Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_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: 3470424
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:963483 original size:20 final size:20
Alignment explanation
Indices: 963421--963484 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 20
963411 CCAGTGGAGA
963421 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * **
963441 ATCCAATGAGGGAGAAGAA---
1 GTTC-AT-AATGAGAAGAACTT
963460 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
963480 GTTCA
1 GTTCA
963485 ACCTTTTCTC
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 2 0.06
20 7 0.23
21 2 0.06
22 9 0.29
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:963505 original size:91 final size:91
Alignment explanation
Indices: 963318--963754 Score: 686
Period size: 91 Copynumber: 4.8 Consensus size: 91
963308 AATCGATCAA
* * *
963318 CATTGCCAGTGGGGAGTTCATAATGAGAAAAACTCAT-CATATGAGGGAGAAGAAGTTC---ATG
1 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCA-ATGAGGGAGAAGAAGTTCATAATG
963379 AGAAGAACTTGTTCAACCTTGGCTCAG
65 AGAAGAACTTGTTCAACCTTGGCTCAG
*
963406 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTTATCCAATGAGGGAGAAGAAGTTCATAATGA
1 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
**
963471 GAAGAACTTGTTCAACCTTTTCTCAG
66 GAAGAACTTGTTCAACCTTGGCTCAG
*
963497 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGAGAGAAGAAGTTCATAATGA
1 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
* * *
963562 GAAGAATTTGTTCAACCTTGGCTTAA
66 GAAGAACTTGTTCAACCTTGGCTCAG
*
963588 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAACAAGTTCATAATGA
1 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
* *
963653 GAAGAACTTGTTCAACATTGGCTCAT
66 GAAGAACTTGTTCAACCTTGGCTCAG
* * *
963679 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCC-GTGAAGGAGAATAAGTTCATAATGA
1 CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
963743 GAAGAACTTGTT
66 GAAGAACTTGTT
963755 AATTCTGGCT
Statistics
Matches: 323, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
88 51 0.16
89 2 0.01
90 34 0.11
91 236 0.73
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (91 bp):
CATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTGGCTCAG
Found at i:964048 original size:96 final size:96
Alignment explanation
Indices: 963760--964108 Score: 476
Period size: 96 Copynumber: 3.7 Consensus size: 96
963750 TTGTTAATTC
* * * *
963760 TGGCTCATCCATCGCATACGGTGTTGGATCA--A-CATC-ACATTGTCATTCTTGCTCGATTTCA
1 TGGCTCATCCATCACATAAGGAGTTGGATCAGCATCATCAACATTGTCATTCTTGCTCGATTCCA
963821 TCACATACGGAGTTGGAACAGCACCAATACT
66 TCACATACGGAGTTGGAACAGCACCAATACT
*
963852 TGGCTCATCCATCACA-AACGGGAGTTGGATCAGCATCATCAAACATTGTCATTCTTGCTCTATT
1 TGGCTCATCCATCACATAA--GGAGTTGGATCAGCATCATC-AACATTGTCATTCTTGCTCGATT
*
963916 CCATCACATACGGAGTTGGAACAGCACCAATGCT
63 CCATCACATACGGAGTTGGAACAGCACCAATACT
* * *
963950 TGGCTCATCCATCGCATAAGGAGTTAGATCAGCATCATCAACATTGTTATTCTTGCTCGATTCCA
1 TGGCTCATCCATCACATAAGGAGTTGGATCAGCATCATCAACATTGTCATTCTTGCTCGATTCCA
* * * *
964015 TCACATACAGAGTTAGAACAACACCGATACT
66 TCACATACGGAGTTGGAACAGCACCAATACT
* * *
964046 TGGCTCATCCATCACATACGGAGTTGGATCAGAATCATCAACATTGTTATT-TTCGCTCGATTC
1 TGGCTCATCCATCACATAAGGAGTTGGATCAGCATCATCAACATTGTCATTCTT-GCTCGATTC
964109 ATTGCATATG
Statistics
Matches: 229, Mismatches: 19, Indels: 14
0.87 0.07 0.05
Matches are distributed among these distances:
91 1 0.00
92 15 0.07
93 11 0.05
95 3 0.01
96 110 0.48
97 19 0.08
98 68 0.30
99 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
TGGCTCATCCATCACATAAGGAGTTGGATCAGCATCATCAACATTGTCATTCTTGCTCGATTCCA
TCACATACGGAGTTGGAACAGCACCAATACT
Found at i:967348 original size:16 final size:16
Alignment explanation
Indices: 967327--967360 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
967317 AGGGGAGGAT
967327 TGGAGCCTAATTTATG
1 TGGAGCCTAATTTATG
967343 TGGAGCCTAATTTATG
1 TGGAGCCTAATTTATG
967359 TG
1 TG
967361 TTGTAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (16 bp):
TGGAGCCTAATTTATG
Found at i:969226 original size:10 final size:9
Alignment explanation
Indices: 969211--969272 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
969201 GATAAAATAG
*
969211 AGAAAAAGA
1 AGAAAAAAA
969220 AGAAAAAAA
1 AGAAAAAAA
969229 TAGAAAAAAGA
1 -AGAAAAAA-A
*
969240 AGAGAAAAAT
1 AGA-AAAAAA
969250 AGAAAAAAA
1 AGAAAAAAA
* *
969259 ATAAAAATA
1 AGAAAAAAA
969268 AGAAA
1 AGAAA
969273 GAAGAAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
9 24 0.55
10 14 0.32
11 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:969236 original size:20 final size:20
Alignment explanation
Indices: 969204--969278 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
969194 TCAAGTTGAT
969204 AAAATAGAGAAAAAGAAGAAA
1 AAAATAGA-AAAAAGAAGAAA
*
969225 AAAATAGAAAAAAGAAGAGA
1 AAAATAGAAAAAAGAAGAAA
*
969245 AAAATAGAAAAAA-AATAAA
1 AAAATAGAAAAAAGAAGAAA
* *
969264 AATA-AGAAAGAAGAA
1 AAAATAGAAAAAAGAA
969279 AATAGACAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 7 0.15
19 9 0.19
20 24 0.50
21 8 0.17
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAATAGAAAAAAGAAGAAA
Found at i:969244 original size:31 final size:31
Alignment explanation
Indices: 969209--969280 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
969199 TTGATAAAAT
969209 AGAGAAAAAGAAG-AAAAAAATAGAAAA-AAGA
1 AGAGAAAAA-AAGAAAAAAAATA-AAAATAAGA
*
969240 AGAGAAAAATAGAAAAAAAATAAAAATAAGA
1 AGAGAAAAAAAGAAAAAAAATAAAAATAAGA
*
969271 A-AGAAGAAAA
1 AGAGAAAAAAA
969281 TAGACAGATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 13 0.36
31 23 0.64
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (31 bp):
AGAGAAAAAAAGAAAAAAAATAAAAATAAGA
Found at i:971180 original size:2 final size:2
Alignment explanation
Indices: 971173--971198 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
971163 ATTTTAGGGT
971173 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
971199 CCGATTCATA
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:976699 original size:20 final size:19
Alignment explanation
Indices: 976674--976723 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
976664 TGAAAAGATT
976674 TAATAAAATAAAATA-GATAA
1 TAATAAAATAAAA-AGGA-AA
976694 TAAT-AAATAAAAAGGGAAA
1 TAATAAAATAAAAA-GGAAA
976713 TAATAAAATAA
1 TAATAAAATAA
976724 TAAATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAATAAAATAAAAAGGAAA
Found at i:977502 original size:76 final size:75
Alignment explanation
Indices: 977390--977612 Score: 376
Period size: 76 Copynumber: 2.9 Consensus size: 75
977380 AACAAGCTAA
* * *
977390 AATATCTTAAAA-TGTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATA
1 AATATCCTAAAACT-TAATTAAAATAC-TAAAACTATTTAAATTAAAATACCTAAAACAAAGATA
977454 AAATATAAAAAT
64 AAATATAAAAAT
*
977466 AATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAATTAAAATACCTAAAACAAATATAA
1 AATATCCTAAAACTTAATTAAAATACTAAAA-CTATTTAAATTAAAATACCTAAAACAAAGATAA
977531 AATATAAAAAT
65 AATATAAAAAT
977542 AATATCCTAAAACTTAATTAAAATACTAAAACTATTTAAATTAAAATACCTAAAACAAAGATAAA
1 AATATCCTAAAACTTAATTAAAATACTAAAACTATTTAAATTAAAATACCTAAAACAAAGATAAA
977607 ATATAA
66 ATATAA
977613 TATTTAAAAT
Statistics
Matches: 140, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
75 44 0.31
76 95 0.68
77 1 0.01
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.28
Consensus pattern (75 bp):
AATATCCTAAAACTTAATTAAAATACTAAAACTATTTAAATTAAAATACCTAAAACAAAGATAAA
ATATAAAAAT
Found at i:977552 original size:32 final size:32
Alignment explanation
Indices: 977511--977572 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
977501 TTTAAATTAA
977511 AATACCTAAAAC-AAATATAAAATA-TAAAAAT
1 AATACCTAAAACTAAAT-TAAAATACTAAAAAT
*
977542 AATATCCTAAAACTTAATTAAAATACTAAAA
1 AATA-CCTAAAACTAAATTAAAATACTAAAA
977573 CTATTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (32 bp):
AATACCTAAAACTAAATTAAAATACTAAAAAT
Found at i:979480 original size:11 final size:11
Alignment explanation
Indices: 979443--979481 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
979433 AGTTTGCTAA
*
979443 AAAATAAAATAA
1 AAAATAAAAT-G
979455 AAAATAAAA-G
1 AAAATAAAATG
979465 AAAATAAAATG
1 AAAATAAAATG
979476 AAAATA
1 AAAATA
979482 GAACAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 7 0.28
12 9 0.36
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:982431 original size:15 final size:16
Alignment explanation
Indices: 982382--982432 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
982372 TGAAAAGATT
982382 TAATAAAATAGATAATAA
1 TAATAAAATAGAT-A-AA
*
982400 TAAATAAAA-AGAGAAA
1 T-AATAAAATAGATAAA
982416 TAATAAAATA-ATAAA
1 TAATAAAATAGATAAA
982431 TA
1 TA
982433 TTAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 13 0.45
16 4 0.14
17 1 0.03
18 4 0.14
19 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
TAATAAAATAGATAAA
Found at i:983205 original size:76 final size:76
Alignment explanation
Indices: 983104--983312 Score: 366
Period size: 76 Copynumber: 2.8 Consensus size: 76
983094 TCTTAAATCC
* *
983104 TAATT-AAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
983168 ATCCTAAAATT
66 ATCCTAAAACT
* *
983179 TAATTAAAATACTAAAAACTATTTAAACTAAAGTACCTAAAACAAAGATAAAATTTAAAAATAAT
1 TAATTAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
983244 ATCCTAAAACT
66 ATCCTAAAACT
983255 TAATTAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAATTAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
983313 TATTTAAAAT
Statistics
Matches: 126, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 5 0.04
76 121 0.96
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (76 bp):
TAATTAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACT
Found at i:983231 original size:44 final size:43
Alignment explanation
Indices: 983183--983309 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
983173 AAAATTTAAT
983183 TAAAATACTAAAAACTATTTAAACTAAAGTACCTAAAACAAAGA
1 TAAAATACTAAAAACTATTTAAACTAAA-TACCTAAAACAAAGA
* * *
983227 TAAAAT--TTAAAA--A--T-AA-T--AT-CCTAAAACTTAA-T
1 TAAAATACTAAAAACTATTTAAACTAAATACCTAAAAC-AAAGA
983259 TAAAATACTAAAAACTATTTAAACTAAAATACCTAAAACAAAGA
1 TAAAATACTAAAAACTATTTAAACT-AAATACCTAAAACAAAGA
983303 TAAAATA
1 TAAAATA
983310 TAATATTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 28
0.65 0.06 0.29
Matches are distributed among these distances:
32 14 0.22
33 3 0.05
34 6 0.10
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
42 5 0.08
43 4 0.06
44 21 0.33
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (43 bp):
TAAAATACTAAAAACTATTTAAACTAAATACCTAAAACAAAGA
Found at i:987178 original size:15 final size:15
Alignment explanation
Indices: 987158--987213 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
987148 TTCATGGGGT
*
987158 AAGAAGACAACGTCA
1 AAGAAGAAAACGTCA
987173 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
*
987188 AAGAAGAAAACATCA
1 AAGAAGAAAACGTCA
987203 AAGAAGGAAAA
1 AAGAA-GAAAA
987214 AAAGCATCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 33 0.87
16 5 0.13
ACGTcount: A:0.62, C:0.12, G:0.20, T:0.05
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:993129 original size:2 final size:2
Alignment explanation
Indices: 993124--993149 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
993114 TATATTTTTT
993124 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
993150 ATTTACGAAA
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:1001552 original size:14 final size:16
Alignment explanation
Indices: 1001533--1001565 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1001523 GAATAAATCT
1001533 ATAAAGAAA-AA-ATA
1 ATAAAGAAATAAGATA
1001547 ATAAAGAAATAAGATA
1 ATAAAGAAATAAGATA
1001563 ATA
1 ATA
1001566 CTATAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
ATAAAGAAATAAGATA
Found at i:1012695 original size:609 final size:611
Alignment explanation
Indices: 1011483--1012702 Score: 2417
Period size: 609 Copynumber: 2.0 Consensus size: 611
1011473 GTTTGCCCAC
1011483 CCTCCTCACAAAATTTTATCACAAGAATTTCAAGTTCATCTTTTGATTCCAATGGTGTAAGGTTA
1 CCTCCTCACAAAATTTTATCACAAGAATTTCAAGTTCATCTTTTGATTCCAATGGTGTAAGGTTA
1011548 AGTGGATGGATATCGATATATTCTATTACTATGCTACTACAAGTGTATTCATCGATGTAATCGTT
66 AGTGGATGGATATCGATATATTCTATTACTATGCTACTACAAGTGTATTCATCGATGTAATCGTT
1011613 TCACTCATTATCCATGGTACAAGGTGGAGTAGAAGAAGAAGTGGGAGGGTTTAAAGTACCTTGGT
131 TCACTCATTATCCATGGTACAAGGTGGAGTAGAAGAAGAAGTGGGAGGGTTTAAAGTACCTTGGT
1011678 AAGTAGATGAAGTACCTTGGTAAGTGTCTGGTAAAGGATACTTCCTTTGTAATTGTGATTCGATT
196 AAGTAGATGAAGTACCTTGGTAAGTGTCTGGTAAAGGATACTTCCTTTGTAATTGTGATTCGATT
1011743 GCCATTGTTTTCTTCAGAATATCTTAAAGGCTTTCATAACCATGCAATTCAAGAAGATCAACGAT
261 GCCATTGTTTTCTTCAGAATATCTTAAAGGCTTTCATAACCATGCAATTCAAGAAGATCAACGAT
1011808 GTTTGGATGCAATCCGGTGAAAAATATTGTAAAACCCTAAAATTTTAATTATTGACAAAAATATA
326 GTTTGGATGCAATCCGGTGAAAAATATTGTAAAACCCTAAAATTTTAATTATTGACAAAAATATA
1011873 AAATTTGAAAGTTTAGTAGCCAAAGTATAAACTTGGGAGAAGTTAAAGGACCAAAGTAGTACTTT
391 AAATTTGAAAGTTTAGTAGCCAAAGTATAAACTTGGGAGAAGTTAAAGGACCAAAGTAGTACTTT
1011938 TCCTATAAAGAAATTTTATCCCATAAATTAATAGTTTACCCCATGAATGATATTTTCGTGGGAAT
456 TCCTATAAAGAAATTTTATCCCATAAATTAATAGTTTACCCCATGAATGATATTTTCGTGGGAAT
1012003 CAGATTTCGGATACGAATCTTGTATTAAAAGCTATAAAGTGTTAAAGTCTGGTAAAAAGTTGGTA
521 CAGATTTCGGATACGAATCTTGTATTAAAAGCTATAAAGTGTTAAAGTCTGGTAAAAAGTTGGTA
1012068 AATCATATCGAATATAAATTTTGAGA
586 AATCATATCGAATATAAATTTTGAGA
1012094 CCTCCTCACAAAATTTTATCACAAGAATTTCAAGTTCATC-TTTGATTCCAAT-GTGTAAGGTTA
1 CCTCCTCACAAAATTTTATCACAAGAATTTCAAGTTCATCTTTTGATTCCAATGGTGTAAGGTTA
1012157 AGTGGATGGATATCGATATATTCTATTACTATGCTACTACAAGTGTATTCATCGATGTAATCGTT
66 AGTGGATGGATATCGATATATTCTATTACTATGCTACTACAAGTGTATTCATCGATGTAATCGTT
1012222 TCACTCATTATCCATGGTACAAGGTGGAGTAGAAGAAGAAGTGGGAGGGTTTAAAGTACCTTGGT
131 TCACTCATTATCCATGGTACAAGGTGGAGTAGAAGAAGAAGTGGGAGGGTTTAAAGTACCTTGGT
1012287 AAGTAGATGAAGTACCTTGGTAAGTGTCTGGTAAAGGATACTTCCTTTGTAATTGTGATTCGATT
196 AAGTAGATGAAGTACCTTGGTAAGTGTCTGGTAAAGGATACTTCCTTTGTAATTGTGATTCGATT
1012352 GCCATTGTTTTCTTCAGAATATCTTAAAGGCTTTCATAACCATGCAATTCAAGAAGATCAACGAT
261 GCCATTGTTTTCTTCAGAATATCTTAAAGGCTTTCATAACCATGCAATTCAAGAAGATCAACGAT
*
1012417 GTTTGGATGCAATCCGGTGAAAAATATTGTAAAACCCTAAAATTTTAGTTATTGACAAAAATATA
326 GTTTGGATGCAATCCGGTGAAAAATATTGTAAAACCCTAAAATTTTAATTATTGACAAAAATATA
1012482 AAATTTGAAAGTTTAGTAGCCAAAGTATAAACTTGGGAGAAGTTAAAGGACCAAAGTAGTACTTT
391 AAATTTGAAAGTTTAGTAGCCAAAGTATAAACTTGGGAGAAGTTAAAGGACCAAAGTAGTACTTT
1012547 TCCTATAAAGAAATTTTATCCCATAAATTAATAGTTTACCCCATGAATGATATTTTCGTGGGAAT
456 TCCTATAAAGAAATTTTATCCCATAAATTAATAGTTTACCCCATGAATGATATTTTCGTGGGAAT
1012612 CAGATTTCGGATACGAATCTTGTATTAAAAGCTATAAAGTGTTAAAGTCTGGTAAAAAGTTGGTA
521 CAGATTTCGGATACGAATCTTGTATTAAAAGCTATAAAGTGTTAAAGTCTGGTAAAAAGTTGGTA
1012677 AATCATATCGAATATAAATTTTGAGA
586 AATCATATCGAATATAAATTTTGAGA
1012703 AAATTTGAAA
Statistics
Matches: 608, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
609 556 0.91
610 12 0.02
611 40 0.07
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (611 bp):
CCTCCTCACAAAATTTTATCACAAGAATTTCAAGTTCATCTTTTGATTCCAATGGTGTAAGGTTA
AGTGGATGGATATCGATATATTCTATTACTATGCTACTACAAGTGTATTCATCGATGTAATCGTT
TCACTCATTATCCATGGTACAAGGTGGAGTAGAAGAAGAAGTGGGAGGGTTTAAAGTACCTTGGT
AAGTAGATGAAGTACCTTGGTAAGTGTCTGGTAAAGGATACTTCCTTTGTAATTGTGATTCGATT
GCCATTGTTTTCTTCAGAATATCTTAAAGGCTTTCATAACCATGCAATTCAAGAAGATCAACGAT
GTTTGGATGCAATCCGGTGAAAAATATTGTAAAACCCTAAAATTTTAATTATTGACAAAAATATA
AAATTTGAAAGTTTAGTAGCCAAAGTATAAACTTGGGAGAAGTTAAAGGACCAAAGTAGTACTTT
TCCTATAAAGAAATTTTATCCCATAAATTAATAGTTTACCCCATGAATGATATTTTCGTGGGAAT
CAGATTTCGGATACGAATCTTGTATTAAAAGCTATAAAGTGTTAAAGTCTGGTAAAAAGTTGGTA
AATCATATCGAATATAAATTTTGAGA
Found at i:1018596 original size:2 final size:2
Alignment explanation
Indices: 1018589--1018624 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1018579 TTCTTTAACC
1018589 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
1018625 TCTTTTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1029696 original size:21 final size:23
Alignment explanation
Indices: 1029667--1029725 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
1029657 ACGACCCTCA
*
1029667 GTATTGATACCTCTAC-TTAG-G
1 GTATCGATACCTCTACTTTAGTG
*
1029688 GTATCGATA-CTCCACTTTAGTG
1 GTATCGATACCTCTACTTTAGTG
1029710 GTATCGATACCTCTAC
1 GTATCGATACCTCTAC
1029726 CAAAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 10 0.31
23 5 0.16
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (23 bp):
GTATCGATACCTCTACTTTAGTG
Found at i:1033203 original size:20 final size:20
Alignment explanation
Indices: 1033155--1033203 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
1033145 TTTCAAGACC
1033155 TAATTAAAATATTTTAAATTT
1 TAATT-AAATATTTTAAATTT
* *
1033176 TAAATAAATATTTT-AGTTT
1 TAATTAAATATTTTAAATTT
1033195 ATAATTAAA
1 -TAATTAAA
1033204 AATAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTAAATATTTTAAATTT
Found at i:1039689 original size:20 final size:20
Alignment explanation
Indices: 1039664--1039701 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1039654 ATCCTATTCC
1039664 TTGGTAATCTTACATTCCCA
1 TTGGTAATCTTACATTCCCA
1039684 TTGGTAATCTTACATTCC
1 TTGGTAATCTTACATTCC
1039702 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
TTGGTAATCTTACATTCCCA
Found at i:1056313 original size:16 final size:16
Alignment explanation
Indices: 1056292--1056324 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1056282 GCCACAGCAA
1056292 AATAATTCTGACCATC
1 AATAATTCTGACCATC
1056308 AATAATTCTGACCATC
1 AATAATTCTGACCATC
1056324 A
1 A
1056325 GCATAGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
AATAATTCTGACCATC
Found at i:1056455 original size:21 final size:21
Alignment explanation
Indices: 1056426--1056469 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1056416 TTATCATTGC
1056426 AAGAATTCATGGCCTCGACAA
1 AAGAATTCATGGCCTCGACAA
* * *
1056447 AAGATTTCATGGCGTCTACAA
1 AAGAATTCATGGCCTCGACAA
1056468 AA
1 AA
1056470 AACCTTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
AAGAATTCATGGCCTCGACAA
Found at i:1064775 original size:21 final size:19
Alignment explanation
Indices: 1064747--1064792 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
1064737 TCATTGAATC
1064747 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
1064767 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
1064786 ACTTAGT
1 A-TTAGT
1064793 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:1069380 original size:20 final size:21
Alignment explanation
Indices: 1069334--1069394 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
1069324 TTCCCCTGTG
*
1069334 GGGGGAATTGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1069357 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1069377 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1069395 TGCACCAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1080978 original size:2 final size:2
Alignment explanation
Indices: 1080971--1081085 Score: 62
Period size: 2 Copynumber: 59.5 Consensus size: 2
1080961 AGGTCTTTTC
** * *
1080971 AT AT AT AT AT AT AT AT -T CGG AT AT AT -T CT AT AA 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
* * * * * * *
1081012 CAG AT AT AT TT CT AT AT -T CT AT AT AT AA AT AT A- AA AA AT AT
1 -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1081053 AT AT AT -T TT A- 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 AT AT AT AT AT A
1081086 CCCTCATTCG
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
1 6 0.07
2 82 0.92
3 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1081002 original size:25 final size:26
Alignment explanation
Indices: 1080974--1081037 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
1080964 TCTTTTCATA
*
1080974 TATATATATATATTCGGATATA-TTC
1 TATATATATATATTCAGATATATTTC
*
1080999 TATAAATATATA-TCAGATATATTTC
1 TATATATATATATTCAGATATATTTC
*
1081024 TATATTCTATATAT
1 TATA-TATATATAT
1081038 AAATATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 8 0.25
25 18 0.56
26 6 0.19
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (26 bp):
TATATATATATATTCAGATATATTTC
Found at i:1081068 original size:12 final size:14
Alignment explanation
Indices: 1080999--1081085 Score: 56
Period size: 13 Copynumber: 6.4 Consensus size: 14
1080989 GGATATATTC
*
1080999 TATAAATATATATCA
1 TATATATATATAT-A
* * *
1081014 GATATATTTCTATA
1 TATATATATATATA
* *
1081028 T-TCTATATATAAA
1 TATATATATATATA
* *
1081041 TATA-AAAAATATA
1 TATATATATATATA
*
1081054 TATAT-TTTA-ATA
1 TATATATATATATA
1081066 TATATATATATATA
1 TATATATATATATA
1081080 TATATA
1 TATATA
1081086 CCCTCATTCG
Statistics
Matches: 51, Mismatches: 17, Indels: 9
0.66 0.22 0.12
Matches are distributed among these distances:
12 8 0.16
13 23 0.45
14 11 0.22
15 9 0.18
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (14 bp):
TATATATATATATA
Found at i:1081320 original size:48 final size:47
Alignment explanation
Indices: 1081261--1081351 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 47
1081251 TCAACACATA
* * *
1081261 ATTTAGATCAGATATCATAACAGAATCCAAGTTAGGAATCAGAACAG
1 ATTTAGATCAGATATCAAAACAGAATCCAAATTAGAAATCAGAACAG
* *
1081308 ATTTCAGATCAGATGTCAAAACAGAATTCAAATTAGAAATCAGA
1 ATTT-AGATCAGATATCAAAACAGAATCCAAATTAGAAATCAGA
1081352 TAAAATATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 4 0.11
48 34 0.89
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.24
Consensus pattern (47 bp):
ATTTAGATCAGATATCAAAACAGAATCCAAATTAGAAATCAGAACAG
Found at i:1090319 original size:2 final size:2
Alignment explanation
Indices: 1090303--1090338 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1090293 AAATACACAC
*
1090303 TA TA T- TA TA TT 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 TA TA T
1090339 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:1090910 original size:27 final size:27
Alignment explanation
Indices: 1090878--1090935 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
1090868 AAGGGTTCTG
1090878 CATCTCGGAGCTCACGCACCCTTCTAA
1 CATCTCGGAGCTCACGCACCCTTCTAA
1090905 CATCTCGGAGCTCACGCACCCTTCTAA
1 CATCTCGGAGCTCACGCACCCTTCTAA
1090932 CATC
1 CATC
1090936 CTGAAATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.22
Consensus pattern (27 bp):
CATCTCGGAGCTCACGCACCCTTCTAA
Found at i:1097633 original size:25 final size:25
Alignment explanation
Indices: 1097604--1097653 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1097594 GATTAAAGAC
1097604 TAAATCCTTAGGATCATAGAATTTG
1 TAAATCCTTAGGATCATAGAATTTG
1097629 TAAATCCTTAGGATCATAGAATTTG
1 TAAATCCTTAGGATCATAGAATTTG
1097654 AGTAAGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
TAAATCCTTAGGATCATAGAATTTG
Found at i:1106614 original size:16 final size:16
Alignment explanation
Indices: 1106593--1106629 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1106583 TTATAAGTTC
*
1106593 TGTTGCAATATATTGA
1 TGTTGCAATATAGTGA
1106609 TGTTGCAATATAGTGA
1 TGTTGCAATATAGTGA
1106625 TGTTG
1 TGTTG
1106630 TGTTCTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.43
Consensus pattern (16 bp):
TGTTGCAATATAGTGA
Found at i:1116668 original size:22 final size:20
Alignment explanation
Indices: 1116624--1116675 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
1116614 AACTAGGGCA
*
1116624 AGTATCGATACCCCAACACC
1 AGTATCGATACCCCAACAAC
*
1116644 AGTGTATCGATA-CTCAACATAC
1 A--GTATCGATACCCCAACA-AC
1116666 AGTATCGATA
1 AGTATCGATA
1116676 ATGCCTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 10 0.37
21 6 0.22
22 11 0.41
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (20 bp):
AGTATCGATACCCCAACAAC
Found at i:1119429 original size:25 final size:25
Alignment explanation
Indices: 1119400--1119449 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1119390 GATTAAAGAC
1119400 TAAATCCTTAGGATCATAGAATTTG
1 TAAATCCTTAGGATCATAGAATTTG
1119425 TAAATCCTTAGGATCATAGAATTTG
1 TAAATCCTTAGGATCATAGAATTTG
1119450 AGTAAGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (25 bp):
TAAATCCTTAGGATCATAGAATTTG
Found at i:1126441 original size:31 final size:31
Alignment explanation
Indices: 1126405--1126463 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1126395 AACTTAAAAG
* *
1126405 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1126436 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1126464 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1126539 original size:22 final size:22
Alignment explanation
Indices: 1126490--1126538 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1126480 ATAAATTGTT
* **
1126490 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1126512 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1126535 TAAA
1 TAAA
1126539 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1126546 original size:54 final size:54
Alignment explanation
Indices: 1126478--1127077 Score: 368
Period size: 54 Copynumber: 11.0 Consensus size: 54
1126468 ACAACTACAA
*
1126478 TAATAAATTGTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* **
1126532 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCTAT---ATTTTAA-AATAAATCAATCCATAC
** * * *
1126589 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA-
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
** * *
1126643 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C--A-
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
* * * * *
1126694 -AATACAACTA--CAATAATAAATCAATCCATATATTAAAATAAATCAATCTATAC
1 TAATA-AATTATTTAA-AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1126747 TAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATC-A---AT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
*
1126811 -AACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1126859 TAATAAATTATTTAAAATAAATCAATTCATGCTAGTAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC-A---AT-CTA-T--A-T-TTTAAAATAAATCAATCCATAC
* * *
1126923 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
1126971 TAATAAATTATTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATCCATAC
*
1127025 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATA
1127078 TTTTATAATA
Statistics
Matches: 451, Mismatches: 37, Indels: 116
0.75 0.06 0.19
Matches are distributed among these distances:
48 48 0.11
49 21 0.05
50 7 0.02
51 4 0.01
52 16 0.04
53 17 0.04
54 206 0.46
55 17 0.04
57 11 0.02
58 36 0.08
59 4 0.01
60 5 0.01
62 4 0.01
63 6 0.01
64 49 0.11
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:1126548 original size:32 final size:31
Alignment explanation
Indices: 1126510--1127055 Score: 267
Period size: 32 Copynumber: 19.7 Consensus size: 31
1126500 CAATCTATAT
1126510 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
1126542 TTTAAAATAAATCAATCTATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1126572 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
1126590 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1126622 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
1126644 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
1126676 TTTAAAATAAATCAATCAAATAC-AACTACA-A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATA
1126707 --T--AATAAATCAATCC--A-T-AT----A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1126726 -TTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1126757 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
1126789 TTTAAAATAAATCAATCTATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
1126819 --T--AATAAATCAATCTATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
1126844 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* * *
1126869 TTTAAAATAAATCAATTCATGCTAGTAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1126901 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1126931 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1126949 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1126981 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1127003 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1127035 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1127056 TTTTAAAATA
Statistics
Matches: 407, Mismatches: 27, Indels: 160
0.69 0.05 0.27
Matches are distributed among these distances:
19 1 0.00
20 3 0.01
22 85 0.21
23 10 0.02
24 8 0.02
25 10 0.02
26 53 0.13
27 12 0.03
28 9 0.02
29 3 0.01
30 5 0.01
31 9 0.02
32 192 0.47
33 7 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:1126583 original size:80 final size:80
Alignment explanation
Indices: 1126492--1126884 Score: 419
Period size: 80 Copynumber: 4.8 Consensus size: 80
1126482 AAATTGTTTA
1126492 AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
*
1126557 TCTATACAACTACAAT
66 TCTATA-AACTAAAAT
*
1126573 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
***
1126637 T-TCATATTTTAAAAT
66 TCT-ATAAACTAAAAT
* * * *
1126652 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C--A--AATACAACTA--CAATAA
1 AAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAATA-AATTATTTAA-AA
* * *
1126710 TAAATCAATCCATATATTAAAAT
58 TAAATCAATCTATAAACTAAAAT
* * *
1126733 AAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATA
1 AAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
*
1126798 AATCAATCTATACAACTACAAT
60 AATCAATCTATA-AACTAAAAT
1126820 -AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1126884 T
66 T
1126885 TCATGCTAGT
Statistics
Matches: 271, Mismatches: 22, Indels: 39
0.82 0.07 0.12
Matches are distributed among these distances:
79 6 0.02
80 125 0.46
81 67 0.25
82 8 0.03
83 1 0.00
84 4 0.01
85 8 0.03
86 44 0.16
87 8 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
TCTATAAACTAAAAT
Found at i:1126619 original size:22 final size:22
Alignment explanation
Indices: 1126544--1126618 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
1126534 ATAAATTATT
* *
1126544 TAAAATAAATCAATCTATACAA
1 TAAAATAAATCAATCCATATAA
**
1126566 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
1126592 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1126615 TAAA
1 TAAA
1126619 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
25 3 0.07
26 15 0.36
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1126648 original size:22 final size:22
Alignment explanation
Indices: 1126622--1126664 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1126612 TAATAAATTA
*
1126622 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
1126644 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1126665 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1126673 original size:22 final size:22
Alignment explanation
Indices: 1126624--1126672 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1126614 ATAAATTATT
* **
1126624 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
1126646 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1126669 TAAA
1 TAAA
1126673 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1126751 original size:18 final size:17
Alignment explanation
Indices: 1126730--1126786 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
1126720 CATATATTAA
1126730 AATAAATCAATCTATACT
1 AATAAATCAAT-TATACT
* *
1126748 AATAAAT-TATT-TA-A
1 AATAAATCAATTATACT
1126762 AATAAATCAATTCATACT
1 AATAAATCAATT-ATACT
1126780 AATAAAT
1 AATAAAT
1126787 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.16
16 1 0.03
17 4 0.13
18 14 0.45
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAAATCAATTATACT
Found at i:1126754 original size:22 final size:22
Alignment explanation
Indices: 1126708--1126753 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1126698 CAACTACAAT
*
1126708 AATAAATCAATCCATATATTAA
1 AATAAATCAATCCATATAATAA
*
1126730 AATAAATCAATCTATACTAATAA
1 AATAAATCAATCCATA-TAATAA
1126753 A
1 A
1126754 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATCAATCCATATAATAA
Found at i:1126767 original size:14 final size:14
Alignment explanation
Indices: 1126748--1126800 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1126738 AATCTATACT
1126748 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1126762 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
1126780 AATAAATTATTTAA
1 AATAAATTATTTAA
1126794 AATAAAT
1 AATAAAT
1126801 CAATCTATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1126861 original size:112 final size:112
Alignment explanation
Indices: 1126493--1127077 Score: 649
Period size: 112 Copynumber: 5.3 Consensus size: 112
1126483 AATTGTTTAA
*
1126493 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * **
1126557 TCTATAC-AACTACA--A--T--AATAAATCAATCCAT---ATTTTAA-
66 TC-ATACTAA-TAAATTATTTAAAATAAATCAATCCATACAACTACAAT
** * ** * ** **
1126595 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATTCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATC
* *
1126657 AATCCATACTAATAAATTATTTAAAATAAATCAATCAAATACAACTACAAT
63 AATTCATACTAATAAATTATTTAAAATAAATCAATC-CATACAACTACAAT
* *
1126708 AATAAATCAATCCATATATTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1126773 TCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAAT
66 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
*
1126820 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
1126885 TCATGCTAGTAAATTATTTAAAATAAATCAATCCATACAACTACAAT
66 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
*
1126932 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
** * * * *
1126997 TCATA-TTTTAAA--A--T-AAATCAATCAATACTAATA-AATTATTTAA-
66 TCATACTAATAAATTATTTAAAATAAATCAAT-C-CATACAACTA--CAAT
1127040 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1127078 TTTTATAATA
Statistics
Matches: 416, Mismatches: 44, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
101 2 0.00
102 41 0.10
103 12 0.03
104 6 0.01
106 12 0.03
107 6 0.01
108 52 0.12
109 5 0.01
111 10 0.02
112 200 0.48
113 68 0.16
114 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (112 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:1127061 original size:22 final size:22
Alignment explanation
Indices: 1127035--1127088 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1127025 TAATAAATTA
1127035 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1127057 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1127079 TTTATAATAA
1 TTTAAAATAA
1127089 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1127096 original size:15 final size:15
Alignment explanation
Indices: 1127076--1127178 Score: 111
Period size: 15 Copynumber: 7.0 Consensus size: 15
1127066 AATCAATCCA
*
1127076 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
1127091 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1127106 TATTTTATAATAAAT
1 TATTTTATAATAAAT
* *
1127121 TGTTTTAAAATAAAT
1 TATTTTATAATAAAT
*
1127136 TGTTTTATAATAAAT
1 TATTTTATAATAAAT
* **
1127151 AACCTTAT--TAAAT
1 TATTTTATAATAAAT
*
1127164 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1127179 AACCTTATTA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
13 9 0.12
15 63 0.88
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1127112 original size:30 final size:30
Alignment explanation
Indices: 1127076--1127150 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
1127066 AATCAATCCA
*
1127076 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
1127106 TATTTTATAATAAATTGTTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
1127136 TGTTTTATAATAAAT
1 TATTTTATAATAAAT
1127151 AACCTTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:1127175 original size:28 final size:28
Alignment explanation
Indices: 1127131--1127201 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
1127121 TGTTTTAAAA
* *
1127131 TAAATTGTTTTATAATAAATAACCTTAT
1 TAAATTATTTTAAAATAAATAACCTTAT
1127159 TAAATTATTTTAAAATAAATAACCTTAT
1 TAAATTATTTTAAAATAAATAACCTTAT
1127187 TAAATTA-TTTAAAAT
1 TAAATTATTTTAAAAT
1127202 TATTTTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.20
28 33 0.80
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (28 bp):
TAAATTATTTTAAAATAAATAACCTTAT
Found at i:1127703 original size:22 final size:22
Alignment explanation
Indices: 1127677--1127719 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1127667 TAATAAATTA
1127677 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1127699 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1127720 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1127728 original size:22 final size:22
Alignment explanation
Indices: 1127679--1127727 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1127669 ATAAATTATT
**
1127679 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1127701 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1127724 TAAA
1 TAAA
1127728 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1127737 original size:32 final size:32
Alignment explanation
Indices: 1127699--1128521 Score: 509
Period size: 32 Copynumber: 29.7 Consensus size: 32
1127689 CAATCCATAT
1127699 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1127731 TTTAAAATAAATCAATTCATAC-----AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1127758 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1127780 TTTAAAATAAATCAATCCACACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1127812 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1127834 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1127866 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1127896 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1127914 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1127946 TTTAAAATAAAACAATCCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1127978 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1128000 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128032 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128054 TTTAAAATAAATCAATCCAT--------A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1128076 TTTAAAATAAATAAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128108 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
1128130 TTTAAAATAAATAAATTCATACTAATAAGTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128162 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128194 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1128216 TTTAAAATAAATCAATCCATACTAATACATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1128248 TTTAAAATAAATCAATTCATAC-----AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * **
1128275 --CAATAATAAATCAATCCTTA-TTTTAAA--A
1 TTTAA-AATAAATCAATCCATACTAATAAATTA
*
1128303 -------TAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1128328 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128360 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128382 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128414 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1128436 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1128468 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1128500 TTTAAAATAAATAAATCAATAC
1 TTTAAAATAAATCAATCCATAC
1128522 AACTACAATA
Statistics
Matches: 643, Mismatches: 30, Indels: 236
0.71 0.03 0.26
Matches are distributed among these distances:
20 1 0.00
22 163 0.25
23 23 0.04
24 10 0.02
25 4 0.01
26 55 0.09
27 35 0.05
28 26 0.04
30 10 0.02
31 16 0.02
32 300 0.47
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1127765 original size:81 final size:79
Alignment explanation
Indices: 1127672--1128020 Score: 307
Period size: 81 Copynumber: 4.3 Consensus size: 79
1127662 TACAATAATA
*
1127672 AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCACACTAATAAATTATTTAAA
*
1127737 ATAAATCAATTCAT
66 ATAAATCAATCCAT
1127751 ACAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCACACTAATAAATTATTTA
1 --AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCACACTAATAAATTATTTA
1127816 AAATAAATCAATCCAT
64 AAATAAATCAATCCAT
*
1127832 -A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTA
1 AATTATTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCACACTAA-TA
*
1127893 CA--A--T--AATAAATCAATCCAT
55 AATTATTTAAAATAAATCAATCCAT
* **
1127912 -A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAATCCATGCTAATAA
1 AATTATTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCACACTAATAA
1127974 ATTATTTAAAATAAATCAATCCAT
56 ATTATTTAAAATAAATCAATCCAT
*
1127998 -A-T-TTTAAAATAAATCAATTCATA
1 AATTATTTAAAATAAATCAATCCATA
1128021 CTAATAAATT
Statistics
Matches: 242, Mismatches: 8, Indels: 39
0.84 0.03 0.13
Matches are distributed among these distances:
76 15 0.06
77 3 0.01
78 2 0.01
80 75 0.31
81 79 0.33
82 5 0.02
84 3 0.01
85 4 0.02
86 56 0.23
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (79 bp):
AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCACACTAATAAATTATTTAAA
ATAAATCAATCCAT
Found at i:1128059 original size:220 final size:217
Alignment explanation
Indices: 1127682--1128590 Score: 928
Period size: 216 Copynumber: 4.3 Consensus size: 217
1127672 AATTATTTAA
* *
1127682 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
*
1127747 ---TC-ATACAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCACACTAATAA
66 CCATCTATA-AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
*
1127808 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAA
130 ATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAA-TATTTAAAA
*
1127873 TAAATCAATCCATACAACTACAAT
194 TAAATCAATCAATACAACTACAAT
1127897 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
*
1127962 CCATGCTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATA
66 CCAT-CT-ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
* **
1128027 AATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATA-TTTTAAA-A--T-AAA
129 AATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATATTTAAAA
* * *
1128087 TAAATCTATACTAATA-AATTATTTAA-
194 TAAATCAAT-C-AATACAACTA--CAAT
* * *
1128113 AATAAATCAATCCATATTTTAAAATAAATAAATTCATACTAATAAGTTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
1128178 CCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
66 CCAT-CT-ATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
* * **
1128243 CATTATTTAAAATAAATCAATTCATACAATTACAATAATAAATCAA-TC---CT--T--AT-TTT
129 AATTATTTAAAATAAATCAA-TC-TA-TATTTTAA-AATAAATCAATTCATACTAATAAATATTT
1128299 AAAATAAATCAAT---T-C-A-TAC--T
190 AAAATAAATCAATCAATACAACTACAAT
1128319 AAT--A--AAT---TA-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT---A-AAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
* ** * *
1128372 CAATCTAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CT
66 CCATCTATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACT
*
1128432 -AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTA
125 AATAAATTATTTAAAATAAATC-A---AT-CT-AT--A-T-TTTAAAATAAATCAATTCATACTA
*
1128492 ATAAATTATTTAAAATAAATAAATCAATACAACTACAAT
180 ATAAA-TATTTAAAATAAATCAATCAATACAACTACAAT
* * *
1128531 AATAAATCAATTCATATATTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
1128591 TTATTTTAAA
Statistics
Matches: 589, Mismatches: 39, Indels: 124
0.78 0.05 0.16
Matches are distributed among these distances:
188 34 0.06
189 8 0.01
190 2 0.00
191 3 0.01
192 7 0.01
193 6 0.01
194 27 0.05
195 4 0.01
198 40 0.07
199 2 0.00
200 1 0.00
202 4 0.01
203 1 0.00
204 16 0.03
206 3 0.01
207 1 0.00
208 1 0.00
209 3 0.01
210 4 0.01
211 1 0.00
212 4 0.01
213 1 0.00
214 12 0.02
215 71 0.12
216 161 0.27
217 6 0.01
218 3 0.01
219 14 0.02
220 146 0.25
221 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (217 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
CCATCTATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA
TTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATATTTAAAATA
AATCAATCAATACAACTACAAT
Found at i:1128066 original size:18 final size:20
Alignment explanation
Indices: 1128032--1128087 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 20
1128022 TAATAAATTA
1128032 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATC-ATC-ATAT
1128054 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATC-AT-CATAT
1128076 TTTAAAATAAAT
1 TTTAAAATAAAT
1128088 AAATCTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTAAAATAAATCATCATAT
Found at i:1128336 original size:14 final size:14
Alignment explanation
Indices: 1128319--1128371 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1128309 AATTCATACT
1128319 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1128333 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
1128351 AATAAATTATTTAA
1 AATAAATTATTTAA
1128365 AATAAAT
1 AATAAAT
1128372 CAATCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1128386 original size:54 final size:54
Alignment explanation
Indices: 1127731--1128591 Score: 714
Period size: 54 Copynumber: 15.8 Consensus size: 54
1127721 TAATAAATTA
* *
1127731 TTTAAAATAAATCAATTCATAC-----AATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
* *
1127780 TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
* * *
1127834 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C-TA-TAT
** * * * * * *
1127891 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACT-AAT-AA-AT-TA-
1 TTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAAAATAAATCAATCTATAT
* * *
1127946 TTTAAAATAAAACAATCCATGCTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
*
1128000 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
** *
1128054 TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATAAATCTATACTAATAAATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T
**
1128107 ATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATAAATTC-ATACTAATAAGTT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAAT-CT-AT-A--T
*
1128161 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
* *
1128216 TTTAAAATAAATCAATCCATACTAATACATTATTTAAAATAAATCAATTCATACAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-TC-TA-TAT
** ** * * * * *
1128273 TACAATAATAAATCAATCCTTATTTTAAAATAAATCAATTCATACT-AAT-AA-AT-TA-
1 TTTAA-AATAAATCAATCC--ATACT--AATAAAT-TATTTAAAATAAATCAATCTATAT
*
1128328 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
1128382 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
1128436 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTAATAAATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC---A-AT-CT-AT--A-T
* * *
1128499 ATTTAAAATAAATAAATCAATAC-AACTACA--A--T--AATAAATCAAT-TCATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCT-ATAT
*
1128548 ATTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1128592 TATTTTAAAA
Statistics
Matches: 674, Mismatches: 72, Indels: 127
0.77 0.08 0.15
Matches are distributed among these distances:
48 33 0.05
49 38 0.06
50 24 0.04
51 5 0.01
52 10 0.01
53 12 0.02
54 391 0.58
55 18 0.03
56 4 0.01
57 12 0.02
58 42 0.06
59 6 0.01
60 16 0.02
61 4 0.01
62 21 0.03
63 15 0.02
64 23 0.03
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATAT
Found at i:1128465 original size:22 final size:22
Alignment explanation
Indices: 1128416--1128464 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1128406 ATAAATTATT
* **
1128416 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1128438 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1128461 TAAA
1 TAAA
1128465 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1128497 original size:22 final size:22
Alignment explanation
Indices: 1128472--1128577 Score: 61
Period size: 22 Copynumber: 5.2 Consensus size: 22
1128462 AAATTATTTA
1128472 AAATAAATCAATACATACTAAT
1 AAATAAATCAATACATACTAAT
* * *
1128494 AAATTATTTAA-A-ATA--AAT
1 AAATAAATCAATACATACTAAT
*
1128512 AAATCAAT-ACA-AC-TAC-AAT
1 AAATAAATCA-ATACATACTAAT
* *
1128531 -AATAAATCAATTCATA-TATT
1 AAATAAATCAATACATACTAAT
*
1128551 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATACATACTAAT
1128574 AAAT
1 AAAT
1128578 TATTTAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
17 1 0.02
18 20 0.31
19 5 0.08
20 7 0.11
21 1 0.02
22 27 0.42
23 3 0.05
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATACATACTAAT
Found at i:1128600 original size:15 final size:15
Alignment explanation
Indices: 1128571--1128673 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
1128561 AATCCATACT
1128571 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1128585 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1128600 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
1128622 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1128637 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1128652 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1128667 AATAAAT
1 AATAAAT
1128674 AACCTTATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
15 49 0.65
17 1 0.01
18 2 0.03
19 3 0.04
20 1 0.01
22 10 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1128607 original size:47 final size:47
Alignment explanation
Indices: 1128491--1128658 Score: 148
Period size: 52 Copynumber: 3.5 Consensus size: 47
1128481 AATACATACT
* * *
1128491 AATAAATTA-TTTAAAATAAATAAATCAATAC-AACTACAA-TA-AT-A
1 AATAAATTATTTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAA
*
1128535 AATCAATTCATATATTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATT-AT-T-TTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
1128585 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATA----CTAATAAATTA-TTTAA
*
1128637 AATAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
1128659 TATTTTAAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
44 7 0.07
45 1 0.01
47 23 0.22
48 24 0.23
49 5 0.05
50 8 0.08
51 9 0.09
52 26 0.25
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.39
Consensus pattern (47 bp):
AATAAATTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1134297 original size:30 final size:30
Alignment explanation
Indices: 1134277--1134418 Score: 155
Period size: 30 Copynumber: 4.8 Consensus size: 30
1134267 CACAAATAGC
*
1134277 AAAAACATAAACTTAAAGGACTAAAATAAA
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
*
1134307 AAAAATAGAAACTTAAAGGACTAAAATAAA
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
* * * *
1134337 AAATA-A-AAACTCAAGGGACTAAAATAGA
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
* * * *
1134365 AAAAATAGAAATTTAAAGAACTAAAATAAC
1 AAAAACAGAAACTTAAAGGACTAAAATAAA
* *
1134395 AAAAATAGAAAC-TCAAGGACTAAA
1 AAAAACAGAAACTTAAAGGACTAAA
1134419 CCACAGAATA
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
28 23 0.24
29 12 0.13
30 59 0.63
ACGTcount: A:0.65, C:0.09, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAAACAGAAACTTAAAGGACTAAAATAAA
Found at i:1134339 original size:58 final size:58
Alignment explanation
Indices: 1134277--1134418 Score: 180
Period size: 58 Copynumber: 2.4 Consensus size: 58
1134267 CACAAATAGC
* * *
1134277 AAAAACATAAACTTAAAGGACTAAAATAAAAAAAATAGAAACTTAAAGGACTAAAATA
1 AAAAACAAAAACTCAAAGGACTAAAATAAAAAAAATAGAAACTTAAAGAACTAAAATA
* * * *
1134335 AAAAATAAAAACTCAAGGGACTAAAATAGAAAAAATAGAAATTTAAAGAACTAAAATA
1 AAAAACAAAAACTCAAAGGACTAAAATAAAAAAAATAGAAACTTAAAGAACTAAAATA
1134393 ACAAAA-ATAGAAACTC-AAGGACTAAA
1 A-AAAACA-A-AAACTCAAAGGACTAAA
1134419 CCACAGAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 53 0.73
59 14 0.19
60 6 0.08
ACGTcount: A:0.65, C:0.09, G:0.10, T:0.16
Consensus pattern (58 bp):
AAAAACAAAAACTCAAAGGACTAAAATAAAAAAAATAGAAACTTAAAGAACTAAAATA
Found at i:1135257 original size:12 final size:12
Alignment explanation
Indices: 1135233--1135280 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
1135223 AAGTGACGAT
1135233 TATTATATATATA
1 TATTAT-TATATA
*
1135246 CATTATTATATA
1 TATTATTATATA
* *
1135258 TAATATTATAAA
1 TATTATTATATA
1135270 TATTATT-TATA
1 TATTATTATATA
1135281 AAGCCCGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
11 3 0.10
12 21 0.72
13 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTATTATATA
Found at i:1137970 original size:22 final size:22
Alignment explanation
Indices: 1137945--1137990 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1137935 ATTTCGTAAG
1137945 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
*
1137967 GATGATAGATTCTGTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
1137989 GA
1 GA
1137991 AGAAAGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (22 bp):
GATGATAGATTCTCTTTTCAAA
Found at i:1139028 original size:42 final size:43
Alignment explanation
Indices: 1138851--1139043 Score: 132
Period size: 42 Copynumber: 4.5 Consensus size: 43
1138841 TACGAGTTTG
* *
1138851 ATCTTCACGAAAGAGTAGTGAAATTAGGTTCTCAA-TCATTCA
1 ATCTTCACGGAAGAGTAGTGAAATTAGATTCTCAAGTCATTCA
* * * * * *
1138893 GTTTTCACGGAAGAGTAGTGGAA-CAGATTTTCAGCAAAGT-ATACA
1 ATCTTCACGGAAGAGTAGTGAAATTAGA--TTC-TC-AAGTCATTCA
* * * * *
1138938 AACTTCACGGAAGAGTAGTGAAGTT--A-TC-CAATTGTGAGTCTG
1 ATCTTCACGGAAGAGTAGTGAAATTAGATTCTCAA--GTCATTC-A
1138980 ATCTTCACGGAAGAGTAGTGAAATTAGATTCTCAA-TCATTCA
1 ATCTTCACGGAAGAGTAGTGAAATTAGATTCTCAAGTCATTCA
* *
1139022 ACCTTCACAGAAGAGTAGTGAA
1 ATCTTCACGGAAGAGTAGTGAA
1139044 GCAGGAGCAC
Statistics
Matches: 113, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 2 0.02
41 6 0.05
42 62 0.55
43 7 0.06
44 3 0.03
45 26 0.23
46 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (43 bp):
ATCTTCACGGAAGAGTAGTGAAATTAGATTCTCAAGTCATTCA
Found at i:1139343 original size:26 final size:26
Alignment explanation
Indices: 1139281--1139348 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
1139271 TAAAGCCCGA
1139281 AGGCCC-GATTACAAAGTAAGGCACAC
1 AGGCCCAG-TTACAAAGTAAGGCACAC
* *
1139307 AGGCCCGGTTACAAAGTAAGGCATAC
1 AGGCCCAGTTACAAAGTAAGGCACAC
* *
1139333 ATGCCTAGTTACAAAG
1 AGGCCCAGTTACAAAG
1139349 CAAATCACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (26 bp):
AGGCCCAGTTACAAAGTAAGGCACAC
Found at i:1142247 original size:130 final size:131
Alignment explanation
Indices: 1141989--1142301 Score: 396
Period size: 130 Copynumber: 2.4 Consensus size: 131
1141979 GTCTTCTAAT
*
1141989 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGAGAGATGACACAGTTCCTACACGATAAG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTG-GATGACACAGTTCCTACACGATAAG
* *
1142054 GATGGCTAGACATCTTTAGGGATGGTGATAACACGGTTCTTACATGATGAGGACAGATGGTTATC
65 GATGGATAGACATCTTTAGGGA--GTGATAACACGGTTCTTACATGATGAGGACAGATAGTTATC
1142119 TAGG
128 TAGG
* * ** * *** *
1142123 GGTGACACGGCTCCTACATGATGAGGAGGTCTAGTCGTGGATGACATGGTTCTTATGTGATGAGG
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTGGATGACACAGTTCCTACACGATAAGG
* *
1142188 AT-GATAGACCATCTTTAGGGA-TGATAACACGGTTCTTACATGATGAGGACGGTTAGTTATCTA
66 ATGGATAGA-CATCTTTAGGGAGTGATAACACGGTTCTTACATGATGAGGACAGATAGTTATCTA
1142251 GG
130 GG
* ** * *
1142253 GATGACACAACTTCTATGTGATGAGGAGGTCTGGTCGGTGGATGACACA
1 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTC-GTGGATGACACA
1142302 CTTCAAACGC
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
130 70 0.45
131 10 0.06
132 5 0.03
133 33 0.21
134 36 0.23
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (131 bp):
GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGTGGATGACACAGTTCCTACACGATAAGG
ATGGATAGACATCTTTAGGGAGTGATAACACGGTTCTTACATGATGAGGACAGATAGTTATCTAG
G
Found at i:1143367 original size:13 final size:13
Alignment explanation
Indices: 1143351--1143453 Score: 70
Period size: 13 Copynumber: 8.1 Consensus size: 13
1143341 TTCTCGTCCC
1143351 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
*
1143364 TTTTTCTTTTTCTT
1 TTTTTCTTTGT-TT
*
1143378 TTTTTCTTTATTT
1 TTTTTCTTTGTTT
*
1143391 TTTTCTCTTTG--C
1 TTTT-TCTTTGTTT
*
1143403 TCTTTC-TT-TTT
1 TTTTTCTTTGTTT
** *
1143414 TTGCTCTTTCTTT
1 TTTTTCTTTGTTT
1143427 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
* * *
1143440 CTTCTCTTTATTT
1 TTTTTCTTTGTTT
1143453 T
1 T
1143454 GATTGGATCT
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
10 2 0.03
11 5 0.07
12 5 0.07
13 39 0.57
14 17 0.25
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:1143381 original size:15 final size:15
Alignment explanation
Indices: 1143361--1143435 Score: 71
Period size: 15 Copynumber: 4.8 Consensus size: 15
1143351 TTTTTCTTTG
1143361 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
*
1143376 -TTTTTTTCTTTATTT
1 TTTTTTTTCTTT-TTC
*
1143391 TTTTCTCTTTGCTCTTTC
1 TTTT-T-TTT-CTTTTTC
* *
1143409 TTTTTTTGCTCTTTC
1 TTTTTTTTCTTTTTC
1143424 TTTTTTTTCTTT
1 TTTTTTTTCTTT
1143436 GTTTCTTCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
14 11 0.22
15 19 0.39
16 5 0.10
17 2 0.04
18 9 0.18
19 3 0.06
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:1143406 original size:21 final size:22
Alignment explanation
Indices: 1143382--1143453 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
1143372 TTTCTTTTTT
1143382 TCTTTATTTTTTT-CTCTTTGC
1 TCTTTATTTTTTTGCTCTTTGC
*
1143403 TCTTTCTTTTTTTGCTCTTT-C
1 TCTTTATTTTTTTGCTCTTTGC
*
1143424 T-TTT-TTTTCTTTG-T-TTCTTC
1 TCTTTATTTT-TTTGCTCTT-TGC
1143444 TCTTTATTTT
1 TCTTTATTTT
1143454 GATTGGATCT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
18 2 0.05
19 6 0.14
20 9 0.20
21 17 0.39
22 10 0.23
ACGTcount: A:0.03, C:0.18, G:0.04, T:0.75
Consensus pattern (22 bp):
TCTTTATTTTTTTGCTCTTTGC
Found at i:1143415 original size:35 final size:35
Alignment explanation
Indices: 1143368--1143436 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
1143358 TTGTTTTTTT
*
1143368 TCTTTTTCTTTTT-TTCTTTATTTTTTTCTCTTTGC
1 TCTTTTTCTTTTTGCTCTTTATTTTTTT-TCTTTGC
*
1143403 TCTTTCTT-TTTTTGCTCTTTCTTTTTTTTCTTTG
1 TCTTT-TTCTTTTTGCTCTTTATTTTTTTTCTTTG
1143437 TTTCTTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.01, C:0.17, G:0.04, T:0.77
Consensus pattern (35 bp):
TCTTTTTCTTTTTGCTCTTTATTTTTTTTCTTTGC
Found at i:1143415 original size:48 final size:48
Alignment explanation
Indices: 1143355--1143448 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
1143345 CGTCCCTTTT
* * * * *
1143355 TCTTTGTTTTTTTTCTTTTTC-TTTTTTTCTTTATTTTTTTCTCTTTGC
1 TCTTTCTTTTTTTGCTCTTTCTTTTTTTTCTTT-GTTTCTTCTCTTTGC
1143403 TCTTTCTTTTTTTGCTCTTTCTTTTTTTTCTTTGTTTCTTCTCTTT
1 TCTTTCTTTTTTTGCTCTTTCTTTTTTTTCTTTGTTTCTTCTCTTT
1143449 ATTTTGATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 29 0.73
49 11 0.28
ACGTcount: A:0.01, C:0.17, G:0.04, T:0.78
Consensus pattern (48 bp):
TCTTTCTTTTTTTGCTCTTTCTTTTTTTTCTTTGTTTCTTCTCTTTGC
Found at i:1144111 original size:20 final size:20
Alignment explanation
Indices: 1144083--1144132 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1144073 AAGAGTGTAC
*
1144083 CGATACACCAATCCATGCAT
1 CGATGCACCAATCCATGCAT
1144103 CGATGCACCAATCCATGCAT
1 CGATGCACCAATCCATGCAT
1144123 CGATGCACCA
1 CGATGCACCA
1144133 TTGAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.36, G:0.14, T:0.18
Consensus pattern (20 bp):
CGATGCACCAATCCATGCAT
Found at i:1145472 original size:58 final size:58
Alignment explanation
Indices: 1145379--1145523 Score: 152
Period size: 59 Copynumber: 2.5 Consensus size: 58
1145369 TTAAGGGGTG
* ** *
1145379 AAATTAGAAAATTTAAAAGTTTGGGGTCTAATTTAGAGTG-AGTCATAGTTT-AGGGATA
1 AAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGA-TGAAGTCATAGTTTGA-GGATA
* * * *
1145437 AAATTAGAATATTTAAAAGTTTAATGACTATTTTAGATGAAAGTTATAGTTTGAGGATG
1 AAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGATG-AAGTCATAGTTTGAGGATA
*
1145496 AAATT-GAAATGTTTAAAAGTTTAAGGAC
1 AAATTAG-AATATTTAAAAGTTTAAGGAC
1145524 CTATATAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
57 2 0.03
58 32 0.44
59 38 0.52
60 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (58 bp):
AAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGATGAAGTCATAGTTTGAGGATA
Found at i:1147271 original size:27 final size:27
Alignment explanation
Indices: 1147220--1147272 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1147210 ATATACAGAT
* *
1147220 AATATCGATACTCATTTATGAAGTATC
1 AATATCAATACTCATTCATGAAGTATC
* *
1147247 AATATCAATACTCATTCGTGGAGTAT
1 AATATCAATACTCATTCATGAAGTAT
1147273 GGATACCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (27 bp):
AATATCAATACTCATTCATGAAGTATC
Found at i:1150961 original size:17 final size:16
Alignment explanation
Indices: 1150916--1150949 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1150906 CATAACTTAA
1150916 GAACCAAACAAAATAC
1 GAACCAAACAAAATAC
1150932 GAACCAAACAAAATAC
1 GAACCAAACAAAATAC
1150948 GA
1 GA
1150950 GACACAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.24, G:0.09, T:0.06
Consensus pattern (16 bp):
GAACCAAACAAAATAC
Found at i:1152600 original size:54 final size:54
Alignment explanation
Indices: 1152541--1152651 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
1152531 GGTAGGTGAG
*
1152541 ACTTGAAAAATCTTTTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAA
1 ACTTGAAAAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAA
** * *
1152595 ACTTGATCAATCTTCTGCCAACGGGTTCTCTCCCTCTTTCTTTAGGGAGTAGGA
1 ACTTGAAAAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAA
1152649 ACT
1 ACT
1152652 CAAACAATCT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (54 bp):
ACTTGAAAAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAA
Found at i:1152660 original size:54 final size:54
Alignment explanation
Indices: 1152549--1152663 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
1152539 AGACTTGAAA
* ** *
1152549 AATCTTTTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAAACTTGATC
1 AATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAAACTCAAAC
* *
1152603 AATCTTCTGCCAACGGGTTCTCTCCCTCTTTCTTTAGGGAGTAGGAACTCAAAC
1 AATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAAACTCAAAC
1152657 AATCTTC
1 AATCTTC
1152664 AACAATCGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
AATCTTCTGCCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGAAACTCAAAC
Found at i:1152680 original size:54 final size:55
Alignment explanation
Indices: 1152570--1152828 Score: 201
Period size: 55 Copynumber: 4.7 Consensus size: 55
1152560 AACGGGTTCG
* * * * ** * *
1152570 CTCCCTCTTTCTTTAGGGAGTAGAA-ACTTGATCAATCTTCTGCCAA-CGGGTTCT
1 CTCCCTCTTTCTTCAGAGAGTAGAAGACTCGAACAATCTTC-AACAATCGTGTCCT
* * * *
1152624 CTCCCTCTTTCTTTAGGGAGTAGGA-ACTCAAACAATCTTCAACAATCGTGTCCT
1 CTCCCTCTTTCTTCAGAGAGTAGAAGACTCGAACAATCTTCAACAATCGTGTCCT
* * * * *
1152678 CTCTCTATTTCTTCAGAGAGTATG-AGACTCGAATAATCTTCAATAATCGTGTCCG
1 CTCCCTCTTTCTTCAGAGAGTA-GAAGACTCGAACAATCTTCAACAATCGTGTCCT
* * *
1152733 CT--CTCTATTCGTTCAAAGAGTAAAAGACTCGAACAATCTTCAATAATCGTGTCCT
1 CTCCCTCT-TTC-TTCAGAGAGTAGAAGACTCGAACAATCTTCAACAATCGTGTCCT
* * *
1152788 CT--CTCTATTCGTTCAAAGATTATAAGACTCGAACAATCTTC
1 CTCCCTCT-TTC-TTCAGAGAGTAGAAGACTCGAACAATCTTC
1152829 TTCTTATGGG
Statistics
Matches: 176, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.03
54 64 0.36
55 106 0.60
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (55 bp):
CTCCCTCTTTCTTCAGAGAGTAGAAGACTCGAACAATCTTCAACAATCGTGTCCT
Found at i:1152728 original size:55 final size:55
Alignment explanation
Indices: 1152649--1152828 Score: 272
Period size: 55 Copynumber: 3.3 Consensus size: 55
1152639 GGGAGTAGGA
* * * *
1152649 ACTCAAACAATCTTCAACAATCGTGTCCTCTCTCTATTTC-TTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAATAATCGTGTCCTCTCTCTA-TTCGTTCAAAGAGTATAAG
* * *
1152704 ACTCGAATAATCTTCAATAATCGTGTCCGCTCTCTATTCGTTCAAAGAGTAAAAG
1 ACTCGAACAATCTTCAATAATCGTGTCCTCTCTCTATTCGTTCAAAGAGTATAAG
*
1152759 ACTCGAACAATCTTCAATAATCGTGTCCTCTCTCTATTCGTTCAAAGATTATAAG
1 ACTCGAACAATCTTCAATAATCGTGTCCTCTCTCTATTCGTTCAAAGAGTATAAG
1152814 ACTCGAACAATCTTC
1 ACTCGAACAATCTTC
1152829 TTCTTATGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 3 0.03
55 110 0.97
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.32
Consensus pattern (55 bp):
ACTCGAACAATCTTCAATAATCGTGTCCTCTCTCTATTCGTTCAAAGAGTATAAG
Found at i:1152978 original size:55 final size:55
Alignment explanation
Indices: 1152840--1153140 Score: 430
Period size: 54 Copynumber: 5.5 Consensus size: 55
1152830 TCTTATGGGT
* * * *
1152840 AGGGAGTATAGAACTCGAACATCATCTTCTTATGGGTTCGCTCCCTCTTTCTCT-
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
*
1152894 AGGGAGTATGGAACTC-AAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
1 AGGGAGTATAGAACTCGAAA-ATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
*
1152949 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTTGCTCCCTCTTTC-TTC
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
* * *
1153003 AGGGAGTATAGAACTCGAACATCCTCTTCTTACGGGTTTGCTCCCTCTTTCTTTC
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
** *
1153058 AACGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTC-TTC
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
* **
1153112 AGGGAGTATAGAAATCGAACGTCTTCTTC
1 AGGGAGTATAGAACTCGAAAATCTTCTTC
1153141 AAACGAGATT
Statistics
Matches: 222, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 124 0.56
55 93 0.42
56 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (55 bp):
AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
Found at i:1153031 original size:109 final size:109
Alignment explanation
Indices: 1152840--1153140 Score: 469
Period size: 109 Copynumber: 2.8 Consensus size: 109
1152830 TCTTATGGGT
* * * *
1152840 AGGGAGTATAGAACTCGAACATCATCTTCTTATGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATG
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATA
*
1152904 GAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
65 GAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
*
1152949 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTTGCTCCCTCTTTCTTCAGGGAGTATAG
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* *
1153014 AACTCGAACATCCTCTTCTTACGGGTTTGCTCCCTCTTTCTTTC
66 AACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
** *
1153058 AACGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
1 AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* *
1153123 AAATCGAACGTCTTCTTC
66 AACTCGAACATCTTCTTC
1153141 AAACGAGATT
Statistics
Matches: 176, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
109 174 0.99
110 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (109 bp):
AGGGAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
AACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTC
Found at i:1153153 original size:109 final size:107
Alignment explanation
Indices: 1152843--1153194 Score: 447
Period size: 109 Copynumber: 3.2 Consensus size: 107
1152833 TATGGGTAGG
* * * * *
1152843 GAGTATAGAACTCGAACATCATCTTCTTATGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAA
1 GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAGAA
* * *
1152907 CTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTTCAGG
65 CTCGAACATCTTCTTCTTACGGATT-GCTCCCTCTTTCTTTCA-A
* *
1152952 GAGTATAGAACTCGAAAATCTTCTTCTTACGGGTTTGCTCCCTCTTTCTTCAGGGAGTATAGAAC
1 GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAAC
* *
1153017 TCGAACATCCTCTTCTTACGGGTTTGCTCCCTCTTTCTTTCAA
66 TCGAACATCTTCTTCTTAC-GGATTGCTCCCTCTTTCTTTCAA
1153060 CGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAA
1 -GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAA
* * ** * *
1153125 ATCGAACGTCTTCTTCAAACGAGATTGCTCCTTCTTTCATT-AA
65 CTCGAACATCTTCTTCTTACG-GATTGCTCCCTCTTTCTTTCAA
*
1153168 GAAGTATGGAACTCAAATAATCTTCTT
1 G-AGTATAGAACTCAAA-AATCTTCTT
1153195 TTGCTTCACT
Statistics
Matches: 217, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
107 1 0.00
108 17 0.08
109 193 0.89
110 6 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (107 bp):
GAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAAC
TCGAACATCTTCTTCTTACGGATTGCTCCCTCTTTCTTTCAA
Found at i:1153525 original size:37 final size:37
Alignment explanation
Indices: 1153484--1153588 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 37
1153474 AAACATACCT
* *
1153484 GCTTCATTACTCTTCGGTAAAGGCTTAAGACT-GA-TCG
1 GCTTCAATACTCTTCGGTGAAGGCTTAAGA-TGGAGT-G
* *
1153521 GCTTCAACACTCTTCGGTGAAGGCTTAAGATGGAGTT
1 GCTTCAATACTCTTCGGTGAAGGCTTAAGATGGAGTG
* *
1153558 GCTTCACTAATCTTCGGTGAAGGCTTAAGAT
1 GCTTCAATACTCTTCGGTGAAGGCTTAAGAT
1153589 TGACTTTGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (37 bp):
GCTTCAATACTCTTCGGTGAAGGCTTAAGATGGAGTG
Found at i:1154879 original size:124 final size:126
Alignment explanation
Indices: 1154719--1154974 Score: 408
Period size: 125 Copynumber: 2.0 Consensus size: 126
1154709 ACTAGTGCTG
1154719 CAACATCATCTTATACTGGTACGGGCCTTCAAAATG-CCCCAACACCTCAAATTGTAAGGCTCAT
1 CAACATCATCTTATACTGGTACGGGCCTTCAAAATGCCCCCAACACCTCAAATTGTAAGGCTCAT
* * *
1154783 TCTAAAGGCCTTCTTGGTCTGTATCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCC
66 TCTAAAGGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTACAGTCATGCCC
* * *
1154844 CAACATTATCTTA-ATTGGTACGGGCCTTCAAAATGCCCCCATCACCTCAAATTGTAAGGCTCAT
1 CAACATCATCTTATACTGGTACGGGCCTTCAAAATGCCCCCAACACCTCAAATTGTAAGGCTCAT
** * *
1154908 TCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTACAGTCGTGCCC
66 TCTAAAGGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTACAGTCATGCCC
1154969 CAACAT
1 CAACAT
1154975 ATCATAACTT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
124 21 0.17
125 99 0.82
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (126 bp):
CAACATCATCTTATACTGGTACGGGCCTTCAAAATGCCCCCAACACCTCAAATTGTAAGGCTCAT
TCTAAAGGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTACAGTCATGCCC
Found at i:1158870 original size:21 final size:21
Alignment explanation
Indices: 1158765--1158877 Score: 172
Period size: 21 Copynumber: 5.4 Consensus size: 21
1158755 CCATACGAAG
1158765 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
1158786 GGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
* *
1158807 GGGTATTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
1158828 TGGTCTTCACGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
1158849 TGGTTTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
1158870 TGGCCTTC
1 TGGTCTTC
1158878 TCTTCCTTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 83 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:1158894 original size:22 final size:22
Alignment explanation
Indices: 1158824--1158952 Score: 106
Period size: 21 Copynumber: 6.0 Consensus size: 22
1158814 CATGTCTTTA
* **
1158824 TGAATGGTCTTCACGT-CTTTA
1 TGAATGGTCTTCTCGTCCTTGG
* **
1158845 TGAATGGTTTTCAT-GT-CTTTA
1 TGAATGGTCTTC-TCGTCCTTGG
* *
1158866 TGAATGGCCTTCTCTTCCTTGG
1 TGAATGGTCTTCTCGTCCTTGG
1158888 TGAATGGTCTTCTCGTCCTTGG
1 TGAATGGTCTTCTCGTCCTTGG
**
1158910 TGAATGGTCTTCTCGT-CTTCA
1 TGAATGGTCTTCTCGTCCTTGG
* *
1158931 TGAA-CGTCTTCTCATCCTTGG
1 TGAATGGTCTTCTCGTCCTTGG
1158952 T
1 T
1158953 ATGATTGTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
20 10 0.11
21 40 0.45
22 39 0.44
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (22 bp):
TGAATGGTCTTCTCGTCCTTGG
Found at i:1158943 original size:64 final size:64
Alignment explanation
Indices: 1158824--1158952 Score: 154
Period size: 64 Copynumber: 2.0 Consensus size: 64
1158814 CATGTCTTTA
* * * * *
1158824 TGAATGGTCTTCACGTCTTTATGAATGGTTTTCATGTCTTTATGAATGGCCTTCTCTTCCTTGG
1 TGAATGGTCTTCACGTCTTGATGAATGGTCTTCATGTCTTCATGAATCGCCTTCTCATCCTTGG
* * *
1158888 TGAATGGTCTTCTCGTCCTTGGTGAATGGTCTTC-TCGTCTTCATGAA-CGTCTTCTCATCCTTG
1 TGAATGGTCTTCACGT-CTTGATGAATGGTCTTCAT-GTCTTCATGAATCGCCTTCTCATCCTTG
1158951 G
64 G
1158952 T
1 T
1158953 ATGATTGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 31 0.56
65 24 0.44
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (64 bp):
TGAATGGTCTTCACGTCTTGATGAATGGTCTTCATGTCTTCATGAATCGCCTTCTCATCCTTGG
Found at i:1164740 original size:115 final size:114
Alignment explanation
Indices: 1164536--1164756 Score: 268
Period size: 117 Copynumber: 1.9 Consensus size: 114
1164526 ATTTATATGT
* *
1164536 ATTTATAAATAAAATATTTATTTATTTAAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAG
1 ATTTATAAATAAAATATTTATTTATTTAAAATATCAGAAAATGACATCCAGGTGCCTTAAGACAG
*
1164601 CTCTTTTTCGATATTAAAATAAATAAATAATTAAAACAATTAATATATA
66 CTCTTTTTCAATATTAAAATAAATAAATAATTAAAACAATTAATATATA
** * * **
1164650 ATTTATAAAATATGATATTTATTTATTTAAAAATATCAGAAAATGGGCATCCAGTTGTTTTAAGA
1 ATTTAT-AAATAAAATATTTATTTATTT-AAAATATCAGAAAAT-GACATCCAGGTGCCTTAAGA
*
1164715 CTG-TCATTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
63 CAGCTC-TTT-TTCAATATT--AAAATAAATAAATAATTAAAACA
1164757 GGATTAAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
114 6 0.07
115 19 0.21
116 17 0.19
117 24 0.27
118 11 0.12
119 13 0.14
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (114 bp):
ATTTATAAATAAAATATTTATTTATTTAAAATATCAGAAAATGACATCCAGGTGCCTTAAGACAG
CTCTTTTTCAATATTAAAATAAATAAATAATTAAAACAATTAATATATA
Found at i:1176120 original size:21 final size:21
Alignment explanation
Indices: 1176096--1176154 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
1176086 GACGTATCGA
1176096 TTCCC-TCAAGGAGGGAATCAG
1 TTCCCTTCAAGG-GGGAATCAG
*
1176117 TTCCCATTCAAAGGGGAATCAG
1 TTCCC-TTCAAGGGGGAATCAG
1176139 TTCCTCTTCAAGGGGG
1 TTCC-CTTCAAGGGGG
1176155 TATTGATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 5 0.15
22 22 0.67
23 6 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TTCCCTTCAAGGGGGAATCAG
Found at i:1181965 original size:37 final size:37
Alignment explanation
Indices: 1181910--1181982 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
1181900 TGATGATTCC
1181910 TATTTGGTTCCATCAAATATTGTTTCTATCGGATGGT
1 TATTTGGTTCCATCAAATATTGTTTCTATCGGATGGT
*
1181947 TATTTGGTTCCATTAAATATTGTTTCTATCGGATGG
1 TATTTGGTTCCATCAAATATTGTTTCTATCGGATGG
1181983 CGTGGGAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (37 bp):
TATTTGGTTCCATCAAATATTGTTTCTATCGGATGGT
Found at i:1184063 original size:30 final size:31
Alignment explanation
Indices: 1184028--1184085 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
1184018 AACTTAAAAG
* *
1184028 AGTTTTGCAATACT-CAGTTTAAATAATTTT
1 AGTTTTGCAATACTGAAATTTAAATAATTTT
1184058 AGTTTTGCAATACTGAAATTTAAATAAT
1 AGTTTTGCAATACTGAAATTTAAATAAT
1184086 CCATACAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTGCAATACTGAAATTTAAATAATTTT
Found at i:1184142 original size:21 final size:22
Alignment explanation
Indices: 1184110--1184170 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
1184100 TAATAAATTA
1184110 TTTAAAAGTAAATCAATC-ATAT
1 TTTAAAA-TAAATCAATCTATAT
1184132 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
1184154 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
1184171 CATACTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:1184183 original size:22 final size:22
Alignment explanation
Indices: 1184112--1184182 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
1184102 ATAAATTATT
**
1184112 TAAAAGTAAATCAAT-CATATTT
1 TAAAA-TAAATCAATCCATATAA
* **
1184134 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1184156 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1184179 TAAA
1 TAAA
1184183 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 9 0.21
22 29 0.67
23 5 0.12
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1184193 original size:32 final size:29
Alignment explanation
Indices: 1184154--1185653 Score: 335
Period size: 22 Copynumber: 58.4 Consensus size: 29
1184144 CAATCTATAT
1184154 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
* *
1184186 TTTAAAATAAATCAATCTATAC-AT-CTA
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184213 --CAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
* *
1184234 TTTAATATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184266 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184288 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184320 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184342 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184374 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184396 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184428 TTTAAAAATAAATC-A---AT-C-ATA-T-
1 TTT-AAAATAAATCAATCCATACTATATTA
*
1184450 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1184477 --TAATAATAAATC-A---AT-CTATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
*
1184498 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184525 --CAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1184546 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
*
1184578 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184605 --CAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
* *
1184626 TTTAAAATAAATTAATCCATACTAAAAAATTA
1 TTTAAAATAAATCAATCCATACT---ATATTA
1184658 TTTAAAATAAAT-AA---AT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184679 TTTAAAATAAATCAATCCATA-TA-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1184706 --TAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1184727 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184759 TTTAAAATAAAT-AA---AT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184780 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184802 TTTAAAATAAATCAAACCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
*
1184834 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1184861 --TAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1184882 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184904 TTTAAAATAAATCAAT----AC-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1184926 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1184958 TTTAAAATAAATC-A---AT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1184979 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
* *
1185006 --TAATAATAAATCGAT-CA-A-TATTTTA
1 TTTAA-AATAAATCAATCCATACTATATTA
** * * * * *
1185031 -AAATAAATCAATCCATAC-TAATAAATTA
1 TTTA-AAATAAATCAATCCATACTATATTA
1185059 TTTAAAATAAAT-AA---AT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1185080 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185102 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1185129 --TAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1185150 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1185182 TTTAAAATAAATCAAT---T-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
1185204 TTTAAAATAAATCAATCCATACTAATACATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1185236 TTTAAAATAAATC-A---AT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185257 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1185284 --TAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
*
1185305 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185332 --CAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1185353 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
*
1185385 TTTAAAAT-AAT---TCAAT-C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185406 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
1185433 --TAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
*
1185454 TTTAAAATAAATCAATCCATAC-A-ACTA
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185481 --CAATAATAAATCAAT-C---C-ATA-T-
1 TTTAA-AATAAATCAATCCATACTATATTA
1185502 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1185534 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185556 TTTAAAATAAATCAATCCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1185588 TTTAAAATAAATCAAT-C---C-ATA-T-
1 TTTAAAATAAATCAATCCATACTATATTA
*
1185610 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACT-AT--ATTA
1185642 TTTAAAATAAAT
1 TTTAAAATAAAT
1185654 TATTTTAAAA
Statistics
Matches: 1154, Mismatches: 39, Indels: 550
0.66 0.02 0.32
Matches are distributed among these distances:
21 81 0.07
22 351 0.30
23 69 0.06
24 9 0.01
25 76 0.07
26 195 0.17
27 18 0.02
28 59 0.05
29 4 0.00
30 20 0.02
31 29 0.03
32 233 0.20
33 10 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (29 bp):
TTTAAAATAAATCAATCCATACTATATTA
Found at i:1184286 original size:54 final size:54
Alignment explanation
Indices: 1184217--1185653 Score: 1208
Period size: 54 Copynumber: 28.1 Consensus size: 54
1184207 CATCTACAAT
* *
1184217 AATAAATCAATCCATATTTTAATATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1184271 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1184325 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1184379 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT-AA
*
1184434 AATAAATCAAT-CATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---AT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* *
1184481 AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
1184529 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * ** *
1184583 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATTAATCCAT
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAATT-ATTTAA
* *
1184646 ACTAAA-AAAT---TA-TTTAAAATAAAT-AA---AT-C--AT--A-T-TTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * * * *
1184684 AATAAATCAATCCATATAACTATAAT-AATAAATCAAT-C-CAT--A-T-TTTAA
1 AATAAATCAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** *
1184732 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATA--AAT-CA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
*
1184785 AATAAATCAATCCATATTTTAAAATAAATCAAACCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*** * * * *
1184839 AATAAATCAATCCATACAACTATAAT-AATAAATCAAT-C-CAT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1184887 AATAAATCAATCCATATTTTAAAATAAATC-A---ATAC--AT--A-T-TTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** *
1184931 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AAT-CA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
*** * * *
1184984 AATAAATCAATCCATACAACTATAAT-AATAAATCGAT-C-AAT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** * *
1185032 AATAAATCAATCCATA--CT--AATAAAT-TATTTAAAATAAATAAATCATATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACT-AATAAAT--TA-TTTAA
*
1185085 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---AT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
1185133 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
1185187 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATACATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1185241 AATAAATCAAT-CATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---AT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
1185288 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
1185336 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
1185390 AATAATTCAAT-CATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---AT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
1185437 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
1185485 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1185539 AATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1185593 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1185647 AATAAAT
1 AATAAAT
1185654 TATTTTAAAA
Statistics
Matches: 1184, Mismatches: 94, Indels: 210
0.80 0.06 0.14
Matches are distributed among these distances:
38 7 0.01
39 3 0.00
40 1 0.00
41 1 0.00
42 2 0.00
43 11 0.01
44 37 0.03
45 11 0.01
46 3 0.00
47 45 0.04
48 334 0.28
49 15 0.01
50 29 0.02
51 26 0.02
52 21 0.02
53 133 0.11
54 424 0.36
55 25 0.02
56 3 0.00
57 12 0.01
58 20 0.02
59 1 0.00
60 1 0.00
62 11 0.01
63 8 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1184505 original size:48 final size:47
Alignment explanation
Indices: 1184434--1185677 Score: 730
Period size: 48 Copynumber: 24.8 Consensus size: 47
1184424 ATTATTTAAA
1184434 AATAAATCAAT-CATATTTTAAAATAAATCAATCCATACAACTATAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
* *
1184481 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1184529 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
* ** * *
1184583 AATAAATCAATCCATACAACTACAATAATAAATCAATCCAT--ATTTTAA-
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACAATATAAT
* *** * ** *
1184631 AATAAATTAATCCATACTAAAAAATTATTTAAAATAAATAAAT-CATATTTTAA-
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACA-A-TATAAT
* * *
1184684 AATAAATCAATCCATATAACTATAATAATAAATCAATCCAT--ATTTTAA-
1 AATAAATCAATCCATAT---TTTAA-AATAAATCAATCCATACAATATAAT
** * ** *
1184732 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT-CATATTTTAA-
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACA-A-TATAAT
* *
1184785 AATAAATCAATCCATATTTTAAAATAAATCAAACCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
* * * *
1184839 AATAAATCAATCCATACAACTATAATAATAAATCAATCCAT--ATTTTAA-
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACAATATAAT
* * *
1184887 AATAAATCAATCCATATTTTAAAATAAATCAATACAT--ATTTTAA-
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAATATAAT
** * * *
1184931 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CATATTTTAA-
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACA-A-TATAAT
* * * * * *
1184984 AATAAATCAATCCATACAACTATAATAATAAATCGAT-CA-ATATTTTAA-
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACAATATAAT
** * ** *
1185032 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAAT-CATATTTTAA-
1 AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACA-A-TATAAT
1185085 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1185133 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
* *
1185187 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATACATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
1185241 AATAAATCAAT-CATATTTTAAAATAAATCAATCCATACAACTATAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1185288 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1185336 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
*
1185390 AATAATTCAAT-CATATTTTAAAATAAATCAATCCATACAACTATAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1185437 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAA-TATAAT
*
1185485 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
* *
1185539 AATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AAT--A-TA---AT
*
1185593 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATA-AATT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATATAA-T
* *
1185641 ATTTAAAATAAAT---TATTTTAAAATAAATCAATCCATA
1 A-AT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
1185678 TTTTATTATA
Statistics
Matches: 1004, Mismatches: 92, Indels: 202
0.77 0.07 0.16
Matches are distributed among these distances:
44 37 0.04
45 15 0.01
46 11 0.01
47 85 0.08
48 340 0.34
49 17 0.02
50 56 0.06
51 27 0.03
52 22 0.02
53 139 0.14
54 203 0.20
55 11 0.01
56 3 0.00
57 9 0.01
58 29 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (47 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAATATAAT
Found at i:1184672 original size:21 final size:21
Alignment explanation
Indices: 1184648--1184690 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1184638 TAATCCATAC
1184648 TAAAAAAT-TATTTAAAATAAA
1 TAAAAAATAT-TTTAAAATAAA
**
1184669 TAAATCATATTTTAAAATAAA
1 TAAAAAATATTTTAAAATAAA
1184690 T
1 T
1184691 CAATCCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAAATATTTTAAAATAAA
Found at i:1184963 original size:300 final size:293
Alignment explanation
Indices: 1184609--1185682 Score: 1430
Period size: 300 Copynumber: 3.7 Consensus size: 293
1184599 CAACTACAAT
* * *
1184609 AATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAAAAAATTATTTAAAATAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1184674 CATATTTTAAAATAAATCAATCCATATAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
66 CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
1184739 CAATCCATACTAATAAATTATTTAAAATAAATAAATCATATTTTAAAATAAATCAATCCATATTT
131 CAATCCATACTAATAAATTATTT--AATAAATAAATCATATTTTAAAATAAATCAATCCATATTT
1184804 TAAAATAAATCAAACCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTATAATAATA
194 TAAAATAAATCAAACCATAC-AAT--A-TATTTAAAATAAATCAATCCATACAACTATAATAATA
1184869 AATCAATCCATATTTTAAAATAAATCAATCCATATTTTAA
255 AATCAATCCATATTTTAAAATAAATCAATCCATA-TTTAA
*
1184909 AATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
1184974 CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCGATCAATATTTTAAAATAAAT
66 CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
1185039 CAATCCATACTAATAAATTATTTAAAATAAATAAATCATATTTTAAAATAAATCAATCCATATTT
131 CAATCCATACTAATAAATTATTT--AATAAATAAATCATATTTTAAAATAAATCAATCCATATTT
* * * *
1185104 TAAAATAAATCAATCCATACAACTATA---ATAATAAATCAATCCAT---ATTTTAA-AATAAAT
194 TAAAATAAATCAAACCATACAA-TATATTTAAAATAAATCAATCCATACAACTATAATAATAAAT
*
1185162 CAATCCATA--CT--AAT--A--AAT---TATTTAA
258 CAATCCATATTTTAAAATAAATCAATCCATATTTAA
* *
1185187 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATACATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1185252 CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
66 CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
* * *
1185317 CAATCCATAC-AACTACA--A--TAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA
131 CAATCCATACTAA-TAAATTATTTAATAAATAAAT-CATATTTTAAAATAAATCAATCCATA-TT
* * ** * ** *
1185377 ATAAATTATTTAAAATAATTCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAA
193 TTAAAATAAATCAAACCATACAAT-ATA-TTTAAAATAAATCAATCCATACAACTATAATAATAA
**
1185442 ATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAA
256 ATCAATCCATATTTTAAAATAAATCAATCCAT---A-TTTAA
1185484 TAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
* *
1185549 TCCATATTTTAAAATAAATCAATCCATGCTAA-TAAATTATTTAAAATAAATCAATCCATATTTT
65 T-CATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---ATAATAAATCAATCCATATTTT
*
1185613 AAAATAAATCAATCTATACTAATAAATTATTT-A-AAATAAAT--TATTTTAAAATAAATCAATC
122 AAAATAAATCAATCCATACTAATAAATTATTTAATAAATAAATCATATTTTAAAATAAATCAATC
1185674 CATATTTTA
187 CATATTTTA
1185683 TTATAATTTA
Statistics
Matches: 689, Mismatches: 43, Indels: 81
0.85 0.05 0.10
Matches are distributed among these distances:
272 10 0.01
273 27 0.04
274 19 0.03
276 1 0.00
277 2 0.00
278 160 0.23
279 2 0.00
281 5 0.01
282 19 0.03
284 2 0.00
286 6 0.01
288 2 0.00
290 19 0.03
291 5 0.01
293 1 0.00
294 16 0.02
296 1 0.00
297 5 0.01
298 64 0.09
299 29 0.04
300 210 0.30
301 1 0.00
302 2 0.00
303 3 0.00
304 24 0.03
305 42 0.06
306 2 0.00
307 8 0.01
308 1 0.00
309 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (293 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATATTTTAAAATAAAT
CAATCCATACTAATAAATTATTTAATAAATAAATCATATTTTAAAATAAATCAATCCATATTTTA
AAATAAATCAAACCATACAATATATTTAAAATAAATCAATCCATACAACTATAATAATAAATCAA
TCCATATTTTAAAATAAATCAATCCATATTTAA
Found at i:1185137 original size:101 final size:100
Alignment explanation
Indices: 1184481--1185523 Score: 745
Period size: 101 Copynumber: 10.4 Consensus size: 100
1184471 CAACTATAAT
* *
1184481 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
** * * * *
1184546 TTTAAAATAAATCAATCCATACTAATAAAT--TA-TTTAA
66 AAT-AAATTATTTAA--AATA--AATAAATCATATTTTAA
* ** * * *
1184583 AATAAATCAATCCATACAACTACAATAATAAATCAATCCAT---ATTTTAA-AATAAATTAATCC
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACAACTATAATAATAAATCAATCC
*
1184644 ATACTAAAAAATTATTTAAAATAAATAAATCATATTTTAA
62 ATA-TAATAAATTATTTAAAATAAATAAATCATATTTTAA
* * *
1184684 AATAAATCAATCCATATAACTATAATAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCC
1 AATAAATCAATCCATAT---TTTAA-AATAAATCAATCCATACAACTATAATAATAAATCAATCC
1184745 ATACTAATAAATTATTTAAAATAAATAAATCATATTTTAA
62 ATA-TAATAAATTATTTAAAATAAATAAATCATATTTTAA
* * *
1184785 AATAAATCAATCCATATTTTAAAATAAATCAAACCATACTAA-TA-AATTATTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTATAA-TA-AT-AAATCAATCC
* * *
1184847 A-ATCCATACAACTA--TAATAATAAATCAATCCATATTTTAA
62 ATAT-AATA-AATTATTTAA-AATAAATAAAT-CATATTTTAA
* * *
1184887 AATAAATCAATCCATATTTTAAAATAAATCAATACAT---ATTTTAA-AATAAATCAATCCATAC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATA-
*
1184948 TAATAAATTATTTAAAATAAATCAATCATATTTTAA
65 TAATAAATTATTTAAAATAAATAAATCATATTTTAA
* * * * * *
1184984 AATAAATCAATCCATACAACTATAATAATAAATCGAT-CA-A-TATTTTAA-AATAAATCAATCC
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACAACTATAATAATAAATCAATCC
1185045 ATACTAATAAATTATTTAAAATAAATAAATCATATTTTAA
62 ATA-TAATAAATTATTTAAAATAAATAAATCATATTTTAA
1185085 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
** * * * *
1185150 TTTAAAATAAATCAATCCATACTAATAAAT--TA-TTTAA
66 AAT-AAATTATTTAA--AATA--AATAAATCATATTTTAA
* * * * *
1185187 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA-TACATTATTTAAAATAAAT-CA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTATAATA-AT-AAATCAATCCA
* * * *
1185250 -ATCAT--A-T-TTTAAAATAAATCAATCCATACAACTATAA
63 TATAATAAATTATTTAAAATAAATAAAT-CAT---ATTTTAA
*
1185287 TAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA
1 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATA
** * * * *
1185352 TTTTAAAATAAATCAATCCATACTAATAAAT--TA-TTTAA
65 TAAT-AAATTATTTAA--AATA--AATAAATCATATTTTAA
*
1185390 AATAATTCAAT-CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
** * ** * **
1185454 TTTAAA--A--T-AAATCAATCCATACA-ACTACAA
66 AATAAATTATTTAAAATAAATAAAT-CATATTTTAA
1185484 TAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 -AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1185524 TAATAAATTA
Statistics
Matches: 782, Mismatches: 85, Indels: 154
0.77 0.08 0.15
Matches are distributed among these distances:
91 5 0.01
93 9 0.01
94 3 0.00
95 14 0.02
96 35 0.04
97 59 0.08
98 37 0.05
99 17 0.02
100 38 0.05
101 341 0.44
102 150 0.19
103 26 0.03
104 9 0.01
105 11 0.01
106 18 0.02
107 1 0.00
108 3 0.00
110 6 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (100 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCCATAT
AATAAATTATTTAAAATAAATAAATCATATTTTAA
Found at i:1185531 original size:22 final size:23
Alignment explanation
Indices: 1185238--1185530 Score: 183
Period size: 26 Copynumber: 12.2 Consensus size: 23
1185228 ATACATTATT
**
1185238 TAAAATAAATCAAT-CATA-TTT
1 TAAAATAAATCAATCCATACTAA
*
1185259 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACTA--A
**
1185284 TAATAATAAATCAATCCATA-TTT
1 TAA-AATAAATCAATCCATACTAA
1185307 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1185329 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1185355 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
* *
1185378 TAAATTATTTAAAAT-AATTCA-ATCATATTT
1 TAAA--A--T-AAATCAATCCATA-C-TA--A
*
1185408 TAAAATAAATCAATCCATACAACTA
1 TAAAATAAATCAATCCATACTA--A
**
1185433 TAATAATAAATCAATCCATA-TTT
1 TAA-AATAAATCAATCCATACTAA
1185456 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1185478 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1185504 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1185527 TAAA
1 TAAA
1185531 TTATTTAAAA
Statistics
Matches: 214, Mismatches: 27, Indels: 60
0.71 0.09 0.20
Matches are distributed among these distances:
21 14 0.07
22 68 0.32
23 22 0.10
25 19 0.09
26 72 0.34
27 8 0.04
28 7 0.03
30 4 0.02
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1185614 original size:22 final size:22
Alignment explanation
Indices: 1185588--1185682 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
1185578 TAATAAATTA
1185588 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1185610 TTTAAAATAAATCAATCTATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
1185633 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
1185657 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1185679 TTTA
1 TTTA
1185683 TTATAATTTA
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
22 27 0.51
23 12 0.23
24 12 0.23
25 2 0.04
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1185662 original size:15 final size:15
Alignment explanation
Indices: 1185633--1185750 Score: 130
Period size: 15 Copynumber: 7.5 Consensus size: 15
1185623 AATCTATACT
1185633 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1185647 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1185662 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
* *
1185684 TATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1185699 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1185714 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1185729 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1185744 AATAAAT
1 AATAAAT
1185751 AATCTTATTA
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.10
15 63 0.72
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 9 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1185675 original size:69 final size:67
Alignment explanation
Indices: 1185579--1185735 Score: 210
Period size: 67 Copynumber: 2.3 Consensus size: 67
1185569 AATCCATGCT
*
1185579 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATCAAT-TATA-AAATAAATTAT
1185642 TTTAA
63 TTTAA
** ** *
1185647 AATAAATTATTTTAAAATAAATCAATCCATATTTTATTATAATTTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAATAAATTATTTT
*
1185712 AT
66 AA
1185714 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
1185736 TATTTTAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
66 9 0.11
67 29 0.36
68 14 0.17
69 28 0.35
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAATAAATTATTTT
AA
Found at i:1185684 original size:149 final size:144
Alignment explanation
Indices: 1185080--1185686 Score: 765
Period size: 149 Copynumber: 4.0 Consensus size: 144
1185070 TAAATCATAT
1185080 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATC
1 TTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATC
* *
1185145 CATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATTCATATTTTAA
65 CATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAAT-AAATC-TATTTTAA
1185209 AATAAATCAATCCATACTAATACATTA
121 AATAAATCAATCCATACT-AT--ATTA
1185236 TTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCC
1 TTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCC
*
1185301 ATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATC
66 ATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATAAAT-C-TATTTTAAAATAAATC
1185366 AATCCATACTAATAAATTA
129 AATCCATACT-AT--ATTA
*
1185385 TTTAAAATAATTCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCC
1 TTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCC
*
1185450 ATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATC
66 ATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATAAAT-C-TATTTTAAAATAAATC
1185515 AATCCATACTAATAAATTA
129 AATCCATACT-AT--ATTA
* *
1185534 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGCTAA-TAAATTATTTAAAATAA
1 TTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCCATAC-AACT--A-TA---ATAATAA
* *
1185598 ATCAATCCATATTTTAAAATAAATCAATCTATACTAA-TA-AATTATTTAAAATAAAT-TATTTT
58 ATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTACAA-TA-AT-AAATAAATCTATTTT
* *
1185660 AAAATAAATCAATCCATATTTTATTA
119 AAAATAAATCAATCCATACTATATTA
1185686 T
1 T
1185687 AATTTATTTT
Statistics
Matches: 424, Mismatches: 13, Indels: 32
0.90 0.03 0.07
Matches are distributed among these distances:
148 2 0.00
149 206 0.49
150 27 0.06
151 3 0.01
152 6 0.01
153 3 0.01
154 3 0.01
155 105 0.25
156 59 0.14
157 3 0.01
158 7 0.02
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (144 bp):
TTTAAAATAAATCAATCATATTTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACAACTACAATAATAAATAAATCTATTTTAAAATAAATCAA
TCCATACTATATTA
Found at i:1185725 original size:45 final size:43
Alignment explanation
Indices: 1185676--1185773 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 43
1185666 AATCAATCCA
** * * *
1185676 TATTTTATTATAATTTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTAT--TAAAT
1185721 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
1185764 TA-TTTAAAAT
1 TATTTTAAAAT
1185774 TATTTTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 8 0.17
43 7 0.15
45 33 0.69
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (43 bp):
TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
Found at i:1197178 original size:3 final size:3
Alignment explanation
Indices: 1197172--1197203 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1197162 TCCGGGTTAT
*
1197172 TTC TTC TTC TTC TTC TTC TTC TTC TTC GTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1197204 GAACCCCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:1202927 original size:17 final size:18
Alignment explanation
Indices: 1202905--1202939 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1202895 AATTCCCTCG
*
1202905 ACATTTAG-CTCCTTTTT
1 ACATTTAGTCTCATTTTT
1202922 ACATTTAGTCTCATTTTT
1 ACATTTAGTCTCATTTTT
1202940 TAATTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (18 bp):
ACATTTAGTCTCATTTTT
Found at i:1219791 original size:43 final size:43
Alignment explanation
Indices: 1219743--1219850 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
1219733 AATGTTGGAC
* * * * *
1219743 TTCCAACTTATTTC-TCACACTATGTTGGTGGCTATTACTAGTT
1 TTCCAACTTATTTCTTAAAACTATGTTAG-AGCTATTACTAGCT
1219786 TTCCAACTTATTTCTTAAAACTATGTTAGAGCTATTACTAGCT
1 TTCCAACTTATTTCTTAAAACTATGTTAGAGCTATTACTAGCT
*
1219829 TTCCAACTTATTTCCTAAAACT
1 TTCCAACTTATTTCTTAAAACT
1219851 CTCTCTCTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 47 0.81
44 11 0.19
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (43 bp):
TTCCAACTTATTTCTTAAAACTATGTTAGAGCTATTACTAGCT
Found at i:1229957 original size:31 final size:31
Alignment explanation
Indices: 1229908--1229971 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
1229898 CCCTTTTCTT
* * * * *
1229908 TTATTTTCCTTAGTCTTTTCTCTAAAATCTC
1 TTATTCTCCATAGCCTTTTCTCCAAAACCTC
1229939 TTATTCTCCATAGCCTTTTCTCCAAAACCTC
1 TTATTCTCCATAGCCTTTTCTCCAAAACCTC
1229970 TT
1 TT
1229972 CTCTTACACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.28, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTCTCCATAGCCTTTTCTCCAAAACCTC
Found at i:1243755 original size:46 final size:46
Alignment explanation
Indices: 1243697--1244063 Score: 506
Period size: 46 Copynumber: 8.0 Consensus size: 46
1243687 TTAATCATTA
* * * * * * * *
1243697 ATTTCAGTTATGGCCTTTTTTCATACCTTAATACATTCTTTCATAC
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATGC
* *
1243743 ATTTTAGTTATGGCATACTTTCATGCCTTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATGC
*
1243789 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATGC
1243835 ATTTTAGTTATGG-ATTCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATT-CTTTCATGCCTTAATGCATCCGTTCATGC
* *
1243881 ATTTTAGTTATGGCATTCTTTCATGCCTTAATACATTCGTTCATGC
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATGC
* * * * *
1243927 ATTTTAGTAATGGAATCCTCTCATGCCTTAATGCA-CCATTTCATGC
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCC-GTTCATGC
1243973 ATTTTAGTTATGG-ATTCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATT-CTTTCATGCCTTAATGCATCCGTTCATGC
* *
1244019 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATG
1 ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATG
1244064 TCTTAATGAT
Statistics
Matches: 289, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
45 5 0.02
46 277 0.96
47 7 0.02
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (46 bp):
ATTTTAGTTATGGCATTCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:1243785 original size:20 final size:20
Alignment explanation
Indices: 1243762--1243926 Score: 69
Period size: 20 Copynumber: 7.3 Consensus size: 20
1243752 ATGGCATACT
1243762 TTCATGCCTTAATGCATTCG
1 TTCATGCCTTAATGCATTCG
* * *
1243782 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGC--CTTA---AT-GCATTCG
*
1243808 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATTCG
* * *
1243828 TTCATGCATTTTAGTTATGGATTCCT
1 TTCATGC--CTTA---ATGCATT-CG
*
1243854 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATTCG
* *
1243874 TTCATGCATTTTAGTTATGGCATTCT
1 TTCATGC--CTTA---AT-GCATTCG
*
1243900 TTCATGCCTTAATACATTCG
1 TTCATGCCTTAATGCATTCG
1243920 TTCATGC
1 TTCATGC
1243927 ATTTTAGTAA
Statistics
Matches: 108, Mismatches: 19, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
20 40 0.37
21 9 0.08
22 9 0.08
24 9 0.08
25 9 0.08
26 32 0.30
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (20 bp):
TTCATGCCTTAATGCATTCG
Found at i:1244017 original size:20 final size:20
Alignment explanation
Indices: 1243992--1244071 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1243982 ATGGATTCCT
*
1243992 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCA
* *
1244012 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGC--CTTA---AT-GCATCCA
1244038 TTCATGCCTTAATGCATCCA
1 TTCATGCCTTAATGCATCCA
*
1244058 TTCATGTCTTAATG
1 TTCATGCCTTAATG
1244072 ATAACATAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 26 0.53
21 2 0.04
22 3 0.06
24 3 0.06
25 2 0.04
26 13 0.27
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCA
Found at i:1247351 original size:20 final size:20
Alignment explanation
Indices: 1247326--1247396 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
1247316 TATGTCTCAT
1247326 TTCATTCCTTAATGCATCCG
1 TTCATTCCTTAATGCATCCG
* **
1247346 TTCATTCATTTTAGTTATGTCATCTT
1 TTCATTC--CTTA---ATG-CATCCG
1247372 TTCATTCCTTAATGCATCCG
1 TTCATTCCTTAATGCATCCG
1247392 TTCAT
1 TTCAT
1247397 GCATTTTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 16 0.41
21 3 0.08
22 3 0.08
24 3 0.08
25 3 0.08
26 11 0.28
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (20 bp):
TTCATTCCTTAATGCATCCG
Found at i:1247385 original size:46 final size:46
Alignment explanation
Indices: 1247325--1247707 Score: 550
Period size: 46 Copynumber: 8.3 Consensus size: 46
1247315 TTATGTCTCA
* * ** *
1247325 TTTCATTCCTTAATGCATCCGTTCATTCATTTTAGTTATGTCATCT
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
* * *
1247371 TTTCATTCCTTAATGCATCCGTTCATGCATTTTAGTTATGGTATTC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
*
1247417 TTTCATGCCTTAATGTATCCGTTCATGCATTTTAGTTATGGAATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
* * *
1247463 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAATTATGAAATCA
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
* * * *
1247509 TTTTATGTCTTAATGCATTCGTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
* ** *
1247555 TCTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGAAATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
1247601 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
* * * *
1247647 TTTCATGCCTTAATGCATCCATTAATTCATTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
1247693 TTTCATGCCTTAATG
1 TTTCATGCCTTAATG
1247708 ATAACATAGT
Statistics
Matches: 301, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 301 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTATGGAATCC
Done.