Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 38
Found at i:5934231 original size:41 final size:41
Alignment explanation
Indices: 5934169--5934255 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
5934159 CTACTAGAAT
5934169 TCAAA-GGATCAATCATTTTTCAAGGGGATCGATCCTTTGG
1 TCAAAGGGATCAATCATTTTTCAAGGGGATCGATCCTTTGG
* *
5934209 TCAAAGGGATTAATCCTTTTTCAAGGGGATCGATCCTTTGG
1 TCAAAGGGATCAATCATTTTTCAAGGGGATCGATCCTTTGG
5934250 TCAAAG
1 TCAAAG
5934256 AAAAGCTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 5 0.11
41 39 0.89
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (41 bp):
TCAAAGGGATCAATCATTTTTCAAGGGGATCGATCCTTTGG
Found at i:5934237 original size:20 final size:20
Alignment explanation
Indices: 5934174--5934247 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
5934164 AGAATTCAAA
*
5934174 GGATCAATCATTTTTCAAGG
1 GGATCAATCCTTTTTCAAGG
* * *
5934194 GGATCGATCCTTTGGTCAAAG
1 GGATCAATCCTTT-TTCAAGG
*
5934215 GGATTAATCCTTTTTCAAGG
1 GGATCAATCCTTTTTCAAGG
*
5934235 GGATCGATCCTTT
1 GGATCAATCCTTT
5934248 GGTCAAAGAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
GGATCAATCCTTTTTCAAGG
Found at i:5940162 original size:19 final size:19
Alignment explanation
Indices: 5940138--5940190 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
5940128 AAAAACCGGA
*
5940138 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAGTAT
*
5940157 GTGCATCGATGCATATTAT
1 GTGCATCGATGCATAGTAT
5940176 GTGCATCGATGCATA
1 GTGCATCGATGCATA
5940191 AAATGCATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCATAGTAT
Found at i:5941557 original size:25 final size:25
Alignment explanation
Indices: 5941510--5941557 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
5941500 TTATTTTTCC
*
5941510 TAAAAATTTATAAATCTTTAACTCT
1 TAAAAATTTATAAATCTTAAACTCT
*
5941535 TAAAATTTTATAAAT-TATAAACT
1 TAAAAATTTATAAATCT-TAAACT
5941558 AGCTTACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAAATTTATAAATCTTAAACTCT
Found at i:5944543 original size:22 final size:21
Alignment explanation
Indices: 5944518--5944566 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
5944508 ATATATTTAT
5944518 TAATATTCATAATAATATAATA
1 TAATATTCATAATAATATAA-A
** *
5944540 TAATATTTTTAATATTATAAA
1 TAATATTCATAATAATATAAA
5944561 TAATAT
1 TAATAT
5944567 ATTCAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATATTCATAATAATATAAA
Found at i:5944568 original size:23 final size:22
Alignment explanation
Indices: 5944551--5944600 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
5944541 AATATTTTTA
5944551 ATATTATAAATAATATATTCAATT
1 ATATTAT-AATAATATATT-AATT
*
5944575 ATATTATAATAATATATGACATT
1 ATATTATAATAATATATTA-ATT
5944598 ATA
1 ATA
5944601 ATCTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTATAATAATATATTAATT
Found at i:5946453 original size:3 final size:3
Alignment explanation
Indices: 5946445--5946505 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
5946435 TAAAACTTAA
5946445 TAT TAT TA- TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5946489 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
5946506 AGTGTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 8 0.15
3 46 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5946591 original size:22 final size:24
Alignment explanation
Indices: 5946548--5946606 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
5946538 CAAGTTTCTC
5946548 CCAAGACCCAATTACAACATCCAA
1 CCAAGACCCAATTACAACATCCAA
*
5946572 CCAAG-CCCAA-TACAAGATCCAGCAA
1 CCAAGACCCAATTACAACAT-C--CAA
5946597 CCAAGACCCA
1 CCAAGACCCA
5946607 GATTTGGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 7 0.23
23 6 0.20
24 5 0.17
25 8 0.27
26 4 0.13
ACGTcount: A:0.44, C:0.39, G:0.08, T:0.08
Consensus pattern (24 bp):
CCAAGACCCAATTACAACATCCAA
Found at i:5948310 original size:27 final size:27
Alignment explanation
Indices: 5948272--5948369 Score: 178
Period size: 27 Copynumber: 3.6 Consensus size: 27
5948262 TTGTGGGAAG
5948272 AAAGCATGTCTGGGTAGGAATGTTATT
1 AAAGCATGTCTGGGTAGGAATGTTATT
*
5948299 AAAGCATGTCTGAGTAGGAATGTTATT
1 AAAGCATGTCTGGGTAGGAATGTTATT
5948326 AAAGCATGTCTGGGTAGGAATGTTATT
1 AAAGCATGTCTGGGTAGGAATGTTATT
*
5948353 AAAGCATGTTTGGGTAG
1 AAAGCATGTCTGGGTAG
5948370 ATATAATGAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.33
Consensus pattern (27 bp):
AAAGCATGTCTGGGTAGGAATGTTATT
Found at i:5948522 original size:31 final size:27
Alignment explanation
Indices: 5948459--5948524 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
5948449 ATTTCTTTTC
5948459 TTTTGTTTGTGTACACTAACTTCTATA
1 TTTTGTTTGTGTACACTAACTTCTATA
*
5948486 TTTTGTTTGTGTACACTAACTTCTATC
1 TTTTGTTTGTGTACACTAACTTCTATA
5948513 TTTTGTTTGTGT
1 TTTTGTTTGTGT
5948525 CATTTTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.56
Consensus pattern (27 bp):
TTTTGTTTGTGTACACTAACTTCTATA
Found at i:5949311 original size:20 final size:19
Alignment explanation
Indices: 5949273--5949320 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
5949263 TTTTTACATC
*
5949273 TTTGCATTTTGTATCTACA
1 TTTGCATTTTGCATCTACA
*
5949292 TTTGCATCTTTGCATTTACA
1 TTTGCAT-TTTGCATCTACA
5949312 TTT-CATTTT
1 TTTGCATTTT
5949321 TAAGCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 13 0.50
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTGCATTTTGCATCTACA
Found at i:5950524 original size:15 final size:14
Alignment explanation
Indices: 5950496--5950528 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
5950486 AACAAAGAGC
5950496 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
5950510 AAAAAGAAAAGGAAA
1 AAAAAGAAAA-GAAA
5950525 AAAA
1 AAAA
5950529 TATTAAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:5950565 original size:19 final size:17
Alignment explanation
Indices: 5950543--5950624 Score: 53
Period size: 20 Copynumber: 4.6 Consensus size: 17
5950533 AAAGCAAAGA
5950543 AAAAAAAGCAACAAAGTGC
1 AAAAAAAG-AACAAAG-GC
5950562 AAAAAAAGAA-AAA-G-
1 AAAAAAAGAACAAAGGC
*
5950576 AAAAAAAGAAACATAGAGC
1 AAAAAAAG-AACAAAG-GC
*
5950595 AAAAAAAAGAAATAAAGAGC
1 -AAAAAAAG-AACAAAG-GC
*
5950615 AGAAAAAGAA
1 AAAAAAAGAA
5950625 AAGAAAAGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 2 0.04
17 3 0.06
18 5 0.09
19 15 0.28
20 17 0.32
ACGTcount: A:0.73, C:0.07, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAAAGAACAAAGGC
Found at i:5950583 original size:25 final size:24
Alignment explanation
Indices: 5950536--5950583 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
5950526 AAATATTAAA
* * *
5950536 GCAAAGAAAAAAAAGCAACAAAGT
1 GCAAAAAAAAAAAAGAAAAAAAGT
5950560 GCAAAAAAAGAAAAAGAAAAAAAG
1 GCAAAAAAA-AAAAAGAAAAAAAG
5950584 AAACATAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.73, C:0.08, G:0.17, T:0.02
Consensus pattern (24 bp):
GCAAAAAAAAAAAAGAAAAAAAGT
Found at i:5950597 original size:33 final size:35
Alignment explanation
Indices: 5950475--5950606 Score: 102
Period size: 33 Copynumber: 3.9 Consensus size: 35
5950465 CCAATCAGAA
5950475 AAAAAAGAAGAAACAAAGAGC---AAAAAG-AAAAG
1 AAAAAA-AAGAAACAAAGAGCAAAAAAAAGAAAAAG
* ** *
5950507 AAAAAAAAG-AA-AAGGAAAAAAATATTAAAG-CAAAG
1 AAAAAAAAGAAACAAAGAGCAAAA-A--AAAGAAAAAG
* *
5950542 AAAAAAAAGCAACAAAGTGC-AAAAAAAGAAAAAG
1 AAAAAAAAGAAACAAAGAGCAAAAAAAAGAAAAAG
*
5950576 -AAAAAAAGAAACATAGAGCAAAAAAAAGAAA
1 AAAAAAAAGAAACAAAGAGCAAAAAAAAGAAA
5950607 TAAAGAGCAG
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
29 4 0.05
30 2 0.03
31 3 0.04
32 7 0.09
33 21 0.27
34 15 0.19
35 18 0.23
36 5 0.06
37 3 0.04
ACGTcount: A:0.75, C:0.06, G:0.15, T:0.04
Consensus pattern (35 bp):
AAAAAAAAGAAACAAAGAGCAAAAAAAAGAAAAAG
Found at i:5950625 original size:19 final size:20
Alignment explanation
Indices: 5950542--5950625 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 20
5950532 TAAAGCAAAG
* *
5950542 AAAAAAAAGCAACAAAGTGC
1 AAAAAAAAGAAACAAAGAGC
5950562 -AAAAAAAG--A-AAA-AG-
1 AAAAAAAAGAAACAAAGAGC
*
5950576 -AAAAAAAGAAACATAGAGC
1 AAAAAAAAGAAACAAAGAGC
*
5950595 AAAAAAAAGAAATAAAGAGC
1 AAAAAAAAGAAACAAAGAGC
*
5950615 -AGAAAAAGAAA
1 AAAAAAAAGAAA
5950626 AGAAAAGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
14 8 0.15
15 1 0.02
16 4 0.08
17 3 0.06
18 2 0.04
19 18 0.34
20 17 0.32
ACGTcount: A:0.74, C:0.07, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAAAAAAGAAACAAAGAGC
Found at i:5950648 original size:19 final size:19
Alignment explanation
Indices: 5950578--5950650 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
5950568 AGAAAAAGAA
*
5950578 AAAAAGAAACATAGAGCAAA-
1 AAAAAGAAACA-A-AGAAAAG
* **
5950598 AAAAAGAAATAAAGAGCAG
1 AAAAAGAAACAAAGAAAAG
5950617 AAAAAG--A-AAAGAAAAG
1 AAAAAGAAACAAAGAAAAG
5950633 AAAAAGAAACAAAGAAAA
1 AAAAAGAAACAAAGAAAA
5950651 AGGGGACGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
16 13 0.30
17 1 0.02
18 4 0.09
19 15 0.35
20 10 0.23
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAAGAAACAAAGAAAAG
Found at i:5951331 original size:32 final size:32
Alignment explanation
Indices: 5951295--5951379 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
5951285 ATAAGAAGGC
* *
5951295 CAAACCATTAACCAAAAATAACCTGAGACATT
1 CAAACCATTGACCAAAAACAACCTGAGACATT
5951327 CAAACCATTGACCAAAAACAACCTGAGACATT
1 CAAACCATTGACCAAAAACAACCTGAGACATT
*
5951359 CAAACCATTGACCAAACACAA
1 CAAACCATTGACCAAAAACAA
5951380 TAACCTGAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.15
Consensus pattern (32 bp):
CAAACCATTGACCAAAAACAACCTGAGACATT
Found at i:5951785 original size:33 final size:33
Alignment explanation
Indices: 5951719--5951836 Score: 193
Period size: 33 Copynumber: 3.6 Consensus size: 33
5951709 GAGCAATAGA
*
5951719 GGGCATCTTTGAAGATTCAACATC-AAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
*
5951751 GGGCATCTTTGGAGATTCAATATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
5951784 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAAATGTTG
* *
5951817 GGACATCTTTGGATATTCAA
1 GGGCATCTTTGGAGATTCAA
5951837 TATTAAATAT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 22 0.28
33 58 0.73
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (33 bp):
GGGCATCTTTGGAGATTCAACATCAAAATGTTG
Found at i:5951957 original size:33 final size:33
Alignment explanation
Indices: 5951915--5952005 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
5951905 GCAGGAACAA
5951915 TGGGGCATCTTTGGAGATTCAATATCAAAATGT
1 TGGGGCATCTTTGGAGATTCAATATCAAAATGT
*
5951948 TGGGGCATCTTTGGAGATTCAACATCAAAATGT
1 TGGGGCATCTTTGGAGATTCAATATCAAAATGT
* *
5951981 TGGGACATCTTTGGATATTCAATAT
1 TGGGGCATCTTTGGAGATTCAATAT
5952006 TAAATATTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (33 bp):
TGGGGCATCTTTGGAGATTCAATATCAAAATGT
Found at i:5952023 original size:166 final size:167
Alignment explanation
Indices: 5951749--5952081 Score: 659
Period size: 166 Copynumber: 2.0 Consensus size: 167
5951739 CATCAAATGT
5951749 TGGGGCATCTTTGGAGATTCAATATCAAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATG
1 TGGGGCATCTTTGGAGATTCAATATCAAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATG
5951814 TTGGGACATCTTTGGATATTCAATATTAAATATTGGAGCTTTCAATAT-CTGATGCGAACGATCA
66 TTGGGACATCTTTGGATATTCAATATTAAATATTGGAGCTTTCAATATCCTGATGCGAACGATCA
5951878 GATCTTCTGAAGGCATTTCCTCCACCAGCAGGAACAA
131 GATCTTCTGAAGGCATTTCCTCCACCAGCAGGAACAA
5951915 TGGGGCATCTTTGGAGATTCAATATCAAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATG
1 TGGGGCATCTTTGGAGATTCAATATCAAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATG
5951980 TTGGGACATCTTTGGATATTCAATATTAAATATTGGAGCTTTCAATATCCTGATGCGAACGATCA
66 TTGGGACATCTTTGGATATTCAATATTAAATATTGGAGCTTTCAATATCCTGATGCGAACGATCA
5952045 GATCTTCTGAAGGCATTTCCTCCACCAGCAGGAACAA
131 GATCTTCTGAAGGCATTTCCTCCACCAGCAGGAACAA
5952082 GCAAATTATC
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 113 0.68
167 53 0.32
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (167 bp):
TGGGGCATCTTTGGAGATTCAATATCAAAATGTTGGGGCATCTTTGGAGATTCAACATCAAAATG
TTGGGACATCTTTGGATATTCAATATTAAATATTGGAGCTTTCAATATCCTGATGCGAACGATCA
GATCTTCTGAAGGCATTTCCTCCACCAGCAGGAACAA
Found at i:5952170 original size:34 final size:34
Alignment explanation
Indices: 5952125--5952249 Score: 151
Period size: 34 Copynumber: 3.7 Consensus size: 34
5952115 TTAAAATTTT
* *
5952125 TTTTATCTCACTTGAGATAATTTCTCAAAACAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
*
5952159 TTTTGTCTCACTTGAGACAATTTATCAAAACAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
* ** *
5952193 TTTCGTCTTGCTTGAGACAATTTCTCAAAAAAAA
1 TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
** * *
5952227 AATTGTCTCGCTTGATACAATTT
1 TTTTGTCTCACTTGAGACAATTT
5952250 TTCTCTGAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (34 bp):
TTTTGTCTCACTTGAGACAATTTCTCAAAACAAA
Found at i:5952545 original size:76 final size:76
Alignment explanation
Indices: 5952417--5952714 Score: 320
Period size: 76 Copynumber: 3.9 Consensus size: 76
5952407 GTTTCATTTG
* * * * * * * *
5952417 AAACAA-AGTTGTCTCACTTGAGACTG-TTTTGCTTGAAAGAAGACATTTCATTTGACTCAAGAT
1 AAACAAGATTTGTCTCGCTTGAGACAGATTTTACTCGAAACAAGGCATTTCATTTCACTCAAGAT
5952480 TGTTTTTCTTA
66 TGTTTTTCTTA
* * * *
5952491 AAACAAGATTTGTCTCGCTTGAGACAGGTTTTATTCAAAACAAGGCATTTCATTTCACTACATG-
1 AAACAAGATTTGTCTCGCTTGAGACAGATTTTACTCGAAACAAGGCATTTCATTTCACT-CAAGA
5952555 TTGTTTTTCTTA
65 TTGTTTTTCTTA
** * * *
5952567 AAACAAGATTTGTCTCGCTTGAGACATTTTTTACTCGAAATAAGAAG-A-ATCATTTCACTTAAG
1 AAACAAGATTTGTCTCGCTTGAGACAGATTTTACTCGAAACAAG--GCATTTCATTTCACTCAAG
*
5952630 ATTGCTTTTCTTA
64 ATTGTTTTTCTTA
* ** *
5952643 AAACAAGATTTGTCTCACTTGAGAC-GATATTTACTCGAAAGTAGGCATTTCACTTCACTCAAGA
1 AAACAAGATTTGTCTCGCTTGAGACAGAT-TTTACTCGAAACAAGGCATTTCATTTCACTCAAGA
5952707 TTGTTTTT
65 TTGTTTTT
5952715 AAAGAAGATT
Statistics
Matches: 186, Mismatches: 29, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
74 7 0.04
75 21 0.11
76 153 0.82
77 4 0.02
78 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (76 bp):
AAACAAGATTTGTCTCGCTTGAGACAGATTTTACTCGAAACAAGGCATTTCATTTCACTCAAGAT
TGTTTTTCTTA
Found at i:5952824 original size:39 final size:37
Alignment explanation
Indices: 5952770--5952889 Score: 141
Period size: 37 Copynumber: 3.2 Consensus size: 37
5952760 GAAGCAGAAG
* * * *
5952770 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AA
* *
5952808 TGTTTTGTTTCCCTTGAGACAGTTTCCCTTGAAACAAA
1 -ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
*
5952846 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AA
*
5952884 ACTTTG
1 ATTTTG
5952890 AAAAGTTTCC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 32 0.46
38 9 0.13
39 29 0.41
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:5952860 original size:37 final size:38
Alignment explanation
Indices: 5952764--5952889 Score: 146
Period size: 39 Copynumber: 3.3 Consensus size: 38
5952754 GCAGTCGAAG
* * * *
5952764 CAGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA
1 CAGAA-ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
* *
5952803 CAGAATGTTTTGTTTCCCTTGAGACAGTTTCCCTTGAAA
1 CAGAA-ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
*
5952842 CA-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA
1 CAGAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
* *
5952879 CATAAACTTTG
1 CAGAAATTTTG
5952890 AAAAGTTTCC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
37 32 0.43
38 9 0.12
39 34 0.45
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (38 bp):
CAGAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
Found at i:5952974 original size:100 final size:103
Alignment explanation
Indices: 5952789--5952980 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 103
5952779 CGCTTGAGAT
*
5952789 AGTTTCCCTCGAAACAGAATGTTTTGTTTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTC
1 AGTTTCCCTCGAAACAGAA-GTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTC
5952854 TCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAA
65 TCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAA
* * * ** *
5952893 AGTTTCCCTTGAAAC-GAA-TTTTGTCTCTCTTGAGACAGTTTCCTTTGAAA-TGAGTTTTGTCT
1 AGTTTCCCTCGAAACAGAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCT
*
5952955 CTCTTGAGACAGTTTCTCTTGAAACA
66 CCCTTGAGACAGTTTCTCTTGAAACA
5952981 AAGTTTTATC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 34 0.43
101 29 0.36
103 3 0.04
104 14 0.17
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (103 bp):
AGTTTCCCTCGAAACAGAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCT
CCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAA
Found at i:5953027 original size:72 final size:72
Alignment explanation
Indices: 5952893--5953082 Score: 202
Period size: 72 Copynumber: 2.6 Consensus size: 72
5952883 AACTTTGAAA
* * * ** ** * *
5952893 AGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCTTTGAAATGAGTTTTGTCTCTC
1 AGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCTTTAAAACCAACTTCGTCTCGC
5952958 TTGAGAC
66 TTGAGAC
* * *
5952965 AGTTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACGGTTTTC-TTAAAACCAACTTCGTCTCG
1 AGTTTCCCTTGAAACAAA-TTTTATCTCTCTTGAGACAGTTTCCTTTAAAACCAACTTCGTCTCG
*
5953029 CTTGAGAT
65 CTTGAGAC
* *
5953037 AGTTTCCCTTGAAACAGAATATTTTATCTCGCTTGAGATAGTTTCC
1 AGTTTCCCTTGAAAC--AA-ATTTTATCTCTCTTGAGACAGTTTCC
5953083 CTTGAAACAT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
72 50 0.52
73 22 0.23
74 23 0.24
75 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (72 bp):
AGTTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCTTTAAAACCAACTTCGTCTCGC
TTGAGAC
Found at i:5953069 original size:39 final size:39
Alignment explanation
Indices: 5953023--5953256 Score: 360
Period size: 39 Copynumber: 6.0 Consensus size: 39
5953013 AACCAACTTC
* * *
5953023 GTCTCGCTTGAGATAGTTTCCCTTGAAACAGAATATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
* * * *
5953062 ATCTCGCTTGAGATAGTTTCCCTTGAAACATAAGATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
*
5953101 GTCTCTCTTGAGATAGTTTCCATCGAAACAGAAGATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
**
5953140 GTCTCTCTTGAGATAGTTTTACTCGAAACAGAAGATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
**
5953179 GTCTCTCTTGAGATAGTTTTACTCGAAACAGAAGATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
5953218 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
1 GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
5953257 ATAAGAAACT
Statistics
Matches: 182, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 182 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (39 bp):
GTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
Found at i:5953117 original size:78 final size:77
Alignment explanation
Indices: 5952893--5953256 Score: 388
Period size: 78 Copynumber: 4.8 Consensus size: 77
5952883 AACTTTGAAA
* * *
5952893 AGTTTCCCTTGAAAC-G-AATTTTGTCTCTCTTGAGACAGTTTCCTTTGAAA-TG-AG-TTTTGT
1 AGTTTCCCTTGAAACAGAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGT
*
5952953 CTCTCTTGAGAC
66 CTCTCTTGAGAT
* * * ** * ** * *
5952965 AGTTTCTCTTGAAACA-AAGTTTTATCTCTCTTGAGACGGTTT-TCTT-AAA-ACCA-ACTTCGT
1 AGTTTCCCTTGAAACAGAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGT
*
5953025 CTCGCTTGAGAT
66 CTCTCTTGAGAT
* * *
5953037 AGTTTCCCTTGAAACAGAATATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACATAAGATTTTG
1 AGTTTCCCTTGAAACAGAA-ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTG
5953102 TCTCTCTTGAGAT
65 TCTCTCTTGAGAT
* * ** *
5953115 AGTTTCCATCGAAACAGAAGATTTTGTCTCTCTTGAGATAGTTTTACTCGAAACAGAAGATTTTG
1 AGTTTCCCTTGAAACAGAA-ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTG
5953180 TCTCTCTTGAGAT
65 TCTCTCTTGAGAT
** * *
5953193 AGTTTTACTCGAAACAGAAGATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAGATTTT
1 AGTTTCCCTTGAAACAGAA-ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTT
5953257 ATAAGAAACT
Statistics
Matches: 245, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
71 3 0.01
72 46 0.19
73 24 0.10
74 20 0.08
75 3 0.01
76 3 0.01
77 2 0.01
78 144 0.59
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (77 bp):
AGTTTCCCTTGAAACAGAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAGATTTTGT
CTCTCTTGAGAT
Found at i:5953335 original size:43 final size:43
Alignment explanation
Indices: 5953270--5953440 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
5953260 AGAAACTAAA
*
5953270 CTTGAAGGACCGTCGTGATATGTAGGGGTTCCTTGATGACAAG
1 CTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
*
5953313 CTAT-AAGGACCATCGTGATATGTAGGGGTTCTTTGATGACAAG
1 CT-TGAAGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
** * * *
5953356 CTTGAAAAACCATCGTGATATATATGGGTTTCTTGATGA-AATG
1 CTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGATGACAA-G
* * * *
5953399 TTTGAGGGACCATCATGATATGTAGGGGTTCCTTGGTGACAA
1 CTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGATGACAA
5953441 TTAAGAAACT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.03
43 101 0.94
44 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (43 bp):
CTTGAAGGACCATCGTGATATGTAGGGGTTCCTTGATGACAAG
Found at i:5953580 original size:41 final size:41
Alignment explanation
Indices: 5953480--5953586 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
5953470 TTCTTTATGA
* * *
5953480 ATAAGT-TCTTCGGGCCATCAGTAAGTCTTTCGAGTATGATGC
1 ATAAGTCT-TTCGGGCCATCA-TAAATCTTTCGAGCAAGATGC
*
5953522 GTAAGTCCTTT-GGGCCATCTATAAATCTTTCGAGCAAGATG-
1 ATAAGT-CTTTCGGGCCATC-ATAAATCTTTCGAGCAAGATGC
5953563 ATAAGTCTTTCGGGCCATCCATAA
1 ATAAGTCTTTCGGGCCAT-CATAA
5953587 GACCTTCAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
40 4 0.07
41 16 0.29
42 31 0.56
43 3 0.05
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
ATAAGTCTTTCGGGCCATCATAAATCTTTCGAGCAAGATGC
Found at i:5953825 original size:91 final size:90
Alignment explanation
Indices: 5953564--5953873 Score: 498
Period size: 90 Copynumber: 3.5 Consensus size: 90
5953554 AGCAAGATGA
* * *
5953564 TAAGTCTTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTAAGAAACT
*
5953629 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTT
* * *
5953654 TAAGTCCTTCGGGCCATCCATAAGACCATCAGTGCATGATGTTTTCAAATGAGATCTAAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTAAGAAACT
5953719 AAGCCTTCGGGGGTTTCTTGATTTT
66 AAGCCTTCGGGGGTTTCTTGATTTT
* *
5953744 TAAGTCCTTCAGGCCATCCATAAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTAAGAAAT
1 TAAGTCCTTCGGGCCATCCAT-AAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTAAGAAAC
* *
5953809 TGAGCCTTCAGGGGTTTCTTGATTTT
65 TAAGCCTTCGGGGGTTTCTTGATTTT
5953835 TAAGTCCTTCGGGCCA-CCATAAGACCTTCAG-GCAAGATG
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAAGATG
5953874 CTCTCAACAT
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
88 8 0.04
89 11 0.05
90 108 0.53
91 78 0.38
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTAAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTT
Found at i:5954117 original size:3 final size:3
Alignment explanation
Indices: 5954109--5954176 Score: 88
Period size: 3 Copynumber: 22.7 Consensus size: 3
5954099 TAAAACTTAA
5954109 TAT TAT TA- TAT TA- TAT TAT ATAT TAT TAT TAT ATAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
5954153 TAT TATT TAT TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TA
5954177 AGTGTGTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.10
3 44 0.75
4 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5954124 original size:13 final size:13
Alignment explanation
Indices: 5954108--5954174 Score: 86
Period size: 13 Copynumber: 5.2 Consensus size: 13
5954098 TTAAAACTTA
5954108 ATATTATTATATT
1 ATATTATTATATT
5954121 ATATTA-TATATT
1 ATATTATTATATT
5954133 ATTATTA-TATATT
1 A-TATTATTATATT
5954146 ATATTATTATTATT
1 ATATTATTA-TATT
5954160 -TATTATTATTATT
1 ATATTATTA-TATT
5954173 AT
1 AT
5954175 TAAGTGTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.24
13 33 0.66
14 5 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:5954127 original size:10 final size:11
Alignment explanation
Indices: 5954109--5954176 Score: 83
Period size: 10 Copynumber: 6.5 Consensus size: 11
5954099 TAAAACTTAA
5954109 TATTATTATAT
1 TATTATTATAT
5954120 TA-TATTATA-
1 TATTATTATAT
5954129 TATTA-T-TAT
1 TATTATTATAT
5954138 TATATATTATAT
1 TAT-TATTATAT
5954150 TATTATTAT-T
1 TATTATTATAT
5954160 TATTATTATTAT
1 TATTATTA-TAT
5954172 TATTA
1 TATTA
5954177 AGTGTGTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
8 2 0.04
9 6 0.12
10 20 0.40
11 10 0.20
12 12 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTATAT
Found at i:5954262 original size:22 final size:24
Alignment explanation
Indices: 5954219--5954265 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
5954209 CAAGTTTCTC
5954219 CCAAGACCCAATTACAACATCCAA
1 CCAAGACCCAATTACAACATCCAA
*
5954243 CCAAG-CCCAA-TACAAGATCCAA
1 CCAAGACCCAATTACAACATCCAA
5954265 C
1 C
5954266 AACCAAGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.45, C:0.38, G:0.06, T:0.11
Consensus pattern (24 bp):
CCAAGACCCAATTACAACATCCAA
Found at i:5956750 original size:21 final size:21
Alignment explanation
Indices: 5956724--5956818 Score: 163
Period size: 21 Copynumber: 4.5 Consensus size: 21
5956714 ATTCTGATTA
5956724 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
5956745 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
5956766 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
5956787 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
5956808 TCGCAATGCGA
1 TCGCATTGCGA
5956819 ATACGTAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:5958155 original size:130 final size:130
Alignment explanation
Indices: 5957917--5958248 Score: 308
Period size: 130 Copynumber: 2.5 Consensus size: 130
5957907 TTAAGGATGA
** * * * *
5957917 AAATGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTTTCGTGCATTAAAACAATCATT
1 AAATGATAATATCTAAGGATTTACAATCAAGAATAAATGACCTCTCATACATTAAAACAATCATT
* * * **
5957982 TATTACCCCAATTGAAATAAAGAGATATTACTATTTCGTCTTAAAATTCAACATCGATTCAAGTG
66 TATTACCCCAATCGAAATAAAGAGATATCACTATTCCAACTTAAAATTCAACATCGATTCAAGTG
* * * *
5958047 AAATGATCATATCTAAGGATTTACAATCGAGACTAAATGACCTCTCATACCTTAAAGA-AATCAT
1 AAATGATAATATCTAAGGATTTACAATCAAGAATAAATGACCTCTCATACATTAAA-ACAATCAT
* ** * * * * * ** * *
5958111 TTATTGCTTCAATCGAAATGAAGAGATATCATTATTCCAACTTAAAAATCGATATTAATTCGAGA
65 TTATTACCCCAATCGAAATAAAGAGATATCACTATTCCAACTTAAAATTCAACATCGATTCAAGT
5958176 G
130 G
* * ** * * * *
5958177 AAAATGACAATATCAAATTACTT-CAAATCAAGAATAAATGATCTCTCATACTTTAAAGCAATCA
1 -AAATGATAATATCTAAGGATTTAC-AATCAAGAATAAATGACCTCTCATACATTAAAACAATCA
5958241 TTTATTAC
64 TTTATTAC
5958249 TATGACCGAA
Statistics
Matches: 159, Mismatches: 39, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
130 102 0.64
131 57 0.36
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (130 bp):
AAATGATAATATCTAAGGATTTACAATCAAGAATAAATGACCTCTCATACATTAAAACAATCATT
TATTACCCCAATCGAAATAAAGAGATATCACTATTCCAACTTAAAATTCAACATCGATTCAAGTG
Found at i:5960848 original size:134 final size:134
Alignment explanation
Indices: 5960551--5961127 Score: 698
Period size: 134 Copynumber: 4.3 Consensus size: 134
5960541 ATCAAGAAAT
* * * * *
5960551 GTTGACTCATTCC-CTTGTCACTTAGGAAAGAATGAATCGATGCAGACTTGTTCCACTGTTACTC
1 GTTGATTCATTCCAC-TGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTC
* * * *
5960615 AGGGAATATCAAATATTGAAAGAGAGAGAGATTTGTTCCACTTCTTCTTGA-GGGGAAATCAGAT
65 AGGGAATATCAAATCTTGAAA-A-AGAGGGATCTGTTCCACTTCTTCTTGATGGGAAAATCAGAT
5960679 CTGAGGAC
128 CTG-GGAC
* * * * *
5960687 GTTGATTCATTCTATTGT-AGCTTAGGGAAGATTGAATCAAGGCAGACTTGTTCCATTGTTACTC
1 GTTGATTCATTCCACTGTCA-CTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTC
* *
5960751 AGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCTTCTT-ATGTGAAAATCAGATCT
65 AGGGAATATCAAATCTTGAAAAAGAGGGATCTGTTCCACTTCTTCTTGATGGGAAAATCAGATCT
5960815 AGGGAC
130 -GGGAC
*
5960821 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACTCA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCA
* * * * * * *
5960886 GGGAATATCAAATCTTGAAAAAGATGGATCTATTTCGCTTCTTCTTGA-AGAAAAATTAGATCTT
66 GGGAATATCAAATCTTGAAAAAGAGGGATCTGTTCCACTTCTTCTTGATGGGAAAATCAGATC-T
*
5960950 GGGAT
130 GGGAC
* * * *
5960955 GTTGATTCATTCCACTTTTACTAAGGGAAGATTGAATCGAGGCAGACTTATTCCACTGTTACTCA
1 GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCA
* * * * * *
5961020 GGGAATATCAAATCTTGAAAAAGAGGGATATGTTCCACTACTTTTTTA-GGGAAAATTAGATATG
66 GGGAATATCAAATCTTGAAAAAGAGGGATCTGTTCCACTTCTTCTTGATGGGAAAATCAGATCT-
5961084 GGGAC
130 GGGAC
* *
5961089 ATTGATTCATTCCACTTTCACTTCAGGGAAGATTGAATC
1 GTTGATTCATTCCACTGTCAC-TCAGGGAAGATTGAATC
5961128 AAGTTTGATT
Statistics
Matches: 382, Mismatches: 50, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
133 2 0.01
134 286 0.75
135 21 0.05
136 73 0.19
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
GTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCA
GGGAATATCAAATCTTGAAAAAGAGGGATCTGTTCCACTTCTTCTTGATGGGAAAATCAGATCTG
GGAC
Found at i:5962340 original size:19 final size:18
Alignment explanation
Indices: 5962318--5962362 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
5962308 TTTATTCTCT
5962318 TTTCTTTTGTTTTTCATTC
1 TTTCTTTT-TTTTTCATTC
*
5962337 TTTCATTCTTTTTTCATTC
1 TTTC-TTTTTTTTTCATTC
*
5962356 ATTCTTT
1 TTTCTTT
5962363 CATTCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.09
19 17 0.77
20 3 0.14
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTTTTTCATTC
Found at i:5962342 original size:8 final size:8
Alignment explanation
Indices: 5962329--5962393 Score: 71
Period size: 8 Copynumber: 8.4 Consensus size: 8
5962319 TTCTTTTGTT
5962329 TTTCATTC
1 TTTCATTC
5962337 TTTCATTC
1 TTTCATTC
*
5962345 TTT-TTTC
1 TTTCATTC
*
5962352 ATTCATTC
1 TTTCATTC
5962360 TTTCATTC
1 TTTCATTC
*
5962368 TTT-TTTC
1 TTTCATTC
*
5962375 ATTCATTC
1 TTTCATTC
*
5962383 ATTCATTC
1 TTTCATTC
5962391 TTT
1 TTT
5962394 TTTCATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
7 10 0.21
8 37 0.79
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCATTC
Found at i:5962346 original size:23 final size:23
Alignment explanation
Indices: 5962330--5962400 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
5962320 TCTTTTGTTT
5962330 TTCATTCTTTCATTCTTTTTTCA
1 TTCATTCTTTCATTCTTTTTTCA
5962353 TTCATTCTTTCATTCTTTTTTCA
1 TTCATTCTTTCATTCTTTTTTCA
*
5962376 TTCATTCATTCATTCTTTTTTCA
1 TTCATTCTTTCATTCTTTTTTCA
5962399 TT
1 TT
5962401 TTTTTCTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (23 bp):
TTCATTCTTTCATTCTTTTTTCA
Found at i:5962356 original size:15 final size:14
Alignment explanation
Indices: 5962342--5962452 Score: 66
Period size: 15 Copynumber: 7.6 Consensus size: 14
5962332 CATTCTTTCA
5962342 TTCTTTTTTCATTC
1 TTCTTTTTTCATTC
* * *
5962356 ATTCTTTCATTCTTTT
1 -TTCTTT-TTTCATTC
**
5962372 TTCATTCATTCATTC
1 TTC-TTTTTTCATTC
*
5962387 ATTCTTTTTTCATTTTT
1 -TTCTTTTTTCA--TTC
5962404 TTCTTTTTCTCATT-
1 TTCTTTTT-TCATTC
5962418 TTACTTTTTTC-TTC
1 TT-CTTTTTTCATTC
*
5962432 CTCTTTTTTCATT-
1 TTCTTTTTTCATTC
5962445 TTCTTTTT
1 TTCTTTTT
5962453 ATTTTCCTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
13 17 0.22
14 7 0.09
15 29 0.38
16 18 0.24
17 5 0.07
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTTTTTCATTC
Found at i:5962358 original size:4 final size:4
Alignment explanation
Indices: 5962330--5962390 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
5962320 TCTTTTGTTT
* ** * **
5962330 TTCA TTCT TTCA TTC- TTTT TTCA TTCA TTCT TTCA TTC- TTTT TTCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA
5962376 TTCA TTCA TTCA TTC
1 TTCA TTCA TTCA TTC
5962391 TTTTTTCATT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 4 0.09
4 41 0.91
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (4 bp):
TTCA
Found at i:5962377 original size:19 final size:19
Alignment explanation
Indices: 5962327--5962417 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 19
5962317 TTTTCTTTTG
5962327 TTTTTCATTCTTTCATTCTTT
1 TTTTTCATTCTTTCATTC--T
5962348 TTTCATTCATTCTTTCATTCT
1 TTT--TTCATTCTTTCATTCT
5962369 TTTTTCATTCATTCATTCATTCT
1 TTTTTCATTC--T--TTCATTCT
5962392 TTTTTCATT-TTT--TTCT
1 TTTTTCATTCTTTCATTCT
5962408 TTTTCTCATT
1 TTTT-TCATT
5962418 TTACTTTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 18
0.78 0.00 0.22
Matches are distributed among these distances:
16 8 0.13
17 5 0.08
18 2 0.03
19 7 0.11
20 1 0.02
21 8 0.13
23 32 0.51
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTCATTCTTTCATTCT
Found at i:5962409 original size:16 final size:17
Alignment explanation
Indices: 5962388--5962419 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5962378 CATTCATTCA
5962388 TTCTTTTT-TCATTTTT
1 TTCTTTTTCTCATTTTT
5962404 TTCTTTTTCTCATTTT
1 TTCTTTTTCTCATTTT
5962420 ACTTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTCTCATTTTT
Found at i:5962413 original size:22 final size:22
Alignment explanation
Indices: 5962342--5962446 Score: 72
Period size: 23 Copynumber: 4.7 Consensus size: 22
5962332 CATTCTTTCA
**
5962342 TTCTTTTTTCA-TTCATTCTTTC
1 TTCTTTTTTCATTTTTTTC-TTC
**
5962364 ATTCTTTTTTCA-TTCATTCATTC
1 -TTCTTTTTTCATTTTTTTC-TTC
*
5962387 ATTCTTTTTTCATTTTTTTCTTT
1 -TTCTTTTTTCATTTTTTTCTTC
* *
5962410 TTCTCATTTT-ACTTTTTTCTTC
1 TTCT-TTTTTCATTTTTTTCTTC
*
5962432 CTCTTTTTTCATTTT
1 TTCTTTTTTCATTTT
5962447 CTTTTTATTT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.06
22 21 0.30
23 39 0.57
24 5 0.07
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (22 bp):
TTCTTTTTTCATTTTTTTCTTC
Found at i:5962445 original size:27 final size:27
Alignment explanation
Indices: 5962405--5962509 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 27
5962395 TTCATTTTTT
5962405 TCTTTTTCTCATTTTACTTTTTTCTTCC
1 TCTTTTT-TCATTTTACTTTTTTCTTCC
*
5962433 TCTTTTTTCATTTT-CTTTTTATTTTCC
1 TCTTTTTTCATTTTACTTTTT-TCTTCC
* *
5962460 T-TTTATTTC-CTTTACTTCTTTTCTTCT
1 TCTTT-TTTCATTTTACTT-TTTTCTTCC
*
5962487 TC-TTTTTCA--TTAATTTTTTCTTC
1 TCTTTTTTCATTTTACTTTTTTCTTC
5962510 AGGTGAAGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
24 8 0.12
25 5 0.08
26 16 0.24
27 27 0.41
28 10 0.15
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (27 bp):
TCTTTTTTCATTTTACTTTTTTCTTCC
Found at i:5973371 original size:81 final size:81
Alignment explanation
Indices: 5973147--5973384 Score: 325
Period size: 81 Copynumber: 3.0 Consensus size: 81
5973137 AGGCAATTCT
* * * * *
5973147 AATTATGCTAGTTAAATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTATGCAT
1 AATTAGGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGTGCAT
*
5973212 TTGACAGAAATGTGTA
66 TTGACAGAAAAGTGTA
* * * *
5973228 AATTATGCCAGTTAGATGAAATGTTAAATTCCTTTGAGTAAAAGATTAATTCCCTAGATGTGCAT
1 AATTAGGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGTGCAT
*
5973293 TTGACAGAAAAGTGTC
66 TTGACAGAAAAGTGTA
* * * * *
5973309 GATTAGGCCAGTTCGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCTTGGTTGTGCAT
1 AATTAGGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGTGCAT
5973374 TTGACA-AAAAG
66 TTGACAGAAAAG
5973385 GTGTTACCTA
Statistics
Matches: 139, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 5 0.04
81 134 0.96
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (81 bp):
AATTAGGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGTGCAT
TTGACAGAAAAGTGTA
Found at i:5973822 original size:109 final size:109
Alignment explanation
Indices: 5973631--5973849 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
5973621 GTTAGAAACT
5973631 AAGGATAAAGATAAGAAAGTAGATAATATTGAAAAGAAGGTCGAGATCAAAATCGACCCAATAGA
1 AAGGATAAAGATAAGAAAGTAGATAATATTGAAAAGAAGGTCGAGATCAAAATCGACCCAATAGA
5973696 AGTTGAATTAGATGAGGATCCAAAGGAGATTTCTAAATTTATTG
66 AGTTGAATTAGATGAGGATCCAAAGGAGATTTCTAAATTTATTG
5973740 AAGGATAAAGATAAGAAAGTAGATAATATTGAAAAGAAGGTCGAGATCAAAATCGACCCAATAGA
1 AAGGATAAAGATAAGAAAGTAGATAATATTGAAAAGAAGGTCGAGATCAAAATCGACCCAATAGA
5973805 AGTTGAATTAGATGAGGATCCAAAGGAGATTTCTAAATTTATTG
66 AGTTGAATTAGATGAGGATCCAAAGGAGATTTCTAAATTTATTG
5973849 A
1 A
5973850 TGATTCTGAG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (109 bp):
AAGGATAAAGATAAGAAAGTAGATAATATTGAAAAGAAGGTCGAGATCAAAATCGACCCAATAGA
AGTTGAATTAGATGAGGATCCAAAGGAGATTTCTAAATTTATTG
Found at i:5978388 original size:81 final size:81
Alignment explanation
Indices: 5978245--5978758 Score: 620
Period size: 81 Copynumber: 6.3 Consensus size: 81
5978235 TTGTTTTAAA
* * * * * *
5978245 TAAAAGATTAATTGTCTAGCTATGCATTTGATAGAAAGGAGTTAATTATGCTAGTTAGATGAAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
5978310 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
5978326 TATAAGATTAATTGCCTAGCTGTGCATTTGATATAAAGGTCTCAATTATGCTAGTTAAATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
*
5978391 GTTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
5978407 TAGAATATTAATTACCTAGTTGTGCATTTAACAGAAAGATGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
5978472 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * * *
5978488 TAAAAGATTAATTGTCAAGATGTGCATATGACATAAATGTGTCAGTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
5978553 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
5978569 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGAC-AGTTAGAAGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATG-CTAGTTAGATGAAA
*
5978633 GGTTAATTACCTTTGAG
65 GGTTAAATACCTTTGAG
* ** * *
5978650 TAAAAGATTAATTGCTTAGCTGTGCATTTGGA-AGAAAGGTGTCAAACATG-TGGGTTAGGTGAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTT-GACAGAAAGGTGTCAATTATGCT-AGTTAGATGAA
* * *
5978713 GGGCTAAATTCCTTTGAG
64 AGGTTAAATACCTTTGAG
* * *
5978731 TTAAAGATTAAATGCCTAGCTATGCATT
1 TAAAAGATTAATTGCCTAGCTGTGCATT
5978759 ATCGACATGA
Statistics
Matches: 371, Mismatches: 58, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
81 368 0.99
82 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:5978826 original size:46 final size:46
Alignment explanation
Indices: 5978753--5979127 Score: 452
Period size: 46 Copynumber: 8.2 Consensus size: 46
5978743 TGCCTAGCTA
* * *
5978753 TGCATTATCGACATGAAATGATGCCATAAATGAAAATACATAACGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
* * *
5978799 TACATTATAGGCATGAAAGGATACCATAAATGAAAATGA-ATAAAGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAAT-ACATAACGG
*
5978845 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
** *
5978891 TGCATTATAGGCACAAAAGGATGCCATAAATGAAAATGCATAACGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
* *
5978937 TGCATTATAGGCATGAAAGGATGCTATAAATGAAAATGA-ATAATGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAAT-ACATAACGG
* * * *
5978983 TGCATTATCA-GAATGAAAGAATGTCATAAATGAAAATGCATAACGG
1 TGCATTAT-AGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
* * *
5979029 TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCTTAACGG
1 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
* * * * * *
5979075 TGCATAATTGGCATGAGAGGATGCCACCAAA-GAAAATATATAATGG
1 TGCATTATAGGCATGAAAGGATGCCA-TAAATGAAAATACATAACGG
*
5979121 TACATTA
1 TGCATTA
5979128 ACGGCATATA
Statistics
Matches: 283, Mismatches: 39, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.00
46 277 0.98
47 5 0.02
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (46 bp):
TGCATTATAGGCATGAAAGGATGCCATAAATGAAAATACATAACGG
Found at i:5979110 original size:138 final size:138
Alignment explanation
Indices: 5978753--5979127 Score: 531
Period size: 138 Copynumber: 2.7 Consensus size: 138
5978743 TGCCTAGCTA
* * * *
5978753 TGCATTATCGACATGAAATGATGCCATAAATGAAAATACATAACGGTACATTATAGGCATGAAAG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAG
* * * *
5978818 GATACCATAAATGAAAATGAATAAAGGTGCATTATAGGCATGAAAGGATGCCATAAATGAAAATG
66 GATGCCATAAATGAAAATGAATAATGGTGCATTATAGGAATGAAAGAATGCCATAAATGAAAATG
5978883 CATAACGG
131 CATAACGG
** *
5978891 TGCATTATAGGCACAAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAG
* *
5978956 GATGCTATAAATGAAAATGAATAATGGTGCATTATCA-GAATGAAAGAATGTCATAAATGAAAAT
66 GATGCCATAAATGAAAATGAATAATGGTGCATTAT-AGGAATGAAAGAATGCCATAAATGAAAAT
5979020 GCATAACGG
130 GCATAACGG
* * * *
5979029 TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCTTAACGGTGCATAATTGGCATGAGAG
1 TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAG
* *
5979094 GATGCCACCAAA-GAAAAT-ATATAATGGTACATTA
66 GATGCCA-TAAATGAAAATGA-ATAATGGTGCATTA
5979128 ACGGCATATA
Statistics
Matches: 211, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
137 1 0.00
138 206 0.98
139 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.23
Consensus pattern (138 bp):
TGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAG
GATGCCATAAATGAAAATGAATAATGGTGCATTATAGGAATGAAAGAATGCCATAAATGAAAATG
CATAACGG
Found at i:5982005 original size:131 final size:129
Alignment explanation
Indices: 5981715--5982077 Score: 376
Period size: 131 Copynumber: 2.8 Consensus size: 129
5981705 TTTTAAGAAT
* * * *
5981715 GAAAACGATAATATCTAATTATTTCTAATCGAGAATAAATGACCTT-TCGTGCATTAAAACAATC
1 GAAAACGATAATATCTAATTATTTC-AATCGAGAATAAATGA-CTTCTCATACCTTAAAGCAATC
* * * **
5981779 A-TTATTACCCCAATTGAAATAAAGAGATATTACTAGTT-TGCCTTAAAATTCAATATCAATTCA
64 ATTTATTA-CTCAATCGAAATGAAGAGATATTACTA-TTCCACCTTAAAATTCAATATCAATTCA
*
5981842 AGT
127 AGA
* ** *
5981845 GAAAATGATAATATCTAAGGATTTCCAATCGAGAATAAATGACTTCTCATACCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATTATTT-CAATCGAGAATAAATGACTTCTCATACCTTAAAGCAATCA
* * * * *
5981910 TTTATTGCTTCAATCGAAATGAAGAGATATCACTATTCCACCTTAAAAATT-GATATTAATTCGA
65 TTTATTAC-TCAATCGAAATGAAGAGATATTACTATTCCACCTT-AAAATTCAATATCAATTCAA
5981974 GA
128 GA
* * * * *
5981976 GAAAACGACAATATCAAATTACTTTCAATCAAGAATAAATGACCTCTCATACCTTAAAGAAATCA
1 GAAAACGATAATATCTAATTA-TTTCAATCGAGAATAAATGACTTCTCATACCTTAAAGCAATCA
* *
5982041 TTTATTACTCAGA-CCAAATGAAAAGATATTACTATTC
65 TTTATTACTCA-ATCGAAATGAAGAGATATTACTATTC
5982078 ACAATATCAA
Statistics
Matches: 193, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
129 3 0.02
130 78 0.40
131 103 0.53
132 9 0.05
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (129 bp):
GAAAACGATAATATCTAATTATTTCAATCGAGAATAAATGACTTCTCATACCTTAAAGCAATCAT
TTATTACTCAATCGAAATGAAGAGATATTACTATTCCACCTTAAAATTCAATATCAATTCAAGA
Found at i:5982198 original size:98 final size:99
Alignment explanation
Indices: 5982089--5982274 Score: 347
Period size: 99 Copynumber: 1.9 Consensus size: 99
5982079 CAATATCAAA
*
5982089 TCAAATGTTTTTTTTTTAA-TTTGAAGACCTATCGGGAAAACACATGCAAAAATAAAGAGAATTG
1 TCAAATGTTTTTTTTTTAATTTTGAAGACCTATCGGGAAAACACATGCAAAAATAAAGAGAATTA
5982153 AAAGCATATATCAAGCAAGTATATTTATTTATTT
66 AAAGCATATATCAAGCAAGTATATTTATTTATTT
*
5982187 TCAAATGTTTTTTTTTTAATTTTGAAGACCTATTGGGAAAACACATGCAAAAATAAAGAGAATTA
1 TCAAATGTTTTTTTTTTAATTTTGAAGACCTATCGGGAAAACACATGCAAAAATAAAGAGAATTA
5982252 AAAGCATATATCAAGCAAGTATA
66 AAAGCATATATCAAGCAAGTATA
5982275 ATTAATTAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
98 19 0.22
99 66 0.78
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (99 bp):
TCAAATGTTTTTTTTTTAATTTTGAAGACCTATCGGGAAAACACATGCAAAAATAAAGAGAATTA
AAAGCATATATCAAGCAAGTATATTTATTTATTT
Found at i:5982521 original size:14 final size:14
Alignment explanation
Indices: 5982502--5982553 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
5982492 TTCTTATATG
*
5982502 TTAAGACAATAACT
1 TTAAGACAATCACT
5982516 TTAAGACAATCACT
1 TTAAGACAATCACT
5982530 TTACA-ACAATCACT
1 TTA-AGACAATCACT
*
5982544 TTACGACAAT
1 TTAAGACAAT
5982554 TATTATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 33 0.97
15 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (14 bp):
TTAAGACAATCACT
Found at i:5982905 original size:3 final size:3
Alignment explanation
Indices: 5982897--5982957 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
5982887 ATGTATTTAT
* * * *
5982897 TAA TAA TAA TAC TAA TAA TAA TAA TGA TAT TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5982945 TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TA
5982958 GGCAGGATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5988001 original size:81 final size:81
Alignment explanation
Indices: 5987896--5988366 Score: 694
Period size: 81 Copynumber: 5.8 Consensus size: 81
5987886 AGGCATATAG
** * *
5987896 CCTTTCATCTAACTTTCATGATTGACAC-CTTCTTGTCAAATGCACAGCTAGGCCATTAATATTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTC-TGTCAAATGCACAGCTAGGCCATTAATATTT
*
5987960 TAATCAATGGTATTTAA
65 TACTCAATGGTATTTAA
* * *
5987977 CCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGCTAGGCCATTAATTTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
5988042 ACTCAAAT-GTATTTAA
66 ACTC-AATGGTATTTAA
* *
5988058 CATTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAACTAGGCCATTAATATTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
* *
5988123 ACTCAAAGATATTTAA
66 ACTCAATGGTATTTAA
* * *
5988139 CCTTTCATCTAACTGGCATAATTGACACATTTTTGTCAAATGCACATCTAGGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
*
5988204 ACTCAAAGGTATTTAA
66 ACTCAATGGTATTTAA
* * ** *
5988220 CCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTATTCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
5988285 ACTCAATGGTATTTAA
66 ACTCAATGGTATTTAA
* * *
5988301 CCTTTCATCTAACTTGCATAATTGACACATTTCTGTCAAATGCACAACTAGTCCATTAATATTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
5988366 A
66 A
5988367 TTTTGGAATA
Statistics
Matches: 355, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
80 2 0.01
81 348 0.98
82 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (81 bp):
CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTT
ACTCAATGGTATTTAA
Found at i:5988309 original size:243 final size:243
Alignment explanation
Indices: 5987896--5988366 Score: 773
Period size: 243 Copynumber: 1.9 Consensus size: 243
5987886 AGGCATATAG
** * *
5987896 CCTTTCATCTAACTTTCATGATTGACACCTTCTTGTCAAATGCACAGCTAGGCCATTAATATTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTCTTGTCAAATGCACAGCTAGGCCATTAATATTTT
* *
5987961 AATCAATGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGCT
66 AATCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
*
5988026 AGGCCATTAATTTTTTACTCAAATGTATTTAACATTTCATCTAACTGGCATAATTGACACATTTC
131 AGGCCATTAATCTTTTACTCAAATGTATTTAACATTTCATCTAACTGGCATAATTGACACATTTC
5988091 TGTCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGATATTTAA
196 TGTCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGATATTTAA
* * *
5988139 CCTTTCATCTAACTGGCATAATTGACACATTTTTGTCAAATGCACATCTAGGCCATTAATCTTTT
1 CCTTTCATCTAACTGGCATAATTGACACATTCTTGTCAAATGCACAGCTAGGCCATTAATATTTT
* *
5988204 ACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
66 AATCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
** * *
5988269 ATTCCATTAATCTTTTACTC-AATGGTATTTAACCTTTCATCTAACTTGCATAATTGACACATTT
131 AGGCCATTAATCTTTTACTCAAAT-GTATTTAACATTTCATCTAACTGGCATAATTGACACATTT
*
5988333 CTGTCAAATGCACAACTAGTCCATTAATATTTTA
195 CTGTCAAATGCACAACTAGGCCATTAATATTTTA
5988367 TTTTGGAATA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
242 3 0.01
243 207 0.99
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (243 bp):
CCTTTCATCTAACTGGCATAATTGACACATTCTTGTCAAATGCACAGCTAGGCCATTAATATTTT
AATCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
AGGCCATTAATCTTTTACTCAAATGTATTTAACATTTCATCTAACTGGCATAATTGACACATTTC
TGTCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGATATTTAA
Found at i:5992276 original size:2 final size:2
Alignment explanation
Indices: 5992269--5992315 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5992259 CCAATTTTGT
5992269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5992311 TA TA T
1 TA TA T
5992316 GTTCATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5992451 original size:2 final size:2
Alignment explanation
Indices: 5992444--5992472 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5992434 TTGTTAAAGC
5992444 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5992473 GAGTGCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5999587 original size:210 final size:213
Alignment explanation
Indices: 5999002--5999819 Score: 1260
Period size: 210 Copynumber: 3.8 Consensus size: 213
5998992 ATTTAAGAAT
*
5999002 TAAATTGAACAAATATGAAATTTCAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
5999067 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-TACTAAATTATAC
63 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
5999131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAATTAAGTAATAAGCATG-GATCAATTTCAT
128 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAG-TCAATTTCAT
5999195 ATGCAAATAAAATTTGGAGGAC
192 ATGCAAATAAAATTTGGAGGAC
* * *
5999217 TAAATTGAACAAATACGAAATTAAAAATAAAAATTTAAATAAATTAAATAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* *
5999282 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAA
63 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
5999347 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCATA
128 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCATA
5999412 TGCAAATAAAATTTGGAGGAC
193 TGCAAATAAAATTTGGAGGAC
* **
5999433 TAAATTGAACAAATATGAAATTACAAATAAAATTTTAAATATTTTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* *
5999495 TCAAATAGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
* * **
5999560 TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAATATGAGTCAATTTTAGGTGC
131 TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCATATGC
5999625 AAATAAAATTTGGAGGAC
196 AAATAAAATTTGGAGGAC
* *
5999643 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-ATGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* * * *
5999705 TCAAATCGAAATAATTTTAAATTTTAAGGTTGAAATTAATACAAAAATGTACTAAATTATACTCA
66 TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
*
5999770 TTTAAAAAGTTATGGGCCAA-TTAATAAATAAAAATAAGTAATAAGT-TGAG
131 TTTAAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGTATGAG
5999820 AGAGAAAATT
Statistics
Matches: 567, Mismatches: 33, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
209 8 0.01
210 304 0.54
212 1 0.00
215 112 0.20
216 141 0.25
217 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (213 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCATATGC
AAATAAAATTTGGAGGAC
Found at i:5999804 original size:426 final size:426
Alignment explanation
Indices: 5999002--5999819 Score: 1255
Period size: 426 Copynumber: 1.9 Consensus size: 426
5998992 ATTTAAGAAT
*
5999002 TAAATTGAACAAATATGAAATTTCAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
*
5999067 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACC
63 GGATCAAATAGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACC
* * * *
5999132 CATTTAAAAAGTTATGGGCCAATTAAAAAATATAATTAAGTAATAAGCATGGATCAATTTCATAT
128 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAACATGGATCAATTTCAGAT
5999197 GCAAATAAAATTTGGAGGACTAAATTGAACAAATACGAAATTAAAAATAAAAATTTAAATAAATT
193 GCAAATAAAATTTGGAGGACTAAATTGAACAAATACGAAATTAAAAATAAAAATTTAAATAAATT
* * *
5999262 AAATAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATAC
258 AAACAACACACA-T-A-GAGGGATCAAATCGAAATAATTTTAAATTGTAAGGTTGAAATTAATAC
5999327 AAAAAAGTACTAAATTATAACCATTTAAAAAGTTATGGGCCAATTTAAAAAT-AGAAATAAGTAA
320 AAAAAAGTACTAAATTATAACCATTTAAAAAGTTATGGGCCAATTTAAAAATAAGAAATAAGTAA
5999391 TAAGTATGAGTCAATTTCATATGCAAATAAAATTTGGAGGAC
385 TAAGTATGAGTCAATTTCATATGCAAATAAAATTTGGAGGAC
* **
5999433 TAAATTGAACAAATATGAAATTACAAATAAAATTTTAAATATTTTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
*
5999495 TCAAATAGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
66 TCAAATAGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAA-TACTAAATTATACCCA
* * * *
5999560 TTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAATAT-GAGTCAATTTTAGGTG
130 TTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAACATGGA-TCAATTTCAGATG
* * *
5999624 CAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTA
194 CAAATAAAATTTGGAGGACTAAATTGAACAAATACGAAATTAAAAATAAAAATTTAAATAAATTA
* *
5999689 AACAACACA-A-A-ATGGATCAAATCGAAATAATTTTAAATTTTAAGGTTGAAATTAATACAAAA
259 AACAACACACATAGAGGGATCAAATCGAAATAATTTTAAATTGTAAGGTTGAAATTAATACAAAA
*
5999751 ATGTACTAAATTAT-ACTCATTTAAAAAGTTATGGGCCAA-TTAATAAATAA-AAATAAGTAATA
324 AAGTACTAAATTATAAC-CATTTAAAAAGTTATGGGCCAATTTAA-AAATAAGAAATAAGTAATA
5999813 AGT-TGAG
387 AGTATGAG
5999820 AGAGAAAATT
Statistics
Matches: 359, Mismatches: 23, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
419 10 0.03
420 101 0.28
421 1 0.00
422 1 0.00
425 54 0.15
426 139 0.39
427 1 0.00
430 1 0.00
431 51 0.14
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (426 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATAGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAATACTAAATTATACCCAT
TTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAACATGGATCAATTTCAGATGCA
AATAAAATTTGGAGGACTAAATTGAACAAATACGAAATTAAAAATAAAAATTTAAATAAATTAAA
CAACACACATAGAGGGATCAAATCGAAATAATTTTAAATTGTAAGGTTGAAATTAATACAAAAAA
GTACTAAATTATAACCATTTAAAAAGTTATGGGCCAATTTAAAAATAAGAAATAAGTAATAAGTA
TGAGTCAATTTCATATGCAAATAAAATTTGGAGGAC
Found at i:5999847 original size:2 final size:2
Alignment explanation
Indices: 5999840--5999944 Score: 88
Period size: 2 Copynumber: 51.0 Consensus size: 2
5999830 AAAACAACTA
*
5999840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * *
5999882 AT AGT TT AT AT AT AA AGT AT AT GT AT -T AT AT AT AA AA ACT AT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT
*
5999924 AT AGT TT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT
5999945 TATGTATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
1 2 0.02
2 77 0.92
3 5 0.06
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5999922 original size:42 final size:41
Alignment explanation
Indices: 5999845--5999968 Score: 160
Period size: 42 Copynumber: 2.9 Consensus size: 41
5999835 AACTAATATA
5999845 TATATATATATATATATATATATATAATATAAACTATATAGTT
1 TATATATATATATAT-TATATATAT-ATATAAACTATATAGTT
* *
5999888 TATATATAAAGTATATGTAT-TATATATAAAAACTATATAGTT
1 TATATATATA-TATAT-TATATATATATATAAACTATATAGTT
* *
5999930 TATATATATATATATTATGTATAAAGTATAAACTATATA
1 TATATATATATATATTATATATATA-TATAAACTATATA
5999969 TACCATGTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
40 3 0.04
41 10 0.14
42 37 0.51
43 14 0.19
44 8 0.11
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.44
Consensus pattern (41 bp):
TATATATATATATATTATATATATATATAAACTATATAGTT
Found at i:5999976 original size:27 final size:27
Alignment explanation
Indices: 5999936--5999993 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
5999926 AGTTTATATA
** *
5999936 TATATATATTATGTATAAAGTATAAAC
1 TATATATACCATGTATAAAATATAAAC
*
5999963 TATATATACCATGTATAAAATATATAC
1 TATATATACCATGTATAAAATATAAAC
5999990 TATA
1 TATA
5999994 GTTTATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (27 bp):
TATATATACCATGTATAAAATATAAAC
Found at i:6000050 original size:11 final size:11
Alignment explanation
Indices: 6000034--6000071 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
6000024 ACTACATAGT
6000034 TTATATATAAA
1 TTATATATAAA
*
6000045 TTATATATGAA
1 TTATATATAAA
6000056 TTATATATAAA
1 TTATATATAAA
*
6000067 CTATA
1 TTATA
6000072 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:6000097 original size:17 final size:17
Alignment explanation
Indices: 6000077--6000127 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
6000067 CTATACAATT
*
6000077 TATATTTATATATTATG
1 TATATTTATAAATTATG
* *
6000094 TATACTTATAAATAATG
1 TATATTTATAAATTATG
6000111 TATATTGTATAAATTAT
1 TATATT-TATAAATTAT
6000128 ATAGTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (17 bp):
TATATTTATAAATTATG
Found at i:6000243 original size:11 final size:11
Alignment explanation
Indices: 6000223--6000276 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
6000213 TTATAATTTA
6000223 TATTTATATAC
1 TATTTATATAC
*
6000234 TATTTTTATAC
1 TATTTATATAC
*
6000245 TATTTATAAAC
1 TATTTATATAC
*
6000256 CATTT-T-TA-
1 TATTTATATAC
6000264 TA-TTATATAC
1 TATTTATATAC
6000274 TAT
1 TAT
6000277 ATATGAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
9 3 0.09
10 3 0.09
11 23 0.70
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTATATAC
Found at i:6000250 original size:22 final size:22
Alignment explanation
Indices: 6000223--6000265 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6000213 TTATAATTTA
* *
6000223 TATTTATATACTATTTTTATAC
1 TATTTATAAACCATTTTTATAC
6000245 TATTTATAAACCATTTTTATA
1 TATTTATAAACCATTTTTATA
6000266 TTATATACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTATAAACCATTTTTATAC
Found at i:6000288 original size:18 final size:17
Alignment explanation
Indices: 6000267--6000328 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
6000257 ATTTTTATAT
6000267 TATATACTATATATGAAC
1 TATATA-TATATATGAAC
* *
6000285 TATAGTTTACATATGAAC
1 TATA-TATATATATGAAC
*
6000303 TATATATATA-A--AAA
1 TATATATATATATGAAC
6000317 TATATATATATA
1 TATATATATATA
6000329 CTAAGGTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.32
15 1 0.03
16 1 0.03
17 4 0.11
18 18 0.49
19 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (17 bp):
TATATATATATATGAAC
Found at i:6000362 original size:18 final size:18
Alignment explanation
Indices: 6000341--6000383 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6000331 AAGGTTGATA
*
6000341 TTTATATATTAACTATAG
1 TTTATATATAAACTATAG
*
6000359 TTTACATATAAACTATAG
1 TTTATATATAAACTATAG
6000377 TTTATAT
1 TTTATAT
6000384 TTACATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (18 bp):
TTTATATATAAACTATAG
Found at i:6000384 original size:42 final size:42
Alignment explanation
Indices: 6000338--6000417 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
6000328 ACTAAGGTTG
* *
6000338 ATATTTATATATTAACTATAGTTTACATATAAACTATAGTTT
1 ATATTTACATATAAACTATAGTTTACATATAAACTATAGTTT
* *
6000380 ATATTTACATATAAACTATAGTTTACATGTGAACTATA
1 ATATTTACATATAAACTATAGTTTACATATAAACTATA
6000418 TATATAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (42 bp):
ATATTTACATATAAACTATAGTTTACATATAAACTATAGTTT
Found at i:6000386 original size:24 final size:25
Alignment explanation
Indices: 6000354--6000404 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
6000344 ATATATTAAC
6000354 TATAGTTTACATATAAACTATAGTT
1 TATAGTTTACATATAAACTATAGTT
6000379 TATA-TTTACATATAAACTATAGTT
1 TATAGTTTACATATAAACTATAGTT
6000403 TA
1 TA
6000405 CATGTGAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (25 bp):
TATAGTTTACATATAAACTATAGTT
Found at i:6000406 original size:18 final size:18
Alignment explanation
Indices: 6000341--6000417 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 18
6000331 AAGGTTGATA
* *
6000341 TTTATATATTAACTATAG
1 TTTACATATAAACTATAG
6000359 TTTACATATAAACTATAG
1 TTTACATATAAACTATAG
6000377 TTTATATTTACATATAAACTATAG
1 ------TTTACATATAAACTATAG
* *
6000401 TTTACATGTGAACTATA
1 TTTACATATAAACTATA
6000418 TATATAAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 31 0.63
24 18 0.37
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTACATATAAACTATAG
Found at i:6000466 original size:33 final size:33
Alignment explanation
Indices: 6000388--6000468 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
6000378 TTATATTTAC
* *
6000388 ATATAAACTATAGTTTACATGTGAACTATATAT
1 ATATATACTATAGTTTACATATGAACTATATAT
* *
6000421 ATAAACTA-TATAGTTTACATATGACCTATATAT
1 ATATA-TACTATAGTTTACATATGAACTATATAT
6000454 ATATATACTATAGTT
1 ATATATACTATAGTT
6000469 GATATTTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.05
33 38 0.93
34 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (33 bp):
ATATATACTATAGTTTACATATGAACTATATAT
Found at i:6002015 original size:6 final size:6
Alignment explanation
Indices: 6002006--6002032 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6001996 TTTTTTCGGT
6002006 TCTGTC TCTGTC TCTGTC TCTGTC TCT
1 TCTGTC TCTGTC TCTGTC TCTGTC TCT
6002033 CTTTGTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
TCTGTC
Found at i:6002506 original size:3 final size:3
Alignment explanation
Indices: 6002498--6002582 Score: 97
Period size: 3 Copynumber: 28.7 Consensus size: 3
6002488 TTAATATATT
6002498 TAA TAA TAAA TAA TAAA TAA TAA -AA -AA TAA -AA TAA T-A TAA TAA
1 TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6002541 TAT TAA TAA TGA TAA TAA TATA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
6002583 TGGATAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
2 8 0.11
3 55 0.76
4 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6002595 original size:22 final size:22
Alignment explanation
Indices: 6002489--6002583 Score: 99
Period size: 22 Copynumber: 4.4 Consensus size: 22
6002479 TTATATGTAT
*
6002489 TAAT-ATATTTAATAATAAATAA
1 TAATAATATATAATAAT-AATAA
* *
6002511 TAAATAATAAAAAATAA-AATAA
1 T-AATAATATATAATAATAATAA
* *
6002533 T-ATAATA-ATATTAATAATGA
1 TAATAATATATAATAATAATAA
6002553 TAATAATATATAATAATAATAA
1 TAATAATATATAATAATAATAA
6002575 TAATAATAT
1 TAATAATAT
6002584 GGATAAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.08
20 11 0.18
21 6 0.10
22 27 0.45
23 3 0.05
24 8 0.13
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (22 bp):
TAATAATATATAATAATAATAA
Found at i:6002633 original size:2 final size:2
Alignment explanation
Indices: 6002626--6002702 Score: 66
Period size: 2 Copynumber: 36.0 Consensus size: 2
6002616 ACATATGACC
* *
6002626 TA TA TA TA TA TA TA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA
*
6002669 T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
6002703 ATTTACATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
1 1 0.02
2 51 0.82
3 10 0.16
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6002659 original size:20 final size:20
Alignment explanation
Indices: 6002626--6002702 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
6002616 ACATATGACC
6002626 TATA-TATATATATATACTA
1 TATATTATATATATATACTA
*
6002645 TAGT-TTATATTTATATACTA
1 TA-TATTATATATATATACTA
*
6002665 TATATTATATATATAAACTA
1 TATATTATATATATATACTA
6002685 TATA-TACTATATAGTATA
1 TATATTA-TATATA-TATA
6002703 ATTTACATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.10
20 41 0.84
21 3 0.06
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (20 bp):
TATATTATATATATATACTA
Found at i:6002719 original size:34 final size:36
Alignment explanation
Indices: 6002656--6002724 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
6002646 AGTTTATATT
*
6002656 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
6002692 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
6002725 AAAATCCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:6002830 original size:18 final size:18
Alignment explanation
Indices: 6002773--6003014 Score: 77
Period size: 18 Copynumber: 13.9 Consensus size: 18
6002763 AGTTTATTAG
6002773 TATATATAAACTATATAA
1 TATATATAAACTATATAA
* * **
6002791 CATATATAGACTATATGG
1 TATATATAAACTATATAA
*
6002809 TATATATAAACTATA-CA
1 TATATATAAACTATATAA
** *
6002826 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAA
6002842 TATATA-AAACTATAT-A
1 TATATATAAACTATATAA
* *
6002858 T-TATAGT--TC-AT-TAG
1 TATATA-TAAACTATATAA
*
6002872 TATATATAAACTATATAG
1 TATATATAAACTATATAA
*
6002890 TATATA-AAACTATATAT
1 TATATATAAACTATATAA
** *
6002907 TATATAGTTCATTAGTAT-A
1 TATATA-TAAACTA-TATAA
* * **
6002926 TATAACCTATATAGTATATGG
1 TAT-A--TATAAACTATATAA
*
6002947 TATATACAAACTATAT-A
1 TATATATAAACTATATAA
** *
6002964 T-TATAT-AGTTCAT-TAG
1 TATATATAAACT-ATATAA
*
6002980 TATATATAAACTATATAG
1 TATATATAAACTATATAA
6002998 TATATATAAACTATATA
1 TATATATAAACTATATA
6003015 TTAATTTATT
Statistics
Matches: 162, Mismatches: 37, Indels: 50
0.65 0.15 0.20
Matches are distributed among these distances:
13 1 0.01
14 4 0.02
15 14 0.09
16 19 0.12
17 34 0.21
18 67 0.41
19 6 0.04
20 8 0.05
21 7 0.04
22 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
TATATATAAACTATATAA
Found at i:6002865 original size:30 final size:31
Alignment explanation
Indices: 6002746--6003001 Score: 140
Period size: 33 Copynumber: 8.5 Consensus size: 31
6002736 CCCTAAACCC
* *
6002746 TAAACTATACATTACATAGTTTATTAGTATATA
1 TAAACTATATATT--ATAGTTCATTAGTATATA
* *
6002779 TAAACTATATAACATATATAG-ACTATATGGTATATA
1 TAAACTATAT---AT-TATAGTTC-AT-TAGTATATA
*
6002815 TAAACTATACATTATATAGTTCATTAGTATATA
1 TAAACTATATA-T-TATAGTTCATTAGTATATA
6002848 -AAACTATATATTATAGTTCATTAGTATATA
1 TAAACTATATATTATAGTTCATTAGTATATA
*
6002878 TAAACTATATAGTATA--T-A--A--A-ACTA
1 TAAACTATATATTATAGTTCATTAGTATA-TA
*
6002902 T--A-TATT-A-TATAGTTCATTAGTATATA
1 TAAACTATATATTATAGTTCATTAGTATATA
* * *
6002928 TAACCTATATA--GTA--T-A-TGGTATATA
1 TAAACTATATATTATAGTTCATTAGTATATA
*
6002953 CAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATA-T-TATAGTTCATTAGTATATA
*
6002986 TAAACTATATAGTATA
1 TAAACTATATATTATA
6003002 TATAAACTAT
Statistics
Matches: 173, Mismatches: 20, Indels: 62
0.68 0.08 0.24
Matches are distributed among these distances:
19 4 0.02
20 1 0.01
21 4 0.02
22 2 0.01
23 1 0.01
24 5 0.03
25 17 0.10
26 6 0.03
27 2 0.01
28 1 0.01
29 8 0.05
30 20 0.12
31 20 0.12
32 10 0.06
33 36 0.21
34 9 0.05
35 7 0.04
36 19 0.11
37 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (31 bp):
TAAACTATATATTATAGTTCATTAGTATATA
Found at i:6002959 original size:58 final size:57
Alignment explanation
Indices: 6002883--6003003 Score: 215
Period size: 58 Copynumber: 2.1 Consensus size: 57
6002873 ATATATAAAC
*
6002883 TATATAGTATATAAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
1 TATATAGTATATAAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
*
6002940 TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
1 TATATAGTATATA-AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
6002998 TATATA
1 TATATA
6003004 TAAACTATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 12 0.20
58 48 0.80
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (57 bp):
TATATAGTATATAAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
Found at i:6002968 original size:25 final size:25
Alignment explanation
Indices: 6002921--6002969 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6002911 TAGTTCATTA
* *
6002921 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
6002946 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
6002970 AGTTCATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:6003068 original size:138 final size:137
Alignment explanation
Indices: 6002784--6003065 Score: 310
Period size: 138 Copynumber: 2.0 Consensus size: 137
6002774 ATATATAAAC
*
6002784 TATATAACATATATAGACTATATGGTATATATAAACTATACATTATATAGTTCATTAGTATATAA
1 TATATAACATATATAGA-TATATGGTATATACAAACTATACATTATATAGTTCATTAGTATATAA
** * *
6002849 AACTATATATTATAGTTCATTAGTATATATAAACTATATAGTATATAAAACTATATATTATATAG
65 AACTATATATTATAGTAAACTAGTATATATAAACTATATAG-ATATAAAACTATATATTATAAAG
* *
6002914 TTCATTAGTA
129 -TAATTAGAA
* *
6002924 TATATAACCTATATAG-TATATGGTATATACAAACTATATATTATATAGTTCATTAGTATATATA
1 TATATAACATATATAGATATATGGTATATACAAACTATACATTATATAGTTCATTAGTATATA-A
**
6002988 AACTATATAGTATATA-TAAACTA-TATAT-TAATTTAT-TA-ATAT-AAACATATATATTAATT
65 AACTATATA-T-TATAGTAAACTAGTATATATAAACTATATAGATATAAAAC-TATATATT-A-T
6003047 GAAAG-AATTAGAA
125 -AAAGTAATTAGAA
*
6003060 AATATA
1 TATATA
6003066 TAAGATCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
134 4 0.03
135 12 0.10
136 12 0.10
137 3 0.02
138 53 0.43
139 15 0.12
140 20 0.16
141 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (137 bp):
TATATAACATATATAGATATATGGTATATACAAACTATACATTATATAGTTCATTAGTATATAAA
ACTATATATTATAGTAAACTAGTATATATAAACTATATAGATATAAAACTATATATTATAAAGTA
ATTAGAA
Found at i:6003212 original size:61 final size:61
Alignment explanation
Indices: 6003073--6003213 Score: 192
Period size: 61 Copynumber: 2.3 Consensus size: 61
6003063 ATATAAGATC
* ** *
6003073 AAATTGAATAAATTTTAAATATGAAGCTTAAATTAATAAATTGTAACATTAAATTTGGATT
1 AAATTGAATAAATTTAAAATATGAAGCTTAAATTAATAAATTACAACATTAAATTTGGACT
* * * * *
6003134 AAATTAAAAAAAGTTAAAATATGAAGCTTAAATTAATATATTACATCATTAAATTTGGACT
1 AAATTGAATAAATTTAAAATATGAAGCTTAAATTAATAAATTACAACATTAAATTTGGACT
*
6003195 AAATGGAATAAATTTAAAA
1 AAATTGAATAAATTTAAAA
6003214 CTAAGAGACA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.35
Consensus pattern (61 bp):
AAATTGAATAAATTTAAAATATGAAGCTTAAATTAATAAATTACAACATTAAATTTGGACT
Found at i:6005897 original size:52 final size:51
Alignment explanation
Indices: 6005829--6005949 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
6005819 AATTTATAAT
6005829 ATTTAAATTAT-A-AATAATATAAAACT-AAATTTCAAAAAAGTAATCATATTA
1 ATTT-AATTATCATAATAATATAAAA-TAAAATTTC-AAAAAGTAATCATATTA
* * * **
6005880 TTTTGATTATCATAATAATTTATGATAAAATTTCAAAAAGTAATCATATTA
1 ATTTAATTATCATAATAATATAAAATAAAATTTCAAAAAGTAATCATATTA
6005931 ATTTAATTATCATAATAAT
1 ATTTAATTATCATAATAAT
6005950 TTAATTATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 5 0.08
51 39 0.65
52 16 0.27
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (51 bp):
ATTTAATTATCATAATAATATAAAATAAAATTTCAAAAAGTAATCATATTA
Found at i:6005940 original size:51 final size:52
Alignment explanation
Indices: 6005855--6005952 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 52
6005845 ATATAAAACT
* *
6005855 AAATTTCAAAAAAGTAATCATATTATTTTGATTATCATAATAATTTATGATA
1 AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
6005907 AAATTTC-AAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
1 AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTA
6005953 ATTATCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 37 0.84
52 7 0.16
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (52 bp):
AAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAATAATTTATGATA
Found at i:6005944 original size:17 final size:17
Alignment explanation
Indices: 6005922--6005962 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
6005912 TCAAAAAGTA
*
6005922 ATCATATTAATTTAATT
1 ATCATAATAATTTAATT
6005939 ATCATAATAATTTAATT
1 ATCATAATAATTTAATT
6005956 ATCATAA
1 ATCATAA
6005963 GTTTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (17 bp):
ATCATAATAATTTAATT
Found at i:6006095 original size:16 final size:16
Alignment explanation
Indices: 6006076--6006114 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6006066 TGAGTCAATT
* *
6006076 ACAGGTCAGGTTCATA
1 ACAGGTCAAGTTCAAA
*
6006092 ACAGGTCAAGTTGAAA
1 ACAGGTCAAGTTCAAA
6006108 ACAGGTC
1 ACAGGTC
6006115 GGGTAATACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (16 bp):
ACAGGTCAAGTTCAAA
Found at i:6006602 original size:13 final size:13
Alignment explanation
Indices: 6006584--6006611 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6006574 ATTCATGAGA
6006584 TAAATTAAAATGC
1 TAAATTAAAATGC
6006597 TAAATTAAAATGC
1 TAAATTAAAATGC
6006610 TA
1 TA
6006612 GTCGAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (13 bp):
TAAATTAAAATGC
Found at i:6013210 original size:44 final size:44
Alignment explanation
Indices: 6013160--6013372 Score: 356
Period size: 44 Copynumber: 4.8 Consensus size: 44
6013150 ATAAACTGTC
*
6013160 AAATAAGCTTACGAGCTTATGGA-ATAATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGTA
6013204 AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
*
6013248 AAATAAGCTTACGAGCTTATGGATAAATGGTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
*
6013292 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GGA-TAAATGGTAAGTATATTGGTA
6013338 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGTAAG
6013373 AGATATTATC
Statistics
Matches: 162, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
44 104 0.64
45 15 0.09
46 43 0.27
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
Found at i:6013274 original size:25 final size:25
Alignment explanation
Indices: 6013202--6013274 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
6013192 AGTATATTGG
6013202 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
* **
6013227 T-AAAT--G-GTA--AGTATATTGG-
1 TAAAATAAGCTTACGAGCTTA-TGGA
6013246 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
6013271 TAAA
1 TAAA
6013275 TGGTAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 2 0.06
22 2 0.06
23 2 0.06
24 7 0.21
25 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (25 bp):
TAAAATAAGCTTACGAGCTTATGGA
Found at i:6013275 original size:24 final size:24
Alignment explanation
Indices: 6013204--6013275 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
6013194 TATATTGGTA
6013204 AAATAAGCTTACGAGCTTATGGAT
1 AAATAAGCTTACGAGCTTATGGAT
*
6013228 AAAT--G-GTA--AG-TATATTGG-T
1 AAATAAGCTTACGAGCT-TA-TGGAT
6013247 AAAATAAGCTTACGAGCTTATGGAT
1 -AAATAAGCTTACGAGCTTATGGAT
6013272 AAAT
1 AAAT
6013276 GGTAAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 7 0.19
21 2 0.06
22 2 0.06
23 2 0.06
24 11 0.31
25 5 0.14
26 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (24 bp):
AAATAAGCTTACGAGCTTATGGAT
Found at i:6019497 original size:44 final size:44
Alignment explanation
Indices: 6019447--6019704 Score: 401
Period size: 44 Copynumber: 5.8 Consensus size: 44
6019437 GGTAAACTGG
* *
6019447 AAAATAAGCTTACGAGCTTATGGA-ATAATGGCAAGTATATTGGT
1 AAAATAAACTTACGAGCTTATGGATA-AATGGTAAGTATATTGGT
* *
6019491 AAAATAAGCTTACGAGTTTATGGATAAATGGTAAGTATATTGGT
1 AAAATAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
*
6019535 AAATTAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
1 AAAATAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
6019579 AAAATAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
1 AAAATAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
* *
6019623 AAAATAAGCTTACGAGCTTATGGGAATAAATGGTAAGTATTTTGGT
1 AAAATAAACTTACGAGCTTAT-GG-ATAAATGGTAAGTATATTGGT
*
6019669 AAAATAAACTTACGAGCTTATGGGATAAATTGTAAG
1 AAAATAAACTTACGAGCTTAT-GGATAAATGGTAAG
6019705 AGATTTTATC
Statistics
Matches: 201, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
44 144 0.72
45 14 0.07
46 43 0.21
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (44 bp):
AAAATAAACTTACGAGCTTATGGATAAATGGTAAGTATATTGGT
Found at i:6020212 original size:6 final size:6
Alignment explanation
Indices: 6020201--6020234 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
6020191 ACCCCACTGT
6020201 TTACTA TTACTA TTACTA TTCACTA TTCACTA TT
1 TTACTA TTACTA TTACTA TT-ACTA TT-ACTA TT
6020235 CACAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (6 bp):
TTACTA
Found at i:6020227 original size:7 final size:7
Alignment explanation
Indices: 6020203--6020237 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
6020193 CCCACTGTTT
6020203 ACTATT-
1 ACTATTC
6020209 ACTATT-
1 ACTATTC
6020215 ACTATTC
1 ACTATTC
6020222 ACTATTC
1 ACTATTC
6020229 ACTATTC
1 ACTATTC
6020236 AC
1 AC
6020238 AAAAAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (7 bp):
ACTATTC
Found at i:6024259 original size:30 final size:28
Alignment explanation
Indices: 6024224--6024280 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
6024214 AAGTTTTATA
6024224 AAAATTTAATGAATTTTAATATATTTTTTC
1 AAAATTTAA--AATTTTAATATATTTTTTC
* *
6024254 AAAATTTAAAGTTTTAATATTTTTTTT
1 AAAATTTAAAATTTTAATATATTTTTT
6024281 ATAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.64
30 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (28 bp):
AAAATTTAAAATTTTAATATATTTTTTC
Found at i:6024452 original size:145 final size:144
Alignment explanation
Indices: 6024176--6024460 Score: 529
Period size: 145 Copynumber: 2.0 Consensus size: 144
6024166 TGCGTTCACC
6024176 TTCAATGTCAGTGAAAGTGCAAGTAATGAGAAATATAAAAGTTTTATAAAAATTTAATGAATTTT
1 TTCAATGTCAGTGAAAGTGCAAGTAATGAGAAATATAAAAGTTTTATAAAAATTTAATGAATTTT
*
6024241 AATATATTTTTTCAAAATTTAAAGTTTTAATATTTTTTTTATAATTTTAAAAATAAATTATATTT
66 AATATATTTTTTCAAAATTTAAAGTTTTAATA-TTTTTTTAAAATTTTAAAAATAAATTATATTT
6024306 TTTGTATATTTTACT
130 TTTGTATATTTTACT
*
6024321 TTCAATGTCAGTGAAAGTGCAAGTAATGAGAAATATAAAAGTTTTATAAAACTTTAATGAATTTT
1 TTCAATGTCAGTGAAAGTGCAAGTAATGAGAAATATAAAAGTTTTATAAAAATTTAATGAATTTT
6024386 AATATATTTTTTCAAAATTTAAAGTTTTAATA-TTTTTTAAAATTTTAAAAATAAATTATATTTT
66 AATATATTTTTTCAAAATTTAAAGTTTTAATATTTTTTTAAAATTTTAAAAATAAATTATATTTT
6024450 TT-TATATTTTA
131 TTGTATATTTTA
6024461 AAAAATTTAA
Statistics
Matches: 138, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
142 9 0.07
143 33 0.24
145 96 0.70
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (144 bp):
TTCAATGTCAGTGAAAGTGCAAGTAATGAGAAATATAAAAGTTTTATAAAAATTTAATGAATTTT
AATATATTTTTTCAAAATTTAAAGTTTTAATATTTTTTTAAAATTTTAAAAATAAATTATATTTT
TTGTATATTTTACT
Found at i:6025905 original size:30 final size:30
Alignment explanation
Indices: 6025869--6025938 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
6025859 TTGACCTTTT
6025869 GAAAATTTTGGGATTGAAGGAAAAATAATA
1 GAAAATTTTGGGATTGAAGGAAAAATAATA
6025899 GAAAATTTTGGGATTGAAGGAAAAATAATA
1 GAAAATTTTGGGATTGAAGGAAAAATAATA
6025929 GAAAATTTTG
1 GAAAATTTTG
6025939 CCCAATAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (30 bp):
GAAAATTTTGGGATTGAAGGAAAAATAATA
Found at i:6027957 original size:20 final size:20
Alignment explanation
Indices: 6027934--6027978 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6027924 TATCAAAATG
*
6027934 ATTTTTCAAAACCTCATTTT
1 ATTTTTCAAAACCTAATTTT
*
6027954 ATTTTTCAAAATCTAATTTT
1 ATTTTTCAAAACCTAATTTT
*
6027974 GTTTT
1 ATTTT
6027979 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTTCAAAACCTAATTTT
Found at i:6029268 original size:10 final size:9
Alignment explanation
Indices: 6029253--6029281 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6029243 AAAGTAAACT
6029253 AAAAAAAAG
1 AAAAAAAAG
6029262 AAAAAAAAG
1 AAAAAAAAG
6029271 -AAAAAAAG
1 AAAAAAAAG
6029279 AAA
1 AAA
6029282 GTTAAGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:6032357 original size:94 final size:94
Alignment explanation
Indices: 6032259--6032481 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 94
6032249 CCCGAGCAAT
* *
6032259 GTGGTATCAATACCATGGTAAGGGTATCGATACTAGTA-AACATCGAATCTAATTAGGGTATCGA
1 GTGGTATCGATACCATGGTAAGGGTATCGATACTAG-ACAACATCGAAGCTAATTAGGGTATCGA
* **
6032323 TACCT-AAAGGGGTATCAGTACCATAGCCTA
65 TA-CTGAAAGGGGTATCAATACCATAGCAGA
* * * * * * ** *
6032353 GTGGTATCGATACCATAGTGAGAGTATCGATACCAGACTACATTGAAGCTAATTTTGGTATTGAT
1 GTGGTATCGATACCATGGTAAGGGTATCGATACTAGACAACATCGAAGCTAATTAGGGTATCGAT
* *
6032418 ACTGGAAGGGGGTATCAATACCATAGTAGA
66 ACT-GAAAGGGGTATCAATACCATAGCAGA
* * *
6032448 GTAGTATCGATACCATGGTAGGGGTTTCGATACT
1 GTGGTATCGATACCATGGTAAGGGTATCGATACT
6032482 GAAAGGCCAA
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
93 3 0.03
94 53 0.51
95 47 0.46
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (94 bp):
GTGGTATCGATACCATGGTAAGGGTATCGATACTAGACAACATCGAAGCTAATTAGGGTATCGAT
ACTGAAAGGGGTATCAATACCATAGCAGA
Found at i:6032985 original size:79 final size:78
Alignment explanation
Indices: 6032870--6033084 Score: 290
Period size: 79 Copynumber: 2.7 Consensus size: 78
6032860 ACACATATGA
* *
6032870 GTGCATTAGTGGCATGAAAGGATTCCTTATCTGATATGTATATGGGTACATTATCAACCTAATAG
1 GTGCATTAATGGCATGAAAGGATTCCTTAGCTGATATGTATATGGGTACATTATCAA-CTAATAG
6032935 AATAATGCATACGG
65 AATAATGCATACGG
*
6032949 GTGCATTAATGGCATGAAAGGATGCCTTAGCTGATATGTATATGGGTACATTATCGGAA-TAATA
1 GTGCATTAATGGCATGAAAGGATTCCTTAGCTGATATGTATATGGGTACATTATC--AACTAATA
*
6033013 GAATAATGCATATGG
64 GAATAATGCATACGG
* ** * * * *
6033028 GTGCATTATTGGCAT-AAAGGATTCCAGAGTTGAAATGCATATGGGTGCATTATCAAC
1 GTGCATTAATGGCATGAAAGGATTCCTTAGCTGATATGTATATGGGTACATTATCAAC
6033085 AGAAAAATAT
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
76 2 0.02
78 32 0.26
79 85 0.70
81 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (78 bp):
GTGCATTAATGGCATGAAAGGATTCCTTAGCTGATATGTATATGGGTACATTATCAACTAATAGA
ATAATGCATACGG
Found at i:6033289 original size:45 final size:45
Alignment explanation
Indices: 6033053--6033293 Score: 254
Period size: 45 Copynumber: 5.4 Consensus size: 45
6033043 AAAGGATTCC
* *
6033053 AGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAATATACT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
6033098 AGAGTTGAAATGCATATGTGTTCATTATCAACAAAAAAGTATGCT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* ** * *
6033143 AGAGTTAAAATATATATGGATACATTATCAACAGAAAAGTACACT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* ** *
6033188 ATG-GTTGAGATGTGTATGGGTCCATTATCAACATG-AAAGTATACT
1 A-GAGTTGAAATGCATATGGGTACATTATCAACA-GAAAAGTATACT
* * **
6033233 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-ATGTT
1 AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
6033277 AGAGTTTAAAATGCATA
1 AGAG-TTGAAATGCATA
6033294 ATGATGTATT
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
44 7 0.04
45 152 0.94
46 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (45 bp):
AGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:6034001 original size:44 final size:45
Alignment explanation
Indices: 6033936--6034037 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 45
6033926 CAAACAAAAC
* *
6033936 ATAAAAGGCATGAAAGGATGCCATAAATG-AAAT-GTATAATAGTGT
1 ATAAAA-GCATGAAAGAATGCCAT-AATGAAAATGGTATAAGAGTGT
* * *
6033981 ATAAAAGCATGAATGAATGCCGTAATGAAAATGGTATAAGGGTGT
1 ATAAAAGCATGAAAGAATGCCATAATGAAAATGGTATAAGAGTGT
*
6034026 ATTATAAGCATG
1 A-TAAAAGCATG
6034038 TTGGGATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
43 4 0.08
44 18 0.38
45 17 0.35
46 9 0.19
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (45 bp):
ATAAAAGCATGAAAGAATGCCATAATGAAAATGGTATAAGAGTGT
Found at i:6034781 original size:14 final size:17
Alignment explanation
Indices: 6034749--6034785 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
6034739 TTATGAAGAT
6034749 AAAAAGATTGTTTTGGG
1 AAAAAGATTGTTTTGGG
6034766 AAAAAGA-T-TTTT-GG
1 AAAAAGATTGTTTTGGG
6034780 AAAAAG
1 AAAAAG
6034786 GTAAATGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 1 0.05
17 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (17 bp):
AAAAAGATTGTTTTGGG
Found at i:6037399 original size:31 final size:30
Alignment explanation
Indices: 6037359--6037416 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
6037349 ATTCGAGGCA
6037359 TATTTATAATTTTATG-AAAGTTA-GGGGACC
1 TATTTATAA--TTATGAAAAGTTATGGGGACC
6037389 TATTTGATAATTATGAAAAGTTATGGGG
1 TATTT-ATAATTATGAAAAGTTATGGGG
6037417 CTAATGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.20
30 12 0.48
31 8 0.32
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
TATTTATAATTATGAAAAGTTATGGGGACC
Found at i:6039874 original size:20 final size:20
Alignment explanation
Indices: 6039849--6039902 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6039839 GGAGCGTGGG
6039849 GGGAATCGGTTCCCCTCATA
1 GGGAATCGGTTCCCCTCATA
6039869 GGGAATCGGTTCCCCTCATA
1 GGGAATCGGTTCCCCTCATA
*
6039889 GGGAATTGGTTCCC
1 GGGAATCGGTTCCC
6039903 TAAGTGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.26
Consensus pattern (20 bp):
GGGAATCGGTTCCCCTCATA
Found at i:6049235 original size:95 final size:96
Alignment explanation
Indices: 6049016--6049235 Score: 286
Period size: 96 Copynumber: 2.3 Consensus size: 96
6049006 GAAAAGGTAA
* * ** *
6049016 TATCGATACCATGGTAAGGGTATCAATACCAGTTTACATCGAATCTAAAATGGGTATCGATACCG
1 TATCGATACCATGATAAGGGTATCGATACCAGTCAACATCGAATCTAAAATGGGTATCGATACCA
*
6049081 GAAGGGGTATTAGTACCATAATATATAGTAG
66 GAAGGGGTATCAGTACCATAATATATAGTAG
* * *
6049112 TATCGATACCATGTTAAGGGTATTGATACCAAG-CAACATCGAAT-TAAAAATTGGTATCGATAC
1 TATCGATACCATGATAAGGGTATCGATACC-AGTCAACATCGAATCT-AAAATGGGTATCGATAC
*
6049175 CAGAAGGGGGTATCGGTACCAT-A-ATATAGTAG
64 CAGAA-GGGGTATCAGTACCATAATATATAGTAG
*
6049207 TATCGATACCATGATAGGGGTATCGATAC
1 TATCGATACCATGATAAGGGTATCGATAC
6049236 TATAGAGCCA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
95 36 0.33
96 57 0.52
97 16 0.15
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (96 bp):
TATCGATACCATGATAAGGGTATCGATACCAGTCAACATCGAATCTAAAATGGGTATCGATACCA
GAAGGGGTATCAGTACCATAATATATAGTAG
Found at i:6049640 original size:57 final size:57
Alignment explanation
Indices: 6049577--6050289 Score: 1174
Period size: 57 Copynumber: 12.5 Consensus size: 57
6049567 GTGTAAAATA
* *
6049577 TAAGAAATCATACTAAGTGTATGAATTTCAGAGAAGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6049634 TAAGAAATCTTACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
6049691 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTAGTACGCTAGAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
6049748 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGTGCGTTTCGTATGCTAAAATGC
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6049805 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTCCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
6049862 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTAGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6049919 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAATTGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6049976 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTCCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6050033 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTAGTACGCTATAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6050090 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGC
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
6050147 TAAGAAATCATACTAAATGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
** * *
6050204 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGACCGTTTTGTACGCTATAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
6050261 TAAGAAATCATACTAAGTGAATGAATTTC
1 TAAGAAATCATACTAAGTGTATGAATTTC
6050290 TGTATTGGAC
Statistics
Matches: 609, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 609 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:6052903 original size:21 final size:21
Alignment explanation
Indices: 6052873--6052931 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
6052863 TATCACTTTC
6052873 AAAAGGATTGATCCCTTGG-AG
1 AAAA-GATTGATCCCTTGGAAG
* *
6052894 AAAAGAATTGATCTCTAGGAAG
1 AAAAG-ATTGATCCCTTGGAAG
*
6052916 AAATGATTGATCCCTT
1 AAAAGATTGATCCCTT
6052932 CTCTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 6 0.19
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (21 bp):
AAAAGATTGATCCCTTGGAAG
Found at i:6056324 original size:19 final size:18
Alignment explanation
Indices: 6056300--6056345 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
6056290 GTGGAGTTCT
6056300 CTCATTTTTTCTTATCTTC
1 CTCATTTTTTCTT-TCTTC
* *
6056319 CTCATTTCTTCTTTCTTT
1 CTCATTTTTTCTTTCTTC
6056337 CTCCATTTT
1 CT-CATTTT
6056346 CTTCGTCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.63
Consensus pattern (18 bp):
CTCATTTTTTCTTTCTTC
Found at i:6059876 original size:60 final size:60
Alignment explanation
Indices: 6059803--6059924 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
6059793 TGTTGTGTTG
6059803 ATAGTCTTATTTCTAGTAAACAATAATGCATTCACAATGGCATCAATAATTAATTATATT
1 ATAGTCTTATTTCTAGTAAACAATAATGCATTCACAATGGCATCAATAATTAATTATATT
* * * *
6059863 ATAGTCTTATTTCTATTAAATAATAATGCATTCACAATTGCATCATTAATTAATTATATT
1 ATAGTCTTATTTCTAGTAAACAATAATGCATTCACAATGGCATCAATAATTAATTATATT
6059923 AT
1 AT
6059925 CCTATCACCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (60 bp):
ATAGTCTTATTTCTAGTAAACAATAATGCATTCACAATGGCATCAATAATTAATTATATT
Found at i:6066155 original size:20 final size:20
Alignment explanation
Indices: 6066126--6066168 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6066116 AAACTTGGTG
6066126 TCGTACTCCACCCCTAGGTA
1 TCGTACTCCACCCCTAGGTA
*
6066146 TCGTATTCCACCCCTAGGTA
1 TCGTACTCCACCCCTAGGTA
6066166 TCG
1 TCG
6066169 ATACCCGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.37, G:0.16, T:0.28
Consensus pattern (20 bp):
TCGTACTCCACCCCTAGGTA
Found at i:6078950 original size:20 final size:20
Alignment explanation
Indices: 6078910--6078953 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6078900 GATAATGTAC
**
6078910 GAACAATATCGATACTGGAT
1 GAACAATATCGATACCAGAT
*
6078930 GAACAATATTGATACCAGAT
1 GAACAATATCGATACCAGAT
6078950 GAAC
1 GAAC
6078954 TGGGTCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (20 bp):
GAACAATATCGATACCAGAT
Found at i:6081317 original size:19 final size:19
Alignment explanation
Indices: 6081293--6081341 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
6081283 ATATATAAAT
6081293 GGTATCGGTACTAAAAGGG
1 GGTATCGGTACTAAAAGGG
6081312 GGTATCGGTACTAAAAGGG
1 GGTATCGGTACTAAAAGGG
6081331 GGTATCGGTAC
1 GGTATCGGTAC
6081342 CTTATTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.22
Consensus pattern (19 bp):
GGTATCGGTACTAAAAGGG
Found at i:6081991 original size:81 final size:81
Alignment explanation
Indices: 6081900--6082635 Score: 1003
Period size: 81 Copynumber: 9.1 Consensus size: 81
6081890 AGTTCTAAAA
* ** * *
6081900 TAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAATATGTCAATTATGCCAGTAAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6081965 GTTAAATATCTTTGAG
66 GTTAAATACCTTTGAG
* ** ** * *
6081981 -AAAATGATTAATGGCCTAGTTGTGCATTTGATAGAAATATGTCAATAATGCTAGTTAGATGAAA
1 TAAAA-GATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
* *
6082045 GGTTTAATACCTTTGAA
65 GGTTAAATACCTTTGAG
* * * *
6082062 TAAAAGATTAATGGCCTAGTTGGGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6082127 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
6082143 TAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6082208 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
6082224 TAAAAGATTAATGGCCTAG-TAGTGCATTAGGCAAAAAGGTGTTAATTATGTCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGCT-GTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
6082288 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
*
6082305 TAAAATATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6082370 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
6082386 TTAAATATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6082451 GTTAAATACCGTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
6082467 TAAAAGATTAATGGCCTAGGTGTGCATTTGGAAAAAAAGTGTCAATTATTCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6082532 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
6082548 TAAAATATTAATGTCCTAGTTGTGCATTTGGCAAAGAAA--TGTCAATCATGCAAGTTAGATGAA
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGC--AGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
6082611 AGGATAAATGCCTTTGGG
64 AGGTTAAATACCTTTGAG
6082629 TAAAAGA
1 TAAAAGA
6082636 CTAAAGGATT
Statistics
Matches: 587, Mismatches: 62, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.01
81 573 0.98
82 5 0.01
83 4 0.01
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Done.