Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 3 of 172
Found at i:628470 original size:47 final size:47
Alignment explanation
Indices: 628324--628482 Score: 191
Period size: 47 Copynumber: 3.4 Consensus size: 47
628314 TCCGAACTCA
628324 TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCCAGCTCG
1 TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCCAGCTCG
*** * * * * *
628371 TTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAACTCA
1 TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCCAGCTCG
628417 TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCCAGCTCG
1 TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCCAGCTCG
628464 TTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTC
628483 ACTTATGGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 30 0.34
47 49 0.55
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
TTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCCAGCTCG
Found at i:645591 original size:93 final size:93
Alignment explanation
Indices: 645485--645935 Score: 877
Period size: 93 Copynumber: 4.8 Consensus size: 93
645475 CGCCCATAAG
*
645485 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
645549 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
645578 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
645643 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
645671 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
645736 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
645764 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
645829 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
645857 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
645922 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
645936 TCAACCATCC
Statistics
Matches: 356, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 2 0.01
93 354 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:653443 original size:93 final size:93
Alignment explanation
Indices: 653331--653780 Score: 857
Period size: 93 Copynumber: 4.8 Consensus size: 93
653321 GCCCATAAGC
* * *
653331 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
653395 ACGAGTTCGGATGCCTAGTTACTTCTCAT
65 ACGAGTTCGGATGCCTAGTTACTTCTCAT
653424 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
653489 CGAGTTCGGATGCCTAGTTACTTCTCAT
66 CGAGTTCGGATGCCTAGTTACTTCTCAT
653517 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
653582 CGAGTTCGGATGCCTAGTTACTTCTCAT
66 CGAGTTCGGATGCCTAGTTACTTCTCAT
653610 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
653675 CGAGTTCGGATGCCTAGTTACTTCTCAT
66 CGAGTTCGGATGCCTAGTTACTTCTCAT
653703 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
653768 CGAGTTCGGATGC
66 CGAGTTCGGATGC
653781 TCAACCATCC
Statistics
Matches: 353, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 2 0.01
93 351 0.99
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACTTCTCAT
Found at i:669281 original size:15 final size:15
Alignment explanation
Indices: 669261--669290 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
669251 CAACACTTGT
669261 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
669276 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
669291 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:676211 original size:40 final size:40
Alignment explanation
Indices: 676167--676319 Score: 211
Period size: 40 Copynumber: 3.9 Consensus size: 40
676157 TGATACTTGA
* *
676167 GGAATGTTATCCGAGCTTAAAGACCCACAGGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
*
676207 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
676247 GGAATGTTATCCGGGCTTAAAGACTCGCAGGCT-TCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
* * *
676287 AGAATGCTATCCGGGC-TAGAGACCCGCAGGCTA
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
676320 CGAGCTGGTA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.15
40 86 0.85
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
Found at i:680184 original size:93 final size:93
Alignment explanation
Indices: 680070--680240 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
680060 GCCCATAAGT
* * *
680070 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAAGTCGGACTCAACTCA
1 GAACTCGGACTCAACTAAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
680134 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
680163 GAACTCGGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
680228 CGAGTTCGGATGC
66 CGAGCTCGGATGC
680241 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:680232 original size:46 final size:46
Alignment explanation
Indices: 680062--680237 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
680052 TGTAACCCGC
*
680062 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
680108 CCATAAGTGAAGTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
680158 -C-TCA-CGAACTCGGACTCAACTAAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
680201 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
680238 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 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 0.56
47 26 0.24
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:691239 original size:79 final size:78
Alignment explanation
Indices: 691137--691359 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
691127 GCTCCTCGTT
* *
691137 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
691202 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
691217 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
691281 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
691295 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
691358 GA
63 GA
691360 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:691254 original size:39 final size:40
Alignment explanation
Indices: 691137--691359 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
691127 GCTCCTCGTT
* *
691137 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
691177 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
691217 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
691256 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
691295 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
691336 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
691360 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:699271 original size:79 final size:82
Alignment explanation
Indices: 699160--699344 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
699150 GCTACTCGTT
* *
699160 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
699223 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
699240 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
699303 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
699320 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
699345 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:699344 original size:40 final size:40
Alignment explanation
Indices: 699141--699344 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
699131 CGGAATTTAA
** *
699141 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
699181 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
699221 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
699260 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
699300 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
699340 CCGGA
1 CCGGA
699345 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:707272 original size:41 final size:40
Alignment explanation
Indices: 707145--707289 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
707135 CTCGCACAAG
* * * * * *
707145 GCCTTCGGGTCTTAACCCGAATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
707185 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
707225 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
707266 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
707290 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:711536 original size:40 final size:39
Alignment explanation
Indices: 711499--711590 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
711489 GCTACTCGTT
*
711499 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
711539 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
711578 CAAATGCCTTCGG
1 CAAATGCCTTCGG
711591 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:711570 original size:39 final size:40
Alignment explanation
Indices: 711480--711643 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
711470 CGGAATTTAA
** *
711480 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
711520 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
711559 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
711599 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
711639 CCGGA
1 CCGGA
711644 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:717361 original size:39 final size:40
Alignment explanation
Indices: 717243--717427 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
717233 GCTACTCGTT
* *
717243 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTATCTCGCA
*
717283 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ATCTCGCA
* *
717323 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * * *
717362 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
717403 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
717428 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 4 0.03
39 30 0.25
40 73 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:717411 original size:79 final size:81
Alignment explanation
Indices: 717243--717427 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
717233 GCTACTCGTT
* *
717243 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
717307 GATTTAGTAATTCGCAC
65 GATATAGTAATTAGCAC
* * ** *
717324 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
717386 GATATGGTCACTTAGCA-
65 GATATAGT-AATTAGCAC
717403 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
717428 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAATTAGCAC
Found at i:718658 original size:56 final size:56
Alignment explanation
Indices: 718597--718772 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
718587 TATTAGTTTA
* *
718597 TTGCCCATGTTTCTTATTATATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
718653 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
718709 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
718765 TTGCCCAT
1 TTGCCCAT
718773 CATCCCTTGT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:720159 original size:49 final size:49
Alignment explanation
Indices: 720104--720200 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
720094 CGATTTGAGG
720104 TCTAGTTACTACCAGTTAAGAGTTAAGGAGTCGGATGTGCCAAAAACCC
1 TCTAGTTACTACCAGTTAAGAGTTAAGGAGTCGGATGTGCCAAAAACCC
*
720153 TCTAGTTACTACCAGTTAAGAGTTAAGGAGTCGGATGTGCCGAAAACC
1 TCTAGTTACTACCAGTTAAGAGTTAAGGAGTCGGATGTGCCAAAAACC
720201 ACCTTTAGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (49 bp):
TCTAGTTACTACCAGTTAAGAGTTAAGGAGTCGGATGTGCCAAAAACCC
Found at i:723490 original size:68 final size:68
Alignment explanation
Indices: 723381--723532 Score: 304
Period size: 68 Copynumber: 2.2 Consensus size: 68
723371 AGAGGGAGCA
723381 TAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAAAAAGCTACGAGATACTATG
1 TAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAAAAAGCTACGAGATACTATG
723446 TAG
66 TAG
723449 TAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAAAAAGCTACGAGATACTATG
1 TAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAAAAAGCTACGAGATACTATG
723514 TAG
66 TAG
723517 TAGCTAGGTCACATGT
1 TAGCTAGGTCACATGT
723533 GTGATACAGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (68 bp):
TAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAAAAAGCTACGAGATACTATG
TAG
Found at i:723569 original size:68 final size:68
Alignment explanation
Indices: 723381--723645 Score: 184
Period size: 68 Copynumber: 3.9 Consensus size: 68
723371 AGAGGGAGCA
* * * * * * *
723381 TAGCTAGGTCACATGTATGGTGC-TGAGTGCACATCATGT-GTACAAAAAAGCTACGAGATACTA
1 TAGCTAGGTCACATGTGTGATACAGGA-TGCACACCATGTAG-ACAAGAGAGCTACGAGATACTA
723444 TGTAG
64 TGTAG
* * * * * * *
723449 TAGCTAGGTCACATGTATGGTGC-TGAGTGCACATCATGT-GTACAAAAAAGCTACGAGATACTA
1 TAGCTAGGTCACATGTGTGATACAGGA-TGCACACCATGTAG-ACAAGAGAGCTACGAGATACTA
723512 TGTAG
64 TGTAG
* *
723517 TAGCTAGGTCACATGTGTGATACAGGATGTATC-CCATGTAGACAAGAGAGCTACGTGAGAGA-T
1 TAGCTAGGTCACATGTGTGATACAGGATGCA-CACCATGTAGACAAGAGAGCTAC--GAGATACT
**
723580 AAAT-G
63 ATGTAG
* * * * *
723585 TAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TAGCTAGGTCACATGTGTGA-TAC-AG-GATGCACACCATGTAGACAAGAGAGCTACGAGA
723646 CAAATCGGCT
Statistics
Matches: 172, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
68 126 0.73
69 13 0.08
70 8 0.05
71 25 0.15
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (68 bp):
TAGCTAGGTCACATGTGTGATACAGGATGCACACCATGTAGACAAGAGAGCTACGAGATACTATG
TAG
Found at i:726194 original size:16 final size:16
Alignment explanation
Indices: 726175--726206 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
726165 AATTGTTTTA
726175 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
726191 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
726207 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:726471 original size:50 final size:50
Alignment explanation
Indices: 726415--726797 Score: 294
Period size: 50 Copynumber: 7.6 Consensus size: 50
726405 CTTTGGTATG
*
726415 CATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACA
** * * * *
726465 TGTAGTAGCCTGCACTTAGTACT--ACATACGTGACTTATCCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATAC--GACCTAACAATCTGGTACA
* *** * * * *
726515 CATAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGTTAA-C-GAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAA--CAATCTG-GTACA
** * *
726566 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACA
* * *** ** *
726616 CGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAACTATC-GAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATACGA-CCTAACAATCTG-GTACA
* * * *
726667 CATAGTAGCTTGCACTTAGTACTGCACATGCGACCTAACAATTTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACA
* * * *
726717 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAA-AA-CTGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTG--GT--ACA
*
726769 CATAGTAGCCTGCACATAGTACTACACAT
1 CATAGTAGCCTGCACTTAGTACTACACAT
726798 GTGTTCTCAC
Statistics
Matches: 262, Mismatches: 55, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
48 8 0.03
49 3 0.01
50 140 0.53
51 78 0.30
52 33 0.13
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACA
Found at i:726599 original size:101 final size:101
Alignment explanation
Indices: 726467--726800 Score: 418
Period size: 101 Copynumber: 3.3 Consensus size: 101
726457 CTGGTACATG
* * * * *
726467 TAGTAGCCTGCACTTAGTACTACATACGTGACTTATCCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * ** *
726532 GGTACTACACACGTGATCGAAGTTAACGAGTACGCA
66 AGTACTACACACGTGATCAAAACTAACGAGTACACA
*
726568 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
726633 AGTACTACACACGTGATCAAAACTATCGAGTACACA
66 AGTACTACACACGTGATCAAAACTAACGAGTACACA
* * * * * *
726669 TAGTAGCTTGCACTTAGTACTGCACATGCGACCTAACAATTTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * ** * *
726734 AGTACTACACACATGACCTAAAACTGTCTTA-AACACA
66 AGTACTACACACGTGATC-AAAACTAAC-GAGTACACA
*
726771 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
726801 TTCTCACAAC
Statistics
Matches: 203, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
101 163 0.80
102 39 0.19
103 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAACTAACGAGTACACA
Found at i:726723 original size:151 final size:150
Alignment explanation
Indices: 726415--726796 Score: 412
Period size: 151 Copynumber: 2.5 Consensus size: 150
726405 CTTTGGTATG
* * * *
726415 CATAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCTGGTACATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
* ** * *
726480 TTAGTACTACATACGTGACTTATCCATCTGATACACATAGTAGCCTGCACTTGGTACTACACACG
66 TTAGTACTACACACGTGACAAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
* * * * *
726545 TGATCGAAGTTAACGAGTACG
131 CGACCAAAATT-ACGAGTACA
* * *
726566 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
* * *
726631 TTAGTACTACACACGTGATCAAAACTATC-GAGTACACATAGTAGCTTGCACTTAGTACTGCACA
66 TTAGTACTACACACGTGA-CAAAACCATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACA
* *
726695 TGCGACCTAACAATT-TG-GTACA
129 CGCGACC-AA-AATTACGAGTACA
* * * * *
726717 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAA-AACTGTCTTAAACACATAGTAGCCTG
1 CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAA---TCTGATACACGTAGTAGCCTG
*
726781 CACATAGTACTACACA
63 CACTTAGTACTACACA
726797 TGTGTTCTCA
Statistics
Matches: 193, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
150 1 0.01
151 116 0.60
152 40 0.21
153 33 0.17
154 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (150 bp):
CATAGTAGCCTGCACTTAGTACTACACATATGACCTAACAATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGACAAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
CGACCAAAATTACGAGTACA
Found at i:727182 original size:19 final size:20
Alignment explanation
Indices: 727152--727198 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
727142 AAGAACATGT
727152 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
727173 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
727192 TATATAT
1 TATATAT
727199 GCTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:729607 original size:117 final size:117
Alignment explanation
Indices: 729401--729633 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 117
729391 ATTTGCATTG
*
729401 AGAGCATTGGACGCCCATTTGGCCTTGTTAGATGATGGTTTGGTTTTAGTAGAGTTGAGAGCTAG
1 AGAGCATTGGACGCCCATTTGGCCTTGTTAGATGATGGTTCGGTTTTAGTAGAGTTGAGAGCTAG
729466 GCCGATGTTTCTATAAGAGATCAGTAAAGCTCAGAAAGGTAATAAGGAATTA
66 GCCGATGTTTCTATAAGAGATCAGTAAAGCTCAGAAAGGTAATAAGGAATTA
729518 AGAGCATTGGACGCCCATTTGGCCTTGTTAGATGATGGTTCGGTTTTAGTAGAGTTGAGAGCTAG
1 AGAGCATTGGACGCCCATTTGGCCTTGTTAGATGATGGTTCGGTTTTAGTAGAGTTGAGAGCTAG
729583 GCCGATGTTTCTATAAGAGATCAGTAAAGCTCAGAAAGGTAATAAGGAATT
66 GCCGATGTTTCTATAAGAGATCAGTAAAGCTCAGAAAGGTAATAAGGAATT
729634 GCAATCCAAG
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (117 bp):
AGAGCATTGGACGCCCATTTGGCCTTGTTAGATGATGGTTCGGTTTTAGTAGAGTTGAGAGCTAG
GCCGATGTTTCTATAAGAGATCAGTAAAGCTCAGAAAGGTAATAAGGAATTA
Found at i:732449 original size:46 final size:46
Alignment explanation
Indices: 732354--732475 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
732344 GACAAGTGCT
* * *
732354 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAAACGTAAGCC
* *
732400 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAAATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAAACGTA-AGCC
*
732446 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
732476 GACTTGGGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 3 0.05
46 45 0.68
47 13 0.20
48 5 0.08
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAAACGTAAGCC
Found at i:733701 original size:22 final size:21
Alignment explanation
Indices: 733667--733707 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
733657 TCGATTTGGT
*
733667 CACACGGGCGTGTTGCCCCTCC
1 CACACAGGCGTG-TGCCCCTCC
*
733689 CACACAGGTGTGTGCCCCT
1 CACACAGGCGTGTGCCCCT
733708 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.41, G:0.27, T:0.20
Consensus pattern (21 bp):
CACACAGGCGTGTGCCCCTCC
Found at i:739843 original size:66 final size:65
Alignment explanation
Indices: 739737--739868 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 65
739727 TAATACAAGC
739737 CTATGAGGCCCTAAACATGCTTTAAGAGCGGGTTGGGACTAAACTGATAACTCATAAAACTTCCA
1 CTATGAGGCCCTAAACATGCTTTAAGAGCGGGTTGGGACTAAACTGATAACTCATAAAACTTCCA
*
739802 NCTATGAGGCCCTAAACATGCTTTAAGAGCGGTTTGGGACTAAACTGATAACTCATAAAACTTCC
1 -CTATGAGGCCCTAAACATGCTTTAAGAGCGGGTTGGGACTAAACTGATAACTCATAAAACTTCC
739867 A
65 A
739868 C
1 C
739869 AAAACTTTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 1 0.02
66 64 0.98
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (65 bp):
CTATGAGGCCCTAAACATGCTTTAAGAGCGGGTTGGGACTAAACTGATAACTCATAAAACTTCCA
Found at i:742849 original size:46 final size:46
Alignment explanation
Indices: 742762--742932 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
742752 TATAAGAGCC
** * *
742762 AGTGTAAGATTATGTCTAGGACATGGCATCGGCATCGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGACGA-TGCT
*
742810 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGACG-ATGCT
* * *
742856 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAAATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGACGAT-GCT
742901 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -AGTGTAAGACCATGTCTGGGACATGGCATCG
742933 ACTTGGGATA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
45 5 0.05
46 61 0.56
47 27 0.25
48 15 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGACGATGCT
Found at i:755352 original size:27 final size:27
Alignment explanation
Indices: 755316--755389 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
755306 GTCATACATA
*
755316 TCATAGGGGTATATCAGTCAATTTACC
1 TCATAGGGGTATAACAGTCAATTTACC
*
755343 TCATAAGGGTATAACAGTCAATTTACC
1 TCATAGGGGTATAACAGTCAATTTACC
755370 TCATAGGGGTATAACAGTCA
1 TCATAGGGGTATAACAGTCA
755390 TTTCATCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCAATTTACC
Found at i:755406 original size:27 final size:27
Alignment explanation
Indices: 755315--755397 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
755305 AGTCATACAT
*
755315 ATCATAGGGGTATATCAGTCAATTTAC
1 ATCATAGGGGTATAACAGTCAATTTAC
* *
755342 CTCATAAGGGTATAACAGTCAATTTAC
1 ATCATAGGGGTATAACAGTCAATTTAC
*
755369 CTCATAGGGGTATAACAGTC-ATTT-C
1 ATCATAGGGGTATAACAGTCAATTTAC
755394 ATCA
1 ATCA
755398 AATTGGGGTC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 43 0.84
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCATAGGGGTATAACAGTCAATTTAC
Found at i:757286 original size:96 final size:96
Alignment explanation
Indices: 757122--757313 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
757112 AATAGAGACT
757122 ATTTTGCATGAGTTGTAAAATAGATGATAAATGTGTGAAATAGTGGAAATTTTGGATTACTATAA
1 ATTTTGCATGAGTTGTAAAATAGATGATAAATGTGTGAAATAGTGGAAATTTTGGATTACTATAA
757187 GAGTAAAAAGGGTTCGGGTAGGCTTATAATC
66 GAGTAAAAAGGGTTCGGGTAGGCTTATAATC
757218 ATTTTGCATGAGTTGTAAAATAGATGATAAATGTGTGAAATAGTGGAAATTTTGGATTACTATAA
1 ATTTTGCATGAGTTGTAAAATAGATGATAAATGTGTGAAATAGTGGAAATTTTGGATTACTATAA
757283 GAGTAAAAAGGGTTCGGGTAGGCTTATAATC
66 GAGTAAAAAGGGTTCGGGTAGGCTTATAATC
757314 TGAAGAAATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.33
Consensus pattern (96 bp):
ATTTTGCATGAGTTGTAAAATAGATGATAAATGTGTGAAATAGTGGAAATTTTGGATTACTATAA
GAGTAAAAAGGGTTCGGGTAGGCTTATAATC
Found at i:762937 original size:55 final size:53
Alignment explanation
Indices: 762807--762939 Score: 142
Period size: 55 Copynumber: 2.5 Consensus size: 53
762797 AGGATACCAA
* * **
762807 GTAAGACAATGCCAAGGCATGGCATTGGTAAGTTTTATAAGGCAAGGAAATCAT
1 GTAAGACAATGCCAAGGCATGGCATTGATAACTACTATAAGGCAA-GAAATCAT
* * *
762861 GTAAGACAATGTCAAGACATGGCATTGATAAACTACTATAAGGCAA-ATATCCCAT
1 GTAAGACAATGCCAAGGCATGGCATTGAT-AACTACTATAAGGCAAGAAAT--CAT
* *
762916 GTAAGACCATCCCAAGGCATGGCA
1 GTAAGACAATGCCAAGGCATGGCA
762940 ATGGTGAGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 3 0.05
54 26 0.40
55 36 0.55
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (53 bp):
GTAAGACAATGCCAAGGCATGGCATTGATAACTACTATAAGGCAAGAAATCAT
Found at i:779184 original size:40 final size:40
Alignment explanation
Indices: 779140--779363 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
779130 AAGTGAATAT
* * * * **
779140 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
779180 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
779220 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
779260 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
779300 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
779339 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
779364 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:779238 original size:80 final size:80
Alignment explanation
Indices: 779101--779363 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
779091 TTGAATGCTG
* * * * *
779101 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
779163 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
779181 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
779246 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
779261 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
779325 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
779340 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
779364 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:779315 original size:120 final size:120
Alignment explanation
Indices: 779101--779363 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
779091 TTGAATGCTG
* * *
779101 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
779165 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
779221 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
779283 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
779340 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
779364 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:781648 original size:15 final size:15
Alignment explanation
Indices: 781628--781658 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
781618 GAATGTGAGC
*
781628 AAATTAATTTTTTTT
1 AAATTAATTATTTTT
781643 AAATTAATTATTTTT
1 AAATTAATTATTTTT
781658 A
1 A
781659 TGCCCCGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
AAATTAATTATTTTT
Found at i:785038 original size:43 final size:42
Alignment explanation
Indices: 784937--785081 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
784927 CTTAGATATG
* * *
784937 GTCTTACATGTTATCACATACCGATGCCACTGTCCCAGACAGT
1 GTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACA-T
* * * * *
784980 GTCTCACACGAAATCATATAACGGTGCCAATGTCCCAGACAT
1 GTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAT
* * *
785022 GATCTTACAAGTAATCACA-ATACAATGCTAATGTCCCAGACAT
1 G-TCTTACATGTAATCACATA-ACGATGCCAATGTCCCAGACAT
785065 GGTCTTACATGTAATCA
1 -GTCTTACATGTAATCA
785082 TATCTCGATA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.04
43 79 0.95
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
GTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAT
Found at i:786850 original size:29 final size:29
Alignment explanation
Indices: 786804--786872 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
786794 CACATGGTTT
* *
786804 GGCACATGGGCGTTTATGGCCATTTTTAG
1 GGCACACGGGCGTGTATGGCCATTTTTAG
786833 GGCACACGGGCGTGTATGGCCATTTTTAG
1 GGCACACGGGCGTGTATGGCCATTTTTAG
786862 GGCACACGGGC
1 GGCACACGGGC
786873 TAGCCACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.35, T:0.26
Consensus pattern (29 bp):
GGCACACGGGCGTGTATGGCCATTTTTAG
Found at i:788904 original size:28 final size:28
Alignment explanation
Indices: 788872--788936 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
788862 ATTTACTAGA
*
788872 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
788900 ATACCTCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
788928 ATACCCCTA
1 ATACCCCTA
788937 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:789099 original size:27 final size:27
Alignment explanation
Indices: 789041--789130 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
789031 AGGAAGCGTC
789041 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
789069 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
789096 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
789125 CTGGTG
1 CTGGTG
789131 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:789149 original size:55 final size:56
Alignment explanation
Indices: 789041--789155 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
789031 AGGAAGCGTC
* *
789041 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
789096 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
789152 CTGG
1 CTGG
789156 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:789618 original size:19 final size:19
Alignment explanation
Indices: 789594--789632 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
789584 TTTTAATTAT
* *
789594 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
789613 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
789632 T
1 T
789633 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:790244 original size:11 final size:10
Alignment explanation
Indices: 790216--790249 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
790206 AGCCTGTAAG
790216 TATTCTGAAT
1 TATTCTGAAT
*
790226 TTTTCTGAAT
1 TATTCTGAAT
790236 ATATTCTGAAT
1 -TATTCTGAAT
790247 TAT
1 TAT
790250 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:795564 original size:28 final size:28
Alignment explanation
Indices: 795532--795596 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
795522 ATTTACTAGA
* *
795532 ATACCCCTATGTATTCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
795560 ATACCTCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
795588 ATACCCCTA
1 ATACCCCTA
795597 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:795760 original size:27 final size:27
Alignment explanation
Indices: 795702--795783 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 27
795692 AGGAAGCGTC
795702 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
795730 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
795757 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
795784 ATCAGGTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:795810 original size:55 final size:56
Alignment explanation
Indices: 795702--795816 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
795692 AGGAAGCGTC
* * * *
795702 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCAGGTGACCCTACCACATATATCTGTAT
* * *
795757 CTGGTGGC-ACTGCCACAAAATATCTGTATCAGGTGACTCTATCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCAGGTGACCCTACCACATATATCTGTAT
795813 CTGG
1 CTGG
795817 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCAGGTGACCCTACCACATATATCTGTAT
Found at i:797196 original size:20 final size:20
Alignment explanation
Indices: 797160--797197 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
797150 AAATTTATGT
*
797160 TAAGTAAATGGACTGGTAAG
1 TAAGTAAATGGAATGGTAAG
797180 TAAGTAAA-GGAAATGGTA
1 TAAGTAAATGG-AATGGTA
797198 CACAGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:798379 original size:20 final size:20
Alignment explanation
Indices: 798345--798385 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
798335 CCCTGCAATT
*
798345 TGAAAAATTTCATATTTTTC
1 TGAAAAATTTCATATGTTTC
798365 TGAAAAA-TTCTATATGTTTC
1 TGAAAAATTTC-ATATGTTTC
798385 T
1 T
798386 AACTTAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TGAAAAATTTCATATGTTTC
Found at i:800317 original size:48 final size:48
Alignment explanation
Indices: 800241--800514 Score: 261
Period size: 48 Copynumber: 5.7 Consensus size: 48
800231 GGTGACATGT
**
800241 GAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTAATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAATGTAATGA
* *
800289 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAATGTAATGA
* * * * * * * *
800337 GAGTCAGTGCAAGGCCATGTCTGGGACATGGTATCGGCATTG-ATATGT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAATGTA-ATGA
* * *
800385 GCGCTAGTGTAAGACCAT-TTCTGGGACATGGCATCAGCCACAT-T-ATGA
1 GAGCCAGTGTAAGACCATGTT-TGGGACATGGCATC-GACA-ATGTAATGA
* * * *
800433 GAGCCAGCGTAAGACCATGTATGGGACATGGCATCTACATTG-AGATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAATGTA-ATGA
* * * *
800481 GAGCTAGAGTAAGACCATGTCTAGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
800515 TGGCAAATTC
Statistics
Matches: 186, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
48 176 0.95
49 4 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACAATGTAATGA
Found at i:800499 original size:144 final size:144
Alignment explanation
Indices: 800237--800511 Score: 335
Period size: 144 Copynumber: 1.9 Consensus size: 144
800227 TTTGGGTGAC
*
800237 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTAATGAGAGCCAGCGTAAG
* * * * *
800302 ACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAGTCAGTGCAAGGCCATGTCTGGGACATG
66 ACCATGTATGGAACATGGCATCGACAATGTAATGAGAGTCAGAGCAAGACCATGTCTAGGACATG
800367 GTATCGGCATTGAT
131 GTATCGGCATTGAT
* * ** *
800381 ATGTGCGCTAGTGTAAGACCAT-TTCTGGGACATGGCATCAGCCACAT-T-ATGAGAGCCAGCGT
1 ATGTGAGCCAGTGTAAGACCATGTT-TGAAACATGGCATC-GACA-ATGTAATGAGAGCCAGCGT
* * * *
800443 AAGACCATGTATGGGACATGGCATCTACATTG-AGATGAGAG-CTAGAGTAAGACCATGTCTAGG
63 AAGACCATGTATGGAACATGGCATCGACAATGTA-ATGAGAGTC-AGAGCAAGACCATGTCTAGG
800506 ACATGG
126 ACATGG
800512 CATTGGCAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
143 4 0.04
144 101 0.91
145 4 0.04
146 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (144 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAATGTAATGAGAGCCAGCGTAAG
ACCATGTATGGAACATGGCATCGACAATGTAATGAGAGTCAGAGCAAGACCATGTCTAGGACATG
GTATCGGCATTGAT
Found at i:802009 original size:40 final size:40
Alignment explanation
Indices: 801954--802251 Score: 447
Period size: 40 Copynumber: 7.5 Consensus size: 40
801944 CGGATGATAA
* *
801954 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
801994 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
802034 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
802074 CCGGGCTAAGACCGGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
802114 CCGGGCTAAGACCGGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
802154 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
802194 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
802234 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
802252 TACTTGGTTT
Statistics
Matches: 240, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 16 0.07
40 223 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:806407 original size:34 final size:34
Alignment explanation
Indices: 806364--806431 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
806354 ATGGTGACAT
806364 TACTTATTTGGTGAGAAGTGCCATGTATTTTCGG
1 TACTTATTTGGTGAGAAGTGCCATGTATTTTCGG
806398 TACTTATTTGGTGAGAAGTGCCATGTATTTTCGG
1 TACTTATTTGGTGAGAAGTGCCATGTATTTTCGG
806432 ATCACAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (34 bp):
TACTTATTTGGTGAGAAGTGCCATGTATTTTCGG
Found at i:812487 original size:22 final size:23
Alignment explanation
Indices: 812457--812500 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
812447 TATTGATCAA
*
812457 ATCACAACATATAGCATACATTT
1 ATCACAACATAAAGCATACATTT
*
812480 ATCA-AACATAAAGCATTCATT
1 ATCACAACATAAAGCATACATT
812501 CTCATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (23 bp):
ATCACAACATAAAGCATACATTT
Found at i:813862 original size:48 final size:48
Alignment explanation
Indices: 813807--813939 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 48
813797 CTCAATCGAT
* *
813807 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGT-GACTTATCCT-CG
1 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAG-CTCA-CCTCCA
* * * *
813855 AAGTACCTATAACATGGCTCGTAGCCAAATCAAGGTAGCTCACCTCCA
1 AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAGCTCACCTCCA
* *
813903 AAATACCTATACCGTGGCCC-AAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGAAA-CCAAATCAAGGTA
813940 TAATTCACAC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
47 4 0.06
48 65 0.93
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.20
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAACCAAATCAAGGTAGCTCACCTCCA
Found at i:815890 original size:50 final size:50
Alignment explanation
Indices: 815826--815928 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
815816 TATTATTTTG
815826 TTGGAATTATATTGGGTTTCTCTCATTGTTTTGGGGTGCATTATTGGTAC
1 TTGGAATTATATTGGGTTTCTCTCATTGTTTTGGGGTGCATTATTGGTAC
815876 TTGGAATTATATTGGGTTTCTCTCATTGTTTTGGGGTGCATTATTGGTAC
1 TTGGAATTATATTGGGTTTCTCTCATTGTTTTGGGGTGCATTATTGGTAC
815926 TTG
1 TTG
815929 AGGCGTTGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.49
Consensus pattern (50 bp):
TTGGAATTATATTGGGTTTCTCTCATTGTTTTGGGGTGCATTATTGGTAC
Found at i:825255 original size:27 final size:27
Alignment explanation
Indices: 825224--825401 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
825214 TAAATTGTAC
*
825224 AGCACTAAGTGTGCGATTTGACTTTGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
825251 TGCACTAAGTGTGCAAATTGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
825277 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
825305 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
825333 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
825360 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
825387 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
825402 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:825341 original size:82 final size:81
Alignment explanation
Indices: 825225--825380 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
825215 AAATTGTACA
* * *
825225 GCACTAAGTGTGCGATTTGACTTTGTTGCACTAAGTGTGCAAATTGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGTA-GCACTAAGTG
825289 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * *
825306 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGTAGCACTAAGTG
*
825371 TGCGAGTTGA
65 TGCGAATTGA
825381 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:825392 original size:82 final size:81
Alignment explanation
Indices: 825221--825401 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
825211 GATTAAATTG
* * *
825221 TACAGCACTAAGTGTGCGATTTGACTTTGTTGCACTAAGTGTGCAAATTGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGATGCACTAA
825286 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
825302 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGAT-GCACT
* **
825366 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
825384 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
825402 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAATTGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:827821 original size:22 final size:22
Alignment explanation
Indices: 827793--827838 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
827783 CTCGAGTTCC
*
827793 CTACACTGGTTGCAGAAGTATT
1 CTACACTGGCTGCAGAAGTATT
827815 CTACACTGGCTGCAGAAGTATT
1 CTACACTGGCTGCAGAAGTATT
827837 CT
1 CT
827839 GAGATTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
CTACACTGGCTGCAGAAGTATT
Found at i:829996 original size:19 final size:20
Alignment explanation
Indices: 829972--830009 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
829962 GGTACCACCA
829972 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
829991 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
830010 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:830301 original size:46 final size:46
Alignment explanation
Indices: 830234--830452 Score: 300
Period size: 46 Copynumber: 4.7 Consensus size: 46
830224 AACCCGCCCC
* * * *
830234 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
830280 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
830328 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
830373 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
830419 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
830453 TGCTCAACCA
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 2 0.01
46 105 0.69
47 29 0.19
48 2 0.01
49 2 0.01
50 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:830346 original size:93 final size:93
Alignment explanation
Indices: 830238--830406 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
830228 CGCCCCTAAG
* * * *
830238 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
830303 ACGAGTTCGGATGCCGAGTTACATCTCA
66 ACGAGTTCGGATGCCGAGTTACATCTCA
* *
830331 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGAACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
830396 ACGAGTTCGGA
66 ACGAGTTCGGA
830407 CATTTGCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCGAGTTACATCTCA
Found at i:830909 original size:30 final size:30
Alignment explanation
Indices: 830875--830934 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
830865 ATTTAATACG
830875 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
830905 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
830935 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:834874 original size:50 final size:50
Alignment explanation
Indices: 834799--834903 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
834789 TCTGCTTCTG
834799 TGTTCATCCACACTCATTGGTATTATTTGGTATTATATTTGAGCGTTTTA
1 TGTTCATCCACACTCATTGGTATTATTTGGTATTATATTTGAGCGTTTTA
*
834849 TGTTCATCCACACTCATTGTTATTATTTGGTATTATATTTGAGCGTTTTA
1 TGTTCATCCACACTCATTGGTATTATTTGGTATTATATTTGAGCGTTTTA
834899 TGTTC
1 TGTTC
834904 TTTTTTTGTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (50 bp):
TGTTCATCCACACTCATTGGTATTATTTGGTATTATATTTGAGCGTTTTA
Found at i:835125 original size:17 final size:16
Alignment explanation
Indices: 835101--835138 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
835091 AAAAAGTCAT
835101 AAAAAAG-AAAATACAA
1 AAAAAAGAAAAATA-AA
835117 AAAAGAAGAAAAATAAA
1 AAAA-AAGAAAAATAAA
835134 AAAAA
1 AAAAA
835139 TATTCTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAAATAAA
Found at i:836485 original size:22 final size:22
Alignment explanation
Indices: 836459--836503 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
836449 AGATCATTAC
836459 AAATAT-AATCTCATACATATCA
1 AAATATCAATCTCA-ACATATCA
836481 AAATATCAATCTCAACATATCA
1 AAATATCAATCTCAACATATCA
836503 A
1 A
836504 TCATCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCTCAACATATCA
Found at i:847000 original size:40 final size:40
Alignment explanation
Indices: 846930--847107 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
846920 AAACCAAGTA
* *
846930 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
846969 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
847009 CCTTCGGGACCTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
847049 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
847089 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
847108 TTATCATCCG
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 14 0.11
40 108 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:878200 original size:16 final size:16
Alignment explanation
Indices: 878181--878224 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
878171 ATTTTCACAA
*
878181 TCTATAGTTGTCTTAG
1 TCTATAGTTGTCATAG
* *
878197 TCTATATTTTTTCATAG
1 TCTATA-GTTGTCATAG
878214 TCTATAGTTGT
1 TCTATAGTTGT
878225 AACACTCCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.55
Consensus pattern (16 bp):
TCTATAGTTGTCATAG
Found at i:879670 original size:15 final size:17
Alignment explanation
Indices: 879650--879681 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
879640 GGTGGCATTT
879650 TTCTCTT-TTT-TTTTC
1 TTCTCTTCTTTCTTTTC
879665 TTCTCTTCTTTCTTTTC
1 TTCTCTTCTTTCTTTTC
879682 ACTTGTGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTCTTCTTTCTTTTC
Found at i:881009 original size:25 final size:25
Alignment explanation
Indices: 880981--881028 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
880971 TTATAATATG
* * *
880981 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
881006 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
881029 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:881099 original size:20 final size:20
Alignment explanation
Indices: 881056--881130 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
881046 ATACGTGGGA
881056 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
*
881073 ATATGATATGCACCTGATATG
1 -TATGATATGCACATGATATG
881094 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
881114 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
881131 GTAATCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.78
21 3 0.06
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:881251 original size:25 final size:26
Alignment explanation
Indices: 881180--881251 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
881170 GAGGAAGTGC
*
881180 AAAAGGGCTTATGCCCAAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
881206 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
881232 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
881252 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:883968 original size:22 final size:19
Alignment explanation
Indices: 883924--883961 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
883914 GGTTTATGCT
883924 ACACGACGTCGTGAGGAGG
1 ACACGACGTCGTGAGGAGG
*
883943 ACACGGCGTCGTGAGGAGG
1 ACACGACGTCGTGAGGAGG
883962 GTGACACTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.45, T:0.11
Consensus pattern (19 bp):
ACACGACGTCGTGAGGAGG
Found at i:889383 original size:20 final size:21
Alignment explanation
Indices: 889348--889404 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
889338 TGATACGTGG
889348 GATATGATAT--ACATGA-AT
1 GATATGATATGCACATGATAT
889366 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
889387 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
889405 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:889483 original size:26 final size:26
Alignment explanation
Indices: 889454--889551 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
889444 GAGGAAGTGA
*
889454 AAAAGGGCTTATCCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
889480 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
889506 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
889532 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
889552 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 10 0.15
26 56 0.85
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:893546 original size:48 final size:48
Alignment explanation
Indices: 893405--893683 Score: 309
Period size: 48 Copynumber: 5.9 Consensus size: 48
893395 CACATATTAA
* * * * *
893405 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGACCACAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * * *** * *
893453 GAAGGCGAT---A-G-CCCAG-CTATGGTCTTACACGATTTCTCATTTC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* * * * *
893496 GATGCCAATGCCGTATCCCAAATATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
893544 GATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
893592 GATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
*
893640 GATGTCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
893684 CATAACCCTA
Statistics
Matches: 186, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 27 0.15
45 1 0.01
48 158 0.85
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:900540 original size:47 final size:47
Alignment explanation
Indices: 900479--900646 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
900469 ATATTTGAGT
* * *
900479 TCCGAAATCGTTGAGTTGAGTCCGAGTTTGTAAGATATAATCAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATATAATCAGGCA
* *
900526 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATATAATCAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATATAATCAGGCA
* *
900573 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAA-CTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATATAATC-AGGCA
900620 TCCGAA--CGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
900647 ACTTATGGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 21 0.19
46 1 0.01
47 88 0.80
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATATAATCAGGCA
Found at i:918753 original size:216 final size:216
Alignment explanation
Indices: 918451--919357 Score: 1787
Period size: 216 Copynumber: 4.2 Consensus size: 216
918441 CACAACCCTA
* **
918451 GGTAAATGTGATTGACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
1 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
918516 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
66 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
918581 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
131 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
918646 TATAGTCCGCACACAGCCTCG
196 TATAGTCCGCACACAGCCTCG
918667 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
1 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
918732 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
66 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
918797 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
131 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
918862 TATAGTCCGCACACAGCCTCG
196 TATAGTCCGCACACAGCCTCG
918883 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
1 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
918948 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
66 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
919013 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
131 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
919078 TATAGTCCGCACACAGCCTCG
196 TATAGTCCGCACACAGCCTCG
919099 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
1 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
919164 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
66 TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
919229 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
131 GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
919294 TATAGTCCGCACACAGCCTCG
196 TATAGTCCGCACACAGCCTCG
919315 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGG
1 GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGG
919358 GCTTAAAAGC
Statistics
Matches: 688, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 688 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (216 bp):
GGTAAATATGATCAACACAGAGTCGTCAATAATCATATATTGGCACATAGCCTTAGGTAAATACG
TTTGGCACATAGCCATAATCAGGTTGGCATAGAGTCATATGTAAGTTGGCGCAAAGCCATAATCA
GAATAATTGGCTTTAAGCCATCGATAGCTGTATCATGTTAGGCACATAGCCATCAGTGACGGTAA
TATAGTCCGCACACAGCCTCG
Found at i:920567 original size:27 final size:27
Alignment explanation
Indices: 920535--920958 Score: 236
Period size: 27 Copynumber: 15.7 Consensus size: 27
920525 TTGGTAAATC
*
920535 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
920562 TGCAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** *
920589 TTGAAAGTCAAGGGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTT
**
920617 TGTAAATC-AGGGATATTTCTG-TAATTT
1 TACAAATCAAGGG-TATTTC-GATAATTT
* * *
920644 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** *
920671 TACAAATTGAGGGTATTTCGTTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* **
920698 TACAAGTTGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
*
920725 TACAAGTCAAGGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
* *
920752 TACAGGA-CGAGGGTATTTCGATAATTT
1 TACA-AATCAAGGGTATTTCGATAATTT
* * * *
920779 CACAAAT-TAGAGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGATAATTT
* ** * *
920806 TATAGGTCGAGGGTATTT-TAGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * * * * *
920833 CAAAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
920860 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCGATAATTT
* * * * *
920887 TACTATTTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * * *
920914 TGTAAACCAAAGGTATTTAG-TAATTCT
1 TACAAATCAAGGGTATTTCGATAATT-T
* *
920941 T-TAAACCAAGGGTATTTC
1 TACAAATCAAGGGTATTTC
920959 AGTAATTCTA
Statistics
Matches: 318, Mismatches: 63, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
26 29 0.09
27 259 0.81
28 30 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:920688 original size:54 final size:54
Alignment explanation
Indices: 920535--920914 Score: 267
Period size: 54 Copynumber: 7.0 Consensus size: 54
920525 TTGGTAAATC
* * * ** * *
920535 TACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCTGTAATTT
** ** *
920589 TTGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAA-TCAGGGATATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTT-TGATAATTTTACAAATTAAGGG-TATTTCTGTAATTT
* * *
920644 TCCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GTTAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCTG-TAATTT
* ** * * *
920698 TACAAGTTGAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCTGTAATTT
* * * *
920752 TACAGGA-CGAGGGTATTTCGATAATTTCACAAATT-AGAGGTATTT-TGGTAATTT
1 TACA-AATCAAGGGTATTTTGATAATTTTACAAATTAAG-GGTATTTCT-GTAATTT
* ** * * * *
920806 TATAGGTCGAGGGTATTTT-AGTAATTTCAAAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTTGA-TAATTTTACAAATTAAGGGTATTTCT-GTAATTT
* * * *
920860 TACAAA-CTAGGGGTATTTTGGTAATTTTACTATTTAAGGGTATTT-TGGTAATTT
1 TACAAATC-AAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCT-GTAATTT
920914 T
1 T
920915 GTAAACCAAA
Statistics
Matches: 265, Mismatches: 46, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
53 8 0.03
54 210 0.79
55 47 0.18
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTGATAATTTTACAAATTAAGGGTATTTCTGTAATTT
Found at i:920723 original size:81 final size:79
Alignment explanation
Indices: 920544--920914 Score: 282
Period size: 81 Copynumber: 4.6 Consensus size: 79
920534 CTACAAACCA
* * * * ** *
920544 AGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTATAATTTTTGAAAGTCAAGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTT-TGTAATTTTACAAA-TCGAGGGTATTTC
** *
920609 -TATAATTTTGTAAATC
64 GT-TAATTTTACAAATT
* *
920625 AGGGATATTTCTG-TAATTTTCCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 AGGG-TATTTC-GATAATTTTACAAATCAAGGGTATTTT-GTAATTTTACAAATCGAGGGTATTT
*
920689 CGTTAATTTTACAAGTT
63 CGTTAATTTTACAAATT
* *
920706 GAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCTGTAATTTTACAGGA-CGAGGGTATTT
1 -AGGGTATTTCGATAATTTTACAAATCAAGGGTATTT-TGTAATTTTACA-AATCGAGGGTATTT
* *
920770 CGATAATTTCACAAATT
63 CGTTAATTTTACAAATT
* * * ** * * * *
920787 AGAGGTATTTTGGTAATTTTATAGGTCGAGGGTATTTTAGTAATTTCAAAAAT-TAGGGGTATTT
1 AG-GGTATTTCGATAATTTTACAAATCAAGGGTATTTT-GTAATTTTACAAATCGA-GGGTATTT
* * *
920851 TGGTAATTTTACAAACT
63 CGTTAATTTTACAAATT
* * * * *
920868 AGGGGTATTTTGGTAATTTTACTATTTAAGGGTATTTTGGTAATTTT
1 A-GGGTATTTCGATAATTTTACAAATCAAGGGTATTTT-GTAATTTT
920915 GTAAACCAAA
Statistics
Matches: 237, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
80 6 0.03
81 185 0.78
82 45 0.19
83 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (79 bp):
AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTGTAATTTTACAAATCGAGGGTATTTCGT
TAATTTTACAAATT
Found at i:920945 original size:26 final size:27
Alignment explanation
Indices: 920898--920967 Score: 90
Period size: 26 Copynumber: 2.6 Consensus size: 27
920888 ACTATTTAAG
*
920898 GGTATTTTGGTAATT-TTGTAAACCAAA
1 GGTA-TTTAGTAATTCTTGTAAACCAAA
*
920925 GGTATTTAGTAATTCTT-TAAACCAAG
1 GGTATTTAGTAATTCTTGTAAACCAAA
920951 GGTATTTCAGTAATTCT
1 GGTATTT-AGTAATTCT
920968 ACCCTACAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
GGTATTTAGTAATTCTTGTAAACCAAA
Found at i:924238 original size:41 final size:41
Alignment explanation
Indices: 924192--924303 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
924182 GTGGATAAAT
* * *
924192 GGTCGTCAAGCTACCATGCGATCCTTAATTGGTGGATCCAC
1 GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGAATCCAC
* * *
924233 GGTCGTCAAGCAACCCTGCGATCCTCAATCGGTGAATCTAC
1 GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGAATCCAC
*
924274 GGTCGTCAAGCAACCATGTGATCCTCAATT
1 GGTCGTCAAGCAACCATGCGATCCTCAATT
924304 TCTTCCTCTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (41 bp):
GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGAATCCAC
Found at i:925607 original size:19 final size:17
Alignment explanation
Indices: 925570--925603 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
925560 ACTATGAAAG
925570 TTTGTATATATATGTCA
1 TTTGTATATATATGTCA
925587 TTTGTATATATATGTCA
1 TTTGTATATATATGTCA
925604 CATTAATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGTATATATATGTCA
Found at i:925992 original size:43 final size:43
Alignment explanation
Indices: 925931--926038 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
925921 TTTGAAGGAA
*
925931 TACCCGTCTGGGCTAGATCCTTTTATAAATGAGATCAACAGAT
1 TACCCGTCTGGGCTAGATCCTTTTATAAATAAGATCAACAGAT
* *
925974 TACCCGTCTGGGCTAGATCCTTTTATACATAAGATCAACGGAT
1 TACCCGTCTGGGCTAGATCCTTTTATAAATAAGATCAACAGAT
* *
926017 TACCCGTCTAGGCTAAATCCTT
1 TACCCGTCTGGGCTAGATCCTT
926039 ACTGCAACAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TACCCGTCTGGGCTAGATCCTTTTATAAATAAGATCAACAGAT
Found at i:927451 original size:27 final size:27
Alignment explanation
Indices: 927421--927821 Score: 265
Period size: 27 Copynumber: 14.9 Consensus size: 27
927411 GGTAAATCTA
*
927421 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * **
927448 CAAACCAATGGTATTTCTATAATTTTTG
1 CAAATCAAGGGTATTTCGGTAA-TTTTG
* * **
927476 -AAAGTTAAGGCTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* ** *
927503 TAAATCAAGGGTATTTTTGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTG
*
927530 CAAATCAAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* **
927557 CAAATCGAGGGTATTTTAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * ** *
927584 CAAGTCAAGGGAATTTCAATAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** *
927611 CAAGTTGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * ** * *
927638 TAAGTTGAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** * **
927665 CAGGTCGAGGGTATTTCGGTAATTTCA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
927692 CAAATC-AGGGATATTTTGGTAATTTTA
1 CAAATCAAGGG-TATTTCGGTAATTTTG
* * *
927719 CAAACCAGGGGTATTTTGGTAATTTTAG
1 CAAATCAAGGGTATTTCGGTAATTTT-G
*
927747 -TAATCAAGGGTATGTT-GGTAATTTTG
1 CAAATCAAGGGTAT-TTCGGTAATTTTG
* * * *
927773 TAAACCAAAGGTA-TTCAGTAA-TTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
927798 TAAACCAAGGGTATTTCAGTAATT
1 CAAATCAAGGGTATTTCGGTAATT
927822 CTATCGTACA
Statistics
Matches: 310, Mismatches: 53, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
25 18 0.06
26 17 0.05
27 248 0.80
28 27 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:927793 original size:26 final size:27
Alignment explanation
Indices: 927764--927821 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 27
927754 GGGTATGTTG
927764 GTAATTTTGTAAACCAAAGGTA-TTCA
1 GTAATTTTGTAAACCAAAGGTATTTCA
*
927790 GTAA-TTTGTAAACCAAGGGTATTTCA
1 GTAATTTTGTAAACCAAAGGTATTTCA
927816 GTAATT
1 GTAATT
927822 CTATCGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 16 0.55
26 12 0.41
27 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTTTGTAAACCAAAGGTATTTCA
Found at i:931093 original size:48 final size:48
Alignment explanation
Indices: 931041--931189 Score: 208
Period size: 48 Copynumber: 3.1 Consensus size: 48
931031 CACGATGTCC
** *
931041 CATATCGATGCCAATGCCACATCCCAAAAATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCA
* * * *
931089 CATATGGATGCCAATGCCATGTCCCAGACATGGTCTTTCGTGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCA
* * *
931137 CCTATCAATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCA
931185 CATAT
1 CATAT
931190 AACCCTAATG
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCA
Found at i:938916 original size:17 final size:19
Alignment explanation
Indices: 938874--938919 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
938864 CTTTATTTTC
938874 TTATTTATTATTGTAGTCT
1 TTATTTATTATTGTAGTCT
*
938893 TTCATTTATTATTTTA-T-T
1 TT-ATTTATTATTGTAGTCT
938911 TTATTTATT
1 TTATTTATT
938920 TTAATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (19 bp):
TTATTTATTATTGTAGTCT
Found at i:948833 original size:47 final size:47
Alignment explanation
Indices: 948781--949017 Score: 420
Period size: 47 Copynumber: 5.0 Consensus size: 47
948771 TTATCGTATT
* * *
948781 TATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
948828 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
948875 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
* * *
948922 TATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
948969 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
949016 TA
1 TA
949018 CATATCTTGT
Statistics
Matches: 181, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 181 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATA
Found at i:955021 original size:40 final size:40
Alignment explanation
Indices: 954963--955180 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
954953 CGGATGATAA
* *
954963 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
** *
955003 TTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
955043 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
955083 CCGGGCTAGGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
955123 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
955163 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
955181 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.11
40 142 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:964016 original size:27 final size:27
Alignment explanation
Indices: 963996--964082 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
963986 GGGTGTCTCG
* *
963996 GTAATTCTACCCTAAAGGGGTATTTCA
1 GTAATTCTACCTTACAGGGGTATTTCA
964023 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCTTACAGGGGTATTTCA
*
964050 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCTTACAGGGGTATTTCA
964077 GTAATT
1 GTAATT
964083 TTACAAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCTTACAGGGGTATTTCA
Found at i:964108 original size:54 final size:53
Alignment explanation
Indices: 963993--964109 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 53
963983 CGAGGGTGTC
*
963993 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACATTA-AGGGGTATT
* * * * *
964047 TCAGTAATTCTACCTTACAGGGGTATTTCGGTAATTTTACAAATT-AGGGGTATT
1 TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTAC--ATTAAGGGGTATT
*
964101 TTGGTAATT
1 TCGGTAATT
964110 TTATAAACCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 51 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (53 bp):
TCGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACATTAAGGGGTATT
Found at i:964158 original size:27 final size:26
Alignment explanation
Indices: 964067--964161 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
964057 TACCTTACAG
* * *
964067 GGGTATTTCGGTAATTTTACAAAT-TA
1 GGGTATTTTGGTAATTTT-CTAATCCA
* *
964093 GGGGTATTTTGGTAATTTTATAAACCA
1 -GGGTATTTTGGTAATTTTCTAATCCA
*
964120 --GTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTT-CTAATCCA
964145 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
964162 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.29
25 5 0.09
26 2 0.04
27 33 0.59
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCTAATCCA
Found at i:965084 original size:23 final size:23
Alignment explanation
Indices: 965058--965133 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
965048 CAGCTCATTG
965058 GAGCTTACCATTTCAACTCG-TA
1 GAGCTTACCATTTCAACTCGATA
*
965080 TGAGCTTA-C-TGTTCAGCTCGATA
1 -GAGCTTACCAT-TTCAACTCGATA
**
965103 GAGCTTACCATTTCAACTTAATA
1 GAGCTTACCATTTCAACTCGATA
965126 GAGCTTAC
1 GAGCTTAC
965134 TATTCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.36
23 27 0.60
24 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
GAGCTTACCATTTCAACTCGATA
Found at i:965099 original size:22 final size:23
Alignment explanation
Indices: 965033--965110 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 23
965023 GTGTTACATA
*
965033 AGAGCTTACTGTTTTCAGCTCAT-T
1 AGAGCTTACTG--TTCAGCTCGTAT
* *
965057 GGAGCTTACCAT-TTCAACTCGTAT
1 AGAGCTTA-C-TGTTCAGCTCGTAT
965081 -GAGCTTACTGTTCAGCTCG-AT
1 AGAGCTTACTGTTCAGCTCGTAT
965102 AGAGCTTAC
1 AGAGCTTAC
965111 CATTTCAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
21 3 0.07
22 17 0.38
23 15 0.33
24 8 0.18
25 1 0.02
26 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTCAGCTCGTAT
Found at i:965130 original size:45 final size:45
Alignment explanation
Indices: 965033--965139 Score: 130
Period size: 45 Copynumber: 2.3 Consensus size: 45
965023 GTGTTACATA
*
965033 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATTTCAACTCGTAT
1 AGAGCTTACTG--TTCAGCTCATTAGAGCTTACCATTTCAACTC-TAT
965081 -GAGCTTACTGTTCAGCTCGA-TAGAGCTTACCATTTCAACT-TAAT
1 AGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCATTTCAACTCT-AT
*
965125 AGAGCTTACTATTCA
1 AGAGCTTACTGTTCA
965140 TTAGCTCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
43 1 0.02
44 2 0.04
45 40 0.74
46 1 0.02
47 10 0.19
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
AGAGCTTACTGTTCAGCTCATTAGAGCTTACCATTTCAACTCTAT
Found at i:965398 original size:20 final size:19
Alignment explanation
Indices: 965308--965399 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 19
965298 AGATATGGGT
* *
965308 TTATATGGATGAATTACTG
1 TTATATGAATGAACTACTG
* * *
965327 TTGATACGATTGAAATACTG
1 TT-ATATGAATGAACTACTG
*
965347 TTATTACT-AATGAACTACTA
1 TTA-TA-TGAATGAACTACTG
* *
965367 TTATAGGGATGAACTACTGG
1 TTATATGAATGAACTACT-G
965387 TTATATGAATGAA
1 TTATATGAATGAA
965400 TTACAGTTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
19 15 0.27
20 40 0.73
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (19 bp):
TTATATGAATGAACTACTG
Found at i:967896 original size:6 final size:6
Alignment explanation
Indices: 967887--967947 Score: 52
Period size: 6 Copynumber: 9.3 Consensus size: 6
967877 AAAAGCGTAT
*
967887 GAAAAA GAAAAA GAAATA GAAAAA GAAAAAAA GAATGAAA GAAAACA -AAAAGA
1 GAAAAA GAAAAA GAAAAA GAAAAA G--AAAAA GAA--AAA GAAAA-A GAAAA-A
967940 GAAAAA GA
1 GAAAAA GA
967948 GTGAGAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
6 29 0.63
7 5 0.11
8 12 0.26
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:967946 original size:19 final size:18
Alignment explanation
Indices: 967887--967947 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
967877 AAAAGCGTAT
* *
967887 GAAAAAGAAAAAGAAATA
1 GAAAAAGAAAAAAAAAGA
967905 GAAAAAG--AAAAAAAGA
1 GAAAAAGAAAAAAAAAGA
*
967921 -ATGAAAGAAAACAAAAAGA
1 GA-AAAAGAAAA-AAAAAGA
967940 GAAAAAGA
1 GAAAAAGA
967948 GTGAGAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.03
16 11 0.32
18 9 0.26
19 12 0.35
20 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAAGA
Found at i:967985 original size:27 final size:27
Alignment explanation
Indices: 967887--967968 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
967877 AAAAGCGTAT
*
967887 GAAAAAGAA--AAAGAAATAGAAAAAGA
1 GAAAAAGAATGAAAGAAA-ACAAAAAGA
*
967913 AAAAAAGAATGAAAGAAAACAAAAAGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
* * *
967940 GAAAAAGAGTGAGAGAAAACAAAATGA
1 GAAAAAGAATGAAAGAAAACAAAAAGA
967967 GA
1 GA
967969 TTAAGATTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.17
27 33 0.69
28 7 0.15
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (27 bp):
GAAAAAGAATGAAAGAAAACAAAAAGA
Found at i:974146 original size:23 final size:23
Alignment explanation
Indices: 974111--974154 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
974101 AAAAAATAAT
*
974111 AAAAATAATAAAAG-AAGGAACG
1 AAAAATAAGAAAAGAAAGGAACG
974133 AAAAATAAAGAAAAGAAAGGAA
1 AAAAAT-AAGAAAAGAAAGGAA
974155 ATATCTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 7 0.37
24 6 0.32
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAAATAAGAAAAGAAAGGAACG
Found at i:974353 original size:38 final size:38
Alignment explanation
Indices: 974311--974386 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
974301 TTTCGAAACC
974311 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
1 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
* *
974349 CCATTTTCAATATTTGAGTTCGTAAATGTTAACTATTT
1 CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
974387 AATATTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (38 bp):
CCATTTTCAAAATTCGAGTTCGTAAATGTTAACTATTT
Found at i:976373 original size:70 final size:70
Alignment explanation
Indices: 976260--976541 Score: 555
Period size: 70 Copynumber: 4.0 Consensus size: 70
976250 TGGTATGTGT
976260 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
976325 TATCA
66 TATCA
976330 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
976395 TATCA
66 TATCA
976400 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
976465 TATCA
66 TATCA
*
976470 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATTGTGTGATT
1 TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
976535 TATCA
66 TATCA
976540 TA
1 TA
976542 CTTCGAATAA
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 211 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (70 bp):
TATTGGAATGTCGTGATTGAGGTGCCTATGTTAGGCATATTGGTTGAATGTTTGATGGTGTGATT
TATCA
Found at i:985274 original size:27 final size:27
Alignment explanation
Indices: 985243--985441 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
985233 TACTGAAATG
*
985243 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
985270 TCCTCTATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
985297 CCGTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
985324 CCATTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
985351 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
985378 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
985405 CCCTC-ATTTTACAAAATTATCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
985432 CCCTCGATTT
1 CCCTCGATTT
985442 TGAAATTACT
Statistics
Matches: 148, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:985513 original size:54 final size:54
Alignment explanation
Indices: 985444--985622 Score: 157
Period size: 54 Copynumber: 3.3 Consensus size: 54
985434 CTCGATTTTG
* *
985444 AAATTACTAAAATACCCCTA-TAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTA
* ** * * *
985498 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTG
1 AAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
* * ** * * * **
985552 AAATTACTGAAATA-CCCTCAATTTGTAAAATTATCAAAATACCCCTAATTTACA
1 AAATTACTAAAATACCCCT-AGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
985606 AAATTA-TAGAAATACCC
1 AAATTACTA-AAATACCC
985623 TTGACTTTCT
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
53 5 0.05
54 92 0.91
55 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACTAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
Found at i:985612 original size:27 final size:27
Alignment explanation
Indices: 985444--985598 Score: 170
Period size: 27 Copynumber: 5.7 Consensus size: 27
985434 CTCGATTTTG
* **
985444 AAATTACTAAAATACCCCTA-TAGGATA
1 AAATTACCAAAATACCCCTAGTTTG-TA
*
985471 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
985498 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
985525 AAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
** *
985552 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
985579 AAATTATCAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
985599 ATTTACAAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 99 0.92
28 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:985623 original size:54 final size:56
Alignment explanation
Indices: 985472--985705 Score: 180
Period size: 54 Copynumber: 4.3 Consensus size: 56
985462 TATAGGATAG
* *
985472 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* * * *
985526 AATTACCGAAATACCACTGGTTTGTGAAATTACT-GAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* * ** * *
985580 AATTATCAAAATACCCCTAATTTACAAAATTA-TAGAAATACCCT-TGACTTTCTAAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCT-AATTTGT-AA
* ** * * ** *
985636 AATTA-TAGAAATACCATTGGTTTATAAAATTACT-GAAATACCCT-TGGTTTGTAG
1 AATTACCA-AAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
* *
985690 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
985706 TTGTAGGATG
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
53 1 0.01
54 90 0.64
55 12 0.09
56 37 0.26
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (56 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAAATACCCTCTAATTTGTAA
Found at i:985673 original size:27 final size:27
Alignment explanation
Indices: 985480--985688 Score: 147
Period size: 27 Copynumber: 7.7 Consensus size: 27
985470 AGAATTACCA
* * **
985480 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACTG
* * *
985507 AAATACCCCTAGTTTGTAAAATTACCG
1 AAATACCCTTGGTTTGTAAAATTACTG
*
985534 AAATACCAC-TGGTTTGTGAAATTACTG
1 AAATACC-CTTGGTTTGTAAAATTACTG
*** *
985561 AAATACCCTCAATTTGTAAAATTA-TCA
1 AAATACCCTTGGTTTGTAAAATTACT-G
* ** **
985588 AAATACCCCTAATTTACAAAATTA-TAG
1 AAATACCCTTGGTTTGTAAAATTACT-G
* *
985615 AAATACCCTTGACTTTCTAAAAATTA-TAG
1 AAATACCCTTG-GTTTGT-AAAATTACT-G
* *
985644 AAATACCATTGGTTTATAAAATTACTG
1 AAATACCCTTGGTTTGTAAAATTACTG
985671 AAATACCCTTGGTTTGTA
1 AAATACCCTTGGTTTGTA
985689 GATTTACCAA
Statistics
Matches: 151, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 120 0.79
28 9 0.06
29 20 0.13
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACTG
Found at i:985781 original size:27 final size:27
Alignment explanation
Indices: 985702--985803 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
985692 TTACCAAAAC
* * * **
985702 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACTGTAAT
* * *
985729 ACCCCTAATA-GGTAAAAAGACCGTAA-
1 ACCCCT-GTAGGGTAAAATGACTGTAAT
*
985755 AGCCCCTGTAGGGTAAAGTGACTGTAAT
1 A-CCCCTGTAGGGTAAAATGACTGTAAT
* *
985783 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
985804 GAATATGCCC
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACTGTAAT
Found at i:986646 original size:25 final size:24
Alignment explanation
Indices: 986613--986682 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
986603 AGGAAGTGCT
986613 AAAAGGGCTCTGCCCCAGTTCACCA
1 AAAAGGGCT-TGCCCCAGTTCACCA
* *
986638 AAAAGGGCTTCGCCCCAGTTTATCA
1 AAAAGGGCTT-GCCCCAGTTCACCA
*
986663 GAAAGGGCTTTGCCCCAGTT
1 AAAAGGGC-TTGCCCCAGTT
986683 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 37 0.93
26 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (24 bp):
AAAAGGGCTTGCCCCAGTTCACCA
Found at i:986877 original size:42 final size:42
Alignment explanation
Indices: 986830--986921 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
986820 TAGTCTCCCC
*
986830 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* *
986872 AAATGGACTTGCATACATCCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
986914 AAATGGGC
1 AAATGGGC
986922 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:986980 original size:31 final size:31
Alignment explanation
Indices: 986945--987028 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
986935 CGTTTACAGT
986945 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
986976 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
987007 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
987029 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:990094 original size:15 final size:16
Alignment explanation
Indices: 990056--990096 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
990046 TGATTTTTGG
990056 ATTAAA-TTGAATAGA
1 ATTAAATTTGAATAGA
990071 ATTAAATTTGAAT-GA
1 ATTAAATTTGAATAGA
*
990086 GTTAAATTTGA
1 ATTAAATTTGA
990097 TTATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
ATTAAATTTGAATAGA
Found at i:998290 original size:22 final size:19
Alignment explanation
Indices: 998265--998306 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
998255 TGATAATAAC
998265 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
998287 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
998306 T
1 T
998307 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:998297 original size:16 final size:15
Alignment explanation
Indices: 998265--998303 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
998255 TGATAATAAC
998265 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
998281 TTATTATAATATATAT
1 TAATTATAAT-TATAT
998297 TAATTAT
1 TAATTAT
998304 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:1011691 original size:13 final size:13
Alignment explanation
Indices: 1011670--1011700 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1011660 ATAGTCAACG
*
1011670 CACCTGCTTCACA
1 CACCCGCTTCACA
1011683 CACCCGCTTCACA
1 CACCCGCTTCACA
1011696 CACCC
1 CACCC
1011701 CTGCCTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.55, G:0.06, T:0.16
Consensus pattern (13 bp):
CACCCGCTTCACA
Found at i:1014415 original size:39 final size:39
Alignment explanation
Indices: 1014371--1014450 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
1014361 CGAAGGTCCG
1014371 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1014410 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1 ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
1014449 AT
1 AT
1014451 CTTTTACCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (39 bp):
ATTCAAGTTGAGTCTAGGGTTTTTATCCTAAATTTATCT
Done.