Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_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: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 18
Found at i:1464396 original size:19 final size:19
Alignment explanation
Indices: 1464369--1464412 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1464359 AAAATCGCAA
**
1464369 TGCGATTTTGGTTTCGCG-
1 TGCGATTTTTATTTCGCGT
1464387 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
1464406 TGCGATT
1 TGCGATT
1464413 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1464989 original size:20 final size:20
Alignment explanation
Indices: 1464964--1465017 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1464954 TGGCGCTATT
*
1464964 AAATCGCGTTTCGAAAGTCA
1 AAATCGCGTTGCGAAAGTCA
1464984 AAATCGCGTTGCGAAAGTCA
1 AAATCGCGTTGCGAAAGTCA
** *
1465004 GTATCTCGTTGCGA
1 AAATCGCGTTGCGA
1465018 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (20 bp):
AAATCGCGTTGCGAAAGTCA
Found at i:1465051 original size:20 final size:20
Alignment explanation
Indices: 1465026--1465079 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1465016 GATTTTGTAT
1465026 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1465046 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
1465066 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1465080 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1465367 original size:33 final size:33
Alignment explanation
Indices: 1465310--1465446 Score: 166
Period size: 33 Copynumber: 4.0 Consensus size: 33
1465300 ACGCGGAAAT
**
1465310 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
** *
1465344 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1465377 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
*
1465414 TGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 -GAGAATCGCAACGCGAAATGAAAATCGCAACG
1465447 TGAAATGAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
33 45 0.48
34 14 0.15
35 2 0.02
36 2 0.02
37 1 0.01
38 29 0.31
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:1465402 original size:19 final size:19
Alignment explanation
Indices: 1465265--1465468 Score: 203
Period size: 19 Copynumber: 11.1 Consensus size: 19
1465255 TCTTTTGGTT
*
1465265 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1465284 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
1465304 GGAAATGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGC
**
1465324 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1465342 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
1465358 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
1465375 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1465391 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1465410 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1465429 GAAATGAAAATCGCAACGT
1 GAAATGAAAATCGCAACGC
*
1465448 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1465467 GA
1 GA
1465469 TTTTGGTTTC
Statistics
Matches: 157, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
14 17 0.11
15 2 0.01
16 4 0.03
17 3 0.02
18 3 0.02
19 79 0.50
20 47 0.30
21 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1465491 original size:19 final size:19
Alignment explanation
Indices: 1465464--1465507 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
1465454 AAAATCGCAA
**
1465464 TGCGATTTTGGTTTCGCG-
1 TGCGATTTTTATTTCGCGT
1465482 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
1465501 TGCGATT
1 TGCGATT
1465508 CTCTCGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1466082 original size:19 final size:20
Alignment explanation
Indices: 1466058--1466096 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1466048 TGGCGCTATT
*
1466058 AAATCGCGTTG-GAAAGTCA
1 AAATCGCATTGCGAAAGTCA
1466077 AAATCGCATTGCGAAAGTCA
1 AAATCGCATTGCGAAAGTCA
1466097 GTATCTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (20 bp):
AAATCGCATTGCGAAAGTCA
Found at i:1466147 original size:20 final size:20
Alignment explanation
Indices: 1466079--1466172 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
1466069 GAAAGTCAAA
*
1466079 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
1466099 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
* *
1466120 ATCTCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1466140 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1466160 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1466173 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.70
21 13 0.21
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1466191 original size:61 final size:61
Alignment explanation
Indices: 1466079--1466193 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
1466069 GAAAGTCAAA
* * ** * *
1466079 ATCGCATTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCTCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
1466140 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
1466194 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:1468269 original size:22 final size:22
Alignment explanation
Indices: 1468241--1468305 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
1468231 AGTCGAGGGT
*
1468241 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGAGACATA
*
1468263 TACATAGGTTCTTCGAGACATA
1 TACATAGGTCCTTCGAGACATA
* *
1468285 TACATGAGGTCATTCGTGACA
1 TACAT-AGGTCCTTCGAGACA
1468306 AATTTCACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 25 0.68
23 12 0.32
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (22 bp):
TACATAGGTCCTTCGAGACATA
Found at i:1472721 original size:3 final size:3
Alignment explanation
Indices: 1472704--1472749 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
1472694 AAGAATAAAA
*
1472704 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
1472748 AA
1 AA
1472750 ATAAAGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1474163 original size:36 final size:34
Alignment explanation
Indices: 1474095--1474697 Score: 357
Period size: 36 Copynumber: 16.9 Consensus size: 34
1474085 AATAATAATA
* *
1474095 ATATATTATATA-TAT-AAAAATATTTCCAAAAACT
1 ATATATTATATATTTTCAAAAATATTT--TAAAACT
1474129 ATATAATTTATATATTTTCAAAAATATTTTAAAACT
1 ATAT-A-TTATATATTTTCAAAAATATTTTAAAACT
* *
1474165 ATATATTATATATTTTTAAAAATGTTTTCAAAACT
1 ATATATTATATATTTTCAAAAATATTTT-AAAACT
*
1474200 ATATATTATATAGTTTTCAAAAATGTTTTAAAACT
1 ATATATTATATA-TTTTCAAAAATATTTTAAAACT
* * *
1474235 ATATATTATATATGTTTTTAAAAATGTTTTAAAATT
1 ATATATTATATA--TTTTCAAAAATATTTTAAAACT
* *
1474271 ATATATTATATATATTTTCAAAAAAAATTTCAAAACT
1 ATATA-T-TATATATTTTC-AAAAATATTTTAAAACT
* *
1474308 ACATATTATATAAGTTTTC-AAAATGATTTCAAAACT
1 ATATATTATAT-A-TTTTCAAAAAT-ATTTTAAAACT
*
1474344 ATATATTATATAAGTTTTC-AAAATGATTTGAAAACT
1 ATATATTATAT-A-TTTTCAAAAAT-ATTTTAAAACT
* *
1474380 ATATATTATACAAATTTTC-AAAATGATTTCAAAACT
1 ATATATTAT--ATATTTTCAAAAAT-ATTTTAAAACT
*
1474416 ATATATTATATAAGTTTT-TAAAATGATTTTAAAA--
1 ATATATTATAT-A-TTTTCAAAAAT-ATTTTAAAACT
* * * *
1474450 ACTATATTATATA---T-ATATATA-TAT-ATA-T
1 A-TATATTATATATTTTCAAAAATATTTTAAAACT
* *
1474478 ATATA-TATATATATTC-AAAATGTTTTTAAAAACT
1 ATATATTATATATTTTCAAAAAT-ATTTT-AAAACT
* *
1474512 ATATTATATATATTTTTTCAAAATTCATTTGT-AAACTAT
1 ATA-TAT-TATATATTTTCAAAAAT-ATTT-TAAAAC--T
*
1474551 ATAATATCTATATATTTTCAAAAATCATTTTCAAAGCT
1 AT-ATAT-TATATATTTTCAAAAAT-ATTTT-AAAACT
* * *
1474589 ATATAATATATATATTTTTAAAAACCGATTTTTAAAC-
1 ATAT-AT-TATATATTTTCAAAAA--TATTTTAAAACT
* *
1474626 ATTATATTATATGTTTTCAAAAACCGT-TTTCTAAAAAATT
1 A-TATATTATATATTTTCAAAAA---TATTT-T--AAAACT
1474666 ATATATTATAT-TTTTCAAAAATATTTTCAAAA
1 ATATATTATATATTTTCAAAAATATTTT-AAAA
1474698 ACCATACTAT
Statistics
Matches: 469, Mismatches: 51, Indels: 98
0.76 0.08 0.16
Matches are distributed among these distances:
26 6 0.01
27 6 0.01
28 3 0.01
29 5 0.01
30 4 0.01
31 2 0.00
33 2 0.00
34 36 0.08
35 62 0.13
36 186 0.40
37 46 0.10
38 61 0.13
39 45 0.10
40 5 0.01
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATTATATATTTTCAAAAATATTTTAAAACT
Found at i:1474314 original size:108 final size:109
Alignment explanation
Indices: 1474123--1474467 Score: 452
Period size: 108 Copynumber: 3.2 Consensus size: 109
1474113 AATATTTCCA
* * *
1474123 AAAACTATATAATT-TATATATTTTCAAAAATATTTTAAAACTATATATTATATAT-TTTT-AAA
1 AAAACTATAT-ATTATATATGTTTTTAAAAATGTTTTAAAACTATATATTATATATATTTTCAAA
*
1474185 AATGTTTTCAAAACTATATATTATAT-AGTTTTCAAAAATG-TTTT
65 AATGATTTCAAAACTATATATTATATAAGTTTTC-AAAATGATTTT
*
1474229 AAAACTATATATTATATATGTTTTTAAAAATGTTTTAAAATTATATATTATATATATTTTCAAAA
1 AAAACTATATATTATATATGTTTTTAAAAATGTTTTAAAACTATATATTATATATATTTTCAAAA
** * *
1474294 AAAATTTCAAAACTACATATTATATAAGTTTTCAAAATGATTTC
66 ATGATTTCAAAACTATATATTATATAAGTTTTCAAAATGATTTT
* * * * *
1474338 AAAACTATATATTATATAAG-TTTTCAAAATGATTTGAAAACTATATATTATACAAATTTTC-AA
1 AAAACTATATATTATATATGTTTTTAAAAATG-TTTTAAAACTATATATTATATATATTTTCAAA
*
1474401 AATGATTTCAAAACTATATATTATATAAGTTTTTAAAATGATTTT
65 AATGATTTCAAAACTATATATTATATAAGTTTTCAAAATGATTTT
1474446 AAAAACTATATTATATATATAT
1 -AAAACTATA-TAT-TATATAT
1474468 ATATATATAT
Statistics
Matches: 209, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
105 3 0.01
106 47 0.22
107 4 0.02
108 83 0.40
109 63 0.30
110 3 0.01
111 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (109 bp):
AAAACTATATATTATATATGTTTTTAAAAATGTTTTAAAACTATATATTATATATATTTTCAAAA
ATGATTTCAAAACTATATATTATATAAGTTTTCAAAATGATTTT
Found at i:1474464 original size:2 final size:2
Alignment explanation
Indices: 1474452--1474491 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1474442 TTTTAAAAAC
1474452 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1474492 TCAAAATGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1474480 original size:96 final size:96
Alignment explanation
Indices: 1474379--1474565 Score: 215
Period size: 96 Copynumber: 2.0 Consensus size: 96
1474369 ATTTGAAAAC
*
1474379 TATATAT-TATACAAATTTTCAAAATGATTTC-AAAACTATA-TATTATATAAGTTTTT-AAAA-
1 TATATATATATACAAATATTCAAAATGATTTCAAAAACTATATTA-TATAT-AGTTTTTCAAAAT
* *
1474439 TGATTT-TAAAAACTATATTATATATATATATATA
64 TCATTTGT--AAACTATATAATATATATATATATA
* * * * *
1474473 TATATATATATATATATATTCAAAATGTTTTTAAAAACTATATTATATATATTTTTTCAAAATTC
1 TATATATATATACAAATATTCAAAATGATTTCAAAAACTATATTATATATAGTTTTTCAAAATTC
*
1474538 ATTTGTAAACTATATAATATCTATATAT
66 ATTTGTAAACTATATAATATATATATAT
1474566 TTTCAAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
94 7 0.09
95 25 0.32
96 38 0.49
97 7 0.09
98 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.47
Consensus pattern (96 bp):
TATATATATATACAAATATTCAAAATGATTTCAAAAACTATATTATATATAGTTTTTCAAAATTC
ATTTGTAAACTATATAATATATATATATATA
Found at i:1474572 original size:39 final size:38
Alignment explanation
Indices: 1474471--1474612 Score: 141
Period size: 39 Copynumber: 3.7 Consensus size: 38
1474461 TATATATATA
*
1474471 TATATATATATATATATATATTCAAAATGT--TTTTAAAAAC
1 TATATA-ATATATATATATTTTCAAAAT-TCATTTT--AAAC
*
1474511 TATAT--TATATATATTTTTTCAAAATTCATTTGTAAAC
1 TATATAATATATATATATTTTCAAAATTCATTT-TAAAC
* *
1474548 TATATAATATCTATATATTTTCAAAAATCATTTTCAAAGC
1 TATATAATATATATATATTTTCAAAATTCATTTT-AAA-C
*
1474588 TATATAATATATATAT-TTTTAAAAA
1 TATATAATATATATATATTTTCAAAA
1474613 CCGATTTTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
36 1 0.01
37 27 0.31
38 4 0.05
39 35 0.40
40 21 0.24
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (38 bp):
TATATAATATATATATATTTTCAAAATTCATTTTAAAC
Found at i:1474637 original size:38 final size:36
Alignment explanation
Indices: 1474500--1474686 Score: 119
Period size: 38 Copynumber: 4.9 Consensus size: 36
1474490 ATTCAAAATG
* * **
1474500 TTTTTAAAAACTATATTATATATATTTTTTCAAAATTCA
1 TTTTTAAACATTATA-TATATATA-TTTTT-AAAAACCA
* * * *
1474539 TTTGTAAACTATATAATATCTATATATTTTCAAAAATCA
1 TTTTTAAAC-AT-T-ATATATATATATTTTTAAAAACCA
*
1474578 TTTTCAAAGC-TATATAATATATATATTTTTAAAAACCGA
1 TTTTTAAA-CAT-TAT-ATATATATATTTTTAAAAACC-A
* * *
1474617 TTTTTAAACATTATAT-TATATGTTTTCAAAAACCG
1 TTTTTAAACATTATATATATATATTTTTAAAAACCA
*
1474652 TTTTCTAAAAAATTATATAT-TATATTTTTCAAAAA
1 TTTT-T-AAACATTATATATATATATTTTT-AAAAA
1474687 TATTTTCAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 23
0.74 0.11 0.14
Matches are distributed among these distances:
35 4 0.03
36 17 0.14
37 21 0.18
38 31 0.26
39 29 0.24
40 6 0.05
41 8 0.07
42 3 0.03
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (36 bp):
TTTTTAAACATTATATATATATATTTTTAAAAACCA
Found at i:1474667 original size:37 final size:37
Alignment explanation
Indices: 1474500--1474686 Score: 118
Period size: 39 Copynumber: 4.9 Consensus size: 37
1474490 ATTCAAAATG
* **
1474500 TTTTTAAAAACTATATTATATATATTTTTTCAAAATTC-A
1 TTTTTAAAAATTATA-TAT-TATA-TTTTTCAAAAACCGA
* * *
1474539 TTTGT-AAACTATATAATATCTATATATTTTCAAAAATC-A
1 TTTTTAAAAAT-TAT-ATAT-TATAT-TTTTCAAAAACCGA
* **
1474578 TTTTCAAAGCTATATAATATATATATTTTT-AAAAACCGA
1 TTTTTAAAAAT-TAT-ATAT-TATATTTTTCAAAAACCGA
*
1474617 TTTTTAAACA-T-TATATTATATGTTTTCAAAAACCG-
1 TTTTTAAAAATTATATATTATAT-TTTTCAAAAACCGA
1474652 TTTTCTAAAAAATTATATATTATATTTTTCAAAAA
1 TTTT-T-AAAAATTATATATTATATTTTTCAAAAA
1474687 TATTTTCAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
34 5 0.04
35 12 0.10
36 10 0.08
37 5 0.04
38 21 0.17
39 51 0.41
40 19 0.15
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (37 bp):
TTTTTAAAAATTATATATTATATTTTTCAAAAACCGA
Found at i:1475536 original size:86 final size:85
Alignment explanation
Indices: 1475323--1475559 Score: 294
Period size: 86 Copynumber: 2.8 Consensus size: 85
1475313 ATATGTCATC
* * * *
1475323 GAGCTAAATGGAATCGAACTCGATAGTTTTTTTTGACAAATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGATGGTTTTTTTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
1475388 TGTAAATTTGATATGTCCTT
66 TGTAAATTTGATAGGTCCTT
* * * * * * **
1475408 GAGCTGCATGTAATCGAACTCGAAGGTTTTTTCCTAACAGATAGCCTTTTTTTCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGATGGTTTTTT-TTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
1475473 CTGTAAATTTGATAGGTTCTT
65 CTGTAAATTTGATAGGTCCTT
* * * *
1475494 GAGTTGAATGTAATCGAACTCGATGGTTTTTTGTTGATAGATAGCCCTTATCGCTTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGATGGTTTTTT-TTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1475559 C
65 C
1475560 CATAATAGGC
Statistics
Matches: 125, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 27 0.22
86 98 0.78
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGATGGTTTTTTTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATAGGTCCTT
Found at i:1487077 original size:15 final size:16
Alignment explanation
Indices: 1487038--1487079 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1487028 TTGTTTCAAC
*
1487038 ATTTTGAATTGTTTGA
1 ATTTTGGATTGTTTGA
*
1487054 TTTTGTGGATTG-TTGA
1 ATTT-TGGATTGTTTGA
1487070 ATTTTGGATT
1 ATTTTGGATT
1487080 TATGGATGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (16 bp):
ATTTTGGATTGTTTGA
Found at i:1487085 original size:23 final size:25
Alignment explanation
Indices: 1487041--1487086 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
1487031 TTTCAACATT
* *
1487041 TTGAATTGTTTGATTTTGTGGATTG
1 TTGAATTGTTGGATTTTATGGATTG
1487066 TTGAATT-TTGGA-TTTATGGAT
1 TTGAATTGTTGGATTTTATGGAT
1487087 GGTGTGAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 4 0.21
25 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (25 bp):
TTGAATTGTTGGATTTTATGGATTG
Found at i:1490699 original size:9 final size:9
Alignment explanation
Indices: 1490685--1490798 Score: 56
Period size: 9 Copynumber: 12.3 Consensus size: 9
1490675 AATAAGTAGG
1490685 AAAAAATAA
1 AAAAAATAA
1490694 AAAAAATAA
1 AAAAAATAA
*
1490703 TATAATAAT-A
1 -A-AAAAATAA
*
1490713 ATAAAATAA
1 AAAAAATAA
*
1490722 ATAAAA-AA
1 AAAAAATAA
*
1490730 GAAAAATAA
1 AAAAAATAA
1490739 AATTCAGTAAA-AA
1 AA---A--AAATAA
*
1490752 GAAAAATAA
1 AAAAAATAA
*
1490761 TAAAAATAA
1 AAAAAATAA
*
1490770 AGAAAAT-A
1 AAAAAATAA
*
1490778 AAAAACTAA
1 AAAAAATAA
*
1490787 ATAAAATAA
1 AAAAAATAA
1490796 AAA
1 AAA
1490799 TAAAAAAGGG
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
8 19 0.24
9 45 0.57
10 3 0.04
11 5 0.06
12 1 0.01
13 3 0.04
14 3 0.04
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (9 bp):
AAAAAATAA
Found at i:1490712 original size:11 final size:11
Alignment explanation
Indices: 1490670--1490741 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
1490660 TAGATAGTAA
1490670 AATAAAATAAGT
1 AATAAAATAA-T
**
1490682 AGGAAAA-AAT
1 AATAAAATAAT
1490692 AA-AAAA-AAT
1 AATAAAATAAT
*
1490701 AATATAATAAT
1 AATAAAATAAT
1490712 AATAAAATAAAT
1 AATAAAAT-AAT
* *
1490724 AA-AAAAGAAA
1 AATAAAATAAT
1490734 AATAAAAT
1 AATAAAAT
1490742 TCAGTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
9 9 0.19
10 9 0.19
11 20 0.42
12 10 0.21
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:1490737 original size:22 final size:22
Alignment explanation
Indices: 1490686--1490792 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
1490676 ATAAGTAGGA
* * *
1490686 AAAAATAAAAAAAATAATATAAT
1 AAAAATAAAATAAATAA-AAAAG
*
1490709 AATAATAAAATAAATAAAAAAG
1 AAAAATAAAATAAATAAAAAAG
* *
1490731 AAAAATAAAATTCAGT-AAAAAG
1 AAAAATAAAA-TAAATAAAAAAG
1490753 AAAAATAATAA-AAATAAAGAAA-
1 AAAAATAA-AATAAATAAA-AAAG
* *
1490775 ATAAA-AAACTAAATAAAA
1 AAAAATAAAATAAATAAAA
1490793 TAAAAATAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 32 0.47
23 23 0.34
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (22 bp):
AAAAATAAAATAAATAAAAAAG
Found at i:1490803 original size:53 final size:56
Alignment explanation
Indices: 1490686--1490805 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 56
1490676 ATAAGTAGGA
*
1490686 AAAAATAAAAAAAATAATATAATAATAATAAAATAAATAAAAAAGAAAAATAAAAT
1 AAAAATAAAAAAAATAATATAATAAAAATAAAATAAATAAAAAAGAAAAATAAAAT
** * * **
1490742 -TCAGTAAAAAGAA-AA-ATAATAAAAATAAAGA-AAATAAAAAA-CTAAATAAAAT
1 AAAAATAAAAAAAATAATATAATAAAAATAAA-ATAAATAAAAAAGAAAAATAAAAT
1490794 AAAAATAAAAAA
1 AAAAATAAAAAA
1490806 GGGCTAAATT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
52 9 0.18
53 30 0.59
54 3 0.06
55 9 0.18
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (56 bp):
AAAAATAAAAAAAATAATATAATAAAAATAAAATAAATAAAAAAGAAAAATAAAAT
Found at i:1490907 original size:3 final size:3
Alignment explanation
Indices: 1490899--1490959 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
1490889 AGGTTCAAAT
* *
1490899 TAA TAA TAA CTAA -AA TAA TAA TAA AAA TAA TAA TAA AAGA TAAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA
*
1490946 TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TA
1490960 TATTATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 39 0.81
4 6 0.12
5 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:1490945 original size:17 final size:16
Alignment explanation
Indices: 1490912--1490976 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 16
1490902 TAATAACTAA
*
1490912 AATAATAATAA-AAAT
1 AATAATAAAAATAAAT
1490927 AATAATAAAAGATAAAT
1 AATAATAAAA-ATAAAT
1490944 AATAATAAAAATAATAT
1 AATAATAAAAATAA-AT
1490961 ATTATATATAAAAATA
1 A--ATA-ATAAAAATA
1490977 TTTCCAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
15 9 0.21
16 5 0.12
17 17 0.40
19 3 0.07
20 9 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AATAATAAAAATAAAT
Found at i:1490991 original size:23 final size:24
Alignment explanation
Indices: 1490965--1491011 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1490955 TAATATATTA
1490965 TATATAA-AAATATTTCCAAAAAT
1 TATATAATAAATATTTCCAAAAAT
* *
1490988 TATATAATATATATTTTCAAAAAT
1 TATATAATAAATATTTCCAAAAAT
1491012 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAATAAATATTTCCAAAAAT
Found at i:1491031 original size:73 final size:70
Alignment explanation
Indices: 1490954--1491326 Score: 297
Period size: 73 Copynumber: 5.1 Consensus size: 70
1490944 AATAATAAAA
1490954 ATAATATATTATATATAAAAATATTTCCAAAAAT-TATATAATATATATTTTCAAAAATATTTTA
1 ATAATATATT-T-T-TAAAAATATTT-CAAAAATATATATAATATATATTTTCAAAAATATTTTA
*
1491018 AAATTATAT
62 AAACTATAT
* * *
1491027 ATAATATATTTTTAAAAATGTTTTCAAAACTATATAT--TATATAGTTTTCAAAAATGTTTTAAA
1 ATAATATATTTTTAAAAAT-ATTTCAAAAATATATATAATATATA-TTTTCAAAAATATTTTAAA
1491090 ACTATAT
64 ACTATAT
* * * * * *
1491097 ATTATATATGTTTTCAAAAATGTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAA
1 ATAATATAT-TTTT-AAAAATATTTCAAAAATATATATAATATATATTTTCAAAAATATTTT-AA
* *
1491162 ATCTATGT
63 AACTATAT
** * * * * * *
1491170 ATTGTATAAGTTTTCAAAATGATTTCAAAACTATATATTATATAAATTTTCAAAAATAATTTCAA
1 ATAATAT-ATTTTTAAAAAT-ATTTCAAAAATATATATAATATATATTTTCAAAAAT-ATTTTAA
1491235 AACTATAT
63 AACTATAT
* * * * * * *
1491243 ATTATATAAGTTTTCAAAATGATTTCAAAACTATATATTATATA-AGTTTT-TAAAATGTTTTCA
1 ATAATAT-ATTTTTAAAAAT-ATTTCAAAAATATATATAATATATA-TTTTCAAAAATATTTT--
1491306 AAAACTATAAT
61 AAAACTAT-AT
1491317 ATATATATAT
1 ATA-ATATAT
1491327 ATATATATAT
Statistics
Matches: 259, Mismatches: 25, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
69 6 0.02
70 45 0.17
71 32 0.12
72 34 0.13
73 129 0.50
74 9 0.03
75 4 0.02
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (70 bp):
ATAATATATTTTTAAAAATATTTCAAAAATATATATAATATATATTTTCAAAAATATTTTAAAAC
TATAT
Found at i:1491098 original size:37 final size:35
Alignment explanation
Indices: 1490983--1491325 Score: 372
Period size: 36 Copynumber: 9.5 Consensus size: 35
1490973 AATATTTCCA
* * *
1490983 AAAATTATATAATATATA-TTTTCAAAAATATTTT
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTT
* * *
1491017 AAAATTATATATAATATA-TTTTTAAAAATGTTTT
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTT
1491051 CAAAACTATATATTATATAGTTTTCAAAAATGTTTT
1 -AAAACTATATATTATATAGTTTTCAAAAATGTTTT
*
1491087 AAAACTATATATTATATATGTTTTCAAAAATGTTTC
1 AAAACTATATATTATATA-GTTTTCAAAAATGTTTT
1491123 AAAACTATATATTATATATGTTTTCAAAAATGTTTT
1 AAAACTATATATTATATA-GTTTTCAAAAATGTTTT
* * * *
1491159 CAAATCTATGTATTGTATAAGTTTTC-AAAATGATTTC
1 -AAAACTATATATTATAT-AGTTTTCAAAAATG-TTTT
* * *
1491196 AAAACTATATATTATATAAATTTTCAAAAATAATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAAT-GTTTT
*
1491233 AAAACTATATATTATATAAGTTTTC-AAAATGATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAATG-TTTT
*
1491269 AAAACTATATATTATATAAGTTTT-TAAAATGTTTT
1 AAAACTATATATTATAT-AGTTTTCAAAAATGTTTT
1491304 CAAAAACTATAATATATATATA
1 --AAAACTAT-ATAT-TATATA
1491326 TATATATATA
Statistics
Matches: 274, Mismatches: 21, Indels: 24
0.86 0.07 0.08
Matches are distributed among these distances:
34 30 0.11
35 37 0.14
36 132 0.48
37 64 0.23
38 6 0.02
39 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
AAAACTATATATTATATAGTTTTCAAAAATGTTTT
Found at i:1491121 original size:12 final size:12
Alignment explanation
Indices: 1491104--1491162 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
1491094 TATATTATAT
1491104 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1491116 ATG-TTTCAAAA
1 ATGTTTTCAAAA
* * * *
1491127 CTATATATT-ATAT
1 --ATGTTTTCAAAA
1491140 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1491152 ATGTTTTCAAA
1 ATGTTTTCAAA
1491163 TCTATGTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
11 13 0.37
12 16 0.46
13 4 0.11
14 2 0.06
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:1491366 original size:46 final size:47
Alignment explanation
Indices: 1491294--1491394 Score: 166
Period size: 50 Copynumber: 2.1 Consensus size: 47
1491284 ATAAGTTTTT
*
1491294 AAAATGTTTTCAAAAACTATAATATATATATATATATATATATATTC
1 AAAATGTGTTCAAAAACTATAATATATATATATATATATATATATTC
1491341 AAAATGTGTTCAAAAACTCTATATATATATATATATATATATATATATTC
1 AAAATGTGTTCAAAAA--CTATA-ATATATATATATATATATATATATTC
1491391 AAAA
1 AAAA
1491395 ATCATTTGCA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
47 15 0.30
49 5 0.10
50 30 0.60
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.41
Consensus pattern (47 bp):
AAAATGTGTTCAAAAACTATAATATATATATATATATATATATATTC
Found at i:1491367 original size:2 final size:2
Alignment explanation
Indices: 1491360--1491388 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1491350 TCAAAAACTC
1491360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1491389 TCAAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1491408 original size:50 final size:48
Alignment explanation
Indices: 1491302--1491425 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 48
1491292 TTAAAATGTT
* *
1491302 TTCAAAA-ACTATAATATATATATATATATATATATATTCAAAATGTG
1 TTCAAAACTCTATAATATATATATATATATATATATATTCAAAATATG
1491349 TTCAAAAACTCTATATATATATATATATATATATATATATTCAAAAATCAT-
1 TTC-AAAACTCTATA-ATATATATATATATATATATATATTC-AAAAT-ATG
* *
1491400 TTGC-AAACTATATAATATCTATATAT
1 TT-CAAAACTCTATAATATATATATAT
1491426 TTTCAAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
47 3 0.04
48 4 0.06
49 16 0.24
50 35 0.52
51 7 0.10
52 2 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (48 bp):
TTCAAAACTCTATAATATATATATATATATATATATATTCAAAATATG
Found at i:1491423 original size:39 final size:41
Alignment explanation
Indices: 1491368--1491464 Score: 144
Period size: 40 Copynumber: 2.4 Consensus size: 41
1491358 TCTATATATA
1491368 TATATATATATATATATATATTC-AAAAATCATTTGCAAA-C
1 TATATA-ATATATATATATATTCAAAAAATCATTTGCAAAGC
* * *
1491408 TATATAATATCTATATATTTTCAAAAAATCATTTTCAAAGC
1 TATATAATATATATATATATTCAAAAAATCATTTGCAAAGC
1491449 TATATAATATATATAT
1 TATATAATATATATAT
1491465 TTTTAAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.27
40 21 0.41
41 16 0.31
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (41 bp):
TATATAATATATATATATATTCAAAAAATCATTTGCAAAGC
Found at i:1491465 original size:39 final size:38
Alignment explanation
Indices: 1491370--1491473 Score: 138
Period size: 39 Copynumber: 2.7 Consensus size: 38
1491360 TATATATATA
*
1491370 TATATATATATATATATATTC-AAAAATCATTTGCAAAC
1 TATATA-ATATATATATTTTCAAAAAATCATTTGCAAAC
*
1491408 TATATAATATCTATATATTTTCAAAAAATCATTTTCAAAGC
1 TATATAATA--TATATATTTTCAAAAAATCATTTGCAAA-C
*
1491449 TATATAATATATATATTTTTAAAAA
1 TATATAATATATATATTTTCAAAAA
1491474 CCTATTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
37 3 0.05
38 6 0.10
39 25 0.42
40 15 0.25
41 10 0.17
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (38 bp):
TATATAATATATATATTTTCAAAAAATCATTTGCAAAC
Found at i:1491481 original size:39 final size:37
Alignment explanation
Indices: 1491370--1491515 Score: 128
Period size: 39 Copynumber: 4.0 Consensus size: 37
1491360 TATATATATA
* *
1491370 TATATATATATATATATATTCAAAAA-TCATTTGCAAAC
1 TATATA-ATATATATATTTTCAAAAACT-ATTTTCAAAC
*
1491408 TATATAATATCTATATATTTTCAAAAAATCATTTTCAAAGC
1 TATATAATA--TATATATTTTCAAAAACT-ATTTTCAAA-C
* *
1491449 TATATAATATATATATTTTTAAAAACCTATTTTTAAAC
1 TATATAATATATATATTTTCAAAAA-CTATTTTCAAAC
1491487 -ATAT--TATAT-T-TTTT-AAAAA-TATTTTCAAA
1 TATATAATATATATATTTTCAAAAACTATTTTCAAA
1491516 AACTATACTA
Statistics
Matches: 97, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
30 9 0.09
32 5 0.05
33 4 0.04
34 1 0.01
35 5 0.05
37 7 0.07
38 7 0.07
39 38 0.39
40 11 0.11
41 10 0.10
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (37 bp):
TATATAATATATATATTTTCAAAAACTATTTTCAAAC
Found at i:1494475 original size:19 final size:17
Alignment explanation
Indices: 1494451--1494514 Score: 69
Period size: 16 Copynumber: 3.8 Consensus size: 17
1494441 TTTACTTAAT
1494451 TGTTGACTTTGACCTAGA
1 TGTTGACTTTGACC-AGA
1494469 CTGTTGACTTTGACCAGA
1 -TGTTGACTTTGACCAGA
*
1494487 -GTTGAATTTGACCA-A
1 TGTTGACTTTGACCAGA
* *
1494502 AGTTAACTTTGAC
1 TGTTGACTTTGAC
1494515 TTCGACCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.02
16 23 0.56
18 3 0.07
19 14 0.34
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (17 bp):
TGTTGACTTTGACCAGA
Found at i:1494703 original size:99 final size:99
Alignment explanation
Indices: 1494532--1494729 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
1494522 AAAAAGTCAA
1494532 AATTTCTGTAAAGTTATATTTTATGTTTTTCAACTTCTTGAGTCAAGATCCAAAGTCCGTTTTTC
1 AATTTCTGTAAAGTTATATTTTATGTTTTTCAACTTCTTGAGTCAAGATCCAAAGTCCGTTTTTC
1494597 CAAATTCTAACCCGAAAGCCTCCAAATCAAATGT
66 CAAATTCTAACCCGAAAGCCTCCAAATCAAATGT
1494631 AATTTCTGTAAAGTTATATTTTATGTTTTTCAACTTCTTGAGTCAAGATCCAAAGTCCGTTTTTC
1 AATTTCTGTAAAGTTATATTTTATGTTTTTCAACTTCTTGAGTCAAGATCCAAAGTCCGTTTTTC
1494696 CAAATTCTAACCCGAAAGCCTCCAAATCAAATGT
66 CAAATTCTAACCCGAAAGCCTCCAAATCAAATGT
1494730 TGAAACCTGG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (99 bp):
AATTTCTGTAAAGTTATATTTTATGTTTTTCAACTTCTTGAGTCAAGATCCAAAGTCCGTTTTTC
CAAATTCTAACCCGAAAGCCTCCAAATCAAATGT
Found at i:1498071 original size:14 final size:14
Alignment explanation
Indices: 1498049--1498089 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
1498039 TTGAGTTAAC
*
1498049 CTCAACCGAGTCAA
1 CTCATCCGAGTCAA
1498063 CTCATCCGAGTCAA
1 CTCATCCGAGTCAA
*
1498077 CTCATCTGAGTCA
1 CTCATCCGAGTCA
1498090 GCATGTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (14 bp):
CTCATCCGAGTCAA
Found at i:1504623 original size:17 final size:17
Alignment explanation
Indices: 1504588--1504635 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1504578 AAAGAATCAG
*
1504588 TAAAAGAAACAGTACAA
1 TAAAAGAAATAGTACAA
*
1504605 TAAGAA-AAATAGTATAA
1 TAA-AAGAAATAGTACAA
1504622 TAAAAGAAATAGTA
1 TAAAAGAAATAGTA
1504636 AGGTGAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (17 bp):
TAAAAGAAATAGTACAA
Found at i:1523039 original size:94 final size:94
Alignment explanation
Indices: 1522885--1523072 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
1522875 CGCTCTTCTG
1522885 TATTATAATTACGCTACAACACTTTCACTAATGGAACAAAATTATTTTTGAAGCATTTTCACATC
1 TATTATAATTACGCTACAACACTTTCACTAATGGAACAAAATTATTTTTGAAGCATTTTCACATC
1522950 ACTAGCCAAGATCTTAATCGATTCTTCCT
66 ACTAGCCAAGATCTTAATCGATTCTTCCT
1522979 TATTATAATTACGCTACAACACTTTCACTAATGGAACAAAATTATTTTTGAAGCATTTTCACATC
1 TATTATAATTACGCTACAACACTTTCACTAATGGAACAAAATTATTTTTGAAGCATTTTCACATC
*
1523044 ACTAGCCAAGATCTTAATCGTTTCTTCCT
66 ACTAGCCAAGATCTTAATCGATTCTTCCT
1523073 CATACGAAAG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (94 bp):
TATTATAATTACGCTACAACACTTTCACTAATGGAACAAAATTATTTTTGAAGCATTTTCACATC
ACTAGCCAAGATCTTAATCGATTCTTCCT
Found at i:1530358 original size:23 final size:23
Alignment explanation
Indices: 1530326--1530432 Score: 94
Period size: 23 Copynumber: 4.7 Consensus size: 23
1530316 TTAGTGTAGA
*
1530326 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* **
1530349 GGGAACCGATTCCCCTTTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* *
1530372 GGGAACAGA-ATCCCCCTTTGAAG
1 GGGAACCGATA-CCCCCCTTGAAG
* *
1530395 GGGAACCGA-A-TCCCCTCTGTAG
1 GGGAACCGATACCCCCCT-TGAAG
*
1530417 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
1530433 TGGGGTTCTG
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.06
22 12 0.18
23 48 0.72
24 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATACCCCCCTTGAAG
Found at i:1530418 original size:22 final size:22
Alignment explanation
Indices: 1530338--1530421 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 22
1530328 GAATCGATAC
* *
1530338 CCCCCTTGAAGGGGAACCGATT
1 CCCCTTTGAAGGGGAACCGAAT
*
1530360 CCCCTTTTGAAGGGGAACAGAAT
1 CCCC-TTTGAAGGGGAACCGAAT
1530383 CCCCCTTTGAAGGGGAACCGAAT
1 -CCCCTTTGAAGGGGAACCGAAT
* *
1530406 CCCCTCTGTAGGGGAA
1 CCCCTTTGAAGGGGAA
1530422 TCGATACCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
22 18 0.33
23 32 0.59
24 4 0.07
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (22 bp):
CCCCTTTGAAGGGGAACCGAAT
Found at i:1549003 original size:2 final size:2
Alignment explanation
Indices: 1548996--1549037 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1548986 ATTCTCTTGG
1548996 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
1549038 ACTTACCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1550129 original size:16 final size:17
Alignment explanation
Indices: 1550088--1550129 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
1550078 CCTTTCATGC
1550088 AAAACCCACAAGTTATTA
1 AAAACCCACAAGTTA-TA
*
1550106 ACAACCCACAAGTTA-A
1 AAAACCCACAAGTTATA
1550122 AAAACCCA
1 AAAACCCA
1550130 AATATTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
18 14 0.64
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAACCCACAAGTTATA
Found at i:1550310 original size:17 final size:17
Alignment explanation
Indices: 1550288--1550325 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1550278 AAAGATTTAT
1550288 AATTCGTTCTTGATTCG
1 AATTCGTTCTTGATTCG
*
1550305 AATTCGTTCTTGATTTG
1 AATTCGTTCTTGATTCG
1550322 AATT
1 AATT
1550326 TGATGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (17 bp):
AATTCGTTCTTGATTCG
Found at i:1552251 original size:11 final size:11
Alignment explanation
Indices: 1552235--1552259 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1552225 AAATAAACTC
1552235 CTATAATAGCG
1 CTATAATAGCG
1552246 CTATAATAGCG
1 CTATAATAGCG
1552257 CTA
1 CTA
1552260 GGTTCGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (11 bp):
CTATAATAGCG
Found at i:1554226 original size:15 final size:16
Alignment explanation
Indices: 1554199--1554233 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1554189 GCTTTCAAAA
1554199 TTGAAAAATGAAAATT
1 TTGAAAAATGAAAATT
*
1554215 TTGAAAAA-GAAATTT
1 TTGAAAAATGAAAATT
1554230 TTGA
1 TTGA
1554234 TTTGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (16 bp):
TTGAAAAATGAAAATT
Found at i:1561813 original size:23 final size:23
Alignment explanation
Indices: 1561781--1561862 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 23
1561771 TTGGTGCAGA
*
1561781 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* * *
1561804 GGGAACCGATTCTCCCTTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* * *
1561827 GGGAACTGAT-TCCCCC-TGTAG
1 GGGAACCGATACCCCCCTTGAAG
*
1561848 GGGAATCGATACCCC
1 GGGAACCGATACCCC
1561863 TTGGGGGTTC
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 12 0.26
22 6 0.13
23 28 0.61
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (23 bp):
GGGAACCGATACCCCCCTTGAAG
Found at i:1563467 original size:18 final size:18
Alignment explanation
Indices: 1563432--1563470 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1563422 AGAGCAGCAC
*
1563432 GAGGAACAAGCACCTCCA
1 GAGGAACAACCACCTCCA
* *
1563450 GAGGAACAACCTCGTCCA
1 GAGGAACAACCACCTCCA
1563468 GAG
1 GAG
1563471 TATCAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.31, G:0.26, T:0.08
Consensus pattern (18 bp):
GAGGAACAACCACCTCCA
Found at i:1564101 original size:49 final size:49
Alignment explanation
Indices: 1564039--1564146 Score: 193
Period size: 49 Copynumber: 2.2 Consensus size: 49
1564029 TTTTAACAAA
1564039 AAGGGGGAG-AAATGTTAAAAGCATTTTAAAGAGGAGTAGTGTTAGAGT
1 AAGGGGGAGTAAATGTTAAAAGCATTTTAAAGAGGAGTAGTGTTAGAGT
*
1564087 AAGGGGGAGTAAATGTTAAAAGCGTTTTAAAGAGGAGTAGTGTTAGAGT
1 AAGGGGGAGTAAATGTTAAAAGCATTTTAAAGAGGAGTAGTGTTAGAGT
1564136 AA-GGGGAGTAA
1 AAGGGGGAGTAA
1564147 TTTCAAAACT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
48 18 0.31
49 40 0.69
ACGTcount: A:0.39, C:0.02, G:0.35, T:0.24
Consensus pattern (49 bp):
AAGGGGGAGTAAATGTTAAAAGCATTTTAAAGAGGAGTAGTGTTAGAGT
Found at i:1564600 original size:76 final size:76
Alignment explanation
Indices: 1564464--1564626 Score: 222
Period size: 76 Copynumber: 2.2 Consensus size: 76
1564454 TCCAGAGGGA
* * ***
1564464 ACCGATT-CCCCCTGAATGGTTTGGCTCTGAGAAAAACATAATGCTTGGAGGGAACCGATTCTCC
1 ACCGATTCCCCCCTGAATGGTTTGGCTCGGAGAAAAACAGAATGCTCAAAGGGAACCGATTC-CC
1564528 -CCCAAGGGGGT
65 TCCCAAGGGGGT
* * **
1564539 ACCGATTCCCCCCTGAATGGTTTGGCTCGGAGAAAAATAGAATGCTCAAAGGGTATTGATTCCCT
1 ACCGATTCCCCCCTGAATGGTTTGGCTCGGAGAAAAACAGAATGCTCAAAGGGAACCGATTCCCT
1564604 CCCAAGGGGGT
66 CCCAAGGGGGT
1564615 ACCGATTCCCCC
1 ACCGATTCCCCC
1564627 TGATCAACTG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 9 0.12
76 68 0.88
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (76 bp):
ACCGATTCCCCCCTGAATGGTTTGGCTCGGAGAAAAACAGAATGCTCAAAGGGAACCGATTCCCT
CCCAAGGGGGT
Found at i:1566105 original size:50 final size:50
Alignment explanation
Indices: 1566027--1566371 Score: 340
Period size: 50 Copynumber: 6.9 Consensus size: 50
1566017 AGGTTTTAAT
* * * * * * *
1566027 GATTGACTCATCTACACGAGAAATTCAGGCTGAAGACAACAATACTGAAG
1 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
* * *
1566077 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAGGATGACATTACTAAAT
1 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
* * * * *
1566127 GATTGGCTCCTCTATACGAGAAAGTCAGTTTGAAGATAACACTACTAAAT
1 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
* * * * *
1566177 GATTAACTCCTCTACATGATAAAGTCA-TTTTAAGGATAACATTACTAAAA
1 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAA-GATAACATTACTAAAA
* * * *
1566227 GATT-AGCTCCTCTACATGAGAAAGTCATGTTTAAGATAACATTACTGAAA
1 GATTGA-CTCCTCTACACGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
* * * *
1566277 GTTTGACTCATCTACATC-AAAAAGTCAGTTTG-AGATAACATTACTAAAA
1 GATTGACTCCTCTACA-CGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
* * *
1566326 GATTGACTCCTCTACATGAGAAAGTCGGGTTGAGGATGAA-ATTACT
1 GATTGACTCCTCTACACGAGAAAGTCAGGTTGAAGAT-AACATTACT
1566372 CATTCTCTTA
Statistics
Matches: 246, Mismatches: 41, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
49 47 0.19
50 191 0.78
51 8 0.03
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (50 bp):
GATTGACTCCTCTACACGAGAAAGTCAGGTTGAAGATAACATTACTAAAA
Found at i:1571250 original size:21 final size:21
Alignment explanation
Indices: 1571216--1571255 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1571206 AATAAACACA
*
1571216 ATACAAATGTGAAAAACAAAG
1 ATACAAATGCGAAAAACAAAG
* *
1571237 ATACAAGTGCGAAATACAA
1 ATACAAATGCGAAAAACAA
1571256 GGATGCAGAT
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:0.57, C:0.12, G:0.15, T:0.15
Consensus pattern (21 bp):
ATACAAATGCGAAAAACAAAG
Found at i:1573497 original size:23 final size:21
Alignment explanation
Indices: 1573471--1573513 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1573461 TAGATTTTTA
*
1573471 GACTTTGTTATATTTAGGTATTT
1 GACTTTG-GATATTT-GGTATTT
1573494 GACTTTGGATATTTGGTATT
1 GACTTTGGATATTTGGTATT
1573514 ATAAACCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (21 bp):
GACTTTGGATATTTGGTATTT
Found at i:1577458 original size:19 final size:19
Alignment explanation
Indices: 1577431--1577485 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
1577421 CCTGATTCTA
*
1577431 CATGAGATTATATCCCCTG
1 CATGGGATTATATCCCCTG
** *
1577450 CATGGGATTATATGTCATG
1 CATGGGATTATATCCCCTG
1577469 CATGGGATTATATCCCC
1 CATGGGATTATATCCCC
1577486 ATCTTGATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (19 bp):
CATGGGATTATATCCCCTG
Found at i:1577541 original size:29 final size:29
Alignment explanation
Indices: 1577467--1577555 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
1577457 TTATATGTCA
*
1577467 TGCATGGGATTATATCCCCATCTTGATTC
1 TGCATGGGATTATATCTCCATCTTGATTC
*
1577496 TGCATGGGATT-TGATCTCTATAC-TGATTC
1 TGCATGGGATTAT-ATCTCCAT-CTTGATTC
* *
1577525 TGCATGGGATTATATCTCCTTCATGATTC
1 TGCATGGGATTATATCTCCATCTTGATTC
1577554 TG
1 TG
1577556 TATGTGATCC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.04
29 48 0.92
30 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (29 bp):
TGCATGGGATTATATCTCCATCTTGATTC
Found at i:1581923 original size:86 final size:86
Alignment explanation
Indices: 1581801--1581967 Score: 264
Period size: 86 Copynumber: 1.9 Consensus size: 86
1581791 TATCAATTTT
* *
1581801 ATTAACTGTCATGTCAACACTTCTGTTAAATATTAACTGCAAGTGGCCTAATTGAATGCATTTAA
1 ATTAACTGTCATGTCAACACTTCTATTAAATATTAACGGCAAGTGGCCTAATTGAATGCATTTAA
1581866 ATAGTTGAGTGATTGACAAAA
66 ATAGTTGAGTGATTGACAAAA
* * * *
1581887 ATTAATTGTCACT-TCAACGCTTCTATTAAATGTTAACGGCAAGTGGTCTAATTGAATGCATTTA
1 ATTAACTGTCA-TGTCAACACTTCTATTAAATATTAACGGCAAGTGGCCTAATTGAATGCATTTA
1581951 AATAGTTGAGTGATTGA
65 AATAGTTGAGTGATTGA
1581968 TTGACAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
86 73 0.99
87 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (86 bp):
ATTAACTGTCATGTCAACACTTCTATTAAATATTAACGGCAAGTGGCCTAATTGAATGCATTTAA
ATAGTTGAGTGATTGACAAAA
Found at i:1584597 original size:169 final size:170
Alignment explanation
Indices: 1584317--1584655 Score: 662
Period size: 169 Copynumber: 2.0 Consensus size: 170
1584307 CCTCTCATTC
1584317 GATCTTGTAGAAAATACTTAAGTTAATAAAACATAATATGTTTTATAATCTAAAAAAAAATTATT
1 GATCTTGTAGAAAATACTTAAGTTAATAAAACATAATATGTTTTATAATCTAAAAAAAAATTATT
1584382 GAAAATGCATATAAGCTGTTACCCTCGGGGCAGTTCTCCTATTACCACGTACTTCTCCCTTACAA
66 GAAAATGCATATAAGCTGTTACCCTCGGGGCAGTTCTCCTATTACCACGTACTTCTCCCTTACAA
*
1584447 GTCCTTTCATTGTGACATGGTTTGTCACATTTGGTGCAAT
131 GTCCTTACATTGTGACATGGTTTGTCACATTTGGTGCAAT
1584487 GATCTTGTAGAAAATACTTAAGTTAATAAAACATAATATGTTTTATAATCT-AAAAAAAATTATT
1 GATCTTGTAGAAAATACTTAAGTTAATAAAACATAATATGTTTTATAATCTAAAAAAAAATTATT
1584551 GAAAATGCATATAAGCTGTTACCCTCGGGGCAGTTCTCCTATTACCACGTACTTCTCCCTTACAA
66 GAAAATGCATATAAGCTGTTACCCTCGGGGCAGTTCTCCTATTACCACGTACTTCTCCCTTACAA
1584616 GTCCTTACATTGTGACATGGTTTGTCACATTTGGTGCAAT
131 GTCCTTACATTGTGACATGGTTTGTCACATTTGGTGCAAT
1584656 TCAGTTTCAC
Statistics
Matches: 168, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
169 117 0.70
170 51 0.30
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (170 bp):
GATCTTGTAGAAAATACTTAAGTTAATAAAACATAATATGTTTTATAATCTAAAAAAAAATTATT
GAAAATGCATATAAGCTGTTACCCTCGGGGCAGTTCTCCTATTACCACGTACTTCTCCCTTACAA
GTCCTTACATTGTGACATGGTTTGTCACATTTGGTGCAAT
Found at i:1590582 original size:54 final size:54
Alignment explanation
Indices: 1590500--1590602 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
1590490 CTCCTCCTAC
* *
1590500 ATATGGTGCAGCTTCTTTCAACAGCTCAAAACCCTCCCGTTCTACCAGTCTCCA
1 ATATGGTGCAGCATCTTTCAACAGCTCAAAACCCTCCCATTCTACCAGTCTCCA
* *
1590554 ATATGGTTCAGCATCTTTCAACAGCTCAAAACCGTCCCATTCTACCAGT
1 ATATGGTGCAGCATCTTTCAACAGCTCAAAACCCTCCCATTCTACCAGT
1590603 TTCCCACCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (54 bp):
ATATGGTGCAGCATCTTTCAACAGCTCAAAACCCTCCCATTCTACCAGTCTCCA
Found at i:1596038 original size:182 final size:182
Alignment explanation
Indices: 1595453--1597181 Score: 2030
Period size: 182 Copynumber: 9.3 Consensus size: 182
1595443 GATATAACAT
* * * * * *
1595453 GGTTCCTTCATGATGAGGAAGTCTGACTATCT-AAGGGTGACACTGCTCCTTCACATTGAGGAGA
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAA-GATGACACTGCTCCTTCGCGTTGAGGAGA
* * * * * * * **
1595517 TCGAGTCAATTTGATGTTGAAGACGACATTGCTTATCTGTGTTGAAGAGATCGTGTCGTTTTTTA
65 TCGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGA
* * *
1595582 TTATGACGTTGTTCCTTCATGATGAGGAAATCGGGTCAATCAAGAGATAATTTTGGGACAATAC
130 TTATGACGTTGTTCCTTCGTGATGAGAAAATCGGG----TC-------AATTTGGGGACAATAC
* * * **
1595646 GATTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCTTGTTGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* * * * * *
1595711 CGGGTCAATTTGATGTTGAAGAGGACATTGTTCATCC-CGATGAAGAGATCAAGTCGTTTTCGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
* * * * *
1595775 TATGACGTTGTTCATTTGTGATGAGAAAATCAGGTTAATTTGGGGATAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * * *
1595827 GGTTCATTCGTGATGAGGAAGTTTGATTGTCTGAGGATGACACTGTTCCTTCGCGTTGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* *
1595892 CGGGTCAATTTGATGTTGAAGACAACACTGCTCATCCGCGATGAAGAGATCGAGTCATTTTCGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
* * *
1595957 TATGACGATGTTCCTTCGAGATGAGAAAATTGGGTCAATTTGGGGACAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* *
1596009 AGTTCCTTCGTGATGATGAAGTCTGATTGTCTGAAGATGACACAT-CTCCTTCGCGTTGAGGAGA
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACAC-TGCTCCTTCGCGTTGAGGAGA
* * *
1596073 TCGGGTCAATTTGATGTTGAAGACAACACTCCTCATCCGTGTTGAAGAGATC-ATGTCATTTTCG
65 TCGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGA-GTCATTTTCG
* **
1596137 ATTATGAAGTTGTTCCTTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
129 ATTATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * * * *
1596191 GGTTTCTTCGTGATGAGGAAGTCTGATTGTTTGAAGATGACACT-TTCCTTCGTGTTGAAGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* * * * * *
1596255 CGGGTAAATTTGATGTTGAATACGATACTACTCATCCGTGTTGAAGAGATCGAGTCATTTTTGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
* *
1596320 TATTACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * *
1596372 GGTTCCTTCTTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTAAAGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
** * * *
1596437 CATGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGTTGAAGAGATCGGGTCGTTTTCGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
* * *
1596502 TATGACGTTGTTCATTCGTGATGAGGAAATCGAGTCAATTTGGGGACAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * * **
1596554 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGGCACTGTTCCTTCGTATTGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* * * * **
1596619 CGGGCCAATTTGATGTTGAAGACGACACTACTAATCCGCGATGAAGAGATCGAGTCATTTTTTAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
*
1596684 TATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTAAGAGATAATTTGGGGACAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTC-----------AATTTGGGGACAATAC
* * * * *
1596747 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGGTGACACTGCTCATTCGTGATGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* * * * ** * **
1596812 CTGGT-AGGTTTGATGTTAAAGATGACACTGCTCATCCAAGATGAAGAGATCGGGTCATTTTTTA
66 CGGGTCA-ATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGA
* *
1596876 TTATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATCAAGAGATAATTTGGGGATAATAC
130 TTATGACGTTGTTCCTTCGTGATGAGAAAATCGGG----TC-------AATTTGGGGACAATAC
* * * * * *
1596940 GGTTCCTTCATGATGATGAAATCTGATTGTCTGAAGATGACATTTCTCCTTCACGTTGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
* * * * * *
1597005 CGAGTGAATTTGATGTTGAAGATGACAATGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
*
1597070 TATGACGATGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
131 TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
*
1597122 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAATATGACACTGCTCCTTCGCGTTGAG
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAG
1597182 ACAACATTTC
Statistics
Matches: 1341, Mismatches: 172, Indels: 57
0.85 0.11 0.04
Matches are distributed among these distances:
181 269 0.20
182 607 0.45
183 1 0.00
188 1 0.00
189 2 0.00
192 51 0.04
193 406 0.30
194 2 0.00
197 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (182 bp):
GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGAT
CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTCGAT
TATGACGTTGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
Found at i:1596242 original size:363 final size:364
Alignment explanation
Indices: 1595453--1597181 Score: 2070
Period size: 363 Copynumber: 4.7 Consensus size: 364
1595443 GATATAACAT
* * * * * * * *
1595453 GGTTCCTTCATGATGAGGAAGTCTGACTATCT-AAGGGTGACACTGCTCCTTCACATTGAGGAGA
1 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAA-GATGACACTGTTCCTTCGCGTTGAGGAGA
* * * * * * * *
1595517 TCGAGTCAATTTGATGTTGAAGACGACATTGCTTATCTGTGTTGAAGAGATCGTGTCGTTTTTTA
65 TCGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGA
* *
1595582 TTATGACGTTGTTCCTTCATGATGAGGAAATCGGGTCAATCAAGAGATAATTTTGGGACAATACG
130 TTATGACGTTGTTCCTTCGTGATGAGGAAATCGGG----TC-------AATTTGGGGACAATACG
* * * **
1595647 ATTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCTTGTTGAGGAGATC
184 GTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATC
* * * * * *
1595712 GGGTCAATTTGATGTTGAAGAGGACATTGTTCATCC-CGATGAAGAGATCAAGTCGTTTTCGATT
249 GGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCAGGTCATTTTCGATT
* * * *
1595776 ATGACGTTGTTCATTTGTGATGAGAAAATCAGGTTAATTTGGGGATAATAC
314 ATGACGTTGTTCATTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
* *
1595827 GG-TTCATTCGTGATGAGGAAGTTTGATTGTCTGAGGATGACACTGTTCCTTCGCGTTGAGGAGA
1 GGTTTC-TTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGTTCCTTCGCGTTGAGGAGA
* * *
1595891 TCGGGTCAATTTGATGTTGAAGACAACACTGCTCATCCGCGATGAAGAGATCGAGTCATTTTCGA
65 TCGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGA
* * * * *
1595956 TTATGACGATGTTCCTTCGAGATGAGAAAATTGGGTCAATTTGGGGACAATACAGTTCCTTCGTG
130 TTATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCGTG
*
1596021 ATGATGAAGTCTGATTGTCTGAAGATGACACAT-CTCCTTCGCGTTGAGGAGATCGGGTCAATTT
195 ATGAGGAAGTCTGATTGTCTGAAGATGACAC-TGCTCCTTCGCGTTGAGGAGATCGGGTCAATTT
* * * * *
1596085 GATGTTGAAGACAACACTCCTCATCCGTGTTGAAGAGATCATGTCATTTTCGATTATGAAGTTGT
259 GATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCAGGTCATTTTCGATTATGACGTTGT
*
1596150 TCCTTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
324 TCATTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
* * *
1596191 GGTTTCTTCGTGATGAGGAAGTCTGATTGTTTGAAGATGACACT-TTCCTTCGTGTTGAAGAGAT
1 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGTTCCTTCGCGTTGAGGAGAT
* * * * *
1596255 CGGGTAAATTTGATGTTGAATACGATACTACTCATCCGTGTTGAAGAGATCGAGTCATTTTTGAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGAT
* *
1596320 TATTACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCTTGA
131 TATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCGTGA
* * **
1596385 TGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTAAAGAGATCATGTCAATTTGA
196 TGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATCGGGTCAATTTGA
* * *
1596450 TGTTGAAGACGACACTGCTCATCCGTGTTGAAGAGATCGGGTCGTTTTCGATTATGACGTTGTTC
261 TGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCAGGTCATTTTCGATTATGACGTTGTTC
* *
1596515 ATTCGTGATGAGGAAATCGAGTCAATTTGGGGACAATAC
326 ATTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
* **
1596554 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGGCACTGTTCCTTCGTATTGAGGAGAT
1 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGTTCCTTCGCGTTGAGGAGAT
* * * * *
1596619 CGGGCCAATTTGATGTTGAAGACGACACTACTAATCCGCGATGAAGAGATCGAGTCATTTTTTAT
66 CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGAT
1596684 TATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTAAGAGATAATTTGGGGACAATACGG
131 TATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTC-----------AATTTGGGGACAATACGG
* * * * * *
1596749 TTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGGTGACACTGCTCATTCGTGATGAGGAGATCT
185 TTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATCG
* * * ** * **
1596814 GGT-AGGTTTGATGTTAAAGATGACACTGCTCATCCAAGATGAAGAGATCGGGTCATTTTTTATT
250 GGTCA-ATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCAGGTCATTTTCGATT
* *
1596878 ATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATCAAGAGAT-AATTTGGGGATAATAC
314 ATGACGTTGTTCATTCGTGATGA-G-AA-------AATC-A-AG-TCAATTTGGGGACAATAC
* * * * * *
1596940 GGTTCCTTCATGATGATGAAATCTGATTGTCTGAAGATGACA-TTTCTCCTTCACGTTGAGGAGA
1 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGT-TCCTTCGCGTTGAGGAGA
* * * * * * *
1597004 TCGAGTGAATTTGATGTTGAAGATGACAATGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGA
65 TCGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGA
* *
1597069 TTATGACGATGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCGTG
130 TTATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCGTG
*
1597134 ATGAGGAAGTCTGATTGTCTGAATATGACACTGCTCCTTCGCGTTGAG
195 ATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAG
1597182 ACAACATTTC
Statistics
Matches: 1176, Mismatches: 147, Indels: 63
0.85 0.11 0.05
Matches are distributed among these distances:
362 1 0.00
363 432 0.37
364 217 0.18
365 3 0.00
370 2 0.00
373 2 0.00
374 134 0.11
375 219 0.19
376 1 0.00
377 1 0.00
384 4 0.00
385 2 0.00
386 157 0.13
387 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (364 bp):
GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGTTCCTTCGCGTTGAGGAGAT
CGGGTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGAGTCATTTTTGAT
TATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCGTGA
TGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATCGGGTCAATTTGA
TGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCAGGTCATTTTCGATTATGACGTTGTTC
ATTCGTGATGAGAAAATCAAGTCAATTTGGGGACAATAC
Found at i:1596484 original size:545 final size:548
Alignment explanation
Indices: 1595453--1597181 Score: 2198
Period size: 545 Copynumber: 3.1 Consensus size: 548
1595443 GATATAACAT
* * * * *
1595453 GGTTCCTTCATGATGAGGAAGTCTGACTATCT-AAGGGTGACACTGCTCCTTCACATTGAGGAGA
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAA-GATGACACTGCTCCTTCGCATTGAGGAGA
* * * * * * *
1595517 TCGAGTCAATTTGATGTTGAAGACGACATTGCTTATCTGTGTTGAAGAGATCGTGTCGTTTTTTA
65 TCGGGTCAATTTGATGTTGAAGACGACACTACTAATCCGTGTTGAAGAGATCATGTCATTTTTTA
* *
1595582 TTATGACGTTGTTCCTTCATGATGAGGAAATCGGGTCAATCAAGAGATAATTTTGGGACAATACG
130 TTATGACGTTGTTCCTTCGTGATGAGGAAA----G--AATC-AGAGATAATTTGGGGACAATACG
* *
1595647 ATTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCTTGTTGAGGAGATC
188 GTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCGTGTTGAGGAGATC
* * * * * * * *
1595712 GGGTCAATTTGATGTTGAAGAGGACATTGTTCATCCCGATGAAGAGATCAAGTCGTTTTCGATTA
253 GGGTAAATTTGATGTTGAAGACGACACTGCTCATCCAGATGAAGAGATCGAGTCATTTTTGATTA
* * * * * * *
1595777 TGACGTTGTTCATTTGTGATGAGAAAATCAGGTTAATTTGGGGATAATACGGTTCATTCGTGATG
318 TGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGATAATACGGTTCCTTCATGATG
* * * *
1595842 AGGAAGTTTGATTGTCTGAGGATGACACTGTTCCTTCGCGTTGAGGAGATCGGGTCAATTTGATG
383 AGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATC-AGTCAATTTGATG
* * * *
1595907 TTGAAGACAACACTGCTCATCCGCGATGAAGAGATCGAGTCATTTTCGATTATGACGATGTTCCT
447 TTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGATTATGACGATGTTCCT
* *
1595972 TCGAGATGAGAAAATTGGGTCAATTTGGGGACAATAC
512 TCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * *
1596009 AGTTCCTTCGTGATGATGAAGTCTGATTGTCTGAAGATGACACAT-CTCCTTCGCGTTGAGGAGA
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACAC-TGCTCCTTCGCATTGAGGAGA
* * * **
1596073 TCGGGTCAATTTGATGTTGAAGACAACACTCCTCATCCGTGTTGAAGAGATCATGTCATTTTCGA
65 TCGGGTCAATTTGATGTTGAAGACGACACTACTAATCCGTGTTGAAGAGATCATGTCATTTTTTA
* *
1596138 TTATGAAGTTGTTCCTTCGTGATGA-G-AA-AATCA-AG-TCAATTTGGGGACAATACGGTTTCT
130 TTATGACGTTGTTCCTTCGTGATGAGGAAAGAATCAGAGAT-AATTTGGGGACAATACGGTTCCT
* * * *
1596198 TCGTGATGAGGAAGTCTGATTGTTTGAAGATGACACT-TTCCTTCGTGTTGAAGAGATCGGGTAA
194 TCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCGTGTTGAGGAGATCGGGTAA
* * * * * *
1596262 ATTTGATGTTGAATACGATACTACTCATCCGTGTTGAAGAGATCGAGTCATTTTTGATTATTACG
259 ATTTGATGTTGAAGACGACACTGCTCATCC-AGATGAAGAGATCGAGTCATTTTTGATTATGACG
* *
1596327 TTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGACAATACGGTTCCTTCTTGATGAGGAA
323 TTGTTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGATAATACGGTTCCTTCATGATGAGGAA
* *
1596392 GTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTAAAGAGATCATGTCAATTTGATGTTGAA
388 GTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATCA-GTCAATTTGATGTTGAA
* * *
1596457 GACGACACTGCTCATCCGTGTTGAAGAGATCGGGTCGTTTTCGATTATGACGTTGTTCATTCGTG
452 GACGACACTGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGATTATGACGATGTTCCTTCGTG
* *
1596522 ATGAGGAAATCGAGTCAATTTGGGGACAATAC
517 ATGAGAAAATCGGGTCAATTTGGGGACAATAC
* * * *
1596554 GGTTTCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGGCACTGTTCCTTCGTATTGAGGAGAT
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCATTGAGGAGAT
* * *
1596619 CGGGCCAATTTGATGTTGAAGACGACACTACTAATCCGCGATGAAGAGATCGA-GTCATTTTTTA
66 CGGGTCAATTTGATGTTGAAGACGACACTACTAATCCGTGTTGAAGAGATC-ATGTCATTTTTTA
*
1596683 TTATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATTAAGAGATAATTTGGGGACAATACG
130 TTATGACGTTGTTCCTTCGTGATGAGGAAA----G--AA-TCAGAGATAATTTGGGGACAATACG
* * * *
1596748 GTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGGTGACACTGCTCATTCGTGATGAGGAGATC
188 GTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCGTGTTGAGGAGATC
* ** * * * *
1596813 TGGTAGGTTTGATGTTAAAGATGACACTGCTCATCCAAGATGAAGAGATCGGGTCATTTTTTATT
253 GGGTAAATTTGATGTTGAAGACGACACTGCTCATCC-AGATGAAGAGATCGAGTCATTTTTGATT
1596878 ATGACGTTGTTCCTTCGTGATGAGGAAATCGGGTCAATCAAGAGATAATTTGGGGATAATACGGT
317 ATGACGTTGTTCCTTCGTGATGAGGAAATCGGG----TC-------AATTTGGGGATAATACGGT
* * * * *
1596943 TCCTTCATGATGATGAAATCTGATTGTCTGAAGATGACATTTCTCCTTCACGTTGAGGAGATCGA
371 TCCTTCATGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATC-A
* * *
1597008 GTGAATTTGATGTTGAAGATGACAATGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGATTAT
435 GTCAATTTGATGTTGAAGACGACACTGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGATTAT
1597073 GACGATGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
500 GACGATGTTCCTTCGTGATGAGAAAATCGGGTCAATTTGGGGACAATAC
* *
1597122 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAATATGACACTGCTCCTTCGCGTTGAG
1 GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCATTGAG
1597182 ACAACATTTC
Statistics
Matches: 1013, Mismatches: 128, Indels: 52
0.85 0.11 0.04
Matches are distributed among these distances:
544 49 0.05
545 420 0.41
546 3 0.00
547 6 0.01
554 4 0.00
555 3 0.00
556 187 0.18
557 105 0.10
561 2 0.00
568 233 0.23
569 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (548 bp):
GGTTCCTTCGTGATGAGGAAGTCTGATTGTCTGAAGATGACACTGCTCCTTCGCATTGAGGAGAT
CGGGTCAATTTGATGTTGAAGACGACACTACTAATCCGTGTTGAAGAGATCATGTCATTTTTTAT
TATGACGTTGTTCCTTCGTGATGAGGAAAGAATCAGAGATAATTTGGGGACAATACGGTTCCTTC
GTGATGAGGAAGTCTGATTGTCTGAGGATGACACTACTCCTTCGTGTTGAGGAGATCGGGTAAAT
TTGATGTTGAAGACGACACTGCTCATCCAGATGAAGAGATCGAGTCATTTTTGATTATGACGTTG
TTCCTTCGTGATGAGGAAATCGGGTCAATTTGGGGATAATACGGTTCCTTCATGATGAGGAAGTC
TGATTGTCTGAAGATGACACTGCTCCTTCGCGTTGAGGAGATCAGTCAATTTGATGTTGAAGACG
ACACTGCTCATCCGTGATGAAGAGATCGGGTCGTTTTCGATTATGACGATGTTCCTTCGTGATGA
GAAAATCGGGTCAATTTGGGGACAATAC
Found at i:1598126 original size:170 final size:167
Alignment explanation
Indices: 1597698--1598431 Score: 688
Period size: 170 Copynumber: 4.4 Consensus size: 167
1597688 ACATATCCTC
* * * * *
1597698 GAGCTGAATGTAATCGAACTTGAAGG--TTTATGTTGACAGATAGCCCTTCTAGCTTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTA-GTTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * * * * * * *
1597761 ACTGTGAAT-TTG-GCTTTCCTTGAGCTAAATGAAATTGAACTCGAAGGTATTTTATTAACAGAT
65 GCTGTAAATGATGTGC---CTTTGAGCTGAATGTAATCGAACTCGAAGGT-CTTTATTAACAGAT
* *
1597824 AGCCC-TCATCGCCTTGAGTTATGTTGTAAATTTGACATAT-CC-TT
126 AACCCTTC-TCGCCTTGAGCTATGTTGTAAA--T-A-ATATGCCTTT
* * * * * *
1597868 GAGCTGAATGTAATTGAACTCAAAGG--TTTATGTTTACAGATAGCCCTTCTAGCTTTGAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTA-GTTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * *
1597931 GCTGTGAAT-TTGGTTGTCC-TTGAGCTGAATGGAATCGAACTCGAAGGTCTTTTATTAACAGAT
65 GCTGTAAATGAT-G-TG-CCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTATTAACAGAT
* *
1597994 ATCCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTT
126 AACCCTTCTCGCCTTGAGCTATGTTGTAAA--TAATATGCCTTT
* * * * * * *
1598038 AAGCTGAGTGTAATTGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGCCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
* * * * * *
1598103 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGATAAATAACCC
66 CTGTAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTATTAACAGATAACCC
* * * * *
1598168 TTTTAGCCTTGAGCTATGCTGTAAACAATGTGCCTTT
131 TTCTCGCCTTGAGCTATGTTGTAAATAATATGCCTTT
* * *
1598205 GAGCTGAGTGTAATCAAACTAGAAGGTCTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTCTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
* **
1598269 CTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGT---AGATAACCC
66 CTGTAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTATTAACAGATAACCC
** * * *
1598331 TTCTTTCCTTGAGCTATTTTGCAAATAATGTGCCTTT
131 TTCTCGCCTTGAGCTATGTTGTAAATAATATGCCTTT
* * *
1598368 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
1598432 CATCCGTCGT
Statistics
Matches: 486, Mismatches: 65, Indels: 32
0.83 0.11 0.05
Matches are distributed among these distances:
163 67 0.14
164 29 0.06
166 78 0.16
167 36 0.07
168 4 0.01
169 39 0.08
170 190 0.39
171 36 0.07
172 5 0.01
173 1 0.00
174 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (167 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTAGTTGACAGATAACCCTTCTAGCCTTGAGTTATG
CTGTAAATGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTATTAACAGATAACCC
TTCTCGCCTTGAGCTATGTTGTAAATAATATGCCTTT
Found at i:1598205 original size:83 final size:83
Alignment explanation
Indices: 1597698--1598427 Score: 647
Period size: 83 Copynumber: 8.7 Consensus size: 83
1597688 ACATATCCTC
* * * * * *
1597698 GAGCTGAATGTAATCGAACTTGAAGGT-TTATGTTGACAGATAGCCCTTCTAGCTTTGAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* * *
1597762 CTGTGAAT-TTG-GCTTTCCTT
65 CTGTAAATGATGTGC---CTTT
* * * * * * * * *
1597782 GAGCTAAATGAAATTGAACTCGAAGGTATTTTATTAACAGATAGCCC-TCATCGCCTTGAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTC-TCGCCTTGAGCTAT
* *
1597846 GTTGTAAATTTGACATAT-CC-TT
64 GCTGTAAA--TG--ATGTGCCTTT
* * * * * * * *
1597868 GAGCTGAATGTAATTGAACTCAAAGGT-TTATGTTTACAGATAGCCCTTCTAGCTTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
1597932 CTGTGAAT-TTGGTTGTCC-TT
65 CTGTAAATGAT-G-TG-CCTTT
* * * * *
1597952 GAGCTGAATGGAATCGAACTCGAAGGTCTTTTATTAACAGATATCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
1598017 TTGTAAATTTGATATGCCTTT
65 CTGTAAA--TGATGTGCCTTT
* * * * *
1598038 AAGCTGAGTGTAATTGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGCCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
1598103 CTGCAAATGATGTGCCTTT
65 CTGTAAATGATGTGCCTTT
* * * *
1598122 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGATAAATAACCCTTTTAGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
**
1598187 TGTAAACAATGTGCCTTT
66 TGTAAATGATGTGCCTTT
* * * * *
1598205 GAGCTGAGTGTAATCAAACTAGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
1598270 TGTAAATGATGTGCCTTT
66 TGTAAATGATGTGCCTTT
* ** **
1598288 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-TAGATAACCCTTCTTTCCTTGAGCTATTT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* *
1598350 TGCAAATAATGTGCCTTT
66 TGTAAATGATGTGCCTTT
*
1598368 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAG
1598428 TTATCATCCG
Statistics
Matches: 534, Mismatches: 86, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
80 67 0.13
81 5 0.01
82 1 0.00
83 148 0.28
84 115 0.22
85 100 0.19
86 92 0.17
87 3 0.01
88 1 0.00
90 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATGATGTGCCTTT
Found at i:1598773 original size:32 final size:32
Alignment explanation
Indices: 1598724--1598842 Score: 148
Period size: 32 Copynumber: 3.7 Consensus size: 32
1598714 TCGCGCATCA
* * *
1598724 TGATGTTGAATCCCCAAAGATACCCCAATATT
1 TGATGTTGAATCTCCAAAGATGCCCCAACATT
* * * **
1598756 CGATATTGAATCTCCAAATATGCCTTAACATT
1 TGATGTTGAATCTCCAAAGATGCCCCAACATT
*
1598788 TGATGTTGAATCTTCAAAGATGCCCCAACATT
1 TGATGTTGAATCTCCAAAGATGCCCCAACATT
*
1598820 TGATGTTGAATCTTCAAAGATGC
1 TGATGTTGAATCTCCAAAGATGC
1598843 TCTCTATTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (32 bp):
TGATGTTGAATCTCCAAAGATGCCCCAACATT
Found at i:1603379 original size:10 final size:10
Alignment explanation
Indices: 1603366--1603399 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1603356 TGACAAAGTA
1603366 AAATAAAATG
1 AAATAAAATG
*
1603376 AAATGAAATG
1 AAATAAAATG
1603386 AAATAAAAATG
1 AAAT-AAAATG
1603397 AAA
1 AAA
1603400 AGAGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (10 bp):
AAATAAAATG
Found at i:1618579 original size:24 final size:23
Alignment explanation
Indices: 1618547--1618598 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
1618537 TTTATGACAT
*
1618547 TTCTACGTGACACTTCGGTGTATA
1 TTCTACGTGACACTTCGGTGCA-A
*
1618571 TTCTACGTGACACTTTGGTGCAA
1 TTCTACGTGACACTTCGGTGCAA
1618594 TTCTA
1 TTCTA
1618599 TGTGGCAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
TTCTACGTGACACTTCGGTGCAA
Found at i:1619098 original size:16 final size:16
Alignment explanation
Indices: 1619077--1619107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1619067 TTTCAACTAC
*
1619077 TTTGAAAATTCAATGA
1 TTTGAAAAGTCAATGA
1619093 TTTGAAAAGTCAATG
1 TTTGAAAAGTCAATG
1619108 TGACACATCA
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:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
TTTGAAAAGTCAATGA
Found at i:1624938 original size:21 final size:21
Alignment explanation
Indices: 1624890--1624940 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
1624880 AATTAAATTG
*
1624890 ATGAAT-AATAAGGGACAAAA
1 ATGAATAAAAAAGGGACAAAA
* *
1624910 ATGTAATAAAAAAGTGACTAAA
1 ATG-AATAAAAAAGGGACAAAA
1624932 ATGAATAAA
1 ATGAATAAA
1624941 TTGTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.12
21 9 0.35
22 14 0.54
ACGTcount: A:0.61, C:0.04, G:0.16, T:0.20
Consensus pattern (21 bp):
ATGAATAAAAAAGGGACAAAA
Found at i:1625111 original size:14 final size:14
Alignment explanation
Indices: 1625094--1625120 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1625084 AAAATGCTGG
1625094 AAAATAAATAAAAT
1 AAAATAAATAAAAT
1625108 AAAATAAATAAAA
1 AAAATAAATAAAA
1625121 AACAGAAATA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:1625488 original size:102 final size:103
Alignment explanation
Indices: 1625306--1625522 Score: 260
Period size: 102 Copynumber: 2.1 Consensus size: 103
1625296 ATATAAAATA
* * * * *
1625306 AAATAAAATAAAAAGGTTAGTGGTTAGCAGAGTCTGAACCATAATAATGTAGGTCTTACCCCGGA
1 AAATAAAAT-AAAAGGTTAGTAGTTAGCAGAGTCTGAACCATAATAATGCAGATCATACCCCAGA
* * * * *
1625371 TCGGGTCACCACAAGGTCGAATCGAGTATTTGAAACAAT
65 TCGAGTCACCACAAGGCCGAATCAAATATTAGAAACAAT
*
1625410 AAATAAAATAAAA-GTTAGTAGTTAGCAGA-TTTCGAACCATAATAATGCAGATCATACCCCAGA
1 AAATAAAATAAAAGGTTAGTAGTTAGCAGAGTCT-GAACCATAATAATGCAGATCATACCCCAGA
* * * *
1625473 TTGAGTCACCGCAAGGCCGAATCAAATATTAGGAGCAAT
65 TCGAGTCACCACAAGGCCGAATCAAATATTAGAAACAAT
1625512 AAAT-AAATAAA
1 AAATAAAATAAA
1625523 TAATAAGGAT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
101 9 0.09
102 75 0.77
103 4 0.04
104 9 0.09
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (103 bp):
AAATAAAATAAAAGGTTAGTAGTTAGCAGAGTCTGAACCATAATAATGCAGATCATACCCCAGAT
CGAGTCACCACAAGGCCGAATCAAATATTAGAAACAAT
Found at i:1625570 original size:29 final size:29
Alignment explanation
Indices: 1625538--1625604 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
1625528 AGGATTAAAG
*
1625538 TGCAGTAAAATAAAAGTTAGTAGATAATA
1 TGCAATAAAATAAAAGTTAGTAGATAATA
* *
1625567 TGCAATAAAATAAAAGTTAGTGGTTAATA
1 TGCAATAAAATAAAAGTTAGTAGATAATA
*
1625596 TGTAATAAA
1 TGCAATAAA
1625605 TAATATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (29 bp):
TGCAATAAAATAAAAGTTAGTAGATAATA
Found at i:1627025 original size:135 final size:135
Alignment explanation
Indices: 1626770--1627259 Score: 659
Period size: 136 Copynumber: 3.7 Consensus size: 135
1626760 AAACAAGCTA
** * *
1626770 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCTCT-TAT-AGATGAGTTCTTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
* * *
1626833 GAACTCT--A-TGGAAATGTTGATCCCTTGAGTGAGGTGTTCCTGATTTGAAATGATGTGAATCG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGCGAGGTG-TCCTGATTTGAAATGTTGTGAATCG
1626895 AGCGAT
130 AGCGAT
* * * * * *
1626901 AGGTTGAACAAGTTCTTCTCATTATGAACTTATTTTCCCTCTGTCGGATGAATTCTTCTTATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
*
1626966 GAACTCTCCACTGGAAAT-TTGATCCCTCAAGCGAGGTGTCACTGATTTGAAATGTTGTGAATCG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGCGAGGTGTC-CTGATTTGAAATGTTGTGAATCG
*
1627030 AGTGAT
130 AGCGAT
* * *
1627036 AGGTCGATCAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTATTCTCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
** * * * *
1627101 GAACTCTCCACTCAAAATGTTGATCCCTCGAGCAAGGCGTCGCTGATTCGAAATGTCGTGAATCG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGCGAGGTGTC-CTGATTTGAAATGTTGTGAATCG
1627166 AGCGAT
130 AGCGAT
* * * *
1627172 AGGTTGAACAAGCTCTTCTCATTATGAAATTCTTCTCCCTCTGTCGGATGGGTTCTTCTTATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
1627237 GAACTCTCCACTGGAAATGTTGA
66 GAACTCTCCACTGGAAATGTTGA
1627260 CCGGTTTATT
Statistics
Matches: 312, Mismatches: 40, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
131 36 0.12
132 2 0.01
133 24 0.08
134 2 0.01
135 117 0.38
136 131 0.42
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (135 bp):
AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGATCCCTCGAGCGAGGTGTCCTGATTTGAAATGTTGTGAATCGA
GCGAT
Found at i:1628227 original size:41 final size:42
Alignment explanation
Indices: 1628182--1628268 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
1628172 GCCCAAAGGT
* * *
1628182 CTTATGGATGGCCCGAAGGACTT-ATCATCT-TGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTAAGCAT-TATGCTCGAAAGA
* *
1628223 CTTATATATGACCCGAAGGATTTAAGCATTATGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTAAGCATTATGCTCGAAAGA
1628265 CTTA
1 CTTA
1628269 CTGATTGCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 20 0.51
42 19 0.49
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
CTTATAGATGACCCGAAGGACTTAAGCATTATGCTCGAAAGA
Found at i:1628444 original size:52 final size:53
Alignment explanation
Indices: 1628377--1628573 Score: 233
Period size: 52 Copynumber: 3.8 Consensus size: 53
1628367 TAAAAATCAT
* *
1628377 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTC-TAAAAACTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
* * * **
1628429 TATCAAGAAATCCCTAAAAA-TAGGCTTAATTTCTTTGAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
* * **
1628481 CATTAAG-AACCCACT-AAAATTAGGCTTAGCTTCTTTCAAATTCATTTGAAAA
1 CATCAAGAAACCC-CTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
* *
1628533 CATCGAGAAACCCCTGAAAATTAGGCTTAGTTTC-TAAAAAT
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAAT
1628574 CTTTTTTTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
51 19 0.16
52 81 0.66
53 22 0.18
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
Found at i:1628744 original size:36 final size:36
Alignment explanation
Indices: 1628703--1628818 Score: 97
Period size: 36 Copynumber: 3.1 Consensus size: 36
1628693 TTTTTCGATC
*
1628703 AAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAG
1 AAAAACTGTCTCGAGCGAGACAAATCTTGTTTTAAG
** * * * ** * * *
1628739 AAAAACAATCTTGAGTGAAATGTAATGTATTTTTTCGAG
1 AAAAACTGTCTCGAGCGAGA-CAAATCT-TGTTTT-AAG
1628778 CAAAAACTGTCTCGAGCGAGACAAATCTTGTTTTAAG
1 -AAAAACTGTCTCGAGCGAGACAAATCTTGTTTTAAG
1628815 AAAA
1 AAAA
1628819 TCAATCTTGA
Statistics
Matches: 55, Mismatches: 21, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
36 18 0.33
37 6 0.11
38 10 0.18
39 6 0.11
40 15 0.27
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (36 bp):
AAAAACTGTCTCGAGCGAGACAAATCTTGTTTTAAG
Found at i:1628782 original size:76 final size:75
Alignment explanation
Indices: 1628629--1628886 Score: 371
Period size: 76 Copynumber: 3.5 Consensus size: 75
1628619 GTTTCGAGGG
* * *
1628629 AAACTATCTCAAGCGAGATAAATTTTGGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTA-
1 AAACTGTCTCAAGCGAGACAAATCTT-GTTTTAAGAAAAACAATCTTGAGTGAAATG-AATGTAT
*
1628693 TTTTTCGATCAA
64 TTTTTCGAGCAA
1628705 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGTAATGTATT
1 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATG-AATGTATT
1628770 TTTTCGAGCAA
65 TTTTCGAGCAA
* * *
1628781 AAACTGTCTCGAGCGAGACAAATCTTGTTTTAAGAAAATCAATCTTGAGTGAAATG---GTATTC
1 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAATGTATTT
*
1628843 TTTCGAGTAA
66 TTTCGAGCAA
* *
1628853 AAACTGTCTCAATCGAGACAAATCTTATTTTAAG
1 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAG
1628887 GGAAACAGAT
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
72 45 0.27
75 36 0.21
76 88 0.52
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (75 bp):
AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATGAATGTATTT
TTTCGAGCAA
Found at i:1629011 original size:64 final size:64
Alignment explanation
Indices: 1628853--1629078 Score: 233
Period size: 64 Copynumber: 3.5 Consensus size: 64
1628843 TTTCGAGTAA
* ** * * * *
1628853 AAACTGTCTCAATCGAGAC-AAATCTTATTTTAAGGGAAACAGATTTAAAGATTTTGTGTTTTAA
1 AAACTGTCTTAAGAGAGACAAAAT-TTGTTTCAAGGGAAACATA-TTAAAGATTTT-T-TTTCAA
*
1628917 GAG
62 AAG
* *
1628920 AAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAG-TTTTTTTTCAAAAG
1 AAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAACATATT-AAAGATTTTTTTTCAAAAG
* *
1628984 AAACTGTCTTAAGAGAGA-AAAACTTTGTTTCAAGGGAAACATACTTAAAGATTTTGTTTCAATA
1 AAACTGTCTTAAGAGAGACAAAA-TTTGTTTCAAGGGAAACATA-TTAAAGATTTTTTTTCAAAA
1629048 G
64 G
* * *
1629049 AAACTGTCTCAAGAGAGAGAAAATATGTTT
1 AAACTGTCTTAAGAGAGACAAAATTTGTTT
1629079 TGAGTAGAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
63 4 0.03
64 47 0.34
65 38 0.28
66 10 0.07
67 35 0.25
68 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (64 bp):
AAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAACATATTAAAGATTTTTTTTCAAAAG
Found at i:1629087 original size:37 final size:37
Alignment explanation
Indices: 1629046--1629146 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
1629036 TTTGTTTCAA
*
1629046 TAGAAACTGTCTCAAGAGAGAGAAAATATGTTTTGAG
1 TAGAAACTGTCTCAAGAGAGATAAAATATGTTTTGAG
*
1629083 TAGAAACTGTCTCAAGAGAGATAAAATTTGTTTTGAG
1 TAGAAACTGTCTCAAGAGAGATAAAATATGTTTTGAG
* * * *
1629120 TAAAAATTGTCTGAAGTGAGATAAAAT
1 TAGAAACTGTCTCAAGAGAGATAAAAT
1629147 TCGTTTCAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (37 bp):
TAGAAACTGTCTCAAGAGAGATAAAATATGTTTTGAG
Found at i:1629544 original size:18 final size:18
Alignment explanation
Indices: 1629490--1629548 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
1629480 GTTTCAAAGG
1629490 AAAATGTCTCAAGTGAGA
1 AAAATGTCTCAAGTGAGA
* *
1629508 CAAAATTTGTTTTAA--GAGA
1 -AAAA--TGTCTCAAGTGAGA
1629527 AAAATGTCTCAAGTGAGA
1 AAAATGTCTCAAGTGAGA
1629545 AAAA
1 AAAA
1629549 AATTTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 6 0.19
18 12 0.38
19 8 0.25
21 6 0.19
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.25
Consensus pattern (18 bp):
AAAATGTCTCAAGTGAGA
Found at i:1629551 original size:38 final size:36
Alignment explanation
Indices: 1629472--1629743 Score: 155
Period size: 37 Copynumber: 7.7 Consensus size: 36
1629462 AATAACTTTG
* *
1629472 AAATTTGTGTTTCAAAGGAAAATGTCTCAAGTGAGACA
1 AAATTTGT-TTT-AAAGAAAAATGTCTCAAGTGAGAAA
1629510 AAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAA
1 AAATTTGTTTTAA-AGAAAAATGTCTCAAGTGAG-AAA
* * **
1629548 AAATTTGTTTTTAAGAAAAA----T-AACTTTG---
1 AAATTTGTTTTAAAGAAAAATGTCTCAAGTGAGAAA
* * * **
1629576 AAATTTGTGTTCCAAAGGAAAATGTCTCAAGTGATACG
1 AAATTTGT-TT-TAAAGAAAAATGTCTCAAGTGAGAAA
* *
1629614 AAATTTGTTTTAAGAGAAAAATGTTTCAAGTGGGAAA
1 AAATTTGTTTTAA-AGAAAAATGTCTCAAGTGAGAAA
* **
1629651 AAATTTGTTTT-AAGAAAAA-----CAACTTTG---
1 AAATTTGTTTTAAAGAAAAATGTCTCAAGTGAGAAA
* **
1629678 AAATTTGTGTTCTAAAGGAAAATGTCTCAAGTGAGACG
1 AAATTTGT-TT-TAAAGAAAAATGTCTCAAGTGAGAAA
1629716 AAATTTGTTTTAAAGAAAACAATGTCTC
1 AAATTTGTTTTAAAG-AAA-AATGTCTC
1629744 TAGCGAGACA
Statistics
Matches: 180, Mismatches: 28, Indels: 52
0.69 0.11 0.20
Matches are distributed among these distances:
27 8 0.04
28 10 0.06
29 3 0.02
30 19 0.11
32 4 0.02
33 1 0.01
34 1 0.01
35 15 0.08
36 10 0.06
37 63 0.35
38 46 0.26
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (36 bp):
AAATTTGTTTTAAAGAAAAATGTCTCAAGTGAGAAA
Found at i:1629601 original size:104 final size:103
Alignment explanation
Indices: 1629401--1629743 Score: 539
Period size: 104 Copynumber: 3.3 Consensus size: 103
1629391 TGTCTTAGGC
** *
1629401 GAGACGATGTTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTTGCTTTTT-AGAAAAAT
1 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTG-TTTTTAAGAAAAAT
*
1629465 AACTTTGAAATTTGTGTTTCAAAGGAAAATGTCTCAAGT
65 AACTTTGAAATTTGTGTTCCAAAGGAAAATGTCTCAAGT
*
1629504 GAGACAAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAAATTTGTTTTTAAGAAAAAT
1 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAG-AAAAAATTTGTTTTTAAGAAAAAT
1629569 AACTTTGAAATTTGTGTTCCAAAGGAAAATGTCTCAAGT
65 AACTTTGAAATTTGTGTTCCAAAGGAAAATGTCTCAAGT
* * * *
1629608 GATACGAAATTTGTTTTAAGAGAAAAATGTTTCAAGTGGGAAAAAATTTG-TTTTAAGAAAAACA
1 GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTGTTTTTAAGAAAAATA
*
1629672 ACTTTGAAATTTGTGTTCTAAAGGAAAATGTCTCAAGT
66 ACTTTGAAATTTGTGTTCCAAAGGAAAATGTCTCAAGT
1629710 GAGACGAAATTTGTTTTAA-AGAAAACAATGTCTC
1 GAGACGAAATTTGTTTTAAGAG-AAA-AATGTCTC
1629744 TAGCGAGACA
Statistics
Matches: 223, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
101 2 0.01
102 71 0.32
103 59 0.26
104 91 0.41
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (103 bp):
GAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTGTTTTTAAGAAAAATA
ACTTTGAAATTTGTGTTCCAAAGGAAAATGTCTCAAGT
Found at i:1629720 original size:65 final size:65
Alignment explanation
Indices: 1629613--1629734 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
1629603 CAAGTGATAC
* *
1629613 GAAATTTGTTTTAAGAGAAAAATGTTTCAAGTGGGAAAAAATTTGTTTT-AAGAAAAACAACTTT
1 GAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTGTTTTAAAGAAAAACAACTTT
* **
1629677 GAAATTTGTGTTCTAA-AGGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAAGAAAA
1 GAAATTTGT-TT-TAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTGTTTTAAAGAAAA
1629735 CAATGTCTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 9 0.18
65 31 0.62
66 10 0.20
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.33
Consensus pattern (65 bp):
GAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGAAAAAATTTGTTTTAAAGAAAAACAACTTT
Found at i:1629752 original size:38 final size:38
Alignment explanation
Indices: 1629677--1629752 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
1629667 AAACAACTTT
* *
1629677 GAAATTTGTGTTCTAAAGGAAAATGTCTCAAGTGAGAC
1 GAAATTTGTGTTCTAAAGAAAAATGTCTCAAGCGAGAC
*
1629715 GAAATTTGT-TT-TAAAGAAAACAATGTCTCTAGCGAGAC
1 GAAATTTGTGTTCTAAAG-AAA-AATGTCTCAAGCGAGAC
1629753 AACATTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 5 0.15
37 4 0.12
38 24 0.73
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (38 bp):
GAAATTTGTGTTCTAAAGAAAAATGTCTCAAGCGAGAC
Found at i:1629921 original size:14 final size:14
Alignment explanation
Indices: 1629902--1629937 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1629892 AGACATCTGG
*
1629902 TCATTTCCGTGCTT
1 TCATTTCCGAGCTT
1629916 TCATTTCCGAGCTT
1 TCATTTCCGAGCTT
*
1629930 TTATTTCC
1 TCATTTCC
1629938 TGAAAGATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.28, G:0.11, T:0.50
Consensus pattern (14 bp):
TCATTTCCGAGCTT
Found at i:1631185 original size:4 final size:4
Alignment explanation
Indices: 1631176--1631211 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
1631166 GCTTTATTGT
*
1631176 ATAC ATAC ATAC ATATA ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATA
1631212 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:1631216 original size:2 final size:2
Alignment explanation
Indices: 1631209--1631234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1631199 ACATACATAC
1631209 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
1631235 TATTATGGGT
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:1634917 original size:14 final size:15
Alignment explanation
Indices: 1634900--1634931 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1634890 AAAATGTTGG
1634900 AAAATAAATA-AAAT
1 AAAATAAATAGAAAT
1634914 AAAATAAATAGAAAT
1 AAAATAAATAGAAAT
1634929 AAA
1 AAA
1634932 TTGCATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAATAGAAAT
Found at i:1636764 original size:20 final size:20
Alignment explanation
Indices: 1636739--1636778 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1636729 GTATCGATGG
*
1636739 GAAGAACATTATCGATACTA
1 GAAGAACAGTATCGATACTA
1636759 GAAGAACAGTATCGATACTA
1 GAAGAACAGTATCGATACTA
1636779 TAAGGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (20 bp):
GAAGAACAGTATCGATACTA
Found at i:1637396 original size:16 final size:16
Alignment explanation
Indices: 1637363--1637401 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1637353 GATTTTATAC
1637363 TATGTG-TTATTGATA
1 TATGTGATTATTGATA
1637378 TATGTGATTATATGA-A
1 TATGTGATTAT-TGATA
1637394 TATGTGAT
1 TATGTGAT
1637402 ATAAGCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.27
16 13 0.59
17 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (16 bp):
TATGTGATTATTGATA
Found at i:1637575 original size:23 final size:23
Alignment explanation
Indices: 1637490--1637592 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 23
1637480 GAGTGGAGGG
* * * *
1637490 TTCTACGCGGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCTGGACAT
* *
1637513 TACTATGTGGTCCTT-TAGGACAT
1 TTCTACGTGGTCCTTCT-GGACAT
**
1637536 ATTCTACACGGTCCTTCTGGACAT
1 -TTCTACGTGGTCCTTCTGGACAT
* *
1637560 TTTTACGTGGTCCTTC-GAGAAAT
1 TTCTACGTGGTCCTTCTG-GACAT
1637583 TTCTACGTGG
1 TTCTACGTGG
1637593 CACTTCGGTG
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
22 1 0.02
23 42 0.69
24 17 0.28
25 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCTGGACAT
Found at i:1637647 original size:24 final size:24
Alignment explanation
Indices: 1637583--1637641 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
1637573 TTCGAGAAAT
*
1637583 TTCTACGTGGCACTTCGGTGCATA
1 TTCTATGTGGCACTTCGGTGCATA
*
1637607 TTCTATGCGGCACTTCGGTGCA-A
1 TTCTATGTGGCACTTCGGTGCATA
1637630 TTCTATGTGGCA
1 TTCTATGTGGCA
1637642 GTTTCGACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (24 bp):
TTCTATGTGGCACTTCGGTGCATA
Found at i:1638216 original size:16 final size:16
Alignment explanation
Indices: 1638195--1638225 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1638185 TTTAAACTAC
1638195 TTTGAAAAGTCAATGA
1 TTTGAAAAGTCAATGA
1638211 TTTGAAAAGTCAATG
1 TTTGAAAAGTCAATG
1638226 TGACACATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (16 bp):
TTTGAAAAGTCAATGA
Found at i:1646512 original size:3 final size:3
Alignment explanation
Indices: 1646504--1646536 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1646494 AATATAGTAT
*
1646504 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1646537 GTTGAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1666407 original size:2 final size:2
Alignment explanation
Indices: 1666400--1666424 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1666390 TCCCTTACCT
1666400 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1666425 GTGTGTGTGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1672134 original size:134 final size:130
Alignment explanation
Indices: 1671845--1672208 Score: 413
Period size: 134 Copynumber: 2.8 Consensus size: 130
1671835 ATATCAAATA
* * * * ** * *
1671845 AATAATACAGATCATATCCTGGATCGGGTCACCACAAGGCCGAATCAAATATTAG--A-AATAAA
1 AATAATACGGATCATACCCCGAATCGGGTCACCACAAGATCGAATCGAATAATAGAAACAATAAA
* * * *
1671907 TAAATAAAT---AATGGTTAGAA-TACAATAAAATAAGA-TTCAATAGTTAACAGCATCTGAACC
66 TAAATAAATAACAATGATTA-AAGTGCAATAAAATAAAAGTT-AATAGTTAACAGAATCTGAACC
1671967 AT
129 AT
* * *
1671969 AATAATACGGATCATACCCTGAATCGGGTCACCACAAGGTCGAATCGAATATTAGAAACAATAAA
1 AATAATACGGATCATACCCCGAATCGGGTCACCACAAGATCGAATCGAATAATAGAAAC----AA
* *
1672034 TAAATAAATAAATAACAATGATTAAAGTGCAATAAAATAAAAGTTATTAGTTAGCAGAATCTGAA
62 TAAATAAATAAATAACAATGATTAAAGTGCAATAAAATAAAAGTTAATAGTTAACAGAATCTGAA
1672099 CCAT
127 CCAT
** * * *
1672103 AATAATGTGGATTATACCCCGAATCTGGTCACCAGAAGATCGAATCGAATAATAGAAACAATAAA
1 AATAATACGGATCATACCCCGAATCGGGTCACCACAAGATCGAATCGAATAATAGAAACAATAAA
1672168 TAAATAAATAACAATGATTAAAGTG-AATAAAATAAAAGTTA
66 TAAATAAATAACAATGATTAAAGTGCAATAAAATAAAAGTTA
1672209 GTGGTTAATA
Statistics
Matches: 209, Mismatches: 19, Indels: 19
0.85 0.08 0.08
Matches are distributed among these distances:
124 50 0.24
126 1 0.00
129 16 0.08
130 31 0.15
131 15 0.07
133 2 0.01
134 92 0.44
135 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (130 bp):
AATAATACGGATCATACCCCGAATCGGGTCACCACAAGATCGAATCGAATAATAGAAACAATAAA
TAAATAAATAACAATGATTAAAGTGCAATAAAATAAAAGTTAATAGTTAACAGAATCTGAACCAT
Found at i:1672254 original size:29 final size:29
Alignment explanation
Indices: 1672193--1672256 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1672183 GATTAAAGTG
* *
1672193 AATAAAATAAAAGTTAGTGGTTAATATGC
1 AATAAAATAAAAGTTAGTAGTTAATATGA
1672222 AATAAAATAAAAGTTAGTAGTTAACT-TGA
1 AATAAAATAAAAGTTAGTAGTTAA-TATGA
1672251 AATAAA
1 AATAAA
1672257 TAACATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.30
Consensus pattern (29 bp):
AATAAAATAAAAGTTAGTAGTTAATATGA
Found at i:1675289 original size:33 final size:33
Alignment explanation
Indices: 1675242--1675325 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
1675232 TCAACCTCTG
*
1675242 TGTCAACCGATTGTTCATAAGTGTTACACACTA
1 TGTCAACCGATTGTTCATAAGTATTACACACTA
* * *
1675275 TTTCAACC-AGTTGTTCATGAGTATTACCCACTA
1 TGTCAACCGA-TTGTTCATAAGTATTACACACTA
*
1675308 TGTCAACTGATTGTTCAT
1 TGTCAACCGATTGTTCAT
1675326 GAGTTCCCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
32 1 0.02
33 41 0.95
34 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTCAACCGATTGTTCATAAGTATTACACACTA
Found at i:1678226 original size:15 final size:15
Alignment explanation
Indices: 1678206--1678247 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1678196 TTATTTTTCA
1678206 TTTTATTTTTATTAT
1 TTTTATTTTTATTAT
**
1678221 TTTTATTAATATTAT
1 TTTTATTTTTATTAT
*
1678236 ATTTATTTTTAT
1 TTTTATTTTTAT
1678248 ACATACCCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTATTAT
Found at i:1678233 original size:21 final size:19
Alignment explanation
Indices: 1678195--1678247 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
1678185 TTGGGTTCTA
* *
1678195 ATTATTTTTCATTTTATTTTT
1 ATTATTTTT-ATTATA-TTAT
1678216 ATTATTTTTATTAATATTAT
1 ATTATTTTTATT-ATATTAT
1678236 ATTTATTTTTAT
1 A-TTATTTTTAT
1678248 ACATACCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTATTTTTATTATATTAT
Found at i:1679803 original size:21 final size:22
Alignment explanation
Indices: 1679766--1679806 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1679756 TTAAAAATTA
1679766 TAAAGGAAGTACCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
*
1679788 TAAAGGAA-TTCCGATACTC
1 TAAAGGAAGTACCGATACTC
1679807 CCTGTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:1688292 original size:54 final size:54
Alignment explanation
Indices: 1688210--1688317 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
1688200 TAACATAATA
1688210 CATTGAGTTCCTTTAATGTATCTCAGGATCTTTTTACTGTATTCCAATGCTCTT
1 CATTGAGTTCCTTTAATGTATCTCAGGATCTTTTTACTGTATTCCAATGCTCTT
1688264 CATTGAGTTCCTTTAATGTATCTCAGGATCTTTTTACTGTATTCCAATGCTCTT
1 CATTGAGTTCCTTTAATGTATCTCAGGATCTTTTTACTGTATTCCAATGCTCTT
1688318 TGCCTGGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (54 bp):
CATTGAGTTCCTTTAATGTATCTCAGGATCTTTTTACTGTATTCCAATGCTCTT
Found at i:1695541 original size:3 final size:3
Alignment explanation
Indices: 1695533--1695564 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1695523 TTCTAGTTGT
1695533 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1695565 GTCGCGGCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1697186 original size:3 final size:3
Alignment explanation
Indices: 1697178--1697219 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
1697168 GATGTCTACA
*
1697178 ATT ATT ATT ATT ATT ATT ATT GA-T GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
1697220 CGTCTGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 34 0.97
4 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1699550 original size:3 final size:3
Alignment explanation
Indices: 1699530--1699606 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
1699520 GCCTGAAGTG
* *
1699530 TAA TAA -AA TAA TAT TAA TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1699575 TAG TAA TAAA TAA -AA TAA TAA CAA TAC TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
1699607 TAAATAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
2 8 0.14
3 48 0.81
4 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1699566 original size:11 final size:11
Alignment explanation
Indices: 1699530--1699595 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
1699520 GCCTGAAGTG
1699530 TAATAAAATAA
1 TAATAAAATAA
*
1699541 T-AT-TAATAA
1 TAATAAAATAA
*
1699550 TAATAATATAA
1 TAATAAAATAA
*
1699561 TTATAAAATAA
1 TAATAAAATAA
*
1699572 TAAT--AGTAA
1 TAATAAAATAA
1699581 TAAATAAAATAA
1 T-AATAAAATAA
1699593 TAA
1 TAA
1699596 CAATACTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
9 11 0.26
10 7 0.17
11 19 0.45
12 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:1699567 original size:31 final size:32
Alignment explanation
Indices: 1699532--1699593 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
1699522 CTGAAGTGTA
* *
1699532 ATAAAATAATATTAATAAT-AATAATATAATT
1 ATAAAATAATAATAATAATAAATAAAATAATT
*
1699563 ATAAAATAATAATAGTAATAAATAAAATAAT
1 ATAAAATAATAATAATAATAAATAAAATAAT
1699594 AACAATACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (32 bp):
ATAAAATAATAATAATAATAAATAAAATAATT
Found at i:1700349 original size:113 final size:113
Alignment explanation
Indices: 1700089--1700533 Score: 702
Period size: 113 Copynumber: 4.0 Consensus size: 113
1700079 TAGAGTCATG
* ** * *
1700089 CAAAAGG-TCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1700153 ATTATGAACTTTCTCTGGAAAAGTTGATTCATCGAATGATGAATT----
66 ATTATGAAC-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* *
1700198 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1700263 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
66 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* * * *
1700311 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTATTCCTTCTTTAGATGCGTTCTTATC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1700376 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGGTGAATTCAAA
66 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
*
1700424 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
1700489 ATTATGAACTTCTCTGGAAATGTTGATCCATCGAATGATGGATTC
66 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTC
1700534 GAATATTTGC
Statistics
Matches: 308, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
109 41 0.13
110 59 0.19
113 208 0.68
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
Found at i:1701705 original size:18 final size:19
Alignment explanation
Indices: 1701682--1701750 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
1701672 AAAATAAAAG
*
1701682 AATTGAATTTC-GAAAATA
1 AATTGAATTTCAAAAAATA
*
1701700 AATTGAATCTCAAAAAATA
1 AATTGAATTTCAAAAAATA
1701719 AATTGAATTT-AGAGAAAATA
1 AATTGAATTTCA-A-AAAATA
1701739 AACTTAGAATTT
1 AA-TT-GAATTT
1701751 ATTAATAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 11 0.26
19 16 0.37
20 8 0.19
21 2 0.05
22 6 0.14
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (19 bp):
AATTGAATTTCAAAAAATA
Found at i:1702105 original size:8 final size:8
Alignment explanation
Indices: 1702082--1702148 Score: 55
Period size: 8 Copynumber: 7.8 Consensus size: 8
1702072 TTGACCCTCC
*
1702082 TTTTTTAT
1 TTTTTTCT
*
1702090 TTTCTTCT
1 TTTTTTCT
1702098 TTTTTTCTTTT
1 TTTTTTC---T
1702109 TTTTTTCT
1 TTTTTTCT
1702117 TTTTTTCT
1 TTTTTTCT
1702125 TTTTTT-T
1 TTTTTTCT
1702132 TTCTATTTCAT
1 TT-T-TTTC-T
1702143 TTTTTT
1 TTTTTT
1702149 TCTTCAAGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
7 3 0.06
8 28 0.57
9 6 0.12
10 1 0.02
11 11 0.22
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1702105 original size:11 final size:11
Alignment explanation
Indices: 1702089--1702135 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
1702079 TCCTTTTTTA
1702089 TTTTCTTCTTT
1 TTTTCTTCTTT
1702100 TTTTC-T-TTT
1 TTTTCTTCTTT
1702109 TTTT-TTCTTT
1 TTTTCTTCTTT
*
1702119 TTTTCTTTTTT
1 TTTTCTTCTTT
1702130 TTTTCT
1 TTTTCT
1702136 ATTTCATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 8 0.25
10 8 0.25
11 16 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTCTTCTTT
Found at i:1702116 original size:19 final size:19
Alignment explanation
Indices: 1702084--1702135 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 19
1702074 GACCCTCCTT
1702084 TTTTATTTTCTTCTTTTTTTC
1 TTTT-TTTT-TTCTTTTTTTC
1702105 TTTTTTTTTTCTTTTTTTC
1 TTTTTTTTTTCTTTTTTTC
1702124 TTTTTTTTTTCT
1 TTTTTTTTTTCT
1702136 ATTTCATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 23 0.74
20 4 0.13
21 4 0.13
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTTTTC
Found at i:1702146 original size:19 final size:19
Alignment explanation
Indices: 1702084--1702149 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
1702074 GACCCTCCTT
**
1702084 TTTTATTTTCTTCTTTTTTTC
1 TTTT-TTTT-TTCTTTTCATC
**
1702105 TTTTTTTTTTCTTTTTTTC
1 TTTTTTTTTTCTTTTCATC
1702124 TTTTTTTTTTCTATTTCAT-
1 TTTTTTTTTTCT-TTTCATC
1702143 TTTTTTT
1 TTTTTTT
1702150 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 30 0.71
20 8 0.19
21 4 0.10
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTCATC
Found at i:1702149 original size:1 final size:1
Alignment explanation
Indices: 1702082--1702133 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
1702072 TTGACCCTCC
* * * * * *
1702082 TTTTTTATTTTCTTCTTTTTTTCTTTTTTTTTTCTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1702134 CTATTTCATT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:1713687 original size:3 final size:3
Alignment explanation
Indices: 1713681--1713712 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1713671 TATATATTTG
*
1713681 TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1713713 TATTACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1715078 original size:3 final size:3
Alignment explanation
Indices: 1715066--1715139 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
1715056 GACTGAAGTG
* *
1715066 TAA T-A TAA TAA TAA TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1715111 TAA TAAA TAA -AA TAA TAA CAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
1715140 TAAATAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
2 8 0.13
3 49 0.82
4 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1715159 original size:9 final size:8
Alignment explanation
Indices: 1715070--1715159 Score: 60
Period size: 9 Copynumber: 10.8 Consensus size: 8
1715060 GAAGTGTAAT
1715070 ATAATAATA
1 ATAA-AATA
1715079 ATAATAATA
1 ATAA-AATA
* *
1715088 ATATAATT
1 ATAAAATA
1715096 ATAAAATA
1 ATAAAATA
*
1715104 ATAATAGTA
1 ATAA-AATA
1715113 AT-AAATA
1 ATAAAATA
1715120 A-AATAATA
1 ATAA-AATA
*
1715128 ACAATAATA
1 ATAA-AATA
1715137 ATATAAATA
1 ATA-AAATA
1715146 A-AAAATA
1 ATAAAATA
1715153 GATAAAA
1 -ATAAAA
1715160 AAAAATTAGT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
7 10 0.15
8 21 0.31
9 35 0.52
10 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (8 bp):
ATAAAATA
Found at i:1718840 original size:34 final size:34
Alignment explanation
Indices: 1718801--1718872 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
1718791 GATTAATGAC
* *
1718801 TAAATTATAAATAAATAAAATTTGGAGACCAAAT
1 TAAATTATAAAGAAATAAAATTTAGAGACCAAAT
** * *
1718835 TAAATTATTCAGAAATATAATTTAGTGACCAAAT
1 TAAATTATAAAGAAATAAAATTTAGAGACCAAAT
1718869 TAAA
1 TAAA
1718873 ATAACTCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (34 bp):
TAAATTATAAAGAAATAAAATTTAGAGACCAAAT
Done.