Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_pilon, whole genome shotgun sequence
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: 1549336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1393498 original size:58 final size:60
Alignment explanation
Indices: 1393433--1393544 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
1393423 TCAGGTGATC
*
1393433 ATTTTGTAACTTTT-ATAG-TAGAAAGACT-AAAAAAATAACACCCTACAATCAAAGGACT
1 ATTTTGTAACTTTTAATAGTTACAAA-ACTCAAAAAAATAACACCCTACAATCAAAGGACT
* * *
1393491 ATTTTGTAACTTTTAATAGTTACAAAACTCAACAAAATAATACCCTATAATCAA
1 ATTTTGTAACTTTTAATAGTTACAAAACTCAAAAAAATAACACCCTACAATCAA
1393545 TAACTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
58 14 0.30
59 7 0.15
60 26 0.55
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.30
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTTACAAAACTCAAAAAAATAACACCCTACAATCAAAGGACT
Found at i:1394405 original size:29 final size:29
Alignment explanation
Indices: 1394363--1394421 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1394353 ATTTTCACCT
1394363 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1394392 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1394421 A
1 A
1394422 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:1395079 original size:40 final size:39
Alignment explanation
Indices: 1395011--1395090 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
1395001 TAACACCAAC
* * * *
1395011 TTTTATCTTTATAATTAAGATTTTTAATTTTTTTTAATTT
1 TTTTATCATTATAATCAAGATTTCTAA-TTCTTTTAATTT
* *
1395051 TTTTATCATTATAATCGAGGTTTCTAATTCTTTTAATTT
1 TTTTATCATTATAATCAAGATTTCTAATTCTTTTAATTT
1395090 T
1 T
1395091 AATTTTTACC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 12 0.35
40 22 0.65
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.62
Consensus pattern (39 bp):
TTTTATCATTATAATCAAGATTTCTAATTCTTTTAATTT
Found at i:1395209 original size:42 final size:43
Alignment explanation
Indices: 1395163--1395246 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
1395153 TGGTTGTTTT
*
1395163 TTTAATATCACTTT-TA-CTCTTATAATTGAGACCATTAATTTA
1 TTTAATATCACTTTCTACCT-TTATAATTGAAACCATTAATTTA
* *
1395205 TTTAATCTCACTTTCTACCTTTATAATTGAAACCCTTAATTT
1 TTTAATATCACTTTCTACCTTTATAATTGAAACCATTAATTT
1395247 TTTCAATTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 13 0.35
43 22 0.59
44 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.48
Consensus pattern (43 bp):
TTTAATATCACTTTCTACCTTTATAATTGAAACCATTAATTTA
Found at i:1397233 original size:39 final size:39
Alignment explanation
Indices: 1397179--1397260 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
1397169 TACTTAAACC
*
1397179 TCACTTCAGGTACTAAAACTTAATTTATCCATTCTTATA
1 TCACTTCAGGGACTAAAACTTAATTTATCCATTCTTATA
1397218 TCACTTCAGGGACTAAAACTTAATTTATCCATTCTTATA
1 TCACTTCAGGGACTAAAACTTAATTTATCCATTCTTATA
1397257 TCAC
1 TCAC
1397261 AGGGACTCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (39 bp):
TCACTTCAGGGACTAAAACTTAATTTATCCATTCTTATA
Found at i:1399389 original size:35 final size:35
Alignment explanation
Indices: 1399343--1399418 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
1399333 AAAACAGTTC
* *
1399343 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
1399378 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1399413 TCAATT
1 TCAATT
1399419 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1400035 original size:126 final size:127
Alignment explanation
Indices: 1399815--1400058 Score: 409
Period size: 126 Copynumber: 1.9 Consensus size: 127
1399805 TATTTATATA
* **
1399815 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAGAAATTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
1399880 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTATATGCT
1399942 ATCAATTTGGTCCTAAATTAAATA-AAATTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAGAAATTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
1400006 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
1400059 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
126 85 0.78
127 24 0.22
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (127 bp):
ATCAATTTGGTCCTAAATTAAATAGAAATTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTATATGCT
Found at i:1400544 original size:16 final size:18
Alignment explanation
Indices: 1400523--1400556 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1400513 ATTTCTTATT
1400523 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1400539 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1400557 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1403616 original size:11 final size:10
Alignment explanation
Indices: 1403591--1403631 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1403581 TTGCAATTCA
1403591 TTATCTT-TT
1 TTATCTTGTT
1403600 TTATCTTGTT
1 TTATCTTGTT
*
1403610 TTAATCTTATT
1 TT-ATCTTGTT
1403621 TTATCTTGTT
1 TTATCTTGTT
1403631 T
1 T
1403632 CCAGCACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 7 0.25
10 12 0.43
11 9 0.32
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (10 bp):
TTATCTTGTT
Found at i:1403624 original size:21 final size:20
Alignment explanation
Indices: 1403593--1403631 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1403583 GCAATTCATT
1403593 ATCTTTTTTATCTTGTTTTA
1 ATCTTTTTTATCTTGTTTTA
1403613 ATCTTATTTTATCTTGTTT
1 ATCTT-TTTTATCTTGTTT
1403632 CCAGCACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (20 bp):
ATCTTTTTTATCTTGTTTTA
Found at i:1403983 original size:10 final size:11
Alignment explanation
Indices: 1403968--1403994 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1403958 TTTAAAACAA
1403968 CAAAAAAAAGC
1 CAAAAAAAAGC
1403979 CAAAAAAAAGC
1 CAAAAAAAAGC
1403990 CAAAA
1 CAAAA
1403995 TTTCAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.19, G:0.07, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAGC
Found at i:1408316 original size:22 final size:22
Alignment explanation
Indices: 1408291--1408332 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1408281 CAATTCATTT
1408291 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
1408313 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
1408333 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:1418280 original size:29 final size:29
Alignment explanation
Indices: 1418238--1418297 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
1418228 ATTCTACAGT
1418238 GATCTCGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
*
1418267 GATCTTGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
1418296 GA
1 GA
1418298 CATACCATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
GATCTCGTAGGACGCCATGCAATCCAGGC
Found at i:1418423 original size:32 final size:32
Alignment explanation
Indices: 1418382--1418463 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
1418372 TATTATACGA
*
1418382 GGAGAGGTCGCCATGCAGATGAGCCAGCCAAT
1 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
1418414 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
1 GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
1418446 GGAGAGGTCGCCATGCAG
1 GGAGAGGTCGCCATGCAG
1418464 TCTGGGCGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.37, T:0.11
Consensus pattern (32 bp):
GGAGAGGTCGCCATGCAGACGAGCCAGCCAAT
Found at i:1418494 original size:29 final size:29
Alignment explanation
Indices: 1418450--1418515 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
1418440 GCCAATGGAG
**
1418450 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
*
1418479 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
1418508 AGGTCGCC
1 AGGTCGCC
1418516 CCGGCGTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGCAGTCCCGGCGACCTTGT
Found at i:1418846 original size:16 final size:18
Alignment explanation
Indices: 1418825--1418863 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1418815 GGAGATAAGG
*
1418825 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
1418841 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
1418859 TAAAT
1 TAAAT
1418864 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:1419011 original size:47 final size:47
Alignment explanation
Indices: 1418968--1419058 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 47
1418958 TTATATAGTT
1418968 AAAAAA-TAATTAATTAGTTTGTT-TT-GTT-AATAGTTAGTTATATA
1 AAAAAATTAATTAATTAGTTT-TTGTTAGTTAAATAGTTAGTTATATA
*
1419012 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTT-AGTTATAT
1419059 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
44 8 0.20
45 15 0.37
46 3 0.07
47 7 0.17
48 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (47 bp):
AAAAAATTAATTAATTAGTTTTTGTTAGTTAAATAGTTAGTTATATA
Found at i:1419142 original size:34 final size:34
Alignment explanation
Indices: 1419104--1419173 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
1419094 AGTAAGTTTA
1419104 TTAGTAGTA-TATATATGAAAAA-ATAGTTTATTAG
1 TTAGTAGTAGT-TATAT-AAAAAGATAGTTTATTAG
** *
1419138 TTAGTTTTAGTTATATAAAAAGATATTTTATTAG
1 TTAGTAGTAGTTATATAAAAAGATAGTTTATTAG
1419172 TT
1 TT
1419174 GTTTAAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.16
34 25 0.81
35 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (34 bp):
TTAGTAGTAGTTATATAAAAAGATAGTTTATTAG
Found at i:1419250 original size:16 final size:16
Alignment explanation
Indices: 1419218--1419264 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1419208 TTTAAAAAGT
*
1419218 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
1419234 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
1419250 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
1419265 AAGTTTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:1419259 original size:15 final size:14
Alignment explanation
Indices: 1419239--1419269 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1419229 GTTTATTAGT
1419239 TTATTATATTATAAG
1 TTATTATATTA-AAG
1419254 TTATTATATTAAAG
1 TTATTATATTAAAG
1419268 TT
1 TT
1419270 TTGTGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:1421473 original size:11 final size:11
Alignment explanation
Indices: 1421457--1422389 Score: 178
Period size: 11 Copynumber: 77.5 Consensus size: 11
1421447 CATTAAATAT
1421457 TTAAATCATTA
1 TTAAATCATTA
1421468 TTAAATCATTATTA
1 TTAAATC---ATTA
1421482 TTAAATCATTAGTA
1 TTAAATCA-T--TA
1421496 TTAAATCATTA
1 TTAAATCATTA
*
1421507 CT-AA--ATTA
1 TTAAATCATTA
*
1421515 TGAAATCATTAGTA
1 TTAAATCA-T--TA
1421529 TTAAATCATTA
1 TTAAATCATTA
*
1421540 TTATAAATAATTA
1 -T-TAAATCATTA
* * *
1421553 CTAAATAATAA
1 TTAAATCATTA
* *
1421564 CTAAATAATTA
1 TTAAATCATTA
1421575 TTATAAAATCATTA
1 -T-T-AAATCATTA
*
1421589 TTATAATAATTA
1 TTA-AATCATTA
1421601 TTATCAAATCATTA
1 -T-T-AAATCATTA
*
1421615 CTAAATCATCAAATCA
1 TTAAATCAT----T-A
1421631 TTAAAT-A-T-
1 TTAAATCATTA
1421639 TTAAATCATTA
1 TTAAATCATTA
*
1421650 TCAAATCATTAGTA
1 TTAAATCA-T--TA
1421664 TTAAATCATTA
1 TTAAATCATTA
*
1421675 TTATAAATAATTA
1 -T-TAAATCATTA
* * *
1421688 CTAAATAATAA
1 TTAAATCATTA
* *
1421699 CTAAATAATTA
1 TTAAATCATTA
1421710 TTATAAAATCATTA
1 -T-T-AAATCATTA
*
1421724 TTATAATAATTA
1 TTA-AATCATTA
1421736 TTATCAAATCATTA
1 -T-T-AAATCATTA
* *
1421750 CTAAATCATCAAATCG
1 TTAAATCAT----T-A
1421766 TTAAAT-A-T-
1 TTAAATCATTA
1421774 TTAAATCATTA
1 TTAAATCATTA
*
1421785 TTAAATCATTT
1 TTAAATCATTA
*
1421796 TTATAATGATTA
1 TTA-AATCATTA
*
1421808 TTACTAAATCATTT
1 -T--TAAATCATTA
*
1421822 TTATAATGATTA
1 TTA-AATCATTA
1421834 TTATCAAATCATTA
1 -T-T-AAATCATTA
*
1421848 CTATAATGATTATTA
1 -T-TAA--ATCATTA
*
1421863 TCAAATCATTA
1 TTAAATCATTA
*
1421874 CTAAATCATCAAATCA
1 TTAAATCAT----T-A
1421890 TTAAAT-A-T-
1 TTAAATCATTA
1421898 TTAAATCATTA
1 TTAAATCATTA
1421909 TTAAATCATTAGTA
1 TTAAATCA-T--TA
1421923 TTAAATCATTA
1 TTAAATCATTA
1421934 TTAAATCATTAGTA
1 TTAAATCA-T--TA
*
1421948 TTAAATCATCA
1 TTAAATCATTA
*
1421959 CT-AA--ATTA
1 TTAAATCATTA
1421967 TTAAATCATTAGTA
1 TTAAATCA-T--TA
1421981 TTAAATCATTA
1 TTAAATCATTA
*
1421992 CT-AA--ATTA
1 TTAAATCATTA
1422000 TTAAATCATTAGTA
1 TTAAATCA-T--TA
1422014 TTAAATCATTA
1 TTAAATCATTA
*
1422025 TTATAAATAATTA
1 -T-TAAATCATTA
* * *
1422038 CTAAATAATAA
1 TTAAATCATTA
* *
1422049 CTAAATAATTA
1 TTAAATCATTA
1422060 TTATAAAATCATTA
1 -T-T-AAATCATTA
*
1422074 TTATAATGATTA
1 TTA-AATCATTA
1422086 TTATCAAATCATTA
1 -T-T-AAATCATTA
*
1422100 CTAAATCATCCAATCA
1 TTAAATCAT----T-A
1422116 TTAAAT-A-T-
1 TTAAATCATTA
1422124 TTAAATCATTA
1 TTAAATCATTA
1422135 TTAAATCATTA
1 TTAAATCATTA
*
1422146 GTAACAAATCATTA
1 -T--TAAATCATTA
1422160 TTAAATCATTAGTA
1 TTAAATCA-T--TA
*
1422174 TTAAATCATCA
1 TTAAATCATTA
*
1422185 CT-AA--ATTA
1 TTAAATCATTA
*
1422193 TGAAATCATTAGTA
1 TTAAATCA-T--TA
1422207 TTAAATCATTA
1 TTAAATCATTA
*
1422218 CT-AA--ATTA
1 TTAAATCATTA
1422226 TTAAATCATTAGTA
1 TTAAATCA-T--TA
1422240 TTAAATCATTA
1 TTAAATCATTA
*
1422251 TTATAAATAATTA
1 -T-TAAATCATTA
* * *
1422264 CTAAATAATAA
1 TTAAATCATTA
* *
1422275 CTAAATAATTA
1 TTAAATCATTA
1422286 TTATAAAATCATTA
1 -T-T-AAATCATTA
*
1422300 TTATAATGATTA
1 TTA-AATCATTA
1422312 TTATCAAATCATTA
1 -T-T-AAATCATTA
* *
1422326 CTAAATCATCA
1 TTAAATCATTA
*
1422337 --AATCATTATTTA
1 TTAA--ATCA-TTA
1422349 TTTAAATCATTA
1 -TTAAATCATTA
*
1422361 TTAAATCATTT
1 TTAAATCATTA
*
1422372 TTATAATGATTA
1 TTA-AATCATTA
*
1422384 ATAAAT
1 TTAAAT
1422390 ACATAGAAAT
Statistics
Matches: 701, Mismatches: 85, Indels: 272
0.66 0.08 0.26
Matches are distributed among these distances:
8 45 0.06
9 16 0.02
10 18 0.03
11 232 0.33
12 76 0.11
13 69 0.10
14 199 0.28
15 23 0.03
16 23 0.03
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAAATCATTA
Found at i:1421483 original size:14 final size:14
Alignment explanation
Indices: 1421434--1422363 Score: 267
Period size: 14 Copynumber: 66.5 Consensus size: 14
1421424 AATCATTATT
*
1421434 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
1421448 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
1421464 ---ATTATTAAATC
1 ATTATTATTAAATC
1421475 ATTATTATTAAATC
1 ATTATTATTAAATC
*
1421489 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
1421503 ATTACTAAATTATGAAATC
1 A-T--T--ATTATTAAATC
*
1421522 ATTAGTATTAAATC
1 ATTATTATTAAATC
1421536 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
1421548 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
1421559 A--ATAACTAAATA
1 ATTATTATTAAATC
*
1421571 ATTATTATAAAATC
1 ATTATTATTAAATC
*
1421585 ATTATTA-T-AATA
1 ATTATTATTAAATC
*
1421597 ATTATTATCAAATC
1 ATTATTATTAAATC
*
1421611 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
*
1421630 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
*
1421646 ---ATTATCAAATC
1 ATTATTATTAAATC
*
1421657 ATTAGTATTAAATC
1 ATTATTATTAAATC
1421671 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
1421683 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
1421694 A--ATAACTAAATA
1 ATTATTATTAAATC
*
1421706 ATTATTATAAAATC
1 ATTATTATTAAATC
*
1421720 ATTATTA-T-AATA
1 ATTATTATTAAATC
*
1421732 ATTATTATCAAATC
1 ATTATTATTAAATC
*
1421746 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
* *
1421765 GTTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
1421781 ---ATTATTAAATC
1 ATTATTATTAAATC
* *
1421792 ATTTTTA-T-AATG
1 ATTATTATTAAATC
*
1421804 ATTATTACTAAATC
1 ATTATTATTAAATC
* *
1421818 ATTTTTA-T-AATG
1 ATTATTATTAAATC
*
1421830 ATTATTATCAAATC
1 ATTATTATTAAATC
* *
1421844 ATTACTA-T-AATG
1 ATTATTATTAAATC
*
1421856 ATTATTATCAAATC
1 ATTATTATTAAATC
*
1421870 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
*
1421889 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
1421905 ---ATTATTAAATC
1 ATTATTATTAAATC
*
1421916 ATTAGTATTAAATC
1 ATTATTATTAAATC
1421930 ---ATTATTAAATC
1 ATTATTATTAAATC
*
1421941 ATTAGTATTAAATC
1 ATTATTATTAAATC
1421955 ATCACTAAATTATTAAATC
1 AT---T--ATTATTAAATC
*
1421974 ATTAGTATTAAATC
1 ATTATTATTAAATC
1421988 ATTACTAAATTATTAAATC
1 A-T--T--ATTATTAAATC
*
1422007 ATTAGTATTAAATC
1 ATTATTATTAAATC
1422021 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
1422033 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
1422044 A--ATAACTAAATA
1 ATTATTATTAAATC
*
1422056 ATTATTATAAAATC
1 ATTATTATTAAATC
*
1422070 ATTATTA-T-AATG
1 ATTATTATTAAATC
*
1422082 ATTATTATCAAATC
1 ATTATTATTAAATC
**
1422096 ATTACTAAATCATCCAATC
1 ATTA-T---T-ATTAAATC
*
1422115 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
1422131 ---ATTATTAAATC
1 ATTATTATTAAATC
* **
1422142 ATTAGTAACAAATC
1 ATTATTATTAAATC
1422156 ---ATTATTAAATC
1 ATTATTATTAAATC
*
1422167 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
1422181 ATCACTAAATTATGAAATC
1 AT---T--ATTATTAAATC
*
1422200 ATTAGTATTAAATC
1 ATTATTATTAAATC
1422214 ATTACTAAATTATTAAATC
1 A-T--T--ATTATTAAATC
*
1422233 ATTAGTATTAAATC
1 ATTATTATTAAATC
1422247 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
1422259 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
1422270 A--ATAACTAAATA
1 ATTATTATTAAATC
*
1422282 ATTATTATAAAATC
1 ATTATTATTAAATC
*
1422296 ATTATTA-T-AATG
1 ATTATTATTAAATC
*
1422308 ATTATTATCAAATC
1 ATTATTATTAAATC
*
1422322 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
1422341 ATTATTTATTTAAATC
1 ATTA-TTA-TTAAATC
1422357 ATTATTA
1 ATTATTA
1422364 AATCATTTTT
Statistics
Matches: 702, Mismatches: 102, Indels: 223
0.68 0.10 0.22
Matches are distributed among these distances:
10 16 0.02
11 112 0.16
12 90 0.13
13 23 0.03
14 265 0.38
15 19 0.03
16 50 0.07
17 5 0.01
18 8 0.01
19 110 0.16
20 4 0.01
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (14 bp):
ATTATTATTAAATC
Found at i:1421658 original size:135 final size:135
Alignment explanation
Indices: 1421511--1421936 Score: 662
Period size: 135 Copynumber: 3.2 Consensus size: 135
1421501 TCATTACTAA
*
1421511 ATTATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTAT
1 ATTATTAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTAT
1421576 TATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
66 TATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
1421641 AAATC
131 AAATC
*
1421646 ATTATCAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTAT
1 ATTATTAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTAT
*
1421711 TATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCGTTAAATATTT
66 TATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
1421776 AAATC
131 AAATC
* * *
1421781 ATTATTAAATCATT--T-TTATAATGATTATTACTAAATCATT--T---T--T-A-T-AATGATT
1 ATTATTAAATCATTAGTATTA-AATCATTATTA-TAAATAATTACTAAATAATAACTAAATAATT
* * *
1421833 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
64 ATTATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATAT
1421898 TTAAATC
129 TTAAATC
1421905 ATTATTAAATCATTAGTATTAAATCATTATTA
1 ATTATTAAATCATTAGTATTAAATCATTATTA
1421937 AATCATTAGT
Statistics
Matches: 275, Mismatches: 11, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
124 88 0.32
125 1 0.00
126 12 0.04
127 4 0.01
129 1 0.00
132 4 0.01
133 11 0.04
134 8 0.03
135 146 0.53
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (135 bp):
ATTATTAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTAT
TATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTT
AAATC
Found at i:1421731 original size:26 final size:26
Alignment explanation
Indices: 1421641--1421873 Score: 139
Period size: 26 Copynumber: 9.3 Consensus size: 26
1421631 TTAAATATTT
* * * *
1421641 AAATCATTATCA-AATCATTAGTATT
1 AAATCATTATTATAATAATTATTATC
*
1421666 AAATCATTATTAT-A-AATAATTA-C
1 AAATCATTATTATAATAATTATTATC
* * * *
1421689 TAAATAATAACTA-AATAATTATTATA
1 -AAATCATTATTATAATAATTATTATC
1421715 AAATCATTATTATAATAATTATTATC
1 AAATCATTATTATAATAATTATTATC
* * * *
1421741 AAATCATTACTA-AATCATCA-AATC
1 AAATCATTATTATAATAATTATTATC
** * * * *
1421765 -GTTAAATATT-T-A-AATCATTATT
1 AAATCATTATTATAATAATTATTATC
* *
1421787 AAATCATTTTTATAATGATTATTA-C
1 AAATCATTATTATAATAATTATTATC
* *
1421812 TAAATCATTTTTATAATGATTATTATC
1 -AAATCATTATTATAATAATTATTATC
* *
1421839 AAATCATTACTATAATGATTATTATC
1 AAATCATTATTATAATAATTATTATC
1421865 AAATCATTA
1 AAATCATTA
1421874 CTAAATCATC
Statistics
Matches: 158, Mismatches: 36, Indels: 27
0.71 0.16 0.12
Matches are distributed among these distances:
21 4 0.03
22 3 0.02
23 10 0.06
24 19 0.12
25 35 0.22
26 86 0.54
27 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATCATTATTATAATAATTATTATC
Found at i:1422009 original size:19 final size:19
Alignment explanation
Indices: 1421946--1422010 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1421936 AAATCATTAG
*
1421946 TATTAAATCATCACTAAAT
1 TATTAAATCATTACTAAAT
*
1421965 TATTAAATCA-T--T--AG
1 TATTAAATCATTACTAAAT
1421979 TATTAAATCATTACTAAAT
1 TATTAAATCATTACTAAAT
1421998 TATTAAATCATTA
1 TATTAAATCATTA
1422011 GTATTAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 11 0.29
15 1 0.03
16 1 0.03
17 1 0.03
19 24 0.63
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.42
Consensus pattern (19 bp):
TATTAAATCATTACTAAAT
Found at i:1422020 original size:33 final size:33
Alignment explanation
Indices: 1421930--1422250 Score: 223
Period size: 33 Copynumber: 9.9 Consensus size: 33
1421920 GTATTAAATC
*
1421930 ATTATTAAATCATTAGTATTAAATCATCACTAA
1 ATTATTAAATCATTAGTATTAAATCATTACTAA
1421963 ATTATTAAATCATTAGTATTAAATCATTACTAA
1 ATTATTAAATCATTAGTATTAAATCATTACTAA
1421996 ATTATTAAATCATTAGTATTAAATCA-T--T--
1 ATTATTAAATCATTAGTATTAAATCATTACTAA
* * * * * *
1422024 ATTA-TAAATAATTACTA-AATAATAACTAAATAA
1 ATTATTAAATCATTAGTATTA-AATCA-TTACTAA
* * * *
1422057 TTATTATAAAATCATTATTA-TAATGATTATTATCAAA
1 --ATTATTAAATCATTAGTATTAA--ATCATTA-CTAA
* * *
1422094 TCATTACTAAATCATCCAATCATTAAAT-ATT--TAAA
1 --ATTATTAAATCAT-TAGT-ATTAAATCATTACT-AA
1422129 TCATTATTAAATCATTAGTA--ACAA--A-T-C---
1 --ATTATTAAATCATTAGTATTA-AATCATTACTAA
*
1422156 ATTATTAAATCATTAGTATTAAATCATCACTAA
1 ATTATTAAATCATTAGTATTAAATCATTACTAA
*
1422189 ATTATGAAATCATTAGTATTAAATCATTACTAA
1 ATTATTAAATCATTAGTATTAAATCATTACTAA
1422222 ATTATTAAATCATTAGTATTAAATCATTA
1 ATTATTAAATCATTAGTATTAAATCATTA
1422251 TTATAAATAA
Statistics
Matches: 233, Mismatches: 27, Indels: 56
0.74 0.09 0.18
Matches are distributed among these distances:
25 18 0.08
26 3 0.01
27 16 0.07
28 5 0.02
30 3 0.01
31 3 0.01
32 3 0.01
33 118 0.51
34 2 0.01
35 21 0.09
36 13 0.06
37 20 0.09
38 4 0.02
39 1 0.00
40 3 0.01
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (33 bp):
ATTATTAAATCATTAGTATTAAATCATTACTAA
Found at i:1422062 original size:226 final size:226
Alignment explanation
Indices: 1421783--1422370 Score: 1014
Period size: 226 Copynumber: 2.6 Consensus size: 226
1421773 TTTAAATCAT
* * * *** * *
1421783 TATTAAATCATTTTTATAATGATTATTACTAAATCATTTTTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
*
1421848 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAA
63 TTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAA
** *
1421913 ATCATTAGTATTAAATCATTATTAAATCATTAGTATTAAATCATCACTAAATTATTAAATCATTA
128 ATCATTAGTAACAAATCATTATTAAATCATTAGTATTAAATCATCACTAAATTATGAAATCATTA
1421978 GTATTAAATCATTACTAAATTATTAAATCATTAG
193 GTATTAAATCATTACTAAATTATTAAATCATTAG
1422012 TATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTATTA
1 TATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTATTA
*
1422077 TAATGATTATTATCAAATCATTACTAAATCATCCAATCATTAAATATTTAAATCATTATTAAATC
66 TAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATC
1422142 ATTAGTAACAAATCATTATTAAATCATTAGTATTAAATCATCACTAAATTATGAAATCATTAGTA
131 ATTAGTAACAAATCATTATTAAATCATTAGTATTAAATCATCACTAAATTATGAAATCATTAGTA
1422207 TTAAATCATTACTAAATTATTAAATCATTAG
196 TTAAATCATTACTAAATTATTAAATCATTAG
1422238 TATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTATTA
1 TATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTATTA
**
1422303 TAATGATTATTATCAAATCATTACTAAATCATCAAATCATTATTTATTTAAATCATTATTAAATC
66 TAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATC
1422368 ATT
131 ATT
1422371 TTTATAATGA
Statistics
Matches: 343, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
226 309 0.90
227 16 0.05
229 18 0.05
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (226 bp):
TATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTATTA
TAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATC
ATTAGTAACAAATCATTATTAAATCATTAGTATTAAATCATCACTAAATTATGAAATCATTAGTA
TTAAATCATTACTAAATTATTAAATCATTAG
Found at i:1422229 original size:19 final size:19
Alignment explanation
Indices: 1422172--1422236 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1422162 AAATCATTAG
*
1422172 TATTAAATCATCACTAAAT
1 TATTAAATCATTACTAAAT
* *
1422191 TATGAAATCA-T--T--AG
1 TATTAAATCATTACTAAAT
1422205 TATTAAATCATTACTAAAT
1 TATTAAATCATTACTAAAT
1422224 TATTAAATCATTA
1 TATTAAATCATTA
1422237 GTATTAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 10 0.28
15 1 0.03
16 1 0.03
17 1 0.03
19 23 0.64
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (19 bp):
TATTAAATCATTACTAAAT
Found at i:1425466 original size:28 final size:28
Alignment explanation
Indices: 1425430--1425483 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1425420 ATTTTTTATA
*
1425430 TAATCTAATATAACTTAAACTAACAATT
1 TAATATAATATAACTTAAACTAACAATT
1425458 TAATATAATATAACTTAAACTAACAA
1 TAATATAATATAACTTAAACTAACAA
1425484 ACTAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAATT
Found at i:1425497 original size:28 final size:28
Alignment explanation
Indices: 1425430--1425490 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
1425420 ATTTTTTATA
* **
1425430 TAATCTAATATAACTTAAACTAACAATT
1 TAATATAATATAACTTAAACTAACAAAC
1425458 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
1425486 TAATA
1 TAATA
1425491 ATTTATACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:1425500 original size:21 final size:21
Alignment explanation
Indices: 1425467--1425515 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1425457 TTAATATAAT
1425467 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
1425488 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
1425509 ATTAACT
1 A-TAACT
1425516 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:1426179 original size:30 final size:30
Alignment explanation
Indices: 1426144--1426243 Score: 142
Period size: 30 Copynumber: 3.6 Consensus size: 30
1426134 TTTGGCGAGC
*
1426144 TGGGCGTGCATGGAGGTCGTTGGGCGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1426174 TGGGCGTGCATGGA-G--G-T---CGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1426197 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1426227 TGGGCGTGCATGGAGGT
1 TGGGCGTGCATGGAGGT
1426244 GCTGGTAGGT
Statistics
Matches: 62, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
23 19 0.31
24 1 0.02
26 2 0.03
27 2 0.03
29 1 0.02
30 37 0.60
ACGTcount: A:0.10, C:0.17, G:0.50, T:0.23
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:1426196 original size:13 final size:13
Alignment explanation
Indices: 1426178--1426216 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1426168 CGTGCCTGGG
1426178 CGTGCATGGAGGT
1 CGTGCATGGAGGT
1426191 CGTGCAT-G-GG-
1 CGTGCATGGAGGT
1426201 CGTGCATGGAGGT
1 CGTGCATGGAGGT
1426214 CGT
1 CGT
1426217 TGGGCGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.30
11 3 0.13
12 3 0.13
13 10 0.43
ACGTcount: A:0.13, C:0.18, G:0.46, T:0.23
Consensus pattern (13 bp):
CGTGCATGGAGGT
Found at i:1426200 original size:23 final size:22
Alignment explanation
Indices: 1426168--1426229 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
1426158 GGTCGTTGGG
1426168 CGTGCCTGGGCGTGCATGGAGGT
1 CGTG-CTGGGCGTGCATGGAGGT
1426191 CGTGCATGGGCGTGCATGGAGGT
1 CGTGC-TGGGCGTGCATGGAGGT
1426214 CGT--TGGGCGTGCATGG
1 CGTGCTGGGCGTGCATGG
1426230 GCGTGCATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.34
22 1 0.03
23 24 0.63
ACGTcount: A:0.10, C:0.19, G:0.48, T:0.23
Consensus pattern (22 bp):
CGTGCTGGGCGTGCATGGAGGT
Found at i:1426245 original size:10 final size:10
Alignment explanation
Indices: 1426164--1426239 Score: 75
Period size: 10 Copynumber: 7.3 Consensus size: 10
1426154 TGGAGGTCGT
*
1426164 TGGGCGTGCC
1 TGGGCGTGCA
1426174 TGGGCGTGCA
1 TGGGCGTGCA
1426184 TGGAGGTCGTGCA
1 T-G-GG-CGTGCA
1426197 TGGGCGTGCA
1 TGGGCGTGCA
*
1426207 TGGAG-GT-CGT
1 TGG-GCGTGC-A
1426217 TGGGCGTGCA
1 TGGGCGTGCA
1426227 TGGGCGTGCA
1 TGGGCGTGCA
1426237 TGG
1 TGG
1426240 AGGTGCTGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.04
10 39 0.70
11 5 0.09
12 3 0.05
13 7 0.12
ACGTcount: A:0.09, C:0.18, G:0.50, T:0.22
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:1426267 original size:30 final size:30
Alignment explanation
Indices: 1426228--1426328 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 30
1426218 GGGCGTGCAT
*
1426228 GGGCGTGCATGGAGGTGCTGGTAGGTCGCA
1 GGGCATGCATGGAGGTGCTGGTAGGTCGCA
* ** *** *
1426258 GGGCATGCATGG-CGACCTACCAGGTCGCT
1 GGGCATGCATGGAGGTGCTGGTAGGTCGCA
*
1426287 GGGCGTGCATGGAGGTGCTGGTAGGTCGCA
1 GGGCATGCATGGAGGTGCTGGTAGGTCGCA
1426317 GGGCATGCATGG
1 GGGCATGCATGG
1426329 CGACCTAGTA
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 21 0.40
30 32 0.60
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.19
Consensus pattern (30 bp):
GGGCATGCATGGAGGTGCTGGTAGGTCGCA
Found at i:1426285 original size:29 final size:29
Alignment explanation
Indices: 1426248--1426393 Score: 184
Period size: 29 Copynumber: 5.0 Consensus size: 29
1426238 GGAGGTGCTG
*
1426248 GTAGGTCGCAGGGCATGCATGGCGACCTA
1 GTAGGTCGCAGGGCGTGCATGGCGACCTA
** * * ** *
1426277 CCAGGTCGCTGGGCGTGCATGGAGGTGCTG
1 GTAGGTCGCAGGGCGTGCATGG-CGACCTA
*
1426307 GTAGGTCGCAGGGCATGCATGGCGACCTA
1 GTAGGTCGCAGGGCGTGCATGGCGACCTA
*
1426336 GTAGGTCGCCGGGCGTGCATGGCGACCTA
1 GTAGGTCGCAGGGCGTGCATGGCGACCTA
*
1426365 GTAGGTCGCCGGGCGTGCATGGCGACCTA
1 GTAGGTCGCAGGGCGTGCATGGCGACCTA
1426394 CCCCCGGAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 77 0.79
30 21 0.21
ACGTcount: A:0.16, C:0.25, G:0.41, T:0.18
Consensus pattern (29 bp):
GTAGGTCGCAGGGCGTGCATGGCGACCTA
Found at i:1426298 original size:59 final size:59
Alignment explanation
Indices: 1426227--1426395 Score: 250
Period size: 59 Copynumber: 2.9 Consensus size: 59
1426217 TGGGCGTGCA
1426227 TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACCAGGTCGC
1 TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACCAGGTCGC
**
1426286 TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTAGTAGGTCGC
1 TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACCAGGTCGC
* * ** * * *
1426345 CGGGCGTGCATGG-CGACCTAGTAGGTCGCCGGGCGTGCATGGCGACCTACC
1 TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
1426396 CCCGGAACTG
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 30 0.30
59 69 0.70
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.18
Consensus pattern (59 bp):
TGGGCGTGCATGGAGGTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACCAGGTCGC
Found at i:1431156 original size:75 final size:75
Alignment explanation
Indices: 1431066--1431206 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 75
1431056 GGGGTTGACT
* *
1431066 GACTTCTTCTCAGGAATTTCAGGCTTCACCATGGCTGGTTTTCCCGAA-CCAACACCTTTGGCAG
1 GACTTCTTCTCAGGAATTTCAGGCTTCACCATGGCTGGTTGTCCC-AAGCCAACACCCTTGGCAG
1431130 AAGGGCTAACC
65 AAGGGCTAACC
* * *
1431141 GACTTCTTCTCAGGAATTTCAGGCTTCCCCGTGGCTGGTTGTCCCAAGCCAACTCCCTTGGCAGA
1 GACTTCTTCTCAGGAATTTCAGGCTTCACCATGGCTGGTTGTCCCAAGCCAACACCCTTGGCAGA
1431206 A
66 A
1431207 CTCGATGATG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 2 0.03
75 58 0.97
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (75 bp):
GACTTCTTCTCAGGAATTTCAGGCTTCACCATGGCTGGTTGTCCCAAGCCAACACCCTTGGCAGA
AGGGCTAACC
Found at i:1435457 original size:17 final size:18
Alignment explanation
Indices: 1435435--1435468 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1435425 ATTAAAATTT
1435435 TCAATTACAATT-GTCAA
1 TCAATTACAATTCGTCAA
*
1435452 TCAATTATAATTCGTCA
1 TCAATTACAATTCGTCA
1435469 TTGAACGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (18 bp):
TCAATTACAATTCGTCAA
Found at i:1436144 original size:14 final size:13
Alignment explanation
Indices: 1436113--1436167 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
1436103 AATATGAAAA
*
1436113 AAATAAAAAATAT
1 AAATAAATAATAT
*
1436126 CAATATAATAATAT
1 AAATA-AATAATAT
*
1436140 TAATAAAATAA-AT
1 AAAT-AAATAATAT
1436153 AAATAAATAA-AT
1 AAATAAATAATAT
1436165 AAA
1 AAA
1436168 GTTTAGCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 11 0.31
13 9 0.25
14 15 0.42
15 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAATAATAT
Found at i:1436154 original size:4 final size:4
Alignment explanation
Indices: 1436092--1436167 Score: 50
Period size: 4 Copynumber: 18.2 Consensus size: 4
1436082 ATGTTAAATG
* *
1436092 ATAA AAAA ATAA AT-- ATGAA AAAA ATAA A-AA ATATCA ATATA ATAA
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATA--A ATA-A ATAA
*
1436137 TATTA ATAAA ATAA ATAA ATAA ATAA ATAA A
1 -ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A
1436168 GTTTAGCAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
2 2 0.04
3 3 0.05
4 37 0.65
5 11 0.19
6 4 0.07
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:1436280 original size:3 final size:3
Alignment explanation
Indices: 1436272--1436300 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1436262 AAAAATGTAA
1436272 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1436301 ATATTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1438537 original size:15 final size:15
Alignment explanation
Indices: 1438519--1438551 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1438509 CGAGGGTTTT
1438519 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1438534 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1438549 GTA
1 GTA
1438552 ATGGTCCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.33, T:0.27
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:1445372 original size:15 final size:15
Alignment explanation
Indices: 1445354--1445386 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1445344 CGAGGGTTCT
*
1445354 GTAGTCTTTCGGGAC
1 GTAGTCATTCGGGAC
1445369 GTAGTCATTCGGGAC
1 GTAGTCATTCGGGAC
1445384 GTA
1 GTA
1445387 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.30
Consensus pattern (15 bp):
GTAGTCATTCGGGAC
Found at i:1451811 original size:14 final size:14
Alignment explanation
Indices: 1451792--1451840 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1451782 AGGCAAATGG
1451792 TAAAATCAAATTAA
1 TAAAATCAAATTAA
**
1451806 TAAAAT-ATTTTAAA
1 TAAAATCAAATT-AA
1451820 TTAAAATCAAATTAA
1 -TAAAATCAAATTAA
1451835 TAAAAT
1 TAAAAT
1451841 ATATATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 8 0.29
16 3 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATCAAATTAA
Found at i:1451898 original size:26 final size:24
Alignment explanation
Indices: 1451850--1451906 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
1451840 TATATATAAA
*
1451850 AAAATTATCATTATTATTATATTAT
1 AAAATTATCATGATTATTATATT-T
*
1451875 AATATTATTCATGATTAATT-TATTT
1 AAAATTA-TCATGATT-ATTATATTT
1451900 AAAATTA
1 AAAATTA
1451907 AATAATGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 13 0.48
26 11 0.41
27 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
AAAATTATCATGATTATTATATTT
Found at i:1459912 original size:2 final size:2
Alignment explanation
Indices: 1459905--1459930 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1459895 ACTAATCCAT
1459905 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1459931 GTGGTGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1465299 original size:18 final size:19
Alignment explanation
Indices: 1465278--1465330 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
1465268 CAATAAAACG
1465278 AAATATATATAAAAAA-TA
1 AAATATATATAAAAAACTA
*
1465296 AAATAT-TACTAAAAAACTG
1 AAATATATA-TAAAAAACTA
**
1465315 ATTTATATATAAAAAA
1 AAATATATATAAAAAA
1465331 ATCCATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 12 0.41
20 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATATATATAAAAAACTA
Found at i:1469787 original size:24 final size:23
Alignment explanation
Indices: 1469743--1469836 Score: 98
Period size: 24 Copynumber: 4.0 Consensus size: 23
1469733 GATTGTGCTA
* * *
1469743 AACATAAATAAACGCATATAAAC
1 AACATAAATGAACGAACATAAAC
* *
1469766 AAGCATAAACGAACGAACATAAATG
1 AA-CATAAATGAACGAACATAAA-C
*
1469791 AACATAAATGAATGAACATAAAC
1 AACATAAATGAACGAACATAAAC
*
1469814 GAACATAAATGAACAAACATAAA
1 -AACATAAATGAACGAACATAAA
1469837 TAAACGAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (23 bp):
AACATAAATGAACGAACATAAAC
Found at i:1469788 original size:14 final size:14
Alignment explanation
Indices: 1469769--1469850 Score: 72
Period size: 14 Copynumber: 6.4 Consensus size: 14
1469759 TATAAACAAG
*
1469769 CATAAACGAACGAA
1 CATAAATGAACGAA
1469783 CATAAAT----GAA
1 CATAAATGAACGAA
*
1469793 CATAAATGAATGAA
1 CATAAATGAACGAA
1469807 CAT--A--AACGAA
1 CATAAATGAACGAA
*
1469817 CATAAATGAACAAA
1 CATAAATGAACGAA
*
1469831 CATAAATAAACGAA
1 CATAAATGAACGAA
1469845 CATAAA
1 CATAAA
1469851 AAACATATTA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
10 18 0.33
12 2 0.04
14 35 0.64
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (14 bp):
CATAAATGAACGAA
Found at i:1469793 original size:10 final size:10
Alignment explanation
Indices: 1469780--1469850 Score: 58
Period size: 10 Copynumber: 6.9 Consensus size: 10
1469770 ATAAACGAAC
1469780 GAACATAAAT
1 GAACATAAAT
1469790 GAACATAAATGAAT
1 GAACAT--A--AAT
*
1469804 GAACATAAAC
1 GAACATAAAT
1469814 GAACATAAAT
1 GAACATAAAT
1469824 GAACA-AACAT
1 GAACATAA-AT
*
1469834 -AA-ATAAAC
1 GAACATAAAT
1469842 GAACATAAA
1 GAACATAAA
1469851 AAACATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
8 2 0.04
9 8 0.16
10 29 0.58
12 2 0.04
14 9 0.18
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (10 bp):
GAACATAAAT
Found at i:1470858 original size:14 final size:14
Alignment explanation
Indices: 1470839--1470865 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1470829 TTTGCAGTAA
1470839 GGCGCGCCCCCTGT
1 GGCGCGCCCCCTGT
1470853 GGCGCGCCCCCTG
1 GGCGCGCCCCCTG
1470866 CAGCGCGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.52, G:0.37, T:0.11
Consensus pattern (14 bp):
GGCGCGCCCCCTGT
Found at i:1470871 original size:14 final size:14
Alignment explanation
Indices: 1470840--1470873 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1470830 TTGCAGTAAG
**
1470840 GCGCGCCCCCTGTG
1 GCGCGCCCCCTGCA
1470854 GCGCGCCCCCTGCA
1 GCGCGCCCCCTGCA
1470868 GCGCGC
1 GCGCGC
1470874 TATACGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.53, G:0.35, T:0.09
Consensus pattern (14 bp):
GCGCGCCCCCTGCA
Found at i:1477057 original size:2 final size:2
Alignment explanation
Indices: 1477050--1477092 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1477040 TATTATTGTG
1477050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1477092 A
1 A
1477093 ATTTTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1477267 original size:2 final size:2
Alignment explanation
Indices: 1477260--1477303 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1477250 AAACTTTAAC
1477260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1477302 AT
1 AT
1477304 CTATTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1478187 original size:10 final size:9
Alignment explanation
Indices: 1478152--1478250 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
1478142 GCTGCTGGAA
*
1478152 ACCGGTTTA
1 ACCGGTTTG
*
1478161 ACCGGTTTTCA
1 ACCGG-TTT-G
1478172 ACCGGTTCTG
1 ACCGGTT-TG
1478182 ACCGGTTTG
1 ACCGGTTTG
*
1478191 ACCGGTTTCA
1 ACCGGTTT-G
*
1478201 ACCGGTTCG
1 ACCGGTTTG
1478210 AACCGGTTTG
1 -ACCGGTTTG
*
1478220 ACCGGTCTG
1 ACCGGTTTG
*
1478229 AATCGGTTTG
1 -ACCGGTTTG
*
1478239 ACCGGTCTG
1 ACCGGTTTG
1478248 ACC
1 ACC
1478251 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1478196 original size:19 final size:19
Alignment explanation
Indices: 1478153--1478250 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
1478143 CTGCTGGAAA
* * *
1478153 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
1478173 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
1478192 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
1478212 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
1478231 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
1478249 CC
1 CC
1478251 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:1478214 original size:29 final size:30
Alignment explanation
Indices: 1478151--1478250 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
1478141 GGCTGCTGGA
*
1478151 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
1478182 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
1478210 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
1478239 -ACCGGTCTGACC
1 AACCGGTTTGACC
1478251 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:1478257 original size:5 final size:5
Alignment explanation
Indices: 1478247--1478304 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
1478237 TGACCGGTCT
* *
1478247 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
*
1478296 GACCT GACC
1 GACCC GACC
1478305 GTTGACCGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 36 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.50, G:0.22, T:0.09
Consensus pattern (5 bp):
GACCC
Found at i:1478273 original size:22 final size:22
Alignment explanation
Indices: 1478247--1478311 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
1478237 TGACCGGTCT
1478247 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1478269 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
1478291 GACCCGACCTGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1478312 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1478312 original size:7 final size:7
Alignment explanation
Indices: 1478300--1478331 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1478290 CGACCCGACC
1478300 TGACCGT
1 TGACCGT
1478307 TGACCGT
1 TGACCGT
1478314 TGACCGT
1 TGACCGT
*
1478321 TGACCAT
1 TGACCGT
1478328 TGAC
1 TGAC
1478332 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (7 bp):
TGACCGT
Found at i:1485492 original size:20 final size:21
Alignment explanation
Indices: 1485467--1485505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1485457 GGCTGCTGGA
1485467 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
1485487 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
1485506 GACCGGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:1485525 original size:5 final size:5
Alignment explanation
Indices: 1485515--1485594 Score: 79
Period size: 5 Copynumber: 14.8 Consensus size: 5
1485505 TGACCGGTCT
* *
1485515 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
*
1485564 GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACC--C GACCC GACCC GACCC GACC
1485595 GTTGACCGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
5 51 0.81
7 12 0.19
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:1485541 original size:22 final size:22
Alignment explanation
Indices: 1485515--1485601 Score: 174
Period size: 22 Copynumber: 4.0 Consensus size: 22
1485505 TGACCGGTCT
1485515 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1485537 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1485559 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1485581 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1485602 GTTGACCGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1485601 original size:17 final size:15
Alignment explanation
Indices: 1485513--1485594 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 15
1485503 TTTGACCGGT
1485513 CTGACCCGACCCGAC
1 CTGACCCGACCCGAC
1485528 CGTTGACCCGACCCGAC
1 C--TGACCCGACCCGAC
* *
1485545 CCGACCGTTGACCCGAC
1 CTGACC--CGACCCGAC
* *
1485562 CCGACCCGACCGTTGAC
1 CTGACCCGACC--CGAC
*
1485579 CCGACCCGACCCGAC
1 CTGACCCGACCCGAC
1485594 C
1 C
1485595 GTTGACCGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
15 13 0.23
17 43 0.77
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.09
Consensus pattern (15 bp):
CTGACCCGACCCGAC
Found at i:1485603 original size:7 final size:7
Alignment explanation
Indices: 1485591--1485621 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1485581 GACCCGACCC
1485591 GACCGTT
1 GACCGTT
1485598 GACCGTT
1 GACCGTT
1485605 GACCGTT
1 GACCGTT
1485612 GACCGTT
1 GACCGTT
1485619 GAC
1 GAC
1485622 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1489907 original size:2 final size:2
Alignment explanation
Indices: 1489864--1489888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1489854 AGAAGGAGGG
1489864 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1489889 GAGGTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1490506 original size:44 final size:44
Alignment explanation
Indices: 1490445--1490539 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
1490435 GCTGTATATT
1490445 TTTG-AAT-CGACTCTTCGTTTATATTTTGACATCTATCAACTG
1 TTTGAAATACGACTCTTCGTTTATATTTTGACATCTATCAACTG
*
1490487 TTTGAAATACGACTCTTCGTTTATATTTTGATATCTATCAACTG
1 TTTGAAATACGACTCTTCGTTTATATTTTGACATCTATCAACTG
1490531 TTTGAAATA
1 TTTGAAATA
1490540 TTATGTCATC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 4 0.08
43 3 0.06
44 43 0.86
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (44 bp):
TTTGAAATACGACTCTTCGTTTATATTTTGACATCTATCAACTG
Found at i:1492747 original size:20 final size:20
Alignment explanation
Indices: 1492722--1492793 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1492712 TAGTTCACGG
1492722 AATGTAAGATTA-CTAGTGAA
1 AATGTAAGATTATC-AGTGAA
* *
1492742 AATGTAAGATTATCGGTGAG
1 AATGTAAGATTATCAGTGAA
*
1492762 AATGTAAGATTATCAGTGGA
1 AATGTAAGATTATCAGTGAA
1492782 AATGTAAGATTA
1 AATGTAAGATTA
1492794 CAAGGGAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 45 0.98
21 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.31
Consensus pattern (20 bp):
AATGTAAGATTATCAGTGAA
Found at i:1492874 original size:31 final size:31
Alignment explanation
Indices: 1492833--1492903 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
1492823 ATTTTGTGTT
* *
1492833 TGATTGGTTTAGTAGGAATGTAAGATTATTG
1 TGATTGGTTTAGCAGGAATGTAAGATTACTG
* *
1492864 TGTTTGGTTTAGCATGAATGTAAGATTACTG
1 TGATTGGTTTAGCAGGAATGTAAGATTACTG
1492895 TGATTGGTT
1 TGATTGGTT
1492904 AAAGGAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (31 bp):
TGATTGGTTTAGCAGGAATGTAAGATTACTG
Found at i:1493812 original size:2 final size:2
Alignment explanation
Indices: 1493805--1493838 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1493795 ATGTTTCCAG
1493805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1493839 TGTAATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1518551 original size:19 final size:20
Alignment explanation
Indices: 1518527--1518579 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
1518517 AATGACCAAC
*
1518527 AAAATCGCAACGCGAA-ATA
1 AAAATCGCAACGCGAACACA
1518546 AAAATCGCAACGCGAACACA
1 AAAATCGCAACGCGAACACA
*
1518566 TAAATCGCAACGCG
1 AAAATCGCAACGCG
1518580 TATCCGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.09
Consensus pattern (20 bp):
AAAATCGCAACGCGAACACA
Found at i:1518572 original size:20 final size:20
Alignment explanation
Indices: 1518528--1518877 Score: 235
Period size: 20 Copynumber: 17.6 Consensus size: 20
1518518 ATGACCAACA
** *
1518528 AAATCGCAACGCG-AAATAA
1 AAATCGCAACGCGTAACCAT
1518547 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* *
1518567 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1518587 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
1518607 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
1518627 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1518647 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1518667 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * * *
1518687 AAACCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1518707 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1518727 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1518747 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1518767 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* *
1518787 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1518807 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
1518827 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
1518847 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
1518867 AAATCGCAACG
1 AAATCGCAACG
1518878 AGAATCTGTA
Statistics
Matches: 293, Mismatches: 31, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
19 19 0.06
20 270 0.92
21 4 0.01
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1518610 original size:40 final size:40
Alignment explanation
Indices: 1518547--1518896 Score: 456
Period size: 40 Copynumber: 8.8 Consensus size: 40
1518537 CGCGAAATAA
* *
1518547 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGT
* **
1518587 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *
1518627 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *
1518667 AAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
*
1518707 AAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
*
1518747 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGT
*
1518787 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGT
* * * *
1518827 AAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGT
* * * *
1518867 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGTATCCGTAAATCGCAAC
1518897 ACTGAAATTT
Statistics
Matches: 285, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 282 0.99
41 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:1518630 original size:60 final size:60
Alignment explanation
Indices: 1518547--1518896 Score: 456
Period size: 60 Copynumber: 5.8 Consensus size: 60
1518537 CGCGAAATAA
* * *
1518547 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
** * *
1518607 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *
1518667 AAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *
1518727 AAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGT
* * * *
1518787 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGT
* * * * *
1518847 AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTAAATCGCAAC
1518897 ACTGAAATTT
Statistics
Matches: 257, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
59 3 0.01
60 253 0.98
61 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:1518878 original size:20 final size:19
Alignment explanation
Indices: 1518566--1518896 Score: 392
Period size: 20 Copynumber: 16.6 Consensus size: 19
1518556 CGCGAACACA
1518566 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
1518586 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
1518606 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
1518626 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1518646 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
1518666 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1518686 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
1518706 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1518726 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
1518746 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1518766 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
1518786 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
1518806 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
1518826 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
1518846 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
1518866 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
1518886 TAAATCACAAC
1 TAAATCGCAAC
1518897 ACTGAAATTT
Statistics
Matches: 276, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
19 2 0.01
20 273 0.99
21 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:1519807 original size:12 final size:12
Alignment explanation
Indices: 1519790--1519814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1519780 ATATAATCCT
1519790 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1519802 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1519814 G
1 G
1519815 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1522142 original size:19 final size:19
Alignment explanation
Indices: 1522120--1522398 Score: 372
Period size: 19 Copynumber: 15.4 Consensus size: 19
1522110 CGGAAAATAC
*
1522120 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1522139 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1522153 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1522173 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1522187 AATCGCAATGCGAAATGAG
1 AATCGCAATGCGAAATGAA
1522206 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522225 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522244 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522263 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
1522282 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
1522296 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1522315 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
1522334 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522353 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522372 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522391 AATCGCAA
1 AATCGCAA
1522399 CGAGATAATC
Statistics
Matches: 233, Mismatches: 11, Indels: 32
0.84 0.04 0.12
Matches are distributed among these distances:
14 27 0.12
15 3 0.01
16 8 0.03
17 7 0.03
18 4 0.02
19 171 0.73
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1522300 original size:90 final size:87
Alignment explanation
Indices: 1522120--1522376 Score: 326
Period size: 90 Copynumber: 2.9 Consensus size: 87
1522110 CGGAAAATAC
* *
1522120 AATCGCAACGCGAAATGAAAATCCCAA-C---ATGAAAATCGCAATGCGGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAA
* * * *
1522181 CGAGAGAATCG-CAATGCGAAATGAG
65 TGCGA-AAT-GAAAAT-CGAAACGAG
1522206 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAAT-CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
1522271 TGCGAAATGAAAATCGAACCGACAT
65 TGCGAAATGAAAATCGAAACG--AG
*
1522296 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAAT-CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1522361 TGCGAAATGAAAATCG
65 TGCGAAATGAAAATCG
1522377 CAATGCGAAA
Statistics
Matches: 153, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
86 25 0.16
88 7 0.05
89 6 0.04
90 99 0.65
91 16 0.10
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (87 bp):
AATCGCAATGCGAAATGAAAATCGCAATCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAT
GCGAAATGAAAATCGAAACGAG
Found at i:1522474 original size:109 final size:109
Alignment explanation
Indices: 1522120--1522435 Score: 484
Period size: 109 Copynumber: 2.9 Consensus size: 109
1522110 CGGAAAATAC
* *
1522120 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* * *
1522180 ACGAGAGAATCGCAATGCGAAATGAGAATCGCAATGCGAAATGAA
65 ACGAGATAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1522225 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG-AA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
1522289 CCGACATAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
66 -CGAGATAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1522334 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
1522399 CGAGATAATCGCAATGCGAAATTATAA-CGCATTGCGA
66 CGAGATAATCGCAATGCGAAATTAAAATCGCAATGCGA
1522436 TTTTCATTTC
Statistics
Matches: 193, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
105 25 0.13
107 1 0.01
108 10 0.05
109 139 0.72
110 18 0.09
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (109 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
CGAGATAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
Found at i:1522535 original size:19 final size:19
Alignment explanation
Indices: 1522426--1522527 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1522416 GAAATTATAA
1522426 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1522445 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1522465 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1522481 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1522498 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1522517 CGCATTGCGAT
1 CGCATTGCGAT
1522528 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1522653 original size:14 final size:14
Alignment explanation
Indices: 1522634--1522670 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1522624 CATCAATTAC
1522634 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1522648 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1522662 ACAAATCAA
1 ACAAATCAA
1522671 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1524649 original size:14 final size:14
Alignment explanation
Indices: 1524630--1524686 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1524620 GCGAAATGAA
*
1524630 AATCGCAACGACAG
1 AATCGCAACGAAAG
1524644 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1524661 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1524677 AATCGCAACG
1 AATCGCAACG
1524687 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1524657 original size:33 final size:33
Alignment explanation
Indices: 1524611--1524703 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1524601 GCGAAACCAA
*
1524611 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1524644 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1524677 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1524704 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1524668 original size:19 final size:19
Alignment explanation
Indices: 1524574--1524708 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1524564 TAGTTTACTT
* *
1524574 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1524594 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1524613 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1524632 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1524646 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1524665 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1524679 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1524698 TCGCAATGCGA
1 TCGCAACGCGA
1524709 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1524726 original size:19 final size:19
Alignment explanation
Indices: 1524704--1524832 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1524694 AAAATCGCAA
1524704 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1524723 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1524737 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1524756 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1524770 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1524789 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1524808 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1524828 TGCGA
1 TGCGA
1524833 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1524746 original size:33 final size:33
Alignment explanation
Indices: 1524704--1524795 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1524694 AAAATCGCAA
1524704 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1524737 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1524770 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1524796 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1525035 original size:93 final size:93
Alignment explanation
Indices: 1524876--1525345 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
1524866 TTGAATGGAT
1524876 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1524941 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1524969 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525034 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1525062 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525126 AGTTTAGCAGAATTGGCAGCAA-CGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1525153 AAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525216 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1525244 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525309 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1525337 AAATTTACT
1 AAATTTACT
1525346 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
89 14 0.04
90 58 0.16
91 34 0.09
92 58 0.16
93 209 0.56
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1525246 original size:182 final size:186
Alignment explanation
Indices: 1524876--1525345 Score: 912
Period size: 182 Copynumber: 2.5 Consensus size: 186
1524866 TTGAATGGAT
1524876 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1524941 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1525006 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1525062 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525126 AGTTTAGCAGAATTGGCAGCAA-CGAACAAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1525189 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1525244 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1525309 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1525346 AAGCAATCTA
Statistics
Matches: 282, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
182 107 0.38
183 58 0.21
184 31 0.11
185 32 0.11
186 54 0.19
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1527068 original size:14 final size:14
Alignment explanation
Indices: 1527049--1527138 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1527039 TTGAAATGAA
1527049 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1527063 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1527080 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1527096 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1527115 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1527129 AATCGCAACG
1 AATCGCAACG
1527139 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1527086 original size:33 final size:33
Alignment explanation
Indices: 1527041--1527155 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1527031 TCTTTTGGTT
1527041 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1527074 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1527107 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1527140 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1527156 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1527087 original size:19 final size:18
Alignment explanation
Indices: 1527048--1527160 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1527038 GTTGAAATGA
1527048 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1527063 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1527080 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1527096 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1527113 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1527129 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1527146 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1527161 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1527191 original size:14 final size:14
Alignment explanation
Indices: 1527172--1527226 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1527162 TTTGGTTTCG
1527172 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1527186 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
1527205 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1527219 CGTTGCGA
1 CGTTGCGA
1527227 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1527389 original size:33 final size:33
Alignment explanation
Indices: 1527347--1527417 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1527337 AATACTAACT
*
1527347 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1527380 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1527413 TGAAA
1 TGAAA
1527418 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1527651 original size:22 final size:22
Alignment explanation
Indices: 1527599--1527653 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1527589 TGGTTGTGAG
**
1527599 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1527621 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1527643 GGATTTCTTCG
1 GGATTTCTTCG
1527654 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1527824 original size:20 final size:20
Alignment explanation
Indices: 1527799--1527992 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
1527789 CTTTAAATAT
1527799 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1527819 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1527841 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1527860 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1527880 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1527900 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1527920 CACGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
* *
1527940 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1527960 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1527980 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1527993 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1527986 original size:60 final size:60
Alignment explanation
Indices: 1527799--1527992 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1527789 CTTTAAATAT
**
1527799 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1527860 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * * ** *
1527920 CACGTTGCGATTTATGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1527980 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1527993 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1528009 original size:21 final size:20
Alignment explanation
Indices: 1527985--1528061 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
1527975 ATATTCGCGT
1527985 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
1528006 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
1528026 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
1528048 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
1528062 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:1528072 original size:20 final size:20
Alignment explanation
Indices: 1528047--1528098 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1528037 AAGAATCGCG
*
1528047 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1528067 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1528087 TTGCGATTCTGG
1 TTGCGATTCTGG
1528099 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1528367 original size:12 final size:12
Alignment explanation
Indices: 1528350--1528392 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
1528340 TGATACTTAT
1528350 AAAATATCTTTG
1 AAAATATCTTTG
1528362 AAAATATCTTTG
1 AAAATATCTTTG
1528374 AAAATATCTTTG
1 AAAATATCTTTG
1528386 AAAATAT
1 AAAATAT
1528393 ATAAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (12 bp):
AAAATATCTTTG
Found at i:1530376 original size:22 final size:23
Alignment explanation
Indices: 1530332--1530378 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1530322 TAAATTACAT
*
1530332 TTATATTTTTAACTAATTTATAA
1 TTATATGTTTAACTAATTTATAA
*
1530355 TTATATGTTTAA-TACTTTATAA
1 TTATATGTTTAACTAATTTATAA
1530377 TT
1 TT
1530379 TAACATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATATGTTTAACTAATTTATAA
Found at i:1531144 original size:2 final size:2
Alignment explanation
Indices: 1531133--1531164 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1531123 TCCCCTTTAT
1531133 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1531165 GCTCTGAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1538229 original size:29 final size:29
Alignment explanation
Indices: 1538193--1538261 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
1538183 AGTATATTTT
* * *
1538193 ATTATATTTAATATTTTTAGTAATTTATTTA
1 ATTAT-TTTAAT-TGTTTAATAATTTATTCA
*
1538224 ATTATTTTAATTGTTTAATATTTTATTCA
1 ATTATTTTAATTGTTTAATAATTTATTCA
1538253 ATTAATTTT
1 ATT-ATTTT
1538262 TTTTTTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 17 0.52
30 11 0.33
31 5 0.15
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTATTTTAATTGTTTAATAATTTATTCA
Found at i:1540461 original size:13 final size:13
Alignment explanation
Indices: 1540443--1540489 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1540433 TATTTAGTAC
*
1540443 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
1540456 TGTTTATTGGACT
1 TTTTTATTGTAAT
1540469 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1540482 TTTTTATT
1 TTTTTATT
1540490 ATTTATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.13, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1544720 original size:74 final size:73
Alignment explanation
Indices: 1544641--1544788 Score: 208
Period size: 73 Copynumber: 2.0 Consensus size: 73
1544631 ATTTAATATT
* * * *
1544641 AGAGAAAATAACTTCAGTGACC-GAAAATGCCTTATAATATACGATTTTAACCATCTTTTTTTGG
1 AGAGAAAATAACCTCAGTGACCAAAAAAAG--TTATAATATACGATTTTAACCAACTTTTTTTGG
1544705 ATTTGCAAAA
64 ATTTGCAAAA
**
1544715 AGAGAAAATCGCCTCAGTGACCAAAAAAAGTTATAATATACGATTTTAACCAACTTTTTTTGGAT
1 AGAGAAAATAACCTCAGTGACCAAAAAAAGTTATAATATACGATTTTAACCAACTTTTTTTGGAT
*
1544780 TTGCCAAA
66 TTGCAAAA
1544788 A
1 A
1544789 TGACCAACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
73 42 0.64
74 19 0.29
75 5 0.08
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (73 bp):
AGAGAAAATAACCTCAGTGACCAAAAAAAGTTATAATATACGATTTTAACCAACTTTTTTTGGAT
TTGCAAAA
Found at i:1544960 original size:20 final size:20
Alignment explanation
Indices: 1544937--1545108 Score: 109
Period size: 20 Copynumber: 8.7 Consensus size: 20
1544927 GCAAATATGA
1544937 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
1544957 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1544977 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
***
1544997 -AATCGCAACGCGT-ATGGT
1 AAATCGCAACGCGTAACCAT
* * *
1545015 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
1545035 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
1545055 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
1545075 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
1545096 AAATCGCAACGCG
1 AAATCGCAACGCG
1545109 ATATTTAAAG
Statistics
Matches: 120, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.02
19 26 0.22
20 75 0.62
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1544964 original size:61 final size:61
Alignment explanation
Indices: 1544797--1544969 Score: 137
Period size: 61 Copynumber: 2.9 Consensus size: 61
1544787 AATGACCAAC
** *
1544797 AAATCGCAACGCGAAAT-A--AAAATCGCAACGCGATC-CCCAGAATCGCAAAT-C-AGTTTCCA
1 AAATCGCAACGC-AAATCATGAAAATCGCAACGCGA-CAATCA-AATCGC-AATGCGATTTTCCA
* * * * * * * *
1544856 AAATCGCAACGCGATTCTTGAAAATCGCAATGCGATAGTCAATTCGCATTGCGATTTTCCA
1 AAATCGCAACGCAAATCATGAAAATCGCAACGCGACAATCAAATCGCAATGCGATTTTCCA
1544917 AAATCGCAACGCAAAT-ATGAAAATCGCAACGCGAACACAT-AAATCGCAATGCG
1 AAATCGCAACGCAAATCATGAAAATCGCAACGCG-ACA-ATCAAATCGCAATGCG
1544970 TATCCGTAAA
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
58 2 0.02
59 14 0.16
60 21 0.24
61 50 0.57
62 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (61 bp):
AAATCGCAACGCAAATCATGAAAATCGCAACGCGACAATCAAATCGCAATGCGATTTTCCA
Found at i:1545025 original size:58 final size:60
Alignment explanation
Indices: 1544937--1545108 Score: 215
Period size: 58 Copynumber: 2.9 Consensus size: 60
1544927 GCAAATATGA
** * *
1544937 AAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
* ** * *
1544997 -AATCGCAACGCGT-AT-GGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCGGT
1 AAATCGCAACG-ATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
*
1545055 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGATAATACAT-AAATCGCAATGCGTATCCGTAAATCGCAACGCG
1545109 ATATTTAAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
58 39 0.41
59 23 0.24
60 1 0.01
61 31 0.33
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:1545539 original size:32 final size:33
Alignment explanation
Indices: 1545486--1545555 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
1545476 TTCACTTAGA
1545486 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1545519 TTTCATTTCGCG-TGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1545551 TTTCA
1 TTTCA
1545556 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.47
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1545679 original size:20 final size:19
Alignment explanation
Indices: 1545635--1545738 Score: 92
Period size: 19 Copynumber: 5.6 Consensus size: 19
1545625 TGCAGAAGAG
*
1545635 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAG--AAATGACAA
**
1545656 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGA-AATGACAA
*
1545676 TCGCAACGCGAAATGACAA
1 TCGCAACGAGAAATGACAA
1545695 TCGCAACGAG--AT---AA
1 TCGCAACGAGAAATGACAA
* *
1545709 TCGCAACGCGAAATGAAAA
1 TCGCAACGAGAAATGACAA
1545728 TCGCAACGAGA
1 TCGCAACGAGA
1545739 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 28 0.41
20 15 0.22
21 10 0.15
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
TCGCAACGAGAAATGACAA
Found at i:1545712 original size:14 final size:14
Alignment explanation
Indices: 1545693--1545754 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
1545683 GCGAAATGAC
*
1545693 AATCGCAACGAGAT
1 AATCGCAACGAGAA
1545707 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAA
*
1545726 AATCGCAACGAGAG
1 AATCGCAACGAGAA
*
1545740 AATCGCAACGCGAA
1 AATCGCAACGAGAA
1545754 A
1 A
1545755 CCAAAATCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 23 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAA
Found at i:1545718 original size:33 final size:33
Alignment explanation
Indices: 1545647--1545765 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
1545637 GCAACGAGAT
1545647 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
* *
1545686 AAATGACAATCGCAACGAGATAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1545719 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
1545752 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1545766 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
33 53 0.72
36 1 0.01
38 1 0.01
39 19 0.26
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:1545802 original size:14 final size:14
Alignment explanation
Indices: 1545783--1545872 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1545773 TTTTATTTCG
1545783 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1545797 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1545816 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1545830 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
1545849 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1545863 CGTTGCGATT
1 CGTTGCGATT
1545873 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1545808 original size:33 final size:33
Alignment explanation
Indices: 1545766--1545880 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1545756 CAAAATCGCA
*
1545766 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1545799 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1545832 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1545865 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1545881 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1545821 original size:19 final size:19
Alignment explanation
Indices: 1545761--1545858 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1545751 GAAACCAAAA
* *
1545761 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
1545780 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1545794 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1545813 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1545827 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
1545846 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1545859 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1547720 original size:93 final size:93
Alignment explanation
Indices: 1547561--1548024 Score: 843
Period size: 93 Copynumber: 5.1 Consensus size: 93
1547551 TAGATTGCTT
*
1547561 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1547626 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1547654 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1547719 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1547747 AGTAAATTTGTTCGGTTGCTGCC-ATTCTGCAAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1547811 TTTGTCTTTGTTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTG-TTTTGTCTTTTGGTTGAA
1547840 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTTTAACACTGTG-AA-AGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1547902 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1547930 AGT-AATTTGTTC-GTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1547993 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1548020 AGTAA
1 AGTAA
1548025 TGCATCATTC
Statistics
Matches: 361, Mismatches: 4, Indels: 14
0.95 0.01 0.04
Matches are distributed among these distances:
88 27 0.07
89 23 0.06
90 27 0.07
91 45 0.12
92 52 0.14
93 170 0.47
94 17 0.05
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1548128 original size:19 final size:19
Alignment explanation
Indices: 1548070--1548196 Score: 98
Period size: 18 Copynumber: 7.3 Consensus size: 19
1548060 TAGTTTACTT
* *
1548070 TCGCAACACGAAAGTTAAAA
1 TCGCAACGCGAAA-TCAAAA
1548090 TCGCAACGCGAAA-CAAAA
1 TCGCAACGCGAAATCAAAA
*
1548108 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
1548127 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
*
1548141 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATCAAAA
*
1548159 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAATCAAAA
*
1548173 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
1548192 TCGCA
1 TCGCA
1548197 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 28 0.32
19 19 0.22
20 12 0.14
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:1548165 original size:32 final size:31
Alignment explanation
Indices: 1548105--1548196 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 31
1548095 ACGCGAAACA
**
1548105 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAA-CCAAATCGCAACGAC
1548137 AGAATCGCAACGCGAAACCAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAATCGCAACGAC
1548169 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACC-AAATCGCA
1548197 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 1 0.02
32 31 0.56
33 23 0.42
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (31 bp):
AAATCGCAACGCGAAACCAAATCGCAACGAC
Found at i:1548194 original size:51 final size:50
Alignment explanation
Indices: 1548086--1548196 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 50
1548076 CACGAAAGTT
* *
1548086 AAAATCGCAACGCGAAACAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * * *
1548137 AGAATCGCAACGCGAAACCAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
1548188 AAAATCGCA
1 AAAATCGCA
1548197 TTGCGATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
51 39 0.78
52 3 0.06
53 8 0.16
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (50 bp):
AAAATCGCAACGCGAAACAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Done.