Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 32
Found at i:1013589 original size:45 final size:45
Alignment explanation
Indices: 1013485--1013591 Score: 180
Period size: 45 Copynumber: 2.4 Consensus size: 45
1013475 ATGCACAAGC
*
1013485 CATGCATCGATACACTCAGGCTATTTTGAAACATCGAATGCACTT
1 CATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCACTT
*
1013530 CATGCATCGATGCACTCAGGCTGTTTTGAAACATCGAATGCACTT
1 CATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCACTT
1013575 CATGCATC-AGTGCACTC
1 CATGCATCGA-TGCACTC
1013592 TTAGTGCATC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCACTT
Found at i:1014796 original size:20 final size:20
Alignment explanation
Indices: 1014771--1014824 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1014761 GACCAACAAA
1014771 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
1014791 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
1014811 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
1014825 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:1014874 original size:20 final size:20
Alignment explanation
Indices: 1014848--1014912 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
1014838 TGCGATTTTC
1014848 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* * *
1014868 AAAATTCGCAACGTGATAGT
1 CAAATTCGCAACGCGAAAGT
1014888 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
1014908 CAAAT
1 CAAAT
1014913 GTTTTTACGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:1014877 original size:41 final size:40
Alignment explanation
Indices: 1014767--1014912 Score: 120
Period size: 40 Copynumber: 3.6 Consensus size: 40
1014757 AAATGACCAA
* * * *
1014767 CAAATTCGCAACGCG-AATTCCAATTTCGCAAC-CCAGTTTC
1 CAAATTCGCAACGCGAAAGT--AAATTCGCAACGCGATTTTC
* **
1014807 CAATTTCGCAACGCGAATATGTAAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGAA-A-GTAAATTCGCAACGCGATTTTC
* **
1014848 CAAATTCGCAACGCGAAAGTAAAATTCGCAACGTGATAGT-
1 CAAATTCGCAACGCGAAAGT-AAATTCGCAACGCGATTTTC
1014888 CAAATTCGCAACGCGAAAGTCAAAT
1 CAAATTCGCAACGCGAAAGT-AAAT
1014913 GTTTTTACGC
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 2 0.02
40 47 0.55
41 35 0.41
42 1 0.01
43 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
CAAATTCGCAACGCGAAAGTAAATTCGCAACGCGATTTTC
Found at i:1015082 original size:22 final size:22
Alignment explanation
Indices: 1015040--1015090 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1015030 CTACGACGAC
*
1015040 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCAACAAA
*
1015062 ATCCGTCCCCATTTCCAACAAA
1 ATCCGTCCCCATCTCCAACAAA
1015084 ATCCGTC
1 ATCCGTC
1015091 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.43, G:0.08, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAACAAA
Found at i:1015408 original size:19 final size:20
Alignment explanation
Indices: 1015358--1015412 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1015348 ATTCGTAACA
*
1015358 CGAAAATGAAAATCACAACG
1 CGAAAATGAAAATCGCAACG
1015378 CGAAAATGAAAATCGCAACG
1 CGAAAATGAAAATCGCAACG
1015398 C-AAAACT-AAAATCGC
1 CGAAAA-TGAAAATCGC
1015413 GTTGCGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.53, C:0.22, G:0.15, T:0.11
Consensus pattern (20 bp):
CGAAAATGAAAATCGCAACG
Found at i:1015450 original size:20 final size:20
Alignment explanation
Indices: 1015409--1015450 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1015399 AAAACTAAAA
* * *
1015409 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGAATTTAAGTT
1015429 TCGCGTTGCGAATTTAAGTT
1 TCGCGTTGCGAATTTAAGTT
1015449 TC
1 TC
1015451 AGAAACTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAAGTT
Found at i:1016996 original size:13 final size:13
Alignment explanation
Indices: 1016975--1017007 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1016965 TATAGCTCGA
*
1016975 CACCCGGAGCCAT
1 CACCTGGAGCCAT
1016988 CACCTGGAGCCAT
1 CACCTGGAGCCAT
1017001 CACCTGG
1 CACCTGG
1017008 TCGAACCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.42, G:0.24, T:0.12
Consensus pattern (13 bp):
CACCTGGAGCCAT
Found at i:1017437 original size:4 final size:4
Alignment explanation
Indices: 1017428--1017473 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
1017418 TTTTTCAGCA
* * * *
1017428 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1017474 TCAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:1017636 original size:21 final size:21
Alignment explanation
Indices: 1017610--1017665 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1017600 TAAGCTCAAT
*
1017610 GCACCTATCATCATTTAAGAG
1 GCACCTATCATCATTCAAGAG
* *
1017631 GCACCT-CCTATCGTTCAAGAG
1 GCACCTATC-ATCATTCAAGAG
*
1017652 GCCCCTATCATCAT
1 GCACCTATCATCAT
1017666 CGAAGAAGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (21 bp):
GCACCTATCATCATTCAAGAG
Found at i:1017680 original size:42 final size:42
Alignment explanation
Indices: 1017613--1017705 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
1017603 GCTCAATGCA
** * * *
1017613 CCTATCATCATTTAAGAGGCACCTCCTATCGTTCAAGAGGCC
1 CCTATCATCATCGAAGAAGCACCTCCCACCGTTCAAGAGGCC
* *
1017655 CCTATCATCATCGAAGAAGCCCCTCCCACCGTTTAAGAGGCC
1 CCTATCATCATCGAAGAAGCACCTCCCACCGTTCAAGAGGCC
*
1017697 CCTGTCATC
1 CCTATCATC
1017706 GTTCAAGTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCATCGAAGAAGCACCTCCCACCGTTCAAGAGGCC
Found at i:1017708 original size:21 final size:20
Alignment explanation
Indices: 1017617--1017708 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
1017607 AATGCACCTA
* *
1017617 TCATCATTTAAGAGGCACCT
1 TCATCGTTTAAGAGGCCCCT
* *
1017637 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTTAAGAGGCCCCT
* ** *
1017658 ATCATCATCGAAGAAGCCCCT
1 -TCATCGTTTAAGAGGCCCCT
* *
1017679 CCCACCGTTTAAGAGGCCCCT
1 -TCATCGTTTAAGAGGCCCCT
1017700 GTCATCGTT
1 -TCATCGTT
1017709 CAAGTGGTCC
Statistics
Matches: 51, Mismatches: 19, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
20 1 0.02
21 49 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (20 bp):
TCATCGTTTAAGAGGCCCCT
Found at i:1019499 original size:39 final size:39
Alignment explanation
Indices: 1019445--1019531 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1019435 TCAAGTTGTA
1019445 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
1019484 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTT
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1019523 GATTTTGAT
1 GATTTTGAT
1019532 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1019858 original size:18 final size:18
Alignment explanation
Indices: 1019835--1019871 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1019825 CGAAATTTAT
1019835 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1019853 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1019871 A
1 A
1019872 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1020292 original size:25 final size:25
Alignment explanation
Indices: 1020258--1020307 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1020248 ATTATTTTTC
*
1020258 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1020283 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1020308 TAATCGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1020391 original size:20 final size:20
Alignment explanation
Indices: 1020368--1020409 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1020358 AGACCTGTTG
1020368 AAGGTAAATTCACAATGCGA
1 AAGGTAAATTCACAATGCGA
**
1020388 AAGGTAAATTCGTAATGCGA
1 AAGGTAAATTCACAATGCGA
1020408 AA
1 AA
1020410 TAAGCGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGGTAAATTCACAATGCGA
Found at i:1020441 original size:20 final size:20
Alignment explanation
Indices: 1020418--1020479 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
1020408 AATAAGCGTT
1020418 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
1020438 GCGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTCGCAAC
*
1020458 GCGATAGTAAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
1020478 GC
1 GC
1020480 TTATTTCGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:1020508 original size:20 final size:20
Alignment explanation
Indices: 1020483--1020532 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1020473 GCAACGCTTA
1020483 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTTGCAAATTTGAC
*
1020503 TTTCGCGTTGTAAATTTGAC
1 TTTCGCGTTGCAAATTTGAC
1020523 TTTCGCGTTG
1 TTTCGCGTTG
1020533 ATCGCAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTGAC
Found at i:1023183 original size:24 final size:24
Alignment explanation
Indices: 1023132--1023183 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1023122 ATCCGAGTAT
** *
1023132 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
1023156 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
1023180 TGAC
1 TGAC
1023184 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:1024089 original size:19 final size:19
Alignment explanation
Indices: 1024062--1024133 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
1024052 ACTAAAACCT
*
1024062 GTTGAGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
**
1024081 GTTGCGAATTTGACTTTC-
1 GTTGCGAATTTGAAATTCA
*
1024099 GCATTGCGAATTTGACTATTGCA
1 G--TTGCGAATTTGA-AATT-CA
1024122 -TTGCGAATTTGA
1 GTTGCGAATTTGA
1024134 CTTCCGTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 1 0.02
19 15 0.35
20 24 0.56
21 2 0.05
22 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:1024107 original size:20 final size:19
Alignment explanation
Indices: 1024082--1024136 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
1024072 TGAAATTCAG
1024082 TTGCGAATTTGACTTTCGCA
1 TTGCGAATTTGACTTT-GCA
1024102 TTGCGAATTTGACTATTGCA
1 TTGCGAATTTGACT-TTGCA
1024122 TTGCGAATTTGACTT
1 TTGCGAATTTGACTT
1024137 CCGTGTTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.91
21 2 0.06
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (19 bp):
TTGCGAATTTGACTTTGCA
Found at i:1024150 original size:40 final size:39
Alignment explanation
Indices: 1024061--1024152 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
1024051 AACTAAAACC
*
1024061 TGTTGAGAATTTGAAATTCAGTTGCGAATTTGACTTTCG
1 TGTTGAGAATTTGAAATTCAGTTGCGAATTTGACTTCCG
** * *
1024100 CATTGCGAATTTGACTATTGCA-TTGCGAATTTGACTTCCG
1 TGTTGAGAATTTGA-AATT-CAGTTGCGAATTTGACTTCCG
1024140 TGTTGAGAATTTG
1 TGTTGAGAATTTG
1024153 GAAAATCGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
39 11 0.26
40 30 0.70
41 2 0.05
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (39 bp):
TGTTGAGAATTTGAAATTCAGTTGCGAATTTGACTTCCG
Found at i:1024172 original size:21 final size:21
Alignment explanation
Indices: 1024146--1024189 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1024136 TCCGTGTTGA
1024146 GAATTTGGAAAATCGCAACGC
1 GAATTTGGAAAATCGCAACGC
*
1024167 GAATTTGGAAAATCGCAATGC
1 GAATTTGGAAAATCGCAACGC
1024188 GA
1 GA
1024190 TTTACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (21 bp):
GAATTTGGAAAATCGCAACGC
Found at i:1024246 original size:20 final size:19
Alignment explanation
Indices: 1024199--1024269 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
1024189 ATTTACATAT
1024199 TCGCGTTGCGAAATTGGAA
1 TCGCGTTGCGAAATTGGAA
* *
1024218 ACTGGGTTGCGAAATTGGAA
1 TC-GCGTTGCGAAATTGGAA
*
1024238 TTCGCGTTGCG-AATTTGAGA
1 -TCGCGTTGCGAAATTGGA-A
1024258 TCGCGTTGCGAA
1 TCGCGTTGCGAA
1024270 TTTGTTGGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 17 0.40
20 25 0.58
21 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (19 bp):
TCGCGTTGCGAAATTGGAA
Found at i:1029174 original size:15 final size:16
Alignment explanation
Indices: 1029149--1029179 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1029139 ATCTTTCTTT
1029149 CCCGTTCTGGATTTTG
1 CCCGTTCTGGATTTTG
1029165 CCCG-TCTGGATTTTG
1 CCCGTTCTGGATTTTG
1029180 ATCTACCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.06, C:0.26, G:0.26, T:0.42
Consensus pattern (16 bp):
CCCGTTCTGGATTTTG
Found at i:1031259 original size:3 final size:3
Alignment explanation
Indices: 1031253--1031336 Score: 100
Period size: 3 Copynumber: 27.7 Consensus size: 3
1031243 TCCATTTTTC
*
1031253 TAT TAT TAT TATT TAT TAT TAT TAT TAT T-T TAT ATAT TAA TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *
1031299 TAT TAT T-T TATT TAT TAT TAT TAA AAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1031337 CAAACAGGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 4 0.06
3 57 0.81
4 9 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1032673 original size:12 final size:12
Alignment explanation
Indices: 1032658--1032684 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1032648 GTTTACTTTA
1032658 ATTATTATTACT
1 ATTATTATTACT
1032670 ATTATTATTACT
1 ATTATTATTACT
1032682 ATT
1 ATT
1032685 TAGCCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATTACT
Found at i:1036822 original size:15 final size:15
Alignment explanation
Indices: 1036802--1036833 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1036792 GATCAATACC
1036802 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
1036817 TTTTGCATACATTCA
1 TTTTGCATACATGCA
1036832 TT
1 TT
1036834 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:1044170 original size:8 final size:8
Alignment explanation
Indices: 1044148--1044231 Score: 60
Period size: 8 Copynumber: 11.0 Consensus size: 8
1044138 TATTATGCTT
1044148 GAAGAAAA
1 GAAGAAAA
1044156 -AATGAAAA
1 GAA-GAAAA
1044164 GAAGAAAA
1 GAAGAAAA
1044172 GAA-AAAA
1 GAAGAAAA
1044179 GAAG--AA
1 GAAGAAAA
1044185 GAAGAAAA
1 GAAGAAAA
1044193 -AGAGAAAGA
1 GA-AGAAA-A
1044202 GAA-AAAA
1 GAAGAAAA
1044209 -AAGAGAAA
1 GAAGA-AAA
1044217 -AAGAGAAA
1 GAAGA-AAA
1044225 G-AGAAAA
1 GAAGAAAA
1044232 AAAAGAGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 23
0.74 0.00 0.26
Matches are distributed among these distances:
6 8 0.12
7 15 0.23
8 37 0.57
9 4 0.06
10 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (8 bp):
GAAGAAAA
Found at i:1044173 original size:21 final size:21
Alignment explanation
Indices: 1044149--1044254 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 21
1044139 ATTATGCTTG
1044149 AAGAAAAAATGAA-AAGAAGAA
1 AAGAAAAAA-GAAGAAGAAGAA
1044170 AAGAAAAAAGAAGAAGAAGAA
1 AAGAAAAAAGAAGAAGAAGAA
*
1044191 AA-AGAGAAAG-AGAA-AA-AA
1 AAGA-AAAAAGAAGAAGAAGAA
1044209 AAGAGAAAAAG-AGAA-AGAGAA
1 AAGA-AAAAAGAAGAAGA-AGAA
* *
1044230 AA-AAAAGAGAAAAAG-AGAA
1 AAGAAAAAAGAAGAAGAAGAA
1044249 AA-AAAA
1 AAGAAAA
1044255 GGGGTCAAGA
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
18 4 0.05
19 29 0.39
20 13 0.18
21 28 0.38
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (21 bp):
AAGAAAAAAGAAGAAGAAGAA
Found at i:1044177 original size:6 final size:6
Alignment explanation
Indices: 1044168--1044255 Score: 60
Period size: 6 Copynumber: 14.8 Consensus size: 6
1044158 TGAAAAGAAG
* * *
1044168 AAAAG- AAAA-A AGAAGA AGAAGA AAAAGA GAAAGAGA AAAA-A AAGAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAA-AGA AAAAGA AAAAGA
* *
1044215 AAAAGA GAAAGAGA AAAA-A AAGAGA AAAAGA GAAA-A AAAAG
1 AAAAGA -AAA-AGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
1044256 GGGTCAAGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
5 19 0.29
6 29 0.44
7 12 0.18
8 6 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:1044198 original size:17 final size:17
Alignment explanation
Indices: 1044170--1044251 Score: 89
Period size: 17 Copynumber: 4.9 Consensus size: 17
1044160 AAAAGAAGAA
*
1044170 AAGAAAAA-AGAAGAAG
1 AAGAAAAAGAGAAAAAG
*
1044186 AAGAAAAAGAGAAAGAG
1 AAGAAAAAGAGAAAAAG
*
1044203 AAAAAAAAGAGAAAAAG
1 AAGAAAAAGAGAAAAAG
* *
1044220 -AGAAAGAGA-AAAAAA
1 AAGAAAAAGAGAAAAAG
1044235 AGAGAAAAAGAGAAAAA
1 A-AGAAAAAGAGAAAAA
1044252 AAAGGGGTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.09
16 15 0.28
17 29 0.54
18 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAGAAAAAG
Found at i:1044221 original size:25 final size:25
Alignment explanation
Indices: 1044152--1044249 Score: 128
Period size: 25 Copynumber: 3.8 Consensus size: 25
1044142 ATGCTTGAAG
* *
1044152 AAAAAATGA-AAAGAAGA-AAAGAAA
1 AAAAAAAGAGAAA-AAGAGAAAGAGA
1044176 AAAGAAGAAGAAGAAAAAGAGAAAGAGA
1 AAA-AA-AAG-AGAAAAAGAGAAAGAGA
1044204 AAAAAAAGAGAAAAAGAGAAAGAGA
1 AAAAAAAGAGAAAAAGAGAAAGAGA
1044229 AAAAAAAGAGAAAAAGAGAAA
1 AAAAAAAGAGAAAAAGAGAAA
1044250 AAAAAGGGGT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
24 3 0.04
25 40 0.60
26 5 0.07
27 7 0.10
28 12 0.18
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (25 bp):
AAAAAAAGAGAAAAAGAGAAAGAGA
Found at i:1045132 original size:114 final size:114
Alignment explanation
Indices: 1044932--1045151 Score: 341
Period size: 114 Copynumber: 1.9 Consensus size: 114
1044922 CACGTTCTCG
* * * *
1044932 TAGTAGAAATAAGGAGACTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATTC
* * * *
1044997 GGTATGAACCTCAAAATCAATCATTGGATTTAAAAGATGAATTTGCTCA
66 GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
* *
1045046 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTC
1 TAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATTC
*
1045111 GGTAGGAACCACAGAACCAATCATTGGAATTAAAAGATGAA
66 GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAA
1045152 CTGCATGATC
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGATTC
GGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
Found at i:1046173 original size:113 final size:112
Alignment explanation
Indices: 1045880--1046975 Score: 1320
Period size: 113 Copynumber: 9.7 Consensus size: 112
1045870 AGTGCCAGTT
*
1045880 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * ** *
1045945 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 TCAA-CTTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1045993 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 -AA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* *
1046058 GTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCTTTTCTAGAG
64 GTTCAACTTTT-GTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046108 AAAGTTCATAATGATAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * * * *
1046173 TCGACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-G
66 TC-AACTTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046220 TAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAAT
1 -AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
*
1046281 TTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCC--AG
62 TTGTTCAAC-TTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046331 AAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAAGAAGAAGTTCATAATGAGAA-AATTTTG
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTTG
* * * * *
1046394 TTCAACCTTTT-TCATG-ACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCC--AG
65 TTCAA-CTTTTGT-TTGAATTC-ATCAT---------TCGAT--GGATCAGCTTTTCCAGAG
* * *
1046452 AAAGTTCATAATGAGAAGAACTTATCTAAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTAT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * ** *
1046516 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 TCAA-CTTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046564 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 -AA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
*
1046629 GTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
64 GTTCAACTTTT-GTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046679 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * * * *
1046744 TCGACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-G
66 TC-AACTTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046791 TAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAAT
1 -AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
*
1046852 TTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCC--AG
62 TTGTTCAAC-TTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
*
1046902 AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAA-AATTTTG
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA-TTTG
1046965 TTCAACCTTTT
65 TTCAA-CTTTT
1046976 TCATGACTCT
Statistics
Matches: 865, Mismatches: 66, Indels: 106
0.83 0.06 0.10
Matches are distributed among these distances:
106 3 0.00
107 25 0.03
108 4 0.00
109 12 0.01
110 106 0.12
111 8 0.01
112 123 0.14
113 230 0.27
114 57 0.07
115 173 0.20
116 24 0.03
119 4 0.00
121 90 0.10
122 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (112 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
TCAACTTTTGTTTGAATTCATCATTCGATGGATCAGCTTTTCCAGAG
Found at i:1046540 original size:121 final size:110
Alignment explanation
Indices: 1046436--1047081 Score: 712
Period size: 113 Copynumber: 5.7 Consensus size: 110
1046426 AGATAGATCA
1046436 GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATA
1 GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATA
* *
1046501 ATGAGAAGAATTTATTCAACCTTTTGTTTGAATTCATCATTTGAT
66 ATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTAGAT
* * * ** * *
1046546 GGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 GCATCAACTTTTCCA--G-AA-AGTTCATAATGAGAAGAACTTATCTAAAG-AGGAAGAAGAAGT
* * *
1046611 TCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCATTCGAT
61 TCATAATGAGAAGAATTTGTTCAACCTTTT-GTTTGAATTCATCATTAGAT
* * * * *
1046661 GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
1 GCATCAACTTTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTAAAG-AGGAAGAAGAAGTTC
* *
1046726 ATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGAT
63 ATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTAGAT
* * * * * *
1046774 GGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCT---GAAGAAGAAGAAAT
1 GCATCAACTTTTCCA-G-AAAGTTCATAATGAGAAGAACT--T-ATCTAAAGAGGAAGAAGAAGT
* *
1046836 TCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGAT
61 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTAGAT
* *
1046886 GGATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATA
* *
1046951 ATGAGAA-AATTTTGTTCAACCTTTT-TCATG-ACTCTATCATAGAAGGAGATAGAT
66 ATGAGAAGAA-TTTGTTCAACCTTTTGT-TTGAATTC-ATCAT---------TAGAT
1047005 CAGCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCA
1 --GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCA
1047070 TAATGAGAAGAA
64 TAATGAGAAGAA
1047082 CTTATCTGAA
Statistics
Matches: 465, Mismatches: 39, Indels: 52
0.84 0.07 0.09
Matches are distributed among these distances:
107 4 0.01
108 1 0.00
109 6 0.01
110 76 0.16
111 2 0.00
112 74 0.16
113 117 0.25
114 39 0.08
115 65 0.14
116 4 0.01
117 1 0.00
119 4 0.01
121 70 0.15
122 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (110 bp):
GCATCAACTTTTCCAGAAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTAGAT
Found at i:1046753 original size:228 final size:224
Alignment explanation
Indices: 1045851--1047081 Score: 1371
Period size: 228 Copynumber: 5.4 Consensus size: 224
1045841 GATTTAAATC
* * * *
1045851 CATCATTCAATGGATCAACAGTGCCAGTTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1045916 AAAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTGTTTGAATTCATCATTCGATGGATCA
* * ** *
1045981 GCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
129 ACTTTTCCAGAG-AA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* *
1046046 TGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
192 TGAGAAGAATTTGTTCAACCTTTT-GTTTGAATT
* * * *
1046079 CATCATTCGATGGATCAGCTTTTCTAGAGAAAGTTCATAATGATAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTTCCAG-GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1046144 AGAAGAAGTTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTC-AACTTTTGTTTGAATTCATCATTCGATGGATCA
* * *
1046209 ACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCAT
129 ACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCAT
*
1046269 AATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
190 AATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
* *
1046304 CATCATTCGATGGATCAACTTTTCCA-GAAAGTTCATAATGAGAAGAACTTATCTGAA-AAGGAA
1 CATCATTCGATGGATCAACATTTCCAGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
1046367 GAAGAAGTTCATAATGAGAA-AATTTTGTTCAACCTTTT-TCATG-ACTCTATCATAGAAGGAGA
66 GAAGAAGTTCATAATGAGAAGAA-TTTGTTCAA-CTTTTGT-TTGAATTC-ATCAT---------
* * * *
1046429 TAGATCAGCATCAACTTTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTAAAG-AGGAAGAA
118 TCGAT--GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
1046491 GAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGTTTGAATT
181 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
* * **
1046535 CATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 CATCATTCGATGGATCAACATTTCCAG-G-AA-AGTTCATAATGAGAAGAACTCATCTGAAGAAG
* *
1046600 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGAT
63 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT-GTTTGAATTCATCATTCGATGGAT
* *
1046665 CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
127 CAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
1046730 TGAGAAGAATTTGTTCGACCTTTTGTTTGAATT
192 TGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
* * *
1046763 CATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 CATCATTCGATGGATCAACATTTCCAGG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
1046828 -GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGA
62 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-TTTTGTTTGAATTCATCATTCGATGGA
*
1046889 TCAACTTTTCC--AGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATA
126 TCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
1046951 ATGAGAA-AATTTTGTTCAACCTTTT-TCATG-ACT
191 ATGAGAAGAA-TTTGTTCAACCTTTTGT-TTGAATT
* * * *
1046984 CTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCA-GAAAGTTCATAATGAGAAGAACTTAT
1 C-ATCAT---------TCGAT--GGATCAACATTTCCAGGAAAGTTCATAATGAGAAGAACTCAT
*
1047048 CTAAAG-AGGAAGAAGAAGTTCATAATGAGAAGAA
54 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1047082 CTTATCTGAA
Statistics
Matches: 871, Mismatches: 73, Indels: 115
0.82 0.07 0.11
Matches are distributed among these distances:
221 13 0.01
222 90 0.10
223 61 0.07
225 125 0.14
226 48 0.06
227 43 0.05
228 231 0.27
229 29 0.03
230 4 0.00
231 121 0.14
232 2 0.00
233 24 0.03
234 2 0.00
235 32 0.04
236 41 0.05
237 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (224 bp):
CATCATTCGATGGATCAACATTTCCAGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTGTTTGAATTCATCATTCGATGGATCAAC
TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTGTTTGAATT
Found at i:1047000 original size:571 final size:571
Alignment explanation
Indices: 1045880--1047086 Score: 2324
Period size: 571 Copynumber: 2.1 Consensus size: 571
1045870 AGTGCCAGTT
* * * *
1045880 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTTATCTAAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTAT
1045945 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAG
65 TCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAG
1046010 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTG
130 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTG
* *
1046075 AATTCATCATTCGATGGATCAGCTTTTCTAGAGAAAGTTCATAATGATAAGAACTCATCTGAAGA
195 AATTCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
1046140 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGG
260 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGG
1046205 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
325 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
1046270 ATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAAG
390 ATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAAG
1046335 TTCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTCAAC
455 TTCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTCAAC
1046400 CTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG
520 CTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG
1046452 AAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
1 AAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
1046517 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGA
66 CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGA
1046582 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGA
131 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGA
1046647 ATTCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
196 ATTCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1046712 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGGA
261 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGGA
1046777 TCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAA
326 TCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAA
1046842 TGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAAGT
391 TGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAAGT
*
1046907 TCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTCAACC
456 TCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTCAACC
1046972 TTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG
521 TTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG
*
1047023 AAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTAT
1 AAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTAT
1047087 CTGAAGAGTA
Statistics
Matches: 626, Mismatches: 9, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
571 597 0.95
572 29 0.05
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (571 bp):
AAAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
CAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGA
ATTCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCGACCTTTTGTTTGAATTCATCATTTGATGGA
TCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAA
TGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACTTTTCCAGAAAGT
TCATAATGAGAAGAACTTATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTCAACC
TTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG
Found at i:1047067 original size:39 final size:39
Alignment explanation
Indices: 1047024--1047117 Score: 170
Period size: 39 Copynumber: 2.4 Consensus size: 39
1047014 CTTTTCCAGA
1047024 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAG
* *
1047063 AAGTTCATAATGAGAAGAACTTATCTGAAGAGTAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAG
1047102 AAGTTCATAATGAGAA
1 AAGTTCATAATGAGAA
1047118 AATTTTGTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAG
Found at i:1047093 original size:160 final size:160
Alignment explanation
Indices: 1046903--1047244 Score: 666
Period size: 160 Copynumber: 2.1 Consensus size: 160
1046893 CTTTTCCAGA
1046903 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
1046968 AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAAAGTTCATA
66 AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAAAGTTCATA
1047033 ATGAGAAGAACTTATCTAAAGAGGAAGAAG
131 ATGAGAAGAACTTATCTAAAGAGGAAGAAG
*
1047063 AAGTTCATAATGAGAAGAACTTATCTGAAGAGTAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
*
1047128 AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATTAGCATCAACTTTTCCAGAAAGTTCATA
66 AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAAAGTTCATA
1047193 ATGAGAAGAACTTATCTAAAGAGGAAGAAG
131 ATGAGAAGAACTTATCTAAAGAGGAAGAAG
1047223 AAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTT
1047245 GTTCAACCCT
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 180 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (160 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAAAGTTCATA
ATGAGAAGAACTTATCTAAAGAGGAAGAAG
Found at i:1047248 original size:20 final size:20
Alignment explanation
Indices: 1047186--1047249 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
1047176 TTTCCAGAAA
1047186 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
1047206 -ATC-TAAAGAGGAAGAAGAA
1 GTTCATAATGA-GAAGAACTT
1047225 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
1047245 GTTCA
1 GTTCA
1047250 ACCCTATTCC
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 5 0.16
19 8 0.26
20 13 0.42
21 5 0.16
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:1047281 original size:121 final size:121
Alignment explanation
Indices: 1047063--1047282 Score: 311
Period size: 121 Copynumber: 1.8 Consensus size: 121
1047053 GAGGAAGAAG
* * *
1047063 AAGTTCATAATGAGAAGAACTTATCTGAAGAGTAAGAAGAAGTTCATAATGAGAAAATTTTGTTC
1 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAAATCTTGTTC
* * * *
1047128 AACCTTTTTCATGACTCTATCATAGAAGGAGATAGATTAGCATCAACTTTTCCAGA
66 AACCTATTCCATAACTCTATCACAGAAGGAGATAGATTAGCATCAACTTTTCCAGA
1047184 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAA-CTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAA-AATCTTGTT
* *
1047248 CAACCCTATTCCA-AATTAC-ATCACAGAATGAGATA
65 CAA-CCTATTCCATAACT-CTATCACAGAAGGAGATA
1047283 TTATCTTCCC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
121 77 0.89
122 10 0.11
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (121 bp):
AAGTTCATAATGAGAAGAACTTATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAAATCTTGTTC
AACCTATTCCATAACTCTATCACAGAAGGAGATAGATTAGCATCAACTTTTCCAGA
Found at i:1047766 original size:7 final size:6
Alignment explanation
Indices: 1047738--1047772 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
1047728 CTTAATTGCG
1047738 AAAATT AAAATT AAAATT AAAATTT AAAAATT AAA
1 AAAATT AAAATT AAAATT AAAA-TT -AAAATT AAA
1047773 TTCAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:1049066 original size:3 final size:3
Alignment explanation
Indices: 1049060--1049091 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1049050 AAAATATTAT
1049060 TAA TAA TAA TAA TAA TAA TAA TAA -AA -AA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1049092 TATACGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1049760 original size:106 final size:106
Alignment explanation
Indices: 1049612--1050599 Score: 1611
Period size: 106 Copynumber: 9.3 Consensus size: 106
1049602 GAGTGGCACG
* * * * **
1049612 ATATCCTCCGTTGTGGAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGTC-
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAG-CG
* * *
1049676 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1049718 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
* *
1049783 TCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTAGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1049824 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1049889 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1049930 ATATCCTTTGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
* * * *
1049995 TCCCTTCGTTGTTAAGTTGAACTTGCATTGTCTGGAGTTCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1050036 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1050101 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1050142 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1050207 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1050248 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTTACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
1050313 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1050354 ATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTTTTGACAACCAGCGG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
*
1050419 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
1050460 ATATCCTTCACTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTATTTATTGACAACCAGCCG
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
* * *
1050525 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1050566 A-ATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
1 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
1050600 TGAAACTGAA
Statistics
Matches: 828, Mismatches: 53, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
105 31 0.04
106 797 0.96
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:1055500 original size:3 final size:3
Alignment explanation
Indices: 1055489--1055523 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1055479 AAATTAAAAA
*
1055489 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1055524 ATAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1055588 original size:3 final size:3
Alignment explanation
Indices: 1055580--1055647 Score: 88
Period size: 3 Copynumber: 23.3 Consensus size: 3
1055570 GGTGTCTACA
1055580 ATT ATT ATT ATT -TT A-T ATT ATT ATT ATT ATT ATT ATT -TT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
**
1055623 ATT ATT ATT AAA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1055648 CAAATAGGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
2 6 0.11
3 48 0.84
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1056383 original size:11 final size:11
Alignment explanation
Indices: 1056367--1056391 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1056357 TCCGGTAAGG
1056367 GAAGCTAGAGA
1 GAAGCTAGAGA
1056378 GAAGCTAGAGA
1 GAAGCTAGAGA
1056389 GAA
1 GAA
1056392 TTTTTCTCTC
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:0.48, C:0.08, G:0.36, T:0.08
Consensus pattern (11 bp):
GAAGCTAGAGA
Found at i:1070046 original size:32 final size:32
Alignment explanation
Indices: 1070010--1070095 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
1070000 TAAATGCTAC
* *
1070010 GCATTATCTAAATGCAACACTGACACTCTTGT
1 GCATTATCTGAATGCAACACTGACACTCATGT
* * * *
1070042 GCATTATCTGAATGCAACATTTACTCTGATGT
1 GCATTATCTGAATGCAACACTGACACTCATGT
1070074 GCATTATCTGAATGCAACACTG
1 GCATTATCTGAATGCAACACTG
1070096 CTAGTATCTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (32 bp):
GCATTATCTGAATGCAACACTGACACTCATGT
Found at i:1094035 original size:23 final size:24
Alignment explanation
Indices: 1093995--1094044 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
1093985 ATTAAAAAAT
1093995 AAATAAAATTAACGTACT-TTCATA
1 AAATAAAATTAACGTACTATT-ATA
**
1094019 AAAT-AAATTAATTTACTATTATA
1 AAATAAAATTAACGTACTATTATA
1094042 AAA
1 AAA
1094045 ATTGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAATTAACGTACTATTATA
Found at i:1099500 original size:64 final size:63
Alignment explanation
Indices: 1099361--1099501 Score: 219
Period size: 63 Copynumber: 2.2 Consensus size: 63
1099351 GTATGATTTC
* * * *
1099361 TATCAGACTATTACATATTGGGCATTTGTTTTATTTTTAATTACTTTAAACTGCGTTTAAAAT
1 TATCAGACTCTTACAGACTGGGCATTTGGTTTATTTTTAATTACTTTAAACTGCGTTTAAAAT
* *
1099424 TGTCAGACTCTTATAGACTGGGCATTTGGTTTATTTTTAATTACTTTGAAACTGCGTTTAAAAT
1 TATCAGACTCTTACAGACTGGGCATTTGGTTTATTTTTAATTACTTT-AAACTGCGTTTAAAAT
1099488 TATCAGACTCTTAC
1 TATCAGACTCTTAC
1099502 TTTTAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
63 41 0.59
64 28 0.41
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (63 bp):
TATCAGACTCTTACAGACTGGGCATTTGGTTTATTTTTAATTACTTTAAACTGCGTTTAAAAT
Found at i:1102050 original size:24 final size:24
Alignment explanation
Indices: 1102023--1102069 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1102013 CTGCTCATAT
*
1102023 AATTTGCACCGAAGTGTCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
1102047 AATTTGCACCGAAGTGCCACGTA
1 AATTTGCACCGAAGTGCCACGTA
1102070 TATATGTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:1102098 original size:47 final size:47
Alignment explanation
Indices: 1102044--1102135 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
1102034 AAGTGTCACG
** * *
1102044 TAGAATTTG-CACCGAAGTGCCACGTATATATGTCCCAAAGGACCGAA
1 TAGAATTTGTC-CCGAAGAACCACGTAGAAATGTCCCAAAGGACCGAA
* *
1102091 TAGAATTTGTCCCGAAGAACCACGTAGAAATGTCTCAAATGACCG
1 TAGAATTTGTCCCGAAGAACCACGTAGAAATGTCCCAAAGGACCG
1102136 CGTATAACTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 37 0.97
48 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (47 bp):
TAGAATTTGTCCCGAAGAACCACGTAGAAATGTCCCAAAGGACCGAA
Found at i:1102118 original size:24 final size:24
Alignment explanation
Indices: 1102040--1102119 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 24
1102030 ACCGAAGTGT
**
1102040 CACGTAGAATTTG-CACCGAAGTGC
1 CACGTAGAATTTGTC-CCGAAGAAC
* * * *
1102064 CACGTA-TATATGTCCCAAAGGAC
1 CACGTAGAATTTGTCCCGAAGAAC
*
1102087 CGA-ATAGAATTTGTCCCGAAGAAC
1 C-ACGTAGAATTTGTCCCGAAGAAC
1102111 CACGTAGAA
1 CACGTAGAA
1102120 ATGTCTCAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (24 bp):
CACGTAGAATTTGTCCCGAAGAAC
Found at i:1102291 original size:15 final size:15
Alignment explanation
Indices: 1102273--1102345 Score: 56
Period size: 16 Copynumber: 4.7 Consensus size: 15
1102263 CACATATGGT
*
1102273 ATTTTCACGTAGAAC
1 ATTTTCACATAGAAC
* * *
1102288 ATTTTTCACTTGGCAC
1 A-TTTTCACATAGAAC
*
1102304 ATTTTCACATAGAGC
1 ATTTTCACATAGAAC
* * *
1102319 ATATTCAAATATAAAC
1 ATTTTCACATA-GAAC
1102335 ATTTTCACATA
1 ATTTTCACATA
1102346 CCAATAAAAT
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
15 20 0.47
16 23 0.53
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (15 bp):
ATTTTCACATAGAAC
Found at i:1104291 original size:85 final size:85
Alignment explanation
Indices: 1104202--1104361 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
1104192 GGACGCCAAA
* * **
1104202 TCTGAGAATGATC-TAGCTCCTTCAGATTTGAGGACACCAAGTAATAATCATGGGGTGATTTGCT
1 TCTGAGAACGATCTTA-CTCCTTCAAATTTGAGGACACCAAGTAATAATCAAAGGGTGATTTGCT
1104266 CCTTCATTTGAGAACATCAAT
65 CCTTCATTTGAGAACATCAAT
* * ** ** * *
1104287 TCTGAGAACGGTCTTACTCCTTTAAATTTGAGGATGCCAAGTCGTAGTCAAAGGGTGATTTGTTC
1 TCTGAGAACGATCTTACTCCTTCAAATTTGAGGACACCAAGTAATAATCAAAGGGTGATTTGCTC
*
1104352 TTTCATTTGA
66 CTTCATTTGA
1104362 AGACGCCAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
85 59 0.97
86 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (85 bp):
TCTGAGAACGATCTTACTCCTTCAAATTTGAGGACACCAAGTAATAATCAAAGGGTGATTTGCTC
CTTCATTTGAGAACATCAAT
Found at i:1104401 original size:43 final size:44
Alignment explanation
Indices: 1104312--1104413 Score: 170
Period size: 43 Copynumber: 2.3 Consensus size: 44
1104302 ACTCCTTTAA
*
1104312 ATTTGAGGATGCCAAGTCGTAGTCAAAGGGTGATTTGTTCTTTC
1 ATTTGAGGACGCCAAGTCGTAGTCAAAGGGTGATTTGTTCTTTC
*
1104356 ATTTGAAGACGCCAAGTCGTAGTCAAA-GGTGATTTGTTCTTTC
1 ATTTGAGGACGCCAAGTCGTAGTCAAAGGGTGATTTGTTCTTTC
*
1104399 ATTTGAGGACACCAA
1 ATTTGAGGACGCCAA
1104414 ATCTAAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
43 29 0.54
44 25 0.46
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (44 bp):
ATTTGAGGACGCCAAGTCGTAGTCAAAGGGTGATTTGTTCTTTC
Found at i:1120274 original size:111 final size:111
Alignment explanation
Indices: 1120086--1120466 Score: 595
Period size: 111 Copynumber: 3.4 Consensus size: 111
1120076 AGTGTAGGGG
*
1120086 ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCGCCAATAACTCTATCCAA
1 ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTCTATCCAA
*
1120151 TCAACAGAAGACCTAAAAGGAGAAGAAACCCAGTCCAGTGTGGAGA
66 TTAACAGAAGACCTAAAAGGAGAAGAAACCCAGTCCAGTGTGGAGA
* * * *
1120197 ATAGTGTTGCTATAAATCTGGATAAAACTATAACCAAGCTCTCTGTCCCCAATAACACAATCCAA
1 ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTCTATCCAA
* * *
1120262 TTGACAGGAGACCTAAAAGGAGCAGAAACCCAGTCCAGTGTAGG-GA
66 TTAACAGAAGACCTAAAAGGAGAAGAAACCCAGTCCAGTGT-GGAGA
* *
1120308 ATAGTGTTGCTATAAATCTGGATAAAAGTACAATCAAGCTCTCTGTCCCTAATAACTCTATCCAA
1 ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTCTATCCAA
* * *
1120373 TTAACAGAAGACCTAAAAGGAGCAA-AAACCCTGTCCAGTGTAGAGT
66 TTAACAGAAGACCTAAAAGGAG-AAGAAACCCAGTCCAGTGTGGAGA
*
1120419 GTAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCC
1 ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCC
1120467 TCGATAGCTC
Statistics
Matches: 244, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
110 1 0.00
111 240 0.98
112 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (111 bp):
ATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTCTATCCAA
TTAACAGAAGACCTAAAAGGAGAAGAAACCCAGTCCAGTGTGGAGA
Found at i:1120837 original size:111 final size:111
Alignment explanation
Indices: 1120690--1120908 Score: 300
Period size: 111 Copynumber: 2.0 Consensus size: 111
1120680 GGGAACACCT
* * ** *
1120690 TAAACCTCTACCAAGCATTAGATTGAAAGGGAAAGATCCGGAGGGTAAAAGGAGGGAATGGCATA
1 TAAACCTCCACCAAGCATTAGATGGAAAGGGAAAGATCCGGAGAATAAAAGGAGGGAATGG-AAA
1120755 A-TTTGGGTGAAAATAGGGGTCATTTATCCACTCATTATGTACCCCC
65 ATTTTGGGTGAAAATAGGGGTCATTTATCCACTCATTATGTACCCCC
** *
1120801 TAAACCTCCACCAAGCATTCA-ATGGGAAA-GGAAAGATCCGGAGAATAGCAGGAGGGATTGGAA
1 TAAACCTCCACCAAGCATT-AGAT-GGAAAGGGAAAGATCCGGAGAATAAAAGGAGGGAATGGAA
* *
1120864 AATTTTTGGTGAAAATAGGGGTCATTTATCCACTCATTTTGTACC
64 AATTTTGGGTGAAAATAGGGGTCATTTATCCACTCATTATGTACC
1120909 ACAACCACAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
110 3 0.03
111 87 0.92
112 5 0.05
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (111 bp):
TAAACCTCCACCAAGCATTAGATGGAAAGGGAAAGATCCGGAGAATAAAAGGAGGGAATGGAAAA
TTTTGGGTGAAAATAGGGGTCATTTATCCACTCATTATGTACCCCC
Found at i:1122065 original size:26 final size:26
Alignment explanation
Indices: 1122036--1122087 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
1122026 CCTAAATAGA
*
1122036 TTTTATAATTATTATTATTCTTTGTG
1 TTTTATAATTATTATTATTCTGTGTG
1122062 TTTTATAATTATTATTATTCTGTGTG
1 TTTTATAATTATTATTATTCTGTGTG
1122088 ATGGTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.63
Consensus pattern (26 bp):
TTTTATAATTATTATTATTCTGTGTG
Found at i:1122285 original size:18 final size:18
Alignment explanation
Indices: 1122262--1122298 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1122252 AGAGAATGAT
1122262 CTTTTAAGAATAGCTAGG
1 CTTTTAAGAATAGCTAGG
1122280 CTTTTAAGAATAGCTAGG
1 CTTTTAAGAATAGCTAGG
1122298 C
1 C
1122299 CAAGTGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (18 bp):
CTTTTAAGAATAGCTAGG
Found at i:1125347 original size:3 final size:3
Alignment explanation
Indices: 1125339--1125373 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1125329 TAGTTTATCC
1125339 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1125374 TTAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1126669 original size:37 final size:36
Alignment explanation
Indices: 1126635--1126703 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
1126625 TACAAATTGT
1126635 AAAATATTTATAT-ATTTTCTTTAAAAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTAAAAAATTAAATTC
* *
1126671 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTAAAAAATTAAA
1126704 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 25 0.83
37 5 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTAAAAAATTAAATTC
Found at i:1127714 original size:2 final size:2
Alignment explanation
Indices: 1127707--1127754 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1127697 CTGAAATGTA
1127707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1127749 AT AT AT
1 AT AT AT
1127755 GTGGTCGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1129718 original size:22 final size:21
Alignment explanation
Indices: 1129688--1129731 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
1129678 TAAAATACTT
1129688 ATTTAAATTTAAAAATAAT-TAA
1 ATTTAAA-TT-AAAATAATATAA
*
1129710 ATTTTAATTAAAATAATATAA
1 ATTTAAATTAAAATAATATAA
1129731 A
1 A
1129732 ATAAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 6 0.30
22 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTAAATTAAAATAATATAA
Found at i:1131507 original size:21 final size:21
Alignment explanation
Indices: 1131466--1131507 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1131456 GAATCTAAGA
*
1131466 TAAATATTTTGGTTAAAATAT
1 TAAATATTTTGGTCAAAATAT
*
1131487 TAAATATGTTT-GTCAACATAT
1 TAAATAT-TTTGGTCAAAATAT
1131508 CACTGGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (21 bp):
TAAATATTTTGGTCAAAATAT
Found at i:1132324 original size:54 final size:54
Alignment explanation
Indices: 1132239--1132353 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
1132229 CCATGGCCGT
* * *
1132239 CACCGTTGACATTATCAAAATGTCTTGCCGCCACAACCAAAACTAGTATCCACC
1 CACCGTAGACATTATCAAAACGTCTTACCGCCACAACCAAAACTAGTATCCACC
1132293 CACCGTAGACATTATCAAAACGTCTTACCGCCACAACCAAAACTAGTATCCACC
1 CACCGTAGACATTATCAAAACGTCTTACCGCCACAACCAAAACTAGTATCCACC
1132347 CACCGTA
1 CACCGTA
1132354 AAACTGCACC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.35, C:0.35, G:0.10, T:0.20
Consensus pattern (54 bp):
CACCGTAGACATTATCAAAACGTCTTACCGCCACAACCAAAACTAGTATCCACC
Found at i:1134134 original size:23 final size:23
Alignment explanation
Indices: 1134098--1134143 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1134088 ATTATATATT
* *
1134098 TTAAATATT-TTTTTATATTTTTA
1 TTAAAAATTATTTTTAT-TCTTTA
1134121 TTAAAAATTATTTTTATTCTTTA
1 TTAAAAATTATTTTTATTCTTTA
1134144 AAATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTAAAAATTATTTTTATTCTTTA
Found at i:1141682 original size:65 final size:65
Alignment explanation
Indices: 1141606--1141733 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 65
1141596 ATTCTGTTTA
* * * *
1141606 GGTCACTCAACTATTATTTTTTTAAATCATACCTAATGTTACATTTTGATTTATTTTAGTCACTT
1 GGTCACTCAACTATCATTTTCTTAAATCATACCTAACGCTACATTTTGATTTATTTTAGTCACTT
*
1141671 GGTCACTCAACTATCATTTTCTTAAATCATATCTAACGCTACATTTTGATTTATTTTAGTCAC
1 GGTCACTCAACTATCATTTTCTTAAATCATACCTAACGCTACATTTTGATTTATTTTAGTCAC
1141734 CCACCATTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (65 bp):
GGTCACTCAACTATCATTTTCTTAAATCATACCTAACGCTACATTTTGATTTATTTTAGTCACTT
Found at i:1142362 original size:2 final size:2
Alignment explanation
Indices: 1142355--1142385 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1142345 ATCAAATTAA
1142355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1142386 ATTGTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1144002 original size:31 final size:27
Alignment explanation
Indices: 1143966--1144046 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 27
1143956 TTGAGATAAT
1143966 ATTATAATTTTATTTTATATATTTAAATATA
1 ATTATAATTTTATTTTATATATTT---T-TA
**
1143997 ATTATAATAATATTTT-TATTATTTTTA
1 ATTATAATTTTATTTTATA-TATTTTTA
*
1144024 ATTA-AATTTTATTTTACATATTT
1 ATTATAATTTTATTTTATATATTT
1144047 GATGGATCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 14 0.33
27 7 0.16
28 1 0.02
30 2 0.05
31 19 0.44
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTATAATTTTATTTTATATATTTTTA
Found at i:1145143 original size:29 final size:29
Alignment explanation
Indices: 1145111--1145186 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 29
1145101 TTTCTTCGTT
*
1145111 TAAATACTTAAAATATTTTTTTATCAAAA
1 TAAATACTTAAATTATTTTTTTATCAAAA
* *
1145140 TAAATACTTAAACTTAGTTTTTTGTCAAAA
1 TAAATACTTAAA-TTATTTTTTTATCAAAA
*
1145170 TAAATAATTAAATTATT
1 TAAATACTTAAATTATT
1145187 AATTAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 16 0.39
30 25 0.61
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (29 bp):
TAAATACTTAAATTATTTTTTTATCAAAA
Found at i:1164256 original size:16 final size:17
Alignment explanation
Indices: 1164231--1164263 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1164221 TTGTAAATAT
1164231 AATAATTTTTTATTAAA
1 AATAATTTTTTATTAAA
1164248 AATAA-TTTTTATTAAA
1 AATAATTTTTTATTAAA
1164264 TTAAAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATAATTTTTTATTAAA
Found at i:1169243 original size:16 final size:16
Alignment explanation
Indices: 1169220--1169266 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
1169210 TTACTATTCA
1169220 CATGAATAGTAAAATT
1 CATGAATAGTAAAATT
* *
1169236 CGTGAATAGTAAATTT
1 CATGAATAGTAAAATT
1169252 CATGAATAGTAAAAT
1 CATGAATAGTAAAAT
1169267 CTAATCGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (16 bp):
CATGAATAGTAAAATT
Found at i:1173772 original size:49 final size:49
Alignment explanation
Indices: 1173713--1173810 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
1173703 GGACCTAATA
1173713 ATGCACCGAAAGTTGCATTAATAAGTTGGCAGCAATAGTTGAAAGTTGG
1 ATGCACCGAAAGTTGCATTAATAAGTTGGCAGCAATAGTTGAAAGTTGG
*
1173762 ATGCACCGAAAGTTGCATTAATAAGTTGGCATCAATAGTTGAAAGTTGG
1 ATGCACCGAAAGTTGCATTAATAAGTTGGCAGCAATAGTTGAAAGTTGG
1173811 CAGCATGATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (49 bp):
ATGCACCGAAAGTTGCATTAATAAGTTGGCAGCAATAGTTGAAAGTTGG
Found at i:1188632 original size:86 final size:86
Alignment explanation
Indices: 1188532--1188701 Score: 297
Period size: 86 Copynumber: 2.0 Consensus size: 86
1188522 CGTGTTAAGC
*
1188532 TTTAATAATGGAGTACCAAAATGAAACAAAAGCTAAACATTATGTATGATTTTTAAAAAAATT-A
1 TTTAATAATGGAGTACCAAAATGAAACAAAAGCTAAACATTAGGTATGATTTTTAAAAAAATTGA
1188596 AAAGTTTAGGTACTAAAACAGT
66 AAA-TTTAGGTACTAAAACAGT
* *
1188618 TTTAATAATGGAGTATCAAAATGAAACAAAAGCTAAACATTAGGTATGATTTTTTAAAAAATTGA
1 TTTAATAATGGAGTACCAAAATGAAACAAAAGCTAAACATTAGGTATGATTTTTAAAAAAATTGA
1188683 AAATTTAGGTACTAAAACA
66 AAATTTAGGTACTAAAACA
1188702 TACCGAAACT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 76 0.95
87 4 0.05
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (86 bp):
TTTAATAATGGAGTACCAAAATGAAACAAAAGCTAAACATTAGGTATGATTTTTAAAAAAATTGA
AAATTTAGGTACTAAAACAGT
Found at i:1195945 original size:23 final size:23
Alignment explanation
Indices: 1195919--1195966 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1195909 ATAAAGTACA
* *
1195919 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
1195942 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
1195965 AT
1 AT
1195967 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:1196374 original size:21 final size:22
Alignment explanation
Indices: 1196349--1196400 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
1196339 ACACTTTACA
*
1196349 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1196372 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
1196395 ATATAA
1 ATATAA
1196401 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1196385 original size:23 final size:23
Alignment explanation
Indices: 1196359--1196421 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1196349 ATATAACCAC
1196359 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1196382 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1196405 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1196422 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1196801 original size:39 final size:39
Alignment explanation
Indices: 1196747--1196833 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1196737 TCAAGTTGTA
*
1196747 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1196786 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1196825 GATTTTGAT
1 GATTTTGAT
1196834 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1197115 original size:18 final size:18
Alignment explanation
Indices: 1197092--1197128 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1197082 CGAAATATAT
1197092 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1197110 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1197128 A
1 A
1197129 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1197405 original size:25 final size:25
Alignment explanation
Indices: 1197377--1197427 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1197367 TTAATCCAAA
*
1197377 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
1197402 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
1197427 T
1 T
1197428 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:1197730 original size:23 final size:23
Alignment explanation
Indices: 1197704--1197766 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1197694 ATATAACCAC
1197704 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* ** *
1197727 TACCTATTTCATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1197750 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1197767 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1198161 original size:23 final size:23
Alignment explanation
Indices: 1198135--1198197 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1198125 ATATAACCAC
1198135 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* ** *
1198158 TACCTATTTCATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1198181 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1198198 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1198263 original size:431 final size:431
Alignment explanation
Indices: 1197462--1198702 Score: 2405
Period size: 431 Copynumber: 2.9 Consensus size: 431
1197452 GAATTATTTA
*
1197462 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATAATATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
*
1197527 GAATTTTTAATTTAATAAT-A-ATATATCGCAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
1197590 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
1197655 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
1197720 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
261 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
1197785 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
326 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
*
1197850 ATTTTTTTAACATTGTTTCATGTTTTCCACCTACAATATTG
391 ATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
1197891 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1197956 GAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
1198021 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
1198086 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
1198151 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
261 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
1198216 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
326 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
1198281 ATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
391 ATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
*
1198322 ATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
*
1198387 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
1198452 ACAAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
1198517 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
1198582 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
261 TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
1198647 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATT
326 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATT
1198703 GTATAATGAA
Statistics
Matches: 803, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
429 83 0.10
430 1 0.00
431 719 0.90
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
GAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
TAAACGATACCTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
ATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
Found at i:1198592 original size:23 final size:23
Alignment explanation
Indices: 1198566--1198628 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1198556 ATATAACCAC
1198566 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* ** *
1198589 TACCTATTTCATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1198612 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1198629 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1200648 original size:32 final size:32
Alignment explanation
Indices: 1200594--1200654 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
1200584 AAATAGATGG
*
1200594 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
***
1200626 AGTGGTGAAAGAAGTTTCGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
1200655 GTGATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.25
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:1202472 original size:19 final size:19
Alignment explanation
Indices: 1202448--1202495 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1202438 AATGTCGAGT
1202448 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1202467 TAA-TTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1202485 TATTTTTGTAT
1 TAATTTTGTAT
1202496 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1203149 original size:199 final size:199
Alignment explanation
Indices: 1202643--1203935 Score: 2447
Period size: 198 Copynumber: 6.5 Consensus size: 199
1202633 TGTCGATCCA
1202643 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
*
1202708 TCTAAATAATGTGTCGACACTAATATAG-TTGTGTCGATA-TTTTTTTCCAGAATTAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1202771 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1202835 AAAG
196 AAAG
*
1202839 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1202904 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATGGAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATGGAAA
*
1202969 ACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACCC
130 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1203032 AAAAG
195 AAAAG
1203037 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203102 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1203167 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1203231 AAAG
196 AAAG
* *
1203235 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203300 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
*
1203365 CAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1203430 AAAG
196 AAAG
1203434 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203499 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1203564 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1203629 AAAG
196 AAAG
1203633 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
* *
1203698 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCTAGAATTAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1203762 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
1203827 AAAG
196 AAAG
*
1203831 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203896 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1203936 CTAATTTAAA
Statistics
Matches: 1078, Mismatches: 14, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
196 92 0.09
197 83 0.08
198 497 0.46
199 406 0.38
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (199 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
AAAG
Found at i:1203744 original size:397 final size:397
Alignment explanation
Indices: 1202643--1203935 Score: 2470
Period size: 397 Copynumber: 3.3 Consensus size: 397
1202633 TGTCGATCCA
1202643 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
*
1202708 TCTAAATAATGTGTCGACACTAATATAG-TTGTGTCGATA-TTTTTTTCCAGAATTAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1202771 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAA
1202836 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
196 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
1202901 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATGG
261 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATGG
1202966 AAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAA
325 AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
1203029 CCCAAAAG
390 CCCAAAAG
1203037 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203102 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1203167 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAA
*
1203232 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAGAAT
196 AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
1203297 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
261 ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
1203362 AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
326 AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
1203427 CCAAAAG
391 CCAAAAG
1203434 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203499 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
1203564 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
131 CAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCA
*
1203629 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGA
195 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAA
* *
1203694 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCTAGAATTAATGG
260 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
*
1203758 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
325 AAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
1203823 CCCAAAAG
390 CCCAAAAG
*
1203831 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
1203896 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1203936 CTAATTTAAA
Statistics
Matches: 886, Mismatches: 8, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
394 93 0.10
395 69 0.08
396 210 0.24
397 376 0.42
398 138 0.16
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (397 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGGATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAA
CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAA
AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
ATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGA
AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAC
CCAAAAG
Found at i:1205408 original size:18 final size:18
Alignment explanation
Indices: 1205387--1205454 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
1205377 AGCGGTCGCA
1205387 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
1205405 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
1205426 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
1205447 GAAGATGA
1 GAAGATGA
1205455 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:1205411 original size:6 final size:6
Alignment explanation
Indices: 1205387--1205484 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
1205377 AGCGGTCGCA
* * * * * *
1205387 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
1205435 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
1205483 GA
1 GA
1205485 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:1205422 original size:3 final size:3
Alignment explanation
Indices: 1205402--1205488 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
1205392 TGAAGCTGAC
* * * * * ** *
1205402 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
1205450 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1205489 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:1205437 original size:42 final size:42
Alignment explanation
Indices: 1205390--1205480 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
1205380 GGTCGCAGAA
*
1205390 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
1205432 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
1205474 GATGAAG
1 GATGAAG
1205481 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:1205488 original size:18 final size:18
Alignment explanation
Indices: 1205387--1205484 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
1205377 AGCGGTCGCA
* *
1205387 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
1205405 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
1205423 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
1205441 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
1205459 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
1205477 GAAGATGA
1 GAAGATGA
1205485 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:1206388 original size:23 final size:23
Alignment explanation
Indices: 1206362--1206409 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1206352 ATAAAGTACA
* *
1206362 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
1206385 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
1206408 AT
1 AT
1206410 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:1206953 original size:19 final size:19
Alignment explanation
Indices: 1206907--1206955 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1206897 TTATATTCAC
*
1206907 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1206926 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1206945 ATACAAAATTA
1 ATACAAAATTA
1206956 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1208776 original size:33 final size:33
Alignment explanation
Indices: 1208739--1208804 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1208729 CATCTTAATA
*
1208739 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1208772 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1208805 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1211301 original size:20 final size:20
Alignment explanation
Indices: 1211275--1211320 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1211265 CACTTTTAAA
1211275 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1211294 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1211315 TTTACC
1 TTTACC
1211321 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1211421 original size:21 final size:20
Alignment explanation
Indices: 1211392--1211430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1211382 GCTTTGAAAG
*
1211392 TTATGTAATTTATGTTTCAAT
1 TTATGTAA-TAATGTTTCAAT
*
1211413 TTATTTAATAATGTTTCA
1 TTATGTAATAATGTTTCA
1211431 TGTTTTCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATGTAATAATGTTTCAAT
Found at i:1211785 original size:229 final size:229
Alignment explanation
Indices: 1211384--1212061 Score: 1259
Period size: 229 Copynumber: 3.0 Consensus size: 229
1211374 TTAAAAATGC
*
1211384 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAATGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1211449 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
1211514 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
1211579 GTATGGACACTTTTATAAAAATGATATATACTTT
196 GTATGGACACTTTTATAAAAATGATATATACTTT
1211613 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1211678 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
1211743 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
1211808 GTATGGACACTTTTATAAAAATGATATATACTTT
196 GTATGGACACTTTTATAAAAATGATATATACTTT
*
1211842 TTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
* **
1211907 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
* * * *
1211972 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
*
1212036 GTATGGACACTTTTATAAAAAGGATA
196 GTATGGACACTTTTATAAAAATGATA
1212062 GATAATTTAC
Statistics
Matches: 439, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
228 37 0.08
229 402 0.92
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (229 bp):
TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
GTATGGACACTTTTATAAAAATGATATATACTTT
Found at i:1212807 original size:28 final size:30
Alignment explanation
Indices: 1212778--1212837 Score: 84
Period size: 33 Copynumber: 1.9 Consensus size: 30
1212768 AACCCGAACT
*
1212778 CGACCCGAACATCATACTTAAAAAAACTCGATC
1 CGACCCAAACATCATACTTAAAAAAA--C-ATC
1212811 CGACCCAAACATCATACTTAAAAAAAC
1 CGACCCAAACATCATACTTAAAAAAAC
1212838 CCGAATCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
33 25 0.96
ACGTcount: A:0.47, C:0.30, G:0.07, T:0.17
Consensus pattern (30 bp):
CGACCCAAACATCATACTTAAAAAAACATC
Found at i:1213036 original size:2 final size:2
Alignment explanation
Indices: 1213029--1213056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1213019 GATTCATAAA
1213029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1213057 TTAATTAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1214403 original size:3 final size:3
Alignment explanation
Indices: 1214397--1214442 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1214387 AATTATTATT
1214397 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1214443 CGGGACGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1214871 original size:134 final size:135
Alignment explanation
Indices: 1214631--1215092 Score: 670
Period size: 134 Copynumber: 3.5 Consensus size: 135
1214621 TCCACTATTT
* * *
1214631 TTCAGGGAAAATTGAATC-GAGGTTGATTTGCTTCACTGCACTTCAAGAAGA-C----C-GAAAG
1 TTCAGGGAAGATTGAATCGGA-CTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAG
*
1214689 AAGAAGAATATGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTCG
65 AAGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTCG
1214754 CTGCTC
130 CTGCTC
* * *
1214760 TTCAGGGAAGATTGAATCGGACTTGATTTGCTTCACTACTCTTCAGGAAGATCAAATCTGAAA-A
1 TTCAGGGAAGATTGAATCGGACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGA
* * * * *
1214824 AGAAGAATCTGCTCCGCTATTCTTTACGAGAGATCAGACTTGAGAAAAACTTTGATCAACTTCGC
66 AGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTCGC
1214889 TGCTC
131 TGCTC
* * *
1214894 TTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTTCTCTTCAGGAAGACCAAATCTGAAAGA
1 TTCAGGGAAGATTGAATCGGACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGA
* *
1214959 ATAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTTGC
66 AGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTCGC
*
1215024 TGCTT
131 TGCTC
* * *
1215029 TTTAGGGAAGATTGAATCGGACTTTATTTGTTTCACTGCTCTTCAAGAAGACCAAATCTGAAAG
1 TTCAGGGAAGATTGAATCGGACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAG
1215093 TTTAACTCCT
Statistics
Matches: 297, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
129 43 0.14
130 3 0.01
134 126 0.42
135 125 0.42
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (135 bp):
TTCAGGGAAGATTGAATCGGACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGA
AGAAGAATCTGCTCCGCTACTCTTTAGGGGAGATCAAACTTGAGAAAAACTTTGATCCACTTCGC
TGCTC
Found at i:1215157 original size:45 final size:45
Alignment explanation
Indices: 1215108--1215212 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
1215098 CTCCTCTTTG
*
1215108 CGAGAAAGTCAA-GAAGGACAACACTAAAAGAATGACTTTTCTTAA
1 CGAGAAAGTCAAGGAA-GACAACACTAAAAGAATGACTTCTCTTAA
* * * *
1215153 CGAGAAAGTCAAGGAAGACAACACTGAAATATTGACTTCTCTTTA
1 CGAGAAAGTCAAGGAAGACAACACTAAAAGAATGACTTCTCTTAA
* *
1215198 TGAGAAAATC-AGGAA
1 CGAGAAAGTCAAGGAA
1215213 TAACAAAGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 5 0.10
45 44 0.85
46 3 0.06
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (45 bp):
CGAGAAAGTCAAGGAAGACAACACTAAAAGAATGACTTCTCTTAA
Found at i:1215256 original size:38 final size:38
Alignment explanation
Indices: 1215183--1216528 Score: 1589
Period size: 38 Copynumber: 35.9 Consensus size: 38
1215173 ACACTGAAAT
* * * * *
1215183 ATTGACTTCTCTTTATGAGAAAATCAGGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1215221 ATT-ACTTCTCTTCACGGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCAC-GAGGAAGTCAAGAATAACAAAG
* *
1215259 ATTGACCTCTCTTCACGAGGAAGTCAAGAATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
** * * * * *
1215297 ATTGACCCCTCTTCGCGTGGGAGTCATGAATAAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAAT-AACAAAG
*
1215336 ATTGACTTATCTTCACGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1215374 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1215412 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * *
1215450 ATTAAC-TCATCTTCGCGAGGGAGTCAATAATAACAAAG
1 ATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1215488 ATTGACTCCTCTTCGA-GAGGGAGTC-AGAAATAACAAAG
1 ATTGACTTCTCTTC-ACGAGGAAGTCAAG-AATAACAAAG
*
1215526 ATTGACTTCTCTTCATGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1215564 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * *
1215602 ATTGACTTCTCTTCGCGAGAAAGTCAAGAATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * *
1215640 ATTGACTCCTCTTCATGAGGGAGTC-AGGATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
1215677 ATTGATTTCTCTTCACGAGGAAGTCAAG---------G
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* ** * *
1215706 ATTGAC-TCTTTTTCGTGAGGGAGTCATGAATAACAAAG
1 ATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAAAG
* * * * *
1215744 ACTGACTTCTTTTAACGAGGAAATCAATAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1215782 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1215820 ATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1215858 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1215896 ATTGACTCCTCTTCTA-GAGGGAGTC-AGAAATAACAAAG
1 ATTGACTTCTCTTC-ACGAGGAAGTCAAG-AATAACAAAG
*
1215934 ATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
1215972 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
** *
1216010 ATTGACTTCTCTTCGTGAGAAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * * *
1216048 ATTGACTCCTCTTCGCGAGGGAGTC-AGGATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1216085 ATTGATTTCTCTTCAAGAGGAAGTCAAG---------G
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * * *
1216114 ATTGACTCCTTTTCGCGAGGGAGTCATGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * *
1216152 ACTGACTTCTTTTAACGAGGAAGT-TAGTAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAG-AATAACAAAG
* *
1216190 ATTGACTTCTCTTCACTAGGAAGTCAAGAATAAAAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1216228 ATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* *
1216266 ATTGACTTCTCGTCATGAGGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * *
1216304 ATTGACTCCTCTTCACGAGGGATTCAGGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * *
1216342 ATTGACTCCTCTTCACGTGGGAGTCAGGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * *
1216380 ATTGATTTCTCGTCACGAGGAAGTCAGGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
*
1216418 ATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * * * *
1216456 ATTGGC-TCATTTTCGCGAGGGAGTCAGGAATAACAAAG
1 ATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAAAG
1216494 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACA
1 ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACA
1216529 TTAAAAATTG
Statistics
Matches: 1120, Mismatches: 149, Indels: 78
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.00
29 42 0.04
37 81 0.07
38 941 0.84
39 54 0.05
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (38 bp):
ATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAG
Found at i:1216107 original size:408 final size:407
Alignment explanation
Indices: 1215183--1216521 Score: 1957
Period size: 408 Copynumber: 3.3 Consensus size: 407
1215173 ACACTGAAAT
* * * * * *
1215183 ATTGACTTCTCTTTATGAGAAAATCAGGAATAACAAAGATT-ACTTCTCTTCACGGAGGAAGTCA
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCAC-GAGGGAGTC-
* * * *
1215247 AGAATAACAAAGATTGACCTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGACCCCTCTTCG
64 AGGATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAG---------GATTGACTCCTTTTCG
* * * * * * *
1215312 CGTGGGAGTCATGAATAAAAAAAGATTGACTTATCTTCACGAGGAAGTCAAGAATAACAAAGATT
120 CGAGGGAGTCATGAAT-AACAAAGACTGACTTCTTTTAACGAGGAAGTCAATAATAACAAAGATT
* *
1215377 GACTTCTCTTCACGAGAAAGTCAAGAATAAAAAAGATTGACTTCTCTTCACGAGGAAGTCAAGAA
184 GACTTCTCTTCACGAGGAAGTCAAGAATAAAAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAA
* * * * *
1215442 TAACAAAGATTAAC-TCATCTTCGCGAGGGAGTCAATAATAACAAAGATTGACTCCTCTTCGAGA
249 CAACAAAGATTGACTTC-TCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTC-AGA
* *
1215506 GGGAGTCAGAAATAACAAAGATTGACTTCTCTTCATGAGGAAGTCAAGAATAACAAAGATTGACT
312 GGGAGTCAGAAATAACAAAGATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAGATTGACT
1215571 TCTCTTCACGAGGAAGTCAAGAATAACAAAG
377 TCTCTTCACGAGGAAGTCAAGAATAACAAAG
* * *
1215602 ATTGACTTCTCTTCGCGAGAAAGTCAAGAATAAAAAAGATTGACTCCTCTTCATGAGGGAGTCAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGGAGTCAG
* * *
1215667 GATAACAAAGATTGATTTCTCTTCACGAGGAAGTCAAGGATTGACTCTTTTTCGTGAGGGAGTCA
66 GATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTTTTCGCGAGGGAGTCA
*
1215732 TGAATAACAAAGACTGACTTCTTTTAACGAGGAAATCAATAATAACAAAGATTGACTTCTCTTCA
131 TGAATAACAAAGACTGACTTCTTTTAACGAGGAAGTCAATAATAACAAAGATTGACTTCTCTTCA
*
1215797 CGAGGAAGTCAAGAATAACAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAGATTG
196 CGAGGAAGTCAAGAATAAAAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAGATTG
1215862 ACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTCTAGAGGGAGTCAGAAAT
261 ACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTC-AGAGGGAGTCAGAAAT
*
1215927 AACAAAGATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGA
325 AACAAAGATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGG
1215992 AAGTCAAGAATAACAAAG
390 AAGTCAAGAATAACAAAG
** *
1216010 ATTGACTTCTCTTCGTGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCGCGAGGGAGTCAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGGAGTCAG
* * *
1216075 GATAAAAAAGATTGATTTCTCTTCAAGAGGAAGTCAAGGATTGACTCCTTTTCGCGAGGGAGTCA
66 GATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTTTTCGCGAGGGAGTCA
* *
1216140 TGAATAACAAAGACTGACTTCTTTTAACGAGGAAGTTAGTAATAACAAAGATTGACTTCTCTTCA
131 TGAATAACAAAGACTGACTTCTTTTAACGAGGAAGTCAATAATAACAAAGATTGACTTCTCTTCA
*
1216205 CTAGGAAGTCAAGAATAAAAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAGATTG
196 CGAGGAAGTCAAGAATAAAAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAGATTG
* * * *
1216270 ACTTCTCGTCATGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGGATTCAGGAAT
261 ACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTCA-GAGGGAGTCAGAAAT
* * * * *
1216335 AACAAAGATTGACTCCTCTTCACG-TGGGAGTCAGGAATAACAAAGATTGATTTCTCGTCACGAG
325 AACAAAGATTGACTTCTCTTCACGAT-GAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAG
*
1216399 GAAGTCAGGAATAACAAAG
389 GAAGTCAAGAATAACAAAG
* * * *
1216418 ATTGACTTCTCTTCACGATG-AAGTCAAGAATAACAAAGATTGGCTCATTTTCGCGAGGGAGTCA
1 ATTGACTTCTCTTCACGA-GAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGGAGTCA
1216482 GGAATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAG
65 GG-ATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAG
1216522 AATAACATTA
Statistics
Matches: 846, Mismatches: 68, Indels: 22
0.90 0.07 0.02
Matches are distributed among these distances:
407 2 0.00
408 690 0.82
409 64 0.08
418 37 0.04
419 43 0.05
420 10 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (407 bp):
ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAGATTGACTCCTCTTCACGAGGGAGTCAG
GATAACAAAGATTGACTTCTCTTCACGAGGAAGTCAAGGATTGACTCCTTTTCGCGAGGGAGTCA
TGAATAACAAAGACTGACTTCTTTTAACGAGGAAGTCAATAATAACAAAGATTGACTTCTCTTCA
CGAGGAAGTCAAGAATAAAAAAGATTGATTTCTCTTCACGAGGAAGTCAAGAACAACAAAGATTG
ACTTCTCTTCACGAGGAAGTCAAGAATAACAAAGATTGACTCCTCTTCAGAGGGAGTCAGAAATA
ACAAAGATTGACTTCTCTTCACGATGAAGTCAAGAATAACAAAGATTGACTTCTCTTCACGAGGA
AGTCAAGAATAACAAAG
Found at i:1217578 original size:23 final size:23
Alignment explanation
Indices: 1217552--1217604 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
1217542 TCGCCAACAT
*
1217552 TAATGCATGTGAAATCACCAGAG
1 TAATGCATGTGAAATCACCAGAA
1217575 TAATGCATGTGAAATCACCAGAA
1 TAATGCATGTGAAATCACCAGAA
1217598 TAATGCA
1 TAATGCA
1217605 ACTGTATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (23 bp):
TAATGCATGTGAAATCACCAGAA
Found at i:1217777 original size:43 final size:42
Alignment explanation
Indices: 1217729--1217858 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 42
1217719 TATTCCCGGA
1217729 TGATATGGACCTTAAACAAATCCCAACATTTATTATTTCTTGC
1 TGATATGGACCTTAAA-AAATCCCAACATTTATTATTTCTTGC
* * * * * *
1217772 TGATATGGGCCTT-CAAAATGCCCCAACA-TTAATACTTCTAGA
1 TGATATGGACCTTAAAAAAT--CCCAACATTTATTATTTCTTGC
* * * *
1217814 TGATACGGACCTTAAAAAGTACCCCAACATTCATCATTTCTTGC
1 TGATATGGACCTTAAAAA--ATCCCAACATTTATTATTTCTTGC
1217858 T
1 T
1217859 TCAACACTAA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
41 4 0.06
42 22 0.34
43 29 0.45
44 9 0.14
45 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (42 bp):
TGATATGGACCTTAAAAAATCCCAACATTTATTATTTCTTGC
Found at i:1223006 original size:3 final size:3
Alignment explanation
Indices: 1223000--1223028 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1222990 AATTATTATT
1223000 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1223029 GGGACGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1223572 original size:30 final size:24
Alignment explanation
Indices: 1223535--1223608 Score: 71
Period size: 30 Copynumber: 2.9 Consensus size: 24
1223525 TAAGAATAGA
1223535 ATATATTTAATAATTTAAAGTAATAATAT
1 ATATATTTAATAA-TT-AA--AATAA-AT
1223564 ATTATATTTAATTAATTAAAATAAAT
1 A-TATATTTAA-TAATTAAAATAAAT
1223590 ATATATTTAAT-A-TAAAATA
1 ATATATTTAATAATTAAAATA
1223609 TATTTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
22 7 0.16
23 1 0.02
24 1 0.02
25 9 0.21
26 3 0.07
27 5 0.12
29 3 0.07
30 11 0.26
31 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (24 bp):
ATATATTTAATAATTAAAATAAAT
Found at i:1223611 original size:16 final size:17
Alignment explanation
Indices: 1223579--1223619 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
1223569 ATTTAATTAA
1223579 TTAAAATAAATATATAT
1 TTAAAATAAATATATAT
* *
1223596 TTAATATAAAATATATTT
1 TTAAAAT-AAATATATAT
1223614 TTAAAA
1 TTAAAA
1223620 GTTTATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATAAATATATAT
Found at i:1223637 original size:31 final size:29
Alignment explanation
Indices: 1223601--1223702 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 29
1223591 TATATTTAAT
* *
1223601 ATAAAATATATTTTTAAAAGTTTATATAAGA
1 ATAAAATATATTTTT-AAA-TTTAAATAAAA
*
1223632 ATAAAATATATACTTTTGAATTTAAATAAAA
1 ATAAAATATAT--TTTTAAATTTAAATAAAA
*
1223663 AT-AAA-ATATTTTTAAA-TTAAATTAATA
1 ATAAAATATATTTTTAAATTTAAA-TAAAA
1223690 ATAAAATATATTT
1 ATAAAATATATTT
1223703 AATAAGTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
26 5 0.08
27 12 0.20
28 3 0.05
29 10 0.16
30 3 0.05
31 22 0.36
32 2 0.03
33 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (29 bp):
ATAAAATATATTTTTAAATTTAAATAAAA
Found at i:1223674 original size:26 final size:27
Alignment explanation
Indices: 1223645--1223698 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1223635 AAATATATAC
*
1223645 TTTTGAATTTAAA-TAAAAATAAAATA
1 TTTTGAAATTAAATTAAAAATAAAATA
* *
1223671 TTTTTAAATTAAATTAATAATAAAATA
1 TTTTGAAATTAAATTAAAAATAAAATA
1223698 T
1 T
1223699 ATTTAATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTTGAAATTAAATTAAAAATAAAATA
Found at i:1223692 original size:27 final size:26
Alignment explanation
Indices: 1223653--1223704 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1223643 ACTTTTGAAT
*
1223653 TTAAATAAAAATAAAATATTTTTAAA
1 TTAAATAAAAATAAAATATATTTAAA
*
1223679 TTAAATTAATAATAAAATATATTTAA
1 TTAAA-TAAAAATAAAATATATTTAA
1223705 TAAGTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAAATAAAAATAAAATATATTTAAA
Found at i:1228178 original size:78 final size:78
Alignment explanation
Indices: 1228049--1228208 Score: 232
Period size: 78 Copynumber: 2.1 Consensus size: 78
1228039 TGAAATTGTC
* *
1228049 AGGTATAGATGGGGCCTGCTGTCTGAAGTGATGGTTTTGATCCATTGAAGTTCCTGCTAGGGATG
1 AGGTATAGACGGGGCCTGCTGTCTGAAGTGATGGTTTCGATCCATTGAAGTTCCTGCTAGGGATG
1228114 AAGGTGCATAAGA
66 AAGGTGCATAAGA
* ** **
1228127 AGGTATAGACGGGGCTTGCTGTC-GGGGTTGATGGTTTCGATCTGTTGAAGTTCCTGCTAGGGAT
1 AGGTATAGACGGGGCCTGCTGTCTGAAG-TGATGGTTTCGATCCATTGAAGTTCCTGCTAGGGAT
*
1228191 GAAGGTTCATAAGA
65 GAAGGTGCATAAGA
1228205 AGGT
1 AGGT
1228209 TGATGCCAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 2 0.03
78 71 0.97
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.30
Consensus pattern (78 bp):
AGGTATAGACGGGGCCTGCTGTCTGAAGTGATGGTTTCGATCCATTGAAGTTCCTGCTAGGGATG
AAGGTGCATAAGA
Found at i:1230612 original size:21 final size:21
Alignment explanation
Indices: 1230586--1230625 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1230576 ATTCAGTGTA
1230586 AAAAAAATTCA-TTATATACTC
1 AAAAAAATT-ATTTATATACTC
1230607 AAAAAAATTATTTATATAC
1 AAAAAAATTATTTATATAC
1230626 AAACTTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAAATTATTTATATACTC
Found at i:1231654 original size:20 final size:19
Alignment explanation
Indices: 1231609--1231658 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1231599 TGATGCAAGT
*
1231609 AGTATCGATACTAAAGTGG
1 AGTATCGATACTAAAGTGA
1231628 AGTATCGATACTAAGAG-GA
1 AGTATCGATACTAA-AGTGA
1231647 AGGTATCGATAC
1 A-GTATCGATAC
1231659 CATTATTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (19 bp):
AGTATCGATACTAAAGTGA
Found at i:1232516 original size:138 final size:135
Alignment explanation
Indices: 1232260--1232519 Score: 353
Period size: 138 Copynumber: 1.9 Consensus size: 135
1232250 ATAAATTGTA
* *
1232260 TATAAAAGTTATCGATCGATTTTGTTAATGCATAACAGTGTATTTTCGTATCAGTACTGTGTGTA
1 TATAAAAGTTATCGATCGATTTTGTTAATGCATAACAGTGCATTTTCGTATCAATACTGTGTGTA
* * * *
1232325 CTTGGCACTAGATGTGCAATCATGGTATTCATAATGAGTTTGTGAATCACCATTTCGTTATACAA
66 CTTGACACTAGATGTACAATCATGGAATTCATAATAAGTTTGTGAATCACCATTTCGTTATACAA
1232390 TTATG
131 TTATG
** * *
1232395 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAATGGTGCATTTTCGTATTAATATTGTGTGT
1 TATAAAAGTTATCGATCGATTTTG-TTAATGCATAACAGTGCATTTTCGTATCAATACTGTGTGT
**
1232460 ACTTTCGACACTATG-TGTAC-ATCCATGGAATTCATAATAAGTTTGTGAATTTCCATTTCG
65 AC-TT-GACACTA-GATGTACAAT-CATGGAATTCATAATAAGTTTGTGAATCACCATTTCG
1232520 GCACTTCGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
135 24 0.22
136 36 0.33
137 4 0.04
138 43 0.40
139 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (135 bp):
TATAAAAGTTATCGATCGATTTTGTTAATGCATAACAGTGCATTTTCGTATCAATACTGTGTGTA
CTTGACACTAGATGTACAATCATGGAATTCATAATAAGTTTGTGAATCACCATTTCGTTATACAA
TTATG
Done.