Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_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: 1759229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1029963 original size:19 final size:18
Alignment explanation
Indices: 1029939--1029989 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
1029929 TAATAATAAA
1029939 AATAATAAAAATATAAAAC
1 AATAATAAAAAT-TAAAAC
1029958 AATAATAATGAAATTAAAAC
1 AATAATAA--AAATTAAAAC
*
1029978 TATAAATAAAAA
1 AAT-AATAAAAA
1029990 AACTAGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 11 0.39
20 8 0.29
21 9 0.32
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAATAAAAATTAAAAC
Found at i:1031218 original size:14 final size:14
Alignment explanation
Indices: 1031160--1031224 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
1031150 TTTGGGCCTG
1031160 TAATATAATAA-AA
1 TAATATAATAATAA
*
1031173 TTA-ATAATAATTAA
1 TAATATAATAA-TAA
* *
1031187 TTATTTAATAATAA
1 TAATATAATAATAA
*
1031201 TAATATAATAATAC
1 TAATATAATAATAA
1031215 TAATA-AATAA
1 TAATATAATAA
1031225 AACAAATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 7 0.16
13 7 0.16
14 24 0.55
15 6 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:1031654 original size:113 final size:113
Alignment explanation
Indices: 1031471--1033013 Score: 2719
Period size: 113 Copynumber: 13.6 Consensus size: 113
1031461 AGAATCATGC
*
1031471 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * * *
1031536 TATGAACTC-TCTATGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1031585 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1031650 ATGAACTCGACCTGGCAATACTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1031698 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1031763 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
1031811 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1031876 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1031924 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1031989 ATAAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1032037 AAAATTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1032102 ATGAACTCAACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1032150 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1032215 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGTG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
1032263 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
1032328 ATGAACTCGACCTGGTAATACTGATCCATTGAATGATTAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1032376 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
1032441 ATGAACTCGACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1032489 AAAATTTGAACAAATTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1032554 ATGAACTCGACCTGGCAATGATGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
* *
1032602 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1032667 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
1032715 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1032780 ATGAACTCGACCTGGCAATGCTGATCCATCGAATAATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1032828 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1032893 ATGAACTCGACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
*
1032941 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1033006 ATGAACTC
66 ATGAACTC
1033014 TTCCAGAAAT
Statistics
Matches: 1366, Mismatches: 62, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
113 1360 1.00
114 6 0.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (113 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:1033528 original size:22 final size:22
Alignment explanation
Indices: 1033449--1033526 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
1033439 GATAAAGCTT
1033449 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1033471 TCATCTTTTAAAAAGAGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
* *
1033494 TCATCTTTGAAGAGAAAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1033516 TCATCTTTGAA
1 TCATCTTTGAA
1033527 GAATGTAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 30 0.59
23 21 0.41
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1036283 original size:114 final size:114
Alignment explanation
Indices: 1036083--1036308 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
1036073 ACGATCATGC
* * **
1036083 AATTCATCTTTCAATTCAAATGATTGGTTCTGGAGTTCCTACTGAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCAAATGATTGGTTCTGGAGTTCATACCAAACCAGATCAGATAACTCAAA
* *
1036148 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAAAAGATGCTATTAGGTCTCCTTATTTCTACTATGAGCA
* * * *
1036197 AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCAAATGATTGGTTCTGGAGTTCATACCAAACCAGATCAGATAACTCAAA
1036262 GAACACTTCCAAAAGATGCTATTAGGTCTCCTTATTTCTACTATGAG
66 GAACACTTCCAAAAGATGCTATTAGGTCTCCTTATTTCTACTATGAG
1036309 AACGTGGCAC
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
AATTCATCTTTCAAATCAAATGATTGGTTCTGGAGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAAAAGATGCTATTAGGTCTCCTTATTTCTACTATGAGCA
Found at i:1038454 original size:7 final size:7
Alignment explanation
Indices: 1038442--1038571 Score: 73
Period size: 7 Copynumber: 16.3 Consensus size: 7
1038432 ATTTCTTCCC
1038442 TTTTTCT
1 TTTTTCT
1038449 TTTTTCCCTT
1 TTTTT--C-T
1038459 TTTTTCCTT
1 TTTTT-C-T
1038468 TTTTCTCAT
1 TTTT-TC-T
1038477 TTTTTCT
1 TTTTTCT
1038484 TTTTCATCTT
1 TTTT--TC-T
1038494 TTTTTCT
1 TTTTTCT
1038501 TTTTTCCT
1 TTTTT-CT
*
1038509 TTTTCCT
1 TTTTTCT
*
1038516 CATTTT-T
1 -TTTTTCT
*
1038523 TTTCTCT
1 TTTTTCT
1038530 TTTTTCT
1 TTTTTCT
1038537 TTTTTCT
1 TTTTTCT
1038544 TTCTTTGCT
1 TT-TTT-CT
1038553 AGATTTTTCT
1 ---TTTTTCT
1038563 TTTTTCT
1 TTTTTCT
1038570 TT
1 TT
1038572 CTTTGCTGTA
Statistics
Matches: 101, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
6 3 0.03
7 44 0.44
8 16 0.16
9 19 0.19
10 14 0.14
11 3 0.03
12 2 0.02
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTTCT
Found at i:1038465 original size:25 final size:25
Alignment explanation
Indices: 1038433--1038523 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
1038423 CTTGATTCAA
*
1038433 TTTCTTCCCTTTTTCTTTTTTCCCTT
1 TTTCTTCCTTTTTTCTTTTTT-CCTT
*
1038459 TTT-TTCCTTTTTTCTCATTTTTTCTT
1 TTTCTTCCTTTTTTCT--TTTTTCCTT
* *
1038485 TTTCATCTTTTTTTCTTTTTTCCTT
1 TTTCTTCCTTTTTTCTTTTTTCCTT
* *
1038510 TTTCCTCATTTTTT
1 TTTCTTCCTTTTTT
1038524 TTCTCTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
25 31 0.56
26 9 0.16
27 15 0.27
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTCTTCCTTTTTTCTTTTTTCCTT
Found at i:1038469 original size:8 final size:8
Alignment explanation
Indices: 1038437--1038512 Score: 59
Period size: 8 Copynumber: 9.1 Consensus size: 8
1038427 ATTCAATTTC
*
1038437 TTCCCTTT
1 TTCCTTTT
1038445 TT-CTTTT
1 TTCCTTTT
1038452 TTCCCTTTTT
1 TT-CC-TTTT
1038462 TTCCTTTT
1 TTCCTTTT
1038470 TTCTCATTTT
1 TTC-C-TTTT
1038480 TT-C-TTT
1 TTCCTTTT
1038486 TTCATCTTTT
1 TTC--CTTTT
*
1038496 TTTCTTTT
1 TTCCTTTT
1038504 TTCCTTTT
1 TTCCTTTT
1038512 T
1 T
1038513 CCTCATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
6 5 0.09
7 6 0.11
8 23 0.41
9 5 0.09
10 17 0.30
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (8 bp):
TTCCTTTT
Found at i:1038504 original size:9 final size:9
Alignment explanation
Indices: 1038442--1038541 Score: 71
Period size: 9 Copynumber: 11.3 Consensus size: 9
1038432 ATTTCTTCCC
1038442 TTTTTCTTT
1 TTTTTCTTT
**
1038451 TTTCCCTTT
1 TTTTTCTTT
*
1038460 TTTTCCTTT
1 TTTTTCTTT
* *
1038469 TTTCTC-AT
1 TTTTTCTTT
1038477 TTTTTCTTT
1 TTTTTCTTT
**
1038486 TTCATC-TT
1 TTTTTCTTT
1038494 TTTTTC-TT
1 TTTTTCTTT
*
1038502 TTTTCCTTT
1 TTTTTCTTT
**
1038511 TTCCTCATTT
1 TTTTTC-TTT
*
1038521 TTTTTCTCT
1 TTTTTCTTT
1038530 TTTTTCTTT
1 TTTTTCTTT
1038539 TTT
1 TTT
1038542 CTTTCTTTGC
Statistics
Matches: 68, Mismatches: 20, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
8 19 0.28
9 42 0.62
10 7 0.10
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:1038522 original size:35 final size:34
Alignment explanation
Indices: 1038442--1038543 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 34
1038432 ATTTCTTCCC
*
1038442 TTTTTCTTTTTTC-CCTTTTTTTCCTTTTTTCTCAT
1 TTTTTC-TTTTTCATCTTTTTTT-CTTTTTTCTCAT
1038477 TTTTTCTTTTTCATCTTTTTTTCTTTTTTC-C-T
1 TTTTTCTTTTTCATCTTTTTTTCTTTTTTCTCAT
**
1038509 TTTTCCTCATTTTTTTTCTCTTTTTTCTTTTTTCT
1 TTTT--TC-TTTTTCATCT-TTTTTTCTTTTTTCT
1038544 TTCTTTGCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
32 5 0.09
33 1 0.02
34 16 0.28
35 22 0.38
36 14 0.24
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (34 bp):
TTTTTCTTTTTCATCTTTTTTTCTTTTTTCTCAT
Found at i:1038540 original size:42 final size:42
Alignment explanation
Indices: 1038458--1038545 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
1038448 TTTTTTCCCT
*
1038458 TTTTTTCCTTTTTTCTCATTTTTTCTTTTTCATCT-TTTTTTC
1 TTTTTTCCTTTTTCCTCATTTTTTCTTTTT-ATCTCTTTTTTC
1038500 TTTTTTCCTTTTTCCTCATTTTTTTTCTCTTTT-T-TCTTTTTTC
1 TTTTTTCCTTTTTCCTCA--TTTTTTCT-TTTTATCTCTTTTTTC
1038543 TTT
1 TTT
1038546 CTTTGCTAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
42 18 0.44
43 11 0.27
44 8 0.20
45 4 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (42 bp):
TTTTTTCCTTTTTCCTCATTTTTTCTTTTTATCTCTTTTTTC
Found at i:1044950 original size:3 final size:3
Alignment explanation
Indices: 1044942--1044986 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
1044932 ATATTTATAC
*
1044942 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA A-A ACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1044987 GAAATTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1046232 original size:3 final size:3
Alignment explanation
Indices: 1046212--1046290 Score: 64
Period size: 3 Copynumber: 28.0 Consensus size: 3
1046202 TTTGGGCCTG
* *
1046212 TAA T-A TAA TAA -AA TTAA TAA TAA TTAA TTA T-T TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
*
1046255 TAA T-A TAA TAA TAA -AA CAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1046291 ATAAAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
2 13 0.20
3 46 0.72
4 5 0.08
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1046292 original size:16 final size:16
Alignment explanation
Indices: 1046212--1046294 Score: 66
Period size: 16 Copynumber: 5.2 Consensus size: 16
1046202 TTTGGGCCTG
*
1046212 TAAT-ATAATAA-AAT
1 TAATAATAATAATAAA
**
1046226 TAATAATAATTAATTATT
1 TAATAATAA-TAA-TAAA
1046244 TAATAATAAT-ATAATA
1 TAATAATAATAATAA-A
*
1046260 TAATAATAA-AACAAAA
1 TAATAATAATAA-TAAA
1046276 TAATAATAATAATAAA
1 TAATAATAATAATAAA
1046292 TAA
1 TAA
1046295 AACAAATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
14 4 0.07
15 6 0.11
16 30 0.54
17 5 0.09
18 11 0.20
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATAATAATAAA
Found at i:1046590 original size:17 final size:17
Alignment explanation
Indices: 1046570--1046607 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1046560 ATATGTACGA
*
1046570 TTACCAAGGATACACTT
1 TTACCAAGCATACACTT
1046587 TTACCAAGCATACACTT
1 TTACCAAGCATACACTT
1046604 TTAC
1 TTAC
1046608 ATACTAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (17 bp):
TTACCAAGCATACACTT
Found at i:1050867 original size:14 final size:16
Alignment explanation
Indices: 1050848--1050879 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
1050838 GCCCTCTGTT
1050848 CGAACATA-AAT-GAA
1 CGAACATATAATCGAA
1050862 CGAACATATAATCGAA
1 CGAACATATAATCGAA
1050878 CG
1 CG
1050880 TTCACGAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:1051120 original size:17 final size:17
Alignment explanation
Indices: 1051100--1051136 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1051090 ATATAAAAAA
1051100 ATATTATTTA-TATATGT
1 ATATTATTTATTATAT-T
1051117 ATATTATTTATTATATT
1 ATATTATTTATTATATT
1051134 ATA
1 ATA
1051137 ATAGACGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATTATTTATTATATT
Found at i:1062667 original size:160 final size:159
Alignment explanation
Indices: 1062497--1062814 Score: 582
Period size: 160 Copynumber: 2.0 Consensus size: 159
1062487 AAATATAATC
*
1062497 TTTATATTTTATTTTAATGATTTTATATCTTATTTTTTATTCAGACTTTTTATTAATCATTCTTA
1 TTTATATTTTATTTTAATAATTTTATATCTTATTTTTTATTCAGACTTTTTATTAATCATTCTTA
*
1062562 TTTTATCTTTAACTATTAATTTAATAATATTTTAATAAAATTTCAATCATCCAATAATTATAAAT
66 TTTTATCTTTAAATATTAATTTAATAATATTTTAATAAAATTTCAATCATCCAATAATTATAAA-
*
1062627 TTTGTGTAAAACTAAAATAATTTTATATTG
130 TTTATGTAAAACTAAAATAATTTTATATTG
1062657 TTTATATTTTATTTTAATAATTTTATATCTTATTTTTTATTCAGACTTTTTATTAATCATTCTTA
1 TTTATATTTTATTTTAATAATTTTATATCTTATTTTTTATTCAGACTTTTTATTAATCATTCTTA
* *
1062722 TTTTCTCTTTAAATATTAATTTAATAATATTTTAATAAAATTTCAATCGTCCAATAATTATAAAT
66 TTTTATCTTTAAATATTAATTTAATAATATTTTAATAAAATTTCAATCATCCAATAATTATAAAT
1062787 TTATGTAAAACTAAAATAATTTTATATT
131 TTATGTAAAACTAAAATAATTTTATATT
1062815 ATGTAATAGG
Statistics
Matches: 153, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
159 28 0.18
160 125 0.82
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (159 bp):
TTTATATTTTATTTTAATAATTTTATATCTTATTTTTTATTCAGACTTTTTATTAATCATTCTTA
TTTTATCTTTAAATATTAATTTAATAATATTTTAATAAAATTTCAATCATCCAATAATTATAAAT
TTATGTAAAACTAAAATAATTTTATATTG
Found at i:1062670 original size:21 final size:20
Alignment explanation
Indices: 1062646--1062697 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1062636 AACTAAAATA
*
1062646 ATTTTATATTGTTTATATTTT
1 ATTTTATATT-TTTATATCTT
*
1062667 ATTTTAATAATTTTATATCTT
1 ATTTT-ATATTTTTATATCTT
*
1062688 ATTTTTTATT
1 ATTTTATATT
1062698 CAGACTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 19 0.73
22 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTTATATTTTTATATCTT
Found at i:1065410 original size:29 final size:29
Alignment explanation
Indices: 1065377--1065439 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
1065367 ATAAAACGAT
1065377 AACTTTAATGACCAAGCCATTATT-TTTGA
1 AACTTTAATGACCAAGCCATTATTGTTT-A
*
1065406 AACTTTAGTGACCAAGCCATTATTGTTTA
1 AACTTTAATGACCAAGCCATTATTGTTTA
1065435 AACTT
1 AACTT
1065440 CAGTACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (29 bp):
AACTTTAATGACCAAGCCATTATTGTTTA
Found at i:1071495 original size:2 final size:2
Alignment explanation
Indices: 1071490--1071520 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1071480 AGAGAAACAA
1071490 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1071521 CCTGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1073460 original size:2 final size:2
Alignment explanation
Indices: 1073453--1073497 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1073443 TTAATTATCG
1073453 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
1073495 TA T
1 TA T
1073498 TGATTCCTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1073909 original size:28 final size:28
Alignment explanation
Indices: 1073838--1073912 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
1073828 CGTCACTTTT
* **
1073838 AAGCACTGGCTCGACAACATAATATTTC
1 AAGCACTGGCTCGACGACATAATATCCC
* *
1073866 AAGCATTGACTCGACGACATAATATCCC
1 AAGCACTGGCTCGACGACATAATATCCC
*
1073894 AAGCACTGGTTCGACGACA
1 AAGCACTGGCTCGACGACA
1073913 AAATGTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (28 bp):
AAGCACTGGCTCGACGACATAATATCCC
Found at i:1075535 original size:2 final size:2
Alignment explanation
Indices: 1075528--1075553 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1075518 TAAATTTAAT
1075528 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
1075554 ATGTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1076296 original size:3 final size:3
Alignment explanation
Indices: 1076288--1076312 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1076278 TTATTTCCCG
1076288 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
1076313 CACACACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1081236 original size:10 final size:10
Alignment explanation
Indices: 1081221--1081279 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
1081211 CATTTAATAA
1081221 ATAAACGAAC
1 ATAAACGAAC
1081231 ATAAACGAAC
1 ATAAACGAAC
** *
1081241 ACGAAC-ATAA
1 ATAAACGA-AC
1081251 ATGAACACGAAC
1 AT-AA-ACGAAC
1081263 ATAAACGAAC
1 ATAAACGAAC
1081273 ATAAACG
1 ATAAACG
1081280 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 1 0.03
10 29 0.74
11 3 0.08
12 5 0.13
13 1 0.03
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1081246 original size:16 final size:16
Alignment explanation
Indices: 1081225--1081273 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
1081215 TAATAAATAA
1081225 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
1081241 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
1081257 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
1081273 A
1 A
1081274 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1082310 original size:24 final size:24
Alignment explanation
Indices: 1082293--1082354 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
1082283 ATAAATGAAT
*
1082293 GAACATAAACGAATATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
1082317 GAACATAAACAAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
1082341 GAACATAACCGAAC
1 GAACATAAACGAAC
1082355 GTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:1082317 original size:14 final size:14
Alignment explanation
Indices: 1082300--1082355 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1082290 AATGAACATA
*
1082300 AACGAATATAACCG
1 AACGAACATAACCG
1082314 AACGAACAT-A---
1 AACGAACATAACCG
*
1082324 AACAAACATAACCG
1 AACGAACATAACCG
1082338 AACGAACATAACCG
1 AACGAACATAACCG
1082352 AACG
1 AACG
1082356 TTCACGAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:1083783 original size:96 final size:91
Alignment explanation
Indices: 1083677--1083993 Score: 307
Period size: 96 Copynumber: 3.4 Consensus size: 91
1083667 TCTTTAATTG
* *
1083677 AATAT-TATATTTTAAAAGAGTTTAATAATTATAATAATTATCTTTTTTTTTTAAATATAAAAAT
1 AATATATATATTTTAATAGAGTTTAATAATTACAATAATTA--TTTTTTTTTTAAATATAAAAAT
* * *
1083741 TATCTCAATTCAGATTATTTTCTATCAAATA
64 TAT-TCAACTCAGATAAATTT-TATC-AATA
* * * * * *
1083772 AATATATATATTTTATTAGAATTTAATAATTACAATAATTA-TATATTTTTAAATATATAGATTT
1 AATATATATATTTTAATAGAGTTTAATAATTACAATAATTATTTTTTTTTTAAATATA-AAAATT
*
1083836 GTTTCAACTCAGATAAAATTTTATC-ATA
65 -ATTCAACTCAGAT-AAATTTTATCAATA
* * * *
1083864 AATATTATATATATATTAATATAGTTTGATAATTACAATAATTATTTATTTTTTAAATATATAAA
1 AATA-TATATAT-T-TTAATAGAGTTTAATAATTACAATAATTATTTTTTTTTTAAATATAAAAA
* * *
1083929 TCTATTAAAACTCATATAAGATTTGATCATATA
63 T-TATT-CAACTCAGATAA-ATTTTATCA-ATA
1083962 AATATATATATTTTAATAGAGTTTAATAATTA
1 AATATATATATTTTAATAGAGTTTAATAATTA
1083994 TCTCTTATTT
Statistics
Matches: 181, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
92 7 0.04
93 21 0.12
94 19 0.10
95 59 0.33
96 61 0.34
97 7 0.04
98 7 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (91 bp):
AATATATATATTTTAATAGAGTTTAATAATTACAATAATTATTTTTTTTTTAAATATAAAAATTA
TTCAACTCAGATAAATTTTATCAATA
Found at i:1083899 original size:95 final size:95
Alignment explanation
Indices: 1083677--1083993 Score: 313
Period size: 95 Copynumber: 3.3 Consensus size: 95
1083667 TCTTTAATTG
* * * * *
1083677 AATAT-TATATTTTAAAAGAGTTTAATAATTATAATAATTATCTTTTTTTTTTAAATATAAAAAT
1 AATATATATATTTTAATAGAGTTTAATAATTACAATAATTA--TATATTTTTTAAATATATAAAT
* * * * * *
1083741 -TATCT-CAATTCAGAT-TATTTTCTATCAAATA
64 CTAT-TAAAACTCAGATAAAATTT-GATCATATA
* * * *
1083772 AATATATATATTTTATTAGAATTTAATAATTACAATAATTATATA-TTTTTAAATATATAGATTT
1 AATATATATATTTTAATAGAGTTTAATAATTACAATAATTATATATTTTTTAAATATATAAATCT
* ** *
1083836 GTTTCAACTCAGATAAAATTTTATCATA-A
66 ATTAAAACTCAGATAAAATTTGATCATATA
* * * *
1083865 ATATTATATATATATTAATATAGTTTGATAATTACAATAATTATTTATTTTTTAAATATATAAAT
1 A-A-TATATATATTTTAATAGAGTTTAATAATTACAATAATTATATATTTTTTAAATATATAAAT
* *
1083930 CTATTAAAACTCATATAAGATTTGATCATATA
64 CTATTAAAACTCAGATAAAATTTGATCATATA
1083962 AATATATATATTTTAATAGAGTTTAATAATTA
1 AATATATATATTTTAATAGAGTTTAATAATTA
1083994 TCTCTTATTT
Statistics
Matches: 184, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
93 18 0.10
94 20 0.11
95 73 0.40
96 71 0.39
97 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (95 bp):
AATATATATATTTTAATAGAGTTTAATAATTACAATAATTATATATTTTTTAAATATATAAATCT
ATTAAAACTCAGATAAAATTTGATCATATA
Found at i:1084204 original size:2 final size:2
Alignment explanation
Indices: 1084148--1084194 Score: 67
Period size: 2 Copynumber: 23.0 Consensus size: 2
1084138 TTTGTTAAAA
* *
1084148 AT AT AT AT GT AT CAA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1084191 AT AT
1 AT AT
1084195 TAACTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 39 0.98
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1084214 original size:17 final size:19
Alignment explanation
Indices: 1084148--1084208 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
1084138 TTTGTTAAAA
* * *
1084148 ATATATATGTATCAAATAT
1 ATATATATATATTAACTAT
1084167 ATATATATATA-T-A-TAT
1 ATATATATATATTAACTAT
1084183 ATATATATATATTAACTAT
1 ATATATATATATTAACTAT
1084202 ATA-ATAT
1 ATATATAT
1084209 TTTTAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 14 0.38
17 2 0.05
18 5 0.14
19 16 0.43
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATATATATTAACTAT
Found at i:1085115 original size:2 final size:2
Alignment explanation
Indices: 1085108--1085189 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
1085098 AGCCATTTTA
1085108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1085150 AT A- AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1085190 AAAACTGATT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1085745 original size:3 final size:3
Alignment explanation
Indices: 1085731--1085811 Score: 135
Period size: 3 Copynumber: 26.7 Consensus size: 3
1085721 AGTTAAAAAA
1085731 TAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1085777 TAT TAT TAT TAT TAT TAT TAT TAG TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1085812 AGTGTATTTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1087159 original size:14 final size:16
Alignment explanation
Indices: 1087135--1087167 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1087125 GTTTATTTTG
1087135 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
1087150 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
1087165 TTT
1 TTT
1087168 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:1099117 original size:8 final size:8
Alignment explanation
Indices: 1099082--1099167 Score: 52
Period size: 8 Copynumber: 10.5 Consensus size: 8
1099072 TGCTTGAAGA
*
1099082 AAAAAAGG
1 AAAAAATG
*
1099090 AACAAAT-
1 AAAAAATG
*
1099097 AAAAAGATA
1 AAAAA-ATG
1099106 AAAAAATG
1 AAAAAATG
*
1099114 AAAATAA-A
1 AAAA-AATG
1099122 AAAAAATG
1 AAAAAATG
*
1099130 AAAAAAAG
1 AAAAAATG
*
1099138 AAATGAAA-A
1 AAA--AAATG
1099147 AAAGAAATG
1 AAA-AAATG
1099156 AAAAAATG
1 AAAAAATG
1099164 AAAA
1 AAAA
1099168 GAGAAAAAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
7 6 0.10
8 40 0.65
9 13 0.21
10 3 0.05
ACGTcount: A:0.78, C:0.01, G:0.12, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:1099124 original size:13 final size:13
Alignment explanation
Indices: 1099119--1099176 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
1099109 AAATGAAAAT
1099119 AAAAAA-AAATGA
1 AAAAAAGAAATGA
1099131 AAAAAAGAAATGA
1 AAAAAAGAAATGA
1099144 AAAAAAGAAATGA
1 AAAAAAGAAATGA
* *
1099157 AAAAATGAAAAGA
1 AAAAAAGAAATGA
*
1099170 GAAAAAG
1 AAAAAAG
1099177 GAGGGTTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
12 6 0.15
13 35 0.85
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (13 bp):
AAAAAAGAAATGA
Found at i:1099126 original size:26 final size:25
Alignment explanation
Indices: 1099097--1099175 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
1099087 AGGAACAAAT
*
1099097 AAAAAGATAAAAAAATGAAAAT-AA
1 AAAAAAATAAAAAAATGAAAATGAA
1099121 AAAAAAATGAAAAAAA-G-AAATGAAA
1 AAAAAAAT-AAAAAAATGAAAATG-AA
* *
1099146 AAAAGAAATGAAAAAATGAAAA-GAG
1 AAAA-AAATAAAAAAATGAAAATGAA
1099171 AAAAA
1 AAAAA
1099176 GGAGGGTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 4 0.09
24 9 0.20
25 24 0.52
26 6 0.13
27 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (25 bp):
AAAAAAATAAAAAAATGAAAATGAA
Found at i:1099127 original size:10 final size:11
Alignment explanation
Indices: 1099114--1099161 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 11
1099104 TAAAAAAATG
1099114 AAAAT-AAAAA
1 AAAATGAAAAA
1099124 AAAATGAAAAAA
1 AAAATG-AAAAA
1099136 AGAAATGAAAAAA
1 A-AAATG-AAAAA
1099149 AGAAATGAAAAA
1 A-AAATGAAAAA
1099161 A
1 A
1099162 TGAAAAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.14
12 12 0.34
13 18 0.51
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAATGAAAAA
Found at i:1099176 original size:26 final size:25
Alignment explanation
Indices: 1099106--1099176 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
1099096 TAAAAAGATA
*
1099106 AAAAAATGAAAATAAAAAA-AAATG
1 AAAAAATGAAAAGAAAAAAGAAATG
* *
1099130 AAAAAAAGAAATGAAAAAAAGAAATG
1 AAAAAATGAAAAG-AAAAAAGAAATG
1099156 AAAAAATGAAAAGAGAAAAAG
1 AAAAAATGAAAAGA-AAAAAG
1099177 GAGGGTTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 10 0.26
25 7 0.18
26 22 0.56
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.08
Consensus pattern (25 bp):
AAAAAATGAAAAGAAAAAAGAAATG
Found at i:1100424 original size:217 final size:217
Alignment explanation
Indices: 1100020--1100443 Score: 587
Period size: 217 Copynumber: 2.0 Consensus size: 217
1100010 GGAGGTGAAC
*
1100020 CAACATTTCCAATGGAGAGTTCATAATGAGAGAACTCATCGACAGAGGGAGAAGAAGTTCATAAT
1 CAACATTTCCAATGGAGAGTTCATAATGAAAGAACTCATCGACAGAGGGAGAAGAAGTTCATAAT
* * *
1100085 GAGAAGAGCTTGTTCGACTTATCACTCGATTTATGACATTTTGAATCAGTGACACCTCGCTTGAG
66 GAGAAGAGCTTGTTCGACTTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAG
* * * *
1100150 GGATTGATATTTTCAAGAGAGTTCATGAGAAGAACTCATCCAACGAGGAAGAAGTTCATAATGAG
131 GGATCGACATTTCCAAGAGAGTTCATGAGAAGAACTCATCCAACAAGGAAGAAGTTCATAATGAG
1100215 AAG-ACTTGTTCAAATTCGCAT
196 AAGAACTTGTTCAAATTCGCAT
* *
1100236 CAACATTTTCAATGGAGAGTT-ATAATGAAAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATG-AAAGAACTCAT-CGACAGAGGGAGAAGAAGTTCATA
* * *
1100300 ATGAGAAGAGCTT-TTTGAC-TATCACTTGA-TCACGACA-TTCGAATCAGTGACGCCTCGCTTG
64 ATGAGAAGAGCTTGTTCGACTTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTG
1100361 AGGGATCGACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCAT-CATA-AAGG-AGAAAGTT
129 AGGGATCGACATTTCCAA-G-AGAGTTC---ATGAGAAGAACTCATCCA-ACAAGGAAG-AAGTT
1100423 CATAATGAGAAGAACTTGTTC
187 CATAATGAGAAGAACTTGTTC
1100444 CTTTCAAATT
Statistics
Matches: 185, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
213 37 0.20
214 7 0.04
215 22 0.12
216 37 0.20
217 58 0.31
218 24 0.13
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (217 bp):
CAACATTTCCAATGGAGAGTTCATAATGAAAGAACTCATCGACAGAGGGAGAAGAAGTTCATAAT
GAGAAGAGCTTGTTCGACTTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAG
GGATCGACATTTCCAAGAGAGTTCATGAGAAGAACTCATCCAACAAGGAAGAAGTTCATAATGAG
AAGAACTTGTTCAAATTCGCAT
Found at i:1100500 original size:105 final size:106
Alignment explanation
Indices: 1100369--1100655 Score: 307
Period size: 105 Copynumber: 2.7 Consensus size: 106
1100359 TGAGGGATCG
1100369 ACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAA
1 ACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAA
* * *
1100434 GAACTTGTTCCTTTC-AAATTCACCACAGATGGAGGTGAACCA
64 GAACTTGTTCCTTTCTAAATCCACCACAAAAGGAGGTGAACCA
* *
1100476 ACA-TTCCAGAAGAGTTTCATAATGAGGAAGAACT-GTCCTAAAGGAGAAAGTTCATAATGAGAA
1 ACATTTCCAGAAGAG-TTCATAATGA-GAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAA
** * * ** * *
1100539 -AAAATGTT-CTTTCTAAGTCCACCGCAAAAGGATTTGTATCA
64 GAACTTGTTCCTTTCTAAATCCACCACAAAAGGAGGTGAACCA
* * **
1100580 ACATTTCCAAAAGAGTTCATAATGAGAAGAACTCATCCACGGAGAAAAAG-AAGTTCATAATGAG
1 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCAT-CA--TA-AAGGAGAAAGTTCATAATGAG
1100644 AAGAACTTGTTC
62 AAGAACTTGTTC
1100656 ATCTAACGAC
Statistics
Matches: 148, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
103 13 0.09
104 44 0.30
105 49 0.33
106 12 0.08
107 20 0.14
108 10 0.07
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (106 bp):
ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAAGA
ACTTGTTCCTTTCTAAATCCACCACAAAAGGAGGTGAACCA
Found at i:1102153 original size:14 final size:16
Alignment explanation
Indices: 1102129--1102161 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1102119 GTTTATTTTG
1102129 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
1102144 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
1102159 TTT
1 TTT
1102162 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:1102571 original size:179 final size:178
Alignment explanation
Indices: 1102247--1102607 Score: 599
Period size: 179 Copynumber: 2.0 Consensus size: 178
1102237 TTGTTAATAT
1102247 TTTTGGTTATGTTCAATTTAACCACTAAATTTTTAAATATCCTATTTAGTCATGTTATATTAAAA
1 TTTTGGTTATGTTCAATTTAACCACTAAATTTTTAAATATCCTATTTAGTCATGTTATATTAAAA
1102312 TATTTGTTTCAATTCGACCATATTATATTATACATTTTTTTTCCTTATATAATCGGTATATTTTT
66 TATTTGTTTCAATTCGACCA-ATTATATTATACATTTTTTTTCCTTATATAATCGGTATATTTTT
1102377 CATCAATATTTAAATTTCATCTATGTTGTGCATATTT-TTTTTAAAACC
130 CATCAATATTTAAATTTCATCTATGTTGTGCATATTTATTTTTAAAACC
1102425 TTTTGGTTATGTTCAATTTAACCACTAAA-TTTTAAATATCCTATTTTAGTCATG-T-TATTAAA
1 TTTTGGTTATGTTCAATTTAACCACTAAATTTTTAAATATCCTA-TTTAGTCATGTTATATTAAA
1102487 ATATTATGTGTTTCAATTCGACC-A-TATATTATACATATTTTTTTTCCTTAATATAATCGGTAT
65 ATA-T-T-TGTTTCAATTCGACCAATTATATTATAC--ATTTTTTTTCCTT-ATATAATCGGTAT
1102550 ATTTTTCATCAATATTTAAATTTCATCTATGTTGTGCATATTTAATTTTTAAAACC
124 ATTTTTCATCAATATTTAAATTTCATCTATGTTGTGCATATTT-ATTTTTAAAACC
1102606 TT
1 TT
1102608 GAGATGAGCA
Statistics
Matches: 174, Mismatches: 0, Indels: 15
0.92 0.00 0.08
Matches are distributed among these distances:
176 20 0.11
177 17 0.10
178 53 0.30
179 71 0.41
181 13 0.07
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (178 bp):
TTTTGGTTATGTTCAATTTAACCACTAAATTTTTAAATATCCTATTTAGTCATGTTATATTAAAA
TATTTGTTTCAATTCGACCAATTATATTATACATTTTTTTTCCTTATATAATCGGTATATTTTTC
ATCAATATTTAAATTTCATCTATGTTGTGCATATTTATTTTTAAAACC
Found at i:1114298 original size:60 final size:60
Alignment explanation
Indices: 1114199--1114332 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
1114189 TTTTAATTTG
* *
1114199 GTCCCTAAACTTTTGAATAATCTAATTACATCATCAAACTATTACTC-TCATTCTAAATTA
1 GTCCCTAAACTTTTGAACAATCTAATTACATCATCAAACTATGAC-CATCATTCTAAATTA
* * * * *
1114259 GTCCTTAAACTTTTGAACATTCTAATTTCATTCCT-AAACTATGACCATCTTTCTAAATT-
1 GTCCCTAAACTTTTGAACAATCTAATTACA-TCATCAAACTATGACCATCATTCTAAATTA
*
1114318 GATCCCCAAACTTTT
1 G-TCCCTAAACTTTT
1114333 TAATATTCCA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
59 2 0.03
60 57 0.92
61 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (60 bp):
GTCCCTAAACTTTTGAACAATCTAATTACATCATCAAACTATGACCATCATTCTAAATTA
Found at i:1114553 original size:61 final size:59
Alignment explanation
Indices: 1114485--1114652 Score: 153
Period size: 60 Copynumber: 2.8 Consensus size: 59
1114475 CATATAGCTT
*
1114485 GGGATGAAATTGGAATGTTCAAAAAGTTCATGGACTAATTTAAAATGA-AGGTCATAGTTTG
1 GGGATGAAATTGGAATGTTCAAAAAGTT-A-GGACTAATTTAAAATGATA-GTCATAGTTTA
* * ** *
1114546 GGGATGAAATT-AAAGTGTTC-ATAAGTTTGAGGACTAATTTGGAATCATAGTCATAGTTTA
1 GGGATGAAATTGGAA-TGTTCAAAAAG-TT-AGGACTAATTTAAAATGATAGTCATAGTTTA
* * * * *
1114606 GGGATGGAATTGGAATATTTAAAAAATTAGGGACCAATTTAAAATGA
1 GGGATGAAATTGGAATGTTCAAAAAGTTA-GGACTAATTTAAAATGA
1114653 GAATTATACT
Statistics
Matches: 84, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
59 1 0.01
60 58 0.69
61 25 0.30
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.32
Consensus pattern (59 bp):
GGGATGAAATTGGAATGTTCAAAAAGTTAGGACTAATTTAAAATGATAGTCATAGTTTA
Found at i:1117788 original size:3 final size:3
Alignment explanation
Indices: 1117780--1117826 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1117770 TCTTGTTACC
* *
1117780 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1117827 TTTTTGGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1130705 original size:25 final size:25
Alignment explanation
Indices: 1130661--1130708 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
1130651 TTGATTATAT
1130661 ATTTTATTGATAATTTTTTCATAAA
1 ATTTTATTGATAATTTTTTCATAAA
*
1130686 ATTTTATTTAT-ATTTATTTCATA
1 ATTTTATTGATAATTT-TTTCATA
1130709 TAAAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTTATTGATAATTTTTTCATAAA
Found at i:1131632 original size:11 final size:11
Alignment explanation
Indices: 1131602--1131647 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
1131592 TCAAAAGAAA
1131602 ATATAATAAATT
1 ATATAA-AAATT
1131614 ATAT--AAATT
1 ATATAAAAATT
1131623 ATATAAAAATT
1 ATATAAAAATT
* *
1131634 TTAAAAAAATT
1 ATATAAAAATT
1131645 ATA
1 ATA
1131648 GGGCATTGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.31
11 16 0.55
12 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATAAAAATT
Found at i:1132688 original size:24 final size:24
Alignment explanation
Indices: 1132661--1132748 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 24
1132651 TTAAGTAACC
*
1132661 TAAAATAAAAATATAATTTAAATT
1 TAAAATAAAAATATAATTAAAATT
* * * * *
1132685 TAAACTTAAAATAAAAATAAAAATA
1 TAAAATAAAAAT-ATAATTAAAATT
1132710 TAAAAT-AAAATA-AATATAAAATT
1 TAAAATAAAAATATAAT-TAAAATT
1132733 ATAAAATAAAAA-ATAA
1 -TAAAATAAAAATATAA
1132749 AATTATCGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
22 3 0.06
23 6 0.12
24 22 0.44
25 19 0.38
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAATAAAAATATAATTAAAATT
Found at i:1132701 original size:6 final size:6
Alignment explanation
Indices: 1132692--1132750 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
1132682 ATTTAAACTT
* *
1132692 AAAATA AAAATA AAAATA TAAAAT- AAAATA AATATA AAATTA TAAAATAA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA -AAAAT-A
1132742 AAAATA AAA
1 AAAATA AAA
1132751 TTATCGGGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.11
6 25 0.56
7 14 0.31
8 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:1138339 original size:4 final size:4
Alignment explanation
Indices: 1138330--1138801 Score: 944
Period size: 4 Copynumber: 118.0 Consensus size: 4
1138320 TAAGATGTAC
1138330 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138378 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138426 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138474 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138522 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138570 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138618 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138666 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138714 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138762 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1138802 ATGAAATGGA
Statistics
Matches: 468, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 468 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1141272 original size:6 final size:6
Alignment explanation
Indices: 1141248--1141332 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
1141238 GATAGAGTTT
* * * *
1141248 CTCTCT CTCTCCC CCCTCC CTCTCC CTCTCC CTTTCTC CTC-CC C-CCCC
1 CTCTCC CTCT-CC CTCTCC CTCTCC CTCTCC CTCTC-C CTCTCC CTCTCC
* * * * *
1141296 CCCTCT CTCTCT CTCTCT CTCTCT CTCTCC CTCTCC C
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC C
1141333 CCTCTCCCCC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
4 1 0.02
5 5 0.08
6 53 0.80
7 7 0.11
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCTCC
Found at i:1141303 original size:2 final size:2
Alignment explanation
Indices: 1141298--1141349 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
1141288 CCCCCCCCCC
* * * *
1141298 CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CC CC CT CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
1141340 CC CT CT CT CT
1 CT CT CT CT CT
1141350 ATATCACTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (2 bp):
CT
Found at i:1142542 original size:19 final size:19
Alignment explanation
Indices: 1142507--1142543 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1142497 CATATAATTT
*
1142507 TAATATTTTGACAATTTTA
1 TAATATTTTAACAATTTTA
*
1142526 TAATATTTTAACTATTTT
1 TAATATTTTAACAATTTT
1142544 TTCGTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TAATATTTTAACAATTTTA
Found at i:1145539 original size:14 final size:14
Alignment explanation
Indices: 1145520--1145547 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1145510 CAACTCCTAA
1145520 TTCAATTGTATTAG
1 TTCAATTGTATTAG
1145534 TTCAATTGTATTAG
1 TTCAATTGTATTAG
1145548 ACTCACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TTCAATTGTATTAG
Found at i:1145697 original size:10 final size:10
Alignment explanation
Indices: 1145669--1145702 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1145659 TTAATTATTA
*
1145669 ATTGTTAACC
1 ATTGTTAACT
1145679 ATCTGTTAACT
1 AT-TGTTAACT
1145690 ATTGTTAACT
1 ATTGTTAACT
1145700 ATT
1 ATT
1145703 AATCATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (10 bp):
ATTGTTAACT
Found at i:1146233 original size:27 final size:28
Alignment explanation
Indices: 1146115--1146283 Score: 99
Period size: 29 Copynumber: 5.9 Consensus size: 28
1146105 GTATATATCA
* * * * *
1146115 TTATTGTAATTTATAAGAAGTTTTGATTT
1 TTATTATAATTTACAAAAAGGTTT-ATAT
* * * * *
1146144 TTATTATGATTTATAAAAATGTTTGTTCT
1 TTATTATAATTTACAAAAAGGTTT-ATAT
* * * * * *
1146173 TTGTTGTAATTTGCAAAAAGTTTTGTCCT
1 TTATTATAATTTACAAAAAGGTTTAT-AT
* *
1146202 TTATTTTAATTTACAATAAGGTTTAT-T
1 TTATTATAATTTACAAAAAGGTTTATAT
* *
1146229 TTATTGTAATTTACAAAAAGAATTT-TCAT
1 TTATTATAATTTACAAAAAG-GTTTAT-AT
1146258 TTATTATAATTTACAAAAAGGTTTAT
1 TTATTATAATTTACAAAAAGGTTTAT
1146284 CCTTTAATTT
Statistics
Matches: 109, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
27 20 0.18
28 7 0.06
29 82 0.75
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
TTATTATAATTTACAAAAAGGTTTATAT
Found at i:1146261 original size:56 final size:56
Alignment explanation
Indices: 1146115--1146283 Score: 162
Period size: 56 Copynumber: 3.0 Consensus size: 56
1146105 GTATATATCA
* * * * * * * *
1146115 TTATTGTAATTTATAAGAAGTTTTGAT-TTTTATTATGATTTATAAAAATGTTTGTTCT
1 TTATTGTAATTTACAAAAAGATTTG-TCATTTATTATAATTTACAAAAAGGTTT-AT-T
* * * * * *
1146173 TTGTTGTAATTTGCAAAAAGTTTTGTCCTTTATTTTAATTTACAATAAGGTTTATT
1 TTATTGTAATTTACAAAAAGATTTGTCATTTATTATAATTTACAAAAAGGTTTATT
1146229 TTATTGTAATTTACAAAAAGAATTT-TCATTTATTATAATTTACAAAAAGGTTTAT
1 TTATTGTAATTTACAAAAAG-ATTTGTCATTTATTATAATTTACAAAAAGGTTTAT
1146284 CCTTTAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
56 46 0.50
57 5 0.05
58 41 0.45
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.51
Consensus pattern (56 bp):
TTATTGTAATTTACAAAAAGATTTGTCATTTATTATAATTTACAAAAAGGTTTATT
Found at i:1146289 original size:29 final size:29
Alignment explanation
Indices: 1146143--1146289 Score: 129
Period size: 29 Copynumber: 5.1 Consensus size: 29
1146133 AGTTTTGATT
* * * * *
1146143 TTTATTATGATTTATAAAAATGTTTGTTC
1 TTTATTATAATTTACAAAAAGGTTTATCC
* * * * *
1146172 TTTGTTGTAATTTGCAAAAAGTTTTGTCC
1 TTTATTATAATTTACAAAAAGGTTTATCC
* *
1146201 TTTATTTTAATTTACAATAAGGTTTAT--
1 TTTATTATAATTTACAAAAAGGTTTATCC
* * *
1146228 TTTATTGTAATTTACAAAAAGAATTT-TCA
1 TTTATTATAATTTACAAAAAG-GTTTATCC
1146257 TTTATTATAATTTACAAAAAGGTTTATCC
1 TTTATTATAATTTACAAAAAGGTTTATCC
1146286 TTTA
1 TTTA
1146290 ATTTAGTTTT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
27 20 0.21
28 6 0.06
29 68 0.72
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (29 bp):
TTTATTATAATTTACAAAAAGGTTTATCC
Found at i:1150685 original size:23 final size:23
Alignment explanation
Indices: 1150651--1150719 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
1150641 CACCAAAGCT
* * *
1150651 CGTATAAATGCATCGAAGTGTCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1150674 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
1150697 CGTAGAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
1150720 TATAAGTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1151610 original size:2 final size:2
Alignment explanation
Indices: 1151603--1151669 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
1151593 TAATTTACCC
1151603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1151645 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1151670 GTTTGCGTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1152438 original size:63 final size:64
Alignment explanation
Indices: 1152330--1152490 Score: 175
Period size: 63 Copynumber: 2.5 Consensus size: 64
1152320 ATCCCTTGAC
* * * ** *
1152330 GGGTGCATCGATGCACTA-TCTATGCATCGGTGCATAAATTTCATTCGAT-TTTTGTA-TTTAAG
1 GGGTGCATCGATGCACTACT-TGTGCATCGATACATAAATGGCATTCGATGTTTT-TATTTTAAA
1152392 G
64 G
**
1152393 GGGTGCATCGATGCACTACTTGTGCATCGATACATTGATGGCATTCGATGTTTTTATTTTAAAG
1 GGGTGCATCGATGCACTACTTGTGCATCGATACATAAATGGCATTCGATGTTTTTATTTTAAAG
* * * *
1152457 GAGTGCATCGATACACTTCATGTGCATCGATACA
1 GGGTGCATCGATGCACTACTTGTGCATCGATACA
1152491 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 42 0.51
64 41 0.49
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (64 bp):
GGGTGCATCGATGCACTACTTGTGCATCGATACATAAATGGCATTCGATGTTTTTATTTTAAAG
Found at i:1152481 original size:64 final size:63
Alignment explanation
Indices: 1152371--1152490 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
1152361 GCATAAATTT
* * * *
1152371 CATTCGATTTTTGTATTTAAGGGGGTGCATCGATGCACTACTTGTGCATCGATACATTGATGG
1 CATTCGATTTTTGTATTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACATTGATGG
*
1152434 CATTCGATGTTTT-TATTTTAAAGGAGTGCATCGATACACTTCATGTGCATCGATACA
1 CATTCGAT-TTTTGTA-TTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACA
1152491 CCTTAAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 10 0.20
64 40 0.80
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (63 bp):
CATTCGATTTTTGTATTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACATTGATGG
Found at i:1158290 original size:210 final size:210
Alignment explanation
Indices: 1157928--1158346 Score: 838
Period size: 210 Copynumber: 2.0 Consensus size: 210
1157918 ATATTAAAAT
1157928 TAATTTTAACATTTATAATTTTATATTTCCTTAATTAACTGTTTACCATTAGACTCAAAGTTAAA
1 TAATTTTAACATTTATAATTTTATATTTCCTTAATTAACTGTTTACCATTAGACTCAAAGTTAAA
1157993 ATTCCGAGGAAACTCACCGACTGTGGCAGAATTGTAGGTGGTCATTCCGGGCTGCCCCACATTCA
66 ATTCCGAGGAAACTCACCGACTGTGGCAGAATTGTAGGTGGTCATTCCGGGCTGCCCCACATTCA
1158058 GAGAACCTGTAATAACGGTTTTACCCATCCCCTCCCCCAAAAACACCACGTTCTTCTTCGACAAA
131 GAGAACCTGTAATAACGGTTTTACCCATCCCCTCCCCCAAAAACACCACGTTCTTCTTCGACAAA
1158123 GGAACCCTCACCGTG
196 GGAACCCTCACCGTG
1158138 TAATTTTAACATTTATAATTTTATATTTCCTTAATTAACTGTTTACCATTAGACTCAAAGTTAAA
1 TAATTTTAACATTTATAATTTTATATTTCCTTAATTAACTGTTTACCATTAGACTCAAAGTTAAA
1158203 ATTCCGAGGAAACTCACCGACTGTGGCAGAATTGTAGGTGGTCATTCCGGGCTGCCCCACATTCA
66 ATTCCGAGGAAACTCACCGACTGTGGCAGAATTGTAGGTGGTCATTCCGGGCTGCCCCACATTCA
1158268 GAGAACCTGTAATAACGGTTTTACCCATCCCCTCCCCCAAAAACACCACGTTCTTCTTCGACAAA
131 GAGAACCTGTAATAACGGTTTTACCCATCCCCTCCCCCAAAAACACCACGTTCTTCTTCGACAAA
1158333 GGAACCCTCACCGT
196 GGAACCCTCACCGT
1158347 TTCCTCGTAC
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 209 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (210 bp):
TAATTTTAACATTTATAATTTTATATTTCCTTAATTAACTGTTTACCATTAGACTCAAAGTTAAA
ATTCCGAGGAAACTCACCGACTGTGGCAGAATTGTAGGTGGTCATTCCGGGCTGCCCCACATTCA
GAGAACCTGTAATAACGGTTTTACCCATCCCCTCCCCCAAAAACACCACGTTCTTCTTCGACAAA
GGAACCCTCACCGTG
Found at i:1161146 original size:2 final size:2
Alignment explanation
Indices: 1161139--1161168 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1161129 CTATAAATGA
1161139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1161169 TGTATATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1161215 original size:17 final size:18
Alignment explanation
Indices: 1161193--1161226 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1161183 AAAAAATCAT
1161193 TTAAATTAATAT-TATAA
1 TTAAATTAATATATATAA
*
1161210 TTAAATTTATATATATA
1 TTAAATTAATATATATA
1161227 CTGAAGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTAATATATATAA
Found at i:1161406 original size:19 final size:19
Alignment explanation
Indices: 1161382--1161418 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1161372 CTCTACCTTC
*
1161382 TGAACTTTTGCTAAAATTG
1 TGAACTTTAGCTAAAATTG
*
1161401 TGAACTTTAGCTCAAATT
1 TGAACTTTAGCTAAAATT
1161419 TTATTTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
TGAACTTTAGCTAAAATTG
Found at i:1162827 original size:29 final size:29
Alignment explanation
Indices: 1162795--1162855 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
1162785 ATTAGTATCT
1162795 AAACTTTTGAA-CATTCTAATTTCATCCCC
1 AAACTTTTGAATC-TTCTAATTTCATCCCC
*
1162824 AAACTTTTGAATCTTCTAATTTTATCCCC
1 AAACTTTTGAATCTTCTAATTTCATCCCC
1162853 AAA
1 AAA
1162856 TTCATCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (29 bp):
AAACTTTTGAATCTTCTAATTTCATCCCC
Found at i:1163100 original size:60 final size:60
Alignment explanation
Indices: 1163021--1163133 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
1163011 TTTAGGGACC
* *
1163021 AATTTAGAATGAAGATCATAGTTTGGGGATAAAACTAAAATGTTCAAATGTTTGAGGATT
1 AATTTAGAATGAAGATCATAGTTTAGGGATAAAACTAAAATGTTCAAAAGTTTGAGGATT
* * * * *
1163081 AATTTAGGATGATAG-TCATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTT
1 AATTTAGAATGA-AGATCATAGTTTAGGGATAAAACTAAAATGTTCAAAAGTTT
1163134 AAAAACCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 43 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (60 bp):
AATTTAGAATGAAGATCATAGTTTAGGGATAAAACTAAAATGTTCAAAAGTTTGAGGATT
Found at i:1164901 original size:29 final size:31
Alignment explanation
Indices: 1164869--1164936 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
1164859 ATATTACAAT
*
1164869 TTATAAACAT-TAAAAT-T-TTATAATTAATA
1 TTATAAACATAAAAAATATATTATAA-TAATA
1164898 TTATAAACATAAAAAATAATATTATAATAATA
1 TTATAAACATAAAAAAT-ATATTATAATAATA
1164930 TTATAAA
1 TTATAAA
1164937 AATATGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.29
30 5 0.15
32 13 0.38
33 6 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (31 bp):
TTATAAACATAAAAAATATATTATAATAATA
Found at i:1164928 original size:11 final size:11
Alignment explanation
Indices: 1164886--1164941 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
1164876 CATTAAAATT
1164886 TTATAATTAATA
1 TTATAA-TAATA
1164898 TTATAA-ACATA
1 TTATAATA-ATA
* *
1164909 -AAAAATAATA
1 TTATAATAATA
1164919 TTATAATAATA
1 TTATAATAATA
*
1164930 TTATAAAAATA
1 TTATAATAATA
1164941 T
1 T
1164942 GAATTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
10 7 0.19
11 23 0.64
12 6 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TTATAATAATA
Found at i:1165032 original size:36 final size:36
Alignment explanation
Indices: 1164985--1165061 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
1164975 TTTCATTGTT
1164985 TTCAAACGAATATTGATAATAAATTTAGTATTTCGA
1 TTCAAACGAATATTGATAATAAATTTAGTATTTCGA
1165021 TTCAAACGAATATTGATAATAAATTTAGTATTTCGA
1 TTCAAACGAATATTGATAATAAATTTAGTATTTCGA
1165057 TTCAA
1 TTCAA
1165062 TTTTTAAAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (36 bp):
TTCAAACGAATATTGATAATAAATTTAGTATTTCGA
Found at i:1169611 original size:27 final size:27
Alignment explanation
Indices: 1169579--1169643 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
1169569 TCTTGGGTTT
*
1169579 GATGTTTGAAGCAGATTATGTTTTGTA
1 GATGTTTGAAGCAGATTATGTTTAGTA
1169606 GATGTTTGAAGCAGATTATGTTTAGTA
1 GATGTTTGAAGCAGATTATGTTTAGTA
1169633 GATGTTTGAAG
1 GATGTTTGAAG
1169644 AAACTGGCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.42
Consensus pattern (27 bp):
GATGTTTGAAGCAGATTATGTTTAGTA
Found at i:1170563 original size:21 final size:22
Alignment explanation
Indices: 1170539--1170588 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
1170529 AATAAGAATA
1170539 TTTC-TGCCTTTGTGACACGTT
1 TTTCATGCCTTTGTGACACGTT
*
1170560 TTTCTATGTCTTTGTGACACGTT
1 TTTC-ATGCCTTTGTGACACGTT
1170583 TTTCAT
1 TTTCAT
1170589 TTTCTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 2 0.08
23 20 0.77
ACGTcount: A:0.12, C:0.20, G:0.16, T:0.52
Consensus pattern (22 bp):
TTTCATGCCTTTGTGACACGTT
Found at i:1170872 original size:221 final size:227
Alignment explanation
Indices: 1170485--1170932 Score: 854
Period size: 221 Copynumber: 2.0 Consensus size: 227
1170475 TTCTAGTTGT
1170485 CAACCGTCGATTATCTTTTTTTTTGTTTCTTTTTTCATTTTTTTAATAAGAATATTTCTGCCTTT
1 CAACCGTCGATTATCTTTTTTTTTGTTTCTTTTTTCATTTTTTTAATAAGAATATTTCTGCCTTT
1170550 GTGACACGTTTTTCTATGTCTTTGTGACACGTTTTTCATTTTCTTTATCAGTTGTTTGACTGTTC
66 GTGACACGTTTTTCTATGTCTTTGTGACACGTTTTTCATTTTCTTTATCAGTTGTTTGACTGTTC
1170615 TTTTTATTTTATATTTTCTTAAAGGTTGGATTTAACAAAGTCACGACTGATCAAGATGGCGTTTA
131 TTTTTATTTTATATTTTCTTAAAGGTTGGATTTAACAAAGTCACGACTGATCAAGATGGCGTTTA
1170680 -TTAT-ATCTTGTTGATCTTACCTGTTATGAA
196 TTTATAATCTTGTTGATCTTACCTGTTATGAA
1170710 CAACCGTCGATTATC-TTTTTTTTGTTTCTTTTTTCATTTTTTTAATAAGAATATTTCTG-C-TT
1 CAACCGTCGATTATCTTTTTTTTTGTTTCTTTTTTCATTTTTTTAATAAGAATATTTCTGCCTTT
1170772 -TGACACGTTTTTCTATGTCTTTGTGACACGTTTTTCATTTTCTTTATCAGTTGTTTGACTGTTC
66 GTGACACGTTTTTCTATGTCTTTGTGACACGTTTTTCATTTTCTTTATCAGTTGTTTGACTGTTC
1170836 TTTTTATTTTATATTTTCTTAAAGGTTGGATTTAACAAAGTCACGACTGATCAAGATGGCGTTTA
131 TTTTTATTTTATATTTTCTTAAAGGTTGGATTTAACAAAGTCACGACTGATCAAGATGGCGTTTA
1170901 TTTATAATCTTGTTGATCTTACCTGTTATGAA
196 TTTATAATCTTGTTGATCTTACCTGTTATGAA
1170933 TCCTCATATT
Statistics
Matches: 221, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
221 129 0.58
222 6 0.03
223 27 0.12
224 44 0.20
225 15 0.07
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (227 bp):
CAACCGTCGATTATCTTTTTTTTTGTTTCTTTTTTCATTTTTTTAATAAGAATATTTCTGCCTTT
GTGACACGTTTTTCTATGTCTTTGTGACACGTTTTTCATTTTCTTTATCAGTTGTTTGACTGTTC
TTTTTATTTTATATTTTCTTAAAGGTTGGATTTAACAAAGTCACGACTGATCAAGATGGCGTTTA
TTTATAATCTTGTTGATCTTACCTGTTATGAA
Found at i:1172405 original size:30 final size:29
Alignment explanation
Indices: 1172371--1172461 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 29
1172361 AACTTTATCC
* *
1172371 TTAAATTTTAGTTAAAATACTAATTTAACT
1 TTAAACTTTAGATAAAATA-TAATTTAACT
*
1172401 TTAAACTCTAGATAAAATATTAATTTAATCCT
1 TTAAACTTTAGATAAAATA-TAATTTAA--CT
*
1172433 TTAGACTTTAGATAAAATATCAATTTAAC
1 TTAAACTTTAGATAAAATAT-AATTTAAC
1172462 CCTTCAGTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
30 25 0.48
31 1 0.02
32 26 0.50
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (29 bp):
TTAAACTTTAGATAAAATATAATTTAACT
Found at i:1172445 original size:32 final size:31
Alignment explanation
Indices: 1172354--1172462 Score: 114
Period size: 30 Copynumber: 3.5 Consensus size: 31
1172344 AAAAATCATT
* * * *
1172354 AAATTTTAACTTTATCC-TTAAATTTTAGTTA
1 AAATATTAA-TTTAACCTTTAAACTTTAGATA
* *
1172385 AAATACTAATTTAA-CTTTAAACTCTAGATA
1 AAATATTAATTTAACCTTTAAACTTTAGATA
*
1172415 AAATATTAATTTAATCCTTTAGACTTTAGATA
1 AAATATTAATTTAA-CCTTTAAACTTTAGATA
*
1172447 AAATATCAATTTAACC
1 AAATATTAATTTAACC
1172463 CTTCAGTCTA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
29 1 0.02
30 28 0.43
31 9 0.14
32 27 0.42
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (31 bp):
AAATATTAATTTAACCTTTAAACTTTAGATA
Found at i:1173357 original size:4 final size:4
Alignment explanation
Indices: 1173348--1179207 Score: 8262
Period size: 4 Copynumber: 1494.5 Consensus size: 4
1173338 AAACTAAATG
1173348 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1173396 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1173444 TACA TAC- -ACA TACA TACA TACC TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1173489 TACA TACA TACCA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA
1 TACA TACA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1173536 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA
1173585 T-CA CTACA TACA TACA TACA -ACA T-CA TACA TACA TACA TACA TACA
1 TACA -TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1173631 TACA TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1173678 TACA TACA TACA TACA TACA TACA TACCA TACA TACA TACA CTACC TACA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA -TACA TACA
1173728 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1173776 TACA TAC- TACA TACA TACA TACA TAC- -ACA TACA TACAA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA
*
1173820 TACC TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1173865 TACA TACA TACA TACA TACA TACA TACA CTACA TACA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA
* * * *
1173914 TACG TACG TACG TACG TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* **
1173962 TACA TAC- TAC- TACA TACA TACA TACA TACA TACA TA-G TATG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174007 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174055 TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1174102 TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174148 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174196 TACA TACA TACA TACA TACA TACA TAC- TACA T-CA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174242 TACA TACA TACA T--A TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174288 TACA TACA TACA TAC- -ACA TACA TACA TACA TACA T--A TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1174332 TACA TACA TACA TACA TACA TACA TACA TACA TACA CTACA TACA GACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA -TACA TACA TACA
1174381 TACA TACA TACA TACA TACA TACA CTACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA
1174430 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1174477 TACA TACA TACA TACA TACG TACG TACA TACA T--A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
1174523 TACG TACA TACG TACA TACG TACA TACA TACG TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174571 T-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1174617 TACA TACA TAC- -ACA TACC TACA TAC- TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174662 TACA TACA TACA TACA CTACA TACA TACA TACA -ACA TACA TACA TACA
1 TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA TACA TACA
1174710 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1174756 TACA TACA TACA TACA TACA TACA TACA TAC- TACC TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1174803 TACA TACA TACA TACA TACA TACA TACA T--A TACA TACC TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** ** *
1174847 TACA TACA TACA TACA TACA TAC- TACA TATG TATG TAC- TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174893 TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
1174939 TAC- -ACA TACG TACG TACC TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1174985 TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1175032 TACA TACA TACC TACA TAC- -ACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175078 TACA TACA -ACA TACA TACA TACA TACA TACTA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA
*
1175126 TACA TACA TACA TACA TACC TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** ** *
1175174 TACA TACA TACA TACA TACA TACA TACA TACA TACA TATG TATG TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1175222 TAC- TACA TACA TACA TACC TACA TACA TACA TCCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175269 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1175317 CATCA TACA TACA TACA TACC TACA TACA TACA TAC- TACA TACA TACA
1 TA-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175365 TACCA TACA TACA CTACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TA-CA TACA TACA -TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1175415 TACA TACA TACA TACCA TACA TACA TACA TACA TACA TACA TACA TACC
1 TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA
1175464 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1175511 TACA TACA TACA TACA TAC- TACA TACA TACA TCCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1175558 TACA TACA TACA TAACA TACA TACA TACA TACA TACA TAC- CACA TACA
1 TACA TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA
1175606 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
1175654 TACA T--A TACA GACA TAC- TACA TACA TACC TACA TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175699 TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175746 TACA TACA TACA TAC- TACA TACA TACA TACA TAC- TACA CGTACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA --TACA TACA
1175794 TACA TACA TACA TAC- -ACA TACA TACA TAC- TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175838 TAC- TACA TACA TACA -ACA TAC- TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1175882 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -A-A TTACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -TACA
* *
1175929 GACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA TACAA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA
** *
1175976 TACA TATG TA-T TACGTA TACA TACA TACA TACA TAC- T-CA TACA TACA
1 TACA TACA TACA TAC--A TACA TACA TACA TACA TACA TACA TACA TACA
*
1176023 TACA TACA TACA TACA TACA AACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176070 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA GACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1176118 TACA TACA TACA TACA TACA TA-A TACA T--A TACA TACA TACA -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1176162 TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1176208 TACA TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176255 TA-A TACA TACA TACA TACA TACA TA-A GACA TAC- -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176299 TAC- -ACA TACA TACA TACA TACA GACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1176345 T-CA TACA TACA TACA TAC- TACG TACA TACA TACA TACA TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
1176391 TACA TGCA TACG TACA TACA TAC- TAC- TACA TACG TACA TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * *
1176437 TACA TACG TACA TAC- TACA TATA TACG TA-A TACA TACG TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
1176482 TACA TACA TACA TACA TA-G TACA TACA TAACA TAATA TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA T-ACA T-ACA TACA TACA TACA
* * * *
1176531 TACA TACC TACA TACA TATA TACA TACA TACA TACC TACA TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * *
1176579 TATA TAACG TACG TACGTA TACA TAC- TACA TACA TACA TACA TACA TACA
1 TACA T-ACA TACA TAC--A TACA TACA TACA TACA TACA TACA TACA TACA
* *
1176629 TTACA TACA TACA TACA TACTA CACA TACA TACA TACA TACC TACA TACA
1 -TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA TACA
* * * *
1176679 TACA TACA TACA TACA TACA TACA TACA CATA CACA TACA TACA TCCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1176727 TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176774 TA-A TACA TACA TACA TATA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176821 TACA TACA TACA TACA TACA TACA TACA TACC TACA TACA TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1176867 TACA TACA TACA -ACA TACA -ACA TACA TACA TACA TACA TACA CATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1176913 TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1176960 TACA TACA TAC- TACA TACA TACA GACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1177007 TACA TACG TACG TACA TACA TACA -ACA TACA TACG TACA TGCA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
1177054 TACC TACA TACG TACA TACA TACG TACA TACA TACG TACG TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * *
1177102 TACG TACA TACG TACA TATA TACG TACG TACA TACG TACG TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * ** *
1177150 TACG TACA TACA TA-G TACA TACA TACG TACA TACA TAGG TACA TCCTA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A
* * * *
1177198 CACA TACC TACA TACA TACG TATA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1177246 CGTACA TAATA TACG TAC- TACG TACA TACG TACA TACA TACA TACG TACA
1 --TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177296 TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1177342 -GCA TACA TACA TACA TACA TACA TAC- TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177387 TACA TACA TACA TA-A TACA TACA TACA TACA TACA -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1177433 TACA TACA TACA TACA TACA TACA TACAA TACA -ACA TATA CTACA TACA
1 TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA -TACA TACA
*
1177482 TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177528 CTACA TACA TACA TACA TAC- TAC- TACA TACA TACA TACA TACA TACA
1 -TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177575 TACA TACA TACTA TTACA TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TAC-A -TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177624 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1177670 TACA TAC- TACA TA-A TAC- TACA GACA TACA TACA T-C- TACA T-CA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1177712 TAC- GACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177759 TACA T--A TACA TACCCA TACA TACA TACA T-CA TACA TACA TACA TACA
1 TACA TACA TACA TA--CA TACA TACA TACA TACA TACA TACA TACA TACA
1177806 TACA TACA TACA -ACA TACA -ACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177852 T--A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1177898 TACA TACA TACA TACA TACA T--A TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1177944 TACA TACA TACA TACA TACA TACA TACA TACA TACG TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1177992 TACG TACG TACG TACA TACA TACG TACA TACA TACG TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1178040 TACA TACA TACA TACA TACA TACG TACA TACA TACG TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
1178088 CATA TACA TACA TACA TACA TACA TACA TACG TATA TACA TACG TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1178136 TACA TACA TACG TACA TACA TACG TACA TGCA TACG TACA TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
1178184 TACA TACA TACG TACA TACA TACG TACG TACA TACG TACG TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
1178232 TACG TACA TACG TACG TACA TGCA TACG TACA TACA TACG TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
1178280 TACG TACA TACA TACG TACG TACA TACG TACG TACA TACG TACG TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * ** **
1178328 TACG TACG TACA TACG TACG TACA TACA TAGG TACA TACA TAGG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1178376 TACA TAC- TACA TACA TA-G TACA TACA TAC- TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1178421 TACG TACA TACA GGTACA TACA TACA TACA TACA TACA TAC- -ACA TACA
1 TACA TACA TACA --TACA TACA TACA TACA TACA TACA TACA TACA TACA
1178469 TACA TACA TACA TACA TACA TACA TACA TAACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA T-ACA TACA TACA TACA TACA
1178518 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-CA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1178565 TACA TACA TACA TAC- TACA TAC- -ACA TA-A TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1178609 TACA TACA TACA TACA TACA TACA TACC TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
1178657 TACA TACA TACA TACA TACA TACC TACA TACA T-CA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1178702 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1178750 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1178798 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1178846 TACA TACA TACA TACA TACA TACG TACG TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1178894 TACG TACA TGCA TACG TACA TACA TACG TACA TACA TACG TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
1178942 TACG TACG TACA TACG TACG TACA TACG TACA TATA TACG TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * ** *
1178990 TACG TACG TACA TACA TACG TACA TACA TAGG TACA TACA TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
** * ** *
1179038 TACA TAGG TACA TACA TACG TACA TACA TAGG TACA TACA TACG TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * *
1179086 TACC TACA TACA TACC TACA TACA TACG TATA TACA TACA TACA TACC
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * *
1179134 TACA TACA TACG TACA TATA TACG TACG TACG TACA TACG TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
1179182 TACA TACG TACA TACA TACG TACA TA
1 TACA TACA TACA TACA TACA TACA TA
1179208 TTATTAATAA
Statistics
Matches: 5312, Mismatches: 345, Indels: 398
0.88 0.06 0.07
Matches are distributed among these distances:
2 71 0.01
3 255 0.05
4 4859 0.91
5 102 0.02
6 25 0.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:1180239 original size:12 final size:13
Alignment explanation
Indices: 1180222--1180251 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1180212 ATCAAAAGAA
1180222 TACAATTT-ATTT
1 TACAATTTAATTT
1180234 TACAATTTAATTT
1 TACAATTTAATTT
1180247 TACAA
1 TACAA
1180252 GGACTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
TACAATTTAATTT
Found at i:1181528 original size:5 final size:5
Alignment explanation
Indices: 1181518--1181587 Score: 140
Period size: 5 Copynumber: 14.0 Consensus size: 5
1181508 CAAATTTTTT
1181518 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1181568 TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA
1181588 ACAAGCAGCA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 65 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:1186364 original size:21 final size:21
Alignment explanation
Indices: 1186348--1186399 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1186338 TTTTGACCAT
1186348 CGCATTGCGATTTTTGAAATC
1 CGCATTGCGATTTTTGAAATC
*
1186369 CGCATTGCGATTTTAGATAAT-
1 CGCATTGCGATTTTTGA-AATC
*
1186390 CGCAATGCGA
1 CGCATTGCGA
1186400 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (21 bp):
CGCATTGCGATTTTTGAAATC
Found at i:1186454 original size:20 final size:20
Alignment explanation
Indices: 1186429--1186532 Score: 147
Period size: 20 Copynumber: 5.2 Consensus size: 20
1186419 ATAACACGTG
1186429 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1186449 ATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
**
1186469 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
1186489 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
1186510 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1186530 ATC
1 ATC
1186533 CCGTTGCGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 2 0.03
20 55 0.74
21 15 0.20
22 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1186473 original size:61 final size:61
Alignment explanation
Indices: 1186408--1186532 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 61
1186398 GAATATGTAA
*
1186408 ATCGCAACACGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
1 ATCGCAACACGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
* * *
1186469 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACACGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
1186530 ATC
1 ATC
1186533 CCGTTGCGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (61 bp):
ATCGCAACACGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACT
Found at i:1186555 original size:61 final size:61
Alignment explanation
Indices: 1186429--1186564 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 61
1186419 ATAACACGTG
* * ***
1186429 ATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACTATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCCCAACGCGATAATACAAA
* *** *
1186490 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCCCGTTGCGATAATATAAA
1 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCCCAACGCGATAATACAAA
*
1186551 ATCGCAATGCGATT
1 ATCGCAACGCGATT
1186565 TTCAAAGCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (61 bp):
ATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCCCAACGCGATAATACAAA
Found at i:1186724 original size:22 final size:22
Alignment explanation
Indices: 1186698--1186776 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
1186688 CACTCTCTAC
*
1186698 GACGACATCCGTCCCCATCTCT
1 GACGAAATCCGTCCCCATCTCT
* *
1186720 GACGAAATCCGTCCCCATTTCC
1 GACGAAATCCGTCCCCATCTCT
* * *
1186742 GGCGAAATTCATCCCCATCTCT
1 GACGAAATCCGTCCCCATCTCT
*
1186764 GGCGAAATCCGTC
1 GACGAAATCCGTC
1186777 TATCTCCATC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.23
Consensus pattern (22 bp):
GACGAAATCCGTCCCCATCTCT
Found at i:1187172 original size:20 final size:20
Alignment explanation
Indices: 1187130--1187196 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1187120 CGATTATCTC
** *
1187130 GTTGCGATAGCCA-TTTCGC
1 GTTGCGATAATCATTTTCGT
1187149 GTTGCGATAATCATTTTCGT
1 GTTGCGATAATCATTTTCGT
**
1187169 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAATCATTTTCGT
1187189 GTTGCGAT
1 GTTGCGAT
1187197 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAATCATTTTCGT
Found at i:1187197 original size:20 final size:20
Alignment explanation
Indices: 1187143--1187199 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1187133 GCGATAGCCA
* **
1187143 TTTCGCGTTGCGATAATCAT
1 TTTCGTGTTGCGATTTTCAT
1187163 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
1187183 TTTCGTGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
1187200 AAGTTTCAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:1187206 original size:20 final size:20
Alignment explanation
Indices: 1187163--1187206 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1187153 CGATAATCAT
* *
1187163 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
1187183 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
1187203 TTTC
1 TTTC
1187207 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:1189176 original size:20 final size:20
Alignment explanation
Indices: 1189148--1189304 Score: 104
Period size: 20 Copynumber: 8.4 Consensus size: 20
1189138 AGAATAGTCT
* *
1189148 CAACACGAAAATGATTATCG
1 CAACGCGAAAATGACTATCG
**
1189168 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
*
1189188 CAACG-G--GAT-A--ATCG
1 CAACGCGAAAATGACTATCG
* * *
1189202 CAATGCAAAAACGACTATCG
1 CAACGCGAAAATGACTATCG
*
1189222 CAACGCGGAAATGACTATCG
1 CAACGCGAAAATGACTATCG
* **
1189242 CAATGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
*
1189262 CAACG-G--GAT-A--ATCG
1 CAACGCGAAAATGACTATCG
*
1189276 CAATGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
1189296 CAACGCGAA
1 CAACGCGAA
1189305 TTTAGTTTCG
Statistics
Matches: 101, Mismatches: 24, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
14 16 0.16
15 1 0.01
16 2 0.02
17 5 0.05
18 2 0.02
19 2 0.02
20 73 0.72
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:1189218 original size:34 final size:34
Alignment explanation
Indices: 1189164--1189300 Score: 157
Period size: 34 Copynumber: 3.9 Consensus size: 34
1189154 GAAAATGATT
* **
1189164 ATCGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGGGATA
* *
1189198 ATCGCAATGCAAAAACGACTATCGCAACGCGGAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAACG-GG--AT-A
**
1189236 CTATCGCAATGCGAATTTGACTATCGCAACGGGATA
1 --ATCGCAATGCGAAAATGACTATCGCAACGGGATA
1189272 ATCGCAATGCGAAAATGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACG
1189301 CGAATTTAGT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
34 51 0.59
35 2 0.02
36 1 0.01
37 4 0.05
38 1 0.01
39 2 0.02
40 25 0.29
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGGGATA
Found at i:1189277 original size:74 final size:74
Alignment explanation
Indices: 1189156--1189302 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 74
1189146 CTCAACACGA
*
1189156 AAATGATTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATC
1189221 GCAACGCGG
66 GCAACGCGG
* * *
1189230 AAATGACTATCGCAATGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATC
1189295 GCAACGCG
66 GCAACGCG
1189303 AATTTAGTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCAAAAACGACTATC
GCAACGCGG
Found at i:1189322 original size:19 final size:19
Alignment explanation
Indices: 1189309--1189364 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
1189299 CGCGAATTTA
1189309 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
1189328 GTTTCACGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
1189347 GTTTCGCGTTGTGATTTT
1 GTTTCGCGTTGCGATTTT
1189365 CTCGTTGCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:1189385 original size:33 final size:33
Alignment explanation
Indices: 1189348--1189428 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
1189338 GCGATTTTGG
* *
1189348 TTTCGCGTTGTGATTTTCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCA
1189381 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTC-A
* *
1189415 ATTCACGTTGCGAT
1 TTTCGCGTTGCGAT
1189429 AGTCAAATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 30 0.70
34 13 0.30
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATAGTCA
Found at i:1189425 original size:20 final size:20
Alignment explanation
Indices: 1189400--1189448 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1189390 GCGATTATCT
1189400 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
1189420 CGTTGCGATAGTCAAATTCT
1 CGTTGCGATAGTCAAATTCA
1189440 CGTTGCGAT
1 CGTTGCGAT
1189449 TTTAAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:1189464 original size:20 final size:20
Alignment explanation
Indices: 1189441--1189478 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1189431 TCAAATTCTC
1189441 GTTGCGATTTTAAATTTCGT
1 GTTGCGATTTTAAATTTCGT
*
1189461 GTTGCGATTTTAAGTTTC
1 GTTGCGATTTTAAATTTC
1189479 AGAAACTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTAAATTTCGT
Found at i:1190049 original size:21 final size:21
Alignment explanation
Indices: 1189958--1190061 Score: 93
Period size: 21 Copynumber: 5.0 Consensus size: 21
1189948 AACTCACCTG
*
1189958 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
1189978 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
** * * *
1190000 TCATCCCTCAAGAGTCCACTC
1 TCATCGTTCAAGAGGCCCCTA
* *
1190021 CCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
* *
1190042 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
1190062 CCCAACATTC
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 1 0.02
21 61 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:1190055 original size:42 final size:41
Alignment explanation
Indices: 1189958--1190065 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 41
1189948 AACTCACCTG
* * *
1189958 TCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGTCC-CTCCCACCGTTCAAGAGGCCCCTA
**
1190000 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGTCC-CTCCCACCGTTCAAGAGGCCCCTA
*
1190042 TCATCGTTGAAGAGGTCCCTCCCA
1 TCATCGTTCAAGA-GTCCCTCCCA
1190066 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 52 0.93
43 4 0.07
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (41 bp):
TCATCGTTCAAGAGTCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:1191522 original size:36 final size:30
Alignment explanation
Indices: 1191442--1191507 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
1191432 ATAAGAGTTG
*
1191442 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
1191472 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
1191502 ATTTGT
1 ATTTGT
1191508 GCTTGTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:1191674 original size:20 final size:20
Alignment explanation
Indices: 1191649--1191837 Score: 150
Period size: 20 Copynumber: 10.1 Consensus size: 20
1191639 ACACTTTGCG
*
1191649 ATTTTCTCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
1191669 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
1191689 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
* *
1191709 ATTTTCGCATTACGAT--T-
1 ATTTTCGCGTTGCGATAGTC
*
1191726 A---TCCCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
**
1191743 AAATTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
* *
1191763 ATTTTCACATT--G-T-G--
1 ATTTTCGCGTTGCGATAGTC
* * * *
1191777 ATTATCCCATTGCGATATTC
1 ATTTTCGCGTTGCGATAGTC
** *
1191797 AAATTCACGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
*
1191817 ATATTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
1191837 A
1 A
1191838 AATGAATGTG
Statistics
Matches: 135, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
14 18 0.13
16 3 0.02
17 4 0.03
18 2 0.01
20 108 0.80
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:1191682 original size:34 final size:34
Alignment explanation
Indices: 1191644--1191758 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 34
1191634 CTAATACACT
*
1191644 TTGCGATTTTCTCGTTGCGATAGTCATTTTCGCG
1 TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
* *
1191678 TTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCA
1 TTGC----G--ATTTTCCCGTTGCGATAGTCATTTTCGCG
* * **
1191718 TTACGATTATCCCGTTGCGATAGTCAAATTCGCG
1 TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
1191752 TTGCGAT
1 TTGCGAT
1191759 AGTCATTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
34 34 0.52
36 1 0.02
38 1 0.02
40 30 0.45
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (34 bp):
TTGCGATTTTCCCGTTGCGATAGTCATTTTCGCG
Found at i:1191734 original size:54 final size:54
Alignment explanation
Indices: 1191676--1191824 Score: 217
Period size: 54 Copynumber: 2.8 Consensus size: 54
1191666 GTCATTTTCG
**
1191676 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTACGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTACGATTATCC
* **
1191730 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCACATTGTGATTATCC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTACGATTATCC
* * * *
1191784 CATTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGC
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGC
1191825 GTTGCGATAG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTACGATTATCC
Found at i:1194107 original size:14 final size:14
Alignment explanation
Indices: 1194088--1194114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1194078 TCCCGTGGCA
1194088 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
1194102 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
1194115 TTTCTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1194120 original size:12 final size:13
Alignment explanation
Indices: 1194089--1194121 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1194079 CCCGTGGCAT
1194089 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
1194102 TTTTCTTCGGGGA-
1 -TTTCTTCGGGGAC
1194115 TTTCTTC
1 TTTCTTC
1194122 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Found at i:1194348 original size:24 final size:24
Alignment explanation
Indices: 1194314--1194367 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1194304 CTGAAACATC
1194314 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
1194338 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
1194362 ATCAAA
1 ATCAAA
1194368 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:1195214 original size:20 final size:20
Alignment explanation
Indices: 1195186--1195353 Score: 162
Period size: 20 Copynumber: 8.3 Consensus size: 20
1195176 AATTCAGTGA
*
1195186 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
1195206 TGCGATAGTCAGAATCGCAT
1 TGCGATAGTCAGAATCGCGT
** *
1195226 TGCGATCACGT-ATTATCGCAT
1 TGCGAT-A-GTCAGAATCGCGT
* *
1195247 TACGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
*
1195267 TGTGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
** *
1195287 TGCGATCACGT-ATTATCACGT
1 TGCGAT-A-GTCAGAATCGCGT
1195308 TGCGATAGTTC-GAATCGCGT
1 TGCGATAG-TCAGAATCGCGT
*
1195328 TGCGATAGTAAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
1195348 TGCGAT
1 TGCGAT
1195354 CACGTGTTAT
Statistics
Matches: 120, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.03
20 84 0.70
21 28 0.23
22 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:1195268 original size:61 final size:61
Alignment explanation
Indices: 1195191--1195374 Score: 280
Period size: 61 Copynumber: 3.0 Consensus size: 61
1195181 AGTGATGCGT
*
1195191 TAGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCATTACGA
1 TAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGA
* * * * *
1195252 TAGTCAGAATCTCGTTGTGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGTTGCGA
1 TAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGA
* *
1195313 TAGTTC-GAATCGCGTTGCGATAGTAAGAATCGCGTTGCGATCACGTGTTATCGCATTACGA
1 TAG-TCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGA
1195374 T
1 T
1195375 TTATATATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 107 0.98
62 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (61 bp):
TAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGA
Found at i:1195366 original size:41 final size:39
Alignment explanation
Indices: 1195198--1195353 Score: 120
Period size: 41 Copynumber: 3.9 Consensus size: 39
1195188 CGTTAGTCAG
* *
1195198 AATCGCGTTGCGATAGTCAGAATCGCATTGCGATCACGTAT
1 AATCGCGTTGCGATAGTCAGAATCGCGTTGCGAT-A-GTGT
* * * * *
1195239 TATCGCATTACGATAGTCAGAATCTCGTTGTGATAGTCAG-
1 AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGT--GT
** *
1195279 AATCGCGTTGCGATCACGT-ATTATCACGTTGCGATAGT-T
1 AATCGCGTTGCGAT-A-GTCAGAATCGCGTTGCGATAGTGT
*
1195318 CGAATCGCGTTGCGATAGTAAGAATCGCGTTGCGAT
1 --AATCGCGTTGCGATAGTCAGAATCGCGTTGCGAT
1195354 CACGTGTTAT
Statistics
Matches: 90, Mismatches: 17, Indels: 17
0.73 0.14 0.14
Matches are distributed among these distances:
39 4 0.04
40 26 0.29
41 58 0.64
42 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTGT
Found at i:1195392 original size:61 final size:61
Alignment explanation
Indices: 1195202--1195394 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
1195192 AGTCAGAATC
* * *
1195202 GCGTTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCATTACGATAGTCAGAATCT
1 GCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGATA-TTAGAATTT
* * * * * *
1195264 -CGTTGTGATAGTCAGAATCGCGTTGCGATCACGTATTATCACGTTGCGATAGTTCGAA-TC
1 GCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGATA-TTAGAATTT
* * *
1195324 GCGTTGCGATAGTAAGAATCGCGTTGCGATCACGTGTTATCGCATTACGAT-TTATATATTT
1 GCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGATATTAGA-ATTT
*
1195385 GCATTGCGAT
1 GCGTTGCGAT
1195395 TTATATATTC
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
59 3 0.03
60 1 0.01
61 105 0.96
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (61 bp):
GCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCATTACGATATTAGAATTT
Found at i:1195394 original size:20 final size:20
Alignment explanation
Indices: 1195363--1195415 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1195353 TCACGTGTTA
*
1195363 TCGCATTACGATTTATATAT
1 TCGCATTGCGATTTATATAT
*
1195383 TTGCATTGCGATTTATATAT
1 TCGCATTGCGATTTATATAT
1195403 TCGCATTGCGATT
1 TCGCATTGCGATT
1195416 ATCTAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TCGCATTGCGATTTATATAT
Found at i:1201798 original size:65 final size:65
Alignment explanation
Indices: 1201661--1201868 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
1201651 TGCACTAAGA
*
1201661 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGTTG
* *
1201725 GTGTATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCATAGT
1201788 AT-
64 -TG
* * ** * *
1201790 GTGCATCGATGCATGAAATGCATTTGATG--TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATA-GCC-TGAGTGCATCGATGCATAG-
1201852 TTG
63 TTG
*
1201855 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1201869 CACTCTGAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 45 0.36
65 69 0.56
66 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATAGTTG
Found at i:1204248 original size:23 final size:22
Alignment explanation
Indices: 1204218--1204299 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
1204208 GCATGGCCTT
1204218 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
1204240 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
1204262 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
1204285 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
1204300 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1218409 original size:3 final size:3
Alignment explanation
Indices: 1218401--1218508 Score: 180
Period size: 3 Copynumber: 35.7 Consensus size: 3
1218391 TTTTTATCCA
*
1218401 TAT TAT TAT TAT TAA TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* *
1218447 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1218495 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
1218509 AATATATATT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 95 0.97
4 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1219002 original size:18 final size:18
Alignment explanation
Indices: 1218981--1219017 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1218971 AGAACGGGAC
*
1218981 AGAGAGACAGAAAAAAAA
1 AGAGAGACACAAAAAAAA
*
1218999 AGAGAGAGACAAAAAAAA
1 AGAGAGACACAAAAAAAA
1219017 A
1 A
1219018 ACAGAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAGAGACACAAAAAAAA
Found at i:1219004 original size:20 final size:19
Alignment explanation
Indices: 1218979--1219024 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1218969 AGAGAACGGG
1218979 ACAGAGAGACAGAAAAAAAA
1 ACAGAGAGACA-AAAAAAAA
*
1218999 AGAGAGAGACAAAAAAAAA
1 ACAGAGAGACAAAAAAAAA
1219018 ACAGAGA
1 ACAGAGA
1219025 AGATACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.70, C:0.09, G:0.22, T:0.00
Consensus pattern (19 bp):
ACAGAGAGACAAAAAAAAA
Found at i:1219012 original size:16 final size:16
Alignment explanation
Indices: 1218983--1219016 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1218973 AACGGGACAG
1218983 AGAGACAGAAAAAAAA
1 AGAGACAGAAAAAAAA
*
1218999 AGAGAGAGACAAAAAAA
1 AGAGACAGA-AAAAAAA
1219016 A
1 A
1219017 AACAGAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.74, C:0.06, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAGACAGAAAAAAAA
Found at i:1231342 original size:13 final size:12
Alignment explanation
Indices: 1231323--1231365 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
1231313 ATGCTTGAAG
1231323 AGAAAAGAAAAA
1 AGAAAAGAAAAA
1231335 AGGAAAAGAAAAA
1 A-GAAAAGAAAAA
1231348 A-AAAAGAAAAAA
1 AGAAAAG-AAAAA
1231360 AGAAAA
1 AGAAAA
1231366 AGGGGGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.18
12 7 0.25
13 16 0.57
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAA
Found at i:1231349 original size:8 final size:8
Alignment explanation
Indices: 1231325--1231366 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
1231315 GCTTGAAGAG
1231325 AAAAGAAA
1 AAAAGAAA
*
1231333 AAAGGAAA
1 AAAAGAAA
1231341 AGAAA-AAA
1 A-AAAGAAA
1231349 AAAAGAAA
1 AAAAGAAA
1231357 AAAAGAAA
1 AAAAGAAA
1231365 AA
1 AA
1231367 GGGGGGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 3 0.10
8 25 0.83
9 2 0.07
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:1231732 original size:19 final size:20
Alignment explanation
Indices: 1231699--1231740 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1231689 TTCAAGTTCA
*
1231699 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
1231719 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
1231738 ATT
1 ATT
1231741 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Done.