Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2197
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: 74112
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Found at i:1691 original size:21 final size:21
Alignment explanation
Indices: 1667--1706 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1657 AAATTAATTC
*
1667 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
1688 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
1707 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:3985 original size:133 final size:133
Alignment explanation
Indices: 3747--3998 Score: 468
Period size: 133 Copynumber: 1.9 Consensus size: 133
3737 GAATTCAACA
3747 ATATAAAACATGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACATGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
**
3812 TAAGTTGGATAGAAACATGGTAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
3877 ATT
131 ATT
**
3880 ATATAAAATGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACATGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
3945 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
3999 GGAATCACCA
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.20
Consensus pattern (133 bp):
ATATAAAACATGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:4504 original size:20 final size:20
Alignment explanation
Indices: 4479--4543 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
4469 TGAAATAAGC
4479 TTAAAAATTTAGGAATGTAA
1 TTAAAAATTTAGGAATGTAA
**
4499 TT-AAAATGTTAGGAA-AAACA
1 TTAAAAAT-TTAGGAATGTA-A
4519 TTAAAAATTTAGGAATGTAA
1 TTAAAAATTTAGGAATGTAA
4539 TTAAA
1 TTAAA
4544 TTTTAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.16
20 25 0.68
21 6 0.16
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (20 bp):
TTAAAAATTTAGGAATGTAA
Found at i:7304 original size:10 final size:11
Alignment explanation
Indices: 7283--7332 Score: 64
Period size: 12 Copynumber: 4.3 Consensus size: 11
7273 ACTAAACCAC
7283 TTTTCATATATA
1 TTTT-ATATATA
7295 TATTTATATATA
1 T-TTTATATATA
*
7307 TTTTAAATAATA
1 TTTTATAT-ATA
7319 TTTTATATATA
1 TTTTATATATA
7330 TTT
1 TTT
7333 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 12 0.35
12 19 0.56
13 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTATATATA
Found at i:7305 original size:12 final size:12
Alignment explanation
Indices: 7288--7334 Score: 64
Period size: 11 Copynumber: 4.2 Consensus size: 12
7278 ACCACTTTTC
7288 ATATATATATTT
1 ATATATATATTT
7300 ATATATAT-TTT
1 ATATATATATTT
*
7311 AAATA-ATATTT
1 ATATATATATTT
7322 -TATATATATTT
1 ATATATATATTT
7333 AT
1 AT
7335 CTTATATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 5 0.17
11 16 0.53
12 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATATATATTT
Found at i:7341 original size:15 final size:15
Alignment explanation
Indices: 7321--7352 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7311 AAATAATATT
*
7321 TTATATATATTTATC
1 TTATATACATTTATC
7336 TTATATACATTTATC
1 TTATATACATTTATC
7351 TT
1 TT
7353 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:8227 original size:14 final size:14
Alignment explanation
Indices: 8208--8247 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8198 ATTAAACCAG
* *
8208 CTTAAACCATATAT
1 CTTAAACCATAAAC
8222 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
8236 CTTAAACTATAA
1 CTTAAACCATAA
8248 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:8275 original size:14 final size:14
Alignment explanation
Indices: 8256--8292 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
8246 AATGATAATT
8256 AATTCAATATTTTA
1 AATTCAATATTTTA
8270 AATTCAATATTTTA
1 AATTCAATATTTTA
8284 AATTCAATA
1 AATTCAATA
8293 CTATCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (14 bp):
AATTCAATATTTTA
Found at i:8475 original size:41 final size:41
Alignment explanation
Indices: 8420--8598 Score: 297
Period size: 41 Copynumber: 4.4 Consensus size: 41
8410 GGTTATGGGG
8420 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
* *
8461 TTTTAGCGGTGTTTTAACTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
**
8502 TTTTAGCGGCGTTTTAGTTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
* *
8543 TTTTAGCGGCGTTTTACCTAAAGCGTCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
8583 TTTTAGCGGCGTTTTA
1 TTTTAGCGGCGTTTTA
8599 GTAAAAAATG
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 18 0.14
41 111 0.86
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
Found at i:8626 original size:41 final size:39
Alignment explanation
Indices: 8420--8638 Score: 240
Period size: 41 Copynumber: 5.4 Consensus size: 39
8410 GGTTATGGGG
* *
8420 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTA-GTAAAGCGCCGCTAATGCTCT-GT
* * *
8461 TTTTAGCGGTGTTTTAACTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTT-AGTAAAGCGCCGCTAATGCTCT-GT
*
8502 TTTTAGCGGCGTTTTAGTTAAAGCGCCGCTAATGCCCTGGT
1 TTTTAGCGGCGTTTTAG-TAAAGCGCCGCTAATGCTCT-GT
* *
8543 TTTTAGCGGCGTTTTACCTAAAGCGTCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTA-GTAAAGCGCCGCTAATGCTCTGT
** * *
8583 TTTTAGCGGCGTTTTAGTAAAAAATGCCGCTATTGTTCTGT
1 TTTTAGCGGCGTTTTAGT--AAAGCGCCGCTAATGCTCTGT
*
8624 TTTTACCGGCGTTTT
1 TTTTAGCGGCGTTTT
8639 TTTTGGAACG
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 19 0.12
41 139 0.87
42 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTAGTAAAGCGCCGCTAATGCTCTGT
Found at i:8634 original size:81 final size:82
Alignment explanation
Indices: 8420--8638 Score: 282
Period size: 82 Copynumber: 2.7 Consensus size: 82
8410 GGTTATGGGG
* * *
8420 TTTTAGCGGCGTTTTACCT-AAAGCGCCGCTAATGCCCTGGTTTTTAGCGGTGTTTTAACTAAAG
1 TTTTAGCGGCGTTTTA-GTAAAAACGCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTAACTAAAG
8484 CGCCGCTAATGCCCTGGT
65 CGCCGCTAATGCCCTGGT
* * *
8502 TTTTAGCGGCGTTTTAGTTAAAGCGCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTACCTAAAGC
1 TTTTAGCGGCGTTTTAGTAAAAACGCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTAACTAAAGC
* *
8567 GTCGCTAATGCTCT-GT
66 GCCGCTAATGCCCTGGT
* * ** *
8583 TTTTAGCGGCGTTTTAGTAAAAAATGCCGCTATTGTTCT-GTTTTTACCGGCGTTTT
1 TTTTAGCGGCGTTTTAGT-AAAAACGCCGCTAATGCCCTGGTTTTTAGCGGCGTTTT
8639 TTTTGGAACG
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
81 37 0.30
82 86 0.70
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTAGTAAAAACGCCGCTAATGCCCTGGTTTTTAGCGGCGTTTTAACTAAAGC
GCCGCTAATGCCCTGGT
Found at i:17713 original size:25 final size:26
Alignment explanation
Indices: 17685--17733 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
17675 ACATTACATA
17685 TAAATAAAAAATCATAAA-ATCTTAC
1 TAAATAAAAAATCATAAATATCTTAC
* * *
17710 TAAATCATAAATCGTAAATATCTT
1 TAAATAAAAAATCATAAATATCTT
17734 CGTCCACATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAATAAAAAATCATAAATATCTTAC
Found at i:21493 original size:18 final size:18
Alignment explanation
Indices: 21470--21510 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
21460 TGATATATTT
21470 TTATGTAGATTATGTAAG
1 TTATGTAGATTATGTAAG
21488 TTATGTAGATTATGTAAG
1 TTATGTAGATTATGTAAG
21506 TTATG
1 TTATG
21511 AAATTGGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
TTATGTAGATTATGTAAG
Found at i:21510 original size:9 final size:9
Alignment explanation
Indices: 21470--21503 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
21460 TGATATATTT
21470 TTATGTAGA
1 TTATGTAGA
21479 TTATGTA-A
1 TTATGTAGA
21487 GTTATGTAGA
1 -TTATGTAGA
21497 TTATGTA
1 TTATGTA
21504 AGTTATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (9 bp):
TTATGTAGA
Found at i:21560 original size:9 final size:9
Alignment explanation
Indices: 21546--21603 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
21536 TTCAAGGAAA
*
21546 TTATGTGAG
1 TTATGTAAG
21555 TTATGTAAGTTG
1 TTATGTAA---G
*
21567 TTATGTAAA
1 TTATGTAAG
21576 TTATGTAAG
1 TTATGTAAG
*
21585 TTATGTAAT
1 TTATGTAAG
21594 TTATGTAAG
1 TTATGTAAG
21603 T
1 T
21604 AATGATCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 32 0.78
12 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:25118 original size:84 final size:84
Alignment explanation
Indices: 24975--25165 Score: 294
Period size: 84 Copynumber: 2.3 Consensus size: 84
24965 CAGTTTTTTT
* * ** *
24975 GTGGCGTTT-TTAGGATAGCACCACTAATTCCTAAACCGTGCCACATAAAACGACTTAGTTTTCA
1 GTGGCGTTTATAAGG-TAGCGCCACTAATTCCTAAACCACGCCACATAAAACGACGTAGTTTTCA
*
25039 TTCGATTTCTCATATTCTTA
65 TTCGATTTCTCATATTATTA
25059 GTGGCGTTTATAAGGTAGCGCCACTAATTCCTAAACCACGCCACATAAAACGACGTAGTTTTCAT
1 GTGGCGTTTATAAGGTAGCGCCACTAATTCCTAAACCACGCCACATAAAACGACGTAGTTTTCAT
*
25124 TCGATTTTTCATATTATTA
66 TCGATTTCTCATATTATTA
*
25143 GTGGCGTTTATAAGATAGCGCCA
1 GTGGCGTTTATAAGGTAGCGCCA
25166 TTAAATCCAC
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 94 0.96
85 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (84 bp):
GTGGCGTTTATAAGGTAGCGCCACTAATTCCTAAACCACGCCACATAAAACGACGTAGTTTTCAT
TCGATTTCTCATATTATTA
Found at i:25521 original size:15 final size:15
Alignment explanation
Indices: 25501--25545 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
25491 AATCCCAAAA
25501 CCAATACACTAAACC
1 CCAATACACTAAACC
*
25516 CCAATACCCTAAA-C
1 CCAATACACTAAACC
* *
25530 CCTATAGACTAAACC
1 CCAATACACTAAACC
25545 C
1 C
25546 TAAACCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (15 bp):
CCAATACACTAAACC
Found at i:25533 original size:7 final size:7
Alignment explanation
Indices: 25509--25608 Score: 78
Period size: 7 Copynumber: 14.1 Consensus size: 7
25499 AACCAATACA
25509 CTAAACC
1 CTAAACC
*
25516 CCAATACC
1 CTAA-ACC
25524 CTAAACC
1 CTAAACC
* **
25531 CTATAGA
1 CTAAACC
25538 CTAAACC
1 CTAAACC
25545 CTAAA-C
1 CTAAACC
* *
25551 CAAATACA
1 CTAA-ACC
25559 C-AATACC
1 CTAA-ACC
25566 CTAAACC
1 CTAAACC
25573 CTAAACC
1 CTAAACC
25580 CTAAACC
1 CTAAACC
* **
25587 CTATAGA
1 CTAAACC
25594 CTAAACC
1 CTAAACC
25601 CTAAACC
1 CTAAACC
25608 C
1 C
25609 AATACCCAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.06
7 59 0.82
8 9 0.12
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:25615 original size:28 final size:28
Alignment explanation
Indices: 25508--25608 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
25498 AAACCAATAC
*
25508 ACTAAACCCCAATACCCTAAACCCTATAG
1 ACTAAACCCTAA-ACCCTAAACCCTATAG
* * * *
25537 ACTAAACCCTAAA-CCAAATACACAATAC
1 ACTAAACCCTAAACCCTAA-ACCCTATAG
*
25565 CCTAAACCCTAAACCCTAAACCCTATAG
1 ACTAAACCCTAAACCCTAAACCCTATAG
25593 ACTAAACCCTAAACCC
1 ACTAAACCCTAAACCC
25609 AATACCCAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
27 4 0.07
28 40 0.68
29 15 0.25
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.16
Consensus pattern (28 bp):
ACTAAACCCTAAACCCTAAACCCTATAG
Found at i:25646 original size:41 final size:41
Alignment explanation
Indices: 25578--25656 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
25568 AAACCCTAAA
* *
25578 CCCTAAACCCTATAGACTAAACCCTAAACCCAATACCCAGT
1 CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCCAGT
* **
25619 CCCTAAACCTTATAAACCAAATTCTAAACCCAATACCC
1 CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCC
25657 TAAACCTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.19
Consensus pattern (41 bp):
CCCTAAACCCTATAAACCAAACCCTAAACCCAATACCCAGT
Found at i:26068 original size:15 final size:15
Alignment explanation
Indices: 26050--26113 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
26040 AAAATTTATT
* *
26050 TTTAAGATTTTAGGG
1 TTTAAGATTTAAGAG
*
26065 TTTATGATTTAAGAG
1 TTTAAGATTTAAGAG
* *
26080 TTTAGGATTT-ATAG
1 TTTAAGATTTAAGAG
* *
26094 TTTAAGGTTTGAGA-
1 TTTAAGATTTAAGAG
26108 TTTAAG
1 TTTAAG
26114 GCCTATAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 17 0.43
15 23 0.57
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (15 bp):
TTTAAGATTTAAGAG
Found at i:26078 original size:22 final size:22
Alignment explanation
Indices: 26050--26111 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
26040 AAAATTTATT
* *
26050 TTTAAGATTTTAGGGTTTAT-G
1 TTTAAGAGTTTAGGATTTATAG
26071 ATTTAAGAGTTTAGGATTTATAG
1 -TTTAAGAGTTTAGGATTTATAG
26094 TTTAAG-GTTT-GAGATTTA
1 TTTAAGAGTTTAG-GATTTA
26112 AGGCCTATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 10 0.28
22 24 0.67
23 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTAAGAGTTTAGGATTTATAG
Found at i:29359 original size:6 final size:6
Alignment explanation
Indices: 29348--29384 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
29338 GTTGAAGCTT
*
29348 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCT TTGCCC T
1 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC T
29385 ATCGATGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.46, G:0.16, T:0.38
Consensus pattern (6 bp):
TTGCCC
Found at i:31994 original size:72 final size:72
Alignment explanation
Indices: 31872--32012 Score: 210
Period size: 72 Copynumber: 2.0 Consensus size: 72
31862 GAGGAAAAGT
* * * * *
31872 ACCATTTAATTGATTATCTGTAACATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATG
1 ACCACTTAATAGATTATCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAATG
31937 GAATTTG
66 GAATTTG
* * *
31944 ACCACTTAATAGATTTTCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATGGACACTG
1 ACCACTTAATAGATTATCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAATG
32009 GAAT
66 GAAT
32013 GGGACCAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (72 bp):
ACCACTTAATAGATTATCTGAAACATCAAAGAAATACAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:36133 original size:24 final size:20
Alignment explanation
Indices: 36079--36144 Score: 96
Period size: 20 Copynumber: 3.1 Consensus size: 20
36069 TTGCACCTCC
36079 CACCATTTTTGACTTTTCAA
1 CACCATTTTTGACTTTTCAA
36099 CACCATTTTTGACTTTTCAA
1 CACCATTTTTGACTTTTCAA
36119 CACCTACCTTATTTGACTTTTCAA
1 CACC-A--TT-TTTGACTTTTCAA
36143 CA
1 CA
36145 ATCTCCACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
20 24 0.57
21 1 0.02
23 2 0.05
24 15 0.36
ACGTcount: A:0.26, C:0.27, G:0.05, T:0.42
Consensus pattern (20 bp):
CACCATTTTTGACTTTTCAA
Found at i:38075 original size:21 final size:21
Alignment explanation
Indices: 38049--38089 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38039 ATCTGCTCAA
* *
38049 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
38070 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
38090 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:43180 original size:29 final size:29
Alignment explanation
Indices: 43117--43181 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
43107 ACTCATTAAC
* * * *
43117 AGAACCAACATTGGACTAGACTGTCTAGA
1 AGAACTAACATTAGACCAGACTGTCCAGA
43146 AGAACTAACATTAGACCAGACTGTCCAGA
1 AGAACTAACATTAGACCAGACTGTCCAGA
43175 AGAACTA
1 AGAACTA
43182 GAAGCAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (29 bp):
AGAACTAACATTAGACCAGACTGTCCAGA
Found at i:44763 original size:20 final size:20
Alignment explanation
Indices: 44738--44784 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
44728 TTAAAACCCA
* *
44738 AGACCCAAATAGCTAAATCT
1 AGACCCAAATAACTAAACCT
44758 AGACCC-AATAACTAAACCT
1 AGACCCAAATAACTAAACCT
44777 AGACCCAA
1 AGACCCAA
44785 CCCCAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.47, C:0.30, G:0.09, T:0.15
Consensus pattern (20 bp):
AGACCCAAATAACTAAACCT
Found at i:47645 original size:131 final size:131
Alignment explanation
Indices: 47395--48054 Score: 478
Period size: 131 Copynumber: 5.0 Consensus size: 131
47385 TTCACAACTA
* * * * * * * *
47395 TTAAGAATTCTTTGAAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTACCCTAACA
1 TTAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCG-GGAATCGTGCCCTAACG
* * * * * *
47460 TGTTAGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATTTCACCCATGTC
65 TGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCTCTTTAGAATTTCACTCATGTC
47525 TT
130 TT
*
47527 TTAAAAATCCCTT-AAACGAAGGCGATGTGT-GATATTTGGCAATTCGCGGAATCGTGCCCTAAC
1 TTAAAAATCCTTTAAAACGAAGGCGATGT-TCGATATTTGGCAATTCG-GGAATCGTGCCCTAAC
* * * *
47590 GTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCAAATATCTCTTCAAAATTTCAATCATGT
64 GTGCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCTCTTTAGAATTTCACTCATGT
47655 CTT
129 CTT
* * * ** * * * ** *
47658 CTAAAAATCCTTTAAAACGAATGCAATACTCGGTGTTTGACAATTCGGGAATTATGCCCTATCGT
1 TTAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAACGT
** * ** **
47723 GCTGGGTTGTGATTTCTCATTTG-TTCAAAACAATCGAATAT-TCCTTTAGGTTTTCACTCATGT
66 GCTGGGTTGCAATTTCTCGTTTGCTT-AAAGTAATCGAATATCT-CTTTAGAATTTCACTCATGT
47786 -TT
129 CTT
* * * * * *
47788 ATTAAAAA-CCTTTCAAAACGAAGGTGATGTTCGATGTTTGGCTATTTGAGAATCGTGCCCTATC
1 -TTAAAAATCCTTT-AAAACGAAGGCGATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAAC
** * * ** * * ** **
47852 GTGCTGGGTTGCGCTTTTTCATTTG-TTCAAAACAATCGAAGATCCCTTCGGAATTTCACTCACA
64 GTGCTGGGTTGCAATTTCTCGTTTGCTT-AAAGTAATCGAATATCTCTTTAGAATTTCACTCATG
47916 T-TT
128 TCTT
* ** ** * * * *
47919 TCTAAAAA-CTCTTTAAAACAAAGGAAATACTCGATGTTTGGCAATTCGGGGAGTAGTGCCCTAT
1 T-TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTC-GGGAATCGTGCCCTAA
* * ** * **
47983 CGTGCTGGGTTGCAATCTC-CCTTTGCACCAAA-TAATCGAATATCCCTTCGGAATTTCACTCAT
63 CGTGCTGGGTTGCAATTTCTCGTTTGC-TTAAAGTAATCGAATATCTCTTTAGAATTTCACTCAT
* *
48046 ATTTT
127 GTCTT
48051 TTAA
1 TTAA
48055 GGCGAAGCAA
Statistics
Matches: 428, Mismatches: 86, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
130 11 0.03
131 344 0.80
132 73 0.17
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (131 bp):
TTAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGCTTAAAGTAATCGAATATCTCTTTAGAATTTCACTCATGTCT
T
Found at i:47937 original size:262 final size:263
Alignment explanation
Indices: 47472--48041 Score: 607
Period size: 262 Copynumber: 2.2 Consensus size: 263
47462 TTAGGTTGCA
* ** *
47472 ATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCC
1 ATTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCC
*
47537 CTTAAACGAAGGCGATGTGTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGC
66 CTTAAACGAAGGCGATGTGTGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGTTGC
* ** * * **
47602 AATTTCTCGTTTGCTTAAAGTAATCAAATATCTCTTCAAAATTTCAATCATGTCTTCTAAAAATC
131 AATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCAATCACATCTTCTAAAAATC
* * * * *
47667 CTTTAAAACGAATGCAATACTCGGTGTTTGACAATTCGGGAATTA-TGCCCTATCGTGCTGGGTT
196 CTTTAAAACAAAGGAAATACTCGATGTTTGACAATTCGGGAAGTAGTGCCCTATCGTGCTGGGTT
47731 GTG
261 GTG
* * ** *
47734 ATTTCTCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGT-TTATTAAAAA-C
1 ATTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATGTCTT-TTAAAAATC
* * * * * *
47797 CTTTCAAAACGAAGGTGATGT-TCGATGTTTGGCTATTTG-AGAATCGTGCCCTATCGTGCTGGG
65 CCTT--AAACGAAGGCGATGTGT-GATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGG
** * * ** * *
47860 TTGCGCTTTTTCATTTG-TTCAAAACAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAA
127 TTGCAATTTCTCATTTGCTT-AAAACAATCAAAGATCCCTTCAAAATTTCAATCACATCTTCTAA
* *
47924 AAA-CTCTTTAAAACAAAGGAAATACTCGATGTTTGGCAATTCGGGGAGTAGTGCCCTATCGTGC
191 AAATC-CTTTAAAACAAAGGAAATACTCGATGTTTGACAATTCGGGAAGTAGTGCCCTATCGTGC
**
47988 TGGGTTGCA
255 TGGGTTGTG
* * * * * **
47997 ATCTC-CCTTTGCACCAAATAATCGAATATCCCTTCGGAATTTCAC
1 ATTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCAC
48042 TCATATTTTT
Statistics
Matches: 250, Mismatches: 51, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
261 9 0.04
262 190 0.76
263 51 0.20
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (263 bp):
ATTTCTCATTTGCTCAAAACAATCGAATATCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCC
CTTAAACGAAGGCGATGTGTGATATTTGGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGTTGC
AATTTCTCATTTGCTTAAAACAATCAAAGATCCCTTCAAAATTTCAATCACATCTTCTAAAAATC
CTTTAAAACAAAGGAAATACTCGATGTTTGACAATTCGGGAAGTAGTGCCCTATCGTGCTGGGTT
GTG
Found at i:50843 original size:17 final size:18
Alignment explanation
Indices: 50821--50854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50811 AGTTGAATTG
50821 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
50838 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
50855 ATGAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:51595 original size:10 final size:10
Alignment explanation
Indices: 51576--51635 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
51566 TTAAATTTTA
51576 AAAGATAAAT
1 AAAGATAAAT
51586 ACAA-ATAAAT
1 A-AAGATAAAT
*
51596 AAAGATAATT
1 AAAGATAAAT
*
51606 AAAGATAATT
1 AAAGATAAAT
51616 AAAGATAAAT
1 AAAGATAAAT
*
51626 AAAAATAAAT
1 AAAGATAAAT
51636 CATAAATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 2 0.04
10 41 0.91
11 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:59031 original size:9 final size:9
Alignment explanation
Indices: 59014--59053 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
59004 TGAATTTTAC
*
59014 AATTCGAAT
1 AATTTGAAT
59023 AATTTGAAT
1 AATTTGAAT
59032 AATTTGAAT
1 AATTTGAAT
*
59041 AACTTGAAT
1 AATTTGAAT
59050 AATT
1 AATT
59054 CGAAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (9 bp):
AATTTGAAT
Found at i:59040 original size:18 final size:18
Alignment explanation
Indices: 59014--59057 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
59004 TGAATTTTAC
*
59014 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
*
59032 AATTTGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
59050 AATTCGAA
1 AATTCGAA
59058 AATAAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:66705 original size:24 final size:24
Alignment explanation
Indices: 66653--66720 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
66643 AAATATGTAC
*
66653 ATAATATAGTGTAAAAAATACATA
1 ATAATATAATGTAAAAAATACATA
66677 CATAATATAAT-TAAAATATATACAT-
1 -ATAATATAATGTAAAA-A-ATACATA
66702 ATAATA-ACATGTAGAAAAA
1 ATAATATA-ATGTA-AAAAA
66721 AAAATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
23 1 0.03
24 14 0.38
25 13 0.35
26 9 0.24
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
ATAATATAATGTAAAAAATACATA
Found at i:66773 original size:23 final size:25
Alignment explanation
Indices: 66645--66838 Score: 93
Period size: 25 Copynumber: 8.0 Consensus size: 25
66635 TATAAAAAAA
* * * *
66645 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
66670 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
66692 ATATATACATATAATAACATGTAGAAAAAA
1 ATATATAC--ATAAT-ATA-GTA-TTAAAG
* *
66722 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
66747 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
66770 ATATATACGTAATATAGAATTTAA-
1 ATATATACATAATATAGTATTAAAG
* *
66794 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
66816 A-ATATATATAATATAATATTAAA
1 ATATATACATAATATAGTATTAAA
66839 AAATACAATA
Statistics
Matches: 128, Mismatches: 28, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
21 3 0.02
22 20 0.16
23 36 0.28
24 12 0.09
25 37 0.29
26 3 0.02
27 2 0.02
28 6 0.05
29 3 0.02
30 6 0.05
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:67171 original size:16 final size:16
Alignment explanation
Indices: 67133--67171 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
67123 AATCTCCAAA
*
67133 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
67149 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
67165 AATAACT
1 AAAAACT
67172 CTTCTCCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:67366 original size:30 final size:30
Alignment explanation
Indices: 67330--67397 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
67320 AAGTACAAGT
67330 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
67360 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
67390 GGTGGTGG
1 GGTGGTGG
67398 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:68285 original size:100 final size:101
Alignment explanation
Indices: 68180--68365 Score: 277
Period size: 100 Copynumber: 1.8 Consensus size: 101
68170 AACAGATTTC
* *
68180 GAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG-C
1 GAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
68243 AAAGCATAAATTGAAAAAAAATAAAAAAAAATCAATT
66 AAA-CATAAATTGAAAAAAAATAAAAAAAAATCAATT
* * * * *
68280 GAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTTGCAATATGCGTTGATTTTTTTGA
1 GAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
68345 CAAACATAAATTGAAAAAAAA
65 CAAACATAAATTGAAAAAAAA
68366 GAAATTGAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 49 0.64
102 23 0.30
103 4 0.05
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (101 bp):
GAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
AAACATAAATTGAAAAAAAATAAAAAAAAATCAATT
Found at i:68561 original size:92 final size:88
Alignment explanation
Indices: 68276--68628 Score: 383
Period size: 88 Copynumber: 3.9 Consensus size: 88
68266 AAAAAAAATC
* * * *
68276 AATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTTGCAATATGCGTTGA-TTTT
1 AATTGAAAATACCTCAGCGTGT-A--TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
68340 TTTGACAAACATAAATTGAAAAAAAAGA
63 TTTGA-AAACAGAAATTG-AAAAACAGA
* * * * * *
68368 AATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAG-TTAATATTTT
1 AATTGAAAATACCTCAGCGTGT-ATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
*
68432 GGAAAA-A-AAATTGAAAAACAGA
65 TGAAAACAGAAATTGAAAAACAGA
* * *
68454 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGT-A-T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
*
68519 TTTGAAACACAGAAATTGAAGAACAGA
63 TTTGAAA-ACAGAAATTGAAAAACAGA
* * * *
68546 AATGGAAAACACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTT
1 AATTGAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTT
68610 GAAAGACAGAAATTGAAAA
66 GAAA-ACAGAAATTGAAAA
68629 TACCTCAACG
Statistics
Matches: 222, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
86 28 0.13
87 7 0.03
88 82 0.37
89 17 0.08
90 35 0.16
91 1 0.00
92 52 0.23
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTT
GAAAACAGAAATTGAAAAACAGA
Found at i:68564 original size:178 final size:176
Alignment explanation
Indices: 68278--68700 Score: 448
Period size: 178 Copynumber: 2.5 Consensus size: 176
68268 AAAAAATCAA
* * * * * *
68278 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTTGCAATATGCGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * * *
68343 GACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCACC
66 GACAAACAGAAATTGAAAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTCACC
68408 TCTCGCAATATGAGTTAATATTTTGGAAAAAAAATTGAAAAACAGAAT
129 TCTCGCAATATGAGTTAATATTTTGGAAAAAAAATTGAAAAACAGAAT
68456 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCACTCGCAATATGAGCTGA-TTTTT
* * * *
68520 TTGA-AACACAGAAATTG-AAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCAC
64 TTGACAA-ACAGAAATTGAAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCAC
* * * * *
68583 CTCTCGCAATATGAGCTGAT-TTTT---------TTTGAAAGACAGAAA
128 CTCTCGCAATATGAGTTAATATTTTGGAAAAAAAATTGAAAAACAGAAT
* * * * *
68622 TTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
*
68683 GACAAACAAAAATTGAAA
66 GACAAACAGAAATTGAAA
68701 TCACCTTAGC
Statistics
Matches: 213, Mismatches: 26, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
161 16 0.08
162 4 0.02
164 31 0.15
166 31 0.15
175 4 0.02
176 34 0.16
178 73 0.34
179 20 0.09
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (176 bp):
TTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GACAAACAGAAATTGAAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTAATATTTTGGAAAAAAAATTGAAAAACAGAAT
Found at i:68806 original size:75 final size:75
Alignment explanation
Indices: 68534--69144 Score: 823
Period size: 75 Copynumber: 8.3 Consensus size: 75
68524 AACACAGAAA
* * * * *
68534 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
68597 GCTGATTTTTT
66 GTTGA-TTTTT
*
68608 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
68673 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
68681 TTGACAAACAAAAATTG-AAATCACCT-TA-GCGTCTTGAGGTTCAACTCACCTATCGCAATATG
1 TTGAAAAACAGAAATTGAAAAT-ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
68743 AGTTGATTTTT
65 AGTTGATTTTT
*
68754 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
68819 GCTGATTTTT
66 GTTGATTTTT
* *
68829 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
68894 GTTGA--TTT
66 GTTGATTTTT
* * * * *
68902 TTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
68967 GTTGATTTTT
66 GTTGATTTTT
*
68977 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
69042 GTTGA--GTT
66 GTTGATTTTT
* * * * * *
69050 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
69115 GTTGATTTTT
66 GTTGATTTTT
* * *
69125 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
69145 AAACAAAAAT
Statistics
Matches: 475, Mismatches: 50, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
71 37 0.08
72 5 0.01
73 174 0.37
74 42 0.09
75 180 0.38
76 37 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:68942 original size:148 final size:147
Alignment explanation
Indices: 68534--69144 Score: 808
Period size: 148 Copynumber: 4.1 Consensus size: 147
68524 AACACAGAAA
* * *
68534 TTGAAGAACAGAAATGGAAAACACCTC-AGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 TTGAA-AACAGAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
68598 CTGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
65 TTGA--TTTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
68662 TCGCAATATGAGTTGA--TTT
127 TCGCAATATGAGTTGATTTTT
* * * *
68681 TTGACAAACAAAAATTG-AAATCACCT-TAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAAT-ACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
68744 GTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCT
64 GTTGA-TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
*
68809 CGCAATATGAGCTGATTTTT
128 CGCAATATGAGTTGATTTTT
* *
68829 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAA-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
68894 GTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTATC
64 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
68958 GCAATATGAGTTGATTTTT
129 GCAATATGAGTTGATTTTT
* *
68977 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAA-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
69042 GTTGA-GTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTC
64 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
69106 GCAATATGAGTTGATTTTT
129 GCAATATGAGTTGATTTTT
* *
69125 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
69145 AAACAAAAAT
Statistics
Matches: 424, Mismatches: 28, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
146 74 0.17
147 74 0.17
148 231 0.54
149 8 0.02
150 37 0.09
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (147 bp):
TTGAAAACAGAAATTGAAAATACCTCAAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTT
Found at i:69290 original size:98 final size:97
Alignment explanation
Indices: 69143--69442 Score: 390
Period size: 98 Copynumber: 3.0 Consensus size: 97
69133 ATAAATTAAA
* *
69143 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTG-AAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** * * *
69208 GATTTGAAAAGTAGAATTTGTAAGGCAAAAATTG
65 GATTTGAAAAACAGAAATT-AAAAGCAAAAATTG
69242 AAAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
69307 ATTTTTGAAAAACAGAAATTAAAAGCAGAAATTG
66 A--TTTGAAAAACAGAAATTAAAAGCAAAAATTG
* * *
69341 AAAAACAGAAATTAAAATACCTCGGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATATGAGTTG
1 AAAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
69405 ATTTTTGAAAAGCATAAATTGAAAA--AAGAAATTG
66 A--TTTGAAAAACAGAAATT-AAAAGCAA-AAATTG
69439 AAAA
1 AAAA
69443 TACCTCAGCG
Statistics
Matches: 183, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
97 1 0.01
98 110 0.60
99 58 0.32
100 14 0.08
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (97 bp):
AAAAACAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTGAAAAACAGAAATTAAAAGCAAAAATTG
Found at i:69349 original size:14 final size:13
Alignment explanation
Indices: 69314--69357 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
69304 TTGATTTTTG
69314 AAAAACAGAAATT
1 AAAAACAGAAATT
*
69327 AAAAGCAGAAATT
1 AAAAACAGAAATT
69340 GAAAAACAGAAATT
1 -AAAAACAGAAATT
69354 AAAA
1 AAAA
69358 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.68, C:0.07, G:0.11, T:0.14
Consensus pattern (13 bp):
AAAAACAGAAATT
Done.