Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 266 of 295
Found at i:84919936 original size:14 final size:14
Alignment explanation
Indices: 84919917--84919951 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
84919907 CGTTGAGGTA
*
84919917 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
*
84919931 TTTTCAGTTTATAT
1 TTTTCAATTTATAT
84919945 TTTTCAA
1 TTTTCAA
84919952 AAATCAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:84920053 original size:89 final size:88
Alignment explanation
Indices: 84919854--84920613 Score: 570
Period size: 89 Copynumber: 8.5 Consensus size: 88
84919844 TGACAGTTTA
* * * *
84919854 TATTTTTCAAAAAATCAATTCATATTACGAGA-AGTGAGTTGAGCCTCAGG--ACACGTTGAGGT
1 TATTTTTC-AAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAGGTCACATGCTGAGGT
* * *
84919916 ATTTTCAATTTCTATTTTTCAGTTTA
64 ATTTTCAATTTCT-GTTTTCAATTTC
* *
84919942 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTAAGGTCACATGCCGAGGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACATGCTGAGGTAT
*
84920007 TTTCAAATTCTGTTTT-AATTTC
66 TTTCAATTTCTGTTTTCAATTTC
* * * * * *
84920029 TACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGTTGAGC
1 TATTTTTC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-TCACATGCTGAGG
* *
84920093 TACTTTCAATTTTCAT-TTTT-AATGTC
63 TATTTTCAA-TTTC-TGTTTTCAATTTC
* * * *
84920119 TGTTTTT---AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-G-AACACGCTGAGGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACATGCTGAGGTAT
* * * *
84920179 TTTCAATTTATATTTTTTTCAATCTA
66 TTTCAA-TT-T-CTGTTTTCAATTTC
* * * * * *
84920205 TATTTTTCAAAAATCAACTTATATTACGAGAGATGGGTTGAGCCTCGGGGCAC--GCTGAGGTAA
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACATGCTGAGGTAT
*
84920268 TTCCAATTTCTGCTTTTCAATTTC
66 TTTCAATTTCTG-TTTTCAATTTC
** * * *
84920292 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGAGGTAT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACATGCTGAGGTAT
* *
84920357 TTTCAAATTCTGTCTTTCAAACTCTGTTTT
66 TTTCAATTTCTGT-TTTC-AA-----TTTC
**** *** * * *
84920387 TAATTTTT-AGTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCGCAT
1 T-ATTTTTCAAAAATC---AACTC-A-T-ATTGCGAGAGA--TGAGTTGAGCCTCAGG-TCACAT
* *
84920450 GCCGAGGTATTTTCAATTTCTGTTTTTAATTTC
56 GCTGAGGTATTTTCAATTTCTGTTTTCAATTTC
* ** * *
84920483 TGTTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTAAGCCTC-GGCTCACATGCTGAGGTA
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-TCACATGCTGAGGTA
*
84920547 TTTCCAATTTCTGTTTT-AA-TTC
65 TTTTCAATTTCTGTTTTCAATTTC
*
84920569 -ATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TAT-TTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
84920614 TTTAATTTCT
Statistics
Matches: 536, Mismatches: 95, Indels: 84
0.75 0.13 0.12
Matches are distributed among these distances:
83 18 0.03
84 2 0.00
85 41 0.08
86 51 0.10
87 103 0.19
88 61 0.11
89 142 0.26
90 27 0.05
91 4 0.01
92 1 0.00
93 5 0.01
95 12 0.02
96 11 0.02
98 5 0.01
99 1 0.00
100 1 0.00
101 8 0.01
102 5 0.01
103 38 0.07
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (88 bp):
TATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACATGCTGAGGTAT
TTTCAATTTCTGTTTTCAATTTC
Found at i:84920199 original size:16 final size:16
Alignment explanation
Indices: 84920178--84920211 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
84920168 CGCTGAGGTA
*
84920178 TTTTCAATTTATATTT
1 TTTTCAATCTATATTT
84920194 TTTTCAATCTATATTT
1 TTTTCAATCTATATTT
84920210 TT
1 TT
84920212 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTCAATCTATATTT
Found at i:84920290 original size:14 final size:14
Alignment explanation
Indices: 84920271--84920301 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
84920261 GAGGTAATTC
84920271 CAATTTCTGCTTTT
1 CAATTTCTGCTTTT
84920285 CAATTTCTGCTTTT
1 CAATTTCTGCTTTT
84920299 CAA
1 CAA
84920302 AAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (14 bp):
CAATTTCTGCTTTT
Found at i:84920329 original size:261 final size:264
Alignment explanation
Indices: 84919863--84920614 Score: 810
Period size: 261 Copynumber: 2.8 Consensus size: 264
84919853 ATATTTTTCA
* * * *
84919863 AAAAATCAATTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAATTT-
* * **
84919928 TA-TTTTTCAGTTTATATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTAAGGT
65 TATTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGGGT
* * * *
84919992 CACATGCCGAGGTATTTTCAAATTCTGTTTTAATTTCTACTTTTCAAAAAAATCAACTCATATTG
130 CACA-GCTGAGGTATTTCCAATTTCTGTTTTAATTTCTGCTTTTC--AAAAATCAACTCATATTG
* **
84920057 CGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGCTACTTTC-AA-T-TTTC-A-TTTTTAATG
192 CGAGAGGTGAGTTGAGCCTTGG-TCACATGCCGAGCTACTTTCAAATTCTTTCAACTTTTTAATG
84920117 TCT-GTTTT
256 TCTAGTTTT
* *
84920125 -TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAATTT-
* * *
84920189 TATTTTTTTCAATCTATATTTTTCAAAAATCAACTTATATTACGAGAGATGGGTTGAGCCTCGGG
65 TA-TTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGGG
* *
84920254 GCAC-GCTGAGGTAATTCCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTG
129 TCACAGCTGAGGTATTTCCAATTTCTG-TTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTG
* * * *
84920318 CGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTG
192 CGAGAGGTGAGTTGAGCCT-TGGTCACATGCCGAGCTACTTTCAAA---T-TCTTTC-AA--C--
* *
84920383 TTTTTAATTTTTAGTTTT
247 TTTTTAATGTCTAGTTTT
** ** * *
84920401 CAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATGCCGAGGTATTTTCAA
1 -AAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG--AACACGCTGAGGTATTTTCAA
* * * * * *
84920466 TTTCT-GTTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTAAGCCTC
62 TTT-TATTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTC
*
84920529 GGCTCACATGCTGAGGTATTTCCAATTTCTGTTTTAA-TTCATG-TTTTCAAAAATCAACTCATA
126 GGGTCACA-GCTGAGGTATTTCCAATTTCTGTTTTAATTTC-TGCTTTTCAAAAATCAACTCATA
84920592 TTGCGAGAGGTGAGTTGAGCCTT
189 TTGCGAGAGGTGAGTTGAGCCTT
84920615 TTAATTTCTG
Statistics
Matches: 410, Mismatches: 52, Indels: 42
0.81 0.10 0.08
Matches are distributed among these distances:
261 128 0.31
262 8 0.02
263 70 0.17
267 1 0.00
268 4 0.01
270 1 0.00
275 10 0.02
276 5 0.01
277 44 0.11
278 56 0.14
279 41 0.10
280 21 0.05
281 21 0.05
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (264 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTATTTTCAATTTT
ATTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGGGTC
ACAGCTGAGGTATTTCCAATTTCTGTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTTGGTCACATGCCGAGCTACTTTCAAATTCTTTCAACTTTTTAATGTCTAG
TTTT
Found at i:84920464 original size:103 final size:101
Alignment explanation
Indices: 84920295--84920489 Score: 284
Period size: 103 Copynumber: 1.9 Consensus size: 101
84920285 CAATTTCTGC
*
84920295 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTT
84920360 CAAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTAG
66 CAAATTCTGT-TTTCAAACTCTGTTTTTAATTTTTAG
* * *
84920397 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCGCATGCCGAGGTATT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGG-TCACATGCCGAGGTATT
* * **
84920461 TTCAATTTCTGTTTTTAATTTCTGTTTTT
64 TTCAAATTCTGTTTTCAAACTCTGTTTTT
84920490 CAAAAATCAA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
102 26 0.31
103 57 0.69
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (101 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGTCACATGCCGAGGTATTTT
CAAATTCTGTTTTCAAACTCTGTTTTTAATTTTTAG
Found at i:84920480 original size:13 final size:13
Alignment explanation
Indices: 84920459--84920489 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
84920449 TGCCGAGGTA
*
84920459 TTTTCAATTTCTG
1 TTTTTAATTTCTG
84920472 TTTTTAATTTCTG
1 TTTTTAATTTCTG
84920485 TTTTT
1 TTTTT
84920490 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:84920527 original size:88 final size:87
Alignment explanation
Indices: 84920379--84920613 Score: 303
Period size: 88 Copynumber: 2.7 Consensus size: 87
84920369 TCTTTCAAAC
* * * * *
84920379 TCTGTTTTTAATTTTTAGTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
1 TCTGTTTTTAATTTCT-GTTTTCAAAAA-TCAACTCATATTACGAGAAATGAGTTAAGCCTCGGC
* *
84920444 TCGCATGCCGAGGTATTTTCAATT
64 TCACATGCCGAGGTATTTCCAATT
*
84920468 TCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTATGAGAAATGAGTTAAGCCTCGGCT
1 TCTGTTTTTAATTTCTG-TTTTCAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCTCGGCT
*
84920533 CACATGCTGAGGTATTTCCAATT
65 CACATGCCGAGGTATTTCCAATT
* ** *
84920556 TCTG-TTTTAA-TTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TCTGTTTTTAATTTC-TGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCT
84920614 TTTAATTTCT
Statistics
Matches: 130, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
86 40 0.31
87 8 0.06
88 57 0.44
89 25 0.19
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (87 bp):
TCTGTTTTTAATTTCTGTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCTCGGCTC
ACATGCCGAGGTATTTCCAATT
Found at i:84921932 original size:22 final size:23
Alignment explanation
Indices: 84921893--84921935 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
84921883 AATCCTTCCC
84921893 CTCTCCCTCCTCTCTCTTTTTCT
1 CTCTCCCTCCTCTCTCTTTTTCT
* *
84921916 CTCTTCCT-CTCTTTCTTTTT
1 CTCTCCCTCCTCTCTCTTTTT
84921936 TTTCTTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (23 bp):
CTCTCCCTCCTCTCTCTTTTTCT
Found at i:84922440 original size:23 final size:23
Alignment explanation
Indices: 84922394--84922462 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
84922384 CTTTATTTTC
*
84922394 TTTTTATATATTATTACT-GT-TA
1 TTTTTATAT-TTATTACTAATATA
84922416 TTTTTATATTTATTACTAATATA
1 TTTTTATATTTATTACTAATATA
* * *
84922439 TTATTAT-TATAGTTACTACTATA
1 TTTTTATATTTA-TTACTAATATA
84922462 T
1 T
84922463 ATATATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.20
22 13 0.32
23 19 0.47
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTTTATATTTATTACTAATATA
Found at i:84922446 original size:21 final size:21
Alignment explanation
Indices: 84922422--84922487 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
84922412 GTTATTTTTA
84922422 TATTTATTACTAATATATTAT
1 TATTTATTACTAATATATTAT
*
84922443 TATTATAGTTACTACTATA-TAT
1 TATT-TA-TTACTAATATATTAT
* *
84922465 ATATATGTTACGT-ATATATTAT
1 -TATTTATTAC-TAATATATTAT
84922487 T
1 T
84922488 TATAATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 13 0.36
22 10 0.28
23 13 0.36
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTTATTACTAATATATTAT
Found at i:84922448 original size:26 final size:27
Alignment explanation
Indices: 84922413--84922466 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
84922403 ATTATTACTG
* * *
84922413 TTATTTTTATATTTATTACTA-ATATA
1 TTATTATTATAGTTACTACTATATATA
84922439 TTATTATTATAGTTACTACTATATATA
1 TTATTATTATAGTTACTACTATATATA
84922466 T
1 T
84922467 ATATGTTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (27 bp):
TTATTATTATAGTTACTACTATATATA
Found at i:84922631 original size:22 final size:23
Alignment explanation
Indices: 84922594--84922639 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
84922584 TACACATGCA
*
84922594 TTTTTCATATTAATA-TATATATG
1 TTTTTAATATTAATATTAT-TATG
84922617 TTTTTAATATT-ATATTATTATG
1 TTTTTAATATTAATATTATTATG
84922639 T
1 T
84922640 ATATGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTAATATTATTATG
Found at i:84922658 original size:30 final size:28
Alignment explanation
Indices: 84922600--84922656 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
84922590 TGCATTTTTC
84922600 ATATTAATATATATATGTTTTTAATATT
1 ATATTAATATATATATGTTTTTAATATT
* *
84922628 ATATTATTATGTATATG-TTTTAATATT
1 ATATTAATATATATATGTTTTTAATATT
84922655 AT
1 AT
84922657 TAGCTATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
ATATTAATATATATATGTTTTTAATATT
Found at i:84923637 original size:20 final size:22
Alignment explanation
Indices: 84923595--84923640 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
84923585 AAGTAGTATA
* *
84923595 TATATATTTCGACTATTTCATG
1 TATATATTTCAAATATTTCATG
84923617 TATATATTTCAAATA-TT-ATG
1 TATATATTTCAAATATTTCATG
84923637 TATA
1 TATA
84923641 GTATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 13 0.59
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
TATATATTTCAAATATTTCATG
Found at i:84929376 original size:38 final size:39
Alignment explanation
Indices: 84929319--84929403 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
84929309 AACTTAATGT
*
84929319 CTAGCAAGCCTTGTGCCGGTGATAAATTCAGCTT-TATAC
1 CTAGCAAGCCTTGTGCCGGTGATAAATTCAGGTTAT-TAC
* *
84929358 CTAGCAGGCC-TGTGCCGGTGATAAGTTCAGGTTATTAC
1 CTAGCAAGCCTTGTGCCGGTGATAAATTCAGGTTATTAC
84929396 CTAGCAAG
1 CTAGCAAG
84929404 TTAATTGCCG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 31 0.76
39 10 0.24
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (39 bp):
CTAGCAAGCCTTGTGCCGGTGATAAATTCAGGTTATTAC
Found at i:84932564 original size:62 final size:60
Alignment explanation
Indices: 84932486--84932630 Score: 159
Period size: 61 Copynumber: 2.4 Consensus size: 60
84932476 TCAAGCTTTA
* * ** *
84932486 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATTAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATAGCAGTATCAAT
* *
84932548 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATAGCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATAGCAGTATCAAT
84932609 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
84932631 GTCGAGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
61 37 0.51
62 31 0.43
63 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATAGCAGTATCAAT
Found at i:84934027 original size:17 final size:19
Alignment explanation
Indices: 84934005--84934042 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84933995 TGAGAGAAGG
*
84934005 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
84934022 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
84934041 AT
1 AT
84934043 CCTAAAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:84936253 original size:26 final size:26
Alignment explanation
Indices: 84936217--84936279 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
84936207 TATAACATTT
* *
84936217 TATTGTTTTATCTATTTTGTTTTCTG
1 TATTTTTTTATCTATTTTCTTTTCTG
* *
84936243 T-TTTTTGTTATTTTTTTTCTTTTCTG
1 TATTTTT-TTATCTATTTTCTTTTCTG
84936269 TATTTTTTTAT
1 TATTTTTTTAT
84936280 ATTTGGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 4 0.13
26 22 0.71
27 5 0.16
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.76
Consensus pattern (26 bp):
TATTTTTTTATCTATTTTCTTTTCTG
Found at i:84937728 original size:26 final size:26
Alignment explanation
Indices: 84937699--84937780 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
84937689 TGATACAAAT
*
84937699 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84937725 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84937751 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84937777 TGAT
1 TGAT
84937781 TGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84954877 original size:20 final size:20
Alignment explanation
Indices: 84954852--84954890 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84954842 TATTCTCTGG
*
84954852 AAAGTTTTAATTATGTAATC
1 AAAGTTTCAATTATGTAATC
84954872 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
84954891 GATGTAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATC
Found at i:84956863 original size:12 final size:12
Alignment explanation
Indices: 84956846--84956878 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
84956836 ACTATTATAA
84956846 TTAAATATAGTG
1 TTAAATATAGTG
84956858 TTAAATATAGTG
1 TTAAATATAGTG
84956870 TTAAATATA
1 TTAAATATA
84956879 TATAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (12 bp):
TTAAATATAGTG
Found at i:84957214 original size:48 final size:48
Alignment explanation
Indices: 84957162--84957258 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
84957152 AATTTTAAGA
84957162 TATTCTTATTTCAAAGTGTGAATTTTAACAGTGATTTTAGTTATTCAT
1 TATTCTTATTTCAAAGTGTGAATTTTAACAGTGATTTTAGTTATTCAT
**
84957210 TATTCTTATTTCAAAGTGTGAATTTTAATTGTGATTTTAGTTATTCAT
1 TATTCTTATTTCAAAGTGTGAATTTTAACAGTGATTTTAGTTATTCAT
84957258 T
1 T
84957259 TTGGCATGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (48 bp):
TATTCTTATTTCAAAGTGTGAATTTTAACAGTGATTTTAGTTATTCAT
Found at i:84961649 original size:24 final size:24
Alignment explanation
Indices: 84961621--84961672 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
84961611 TTAGCAAGTC
* *
84961621 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
84961645 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
84961669 AAAT
1 AAAT
84961673 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:84963617 original size:24 final size:24
Alignment explanation
Indices: 84963589--84963640 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
84963579 TTAGCAAGTC
* *
84963589 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
84963613 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
84963637 AAAT
1 AAAT
84963641 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:84965944 original size:26 final size:26
Alignment explanation
Indices: 84965894--84965949 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
84965884 ATAGAAAGTG
* *
84965894 ACTTTACTCGTTCCGTAATTGACCAA
1 ACTTTACTCGTTCCGTAAGTAACCAA
* * *
84965920 ACTTTACTTGTTCTGTAAGTAACCAT
1 ACTTTACTCGTTCCGTAAGTAACCAA
84965946 ACTT
1 ACTT
84965950 AATTCACAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (26 bp):
ACTTTACTCGTTCCGTAAGTAACCAA
Found at i:84967109 original size:5 final size:5
Alignment explanation
Indices: 84967094--84967126 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
84967084 TCAAATTTGA
84967094 GTTTT -TTTT GTTTT GTTTT GTTTT GTTTT GTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTT
84967127 CTTTATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
GTTTT
Found at i:84968232 original size:192 final size:192
Alignment explanation
Indices: 84967905--84968295 Score: 746
Period size: 192 Copynumber: 2.0 Consensus size: 192
84967895 TAATTTATGT
*
84967905 TTTTTAGACAAATGGGCTAATTGCTCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
1 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
84967970 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
66 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
84968035 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
131 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
*
84968097 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCTAAAACTCTCCAAAATCCTTTCCAAATTCT
1 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
*
84968162 ACTAAAATTCCCTATTTGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
66 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
84968227 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
131 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
84968289 TTCTTTA
1 TT-TTTA
84968296 AAGTCTTTGA
Statistics
Matches: 195, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
192 191 0.98
193 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (192 bp):
TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
Found at i:84970268 original size:26 final size:26
Alignment explanation
Indices: 84970239--84970291 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
84970229 TCAAACATGC
84970239 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
84970265 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
84970291 A
1 A
84970292 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:84972215 original size:26 final size:26
Alignment explanation
Indices: 84972179--84972262 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
84972169 CATGAAATTC
84972179 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84972205 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
84972231 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
84972257 TTATCA
1 TTATCA
84972263 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84973229 original size:22 final size:22
Alignment explanation
Indices: 84973204--84973247 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
84973194 GCGTCACTGT
84973204 ACACACTAAAATCCTTCACAGA
1 ACACACTAAAATCCTTCACAGA
84973226 ACACACTAAAATCCTTCACAGA
1 ACACACTAAAATCCTTCACAGA
84973248 CTCCGGCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (22 bp):
ACACACTAAAATCCTTCACAGA
Found at i:84978026 original size:26 final size:26
Alignment explanation
Indices: 84977990--84978073 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
84977980 CATGAAATTC
84977990 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
84978016 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
84978042 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
84978068 TTATCA
1 TTATCA
84978074 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:84979499 original size:63 final size:63
Alignment explanation
Indices: 84979416--84979542 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 63
84979406 ACGATTCACT
*
84979416 GTCTGAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCT-TATTCCTAGA
1 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCT-TTCCTAGA
*
84979479 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCACTGGTTAAGTGTTAGTGCTCTTTCCTAGA
1 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCTTTCCTAGA
84979542 G
1 G
84979543 ATCCTAGGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 60 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (63 bp):
GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCTTTCCTAGA
Found at i:84979813 original size:12 final size:11
Alignment explanation
Indices: 84979785--84979827 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
84979775 TTTCTCTCCA
84979785 TCTTCTTTTTC
1 TCTTCTTTTTC
*
84979796 TTTTCTTTTTGC
1 TCTTCTTTTT-C
84979808 TCTTCTTTTCTC
1 TCTTCTTTT-TC
84979820 TCATTCTT
1 TC-TTCTT
84979828 GCACCTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.33
12 12 0.44
13 6 0.22
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:84980746 original size:38 final size:35
Alignment explanation
Indices: 84980660--84980753 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 35
84980650 TTATCGCTCT
* *
84980660 ACTAAGTACATGTTAAACATGTCTACTACTGTTGA
1 ACTAAGTACATGTTAAGCATGTCTACTACTATTGA
* * *
84980695 ACTGAGTATATGTTTAGCATGTCTACTATTACTATTGA
1 ACTAAGTACATGTTAAGCATGTCTAC---TACTATTGA
*
84980733 ACTAAATACATGTTAAGCATG
1 ACTAAGTACATGTTAAGCATG
84980754 ACTATTGTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
35 22 0.47
38 25 0.53
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (35 bp):
ACTAAGTACATGTTAAGCATGTCTACTACTATTGA
Found at i:84983797 original size:34 final size:34
Alignment explanation
Indices: 84983754--84983823 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
84983744 AATTATTAAT
84983754 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
1 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
84983788 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
1 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
84983822 TT
1 TT
84983824 TCTATGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (34 bp):
TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
Found at i:84985857 original size:92 final size:93
Alignment explanation
Indices: 84985722--84985906 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 93
84985712 AGCAATACTT
* *
84985722 TTCTTAGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
84985787 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
*
84985815 TTCTTCGCCTTTATTTAC-TTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
*
84985879 TGTTTATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
84985907 ATGGCAGCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 71 0.81
93 17 0.19
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (93 bp):
TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:84986378 original size:25 final size:25
Alignment explanation
Indices: 84986344--84986393 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
84986334 AAGGTTAATG
84986344 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
84986369 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
84986394 TCTCACTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CTATTTGTCAATTCCCATTCAACAT
Found at i:84987678 original size:20 final size:20
Alignment explanation
Indices: 84987641--84987678 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84987631 TGATGGGGAG
*
84987641 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
84987661 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
84987679 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:84989628 original size:46 final size:46
Alignment explanation
Indices: 84989573--84989846 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
84989563 AGTGTGCTCT
*
84989573 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
84989619 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
84989665 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
84989711 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
84989757 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
84989803 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
84989847 TCATGTCAAA
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 211 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:84990871 original size:18 final size:18
Alignment explanation
Indices: 84990848--84990890 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
84990838 ATAATTGAAA
84990848 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
84990866 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
84990884 ATGTAAA
1 ATATAAA
84990891 AATAGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:84990995 original size:14 final size:14
Alignment explanation
Indices: 84990976--84991013 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
84990966 CCAGAAAAGT
84990976 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
84990990 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
84991004 AAAACATTTT
1 AAATCATTTT
84991014 ACTGGCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:84993354 original size:19 final size:19
Alignment explanation
Indices: 84993307--84993354 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
84993297 CCACGCCAAC
*
84993307 AATTAATTAAATTTTTTAAA
1 AATT-ATTAAATTTTTAAAA
*
84993327 ATTTA-TAAATTTTTAAAA
1 AATTATTAAATTTTTAAAA
84993345 AATTATTAAA
1 AATTATTAAA
84993355 ATTATGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.67
19 5 0.21
20 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTATTAAATTTTTAAAA
Found at i:85010955 original size:22 final size:22
Alignment explanation
Indices: 85010910--85010973 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
85010900 CCATTTTGGC
**
85010910 ATTTAAATAATTTTTAAA--AT
1 ATTTAAATAATTTAAAAATTAT
85010930 -TTTAAA-AATTTAAAAATATAT
1 ATTTAAATAATTTAAAAAT-TAT
*
85010951 ATTTAAATTATTTAAAAATTAT
1 ATTTAAATAATTTAAAAATTAT
85010973 A
1 A
85010974 AAAAATGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
21 2 0.06
22 10 0.28
23 10 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAATAATTTAAAAATTAT
Found at i:85010968 original size:31 final size:30
Alignment explanation
Indices: 85010914--85010977 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
85010904 TTTGGCATTT
*
85010914 AAATAATTTTTAAAATTTTAAAAATT-TAA
1 AAATAATATTTAAAATTTTAAAAATTATAA
*
85010943 AAATATATATTTAAATTATTTAAAAATTATAA
1 AAATA-ATATTTAAAAT-TTTAAAAATTATAA
85010975 AAA
1 AAA
85010978 ATGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 5 0.17
30 9 0.30
31 10 0.33
32 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATAATATTTAAAATTTTAAAAATTATAA
Found at i:85010996 original size:31 final size:31
Alignment explanation
Indices: 85010920--85010996 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
85010910 ATTTAAATAA
**
85010920 TTTTTAAAATTTTAAAAATTTAAAAATATAT
1 TTTTTAATTTTTTAAAAATTTAAAAATATAT
* * * *
85010951 ATTTAAATTATTTAAAAATTATAAAAA-ATGT
1 TTTTTAATTTTTTAAAAATT-TAAAAATATAT
85010982 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
85010997 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 30 0.83
32 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
TTTTTAATTTTTTAAAAATTTAAAAATATAT
Found at i:85011978 original size:24 final size:24
Alignment explanation
Indices: 85011930--85011979 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
85011920 ATGATATATA
* *
85011930 TATTTTTTATTTTATATGTTCAAT
1 TATTTTTAATTTTATATATTCAAT
* *
85011954 TATTTTTAATTTTATTTATTTAAT
1 TATTTTTAATTTTATATATTCAAT
85011978 TA
1 TA
85011980 ATTGTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TATTTTTAATTTTATATATTCAAT
Found at i:85012561 original size:15 final size:15
Alignment explanation
Indices: 85012541--85012573 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85012531 TTCTTTTTGA
85012541 TATAACGCCTAAAAT
1 TATAACGCCTAAAAT
85012556 TATAACGCCTAAAAT
1 TATAACGCCTAAAAT
85012571 TAT
1 TAT
85012574 TTATAACCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (15 bp):
TATAACGCCTAAAAT
Found at i:85013539 original size:16 final size:16
Alignment explanation
Indices: 85013518--85013574 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
85013508 TTTGGTTCGC
85013518 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
85013534 TGTATTTGATTGGATTAGAGG
1 TG----T-ATTGGATTAGAGG
* *
85013555 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
85013571 TGTA
1 TGTA
85013575 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
16 17 0.50
17 1 0.03
20 1 0.03
21 15 0.44
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:85013575 original size:16 final size:16
Alignment explanation
Indices: 85013544--85013576 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
85013534 TGTATTTGAT
*
85013544 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
85013560 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
85013576 T
1 T
85013577 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:85013621 original size:45 final size:44
Alignment explanation
Indices: 85013555--85013649 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
85013545 GGATTAGAGG
* *
85013555 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
85013600 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
85013644 TGTAAT
1 TGTAAT
85013650 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:85013831 original size:18 final size:17
Alignment explanation
Indices: 85013810--85013844 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85013800 TTATTATTTA
*
85013810 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
85013828 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
85013845 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:85013838 original size:28 final size:27
Alignment explanation
Indices: 85013767--85013840 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
85013757 TATTTATTAT
*
85013767 CAAAATAAATAATTTAATCATATTTAAA
1 CAAAATATATAATTTAAT-ATATTTAAA
* * *
85013795 CATAAT-TATTATTTAATATATTTTAAT
1 CAAAATATATAATTTAATATA-TTTAAA
*
85013822 TAAAATATATAATTTAATA
1 CAAAATATATAATTTAATA
85013841 AAATTCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.08
27 18 0.49
28 16 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAAATATATAATTTAATATATTTAAA
Found at i:85013938 original size:144 final size:146
Alignment explanation
Indices: 85013730--85014000 Score: 485
Period size: 144 Copynumber: 1.9 Consensus size: 146
85013720 ATGATTATTG
85013730 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAATAAATAATTTAATCATATTTAAA
*
85013795 CATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
64 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
85013860 GAAATTTGTTTTGGTAAA
129 GAAATTTGTTTTGGTAAA
85013878 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAA-AATAAATAATTTAATCATATTTAAAC
85013940 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
85014001 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 1, Indels: 6
0.95 0.01 0.05
Matches are distributed among these distances:
143 6 0.05
144 87 0.72
147 23 0.19
148 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAATAAATAATTTAATCATATTTAAACA
TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGA
AATTTGTTTTGGTAAA
Found at i:85013975 original size:18 final size:17
Alignment explanation
Indices: 85013954--85013988 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85013944 TTATTATTAA
*
85013954 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
85013972 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
85013989 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:85018575 original size:14 final size:15
Alignment explanation
Indices: 85018551--85018587 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
85018541 ATATTATTGA
85018551 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
85018564 TAATATTTTAATAAT
1 AAATATTTTAATAAT
85018579 AAATATTTT
1 AAATATTTT
85018588 GTAGTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:85022545 original size:18 final size:21
Alignment explanation
Indices: 85022512--85022554 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
85022502 ATACCACTTT
85022512 TTTTCCTTTCTTTCTTTCT-C
1 TTTTCCTTTCTTTCTTTCTCC
85022532 TTTT-CTTT-TTTCTTTCTCC
1 TTTTCCTTTCTTTCTTTCTCC
85022551 TTTT
1 TTTT
85022555 AGCAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCCTTTCTTTCTTTCTCC
Found at i:85023594 original size:17 final size:18
Alignment explanation
Indices: 85023572--85023606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
85023562 TTACATGCCA
85023572 AAGTG-AAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
85023589 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
85023607 TTGACTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (18 bp):
AAGTGAAAAAGTGATTTT
Found at i:85023720 original size:48 final size:47
Alignment explanation
Indices: 85023653--85023766 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 47
85023643 AGGCGGAAGA
* * *
85023653 ATGTGGCAGTTTATCTGCAAAAGTGGTGGCTTGTCCACAAGCTTT-ATT
1 ATGTGGTAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAA--TTTGATT
* *
85023701 ATGTGGTAGTATATTTGCAAAATTGGCGGCTTGTCCACAATTTGATT
1 ATGTGGTAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAATTTGATT
*
85023748 ATGTGGTAATTTATTTGCA
1 ATGTGGTAGTTTATTTGCA
85023767 TTATCGTGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
46 3 0.05
47 20 0.34
48 35 0.60
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (47 bp):
ATGTGGTAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAATTTGATT
Found at i:85024581 original size:6 final size:6
Alignment explanation
Indices: 85024562--85024606 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
85024552 GATACAAATA
*
85024562 CAGATT CA-ATTT CAGATT CAGATT CAGATAA CAGATT CAGATT CA
1 CAGATT CAGA-TT CAGATT CAGATT CAGAT-T CAGATT CAGATT CA
85024607 AATATGCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 1 0.03
6 27 0.79
7 6 0.18
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (6 bp):
CAGATT
Found at i:85026455 original size:14 final size:14
Alignment explanation
Indices: 85026419--85026457 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
85026409 TTGTTTCACT
*
85026419 GAAAATGACTTCTA
1 GAAAATGATTTCTA
85026433 GAAAATGATTTCTA
1 GAAAATGATTTCTA
85026447 GAAAATGATTT
1 GAAAATGATTT
85026458 GCTTTTCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:85027029 original size:16 final size:16
Alignment explanation
Indices: 85026998--85027034 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
85026988 ATGTGAATAG
85026998 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
85027014 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
85027030 TATTA
1 TATTA
85027035 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:85027086 original size:22 final size:22
Alignment explanation
Indices: 85027046--85027101 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
85027036 AATAAAATTG
*
85027046 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
85027066 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
85027088 TATTAATAATTTAT
1 AAATAATAAATTAT
85027102 TGTATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:85031421 original size:14 final size:15
Alignment explanation
Indices: 85031402--85031434 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
85031392 TTTAAATGAC
*
85031402 TTTTTTGAA-TTAAT
1 TTTTTTAAATTTAAT
85031416 TTTTTTAAATTTAAT
1 TTTTTTAAATTTAAT
85031431 TTTT
1 TTTT
85031435 AGATAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTTAAATTTAAT
Found at i:85040273 original size:50 final size:49
Alignment explanation
Indices: 85040144--85040324 Score: 263
Period size: 49 Copynumber: 3.7 Consensus size: 49
85040134 TCTATTGTGA
* * * *
85040144 GGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* **
85040193 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
* * *
85040242 AGGTCACATGTGTTGTAATAAGTGCAGGCTACTACGTGTATCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
85040292 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
85040325 TGCGCACCAG
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
49 74 0.63
50 43 0.37
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
Found at i:85040314 original size:99 final size:99
Alignment explanation
Indices: 85040143--85040324 Score: 292
Period size: 99 Copynumber: 1.8 Consensus size: 99
85040133 ATCTATTGTG
* * * *
85040143 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTAATAAGTACAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
85040208 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
* * * *
85040242 AGGTCACATGTGTTGTAATAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCACATGTGTAGT
1 AGGTCACATGTGTAGTAATAAGTACAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
85040307 ACTAAGTGCAGGCTACTA
66 ACTAAGTGCAGGCTACTA
85040325 TGCGCACCAG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 75 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (99 bp):
AGGTCACATGTGTAGTAATAAGTACAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:85042855 original size:5 final size:5
Alignment explanation
Indices: 85042847--85042876 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
85042837 ACAAAAACAA
85042847 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
85042877 CACATAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:85048063 original size:36 final size:36
Alignment explanation
Indices: 85047999--85048086 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
85047989 GTTATATTGT
* * * * *
85047999 GAACTATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACTGTGTTAATTTGGTGAATTATATTAATATAGA
*
85048035 GAACTGTGTTAATTTGGTG-ATCTGTATTAATATAGA
1 GAACTGTGTTAATTTGGTGAAT-TATATTAATATAGA
* *
85048071 GAATTGTATTAATTTG
1 GAACTGTGTTAATTTG
85048087 CCAAATTGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.05
36 41 0.95
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (36 bp):
GAACTGTGTTAATTTGGTGAATTATATTAATATAGA
Found at i:85048334 original size:17 final size:17
Alignment explanation
Indices: 85048298--85048349 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
85048288 AACTGTGTTA
* *
85048298 TAATGTGCGAGCTCTGTT
1 TAAT-TGCGAGCCCTATT
*
85048316 TATTTGCGAGCCCTATT
1 TAATTGCGAGCCCTATT
* *
85048333 TAATTGCAAGCCTTATT
1 TAATTGCGAGCCCTATT
85048350 ATACTGAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (17 bp):
TAATTGCGAGCCCTATT
Found at i:85048789 original size:17 final size:17
Alignment explanation
Indices: 85048769--85048809 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
85048759 ATTATTTTGC
85048769 ATGAACTATTATGTGAT
1 ATGAACTATTATGTGAT
* *
85048786 ATGAACCATTATGTGTT
1 ATGAACTATTATGTGAT
85048803 ATGAACT
1 ATGAACT
85048810 GCTAATTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (17 bp):
ATGAACTATTATGTGAT
Found at i:85054277 original size:26 final size:26
Alignment explanation
Indices: 85054246--85054353 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
85054236 TGAAATGTCC
85054246 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
85054272 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
85054298 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
85054324 ATCATGGAACATTTGCCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
85054350 ATCA
1 ATCA
85054354 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:85060357 original size:34 final size:34
Alignment explanation
Indices: 85060314--85060381 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
85060304 TTATGTAAAT
85060314 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
1 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
*
85060348 GCCAACTAGCTTTAATATTGAAAAAGAGAAGTGA
1 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
85060382 TAGGGGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (34 bp):
GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
Found at i:85061770 original size:14 final size:14
Alignment explanation
Indices: 85061751--85061785 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
85061741 TCCCACCCCC
85061751 CTCTCTCCCTCCCT
1 CTCTCTCCCTCCCT
85061765 CTCTCTCCCTCCCT
1 CTCTCTCCCTCCCT
85061779 CTCTCTC
1 CTCTCTC
85061786 TACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (14 bp):
CTCTCTCCCTCCCT
Found at i:85067048 original size:15 final size:16
Alignment explanation
Indices: 85067017--85067049 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
85067007 TTGGATTGAG
85067017 AAAATTATTTAATTAA
1 AAAATTATTTAATTAA
85067033 AAAATTATTTAA-TAA
1 AAAATTATTTAATTAA
85067048 AA
1 AA
85067050 TAAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATTATTTAATTAA
Found at i:85077825 original size:22 final size:22
Alignment explanation
Indices: 85077781--85077861 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
85077771 GCTTGTATAG
* ** *
85077781 GTTTAGCACTATGGTGTTGTTT
1 GTTTAGCACTTTGGTACTCTTT
*
85077803 GCTTAGCACTTTGGTACTCTTT
1 GTTTAGCACTTTGGTACTCTTT
* *
85077825 GTTTAGCATTTTGGTACTCTCT
1 GTTTAGCACTTTGGTACTCTTT
85077847 GTTTAGCACTTTGGT
1 GTTTAGCACTTTGGT
85077862 GCTTTCTGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (22 bp):
GTTTAGCACTTTGGTACTCTTT
Found at i:85077869 original size:22 final size:22
Alignment explanation
Indices: 85077805--85077871 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
85077795 TGTTGTTTGC
85077805 TTAGCACTTTGGTACTCTT-TGT
1 TTAGCACTTTGGTACT-TTCTGT
* *
85077827 TTAGCATTTTGGTACTCTCTGT
1 TTAGCACTTTGGTACTTTCTGT
*
85077849 TTAGCACTTTGGTGCTTTCTGT
1 TTAGCACTTTGGTACTTTCTGT
85077871 T
1 T
85077872 CAAAACTCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.51
Consensus pattern (22 bp):
TTAGCACTTTGGTACTTTCTGT
Found at i:85089208 original size:40 final size:40
Alignment explanation
Indices: 85089152--85089355 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
85089142 CGAAATTTAA
** *
85089152 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85089192 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85089232 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85089271 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
85089311 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85089351 CCGGA
1 CCGGA
85089356 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.21
40 92 0.66
41 14 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85089282 original size:79 final size:80
Alignment explanation
Indices: 85089173--85089353 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
85089163 TACTCGTTCA
* **
85089173 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
85089237 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
85089253 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
85089316 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
85089332 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
85089354 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 59 0.67
80 25 0.28
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:85091442 original size:27 final size:26
Alignment explanation
Indices: 85091412--85091471 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
85091402 AGTGGGCCAA
* *
85091412 AGCCCATTACA-ATATCATTTGGGTCAT
1 AGCCCATAACAGA-ATCAATTGGG-CAT
*
85091439 AGCCCATAACAGAATCAATTGGGCCT
1 AGCCCATAACAGAATCAATTGGGCAT
85091465 AGCCCAT
1 AGCCCAT
85091472 CTCAGTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
AGCCCATAACAGAATCAATTGGGCAT
Found at i:85092274 original size:27 final size:27
Alignment explanation
Indices: 85092244--85092311 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
85092234 CAAAATAGTC
* *
85092244 ATTTTACCCTACAAGGGTATTTCTGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
85092271 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
85092298 ATTTTACACTACAA
1 ATTTTACACTACAA
85092312 AGGTCTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:85092326 original size:27 final size:26
Alignment explanation
Indices: 85092244--85092327 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 26
85092234 CAAAATAGTC
*
85092244 ATTTTACCCTACAAGGGTATTTCTG-TA
1 ATTTTACACTACAAGGGT-TTT-TGATA
* *
85092271 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTTTTTGA-TA
*
85092298 ATTTTACACTACAAAGGTCTTTTGATA
1 ATTTTACACTACAAGGGT-TTTTGATA
85092325 ATT
1 ATT
85092328 GAGAGAGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 41 0.85
28 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (26 bp):
ATTTTACACTACAAGGGTTTTTGATA
Found at i:85092978 original size:27 final size:26
Alignment explanation
Indices: 85092937--85093145 Score: 152
Period size: 27 Copynumber: 7.8 Consensus size: 26
85092927 TGCATGGGCT
* *
85092937 GGGTATTTTGATAATTCTACACTATAA
1 GGGTATTTTGATAATTTTACA-TACAA
*
85092964 GGGTATTTTGGTAATTTTACATTACAA
1 GGGTATTTTGATAATTTTACA-TACAA
*
85092991 GGGTATTTTGATAATTTCACACTACAA
1 GGGTATTTTGATAATTTTACA-TACAA
* ** * * *
85093018 GAGTATTTCAATAATTTTACAAATTAG
1 GGGTATTTTGATAATTTTACATA-CAA
* * **
85093045 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGATAATTTTACATA-CAA
* *
85093072 GGGTATTTCGGTAATTTTACATTACAA
1 GGGTATTTTGATAATTTTACA-TACAA
* * *
85093099 GGGTA-TTTCAGTAATTTTACAAATC-G
1 GGGTATTTTGA-TAATTTTACATA-CAA
*
85093125 GGGTATTTTAATAATTTTACA
1 GGGTATTTTGATAATTTTACA
85093146 AACTGGGGGT
Statistics
Matches: 147, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
26 19 0.13
27 127 0.86
28 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGATAATTTTACATACAA
Found at i:85093024 original size:54 final size:54
Alignment explanation
Indices: 85092937--85093106 Score: 186
Period size: 54 Copynumber: 3.1 Consensus size: 54
85092927 TGCATGGGCT
*
85092937 GGGTATTTTGATAA-TTCTACACTATAAGGGTATTTTGGTAATTTTACATTACAA
1 GGGTATTTTGATAATTTC-ACACTATAAGGGTATTTCGGTAATTTTACATTACAA
* * ** *
85092991 GGGTATTTTGATAATTTCACACTACAAGAGTATTTCAATAATTTTACAAATT--AG
1 GGGTATTTTGATAATTTCACACTATAAGGGTATTTCGGTAATTTTAC--ATTACAA
* * * *
85093045 GGGTATTTTGGTAATTTTACA-AATTGAGGGTATTTCGGTAATTTTACATTACAA
1 GGGTATTTTGATAATTTCACACTA-TAAGGGTATTTCGGTAATTTTACATTACAA
85093099 GGGTATTT
1 GGGTATTT
85093107 CAGTAATTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
52 3 0.03
53 1 0.01
54 85 0.89
55 3 0.03
56 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGATAATTTCACACTATAAGGGTATTTCGGTAATTTTACATTACAA
Found at i:85093075 original size:81 final size:80
Alignment explanation
Indices: 85092964--85093166 Score: 248
Period size: 81 Copynumber: 2.5 Consensus size: 80
85092954 TACACTATAA
* *
85092964 GGGTATTTTGGTAATTTTAC--ATTACAAGGGTATTTTGATAATTTCACACTACAAGAGTATTTC
1 GGGTATTTTGGTAATTTTACAAATT--GAGGGTATTTCGATAATTTCACACTACAAGAGTATTTC
85093027 AATAATTTTACAAATTAG
64 AATAATTTTACAAA-TAG
* * * * *
85093045 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACATTACAAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACACTACAAGAGTATTTCAA
*
85093110 TAATTTTACAAATCG
66 TAATTTTACAAATAG
** * * *
85093125 GGGTATTTTAATAATTTTACAAACTGGGGGTATTTCGTTAAT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAAT
85093167 CTAAATAGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 39 0.36
81 65 0.61
83 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACACTACAAGAGTATTTCAA
TAATTTTACAAATAG
Found at i:85098559 original size:27 final size:27
Alignment explanation
Indices: 85098500--85098553 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
85098490 AAACATTATG
85098500 AGATGTGTAAATTATACTGGTATACCC
1 AGATGTGTAAATTATACTGGTATACCC
85098527 AGATGTGTAAATTATACTGGTATACCC
1 AGATGTGTAAATTATACTGGTATACCC
85098554 GAATGTCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
AGATGTGTAAATTATACTGGTATACCC
Found at i:85105951 original size:46 final size:47
Alignment explanation
Indices: 85105805--85106208 Score: 202
Period size: 46 Copynumber: 8.7 Consensus size: 47
85105795 TTTGTGTGCT
* * *
85105805 AGTGTAAGACATGTCCGGGGCATGCATCGG-CTAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGA-GATGAGAGCC
* * * * * * *
85105851 AGCGTAAGACCATGTCTGGGACATGGCATCGACAT-TGACACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGATGAGAGCC
85105899 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATG-AGAGCC
* * *
85105945 AGTGTAAGACATGTCTGAGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGAGAGCC
* * * *
85105989 AGTGTAAGACCATGTCTGAGACATGGCATCGG-C-ACG-TATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGAT-GA-GAGCC
* * * *
85106037 AGTGTAAGACCATGTCTGGCATCA-GCAT-GG-ATA--TG-TGAGAGCT
1 AGTGTAAGA-CATGTCTGGGA-CATGCATCGGCCTACGAGATGAGAGCC
* * * ** * *
85106080 AGTGTAAGACCATGCCTGGGACATGGCGTCGGCCT-CAATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGAT-GAGAGCC
* * * *
85106129 AATGTAAGACCATGTCTGGGACATGGCATC-GACT-TGATA-GATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGATGA-GAGCC
*
85106176 AGTGTAAGACCATGTCGGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
85106209 ATTATACCCT
Statistics
Matches: 284, Mismatches: 48, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 21 0.07
44 18 0.06
45 22 0.08
46 71 0.25
47 63 0.22
48 52 0.18
49 35 0.12
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGAGAGCC
Found at i:85108709 original size:42 final size:42
Alignment explanation
Indices: 85108628--85108710 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
85108618 GCTCCCATGG
* * *
85108628 CCGTGGGGCTAGCCTGTGGGCAGATCTGGCTTTCTCACACGA
1 CCGTGGGACTAACCTGTGGGCAGATCTGACTTTCTCACACGA
85108670 CCGTGGGACTAACCTGTGGGCA-ATTCTGACTTTGC-CACACG
1 CCGTGGGACTAACCTGTGGGCAGA-TCTGACTTT-CTCACACG
85108711 GCTTGGGCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.03
42 34 0.94
43 1 0.03
ACGTcount: A:0.17, C:0.29, G:0.30, T:0.24
Consensus pattern (42 bp):
CCGTGGGACTAACCTGTGGGCAGATCTGACTTTCTCACACGA
Found at i:85126732 original size:47 final size:47
Alignment explanation
Indices: 85126672--85126818 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
85126662 TATAAGTTGA
*
85126672 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
* *
85126719 AGTTAATCTTGTTAAATTTGCTCTTAATATTTCCAGATAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
* * * *
85126766 AGTTAAGCTTGTTAAATTTTCCCTTAATATTTCTGGATAATTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
85126813 AGTTAA
1 AGTTAA
85126819 AGAAAATTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (47 bp):
AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
Found at i:85127686 original size:45 final size:45
Alignment explanation
Indices: 85127621--85127839 Score: 288
Period size: 45 Copynumber: 5.0 Consensus size: 45
85127611 TATCATACAG
* * *
85127621 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
85127666 TACTATTCGGGCCTTCGAGCCTAGCAGGTTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * * *
85127711 TACTATTC-GGCCTTTGATCCTAGCAGGCTATAATGCTGATGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
85127755 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
85127800 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCC-GTGAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
85127840 TGAATTCGGG
Statistics
Matches: 154, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
41 5 0.03
42 6 0.04
43 18 0.12
44 42 0.27
45 82 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:85127781 original size:89 final size:89
Alignment explanation
Indices: 85127621--85127826 Score: 326
Period size: 89 Copynumber: 2.3 Consensus size: 89
85127611 TATCATACAG
*
85127621 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATACTATTCGGGCCTTCGAGC
1 TACTATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAGATACTATTCGGGCCTTCGAGC
* *
85127686 CTAGCAGGTTATGATGCCGGTGAAA
65 CTAGCAGGCTATAATGCCGGTGAAA
*
85127711 TACTATTCGGCCTTTGATCCTAGCAGGCTATAATGCTGATGAGATACTATTCGGGCCTTCGAGCC
1 TACTATTCGGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAGATACTATTCGGGCCTTCGAGCC
85127776 TAGCAGGCTATAATGCCGGTGAAA
66 TAGCAGGCTATAATGCCGGTGAAA
* *
85127800 TGA-TA-TCGGGCTTCGAGCCTAGCAGGC
1 T-ACTATTCGGCCTTTGAGCCTAGCAGGC
85127827 GAAATGCCGT
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
88 19 0.18
89 80 0.74
90 9 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (89 bp):
TACTATTCGGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAGATACTATTCGGGCCTTCGAGCC
TAGCAGGCTATAATGCCGGTGAAA
Found at i:85128397 original size:16 final size:18
Alignment explanation
Indices: 85128366--85128398 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
85128356 AACTCGTGAC
85128366 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
85128384 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
85128399 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:85129506 original size:17 final size:16
Alignment explanation
Indices: 85129484--85129516 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
85129474 CCCTTCTCAC
85129484 CTTTTCTTTTCTTCCAT
1 CTTTTCTTTTC-TCCAT
85129501 CTTTTCTTTTCTCCAT
1 CTTTTCTTTTCTCCAT
85129517 AGCCGAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTTTCTTTTCTCCAT
Found at i:85131802 original size:46 final size:46
Alignment explanation
Indices: 85131749--85132013 Score: 258
Period size: 46 Copynumber: 5.7 Consensus size: 46
85131739 TATTTGGGCA
* *
85131749 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTGTGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAAGG
*
85131795 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGCAA--AGG
* * *
85131840 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAAGG
*
85131888 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTG-GATGCAA--AGG
* ** * *
85131933 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAAGG
* *
85131981 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
85132014 ATGGGCGGGT
Statistics
Matches: 181, Mismatches: 20, Indels: 36
0.76 0.08 0.15
Matches are distributed among these distances:
42 5 0.03
43 11 0.06
44 2 0.01
45 4 0.02
46 84 0.46
47 55 0.30
48 4 0.02
49 2 0.01
50 10 0.06
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCAAAGG
Found at i:85131883 original size:93 final size:93
Alignment explanation
Indices: 85131745--85132009 Score: 458
Period size: 93 Copynumber: 2.8 Consensus size: 93
85131735 GGGATATTTG
*
85131745 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTGTGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
85131810 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
85131838 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAGATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
85131903 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
85131931 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
85131996 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85132010 ACTTATGGGC
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85133248 original size:15 final size:15
Alignment explanation
Indices: 85133230--85133313 Score: 89
Period size: 15 Copynumber: 5.6 Consensus size: 15
85133220 ATCTTGGGTT
*
85133230 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
85133245 TCTTTATTCTGAATC
1 TCTTTATTCTGGATC
*
85133260 TCTTTATTCTGAATC
1 TCTTTATTCTGGATC
* *
85133275 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* *
85133290 TCTCTA-TCTTGGATT
1 TCTTTATTC-TGGATC
85133305 TCTTTATTC
1 TCTTTATTC
85133314 GGTTTTCTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
14 2 0.03
15 55 0.93
16 2 0.03
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:85133322 original size:14 final size:14
Alignment explanation
Indices: 85133228--85133322 Score: 55
Period size: 15 Copynumber: 6.4 Consensus size: 14
85133218 GTATCTTGGG
*
85133228 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
85133243 TCTCTTTATTCTGAA
1 TTTCTTTATTC-GGA
* *
85133258 TCTCTTTATTCTGAA
1 TTTCTTTATTC-GGA
* *
85133273 TCTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
85133288 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
85133303 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
85133317 TTTCTT
1 TTTCTT
85133323 GTTATCTTTG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
14 9 0.13
15 57 0.85
16 1 0.01
ACGTcount: A:0.13, C:0.19, G:0.12, T:0.57
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:85135697 original size:46 final size:48
Alignment explanation
Indices: 85135641--85135864 Score: 198
Period size: 47 Copynumber: 4.8 Consensus size: 48
85135631 ATATTTGGGC
* *
85135641 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAACAGG
* * *
85135688 -TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAC-AGG
* * *
85135733 CATCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAC-AGG
* * * * *
85135780 CATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGA-ATG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAACAGG
* * *
85135828 -CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGG
85135865 GCGGGTTACA
Statistics
Matches: 150, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
43 6 0.04
45 4 0.03
46 60 0.40
47 71 0.47
48 4 0.03
50 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAACAGG
Found at i:85135810 original size:47 final size:47
Alignment explanation
Indices: 85135692--85135810 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
85135682 CAAATGTTCG
*
85135692 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
*
85135739 AACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
*
85135786 AACTCGTTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
85135811 ACTCATGGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCA
Found at i:85137382 original size:27 final size:26
Alignment explanation
Indices: 85137311--85137425 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
85137301 TGAAGGAAGC
85137311 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
85137338 GTTTTTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
85137366 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
85137392 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
85137419 GTTCTGG
1 GTTCTGG
85137426 AAACCATGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 14 0.17
27 41 0.51
28 26 0.32
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:85159441 original size:17 final size:18
Alignment explanation
Indices: 85159400--85159442 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
85159390 TGTATTTACT
85159400 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* * *
85159418 CAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
85159435 TATTATAT
1 TATTATAT
85159443 TATATAATTA
Statistics
Matches: 19, Mismatches: 5, Indels: 2
0.73 0.19 0.08
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:85159453 original size:18 final size:17
Alignment explanation
Indices: 85159430--85159466 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
85159420 ATATAAAGTA
*
85159430 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
85159448 AATTATAATATATTAAT
1 AATTATAATATATTAAT
85159465 AA
1 AA
85159467 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:85164778 original size:13 final size:13
Alignment explanation
Indices: 85164760--85164787 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85164750 AATTTAATCC
85164760 CTATAACACAAAA
1 CTATAACACAAAA
85164773 CTATAACACAAAA
1 CTATAACACAAAA
85164786 CT
1 CT
85164788 TATGACCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (13 bp):
CTATAACACAAAA
Found at i:85165052 original size:16 final size:16
Alignment explanation
Indices: 85165024--85165116 Score: 55
Period size: 16 Copynumber: 5.7 Consensus size: 16
85165014 CCCTAATTTC
85165024 TCTTTTTCTTTTCTTT
1 TCTTTTTCTTTTCTTT
*
85165040 TCTTCTTTCTTTCTTTCTT
1 TCTT-TTTCTTT-TCT-TT
* * *
85165059 TCTATTTCGTTTCTTC
1 TCTTTTTCTTTTCTTT
** *
85165075 TCAGTTTCTTTT-TCT
1 TCTTTTTCTTTTCTTT
*
85165090 TGTTTTTC-TTTCTTT
1 TCTTTTTCTTTTCTTT
*
85165105 TATTTATTCTTT
1 TCTTT-TTCTTT
85165117 ATTTCATTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 11
0.68 0.18 0.13
Matches are distributed among these distances:
14 3 0.05
15 12 0.21
16 17 0.30
17 11 0.20
18 8 0.14
19 5 0.09
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.73
Consensus pattern (16 bp):
TCTTTTTCTTTTCTTT
Found at i:85165075 original size:14 final size:14
Alignment explanation
Indices: 85165028--85165109 Score: 50
Period size: 15 Copynumber: 5.9 Consensus size: 14
85165018 AATTTCTCTT
85165028 TTTCTTTTCT-TTTC
1 TTTC-TTTCTATTTC
85165042 -TTCTTTC--TTTC
1 TTTCTTTCTATTTC
85165053 TTTCTTTCTATTTC
1 TTTCTTTCTATTTC
85165067 GTTTC-TTCTCAGTTTC
1 -TTTCTTTCT-A-TTTC
* * *
85165083 TTTTTCTTGTTTTTC
1 TTTCT-TTCTATTTC
85165098 TTTCTTT-TATTT
1 TTTCTTTCTATTT
85165110 ATTCTTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
11 4 0.07
12 11 0.20
13 7 0.13
14 10 0.18
15 16 0.29
16 4 0.07
17 3 0.05
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTCTTTCTATTTC
Found at i:85165281 original size:3 final size:3
Alignment explanation
Indices: 85165273--85165297 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85165263 TTGATAAAAT
85165273 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85165298 GTAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85167869 original size:27 final size:27
Alignment explanation
Indices: 85167816--85167869 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
85167806 ATATATAATT
* *
85167816 ATTATAAAATAATCATTTTGTACTTAA
1 ATTATAAAATAATCAATTTGTAATTAA
*
85167843 ATTATTAAAATAATGAATTT-TAATTAA
1 ATTA-TAAAATAATCAATTTGTAATTAA
85167870 TTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTATAAAATAATCAATTTGTAATTAA
Found at i:85167877 original size:22 final size:22
Alignment explanation
Indices: 85167852--85167895 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
85167842 AATTATTAAA
85167852 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* **
85167874 ATAATTAATTTTGTTTAATTTT
1 ATAATGAATTTTAATTAATTTT
85167896 TATCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:85178892 original size:20 final size:20
Alignment explanation
Indices: 85178826--85178892 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
85178816 ATTTTGATAA
*
85178826 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85178846 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
85178866 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85178886 ACGTGAT
1 ACATGAT
85178893 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85179040 original size:24 final size:23
Alignment explanation
Indices: 85178943--85179038 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
85178933 AGGAAGTGAA
85178943 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85178966 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85178989 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
85179012 AAAAGGTCTTTTACCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
85179036 AAA
1 AAA
85179039 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 49 0.71
24 20 0.29
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:85179291 original size:31 final size:31
Alignment explanation
Indices: 85179253--85179316 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
85179243 CGTTTACAGT
*
85179253 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
85179284 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
85179315 AA
1 AA
85179317 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:85189725 original size:39 final size:40
Alignment explanation
Indices: 85189682--85189849 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
85189672 CTCGTTCAAG
* * * *
85189682 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
85189721 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
85189761 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
85189801 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
85189841 TGCCTTCGG
1 TGCCTTCGG
85189850 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:85189833 original size:80 final size:80
Alignment explanation
Indices: 85189717--85189902 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
85189707 AGTAACTCAT
* * *
85189717 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
85189781 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
85189796 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
85189860 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
85189877 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
85189903 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:85189862 original size:40 final size:40
Alignment explanation
Indices: 85189719--85189902 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
85189709 TAACTCATAC
* *
85189719 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
85189759 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
85189799 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
85189839 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
85189880 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
85189903 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:85192041 original size:45 final size:45
Alignment explanation
Indices: 85191972--85192192 Score: 315
Period size: 45 Copynumber: 5.0 Consensus size: 45
85191962 TATAGTACAG
* * * *
85191972 TACTATTCGAGCCTTTGAGGCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
85192017 TACTATTTGGGCCTTCGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
85192062 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
85192107 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
85192152 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
85192193 TGAATTCGGG
Statistics
Matches: 160, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 12 0.08
43 18 0.11
44 5 0.03
45 124 0.77
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:85192214 original size:41 final size:41
Alignment explanation
Indices: 85192126--85192232 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
85192116 GGCCTTCGAG
* ** *
85192126 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCGAG
1 CCTAGCAGGCGA-AATGCCGGTG-AATGATATCGGGCTTAAAA
*
85192169 CCTAGCAGGCGAAATGCCGGTGAATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGAATGATA-TCGGGCTTAAAA
*
85192210 CCTAGTAGGCCG-AATGCCGGTGA
1 CCTAGCAGG-CGAAATGCCGGTGA
85192233 TTTGATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 32 0.57
42 12 0.21
43 11 0.20
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCGAAATGCCGGTGAATGATATCGGGCTTAAAA
Found at i:85192751 original size:16 final size:18
Alignment explanation
Indices: 85192720--85192752 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
85192710 AACTCGTGAC
85192720 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
85192738 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
85192753 AGCTAGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:85193702 original size:17 final size:18
Alignment explanation
Indices: 85193663--85193709 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
85193653 TAAAAAGTCT
* *
85193663 GAAACTGTCCGTTCAACTG
1 GAAAATGTCC-TTCAACTA
85193682 GAAAATGTCCTT-AACTA
1 GAAAATGTCCTTCAACTA
*
85193699 GAAAACGTCCT
1 GAAAATGTCCT
85193710 AGAACTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 9 0.36
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (18 bp):
GAAAATGTCCTTCAACTA
Found at i:85197883 original size:17 final size:18
Alignment explanation
Indices: 85197842--85197884 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
85197832 TGTATTTACT
85197842 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* * *
85197860 CAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
85197877 TATTATAT
1 TATTATAT
85197885 TATATAATTA
Statistics
Matches: 19, Mismatches: 5, Indels: 2
0.73 0.19 0.08
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:85197895 original size:18 final size:17
Alignment explanation
Indices: 85197872--85197908 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
85197862 ATATAAAGTA
*
85197872 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
85197890 AATTATAATATATTAAT
1 AATTATAATATATTAAT
85197907 AA
1 AA
85197909 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:85203219 original size:13 final size:13
Alignment explanation
Indices: 85203201--85203228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85203191 AATTTAATCC
85203201 CTATAACACAAAA
1 CTATAACACAAAA
85203214 CTATAACACAAAA
1 CTATAACACAAAA
85203227 CT
1 CT
85203229 TATGACCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (13 bp):
CTATAACACAAAA
Done.