCCCCTATAGCTCACCAAAAG-ACGACGTCGTTTTGCTCAAAACTTTTGCGGCGTTTTTC
1 CTAATGCCTCTATAGCTCACC-AATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTTA
* * * * * * *
31472165 AATAGCCGCCGCTATTTGCTTCACCTTTTGCGGCGTTTCAG-GAAAACGCTGCTAATTCTCGATA
65 AACAACCGCCGCTA-ATGCTTCACCTATTGCGGCATTTCAGAAAAAACGCCGCTAATTCTCGATA
31472229 TATTGCGGCGTTTACAGGAAGCGCCA
129 TATTGCGGCGTTTACAGGAAGCGCCA
* *
31472255 CTAAAGCCTCTATAGCTCACCAATGCACGACGTTGTATTT-CTCAAAACTTTTGTGGCATTTTTA
1 CTAATGCCTCTATAGCTCACCAATGCACGACGTTGT-TTTCCTCAAAACTTTTGCGGCATTTTTA
* * * * *
31472319 AACAACTGCCGCTAATGCTTCACCTATTGTGGCATTTTAGAAAAAACGCCGCTAATTTTTGATAT
65 AACAACCGCCGCTAATGCTTCACCTATTGCGGCATTTCAGAAAAAACGCCGCTAATTCTCGATAT
* * *
31472384 ATTGCGGTGTTTTCAGGAAGCGCCG
130 ATTGCGGCGTTTACAGGAAGCGCCA
* * * * * * *
31472409 CTAATGCTTCTATAGCTTACCAATACACGGCGTTGTTTTCCTCAACACTTTTGCAGCGTTTTTAC
1 CTAATGCCTCTATAGCTCACCAATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTTA-
31472474 AA-AACCGCCGCTAAT
65 AACAACCGCCGCTAAT
31472489 AGTCCCTTTT
Statistics
Matches: 197, Mismatches: 32, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
153 27 0.14
154 165 0.84
155 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (154 bp):
CTAATGCCTCTATAGCTCACCAATGCACGACGTTGTTTTCCTCAAAACTTTTGCGGCATTTTTAA
ACAACCGCCGCTAATGCTTCACCTATTGCGGCATTTCAGAAAAAACGCCGCTAATTCTCGATATA
TTGCGGCGTTTACAGGAAGCGCCA
Found at i:31484233 original size:13 final size:14
Alignment explanation
Indices: 31484201--31484230 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31484191 CTACTGTGTG
31484201 TTTTC-TTTACTTT
1 TTTTCTTTTACTTT
31484214 TTTTCTTTTACTTT
1 TTTTCTTTTACTTT
31484228 TTT
1 TTT
31484231 CTTGTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTTTACTTT
Found at i:31491662 original size:12 final size:12
Alignment explanation
Indices: 31491645--31491673 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31491635 CAATATCACC
31491645 AATCAATTTCAT
1 AATCAATTTCAT
31491657 AATCAATTTCAT
1 AATCAATTTCAT
31491669 -ATCAA
1 AATCAA
31491674 AGCATACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (12 bp):
AATCAATTTCAT
Found at i:31494105 original size:17 final size:18
Alignment explanation
Indices: 31494069--31494105 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
31494059 AATCTCTCAA
31494069 ATTTTAGTTCTTTATATT
1 ATTTTAGTTCTTTATATT
31494087 ATTTTA-TT-TTTACTATT
1 ATTTTAGTTCTTTA-TATT
31494104 AT
1 AT
31494106 AAAAACCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTAGTTCTTTATATT
Found at i:31500580 original size:26 final size:27
Alignment explanation
Indices: 31500508--31500580 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 27
31500498 AATGTTATTA
* *
31500508 AATTATATATTATTTTTTATTAAAGTAT
1 AATTA-ATATTATTTATTATTAAAATAT
* * **
31500536 ATTTAATAATAACTA-TATTAAAATAT
1 AATTAATATTATTTATTATTAAAATAT
31500562 AATTAA-ATTATTTATTATT
1 AATTAATATTATTTATTATT
31500581 TATTATTTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
25 5 0.15
26 19 0.56
27 6 0.18
28 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (27 bp):
AATTAATATTATTTATTATTAAAATAT
Found at i:31500599 original size:14 final size:14
Alignment explanation
Indices: 31500563--31500605 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
31500553 TTAAAATATA
31500563 ATTAAATTATTTATT
1 ATTAAATTATTT-TT
*
31500578 ATT-TATTATTTTT
1 ATTAAATTATTTTT
*
31500591 ATTAAATTATATTT
1 ATTAAATTATTTTT
31500605 A
1 A
31500606 ATAGTAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 16 0.67
15 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTAAATTATTTTT
Found at i:31500779 original size:32 final size:32
Alignment explanation
Indices: 31500742--31500838 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
31500732 CATTCCATTC
31500742 AACCAAACAATTAAATTACTGATTACAGCTCT
1 AACCAAACAATTAAATTACTGATTACAGCTCT
31500774 AACCAAACAATTAAATTACTGATTACAGCTCT
1 AACCAAACAATTAAATTACTGATTACAGCTCT
31500806 AACCAAACAATTAAATTACTGATTACAGCTCT
1 AACCAAACAATTAAATTACTGATTACAGCTCT
31500838 A
1 A
31500839 TTTAATTACA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (32 bp):
AACCAAACAATTAAATTACTGATTACAGCTCT
Found at i:31504204 original size:47 final size:47
Alignment explanation
Indices: 31504129--31504304 Score: 133
Period size: 47 Copynumber: 3.7 Consensus size: 47
31504119 GGTAAGGTGC
* ** * *
31504129 CGATGCTATGTCCTGGACATAGTTTTACACTGGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGT
* * * * *
31504176 CGATGCCATATCCCAGACATGGTCTTACACTGACT-ATCATTATTGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CA-T-CTCAAGT
* * * * * * * *
31504225 CGATG-CGTGTCCCAGACA-CGTCTTACTCTAGCACTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GT
31504271 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
31504305 CCTCATAATG
Statistics
Matches: 95, Mismatches: 27, Indels: 13
0.70 0.20 0.10
Matches are distributed among these distances:
45 2 0.02
46 8 0.08
47 53 0.56
48 23 0.24
49 9 0.09
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGT
Found at i:31504731 original size:30 final size:30
Alignment explanation
Indices: 31504690--31504747 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31504680 AATTTCACAT
* * *
31504690 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
31504720 CTTTGGCAAAATAACTATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
31504748 TGATCGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:31504904 original size:25 final size:25
Alignment explanation
Indices: 31504876--31504925 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
31504866 TTATGCAAAA
31504876 TAGTCCTTTTAGGTGTTTTCATGCT
1 TAGTCCTTTTAGGTGTTTTCATGCT
31504901 TAGTCCTTTTAGGTGTTTTCATGCT
1 TAGTCCTTTTAGGTGTTTTCATGCT
31504926 AACACCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.52
Consensus pattern (25 bp):
TAGTCCTTTTAGGTGTTTTCATGCT
Found at i:31504933 original size:25 final size:25
Alignment explanation
Indices: 31504880--31504934 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
31504870 GCAAAATAGT
* **
31504880 CCTTTTAGGTGTTTTCATGCTTAGT
1 CCTTTTAGGTGTTTTCATGCTAACA
31504905 CCTTTTAGGTGTTTTCATGCTAACA
1 CCTTTTAGGTGTTTTCATGCTAACA
31504930 CCTTT
1 CCTTT
31504935 CACAAAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (25 bp):
CCTTTTAGGTGTTTTCATGCTAACA
Found at i:31507006 original size:24 final size:24
Alignment explanation
Indices: 31506978--31507025 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31506968 TTTTTAGAAG
* * *
31506978 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATCTATTAGCATAATAT
31507002 ATTTAGCATCTATTAGCATAATAT
1 ATTTAGCATCTATTAGCATAATAT
31507026 TTGGTATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAGCATCTATTAGCATAATAT
Found at i:31515666 original size:56 final size:54
Alignment explanation
Indices: 31515553--31515706 Score: 211
Period size: 56 Copynumber: 2.8 Consensus size: 54
31515543 GACATAGCAC
* * *
31515553 GCCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCACATTACCAT
1 GCCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTACCACATTACCAT
*
31515609 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-CAT
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCAC---ATTACCAT
*
31515665 GCCTCTCAACAGGGCTACACAAGCTCCCGGACCTAGCATGTA
1 GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
31515707 TCATGTCATC
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
54 21 0.24
56 64 0.72
57 4 0.04
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (54 bp):
GCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATTACCAT
Found at i:31521118 original size:40 final size:40
Alignment explanation
Indices: 31521063--31521173 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
31521053 TACGCCAAAC
31521063 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
1 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
* * * *
31521103 ATGAGTAAGACCATAACTGAAATATATTATGGCATCATAA
1 ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
* ** *
31521143 ATGAGTAAGACCTTAGTTAAAAGACGTTATG
1 ATGAGTAAGACCATAACTAAAAGATGTTATG
31521174 ACATCATGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (40 bp):
ATGAGTAAGACCATAACTAAAAGATGTTATGGAATCATAA
Found at i:31523751 original size:20 final size:19
Alignment explanation
Indices: 31523728--31523792 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
31523718 AAGCTCAAAC
31523728 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
31523748 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
31523768 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
31523788 GAGCT
1 GAGCT
31523793 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:31524354 original size:26 final size:25
Alignment explanation
Indices: 31524325--31524378 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
31524315 CAACAAAACT
* * *
31524325 AAAATCTAACCTATAAA-GAAAAGA
1 AAAAACTAAACTAAAAATGAAAAGA
31524349 GAAAAACTAAACTAAAAATGAAAAGA
1 -AAAAACTAAACTAAAAATGAAAAGA
31524375 AAAA
1 AAAA
31524379 GAAAAGGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (25 bp):
AAAAACTAAACTAAAAATGAAAAGA
Found at i:31528420 original size:40 final size:40
Alignment explanation
Indices: 31528365--31528522 Score: 208
Period size: 40 Copynumber: 4.0 Consensus size: 40
31528355 TATGCCAAAT
* * * * *
31528365 ATGAGTAAGAACATAGCTGAAAGTTTTTATAGCGTCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
*
31528405 ATGAGTAAGGCCATAGCTGAAAGATCTTATGGCATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
*
31528445 ATGAGTAAAACCATAGCTGAAAGATCTTATGGCATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
* * * * *
31528485 ACGGGTAAGACCATAGTTGAAAGATGTTATGGTATCAT
1 ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCAT
31528523 GATAGAAGTG
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (40 bp):
ATGAGTAAGACCATAGCTGAAAGATCTTATGGCATCATAA
Found at i:31528701 original size:26 final size:27
Alignment explanation
Indices: 31528659--31528730 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
31528649 CTGTTGGGAC
* *
31528659 AATAAACATGAGATAGTTTATCAGGA-A
1 AATAAA-ATGAGATAGTCTACCAGGATA
*
31528686 AATAAAATGGGATAGTCTACCAGGATA
1 AATAAAATGAGATAGTCTACCAGGATA
* **
31528713 ATTAAAACAAGATAGTCT
1 AATAAAATGAGATAGTCT
31528731 GTTAGGACAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (27 bp):
AATAAAATGAGATAGTCTACCAGGATA
Found at i:31532196 original size:17 final size:16
Alignment explanation
Indices: 31532164--31532205 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
31532154 CCCCAAAAAA
31532164 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
*
31532180 TTATTTCTTTTCGTATT
1 TTATTT-TTTTCATATT
31532197 TTATTTTTT
1 TTATTTTTT
31532206 CATTAAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:31532647 original size:10 final size:10
Alignment explanation
Indices: 31532628--31532661 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
31532618 AAAAAATTAC
31532628 CCTT-TTTTT
1 CCTTCTTTTT
31532637 CCTTCTTTTT
1 CCTTCTTTTT
*
31532647 CTTTCTTTTT
1 CCTTCTTTTT
31532657 CCTTC
1 CCTTC
31532662 CCTCCCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CCTTCTTTTT
Done.