Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_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: 2457469
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1914695 original size:16 final size:16
Alignment explanation
Indices: 1914676--1914706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1914666 GGCTAAGGCG
*
1914676 CTTTTTACTAACAGCA
1 CTTTCTACTAACAGCA
1914692 CTTTCTACTAACAGC
1 CTTTCTACTAACAGC
1914707 GCCTTACTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (16 bp):
CTTTCTACTAACAGCA
Found at i:1915600 original size:21 final size:21
Alignment explanation
Indices: 1915576--1915640 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
1915566 GGTAAAAAAA
1915576 AAAAGCATTCCAAAGATCAAG
1 AAAAGCATTCCAAAGATCAAG
* * *
1915597 AAAACCA--GCAATA-A-CACTG
1 AAAAGCATTCCAA-AGATCA-AG
1915616 AAAAGCATTCCAAAGATCAAG
1 AAAAGCATTCCAAAGATCAAG
1915637 AAAA
1 AAAA
1915641 CCAACAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 2 0.06
21 15 0.47
22 2 0.06
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAGCATTCCAAAGATCAAG
Found at i:1915620 original size:40 final size:40
Alignment explanation
Indices: 1915576--1915655 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
1915566 GGTAAAAAAA
*
1915576 AAAAGCATTCCAAAGATCAAGAAAACCAGCAATAACACTG
1 AAAAGCATTCCAAAGATCAAGAAAACCAACAATAACACTG
1915616 AAAAGCATTCCAAAGATCAAGAAAACCAACAATAACACTG
1 AAAAGCATTCCAAAGATCAAGAAAACCAACAATAACACTG
1915656 CATTTAGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.54, C:0.23, G:0.11, T:0.12
Consensus pattern (40 bp):
AAAAGCATTCCAAAGATCAAGAAAACCAACAATAACACTG
Found at i:1916966 original size:18 final size:18
Alignment explanation
Indices: 1916943--1916991 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
1916933 TTAAGCAATG
*
1916943 TAATTGCCACATCAAATA
1 TAATTGCCACATCAAAGA
*
1916961 TAATTGCCA-ATTAAAGA
1 TAATTGCCACATCAAAGA
1916978 TGAATTGCCACATC
1 T-AATTGCCACATC
1916992 TTTTCGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.27
18 17 0.65
19 2 0.08
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (18 bp):
TAATTGCCACATCAAAGA
Found at i:1917312 original size:21 final size:24
Alignment explanation
Indices: 1917254--1917319 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
1917244 CTGACTTAGC
* *
1917254 CACTAAACAATATACAAAAAATGAA
1 CACTAAGCCATATACAAAAAAT-AA
*
1917279 CACTAAGGCATATACAAAAAAT-A
1 CACTAAGCCATATACAAAAAATAA
*
1917302 C-C-AAGCCATATGCAAAAA
1 CACTAAGCCATATACAAAAA
1917320 TGACCACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.39
22 1 0.03
23 2 0.06
25 19 0.53
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.15
Consensus pattern (24 bp):
CACTAAGCCATATACAAAAAATAA
Found at i:1919285 original size:48 final size:46
Alignment explanation
Indices: 1919204--1919309 Score: 140
Period size: 48 Copynumber: 2.3 Consensus size: 46
1919194 TTTTCATATT
* *
1919204 CCACAGCAGCCATTGCTATGGATAATGCATTCATTTACATCAATTC
1 CCACAACAACCATTGCTATGGATAATGCATTCATTTACATCAATTC
* * * *
1919250 CCATAACAACCATTGTTATGGGATAAATGCATTCATTTACGTCGATTC
1 CCACAACAACCATTGCTAT-GGAT-AATGCATTCATTTACATCAATTC
1919298 CCACAACAACCA
1 CCACAACAACCA
1919310 ATATGCACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 15 0.29
47 4 0.08
48 32 0.63
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (46 bp):
CCACAACAACCATTGCTATGGATAATGCATTCATTTACATCAATTC
Found at i:1920379 original size:21 final size:21
Alignment explanation
Indices: 1920350--1920389 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1920340 CAACAAAGTT
*
1920350 CCAATAACCAATATCTATATC
1 CCAACAACCAATATCTATATC
* *
1920371 CCAACAACCACTATTTATA
1 CCAACAACCAATATCTATA
1920390 ACATCAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (21 bp):
CCAACAACCAATATCTATATC
Found at i:1920827 original size:28 final size:28
Alignment explanation
Indices: 1920787--1920844 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1920777 TTAAAAACTT
1920787 ATGAATCAAAACATTCAAAGATTTTCAA
1 ATGAATCAAAACATTCAAAGATTTTCAA
1920815 ATGAATCAAAACATTCAAAGATTTTCAA
1 ATGAATCAAAACATTCAAAGATTTTCAA
1920843 AT
1 AT
1920845 ACATAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (28 bp):
ATGAATCAAAACATTCAAAGATTTTCAA
Found at i:1920853 original size:28 final size:28
Alignment explanation
Indices: 1920787--1920853 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
1920777 TTAAAAACTT
*
1920787 ATGAATCAAAACATTCAAAGATTTTCAA
1 ATGAATAAAAACATTCAAAGATTTTCAA
*
1920815 ATGAATCAAAACATTCAAAGATTTTCAA
1 ATGAATAAAAACATTCAAAGATTTTCAA
1920843 AT-ACATAAAAA
1 ATGA-ATAAAAA
1920854 AAAAACTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (28 bp):
ATGAATAAAAACATTCAAAGATTTTCAA
Found at i:1922010 original size:3 final size:3
Alignment explanation
Indices: 1922002--1922031 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1921992 ATTAACTCCC
1922002 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1922032 GGTCAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:1922401 original size:24 final size:24
Alignment explanation
Indices: 1922373--1922418 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1922363 TGATAAAAAA
* *
1922373 AACACAAATGAATGAACATAAATG
1 AACACAAACGAACGAACATAAATG
*
1922397 AACACAAACGAACGGACATAAA
1 AACACAAACGAACGAACATAAA
1922419 CAAATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.17, G:0.13, T:0.11
Consensus pattern (24 bp):
AACACAAACGAACGAACATAAATG
Found at i:1922665 original size:14 final size:14
Alignment explanation
Indices: 1922649--1922700 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
1922639 ATAAACGAAC
1922649 ATAAACGAACA-AA
1 ATAAACGAACATAA
1922662 CATAAACGAACATAA
1 -ATAAACGAACATAA
*
1922677 ATAAACAAACATAA
1 ATAAACGAACATAA
*
1922691 ATGAACGAAC
1 ATAAACGAAC
1922701 GGATTACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 32 0.94
15 2 0.06
ACGTcount: A:0.63, C:0.17, G:0.08, T:0.12
Consensus pattern (14 bp):
ATAAACGAACATAA
Found at i:1922671 original size:24 final size:24
Alignment explanation
Indices: 1922639--1922696 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
1922629 TGGGTTAAAT
*
1922639 ATAAACGAACATAAACGAACAAAC
1 ATAAACGAACATAAACAAACAAAC
*
1922663 ATAAACGAACATAAATAAACAAAC
1 ATAAACGAACATAAACAAACAAAC
*
1922687 ATAAATGAAC
1 ATAAACGAAC
1922697 GAACGGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12
Consensus pattern (24 bp):
ATAAACGAACATAAACAAACAAAC
Found at i:1923273 original size:40 final size:40
Alignment explanation
Indices: 1923229--1923307 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
1923219 ACTTGTTAGA
*
1923229 TAAAAAAAAGGAAATAAAAATAAATAAGAT-A-ATAAAAAAT
1 TAAAAAAAAGAAAAT-AAAATAAA-AAGATAAGATAAAAAAT
*
1923269 TAAAATAAAGAAAATAAAATAAAAAGATAAGATAAAAAA
1 TAAAAAAAAGAAAATAAAATAAAAAGATAAGATAAAAAA
1923308 AGAGTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 5 0.14
39 9 0.26
40 21 0.60
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (40 bp):
TAAAAAAAAGAAAATAAAATAAAAAGATAAGATAAAAAAT
Found at i:1923277 original size:13 final size:12
Alignment explanation
Indices: 1923240--1923355 Score: 56
Period size: 13 Copynumber: 8.9 Consensus size: 12
1923230 AAAAAAAAGG
1923240 AAATAAAAATAAA
1 AAAT-AAAATAAA
* * *
1923253 TAAGATAATAAA
1 AAATAAAATAAA
1923265 AAATTAAAATAAAGA
1 AAA-TAAAAT-AA-A
1923280 AAATAAAATAAA
1 AAATAAAATAAA
*
1923292 AAGATAAGATAAA
1 AA-ATAAAATAAA
* *
1923305 AAA-AGAGTAAA
1 AAATAAAATAAA
1923316 AATGATAAAGATAAA
1 AA--ATAAA-ATAAA
*
1923331 AAAGTAAGTAA-AAT
1 AAA-TAA--AATAAA
1923345 AAATAAAATAA
1 AAATAAAATAA
1923356 TGATAAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
11 9 0.12
12 15 0.19
13 24 0.31
14 18 0.23
15 11 0.14
16 1 0.01
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:1923306 original size:70 final size:69
Alignment explanation
Indices: 1923226--1923395 Score: 159
Period size: 70 Copynumber: 2.4 Consensus size: 69
1923216 GAAACTTGTT
*
1923226 AGATAAAAAAAAGGAAATAAAAATAA-ATAAGATAATAAAA-AATTAAAATAAAGAAAATAA-AA
1 AGAT-AAAAAAA-G-AATAAAAATAATA-AAGATAA-AAAAGAAGTAAAATAAAGAAAATAATAA
1923288 TAAAAAGATA
61 TAAAAA-ATA
* * * *
1923298 AGATAAAAAAAGAGTAAAAATGATAAAGATAAAAAAGTAAGTAAAATAAATAAAATAATGATAAA
1 AGATAAAAAAAGAATAAAAATAATAAAGATAAAAAAG-AAGTAAAATAAAGAAAATAATAATAAA
1923363 AAATA
65 AAATA
* *
1923368 ATGACAAACAAAATAAATAAAAA-AATAA
1 A-GATAAA-AAAA-GAATAAAAATAATAA
1923396 TAGTAAGAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
68 4 0.05
69 16 0.20
70 24 0.29
71 19 0.23
72 12 0.15
73 7 0.09
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (69 bp):
AGATAAAAAAAGAATAAAAATAATAAAGATAAAAAAGAAGTAAAATAAAGAAAATAATAATAAAA
AATA
Found at i:1923308 original size:26 final size:26
Alignment explanation
Indices: 1923279--1923391 Score: 54
Period size: 26 Copynumber: 4.2 Consensus size: 26
1923269 TAAAATAAAG
*
1923279 AAAATAAAATAAA-AAGATAAGATAA
1 AAAATAAAATAAACAAAATAAGATAA
* * *
1923304 AAAA-AGAGTAAA-AATGATAAAGATAA
1 AAAATAAAATAAACAA-AAT-AAGATAA
*
1923330 AAAAGTAAGTAAAATAAATAAAATAATGATAA
1 AAAA-T----AAAATAAACAAAATAA-GATAA
* *
1923362 AAAATAATGACAAACAAAATAA-ATAA
1 AAAATAA-AATAAACAAAATAAGATAA
1923388 AAAA
1 AAAA
1923392 ATAATAGTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 21
0.70 0.08 0.21
Matches are distributed among these distances:
24 8 0.12
25 7 0.10
26 19 0.28
27 2 0.03
28 11 0.16
31 3 0.04
32 17 0.25
33 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.17
Consensus pattern (26 bp):
AAAATAAAATAAACAAAATAAGATAA
Found at i:1923334 original size:25 final size:24
Alignment explanation
Indices: 1923273--1923343 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 24
1923263 AAAAATTAAA
1923273 ATAAAGA-AAATAAA-A-TAAAAAG
1 ATAAAGATAAA-AAAGAGTAAAAAG
1923295 AT-AAGATAAAAAAAGAGTAAAAATG
1 ATAAAGAT-AAAAAAGAGTAAAAA-G
1923320 ATAAAGATAAAAAAGTAAGTAAAA
1 ATAAAGATAAAAAAG--AGTAAAA
1923344 TAAATAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
21 4 0.10
22 5 0.12
23 4 0.10
24 6 0.15
25 10 0.24
26 5 0.12
27 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (24 bp):
ATAAAGATAAAAAAGAGTAAAAAG
Found at i:1923351 original size:9 final size:9
Alignment explanation
Indices: 1923240--1923498 Score: 69
Period size: 9 Copynumber: 28.3 Consensus size: 9
1923230 AAAAAAAAGG
1923240 AAATAAAAAT
1 AAAT-AAAAT
*
1923250 AAATAAGAT
1 AAATAAAAT
1923259 -AATAAAA-
1 AAATAAAAT
*
1923266 AATTAAAAT
1 AAATAAAAT
*
1923275 AAAGAAAAT
1 AAATAAAAT
1923284 AAAATAAAA-
1 -AAATAAAAT
* *
1923293 AGATAAGAT
1 AAATAAAAT
1923302 AAA-AAAA-
1 AAATAAAAT
* *
1923309 GAGTAAAA-
1 AAATAAAAT
*
1923317 ATGATAAAGAT
1 A-AATAAA-AT
*
1923328 AAA-AAAGT
1 AAATAAAAT
*
1923336 AAGTAAAAT
1 AAATAAAAT
1923345 AAATAAAAT
1 AAATAAAAT
1923354 -AATGATAAA-
1 AAAT-A-AAAT
* *
1923363 AAATAATGAC
1 AAATAA-AAT
*
1923373 AAACAAAAT
1 AAATAAAAT
1923382 AAATAAAA-
1 AAATAAAAT
*
1923390 AAATAATAGT
1 AAATAA-AAT
1923400 AAGAATAATATAT
1 -A-AATAA-A-AT
* *
1923413 ATATATAAT
1 AAATAAAAT
*
1923422 AAA-GAAAT
1 AAATAAAAT
1923430 AAATAAACA-
1 AAATAAA-AT
*
1923439 AGAAGAAAAT
1 A-AATAAAAT
*
1923449 AAA-AAATAA
1 AAATAAA-AT
1923458 ATAATAAAAT
1 A-AATAAAAT
*
1923468 CAATATAAAAG
1 -AA-ATAAAAT
1923479 AAATAAAA-
1 AAATAAAAT
*
1923487 AAATTAAAT
1 AAATAAAAT
1923496 AAA
1 AAA
1923499 GGTTAAAAAA
Statistics
Matches: 182, Mismatches: 38, Indels: 59
0.65 0.14 0.21
Matches are distributed among these distances:
7 1 0.01
8 54 0.30
9 65 0.36
10 38 0.21
11 15 0.08
12 8 0.04
13 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:1923475 original size:14 final size:11
Alignment explanation
Indices: 1923240--1923498 Score: 73
Period size: 12 Copynumber: 21.6 Consensus size: 11
1923230 AAAAAAAAGG
1923240 AAAT-AAAAAT
1 AAATAAAAAAT
*
1923250 AAATAAGATAAT
1 AAATAA-AAAAT
*
1923262 AAAAAATTAAAAT
1 AAATAA--AAAAT
* *
1923275 AAAGAAAATA-
1 AAATAAAAAAT
1923285 AAATAAAAAGAT
1 AAATAAAAA-AT
1923297 AAGATAAAAAA-
1 AA-ATAAAAAAT
*
1923308 AGAGTAAAAATGAT
1 A-AATAAAAA--AT
1923322 AAAGATAAAAAAGT
1 -AA-ATAAAAAA-T
*
1923336 AAGT--AAAAT
1 AAATAAAAAAT
1923345 AAATAAAATAAT
1 AAATAAAA-AAT
*
1923357 -GATAAAAAAT
1 AAATAAAAAAT
*
1923367 AATGACAAACAAAAT
1 AA--A-TAA-AAAAT
1923382 AAATAAAAAAAT
1 AAAT-AAAAAAT
1923394 AATAGTAAGAATAAT
1 AA-A-TAA-AA-AAT
* *
1923409 ATATATATATAAT
1 A-A-ATAAAAAAT
*
1923422 AAAGAAATAAAT
1 AAATAAA-AAAT
* *
1923434 AAACAAGAAGA-
1 AAATAA-AAAAT
1923445 AAATAAAAAAT
1 AAATAAAAAAT
1923456 AAATAATAAAAT
1 AAATAA-AAAAT
* * *
1923468 CAATATAAAAG
1 AAATAAAAAAT
1923479 AAATAAAAAAATT
1 AAAT-AAAAAA-T
1923492 AAATAAA
1 AAATAAA
1923499 GGTTAAAAAA
Statistics
Matches: 185, Mismatches: 31, Indels: 64
0.66 0.11 0.23
Matches are distributed among these distances:
9 4 0.02
10 21 0.11
11 41 0.22
12 52 0.28
13 36 0.19
14 8 0.04
15 20 0.11
16 3 0.02
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:1923477 original size:23 final size:23
Alignment explanation
Indices: 1923446--1923498 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1923436 ACAAGAAGAA
* * *
1923446 AATAAAAAATAAATAATAAAATC
1 AATATAAAAGAAATAAAAAAATC
*
1923469 AATATAAAAGAAATAAAAAAATT
1 AATATAAAAGAAATAAAAAAATC
1923492 AA-ATAAA
1 AATATAAA
1923499 GGTTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (23 bp):
AATATAAAAGAAATAAAAAAATC
Found at i:1923513 original size:9 final size:9
Alignment explanation
Indices: 1923473--1923519 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
1923463 AAAATCAATA
1923473 TAAAAGAAA-
1 TAAAA-AAAT
1923482 TAAAAAAAT
1 TAAAAAAAT
*
1923491 TAAATAAAGGT
1 TAAA-AAA-AT
1923502 TAAAAAAAT
1 TAAAAAAAT
1923511 TAAAAAAAT
1 TAAAAAAAT
1923520 ATATATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 3 0.09
9 19 0.58
10 6 0.18
11 5 0.15
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:1923556 original size:11 final size:11
Alignment explanation
Indices: 1923444--1923570 Score: 56
Period size: 11 Copynumber: 10.4 Consensus size: 11
1923434 AAACAAGAAG
1923444 AAAATAAAAAA
1 AAAATAAAAAA
*
1923455 TAAATAATAAAA
1 AAAATAA-AAAA
** *
1923467 TCAATATAAAA
1 AAAATAAAAAA
*
1923478 GAAATAAAAAA
1 AAAATAAAAAA
1923489 ATTAAATAAAGGTTAAA
1 A--AAATAAA----AAA
1923506 AAAATTAAAAAA
1 AAAA-TAAAAAA
*
1923518 ATATATATAAAAAT
1 A-A-A-ATAAAAAA
* *
1923532 AAGATAAAGGAA
1 AAAATAAA-AAA
1923544 AAAATAAAAAA
1 AAAATAAAAAA
*
1923555 AAAACAAAAAGA
1 AAAATAAAAA-A
1923567 AAAA
1 AAAA
1923571 GGAAATATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 25
0.70 0.11 0.20
Matches are distributed among these distances:
11 34 0.38
12 26 0.29
13 9 0.10
14 8 0.09
15 4 0.04
16 4 0.04
17 4 0.04
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:1923582 original size:2 final size:2
Alignment explanation
Indices: 1923575--1923705 Score: 68
Period size: 2 Copynumber: 70.5 Consensus size: 2
1923565 GAAAAAGGAA
* * *
1923575 AT AT AT AT AT AT AT AT AT AT AT AT GAT A- AT AT -T A- AA AA AG
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * * *
1923615 A- AT AA AT A- AA AT AT AT AT GT AT -T AG A- AT AT -T A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
1923650 AA AT AT AT AA AT AA AT AA AA AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1923691 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1923706 CATTCTAAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
1 11 0.11
2 90 0.87
3 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (2 bp):
AT
Found at i:1923629 original size:38 final size:40
Alignment explanation
Indices: 1923587--1923664 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 40
1923577 ATATATATAT
*
1923587 ATATATATATATGATAATATTAA-AAAAGA-ATAAATAAA
1 ATATATATATATGAGAATATTAATAAAAGATATAAATAAA
* * *
1923625 ATATATATGTATTAGAATATTAATAAAATATATAAATAAA
1 ATATATATATATGAGAATATTAATAAAAGATATAAATAAA
1923665 TAAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 20 0.59
39 5 0.15
40 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (40 bp):
ATATATATATATGAGAATATTAATAAAAGATATAAATAAA
Found at i:1923666 original size:23 final size:23
Alignment explanation
Indices: 1923616--1923705 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 23
1923606 TTAAAAAAGA
*
1923616 ATAAATAAAATATATATGTATTAGAAT
1 ATAAATAAAATATATA---AATA-AAT
*
1923643 ATTAATAAAATATATAAATAAAT
1 ATAAATAAAATATATAAATAAAT
* * * *
1923666 AAAAATAATATATATATATATAT
1 ATAAATAAAATATATAAATAAAT
* *
1923689 ATATATATATATATATA
1 ATAAATA-AAATATATA
1923706 CATTCTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
23 26 0.49
24 12 0.23
27 15 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAATAAAATATATAAATAAAT
Found at i:1925816 original size:85 final size:85
Alignment explanation
Indices: 1925476--1926802 Score: 1394
Period size: 85 Copynumber: 15.8 Consensus size: 85
1925466 ATATGTCATC
* * * * *** * *
1925476 GAGCTG-ATGGAATCGAACTCGACA-GTTTTTGTTGATAGATAGATTTTCTCGACTTAAGCTATG
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * *
1925539 CTATAAATTTGACATGCCCTT
65 CTGTAAATTTGATATGCCTTT
* * * * * * * *
1925560 GAGCTGAATGGAATCGAACTTGAAGGTATT-TTTGACAGATAACCCTTCTTGCCTTGAGCTGTGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1925624 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * *
1925644 GAGCTGAATGTATTTGAACTCGAAGGTCTTGGTTGACAGAT-GCCCTTCTCGCCTTGAGCTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1925708 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * *
1925728 GAGCTTG-ATGTAATTGAACTCGAAGGTCTTGGTTGACAGCTAGCCCTTCTCGCCTTGAGCTATA
1 GAGC-TGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
1925792 CTATAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * * * *
1925813 GAGCTGACTTTAATCGAACTCGAAGGTCTT-GCTGACAGATAACACTTCTCGTCTTTAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
1925877 TGTAAATTGGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * *
1925897 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATAACTCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * *
1925962 TTATAAATTTGATGTGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * *
1925983 GAGTTGACTGTAATCGAACTTC-AAGGTTTTGGTTGACATATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAAC-TCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
1926047 CTGTAAATGTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * *
1926068 GAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGACACATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * *
1926133 CTATAAATTTGATGTTCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * * *
1926154 GAGCTGAATGTAATCTAACTCGAAGGTCTTGGTAGAAAGATAACCCTTCTCACCTTGAGTTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1926219 TGT--A----A-ATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
1926232 GAGCTGAATATAATCGAACTCGAAGGCCTTTGTTGATAGATAGCCCTTCTCGGCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* * *
1926297 TATAAATTTGATGTACCTTT
66 TGTAAATTTGATATGCCTTT
* * * * *
1926317 GAGCTGAATGTAATCGAACTCGAAGGACTTGGTAGACAGATAACCCTTCTCACCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
1926382 TGTAAATGCTTTTGATGTACCTTT
66 TGTAAA----TTTGATATGCCTTT
* * ** * * *
1926406 GAGCTGAGTGTAATCGTACTCGAAGGTCCTTTATTGACAGATAGTCATTCTTGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGT-CTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* *
1926471 CTGTAAA-TTAATGTGCC-TT
65 CTGTAAATTTGATATGCCTTT
* * ** * * *
1926490 GAGCTGAGTGTAATCGAACTTGAAGGTCTTCATTGACAGATAGACATTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
1926555 TGCAAATTTGATATG-ATTAT
66 TGTAAATTTGATATGCCTT-T
* *
1926575 GAGCTAAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCCATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1926640 ---AACA----A-ATGCCTTT
66 TGTAA-ATTTGATATGCCTTT
* *
1926653 GAGATGAATGTAATCGAACTCGAAGGTCTT-GTTGATAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
1926717 AGTAAATTTGATA-GGCTTT
66 TGTAAATTTGATATGCCTTT
* * *
1926736 GAGTTGAATGTAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCCATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1926801 TG
66 TG
1926803 CCAATAGTTC
Statistics
Matches: 1047, Mismatches: 159, Indels: 74
0.82 0.12 0.06
Matches are distributed among these distances:
77 32 0.03
78 94 0.09
79 5 0.00
80 3 0.00
82 2 0.00
83 75 0.07
84 290 0.28
85 330 0.32
86 141 0.13
87 2 0.00
89 38 0.04
90 35 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:1926318 original size:163 final size:165
Alignment explanation
Indices: 1925552--1926801 Score: 1226
Period size: 171 Copynumber: 7.4 Consensus size: 165
1925542 TAAATTTGAC
* * * ** * *
1925552 ATGCCCTTGAGCTGAATGGAATCGAACTTGAAGGTATTT-TTGACAGATAACCCTTCTTGCCTTG
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCTTG
* * * * * *
1925616 AGCTGTGTTGTAAATTTGATATGCCTTTGAGCTGAATGTATTTGAACTCGAAGGTCTTGGTTGAC
66 AGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
* * *
1925681 AGAT-GCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGAT
131 AGATAACCCTTCTCGCCTTGAGTTATGCTGT-AA----AT
* * * *
1925720 ATGCCTTTGAGCTTG-ATGTAATTGAACTCGAAGGTCTTGGTTGACAGCTAGCCCTTCTCGCCTT
1 ATGCCTTTGAGC-TGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCTT
* * * * *
1925784 GAGCTATACTATAAATTTGATATGCCTTTGAGCTGACTTTAATCGAACTCGAAGGTCTT-GCTGA
65 GAGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGA
* * *
1925848 CAGATAACACTTCTCGTCTTTAGTTATGCTGTAAATTGGAT
130 CAGATAACCCTTCTCGCCTTGAGTTATGCTGT-AA----AT
* * * *
1925889 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATAACTCTTCTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG-CCTTTGTTGACAGATAGCCCTTCTCGCCTT
* * * *
1925954 GAGCTATGTTATAAATTTGATGTGCCTTTGAGTTGACTGTAATCGAACTTC-AAGGTTTTGGTTG
65 GAGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAAC-TCGAAGGTCTTGGTTG
*
1926018 ACATATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGTGAT
129 ACAGATAACCCTTCTCGCCTTGAGTTATGCTGT-AA----AT
* * * * *
1926060 ATGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGACACATAACCCTTCTCGCCTT
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG-CCTTTGTTGACAGATAGCCCTTCTCGCCTT
* * *
1926125 GAGCTATGCTATAAATTTGATGTTCCTTTGAGCTGAATGTAATCTAACTCGAAGGTCTTGGTAGA
65 GAGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGA
* * *
1926190 AAGATAACCCTTCTCACCTTGAGTTATGTTGT-AA-
130 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * *
1926224 ATGCCTTTGAGCTGAATATAATCGAACTCGAAGGCCTTTGTTGATAGATAGCCCTTCTCGGCTTG
1 ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCTTG
* * *
1926289 AGCTATGCTATAAATTTGATGTACCTTTGAGCTGAATGTAATCGAACTCGAAGGACTTGGTAGAC
66 AGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
*
1926354 AGATAACCCTTCTCACCTTGAGTTATGCTGTAAATGCTTTT
131 AGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA------T
* * * * * *
1926395 GATGTACCTTTGAGCTGAGTGTAATCGTACTCGAAGGTCCTTTATTGACAGATAGTCATTCTTGC
1 -ATG--CCTTTGAGCTGAATGTAATCGAACTCGAAGG-CCTTTGTTGACAGATAGCCCTTCTCGC
* * * * **
1926460 CTTGAGCTATGCTGTAAA-TTAATGTGCC-TTGAGCTGAGTGTAATCGAACTTGAAGGTCTTCAT
62 CTTGAGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGT
* *
1926523 TGACAGATAGA-CATTCTCGCCTTGAGTTATGCTGCAAATTTGAT
127 TGACAGATA-ACCCTTCTCGCCTTGAGTTATGCTG-TAA----AT
* * * *
1926567 ATG-ATTATGAGCTAAATGTAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTT
1 ATGCCTT-TGAGCTGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCTT
* *
1926631 GAGCCATGC-A-ACAA----A--TGCCTTTGAGATGAATGTAATCGAACTCGAAGGTCTT-GTTG
65 GAGCTATGCTATA-AATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTG
* * * *
1926687 ATAGATAGCCCTTCTCGCCTTGAGCTATGCAGTAAATTT
129 ACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA--T
* * * * *
1926726 GATAGGCTTTGAGTTGAATGTAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCT
1 -AT-GCCTTTGAGCTGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCT
*
1926791 TGAGCCATGCT
64 TGAGCTATGCT
1926802 GCCAATAGTT
Statistics
Matches: 924, Mismatches: 122, Indels: 78
0.82 0.11 0.07
Matches are distributed among these distances:
157 1 0.00
159 1 0.00
160 2 0.00
161 66 0.07
162 35 0.04
163 146 0.16
164 34 0.04
165 1 0.00
166 1 0.00
167 2 0.00
168 75 0.08
169 157 0.17
170 75 0.08
171 187 0.20
172 4 0.00
173 59 0.06
174 39 0.04
175 38 0.04
178 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (165 bp):
ATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGCCTTTGTTGACAGATAGCCCTTCTCGCCTTG
AGCTATGCTATAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAC
AGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
Found at i:1926738 original size:504 final size:505
Alignment explanation
Indices: 1925558--1926801 Score: 1484
Period size: 504 Copynumber: 2.5 Consensus size: 505
1925548 TGACATGCCC
* * * * * * **
1925558 TTGAGCTGAATGGAATCGAACTTGAAGGTATTT--TTGACAGATAACCCTTCTTGCCTTGAGCTG
1 TTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACACATAACCCTTCTCGCCTTGAGCCA
* * * * *
1925621 TGTTGTAAATTTGATATGCCTTTGAGCTGAATGTATTTGAACTCGAAGGTCTTGGTTGACAGAT-
66 TGCTAT-AA----ATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAAAGATA
*
1925685 GCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTTG-ATGTAATTGAACTC
126 GCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATA-GCCTTTGAGC-TGAATGTAATCGAACTC
* * *
1925749 GAAGGTCTTGGTTGACAGCTAGCCCTTCTCGCCTTGAGCTATACTATAAATTTGATATGCCTTTG
189 GAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATACCTTTG
* * * ** *
1925814 AGCTGACTTTAATCGAACTCGAAGGTCTTGCTGACAGATAACACTTCTCGTCTTTAGTTATGCTG
254 AGCTGAATGTAATCGAACTCGAAGGACTTGCTGACAGATAACACTTCTCACCTTGAGTTATGCTG
* * * *
1925879 TAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGTTGATAGATAACTC
319 TAAATTGGATATACCTTTGAGCTGAATGTAATCGAACTCGAAGGTCCTTTATTGACAGATAACTC
* * *
1925944 TTCTCGCCTTGAGCTATGTTATAAATTTGATGTGCCTTTGAGTTGACTGTAATCGAACTTCAAGG
384 TTCTCGCCTTGAGCTATGCTATAAATTTAATGTGCCTTTGAGCTGACTGTAATCGAACTTCAAGG
* ** * * * *
1926009 TTTTGGTTGACATATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGTGATATGCCT
449 TCTTCATTGACAGATAACCATTCTCGCCTTGAGTTATGCTGCAAATGTGATATGCAT
* * * * *
1926066 TTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTTGTTGACACATAACCCTTCTCGCCTTGAGCTA
1 TTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACACATAACCCTTCTCGCCTTGAGCCA
* *
1926131 TGCTATAAATTTGATGTTCCTTTGAGCTGAATGTAATCTAACTCGAAGGTCTTGGTAGAAAGATA
66 TGCTATAAA--T-ATG--CCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAAAGATA
* * * *
1926196 ACCCTTCTCACCTTGAGTTATGTTGT-AA----AT-GCCTTTGAGCTGAATATAATCGAACTCGA
126 GCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATAGCCTTTGAGCTGAATGTAATCGAACTCGA
* * * * *
1926255 AGGCCTTTGTTGATAGATAGCCCTTCTCGGCTTGAGCTATGCTATAAATTTGATGTACCTTTGAG
191 AGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATACCTTTGAG
* *
1926320 CTGAATGTAATCGAACTCGAAGGACTTGGTAGACAGATAACCCTTCTCACCTTGAGTTATGCTGT
256 CTGAATGTAATCGAACTCGAAGGACTTGCT-GACAGATAACACTTCTCACCTTGAGTTATGCTGT
* * * *
1926385 AAATGCTTTTGATGTACCTTTGAGCTGAGTGTAATCGTACTCGAAGGTCCTTTATTGACAGAT-A
320 AAA----TTGGATATACCTTTGAGCTGAATGTAATCGAACTCGAAGGTCCTTTATTGACAGATAA
* * * * *
1926449 GTCATTCTTGCCTTGAGCTATGCTGTAAA-TTAATGTGCC-TTGAGCTGAGTGTAATCGAACTTG
381 CTC-TTCTCGCCTTGAGCTATGCTATAAATTTAATGTGCCTTTGAGCTGACTGTAATCGAACTTC
*
1926512 AAGGTCTTCATTGACAGATAGA-CATTCTCGCCTTGAGTTATGCTGCAAATTTGATATG-AT
445 AAGGTCTTCATTGACAGATA-ACCATTCTCGCCTTGAGTTATGCTGCAAATGTGATATGCAT
* *
1926572 TATGAGCTAAATGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAGCCCTTCTCGCCTTGAGCC
1 T-TGAGCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACACATAACCCTTCTCGCCTTGAGCC
* *
1926636 ATGC-A-ACAA-ATGCCTTTGAGATGAATGTAATCGAACTCGAAGGTCTT-GTTGATAGATAGCC
65 ATGCTATA-AATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAAAGATAGCC
** * * *
1926697 CTTCTCGCCTTGAGCTATGCAGTAAATTTGATAGGCTTTGAGTTGAATGTAATCAAACTCGAAGG
129 CTTCTCGCCTTGAGCTATGTTGTAAATTTGATAGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
1926762 TCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCCATGCT
194 TCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
1926802 GCCAATAGTT
Statistics
Matches: 629, Mismatches: 83, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
498 30 0.05
499 35 0.06
501 3 0.00
503 4 0.01
504 171 0.27
505 37 0.06
506 37 0.06
507 97 0.15
508 46 0.07
509 72 0.11
510 74 0.12
511 23 0.04
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (505 bp):
TTGAGCTAAATGTAATCGAACTCGAAGGTCTTTGGTTGACACATAACCCTTCTCGCCTTGAGCCA
TGCTATAAATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGAAAGATAGCCCT
TCTCGCCTTGAGCTATGTTGTAAATTTGATAGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
TTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTATAAATTTGATATACCTTTGAGCTGAA
TGTAATCGAACTCGAAGGACTTGCTGACAGATAACACTTCTCACCTTGAGTTATGCTGTAAATTG
GATATACCTTTGAGCTGAATGTAATCGAACTCGAAGGTCCTTTATTGACAGATAACTCTTCTCGC
CTTGAGCTATGCTATAAATTTAATGTGCCTTTGAGCTGACTGTAATCGAACTTCAAGGTCTTCAT
TGACAGATAACCATTCTCGCCTTGAGTTATGCTGCAAATGTGATATGCAT
Found at i:1927636 original size:14 final size:14
Alignment explanation
Indices: 1927617--1927643 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1927607 CAGAGTTATA
1927617 ATTCTTTGACAAAT
1 ATTCTTTGACAAAT
1927631 ATTCTTTGACAAA
1 ATTCTTTGACAAA
1927644 CATGCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTCTTTGACAAAT
Found at i:1928092 original size:91 final size:90
Alignment explanation
Indices: 1927986--1928164 Score: 272
Period size: 94 Copynumber: 2.0 Consensus size: 90
1927976 ATTAATCATC
1927986 TTTATCAGGCTAGCTGAATATTATCCATAAAG-GGGCGTTTAACCAATTGCTCTAGAGGGACTA-
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCGGGCGTTTAACCAATTGCTCTAGAGGGAC-AG
1928049 CTCAAGCTTTATGTATATTATAATCGCT
65 CTCAAGC-TTAT-TATATTATAATCGCT
* *
1928077 TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCGTTTAACCAATTTCTCTAGAGGGACA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAG-C-GGGCGTTTAACCAATTGCTCTAGAGGGACA
*
1928142 GCTCAAGCTTATTGTATTATAAT
64 GCTCAAGCTTATTATATTATAAT
1928165 ATTATAATTG
Statistics
Matches: 81, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
91 31 0.38
92 10 0.12
93 5 0.06
94 35 0.43
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (90 bp):
TTTATCAGGCTAGCTGAATATTATCCATAAAGCGGGCGTTTAACCAATTGCTCTAGAGGGACAGC
TCAAGCTTATTATATTATAATCGCT
Found at i:1929695 original size:39 final size:39
Alignment explanation
Indices: 1929652--1929732 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
1929642 AAATAAAAAG
1929652 AATTAGTGAGGTAAAGATAAAAATCAAAACAATGATGAA
1 AATTAGTGAGGTAAAGATAAAAATCAAAACAATGATGAA
*
1929691 AATTAGTGAGGTAAGGATAAAAATCAAAACAATGATGAA
1 AATTAGTGAGGTAAAGATAAAAATCAAAACAATGATGAA
1929730 AAT
1 AAT
1929733 AAAAGTCCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.56, C:0.05, G:0.19, T:0.21
Consensus pattern (39 bp):
AATTAGTGAGGTAAAGATAAAAATCAAAACAATGATGAA
Found at i:1931039 original size:38 final size:36
Alignment explanation
Indices: 1930977--1931053 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 36
1930967 AAATAAAAAG
1930977 AATTAGTGAGTAAAGAAAAATCAAAAC-ATGATGAA
1 AATTAGTGAGTAAAGAAAAATCAAAACAATGATGAA
*
1931012 AATTAGTGAGGTAAGGATAAAAATCAAAACAATGATGAA
1 AATTAGTGA-GTAA--AGAAAAATCAAAACAATGATGAA
1931051 AAT
1 AAT
1931054 AAAAGTCCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 9 0.24
36 4 0.11
38 13 0.35
39 11 0.30
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (36 bp):
AATTAGTGAGTAAAGAAAAATCAAAACAATGATGAA
Found at i:1932092 original size:25 final size:24
Alignment explanation
Indices: 1932047--1932096 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
1932037 GAAAAAAAGG
*
1932047 AAATTAAAATAAATAAGATAATAAA
1 AAATTAAAATAAAGAAGATAA-AAA
1932072 AAATTAAAATAAAGGAA-ATAAAAA
1 AAATTAAAATAAA-GAAGATAAAAA
1932096 A
1 A
1932097 CCAATGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (24 bp):
AAATTAAAATAAAGAAGATAAAAA
Found at i:1932136 original size:11 final size:10
Alignment explanation
Indices: 1932116--1932194 Score: 58
Period size: 10 Copynumber: 7.7 Consensus size: 10
1932106 TAAAAAAGAT
1932116 AAGATAAAAA
1 AAGATAAAAA
1932126 AAGAGT-AAAA
1 AAGA-TAAAAA
*
1932136 AAGATAAAGTA
1 AAGATAAA-AA
1932147 AAGATAAAAA
1 AAGATAAAAA
*
1932157 CGTAAG-TAAAAT
1 ---AAGATAAAAA
1932169 AA-ATAAAATA
1 AAGATAAAA-A
1932179 AAGATAAAAA
1 AAGATAAAAA
1932189 AA-ATAA
1 AAGATAA
1932195 TGACAAACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
9 12 0.21
10 20 0.36
11 16 0.29
12 5 0.09
13 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.11, T:0.15
Consensus pattern (10 bp):
AAGATAAAAA
Found at i:1932241 original size:2 final size:2
Alignment explanation
Indices: 1932234--1932258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1932224 AGTAAAAATA
1932234 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1932259 AGTAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1932423 original size:2 final size:2
Alignment explanation
Indices: 1932418--1932450 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1932408 GTAAAAAATA
1932418 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1932451 GATAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1932445 original size:19 final size:19
Alignment explanation
Indices: 1932415--1932460 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1932405 ATAGTAAAAA
1932415 ATAATA-TATATATATAT-
1 ATAATATTATATATATATG
1932432 ATATATATTATATATATATG
1 ATA-ATATTATATATATATG
1932452 ATAATATTA
1 ATAATATTA
1932461 AAAAAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 17 0.65
20 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAATATTATATATATATG
Found at i:1932490 original size:53 final size:53
Alignment explanation
Indices: 1932430--1932555 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 53
1932420 ATATATATAT
* *
1932430 ATATATATATTATATATATATGATAATATTAA-AAAAGA-ATAAATAAAAGAATA
1 ATATATATATTATATATATAT-AGAATATTAATAAAACAGATAAATAAAA-AATA
1932483 ATATATATA-TATATATAT-TAGAATATTAATAAAACAGATAAATAAAAAATA
1 ATATATATATTATATATATATAGAATATTAATAAAACAGATAAATAAAAAATA
1932534 ATATATATATATATATATATAT
1 ATATATATAT-TATATATATAT
1932556 TCTAAAAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
50 9 0.14
51 19 0.29
52 19 0.29
53 18 0.27
54 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (53 bp):
ATATATATATTATATATATATAGAATATTAATAAAACAGATAAATAAAAAATA
Found at i:1935809 original size:176 final size:178
Alignment explanation
Indices: 1935510--1935885 Score: 529
Period size: 176 Copynumber: 2.1 Consensus size: 178
1935500 ATTTTCTAAT
* * * * *
1935510 TTATATAA-AAATTAAATATTTTTTAATTCAAAAAAATTTTATAATTAATTTAAATAATATATAA
1 TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTAAAAATAATTT-AATAATATATAA
1935574 TTATAAAATAAAAATTTTAAATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAA-TTTAAATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA-
*
1935639 TGGATCTTAAATTATTAATT-GGTTTTAAAATGGTTTGGGCTT-AGCCCATATG
128 TGGATCTTAAATTATTAATTGGGTTTT-AAAT-GATTGGG-TTGAGCCCATATG
1935691 TTATATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTAAAAATAATTT-A-AATATAT
1 -T-TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTAAAAATAATTTAATAATATAT
* *
1935753 -ATTAT-AAAT-AAAA-TTATATAATTTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
63 AATTATAAAATAAAAATTTAAATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTA
1935814 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTGGGTTGAGCCCATATG
128 TGGATCTTAAATTATTAATTGGGTTTTAAATGATTGGGTTGAGCCCATATG
1935865 TTATATAATATATTTAATATT
1 TTATATAATATATTTAATATT
1935886 AAAATTTATT
Statistics
Matches: 181, Mismatches: 8, Indels: 20
0.87 0.04 0.10
Matches are distributed among these distances:
172 20 0.11
173 3 0.02
174 16 0.09
175 24 0.13
176 52 0.29
178 4 0.02
179 4 0.02
180 5 0.03
181 7 0.04
182 2 0.01
183 13 0.07
184 31 0.17
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (178 bp):
TTATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTAAAAATAATTTAATAATATATAAT
TATAAAATAAAAATTTAAATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATGG
ATCTTAAATTATTAATTGGGTTTTAAATGATTGGGTTGAGCCCATATG
Found at i:1938398 original size:3 final size:3
Alignment explanation
Indices: 1938392--1938435 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
1938382 TATTATTAAT
1938392 TAA TAA TAA GTAA TAA TAA TAA TAAA TAAA TAA TAA T-A TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA
1938436 AATGTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 26 0.68
4 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1938407 original size:10 final size:9
Alignment explanation
Indices: 1938392--1938435 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
1938382 TATTATTAAT
1938392 TAATAATAA
1 TAATAATAA
1938401 GTAATAATAA
1 -TAATAATAA
1938411 TAATAAATAAA
1 TAAT-AAT-AA
1938422 TAATAAT-A
1 TAATAATAA
1938430 TAATAA
1 TAATAA
1938436 AATGTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.22
9 4 0.12
10 15 0.47
11 6 0.19
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
TAATAATAA
Found at i:1938438 original size:16 final size:15
Alignment explanation
Indices: 1938392--1938438 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
1938382 TATTATTAAT
*
1938392 TAATAATAAGTAATAA
1 TAATAATAAATAA-AA
1938408 TAATAATAAAT-AAA
1 TAATAATAAATAAAA
1938422 TAATAATATAATAAAA
1 TAATAATA-AATAAAA
1938438 T
1 T
1938439 GTTTTTGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 14 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
TAATAATAAATAAAA
Found at i:1938438 original size:20 final size:20
Alignment explanation
Indices: 1938392--1938436 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
1938382 TATTATTAAT
*
1938392 TAAT-AATAAGTAATAATAA
1 TAATAAATAAATAATAATAA
1938411 TAATAAATAAATAATAAT-A
1 TAATAAATAAATAATAATAA
1938430 TAATAAA
1 TAATAAA
1938437 ATGTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAATAAATAAATAATAATAA
Found at i:1939086 original size:86 final size:84
Alignment explanation
Indices: 1938976--1939220 Score: 217
Period size: 84 Copynumber: 2.9 Consensus size: 84
1938966 TTATTGACAT
* * * * * * *
1938976 ATAGCCCTTCTTGCCTTGAACTATGTTGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCGAAC
1 ATAGCCCTTCTAGCCTTGAACTATGCTGCAAA--AGATGTGCCTCTGAGCTGAACGTAATCGAAC
* *
1939041 TCGAGGGTCTTTGGTTGGCAG
64 TCGAAGGCCTTTGGTTGGCAG
* * * *
1939062 ATAGCCCTTCTCGCCTT-AAGCTATGCTGCAAAAGATGTGCCTTTGAGCTGAGCGTAGTCGAACT
1 ATAGCCCTTCTAGCCTTGAA-CTATGCTGCAAAAGATGTGCCTCTGAGCTGAACGTAATCGAACT
* *
1939126 CTAAGGCCTTTGGTTGGTAG
65 CGAAGGCCTTTGGTTGGCAG
* ** ** *
1939146 ATAACCCTTCTAGCCTTGAGTTATGCTGCAACTGATGTGCCT-TGGAGCT-AAGCGTAGTCGAAC
1 ATAGCCCTTCTAGCCTTGAACTATGCTGCAAAAGATGTGCCTCT-GAGCTGAA-CGTAATCGAAC
* *
1939209 TCAAAGGTCTTT
64 TCGAAGGCCTTT
1939221 TGTTTCAAGA
Statistics
Matches: 132, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
83 2 0.02
84 101 0.77
85 3 0.02
86 26 0.20
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (84 bp):
ATAGCCCTTCTAGCCTTGAACTATGCTGCAAAAGATGTGCCTCTGAGCTGAACGTAATCGAACTC
GAAGGCCTTTGGTTGGCAG
Found at i:1939103 original size:84 final size:84
Alignment explanation
Indices: 1939015--1939220 Score: 218
Period size: 84 Copynumber: 2.5 Consensus size: 84
1939005 AAATTTGATT
* * * * * *
1939015 TGCCTCTGAGTTGAATGTAATCGAACTCGAGGGTCTTTGGTTGGCAGATAGCCCTTCTCGCCTTA
1 TGCCTCTGAGCTGAACGTAATCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTTCTAGCCTTA
1939080 AGCTATGCTGCAAAAGATG
66 AGCTATGCTGCAAAAGATG
* * * * * *
1939099 TGCCTTTGAGCTGAGCGTAGTCGAACTCTAAGGCCTTTGGTTGGTAGATAACCCTTCTAGCCTTG
1 TGCCTCTGAGCTGAACGTAATCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTTCTAGCCTTA
* **
1939164 AGTTATGCTGCAACTGATG
66 AGCTATGCTGCAAAAGATG
* * *
1939183 TGCCT-TGGAGCT-AAGCGTAGTCGAACTCAAAGGTCTTT
1 TGCCTCT-GAGCTGAA-CGTAATCGAACTCGAAGGCCTTT
1939221 TGTTTCAAGA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
83 2 0.02
84 100 0.98
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (84 bp):
TGCCTCTGAGCTGAACGTAATCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTTCTAGCCTTA
AGCTATGCTGCAAAAGATG
Found at i:1939271 original size:36 final size:35
Alignment explanation
Indices: 1939219--1939324 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 35
1939209 TCAAAGGTCT
* *
1939219 TTTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA
1 TTTGTTTCAAG-GAAACTGTCTCAAGAGAGACAAAA
1939255 TTTGTTTCAATGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAA
1939291 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTGTTTCAA-GGAAACTGTCTCAAGAGAGACAA
1939325 TGGTGATCAT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 65 0.98
37 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (35 bp):
TTTGTTTCAAGGAAACTGTCTCAAGAGAGACAAAA
Found at i:1939634 original size:106 final size:106
Alignment explanation
Indices: 1939449--1940124 Score: 999
Period size: 106 Copynumber: 6.6 Consensus size: 106
1939439 TATTGTTCCA
** * *
1939449 AGTCCAATATCC-TCTGCCGTGAAGTTGAAATTGACTCTGGAA-CTGGGAAATTGTTTATTGACA
1 AGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATC-GGGAAATTGTTTATTGACA
* *
1939512 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1939555 AGTCCAATATCCTTCGTTGTGGAGTTGAAATTGGCTCTGAAATCGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
*
1939620 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1939661 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-------T----T-GGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
* *
1939714 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1939755 AGTCCAATATCCTTCGTTGTGAAGTTGAAA-------T----T-GGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
*
1939808 CAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1939849 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
1939914 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1939955 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAACTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
*
1940020 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1940061 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTGTTTGTTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAAT-TGTTTATTGACA
1940125 GACAACTTTT
Statistics
Matches: 532, Mismatches: 23, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
94 179 0.34
95 1 0.00
99 1 0.00
101 1 0.00
105 1 0.00
106 335 0.63
107 14 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1939689 original size:43 final size:43
Alignment explanation
Indices: 1939628--1939877 Score: 176
Period size: 43 Copynumber: 5.4 Consensus size: 43
1939618 ACCAACGGTC
*
1939628 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATAT
* * * * ** **
1939671 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCAGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TATGGA-GTCCAATA-T
*
1939721 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATAT
* * * * ** **
1939765 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGAT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TATGGA-GTCCA-ATAT
*
1939815 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATAT
*
1939859 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
1939878 ATTGGCTCTG
Statistics
Matches: 154, Mismatches: 37, Indels: 32
0.69 0.17 0.14
Matches are distributed among these distances:
43 62 0.40
44 3 0.02
45 7 0.05
46 14 0.09
48 14 0.09
49 7 0.05
50 3 0.02
51 44 0.29
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATAT
Found at i:1939756 original size:94 final size:94
Alignment explanation
Indices: 1939592--1940094 Score: 727
Period size: 94 Copynumber: 5.1 Consensus size: 94
1939582 AAATTGGCTC
* * *
1939592 TGAAATCGGAAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1939657 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1939686 TGAAATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1939751 TTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1939780 TGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1939845 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
1939874 TGAAATTGGCTCTGAAATCGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TGAAA-------T----T-GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1939939 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
54 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1939980 TGAAATTGGCTCTGAAATCGGGAACTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TGAAATTGG----G--A-----AA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
1940045 AACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
54 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
1940086 TGAAATTGG
1 TGAAATTGG
1940095 CTCTGAAATT
Statistics
Matches: 375, Mismatches: 10, Indels: 36
0.89 0.02 0.09
Matches are distributed among these distances:
94 187 0.50
95 1 0.00
98 1 0.00
99 1 0.00
100 1 0.00
101 1 0.00
105 3 0.01
106 180 0.48
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGT
Found at i:1945331 original size:3 final size:3
Alignment explanation
Indices: 1945323--1945384 Score: 63
Period size: 3 Copynumber: 19.3 Consensus size: 3
1945313 CTGCACAAAT
1945323 ATA ATA ATA ATA ATTA ATTA ATA ATA AGTA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA A-TA A-TA ATA ATA A-TA ATA ATA ATA AT-A AT-A
*
1945370 ATA ATT AT- ATA ATA A
1 ATA ATA ATA ATA ATA A
1945385 AATGTTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
2 2 0.04
3 35 0.65
4 17 0.31
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1945565 original size:42 final size:42
Alignment explanation
Indices: 1945510--1945967 Score: 817
Period size: 42 Copynumber: 10.9 Consensus size: 42
1945500 TTATTCCAAA
1945510 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1945552 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1945594 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1945636 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1945678 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* * * * *
1945720 TCCGTGTTGCGATTTATTCCAAATTCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
1945762 TTCGCGTTGCGATTTATCCCAAGTTCGTTGAGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
1945804 TTCGCGTTGCGATATATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
1945846 TTCGTGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
1945888 TTCGCGTTGCGATTTATTCCAAATTCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1945930 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
1945968 CAAAATCGCA
Statistics
Matches: 394, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 394 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:1946896 original size:21 final size:20
Alignment explanation
Indices: 1946844--1947010 Score: 117
Period size: 21 Copynumber: 8.0 Consensus size: 20
1946834 CGTTGCGATT
* * *
1946844 TTGGACTATCACAA-CGAAT
1 TTGGAATATCGCAAGCGAAC
1946863 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
1946886 TTCGACTATCGCAA-CGAAC
1 TTGGAATATCGCAAGCGAAC
1946905 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
* *
1946928 TTCGACTATCGCAA-CGAAC
1 TTGGAATATCGCAAGCGAAC
*
1946947 TTGGAATATATCGCAA-CGAAT
1 TTGG-A-ATATCGCAAGCGAAC
1946968 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA-GCGAAC
*
1946991 TTGGACTATCGCAATGCGAA
1 TTGGAATATCGCAA-GCGAA
1947011 TATGTAAATC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
19 26 0.22
20 2 0.02
21 62 0.52
23 29 0.24
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (20 bp):
TTGGAATATCGCAAGCGAAC
Found at i:1946909 original size:42 final size:42
Alignment explanation
Indices: 1946847--1946964 Score: 209
Period size: 42 Copynumber: 2.8 Consensus size: 42
1946837 TGCGATTTTG
* *
1946847 GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1946889 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1946931 GACTATCGCAACGAACTTGGAATATATCGCAACG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACG
1946965 AATTTGGAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:1946981 original size:42 final size:41
Alignment explanation
Indices: 1946850--1946995 Score: 168
Period size: 42 Copynumber: 3.4 Consensus size: 41
1946840 GATTTTGGAC
* * *
1946850 TATCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAACTTGGAATAAATCGCAAC-CGAACTTCGAA
*
1946892 TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAACTTGGAATAAATCGCAAC-CGAACTTCGAA
* * *
1946934 TATCGCAACGAACTTGGAATATATCGCAA-CGAATTTGGAA
1 TATCGCAACGAACTTGGAATAAATCGCAACCGAACTTCGAA
1946974 TAAATCGCAACGCGAACTTGGA
1 T--ATCGCAA--CGAACTTGGA
1946996 CTATCGCAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
40 9 0.10
42 75 0.80
44 10 0.11
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
TATCGCAACGAACTTGGAATAAATCGCAACCGAACTTCGAA
Found at i:1951535 original size:17 final size:17
Alignment explanation
Indices: 1951515--1951547 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1951505 ATATTTATTT
1951515 ATAT-AAAATATAATATA
1 ATATGAAAA-ATAATATA
1951532 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
1951548 TGTAATATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATA
Found at i:1962092 original size:23 final size:24
Alignment explanation
Indices: 1962041--1962095 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
1962031 AAAAATATAT
1962041 AAATATTTCAAAATTGTGTACAAAA
1 AAATATTTCAAAATTGTGTA-AAAA
1962066 AAATATTTCAAAATTGTGT-AAAA
1 AAATATTTCAAAATTGTGTAAAAA
1962089 AAATATT
1 AAATATT
1962096 ACATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 11 0.37
25 19 0.63
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (24 bp):
AAATATTTCAAAATTGTGTAAAAA
Found at i:1967226 original size:25 final size:23
Alignment explanation
Indices: 1967198--1967245 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
1967188 TCTTAGACGG
*
1967198 TGGCCGTGGAGATCTTTGGGTTTTC
1 TGGCCGTGGAG-GCTTT-GGTTTTC
*
1967223 TGGCGGTGGAGGCTTTGGTTTTC
1 TGGCCGTGGAGGCTTTGGTTTTC
1967246 GGGGTTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.06, C:0.15, G:0.40, T:0.40
Consensus pattern (23 bp):
TGGCCGTGGAGGCTTTGGTTTTC
Found at i:1969659 original size:16 final size:16
Alignment explanation
Indices: 1969633--1969670 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
1969623 TCTACTAAAG
1969633 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
1969650 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
1969666 CATGT
1 CATGT
1969671 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:1978062 original size:17 final size:17
Alignment explanation
Indices: 1978037--1978080 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
1978027 CTGCTGGAAA
*
1978037 ACCGGTGACCCGACCCG
1 ACCGTTGACCCGACCCG
1978054 ACCGTTGACCCGACCCG
1 ACCGTTGACCCGACCCG
1978071 ACCGTTGACC
1 ACCGTTGACC
1978081 GTGACCGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.18, C:0.45, G:0.25, T:0.11
Consensus pattern (17 bp):
ACCGTTGACCCGACCCG
Found at i:1981931 original size:13 final size:13
Alignment explanation
Indices: 1981913--1981951 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
1981903 TATTTTGCTT
1981913 GAAGAAAAAA-GAA
1 GAAGAAAAAATG-A
1981926 GAAGAAAAAATGA
1 GAAGAAAAAATGA
1981939 GAAGAAAAAATGA
1 GAAGAAAAAATGA
1981952 AAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (13 bp):
GAAGAAAAAATGA
Found at i:1981941 original size:10 final size:10
Alignment explanation
Indices: 1981916--1982004 Score: 58
Period size: 13 Copynumber: 8.2 Consensus size: 10
1981906 TTTGCTTGAA
1981916 GAAAAAAGAA-
1 GAAAAAA-AAT
1981926 GAAGAAAAAAT
1 GAA-AAAAAAT
1981937 GAGAAGAAAAAAT
1 --GAA-AAAAAAT
1981950 G-AAAAAAAT
1 GAAAAAAAAT
1981959 -AAAAAAAAT
1 GAAAAAAAAT
*
1981968 AATAATAAAAAAT
1 --GAA-AAAAAAT
1981981 GAATAAAAAAAT
1 G-A-AAAAAAAT
1981993 GAAAAAAAAT
1 GAAAAAAAAT
1982003 GA
1 GA
1982005 GGGTTTAAGA
Statistics
Matches: 67, Mismatches: 1, Indels: 22
0.74 0.01 0.24
Matches are distributed among these distances:
9 15 0.22
10 16 0.24
11 6 0.09
12 11 0.16
13 19 0.28
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.11
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:1981958 original size:22 final size:20
Alignment explanation
Indices: 1981930--1982000 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 20
1981920 AAAGAAGAAG
1981930 AAAAAATGAGAAGAAAAAATGA
1 AAAAAATGA-AA-AAAAAATGA
* *
1981952 AAAAAATAAAAAAAATAATAA
1 AAAAAATGAAAAAAA-AATGA
1981973 TAAAAAATGAATAAAAAAATGA
1 -AAAAAATGAA-AAAAAAATGA
1981995 AAAAAA
1 AAAAAA
1982001 ATGAGGGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 21 0.50
23 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAAAAATGAAAAAAAAATGA
Found at i:1981992 original size:12 final size:11
Alignment explanation
Indices: 1981951--1982002 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
1981941 AGAAAAAATG
*
1981951 AAAAAAATAAA
1 AAAAAAATAAT
1981962 AAAAATAATAAT
1 AAAAA-AATAAT
1981974 -AAAAAATGAAT
1 AAAAAAAT-AAT
*
1981985 AAAAAAATGA-
1 AAAAAAATAAT
1981995 AAAAAAAT
1 AAAAAAAT
1982003 GAGGGTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
10 11 0.31
11 13 0.36
12 12 0.33
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:1983069 original size:55 final size:55
Alignment explanation
Indices: 1982999--1983540 Score: 738
Period size: 55 Copynumber: 9.9 Consensus size: 55
1982989 AGGTTTCCCA
* *
1982999 ACGATTGTTGAAGATTGTTCAAGTCTCATACTCTCTAAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
1983054 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1983109 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
1983164 ACGATTGTTGAAGATTGTTCGAGTCTCATAATCTCTGAAGAAATAGAGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1983219 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGAAGCATAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGAC
*
1983275 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGATCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1983330 ATG-TTCGTTGAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCAGGC
1 ACGATT-GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGAC
* *
1983386 ACGATTATTG-AGAATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * ** *
1983441 ACGATTATCG-AGAATCGTTTGAGTCTTGTACTCTCTGGAA-AAATGGGGAGCAGAC
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCT-GAAGAAATAGGGAGCAGAC
** * * *
1983496 ACGATTGACGAAGATT-TTCGAGT-T-TTACTCCCTGAAGCAATAGGG
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
1983541 GATAAAACCA
Statistics
Matches: 439, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.01
52 13 0.03
53 1 0.00
54 8 0.02
55 313 0.71
56 99 0.23
57 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:1983319 original size:111 final size:111
Alignment explanation
Indices: 1982999--1983540 Score: 742
Period size: 111 Copynumber: 4.9 Consensus size: 111
1982989 AGGTTTCCCA
* * *
1982999 ACGATTGTTGAAGATTGTTCAAGTCTCATACTCTCTAAAG-AAATAGGGAGCAGACACGTTTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
*
1983063 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAAC
66 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1983109 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG-AAATAGGGAGCAGACACGATTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
* *
1983173 GAAGATTGTTCGAGTCTCATAATCTCTGAAGAAATAGAGAGCAGAC
66 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
1983219 ACGTTTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGAAGCATACACGATTGTT
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
*
1983284 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGATCAGAC
66 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
1983330 ATG-TTCGTTGAAGATTGTTCGAGTCTCATTCTCTCTGAAGAAAATAGGGAGCAGGCACGATTAT
1 ACGATT-GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGT
*
1983394 TG-AGAATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGAC
65 TGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * ** * * *
1983441 ACGATTATCG-AGAATCGTTTGAGTCTTGTACTCTCTGGA-AAAATGGGGAGCAGACACGATTGA
1 ACGATTGTTGAAG-ATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGT
* * * *
1983504 CGAAGATT-TTCGAGT-T-TTACTCCCTGAAGCAATAGGG
65 TGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGG
1983541 GATAAAACCA
Statistics
Matches: 388, Mismatches: 38, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
107 17 0.04
108 1 0.00
109 7 0.02
110 173 0.45
111 188 0.48
112 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (111 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAAATAGGGAGCAGACACGATTGTT
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:1984908 original size:25 final size:23
Alignment explanation
Indices: 1984880--1984927 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
1984870 TCTTAGACGG
*
1984880 TGGCCGTGGAGATCTTTGGGTTTTC
1 TGGCCGTGGAG-GCTTT-GGTTTTC
*
1984905 TGGCGGTGGAGGCTTTGGTTTTC
1 TGGCCGTGGAGGCTTTGGTTTTC
1984928 GGGGTTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.06, C:0.15, G:0.40, T:0.40
Consensus pattern (23 bp):
TGGCCGTGGAGGCTTTGGTTTTC
Found at i:1993135 original size:5 final size:5
Alignment explanation
Indices: 1993125--1993191 Score: 75
Period size: 5 Copynumber: 13.4 Consensus size: 5
1993115 CGGTCAACGA
* *
1993125 TCGGG TCGGG TCGGG TCAACGG TCGGG TCGGG TC-GG TAGGG TCGGG TC-GG
1 TCGGG TCGGG TCGGG TC--GGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
*
1993175 TAGGG TCGGG TCGGG TC
1 TCGGG TCGGG TCGGG TC
1993192 AGACCGGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 6 0.12
5 42 0.81
7 4 0.08
ACGTcount: A:0.06, C:0.19, G:0.54, T:0.21
Consensus pattern (5 bp):
TCGGG
Found at i:1993144 original size:22 final size:22
Alignment explanation
Indices: 1993116--1993160 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1993106 GGAAGTCAAC
1993116 GGTCAACGATCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
*
1993138 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
1993160 G
1 G
1993161 TAGGGTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGATCGGGTCGGGTCG
Found at i:1993166 original size:14 final size:14
Alignment explanation
Indices: 1993144--1993188 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
1993134 GTCGGGTCAA
*
1993144 CGGTCGGGTCGGGT
1 CGGTAGGGTCGGGT
1993158 CGGTAGGGTCGGGT
1 CGGTAGGGTCGGGT
1993172 CGGTAGGGTCGGGT
1 CGGTAGGGTCGGGT
1993186 CGG
1 CGG
1993189 GTCAGACCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.04, C:0.18, G:0.58, T:0.20
Consensus pattern (14 bp):
CGGTAGGGTCGGGT
Found at i:1993200 original size:9 final size:9
Alignment explanation
Indices: 1993188--1993252 Score: 76
Period size: 10 Copynumber: 6.9 Consensus size: 9
1993178 GGTCGGGTCG
*
1993188 GGTCAGACC
1 GGTCAAACC
*
1993197 GGTCCAGACC
1 GGT-CAAACC
*
1993207 GGTCAAAAC
1 GGTCAAACC
1993216 GGTTCAAACC
1 GG-TCAAACC
1993226 GGTCAAACC
1 GGTCAAACC
1993235 GGTCAAAACC
1 GGTC-AAACC
1993245 GGTCAAAC
1 GGTCAAAC
1993253 TAGTTTCCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
9 24 0.48
10 26 0.52
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1993200 original size:19 final size:18
Alignment explanation
Indices: 1993128--1993200 Score: 75
Period size: 17 Copynumber: 4.2 Consensus size: 18
1993118 TCAACGATCG
1993128 GGTCGGGTCGGGTCA-AC
1 GGTCGGGTCGGGTCAGAC
* *
1993145 GGTCGGGTCGGGTCGGTAG
1 GGTCGGGTCGGGTCAG-AC
1993164 GGTCGGGTC-GGT-AG--
1 GGTCGGGTCGGGTCAGAC
1993178 GGTCGGGTCGGGTCAGACC
1 GGTCGGGTCGGGTCAGA-C
1993197 GGTC
1 GGTC
1993201 CAGACCGGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 9 0.20
15 3 0.07
16 2 0.04
17 15 0.33
18 3 0.07
19 14 0.30
ACGTcount: A:0.08, C:0.21, G:0.52, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCGGGTCAGAC
Found at i:1993210 original size:19 final size:19
Alignment explanation
Indices: 1993188--1993252 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
1993178 GGTCGGGTCG
* *
1993188 GGTCAGACCGGTCCAGACC
1 GGTCAAACCGGTCCAAACC
* *
1993207 GGTCAAAACGGTTCAAACC
1 GGTCAAACCGGTCCAAACC
*
1993226 GGTCAAACCGGTCAAAACC
1 GGTCAAACCGGTCCAAACC
1993245 GGTCAAAC
1 GGTCAAAC
1993253 TAGTTTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (19 bp):
GGTCAAACCGGTCCAAACC
Found at i:1993222 original size:10 final size:9
Alignment explanation
Indices: 1993206--1993251 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
1993196 CGGTCCAGAC
1993206 CGGTCAAAA
1 CGGTCAAAA
*
1993215 CGGTTCAAAC
1 CGG-TCAAAA
*
1993225 CGGTCAAAC
1 CGGTCAAAA
1993234 CGGTCAAAA
1 CGGTCAAAA
1993243 CCGGTCAAA
1 -CGGTCAAA
1993252 CTAGTTTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.37, C:0.28, G:0.22, T:0.13
Consensus pattern (9 bp):
CGGTCAAAA
Found at i:1996031 original size:14 final size:14
Alignment explanation
Indices: 1996012--1996038 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1996002 CTTATATTGG
1996012 TAACATGACATTTA
1 TAACATGACATTTA
1996026 TAACATGACATTT
1 TAACATGACATTT
1996039 CTATAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
TAACATGACATTTA
Found at i:1996193 original size:16 final size:16
Alignment explanation
Indices: 1996167--1996207 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1996157 TATTATTTTA
1996167 GTTAAAA-ATTAAAAT
1 GTTAAAAGATTAAAAT
1996182 GTTAAAAGATTAAAAT
1 GTTAAAAGATTAAAAT
1996198 GTTAAAAGAT
1 GTTAAAAGAT
1996208 AAAGAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (16 bp):
GTTAAAAGATTAAAAT
Found at i:1998171 original size:32 final size:32
Alignment explanation
Indices: 1998123--1998191 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
1998113 CCGTGTCCCG
*
1998123 ACCCGGATGTTACGGGTATCCGGTAATCGGAT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGAT
* * *
1998155 ACCCGGATTTTGCGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGAT
1998187 ACCCG
1 ACCCG
1998192 ATACCCGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGAT
Found at i:1998187 original size:15 final size:15
Alignment explanation
Indices: 1998135--1998191 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
1998125 CCGGATGTTA
*
1998135 CGGGTATCCGGTAAT
1 CGGGTACCCGGTAAT
* **
1998150 CGGATACCCGGATTTT
1 CGGGTACCCGG-TAAT
1998166 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
1998182 CGGGTACCCG
1 CGGGTACCCG
1998192 ATACCCGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 19 0.58
16 4 0.12
17 10 0.30
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:2007387 original size:21 final size:22
Alignment explanation
Indices: 2007346--2007385 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2007336 TACCCCTAAT
2007346 TATGAATAGTGCCTTATAAAGA
1 TATGAATAGTGCCTTATAAAGA
*
2007368 TATGAA-AGTGTCTT-TAAA
1 TATGAATAGTGCCTTATAAA
2007386 AGCGTAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (22 bp):
TATGAATAGTGCCTTATAAAGA
Found at i:2010367 original size:21 final size:21
Alignment explanation
Indices: 2010343--2010382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2010333 TGGTGTCTAG
*
2010343 GATTTAAGGTTTAGAGTTTAA
1 GATTTAAGGTTTAAAGTTTAA
*
2010364 GATTTAGGGTTTAAAGTTT
1 GATTTAAGGTTTAAAGTTT
2010383 GATATAGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
GATTTAAGGTTTAAAGTTTAA
Found at i:2010577 original size:2 final size:2
Alignment explanation
Indices: 2010570--2010666 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
2010560 GTAAGCGGAT
2010570 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
2010612 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
2010654 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2010667 GAGGTACTCA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2013859 original size:21 final size:21
Alignment explanation
Indices: 2013833--2013872 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2013823 TGGTTAATAA
* *
2013833 ATCGCAATGCGATTTTGGACT
1 ATCGCAACGCGAATTTGGACT
2013854 ATCGCAACGCGAATTTGGA
1 ATCGCAACGCGAATTTGGA
2013873 AACTGAGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (21 bp):
ATCGCAACGCGAATTTGGACT
Found at i:2013967 original size:21 final size:21
Alignment explanation
Indices: 2013907--2013967 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
2013897 CGTTGCGATT
* * **
2013907 TCGCAATGCGAATTTAGACTA
1 TCGCAACGCGAATTTGGAAAA
*
2013928 TCGCAACGCGAA-ATGGAAAA
1 TCGCAACGCGAATTTGGAAAA
2013948 TCGCAACGCGAATTTGGAAA
1 TCGCAACGCGAATTTGGAAA
2013968 CTGAGTTGCG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAATTTGGAAAA
Found at i:2015743 original size:130 final size:130
Alignment explanation
Indices: 2015510--2015768 Score: 500
Period size: 130 Copynumber: 2.0 Consensus size: 130
2015500 TAAGATTAGT
*
2015510 GTCGACTCCCGATCAAACCCCCGTTGACCTTTCACCATAAGCTGCCACCATTTGTCGTGGAGAAG
1 GTCGACTCCCGATCAAACCCCCATTGACCTTTCACCATAAGCTGCCACCATTTGTCGTGGAGAAG
2015575 CATTCGAAGGTTCGTCAGATTTTAAGCCACAGTCGTTGTTTCTCATTGATTCCAACCGATACTGC
66 CATTCGAAGGTTCGTCAGATTTTAAGCCACAGTCGTTGTTTCTCATTGATTCCAACCGATACTGC
2015640 GTCGACTCCCGATCAAACCCCCATTGACCTTTCACCATAAGCTGCCACCATTTGTCGTGGAGAAG
1 GTCGACTCCCGATCAAACCCCCATTGACCTTTCACCATAAGCTGCCACCATTTGTCGTGGAGAAG
*
2015705 CATTCGAAGGTTCGTCGGATTTTAAGCCACAGTCGTTGTTTCTCATTGATTCCAACCGATACTG
66 CATTCGAAGGTTCGTCAGATTTTAAGCCACAGTCGTTGTTTCTCATTGATTCCAACCGATACTG
2015769 ACATCCATAT
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (130 bp):
GTCGACTCCCGATCAAACCCCCATTGACCTTTCACCATAAGCTGCCACCATTTGTCGTGGAGAAG
CATTCGAAGGTTCGTCAGATTTTAAGCCACAGTCGTTGTTTCTCATTGATTCCAACCGATACTGC
Found at i:2023109 original size:27 final size:28
Alignment explanation
Indices: 2023064--2023116 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
2023054 AATAATTCAA
*
2023064 GATAAAAATTAAAATTAAAAT-TAAAAT
1 GATAAAAATTAAAAGTAAAATATAAAAT
**
2023091 GATAAAAATTTTAAGTAAAATATAAA
1 GATAAAAATTAAAAGTAAAATATAAA
2023117 TTATGAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (28 bp):
GATAAAAATTAAAAGTAAAATATAAAAT
Found at i:2029108 original size:254 final size:250
Alignment explanation
Indices: 2028663--2029167 Score: 974
Period size: 254 Copynumber: 2.0 Consensus size: 250
2028653 ATTCTGCTAC
2028663 CCTAGTTCTAAGCCTTCATTAATTCCAATGATAGAAACGTATAAAAAGTAGAAGTCATGGAATTA
1 CCTAGTTCTAAGCCTTCATTAATTCCAATGATAGAAACGTATAAAAAGTAGAAGTCATGGAATTA
2028728 CTACAAAGACATTAAAAGAAGAGATGATGCTACACCCTATGGTTGTGTCCCACACTACTCGGCTA
66 CTACAAAGACATTAAAAGAAGAGATGATGCTACACCCTATGGTTGTGTCCCACACTACTCGGCTA
2028793 CCCTGGTCTTAAGTCTCTATACTTTCCTGTCAGAGGTCATGTCCTCGGTAAGGGCTAAATCCTTC
131 CCCTGGTCTTAAGTCTCTATACTTTCCTGTCAGAGGTCATGTCCTCGGTAAGGGCTAAATCCTTC
2028858 AAATCAGATCTCAAGCAGTCTACCCACTTCCTCCTTGGTCATCCTCTCCTTCTGG
196 AAATCAGATCTCAAGCAGTCTACCCACTTCCTCCTTGGTCATCCTCTCCTTCTGG
2028913 CCTAGTTCTAAGCCTTCATTAATTCCAATGATAGAAACGTATAAAAAGTAGAAGTCATGGAAATT
1 CCTAGTTCTAAGCCTTCATTAATTCCAATGATAGAAACGTATAAAAAGTAGAAGTCATGG-AATT
2028978 ACTACAAAGACATTAAAAAGAAGAGAGATGATGCTACACCCTATGGTTGTGTCCCACACTACTCG
65 ACTACAAAGACATT-AAAAG-A-AGAGATGATGCTACACCCTATGGTTGTGTCCCACACTACTCG
2029043 GCTACCCTGGTCTTAAGTCTCTATACTTTCCTGTCAGAGGTCATGTCCTCGGTAAGGGCTAAATC
127 GCTACCCTGGTCTTAAGTCTCTATACTTTCCTGTCAGAGGTCATGTCCTCGGTAAGGGCTAAATC
2029108 CTTCAAATCAGATCTCAAGCAGTCTACCCACTTCCTCCTTGGTCATCCTCTCCTTCTGG
192 CTTCAAATCAGATCTCAAGCAGTCTACCCACTTCCTCCTTGGTCATCCTCTCCTTCTGG
2029167 C
1 C
2029168 ATCGTCGACT
Statistics
Matches: 251, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
250 60 0.24
251 18 0.07
252 5 0.02
253 1 0.00
254 167 0.67
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (250 bp):
CCTAGTTCTAAGCCTTCATTAATTCCAATGATAGAAACGTATAAAAAGTAGAAGTCATGGAATTA
CTACAAAGACATTAAAAGAAGAGATGATGCTACACCCTATGGTTGTGTCCCACACTACTCGGCTA
CCCTGGTCTTAAGTCTCTATACTTTCCTGTCAGAGGTCATGTCCTCGGTAAGGGCTAAATCCTTC
AAATCAGATCTCAAGCAGTCTACCCACTTCCTCCTTGGTCATCCTCTCCTTCTGG
Found at i:2033841 original size:40 final size:40
Alignment explanation
Indices: 2033781--2033859 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
2033771 ACCCAATTTT
** *
2033781 ACACGTAGCGTAAGGTGCGGTGCATGGGCCGCGCCTTTCA
1 ACACGTAGCGTAAGACGCGGTGCATGGACCGCGCCTTTCA
* *
2033821 ACACGTGGCGTAAGACGCGGTGTATGGACCGCGCCTTTC
1 ACACGTAGCGTAAGACGCGGTGCATGGACCGCGCCTTTC
2033860 TGCAAAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (40 bp):
ACACGTAGCGTAAGACGCGGTGCATGGACCGCGCCTTTCA
Found at i:2034295 original size:2 final size:2
Alignment explanation
Indices: 2034288--2034312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2034278 TCATAAATTC
2034288 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 T
2034313 GCTATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2036223 original size:16 final size:16
Alignment explanation
Indices: 2036202--2036254 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
2036192 ATAAATTAAA
2036202 TTCGGGTTAATTTCAG
1 TTCGGGTTAATTTCAG
2036218 TTCGGGTTAATTTCAG
1 TTCGGGTTAATTTCAG
** *
2036234 TTCAAGTTATTTTCAG
1 TTCGGGTTAATTTCAG
2036250 TTCGG
1 TTCGG
2036255 TTGCTTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (16 bp):
TTCGGGTTAATTTCAG
Found at i:2036274 original size:16 final size:16
Alignment explanation
Indices: 2036253--2036289 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2036243 TTTTCAGTTC
2036253 GGTTGCTTTCAATTTG
1 GGTTGCTTTCAATTTG
*
2036269 GGTTGCTTTCGATTTG
1 GGTTGCTTTCAATTTG
2036285 GGTTG
1 GGTTG
2036290 TTTTTGGTTC
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:0.08, C:0.11, G:0.32, T:0.49
Consensus pattern (16 bp):
GGTTGCTTTCAATTTG
Found at i:2038425 original size:49 final size:49
Alignment explanation
Indices: 2038372--2038470 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
2038362 CAAACAATTA
2038372 ATTTGGTATCTACGACAATTTGAATAATTCCATGTGATATAATTTTTTT
1 ATTTGGTATCTACGACAATTTGAATAATTCCATGTGATATAATTTTTTT
2038421 ATTTGGTATCTACGACAATTTGAATAATTCCATGTGATATAATTTTTTT
1 ATTTGGTATCTACGACAATTTGAATAATTCCATGTGATATAATTTTTTT
2038470 A
1 A
2038471 ATGGGTCGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (49 bp):
ATTTGGTATCTACGACAATTTGAATAATTCCATGTGATATAATTTTTTT
Found at i:2042294 original size:19 final size:19
Alignment explanation
Indices: 2042254--2042295 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2042244 TAATCATTAT
*
2042254 TTAAATTTTAAACTTAACA
1 TTAAATTTAAAACTTAACA
*
2042273 TTAAATTATAAAATTTAA-A
1 TTAAATT-TAAAACTTAACA
2042292 TTAA
1 TTAA
2042296 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAATTTAAAACTTAACA
Found at i:2044014 original size:32 final size:32
Alignment explanation
Indices: 2043887--2044014 Score: 103
Period size: 32 Copynumber: 4.0 Consensus size: 32
2043877 ATCTGCTACA
* * ** * *
2043887 CATTATCTAAATGCATTACTGGCTCTAATGTA
1 CATTATCTGAATGCAATACTAACTCTACTGTG
* * * **
2043919 CATTATTTGAATGCCATACTAACCCTGTTGTG
1 CATTATCTGAATGCAATACTAACTCTACTGTG
* * * *
2043951 CTTTATATGAATACAATACTAATTCTACTGTG
1 CATTATCTGAATGCAATACTAACTCTACTGTG
* *
2043983 CATTATCTGAATGCAATACTGACTCTGCTGTG
1 CATTATCTGAATGCAATACTAACTCTACTGTG
2044015 ACTCATATAC
Statistics
Matches: 72, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (32 bp):
CATTATCTGAATGCAATACTAACTCTACTGTG
Found at i:2046678 original size:93 final size:94
Alignment explanation
Indices: 2046513--2046699 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
2046503 GTGATACTCT
2046513 GCGTCTTACATTCACTATCGGTCACTACAACTACGAAATATACACCTGTTAACTTACTCATTGTG
1 GCGTCTTACATTCACTATCGGTCACTACAACTACGAAATATACACCTGTTAACTTACTCATTGTG
2046578 AGTACTTGGGGAATCTGCACCCAGTTAGA
66 AGTACTTGGGGAATCTGCACCCAGTTAGA
2046607 GCGTC-TACATTCACTATCGGTCACTACAACTACGAAATATACACCTGTTAACTTACTCATTGTG
1 GCGTCTTACATTCACTATCGGTCACTACAACTACGAAATATACACCTGTTAACTTACTCATTGTG
2046671 AGTACTTGGGGAATCTGCACCCAGTTAGA
66 AGTACTTGGGGAATCTGCACCCAGTTAGA
2046700 AATTGAAGTA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 88 0.95
94 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (94 bp):
GCGTCTTACATTCACTATCGGTCACTACAACTACGAAATATACACCTGTTAACTTACTCATTGTG
AGTACTTGGGGAATCTGCACCCAGTTAGA
Found at i:2049030 original size:32 final size:32
Alignment explanation
Indices: 2048994--2049119 Score: 144
Period size: 32 Copynumber: 3.9 Consensus size: 32
2048984 TTACTATGCA
** * *
2048994 TTATCTGAATGTTATACTGACTCTATTGTGCT
1 TTATCTGAATGCAATACTAACTATATTGTGCT
* *
2049026 TTATCTGAATGCAATATTAATTATATTGTGCT
1 TTATCTGAATGCAATACTAACTATATTGTGCT
* * * *
2049058 TTATCTGAATGCAATATTAATTATACTGTGCA
1 TTATCTGAATGCAATACTAACTATATTGTGCT
* *
2049090 TTATTTGAATGCAATACTAACTCTATTGTG
1 TTATCTGAATGCAATACTAACTATATTGTG
2049120 AATCATACAC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 81 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (32 bp):
TTATCTGAATGCAATACTAACTATATTGTGCT
Found at i:2050984 original size:205 final size:205
Alignment explanation
Indices: 2050629--2051036 Score: 584
Period size: 205 Copynumber: 2.0 Consensus size: 205
2050619 TTAGTTTTTC
* *
2050629 CAAAGGTGGGTTTTAGAGGGGTTTATGGAACCGTATGGTTCAATTCATTTTTGGGAGACTTTTAA
1 CAAAGGTGGGTTTTAGAGGGGTTTATGGAAACGTATGGTTCAATCCATTTTTGGGAGACTTTTAA
** * * * * *
2050694 GTTGTAGGAATGTTTCTAACCTCATTCCAAGTATTTCTATTAGTTAAAAACTCATTTTCCATGGT
66 GTTGTAGGAACATTTATAACCTCATTCCAAGTATTCCCATGAGTCAAAAACTCATTTTCCATGGT
* * * * *
2050759 TTGGTTAGTGCAAAAGCAAGGGGAGAGCTCAAAGGCTAGAGGCAATGAGAAGTTGGCCCTGGGGT
131 TTGATTAGTACAAAAGCAAGGGGAGAGCTCAAAGGCTAGAGGCAAGGAGAAGTTGGCCCTAGAGT
2050824 GATTTGAGTT
196 GATTTGAGTT
* * * * *
2050834 CAAAGGTGGGTTTTAGAGTGTTTTATGGAAACTTATGGTTCAATCCATTTTTTGGAGAGTTTTAA
1 CAAAGGTGGGTTTTAGAGGGGTTTATGGAAACGTATGGTTCAATCCATTTTTGGGAGACTTTTAA
*
2050899 GTTTTAGGAACATTTATAACCTCATTCCAAGTATTCCCATGAGTCAATAAA-TCATTTTCCATGG
66 GTTGTAGGAACATTTATAACCTCATTCCAAGTATTCCCATGAGTCAA-AAACTCATTTTCCATGG
* * * *
2050963 TTTGATTAGTACAAGAGCAAGGGGAGAGCTCAAAGTCTAGAGGCGAGGAGAAGTTGGTCCTAGAG
130 TTTGATTAGTACAAAAGCAAGGGGAGAGCTCAAAGGCTAGAGGCAAGGAGAAGTTGGCCCTAGAG
2051028 TGATTTGAG
195 TGATTTGAG
2051037 AACGTTTTCA
Statistics
Matches: 178, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
205 175 0.98
206 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (205 bp):
CAAAGGTGGGTTTTAGAGGGGTTTATGGAAACGTATGGTTCAATCCATTTTTGGGAGACTTTTAA
GTTGTAGGAACATTTATAACCTCATTCCAAGTATTCCCATGAGTCAAAAACTCATTTTCCATGGT
TTGATTAGTACAAAAGCAAGGGGAGAGCTCAAAGGCTAGAGGCAAGGAGAAGTTGGCCCTAGAGT
GATTTGAGTT
Found at i:2055525 original size:3 final size:3
Alignment explanation
Indices: 2055468--2055508 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2055458 TATTTTAAAT
*
2055468 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2055509 CTCTTTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2057845 original size:12 final size:12
Alignment explanation
Indices: 2057828--2057854 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2057818 AATGGGTTTA
2057828 TAGCGGCATTTT
1 TAGCGGCATTTT
2057840 TAGCGGCATTTT
1 TAGCGGCATTTT
2057852 TAG
1 TAG
2057855 AACAAACGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (12 bp):
TAGCGGCATTTT
Found at i:2058292 original size:41 final size:41
Alignment explanation
Indices: 2057838--2058284 Score: 617
Period size: 41 Copynumber: 10.9 Consensus size: 41
2057828 TAGCGGCATT
* * * * *
2057838 TTTAGCGGCATTTTTAGAACAAACGCCGCTAAATACTCGTAC
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTATAGACTCGTAC
* *
2057880 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-ATAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * *
2057920 TTTAGTGGCGTTTTTATACAAATGTCGCTATATACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * ** *
2057961 TTTAGTGGCGTTTTAATACAAAAGTAGCTAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * * *
2058002 TTTAGTGGCGTTTTAATACAGACGCCGCTATAGACTAGTAT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* *
2058043 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
2058084 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
*
2058125 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
** * *
2058166 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCATAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* *
2058207 TTTAGTGGCGTTTTTATACAAACACCGCTATAGACTCGTGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
*
2058248 TTTAGTGGCGTTTTTATACAAATGCCGCTATAGACTC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
2058285 ATTCTTTAAA
Statistics
Matches: 362, Mismatches: 42, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 35 0.10
41 313 0.86
42 14 0.04
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
Found at i:2060877 original size:36 final size:35
Alignment explanation
Indices: 2060824--2060898 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 35
2060814 CAAATTAATA
*
2060824 TTTATGGTTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGTTTTGTACTATATGATTTAGTTCAATTG
2060859 TTTATGGTTTTTGTACTATATGATTTAGTTCAATTG
1 TTTATGG-TTTTGTACTATATGATTTAGTTCAATTG
2060895 TTTA
1 TTTA
2060899 GTGCATTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 7 0.18
36 31 0.82
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.57
Consensus pattern (35 bp):
TTTATGGTTTTGTACTATATGATTTAGTTCAATTG
Found at i:2060908 original size:36 final size:36
Alignment explanation
Indices: 2060824--2060911 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
2060814 CAAATTAATA
* *
2060824 TTTATGG-TTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGCATTTGTACTATATGATTTAGTTCAATTG
**
2060859 TTTATGGTTTTTGTACTATATGATTTAGTTCAATTG
1 TTTATGGCATTTGTACTATATGATTTAGTTCAATTG
2060895 TTTA-GTGCATTTGTACT
1 TTTATG-GCATTTGTACT
2060912 GTACGTGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 8 0.17
36 40 0.83
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (36 bp):
TTTATGGCATTTGTACTATATGATTTAGTTCAATTG
Found at i:2062882 original size:43 final size:42
Alignment explanation
Indices: 2062820--2063145 Score: 377
Period size: 43 Copynumber: 7.6 Consensus size: 42
2062810 ATGGTAATTA
2062820 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTT
* * *
2062863 GCGGCGTTTGTAACAAAAAATGCCGCTATAGACCTGACCTTTT
1 GCGGCGTTTGTATC-AAAAACGCCGCTATAGATCTGACCTTTT
* * *
2062906 GCGGCGGTTGTATCAAAAACGTCGCTATAGACCTGACCTTTT
1 GCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
2062948 GC-GCATTTATATACAAAAATGCCGCTATAGATCTGACATTTT
1 GCGGCGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTT
* * *
2062990 GAGGCGTTTGTATCCAAAAACACCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
2063033 GCGGCGTTTGTTTCCAAAATGCCGCTATAGATATG-CCTTTT
1 GCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTT
* *
2063074 GCGGCGTTTGTTTCAAAAACGCCGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTATCAAAAACGCCGCTATAGATC-TGACCTTTT
* * *
2063117 GTGGCGTTTTTATTTCACAAACGCCGCTA
1 GCGGCGTTTGTA--TCAAAAACGCCGCTA
2063146 ACATTAGCGG
Statistics
Matches: 241, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
41 43 0.18
42 76 0.32
43 108 0.45
45 14 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:2062964 original size:85 final size:86
Alignment explanation
Indices: 2062820--2063125 Score: 408
Period size: 85 Copynumber: 3.6 Consensus size: 86
2062810 ATGGTAATTA
2062820 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTA-ACAAAAAAT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATAC-AAAAAT
*
2062884 GCCGCTATAGACCTGACCTTTT
65 GCCGCTATAGATCTGACCTTTT
* * * * *
2062906 GCGGCGGTTGTAT-CAAAAACGTCGCTATAGACCTGACCTTTTGC-GCATTTATATACAAAAATG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATG
*
2062969 CCGCTATAGATCTGACATTTT
66 CCGCTATAGATCTGACCTTTT
* * * * *
2062990 GAGGCGTTTGTATCCAAAAACACCGCTATAGATATGACCTTTTGCGGCGTTTGT-TTCCAAAATG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATG
*
2063054 CCGCTATAGATATG-CCTTTT
66 CCGCTATAGATCTGACCTTTT
* * *
2063074 GCGGCGTTTGT-TTCAAAAACGCCGCTATAGATCTTGACTTTTTGTGGCGTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
2063126 TTATTTCACA
Statistics
Matches: 191, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
83 19 0.10
84 75 0.39
85 79 0.41
86 18 0.09
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATACAAAAATG
CCGCTATAGATCTGACCTTTT
Found at i:2063060 original size:127 final size:126
Alignment explanation
Indices: 2062834--2063125 Score: 361
Period size: 127 Copynumber: 2.3 Consensus size: 126
2062824 CGTTTGTATC
* * ** *
2062834 CAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTAACAAAAAATGCCGCTATAGACCTG
1 CAAAAACGCCGCTATAGATCTGACATTTTGAGGCGTTTGTAACAAAAAACACCGCTATAGACATG
* *
2062899 ACCTTTTGCGGCGGTTGTATCAAAAACGTCGCTATAGACCTGACCTTTTGC-GCATTTATATA
66 ACCTTTTGCGGCGGTTGTATCAAAAACGCCGCTATAGACATG-CCTTTTGCGGCATTTAT-TA
* * * *
2062961 CAAAAATGCCGCTATAGATCTGACATTTTGAGGCGTTTGTATCCAAAAACACCGCTATAGATATG
1 CAAAAACGCCGCTATAGATCTGACATTTTGAGGCGTTTGTAACAAAAAACACCGCTATAGACATG
* * * * * * * *
2063026 ACCTTTTGCGGCGTTTGTTTCCAAAATGCCGCTATAGATATGCCTTTTGCGGCGTTTGTTT
66 ACCTTTTGCGGCGGTTGTATCAAAAACGCCGCTATAGACATGCCTTTTGCGGCATTTATTA
* *
2063087 CAAAAACGCCGCTATAGATCTTGACTTTTTGTGGCGTTT
1 CAAAAACGCCGCTATAGATC-TGACATTTTGAGGCGTTT
2063126 TTATTTCACA
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
126 28 0.20
127 113 0.80
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
CAAAAACGCCGCTATAGATCTGACATTTTGAGGCGTTTGTAACAAAAAACACCGCTATAGACATG
ACCTTTTGCGGCGGTTGTATCAAAAACGCCGCTATAGACATGCCTTTTGCGGCATTTATTA
Found at i:2066989 original size:23 final size:23
Alignment explanation
Indices: 2066963--2067033 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
2066953 TTATTCTATC
* *
2066963 TTGTGACACGATTATCTCTGCCT
1 TTGTGACATGTTTATCTCTGCCT
* * *
2066986 TTGTGGCATGTTTATCTCCGTCT
1 TTGTGACATGTTTATCTCTGCCT
2067009 TTGTGACATGTTTATCTCTGCCT
1 TTGTGACATGTTTATCTCTGCCT
2067032 TT
1 TT
2067034 TGGTAGTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (23 bp):
TTGTGACATGTTTATCTCTGCCT
Found at i:2073909 original size:32 final size:33
Alignment explanation
Indices: 2073867--2073936 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 33
2073857 ACTGCAAAAT
2073867 GCAAATAATAAGTGCTATTCTGCTTCCTCATTA
1 GCAAATAATAAGTGCTATTCTGCTTCCTCATTA
2073900 GCAAA-AATAAGTGCTATTCTGCTTCCTCATTA
1 GCAAATAATAAGTGCTATTCTGCTTCCTCATTA
2073932 GCAAA
1 GCAAA
2073937 GATGATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 32 0.86
33 5 0.14
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (33 bp):
GCAAATAATAAGTGCTATTCTGCTTCCTCATTA
Found at i:2075776 original size:21 final size:21
Alignment explanation
Indices: 2075722--2075776 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2075712 AATAATGTCT
2075722 AATATTAATATTTTTAGTAAA
1 AATATTAATATTTTTAGTAAA
* *
2075743 AAAAATAATATTTTTAGTAAA
1 AATATTAATATTTTTAGTAAA
*
2075764 AATATTAACATTT
1 AATATTAATATTT
2075777 CCGATAGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
AATATTAATATTTTTAGTAAA
Found at i:2082790 original size:23 final size:22
Alignment explanation
Indices: 2082764--2082816 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
2082754 ACTTTTTGTT
2082764 GTTGAAAGTTGACAACAATAATG
1 GTTGAAA-TTGACAACAATAATG
*
2082787 GTTGATAATTGACAGCAATAATG
1 GTTGA-AATTGACAACAATAATG
*
2082810 ATTGAAA
1 GTTGAAA
2082817 AGTGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 23 0.85
24 2 0.07
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (22 bp):
GTTGAAATTGACAACAATAATG
Found at i:2094227 original size:16 final size:17
Alignment explanation
Indices: 2094196--2094231 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2094186 CGTATCGCCG
*
2094196 ACAAAATTTTACTATTC
1 ACAAAATTTCACTATTC
2094213 ACAAAA-TTCACTATTC
1 ACAAAATTTCACTATTC
2094229 ACA
1 ACA
2094232 TGAATAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:2096265 original size:21 final size:21
Alignment explanation
Indices: 2096241--2096330 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
2096231 GCTTCCGTAT
2096241 CATCAACTCCTGCCAG-TGTAC
1 CATCAACTCCTGCC-GCTGTAC
* *
2096262 CATCAAATCCTGCCG--G-GC
1 CATCAACTCCTGCCGCTGTAC
*
2096280 CATCAACTCCTGCTGCTGTAC
1 CATCAACTCCTGCCGCTGTAC
* *
2096301 CATCTACTCCTGCCGCTGCAC
1 CATCAACTCCTGCCGCTGTAC
2096322 CATCAACTC
1 CATCAACTC
2096331 ATGCTGCCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
18 14 0.25
19 1 0.02
20 2 0.04
21 40 0.70
ACGTcount: A:0.21, C:0.41, G:0.14, T:0.23
Consensus pattern (21 bp):
CATCAACTCCTGCCGCTGTAC
Found at i:2096285 original size:39 final size:39
Alignment explanation
Indices: 2096241--2096315 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
2096231 GCTTCCGTAT
2096241 CATCAACTCCTGCCAG-TGTACCATCAAATCCTGCCGGGC
1 CATCAACTCCTG-CAGCTGTACCATCAAATCCTGCCGGGC
* * *
2096280 CATCAACTCCTGCTGCTGTACCATCTACTCCTGCCG
1 CATCAACTCCTGCAGCTGTACCATCAAATCCTGCCG
2096316 CTGCACCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.20, C:0.40, G:0.16, T:0.24
Consensus pattern (39 bp):
CATCAACTCCTGCAGCTGTACCATCAAATCCTGCCGGGC
Found at i:2096622 original size:2 final size:2
Alignment explanation
Indices: 2096615--2096640 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2096605 AGATGATCTA
2096615 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
2096641 TTTTTCTTCA
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):
AT
Found at i:2099047 original size:23 final size:23
Alignment explanation
Indices: 2099016--2099100 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
2099006 ACAGGTAAAA
*
2099016 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2099039 ATATAATGTAATAAGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2099062 ATATAATGTAATAGGTAGCTCTT
1 ATATAATGTAATAGGTAGCGCTT
**
2099085 ATATAATAAAATAGGT
1 ATATAATGTAATAGGT
2099101 TAATTACTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2099154 original size:23 final size:23
Alignment explanation
Indices: 2099128--2099177 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2099118 ATCAAGCATA
* *
2099128 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
2099151 ATAATATAATATGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
2099174 ATAA
1 ATAA
2099178 TGTAATAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:2099178 original size:23 final size:22
Alignment explanation
Indices: 2099144--2099206 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
2099134 TATTAGGTAG
*
2099144 CGCTTATATAATATAATATGTAA
1 CGCTTATATAATATAATAAG-AA
*
2099167 CGCTTATATAATGTAATAAGAA
1 CGCTTATATAATATAATAAGAA
*
2099189 -GCGTTATATAATAAAATA
1 CGC-TTATATAATATAATA
2099207 CGTTAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 15 0.43
23 18 0.51
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (22 bp):
CGCTTATATAATATAATAAGAA
Found at i:2099263 original size:23 final size:23
Alignment explanation
Indices: 2099237--2099286 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2099227 ATTAAGCACA
* *
2099237 ATAACATATTAGGTTGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
2099260 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2099283 ATAA
1 ATAA
2099287 TAAAATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2099293 original size:23 final size:23
Alignment explanation
Indices: 2099237--2099293 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
2099227 ATTAAGCACA
* * *
2099237 ATAACATATTAGGTTGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
**
2099260 ATAACGTAATAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
2099283 ATAATAAAATA
1 ATAACAAAATA
2099294 AGTTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:2099295 original size:109 final size:110
Alignment explanation
Indices: 2099027--2099287 Score: 389
Period size: 109 Copynumber: 2.4 Consensus size: 110
2099017 TATGATGTAA
* * *
2099027 TAGGTAGCGCTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAGCTCTTATATAAT
1 TAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTATATAATGTAATAAGAAGCTCTTATATAAT
* * *
2099092 AAAATAGGTTAATTACTGGAAGCATTATCAAGCATAATAACATAT
66 AAAATACGTTAATTACTGGAAACATTATCAAGCACAATAACATAT
* * * *
2099137 TAGGTAGCGCTTATATAATATAATATGTAACGCTTATATAATGTAATAAGAAGC-GTTATATAAT
1 TAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTATATAATGTAATAAGAAGCTCTTATATAAT
*
2099201 AAAATACGTTAATTACTGGAAACATTATTAAGCACAATAACATAT
66 AAAATACGTTAATTACTGGAAACATTATCAAGCACAATAACATAT
* * *
2099246 TAGGTTGCGCTTATATAACGTAATAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTATATAAT
2099288 AAAATAAGTT
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
109 87 0.64
110 48 0.36
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (110 bp):
TAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTATATAATGTAATAAGAAGCTCTTATATAAT
AAAATACGTTAATTACTGGAAACATTATCAAGCACAATAACATAT
Found at i:2099585 original size:22 final size:24
Alignment explanation
Indices: 2099536--2099585 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
2099526 ATAATAAAAC
* *
2099536 AATATTATTTATTAACAAAATAAT
1 AATATTAGTTATTAACAAAATAAG
*
2099560 AATATTAGTT-TTAA-AATATAAG
1 AATATTAGTTATTAACAAAATAAG
2099582 AATA
1 AATA
2099586 ATTTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 4 0.17
24 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
AATATTAGTTATTAACAAAATAAG
Found at i:2099605 original size:14 final size:14
Alignment explanation
Indices: 2099586--2099630 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
2099576 TATAAGAATA
*
2099586 ATTTATTTAATATT
1 ATTTATTAAATATT
2099600 ATTTATGTAAATATT
1 ATTTAT-TAAATATT
2099615 A-TTATTAAAATATT
1 ATTTATT-AAATATT
2099629 AT
1 AT
2099631 ATCTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.04
14 18 0.67
15 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTTATTAAATATT
Done.