Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 13 of 173
Found at i:3547234 original size:20 final size:19
Alignment explanation
Indices: 3547192--3547234 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
3547182 ATATTATTTG
**
3547192 ATAAAATTTTTAAAAAATT
1 ATAAAATTTTTAAAAAACA
*
3547211 ATAAATATTTTTAAAATACA
1 ATAAA-ATTTTTAAAAAACA
3547231 ATAA
1 ATAA
3547235 TTTTTCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATTTTTAAAAAACA
Found at i:3550219 original size:9 final size:9
Alignment explanation
Indices: 3550205--3550238 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
3550195 AAATTTCAAG
*
3550205 TCGAATAAC
1 TCGAATAAA
*
3550214 TCGAATAAT
1 TCGAATAAA
3550223 TCGAATAAA
1 TCGAATAAA
3550232 TCGAATA
1 TCGAATA
3550239 TCAAACTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:3551954 original size:7 final size:7
Alignment explanation
Indices: 3551937--3551967 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
3551927 TTAAAATCAG
3551937 AAAATATA
1 AAAATA-A
3551945 AAAATAA
1 AAAATAA
3551952 AAAATAA
1 AAAATAA
3551959 AAAATAA
1 AAAATAA
3551966 AA
1 AA
3551968 TTACCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.74
8 6 0.26
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:3557355 original size:15 final size:15
Alignment explanation
Indices: 3557305--3557355 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
3557295 TATAATAATT
*
3557305 AATATTAATAATATA
1 AATATTAATATTATA
*
3557320 AATATAAATATTA-A
1 AATATTAATATTATA
* *
3557334 ATTTATTATTATTATA
1 A-ATATTAATATTATA
3557350 AATATT
1 AATATT
3557356 TTCTTTTTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTAATATTATA
Found at i:3561457 original size:26 final size:25
Alignment explanation
Indices: 3561419--3561483 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
3561409 CCCTTAACAT
*
3561419 ATTATATCAATTTAGTAATTAATATA
1 ATTATATCAATTTAAT-ATTAATATA
** *
3561445 ATTATATTTATTTAATATTAATATT
1 ATTATATCAATTTAATATTAATATA
*
3561470 ATTAATATAAATTT
1 ATT-ATATCAATTT
3561484 TAAATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATATCAATTTAATATTAATATA
Found at i:3563710 original size:19 final size:19
Alignment explanation
Indices: 3563686--3563725 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
3563676 TCATGCAAGA
3563686 TTTAGATTTAGG-TTTTATT
1 TTTAGA-TTAGGATTTTATT
3563705 TTTAGATTAGGATTTTTATT
1 TTTAGATTAGGA-TTTTATT
3563725 T
1 T
3563726 ATGCAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (19 bp):
TTTAGATTAGGATTTTATT
Found at i:3563953 original size:2 final size:2
Alignment explanation
Indices: 3563946--3563971 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3563936 GTAGAGTTAG
3563946 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
3563972 GGTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3566610 original size:44 final size:44
Alignment explanation
Indices: 3566547--3566635 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
3566537 TATTTCGTAT
3566547 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
1 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
3566591 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
1 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
3566635 A
1 A
3566636 AGTTCATCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (44 bp):
ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
Found at i:3570184 original size:26 final size:25
Alignment explanation
Indices: 3570146--3570210 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
3570136 CCCTTAACAT
*
3570146 ATTATATCAATTTAGTAATTAATATA
1 ATTATATCAATTTAAT-ATTAATATA
** *
3570172 ATTATATTTATTTAATATTAATATT
1 ATTATATCAATTTAATATTAATATA
*
3570197 ATTAATATAAATTT
1 ATT-ATATCAATTT
3570211 TAAATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATATCAATTTAATATTAATATA
Found at i:3574698 original size:3 final size:3
Alignment explanation
Indices: 3574690--3574714 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3574680 CTTTTATGTA
3574690 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
3574715 TACTTAATTC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3574839 original size:31 final size:32
Alignment explanation
Indices: 3574803--3574867 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
3574793 CTTAGATAAT
3574803 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
3574834 TTTAAAGAGTTTTTATTATGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
3574866 TT
1 TT
3574868 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:3575441 original size:18 final size:18
Alignment explanation
Indices: 3575412--3575517 Score: 76
Period size: 20 Copynumber: 5.8 Consensus size: 18
3575402 TTCTTTAAAT
3575412 AAAAGCAAAAAAACAGCAAA
1 AAAAGCAAAAAAA-A-CAAA
*
3575432 AATAGCAAAAAAAACAAA
1 AAAAGCAAAAAAAACAAA
**
3575450 AAAAGCAAAAAAGCGCAAA
1 AAAAGCAAAAAA-AACAAA
*
3575469 AAAAG-AGTAAAAAGCACAAA
1 AAAAGCA--AAAAA-AACAAA
**
3575489 AAAA--AAACCAAA-AAA
1 AAAAGCAAAAAAAACAAA
3575504 AAAAGCAAAAAAAA
1 AAAAGCAAAAAAAA
3575518 GCGCAAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
15 7 0.10
16 1 0.01
17 9 0.13
18 16 0.23
19 11 0.15
20 27 0.38
ACGTcount: A:0.76, C:0.12, G:0.09, T:0.02
Consensus pattern (18 bp):
AAAAGCAAAAAAAACAAA
Found at i:3575450 original size:8 final size:9
Alignment explanation
Indices: 3575412--3575516 Score: 76
Period size: 9 Copynumber: 11.4 Consensus size: 9
3575402 TTCTTTAAAT
3575412 AAAAGCAAAA
1 AAAAGC-AAA
3575422 AAACAGCAAA
1 AAA-AGCAAA
*
3575432 AATAGCAAA
1 AAAAGCAAA
*
3575441 AAAAACAAA
1 AAAAGCAAA
3575450 AAAAGCAAA
1 AAAAGCAAA
*
3575459 AAAGCGCAAA
1 AAA-AGCAAA
*
3575469 AAAAG-AGTA
1 AAAAGCA-AA
3575478 AAAAGCACAA
1 AAAAGCA-AA
3575488 AAAA--AAA
1 AAAAGCAAA
3575495 ACCAAA--AAA
1 A--AAAGCAAA
3575504 AAAAGCAAA
1 AAAAGCAAA
3575513 AAAA
1 AAAA
3575517 AGCGCAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
7 6 0.08
8 2 0.03
9 45 0.58
10 22 0.28
11 3 0.04
ACGTcount: A:0.76, C:0.12, G:0.10, T:0.02
Consensus pattern (9 bp):
AAAAGCAAA
Found at i:3575471 original size:12 final size:12
Alignment explanation
Indices: 3575456--3575566 Score: 54
Period size: 12 Copynumber: 9.5 Consensus size: 12
3575446 CAAAAAAAGC
3575456 AAAAAAGCGC-A
1 AAAAAAGCGCAA
* *
3575467 AAAAAAGAG--T
1 AAAAAAGCGCAA
*
3575477 AAA-AAGCACAA
1 AAAAAAGCGCAA
*
3575488 AAAAAAAAC-CAA
1 -AAAAAAGCGCAA
**
3575500 AAAAAAAAGCAA
1 AAAAAAGCGCAA
3575512 AAAAAAGCGCAA
1 AAAAAAGCGCAA
** *
3575524 AAAAAGAAAG-AG
1 AAAAA-AGCGCAA
*
3575536 TAAAAAGCGCAAA
1 AAAAAAGCGC-AA
*
3575549 AAAAAAGCACAA
1 AAAAAAGCGCAA
3575561 AAAAAA
1 AAAAAA
3575567 AGTTGCCTAC
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
9 3 0.04
10 3 0.04
11 17 0.23
12 37 0.50
13 14 0.19
ACGTcount: A:0.74, C:0.12, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAGCGCAA
Found at i:3575471 original size:20 final size:19
Alignment explanation
Indices: 3575412--3575492 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 19
3575402 TTCTTTAAAT
*
3575412 AAAAGCAAAAAAACAGCAAA
1 AAAAGCAAAAAAGCA-CAAA
* *
3575432 AATAGCAAAAAA-AACAAA
1 AAAAGCAAAAAAGCACAAA
*
3575450 AAAAGCAAAAAAGCGCAAA
1 AAAAGCAAAAAAGCACAAA
3575469 AAAAG-AGTAAAAAGCACAAA
1 AAAAGCA--AAAAAGCACAAA
3575489 AAAA
1 AAAA
3575493 AAACCAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
18 16 0.31
19 10 0.19
20 26 0.50
ACGTcount: A:0.74, C:0.12, G:0.11, T:0.02
Consensus pattern (19 bp):
AAAAGCAAAAAAGCACAAA
Found at i:3575502 original size:13 final size:12
Alignment explanation
Indices: 3575485--3575517 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3575475 GTAAAAAGCA
3575485 CAAAAAAAAAAC
1 CAAAAAAAAAAC
*
3575497 CAAAAAAAAAAG
1 CAAAAAAAAAAC
3575509 CAAAAAAAA
1 CAAAAAAAA
3575518 GCGCAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAC
Found at i:3575512 original size:24 final size:24
Alignment explanation
Indices: 3575487--3575566 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
3575477 AAAAAGCACA
3575487 AAAAAAAAAC-CAAAAAAAAAAGC
1 AAAAAAAAACGCAAAAAAAAAAGC
*
3575510 AAAAAAAAGCGCAAAAAAAGAAAG-
1 AAAAAAAAACGCAAAAAAA-AAAGC
** *
3575534 AGTAAAAAGCGC-AAAAAAAAAGC
1 AAAAAAAAACGCAAAAAAAAAAGC
3575557 ACAAAAAAAA
1 A-AAAAAAAA
3575567 AGTTGCCTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 4 0.09
23 16 0.34
24 23 0.49
25 4 0.09
ACGTcount: A:0.76, C:0.11, G:0.11, T:0.01
Consensus pattern (24 bp):
AAAAAAAAACGCAAAAAAAAAAGC
Found at i:3575517 original size:11 final size:11
Alignment explanation
Indices: 3575412--3575566 Score: 62
Period size: 11 Copynumber: 14.4 Consensus size: 11
3575402 TTCTTTAAAT
3575412 AAAAGCAAAAA
1 AAAAGCAAAAA
*
3575423 AACAGC--AAA
1 AAAAGCAAAAA
*
3575432 AATAGC-AAAA
1 AAAAGCAAAAA
3575442 AAAA-C--AAA
1 AAAAGCAAAAA
3575450 AAAAGC-AAAA
1 AAAAGCAAAAA
**
3575460 AAGCGCAAAAA
1 AAAAGCAAAAA
* *
3575471 AAGAG-TAAAA
1 AAAAGCAAAAA
**
3575481 AGCA-CAAAAAA
1 AAAAGC-AAAAA
*
3575492 AAAACCAAAAAA
1 AAAAGC-AAAAA
3575504 AAAAGC-AAAA
1 AAAAGCAAAAA
**
3575514 AAAAGCGCAAA
1 AAAAGCAAAAA
3575525 AAAAG-AAAGAGTA
1 AAAAGCAAA-A--A
3575538 AAAAGCGCAAAAA
1 AAAA--GCAAAAA
3575551 AAAAGCACAAAA
1 AAAAGCA-AAAA
3575563 AAAA
1 AAAA
3575567 AGTTGCCTAC
Statistics
Matches: 113, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
8 7 0.06
9 10 0.09
10 30 0.27
11 31 0.27
12 20 0.18
13 10 0.09
15 2 0.02
16 3 0.03
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAGCAAAAA
Found at i:3575526 original size:13 final size:13
Alignment explanation
Indices: 3575477--3575568 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
3575467 AAAAAAGAGT
*
3575477 AAAAAGCACAAAA
1 AAAAAGCGCAAAA
*
3575490 AAAAAAC-CAAAA
1 AAAAAGCGCAAAA
*
3575502 AAAAA-AGC-AAA
1 AAAAAGCGCAAAA
3575513 AAAAAGCGCAAAA
1 AAAAAGCGCAAAA
* **
3575526 AAAGAA-AG--AGT
1 AAA-AAGCGCAAAA
3575537 AAAAAGCGCAAAA
1 AAAAAGCGCAAAA
*
3575550 AAAAAGCACAAAA
1 AAAAAGCGCAAAA
3575563 AAAAAG
1 AAAAAG
3575569 TTGCCTACCT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
10 2 0.03
11 13 0.21
12 13 0.21
13 32 0.52
14 2 0.03
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.01
Consensus pattern (13 bp):
AAAAAGCGCAAAA
Found at i:3575534 original size:60 final size:55
Alignment explanation
Indices: 3575447--3575567 Score: 163
Period size: 60 Copynumber: 2.1 Consensus size: 55
3575437 CAAAAAAAAC
3575447 AAAAAAAGCAAAAAAGCGCAAAAAAAGAGTAAAAAGCACAAAAAAAAAAC-CAAA
1 AAAAAAAGCAAAAAAGCGCAAAAAAAGAGTAAAAAGCACAAAAAAAAAACACAAA
* *
3575501 AAAAAAAGCAAAAAAAAGCGCAAAAAAAGAAAGAGTAAAAAGCGCAAAAAAAAAGCACAAA
1 AAAAAAAGC--AAAAAAGCGC---AAAA-AAAGAGTAAAAAGCACAAAAAAAAAACACAAA
3575562 AAAAAA
1 AAAAAA
3575568 GTTGCCTACC
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
54 9 0.16
56 10 0.17
59 4 0.07
60 25 0.43
61 10 0.17
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.02
Consensus pattern (55 bp):
AAAAAAAGCAAAAAAGCGCAAAAAAAGAGTAAAAAGCACAAAAAAAAAACACAAA
Found at i:3580121 original size:31 final size:32
Alignment explanation
Indices: 3580085--3580149 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
3580075 CTTAGATAAT
3580085 TTTAAAGAG-TTTTATTAGAATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTCAATTACTC
*
3580116 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTCAATTACTC
3580148 TT
1 TT
3580150 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGAATTCAATTACTC
Found at i:3586024 original size:21 final size:21
Alignment explanation
Indices: 3585998--3586038 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3585988 ATCTGCTCAA
* *
3585998 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3586019 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3586039 TTGCTCGTCT
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:3595710 original size:19 final size:19
Alignment explanation
Indices: 3595686--3595723 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3595676 TGCTTCAATA
*
3595686 TGGTGTAGTACTAATTATG
1 TGGTGTAATACTAATTATG
*
3595705 TGGTGTAATACTAGTTATG
1 TGGTGTAATACTAATTATG
3595724 GACTTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TGGTGTAATACTAATTATG
Found at i:3601241 original size:18 final size:18
Alignment explanation
Indices: 3601218--3601255 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3601208 TTCAATTAAG
*
3601218 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
3601236 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
3601254 TC
1 TC
3601256 ATTTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:3610833 original size:18 final size:18
Alignment explanation
Indices: 3610810--3610847 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3610800 AGAACTAAAT
*
3610810 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
3610828 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
3610846 GA
1 GA
3610848 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:3613189 original size:25 final size:25
Alignment explanation
Indices: 3613160--3613209 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
3613150 TTTTACAACC
3613160 TTAGAAATAAT-ACACCATTTAGAGA
1 TTAGAAATAATAACA-CATTTAGAGA
* *
3613185 TTAGAACTCATAACACATTTAGAGA
1 TTAGAAATAATAACACATTTAGAGA
3613210 ATTTTGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (25 bp):
TTAGAAATAATAACACATTTAGAGA
Found at i:3622300 original size:16 final size:19
Alignment explanation
Indices: 3622270--3622329 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
3622260 AAAATAAAAT
3622270 TTAA-ATATTATATAATTTA
1 TTAATATATTA-ATAATTTA
3622289 TTAA-A-A-TAATAAATTATA
1 TTAATATATTAAT-AATT-TA
3622307 TTAATTATATTAATAATTTA
1 TTAA-TATATTAATAATTTA
3622327 TTA
1 TTA
3622330 TATGGCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 6 0.17
18 7 0.20
19 5 0.14
20 6 0.17
21 5 0.14
22 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATATATTAATAATTTA
Found at i:3622321 original size:25 final size:25
Alignment explanation
Indices: 3622276--3622332 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
3622266 AAATTTAAAT
3622276 ATTATA-TAATTTATTAAAATAATAA
1 ATTATATTAATTTATT-AAATAATAA
**
3622301 ATTATATTAATTATATT-AATAATTT
1 ATTATATTAATT-TATTAAATAATAA
3622326 ATTATAT
1 ATTATAT
3622333 GGCTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.68
26 5 0.18
27 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATTAATTTATTAAATAATAA
Found at i:3624657 original size:21 final size:19
Alignment explanation
Indices: 3624615--3624658 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
3624605 TTTTGAAAAA
* *
3624615 TTTATGATTTTTAATTATT
1 TTTATGATTTTAAATAATT
3624634 TTTATAGATTTTAAAATAATT
1 TTTAT-GATTTT-AAATAATT
3624655 TTTA
1 TTTA
3624659 GCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTATGATTTTAAATAATT
Found at i:3633917 original size:294 final size:294
Alignment explanation
Indices: 3633531--3634121 Score: 1139
Period size: 294 Copynumber: 2.0 Consensus size: 294
3633521 ACGGGCTTAT
*
3633531 TTTTTTTTTGTCTAAGCCTATTTTTTGGGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGGA
1 TTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGGA
3633596 CAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCTAA
66 CAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTC-AA
3633661 CAGTTTCTTAGTTCTC-AACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATG
130 CAGTTTCTTAGTTCTCTAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATG
*
3633725 TTTAGATGGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTC
195 TTTAGATAGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTC
3633790 AAAGTTTTCATGTTTACGCTTTTCATATACTGGCA
260 AAAGTTTTCATGTTTACGCTTTTCATATACTGGCA
3633825 TTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGGA
1 TTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGGA
3633890 CAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCAAC
66 CAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCAAC
3633955 AGTTTCTTAGTTCTCTAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATGT
131 AGTTTCTTAGTTCTCTAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATGT
*
3634020 TTAGATAGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTTA
196 TTAGATAGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTCA
3634085 AAGTTTTCATGTTTACGCTTTTCATATACTGGCA
261 AAGTTTTCATGTTTACGCTTTTCATATACTGGCA
3634119 TTT
1 TTT
3634122 CTGATAATTT
Statistics
Matches: 293, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
293 18 0.06
294 275 0.94
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (294 bp):
TTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGGA
CAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCAAC
AGTTTCTTAGTTCTCTAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATGT
TTAGATAGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTCA
AAGTTTTCATGTTTACGCTTTTCATATACTGGCA
Found at i:3634831 original size:13 final size:13
Alignment explanation
Indices: 3634815--3634844 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3634805 TTGTATTGCA
*
3634815 TGTTTGATTTTCT
1 TGTTTGATTTCCT
3634828 TGTTTGATTTCCT
1 TGTTTGATTTCCT
3634841 TGTT
1 TGTT
3634845 AACCCCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (13 bp):
TGTTTGATTTCCT
Found at i:3638478 original size:23 final size:21
Alignment explanation
Indices: 3638452--3638492 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
3638442 AATTAAATTA
3638452 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
3638473 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
3638493 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:3638831 original size:16 final size:16
Alignment explanation
Indices: 3638812--3638855 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
3638802 TCTATTCCAT
*
3638812 TATTCCATTACGCATC
1 TATTCCATTACACATC
*
3638828 TATTCCATTCCACATC
1 TATTCCATTACACATC
3638844 TATTCCATTACA
1 TATTCCATTACA
3638856 GCGAACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (16 bp):
TATTCCATTACACATC
Found at i:3639352 original size:18 final size:16
Alignment explanation
Indices: 3639327--3639369 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
3639317 AGGCCTTTTT
*
3639327 ATTAAATTATTTATGTA
1 ATTAAATTATTT-TATA
3639344 ATATAAATTATTTTATA
1 AT-TAAATTATTTTATA
3639361 ATTAAATTA
1 ATTAAATTA
3639370 ATTGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAAATTATTTTATA
Found at i:3642689 original size:37 final size:36
Alignment explanation
Indices: 3642631--3642702 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
3642621 TATATATACT
*
3642631 TATAAAAATAAAAATATGTATATGTATATAGATATA
1 TATAAAAATAAAAATATGTATACGTATATAGATATA
* *
3642667 TATAAAAA-AGAAATATGAGTATACGTATATATATAT
1 TATAAAAATAAAAATAT--GTATACGTATATAGATAT
3642703 TAAACAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 7 0.23
36 8 0.26
37 16 0.52
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.35
Consensus pattern (36 bp):
TATAAAAATAAAAATATGTATACGTATATAGATATA
Found at i:3642844 original size:3 final size:3
Alignment explanation
Indices: 3642833--3642875 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
3642823 CAATAATACC
* * * *
3642833 AAT ACT AAT AAT AGT AAA AAT GAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3642876 GCAAAAGTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3643368 original size:12 final size:12
Alignment explanation
Indices: 3643351--3643378 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3643341 AGCTCCAGTC
3643351 GCCGTCCGTCGT
1 GCCGTCCGTCGT
3643363 GCCGTCCGTCGT
1 GCCGTCCGTCGT
3643375 GCCG
1 GCCG
3643379 GCGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.36, T:0.21
Consensus pattern (12 bp):
GCCGTCCGTCGT
Found at i:3644345 original size:46 final size:44
Alignment explanation
Indices: 3644283--3644840 Score: 345
Period size: 46 Copynumber: 12.9 Consensus size: 44
3644273 TGCGATCTGG
* *
3644283 CTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATT
* * * *
3644329 CTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGA--
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATT
* * * * * * *
3644371 -TGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATT
* * * *
3644416 -TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-ATAT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-T
*
3644457 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATT
* * * *
3644503 CTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA--
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATT
* * * * * *
3644545 -TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-C-TGATT
* * * *
3644590 -TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T-ATAT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAT-T
*
3644631 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG--ATT
* * * * *
3644677 CTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA-T
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATT
* * * * *
3644720 -GT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGATC-----
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATT
** * * * * *
3644757 CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTAT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-T-T
* * *
3644801 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
3644841 CTGGCTTCAA
Statistics
Matches: 396, Mismatches: 85, Indels: 63
0.73 0.16 0.12
Matches are distributed among these distances:
38 1 0.00
39 24 0.06
40 4 0.01
41 90 0.23
42 7 0.02
43 63 0.16
44 92 0.23
45 3 0.01
46 108 0.27
47 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGATT
Found at i:3644437 original size:44 final size:44
Alignment explanation
Indices: 3644288--3644839 Score: 276
Period size: 44 Copynumber: 12.8 Consensus size: 44
3644278 TCTGGCTTCA
* * **
3644288 ATCTGCTCCACTGTAACCTCAGGGGGATAAGAT-CTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCT-TTATT-TT-G
* * * * * **
3644334 GTCTACTCCACTGTAACCTCAGAGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTG
* * * * *
3644375 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTG
* * * *
3644419 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT--TATATCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTAT-TTTG
* * **
3644462 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCT-TTATT-TT-G
* * * **
3644508 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCCTTTATTTTG
* * * *
3644549 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTG
* * * *
3644593 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT--TATATCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTAT-TTTG
* * **
3644636 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCT-TTA-T-TTTG
* * * *
3644682 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGA-CC-TGA-TGTG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCCTTTATTTTG
* * *
3644723 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-----
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTG
* * * * *
3644762 ATCCGCTCCATTGTAA-TCTCAAGGAGATAGGAT--TACTATCTTTG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATCCT-TTAT-TTTG
*
3644806 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATC
3644840 TCTGGCTTCA
Statistics
Matches: 384, Mismatches: 89, Indels: 67
0.71 0.16 0.12
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 24 0.06
41 83 0.22
42 16 0.04
43 70 0.18
44 91 0.24
45 5 0.01
46 91 0.24
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTG
Found at i:3644464 original size:87 final size:87
Alignment explanation
Indices: 3644373--3644839 Score: 363
Period size: 87 Copynumber: 5.4 Consensus size: 87
3644363 AGACCTGATG
* *
3644373 CGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATC-
3644437 TCAGGGAGATAGGATTATATCTT
65 TCAGGGAGATAGGATTATATCTT
* ** * * * ** * *
3644460 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGCAATTCTTCGGTCTGTTCCACTGTAA
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TAATT-TT-AATCCGCTCCACTGTAA
* * * *
3644524 TCTCAGGGAGATAAGACCT-GA--TG
63 TCTCAGGGAGATAGGA-TTATATCTT
*
3644547 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATC-
3644611 TCAGGGAGATAGGATTATATCTT
65 TCAGGGAGATAGGATTATATCTT
* ** * * * ** * *
3644634 CGATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTGTAA
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TAA-T-TTTAATCCGCTCCACTGTAA
* * * *
3644698 TCTCAGGGAGATAAGACCT-GAT-GT
63 TCTCAGGGAGATAGGA-TTATATCTT
* *
3644722 -GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-----TTTAATCCGCTCCATTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATCT
*
3644781 CAAGGAGATAGGATTACTATCTT
66 CAGGGAGATAGGATTA-TATCTT
* * ** *
3644804 TGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATC
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATC
3644840 TCTGGCTTCA
Statistics
Matches: 294, Mismatches: 65, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
79 1 0.00
80 29 0.10
81 2 0.01
82 2 0.01
83 29 0.10
84 2 0.01
85 27 0.09
86 6 0.02
87 127 0.43
88 7 0.02
89 58 0.20
90 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (87 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTAATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTATATCTT
Found at i:3644584 original size:174 final size:174
Alignment explanation
Indices: 3644283--3644840 Score: 912
Period size: 174 Copynumber: 3.2 Consensus size: 174
3644273 TGCGATCTGG
* * * **
3644283 CTTCAATCTGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
* * *
3644348 AACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTT
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
3644413 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
3644457 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
3644522 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
3644587 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
131 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
* *
3644631 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
* *
3644696 AATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC---
66 AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
* *
3644758 --TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTAT
131 ATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGATTA-TAT
* *
3644801 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCT
3644841 CTGGCTTCAA
Statistics
Matches: 366, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
168 1 0.00
169 35 0.10
170 41 0.11
174 289 0.79
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
AATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
Found at i:3644933 original size:45 final size:45
Alignment explanation
Indices: 3644882--3645111 Score: 139
Period size: 44 Copynumber: 5.2 Consensus size: 45
3644872 GAGGCAAGGC
* *
3644882 TTTGTCTTTGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * * ** ** * * * *
3644927 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
*
3644970 TGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * * ** ** * * * *
3645015 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* * * *
3645058 TGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCC
1 TTTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
3645103 TTTGTCTTC
1 TTTGTCTTC
3645112 ATTGATCTGT
Statistics
Matches: 125, Mismatches: 52, Indels: 16
0.65 0.27 0.08
Matches are distributed among these distances:
43 31 0.25
44 55 0.44
45 39 0.31
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (45 bp):
TTTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
Found at i:3644999 original size:88 final size:88
Alignment explanation
Indices: 3644863--3645112 Score: 421
Period size: 88 Copynumber: 2.9 Consensus size: 88
3644853 TGCTCCAATG
** * * *
3644863 CAACCGATGGAGGCAAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
3644927 TTTGTCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
3644950 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
3645015 TTTGTCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
* * *
3645038 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCC
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
3645103 TTTGTCTTCA
66 TTTGTCTTCA
3645113 TTGATCTGTC
Statistics
Matches: 154, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 18 0.12
88 136 0.88
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
TTTGTCTTCAACCAGCTCTATCA
Found at i:3647270 original size:7 final size:8
Alignment explanation
Indices: 3647245--3647274 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
3647235 CTATTTTGAC
3647245 TTTGATTTT
1 TTTGA-TTT
3647254 TTTGATTT
1 TTTGATTT
3647262 TTTGATTT
1 TTTGATTT
3647270 TTTGA
1 TTTGA
3647275 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:3652228 original size:37 final size:36
Alignment explanation
Indices: 3652170--3652241 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
3652160 TATATATACT
*
3652170 TATAAAAATAAAAATATGTATATGTATATAGATATA
1 TATAAAAATAAAAATATGTATACGTATATAGATATA
* *
3652206 TATAAAAA-AGAAATATGAGTATACGTATATATATAT
1 TATAAAAATAAAAATAT--GTATACGTATATAGATAT
3652242 TAAACAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 7 0.23
36 8 0.26
37 16 0.52
ACGTcount: A:0.54, C:0.01, G:0.10, T:0.35
Consensus pattern (36 bp):
TATAAAAATAAAAATATGTATACGTATATAGATATA
Found at i:3652383 original size:3 final size:3
Alignment explanation
Indices: 3652372--3652414 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
3652362 CAATAATACC
* * * *
3652372 AAT ACT AAT AAT AGT AAA AAT GAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3652415 GCAAAAGTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3652909 original size:12 final size:12
Alignment explanation
Indices: 3652892--3652919 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3652882 AGCTCCAGTC
3652892 GCCGTCCGTCGT
1 GCCGTCCGTCGT
3652904 GCCGTCCGTCGT
1 GCCGTCCGTCGT
3652916 GCCG
1 GCCG
3652920 GCGTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.36, T:0.21
Consensus pattern (12 bp):
GCCGTCCGTCGT
Found at i:3664519 original size:31 final size:31
Alignment explanation
Indices: 3664484--3664553 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
3664474 ATTATAAAAT
* *
3664484 AGTCATTAAACTTTTTAAAAGTTGTCATTTA
1 AGTCATTAAACTATTGAAAAGTTGTCATTTA
* ** * *
3664515 AGTCACTAAACTATTGAAATTTTTTTATTTA
1 AGTCATTAAACTATTGAAAAGTTGTCATTTA
3664546 AGTCATTA
1 AGTCATTA
3664554 CGCTATTAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.46
Consensus pattern (31 bp):
AGTCATTAAACTATTGAAAAGTTGTCATTTA
Found at i:3664560 original size:31 final size:30
Alignment explanation
Indices: 3664510--3664570 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
3664500 AAAAGTTGTC
3664510 ATTTAAGTCACTAAACTATTGAAATTTTTTT
1 ATTTAAGTCACTAAACTATT-AAATTTTTTT
* ** *
3664541 ATTTAAGTCATTACGCTATTAAGTTTTTTT
1 ATTTAAGTCACTAAACTATTAAATTTTTTT
3664571 TAAGTTCAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (30 bp):
ATTTAAGTCACTAAACTATTAAATTTTTTT
Found at i:3667983 original size:62 final size:62
Alignment explanation
Indices: 3667912--3668037 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
3667902 TTGAAGTTTA
* *
3667912 TTTTGAAAAATAGACAAATAAATATTAGGTTGAATCAAATTATAAAGTATTTA-AGTTAAAAG
1 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCA-TTACAGTTAAAAG
3667974 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
1 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
3668036 TT
1 TT
3668038 CGGGAAGTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 3 0.05
62 58 0.95
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (62 bp):
TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
Found at i:3668880 original size:23 final size:23
Alignment explanation
Indices: 3668853--3668906 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
3668843 TTTAATATGT
* *
3668853 TATTTAA-AAAAATATTTTTATTA
1 TATTTAATAAAAA-AATTTAATTA
3668876 TATTTGAATAAAAAAATTTAATTA
1 TATTT-AATAAAAAAATTTAATTA
3668900 TATTTAA
1 TATTTAA
3668907 CAAATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTAATAAAAAAATTTAATTA
Found at i:3669881 original size:21 final size:23
Alignment explanation
Indices: 3669835--3669882 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3669825 ACATTATCGT
3669835 TATTATAAATATACAAAAGAACA
1 TATTATAAATATACAAAAGAACA
* *
3669858 TATTATATATATAGAAAA-AA-A
1 TATTATAAATATACAAAAGAACA
3669879 TATT
1 TATT
3669883 TTTTATTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 2 0.09
23 16 0.70
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
TATTATAAATATACAAAAGAACA
Found at i:3676608 original size:29 final size:29
Alignment explanation
Indices: 3676545--3676609 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
3676535 GAGAAGAAGT
* *
3676545 ATAAACATATTGGGTCATTTACGTAAAAA
1 ATAAAAATATTGGGCCATTTACGTAAAAA
* *
3676574 GTAAAAATATTGGGCCATTTA-TTAAAAA
1 ATAAAAATATTGGGCCATTTACGTAAAAA
3676602 ATGAAAAA
1 AT-AAAAA
3676610 GAAAGGATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (29 bp):
ATAAAAATATTGGGCCATTTACGTAAAAA
Found at i:3679612 original size:114 final size:114
Alignment explanation
Indices: 3679485--3679790 Score: 495
Period size: 114 Copynumber: 2.7 Consensus size: 114
3679475 ATCGCAACTG
* * **
3679485 AAAAAACCTAAGCCTAACGACGCTGTTTTGTGAGCTTTTGTTGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGCTGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
3679550 GCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTAGAGGAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTAGAGGAAGCGCCGCA
* * * *
3679599 AAAAAACCTAAGCCCAACGATGCCGTTTTGTGAACTTTCGGGGATTTAGCGGCGTTTTTAGGAAA
1 AAAAAACCTAAGCCCAACGACGCTGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
* * *
3679664 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTAGAGGAAGCGCCGCA
* *
3679713 AAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
1 AAAAAACCTAAGCCCAACGACGCTGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
3679778 GCGCCGCTAATGC
66 GCGCCGCTAATGC
3679791 GCGCTAAAAA
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 176 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (114 bp):
AAAAAACCTAAGCCCAACGACGCTGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAA
GCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTAGAGGAAGCGCCGCA
Found at i:3680065 original size:15 final size:15
Alignment explanation
Indices: 3680045--3680075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3680035 CATATTTTAA
3680045 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
3680060 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
3680075 G
1 G
3680076 ATTAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:3680334 original size:15 final size:15
Alignment explanation
Indices: 3680314--3680360 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
3680304 ATATTTAAGG
*
3680314 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
3680329 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
3680343 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
3680357 TTTA
1 TTTA
3680361 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:3680393 original size:15 final size:15
Alignment explanation
Indices: 3680375--3680441 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
3680365 TTGGGATGTA
*
3680375 AGGTTTTGGGGTTAG
1 AGGTTTAGGGGTTAG
3680390 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
3680405 ATG-TTA-GGGTTA-
1 AGGTTTAGGGGTTAG
*
3680417 AGAG-TTAGGGATTTA-
1 AG-GTTTAGGG-GTTAG
3680432 AGGTTTAGGG
1 AGGTTTAGGG
3680442 ATTCAGGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 6 0.14
15 27 0.61
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:3681224 original size:105 final size:106
Alignment explanation
Indices: 3681051--3681241 Score: 296
Period size: 105 Copynumber: 1.8 Consensus size: 106
3681041 GTTCAAAATG
* *
3681051 AAAAACGCCGCAAAAAATAAATCAATATATAAAAAAATAAAATAAAAAATTTTAGCATAGCAAAA
1 AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAATAAAATAAAAAATTTTAGAATAGCAAAA
3681116 CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
66 CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
* * * *
3681157 AAAAAGGCTGCAAAAAATAAACCAATATAT-AAAAAA-CAGATAAAAAAATTTTAGAATAGCAAA
1 AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAATAAAAT-AAAAAATTTTAGAATAGCAAA
*
3681220 ACGGCGTCATTTTGTTCAAAAT
65 ACGGCGCCATTTTGTTCAAAAT
3681242 GGAAAAAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 3 0.04
105 47 0.61
106 27 0.35
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (106 bp):
AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAATAAAATAAAAAATTTTAGAATAGCAAAA
CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
Found at i:3681401 original size:107 final size:102
Alignment explanation
Indices: 3681290--3681500 Score: 273
Period size: 102 Copynumber: 2.0 Consensus size: 102
3681280 AAAGGTAAGC
* *
3681290 AATAGCGGCG-CTTT-TATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAA
1 AATAGCGGCGTCTTTGTAAAAAAACACCGC-AAAAATAAATCAATTTAT-AAAAAA--AAAA-AA
*
3681353 AAAATTTTTAGCATAGCAAAACGGCGCCATTTTGTTCAAAATGA
61 AAAA--TTTAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
* * *
3681397 AATAGCGGCGTTTTTGTAAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAAAAAAAT
1 AATAGCGGCGTCTTTGTAAAAAAACACCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAAT
* *
3681462 TTAGAATAGCAAAACGGCGTCATTTTGTTCCAAATGA
66 TTAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
3681499 AA
1 AA
3681501 AAATTTTTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
102 37 0.39
104 6 0.06
105 3 0.03
107 16 0.17
108 21 0.22
109 11 0.12
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (102 bp):
AATAGCGGCGTCTTTGTAAAAAAACACCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAAT
TTAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
Found at i:3681553 original size:255 final size:255
Alignment explanation
Indices: 3681051--3681657 Score: 981
Period size: 255 Copynumber: 2.4 Consensus size: 255
3681041 GTTCAAAATG
* *
3681051 AAAAACGCCGCAAAAAATAAATCAATATATAAAAAAATAAAATAAAAAATTTTAGCATAGCAAAA
1 AAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTAGCATAGCAAAA
* * * * *
3681116 CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTATAAAAAGGCTGCAAAAAATAAACCA
66 CGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTAAAAAAACGCCGCAAAAAATAAATCA
*
3681181 ATATATAAAAAACAGATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAA
131 ATTTATAAAAAACAGA-AAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAAT-GAA
*
3681246 AAAA-TTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTAT
194 AAAATTTTTGCGGCGTTTTTCAAAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTAT
*
3681307 AAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCATAGCAA
1 AAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAA-TAAAATAAAAAA-TTTTAGCATAGCAA
3681372 AACGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTGTAAAAAAACGCCGC-AAAAATAAA
64 AACGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTT-TAAAAAAACGCCGCAAAAAATAAA
*
3681436 TCAATTTATAAAAAACA-AAAAAAAA-TTTAGAATAGCAAAACGGCGTCATTTTGTTCCAAATGA
128 TCAATTTATAAAAAACAGAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGA
*
3681499 AAAAATTTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGG-AAGCAATAGCGGCACTTTTAT
193 AAAAATTTTTGCGGCGTTTTTC-AAAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTAT
*
3681562 AAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAA
1 AAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAA-TAAAATAAAAAA-TTTTAGCATAGCAA
*
3681627 AACGGCGTCATTTTGTTCAAAATGAAATAGC
64 AACGGCGCCATTTTGTTCAAAATGAAATAGC
3681658 CGCAAAAATA
Statistics
Matches: 331, Mismatches: 15, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
254 7 0.02
255 163 0.49
256 60 0.18
257 13 0.04
258 77 0.23
259 11 0.03
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (255 bp):
AAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTAGCATAGCAAAA
CGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTAAAAAAACGCCGCAAAAAATAAATCA
ATTTATAAAAAACAGAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAA
AATTTTTGCGGCGTTTTTCAAAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTAT
Found at i:3681719 original size:85 final size:88
Alignment explanation
Indices: 3681568--3681738 Score: 276
Period size: 85 Copynumber: 2.0 Consensus size: 88
3681558 TTATAAAAGC
* *
3681568 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAAAACGGC
1 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
3681633 GTCATTTTGTTCAAAATGAAATA
66 GTCATTTTGTTCAAAATGAAATA
* *
3681656 GCCGC-AAAAATAAATCAATTTAT-AAAAAA-TAAAATAAAAAAATTTTAGAATAGCAAAATGGC
1 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
*
3681718 GTCATTTTGTTCCAAATGAAA
66 GTCATTTTGTTCAAAATGAAA
3681739 AAATTTTTGC
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 49 0.63
86 6 0.08
87 18 0.23
88 5 0.06
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (88 bp):
GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
GTCATTTTGTTCAAAATGAAATA
Found at i:3681832 original size:226 final size:226
Alignment explanation
Indices: 3681422--3681880 Score: 617
Period size: 226 Copynumber: 2.0 Consensus size: 226
3681412 GTAAAAAAAC
*
3681422 GCCGCAAAAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
1 GCCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
* *
3681487 TGTTCCAAATGAAAAAATTTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCG
66 TGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGGAAGAAATA--G
*
3681552 GCACTTTTATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTT-T
129 G------TATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTCA
* *
3681616 TAGCACAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
188 T-GCACAACAAAACGGCATCATTTTGTTCAAAATGAAATA
*
3681656 GCCGCAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAATTTTAGAATAGCAAAATGGCGTC
1 GCCGCAAAAATAAATCAATTTAT-AAAAA-AAAA-AAAAAAA-TTTAGAATAGCAAAACGGCGTC
*** *
3681721 ATTTTGTTCCAAATGAAAAAATTTTTGCGGCATTTTTTTGAAAAAA-GCCGCTAAAGGTGAGAAA
62 ATTTTGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGG-AAGAAA
3681785 TA-G-A-AAAA-CGCCGCAAAAAATAAATCAATTTATTAAAAAAA-TAAAATAAAAAATTTCATG
126 TAGGTATAAAAGCGCCGCAAAAAATAAATCAATTTA-TAAAAAAATTAAAATAAAAAATTTCATG
* *
3681845 CATAACAAAACGGCATCATTTTGTTCAAAGTGAAAT
190 CACAACAAAACGGCATCATTTTGTTCAAAATGAAAT
3681881 GGCGGCGGTT
Statistics
Matches: 205, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
226 72 0.35
227 13 0.06
228 1 0.00
234 23 0.11
235 6 0.03
236 3 0.01
237 18 0.09
238 69 0.34
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (226 bp):
GCCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
TGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGGAAGAAATAGGT
ATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTCATGCACAAC
AAAACGGCATCATTTTGTTCAAAATGAAATA
Found at i:3681916 original size:108 final size:107
Alignment explanation
Indices: 3681788--3681987 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 107
3681778 TGAGAAATAG
* *
3681788 AAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAAATAAAAT-AAAAAATTTCATGCATAACA
1 AAAAACGCCGCAAAAAATAAATCAATTTA-TAAAAAAACAAAATAAAAAAATTTCA-GAATAACA
*
3681852 AAACGGCATCATTTTGTTCAAAGTGAAATGGCGGCGGTTTTATA
64 AAACGGCATCATTTTGTTCAAAATGAAATGGCGGCGGTTTTATA
* *
3681896 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAAAATTTTAGAATAGCAA
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAAT-AAAAAAATTTCAGAATAACAA
*
3681961 AACGGCGTCATTTTGTTCAAAATGAAA
65 AACGGCATCATTTTGTTCAAAATGAAA
3681988 AATTATTTGC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 13 0.15
108 61 0.73
109 10 0.12
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (107 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAAATTTCAGAATAACAAA
ACGGCATCATTTTGTTCAAAATGAAATGGCGGCGGTTTTATA
Found at i:3682081 original size:481 final size:481
Alignment explanation
Indices: 3681169--3682064 Score: 1204
Period size: 481 Copynumber: 1.8 Consensus size: 481
3681159 AAAGGCTGCA
* *
3681169 AAAAATAAACCAATATATAAAAAACAGATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
1 AAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
*
3681234 TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGCAATAGCGGC
66 TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATA---G-
*
3681299 GCTTTTATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAG
127 G----TATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTATAG
* * * *
3681364 CATAGCAAAACGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTGTAAAAAAACGCCGCAA
188 CATAACAAAACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATAAAAAAACGCCGCAA
*
3681429 AAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCCA
253 AAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAA
*
3681494 AATGAAAAAATTTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCGGCACTTT
318 AATGAAAAAATTTTTGCGGCG---TTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCAGCACTTT
* * * *
3681559 TATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAG
380 TATAAAAACGCCACAAAAAACAAATCAACTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAG
3681624 CAAAACGGCGTCATTTTGTTCAAAATGAAATAGCCGC
445 CAAAACGGCGTCATTTTGTTCAAAATGAAATAGCCGC
* * *
3681661 AAAAATAAATCAATTTATAAAAAATAAAATAAAAAAATTTTAGAATAGCAAAATGGCGTCATTTT
1 AAAAATAAACCAATATATAAAAAA-AAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTT
* ** *
3681726 GTTCCAAAT-GAAAAAATTTTTGCGGCATTTTTTTGAAAAAA-GCCGCTAAAGGTGAGAAATA-G
65 GTTCAAAATGGAAAAAA-TTTTGCGGC-TTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATAGG
*
3681788 -A-AAAA-CGCCGCAAAAAATAAATCAATTTATTAAAAAAA-TAAAATAAAAAATTTCAT-GCAT
128 TATAAAAGCACCGCAAAAAATAAATCAATTTA-TAAAAAAATTAAAATAAAAAATTT-ATAGCAT
* * *
3681848 AACAAAACGGCATCATTTTGTTCAAAGTGAAATGGCGGCGGTTTTAT-AAAAAACGCCGCAAAAA
191 AACAAAACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATAAAAAAACGCCGC-AAAA
3681912 ATAAATCAATTTATAAAAAAACAAAATAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGT
255 ATAAATCAATTTAT-AAAAAAC---A-AAAAAAAA-TTTAGAATAGCAAAACGGCGTCATTTTGT
* * * **
3681977 TCAAAATG-AAAAATTATTTGCGGCG-TC-ATAAAAACGCTGCTAAAAGTAAGCAATAGCAGCGT
314 TCAAAATGAAAAAATT-TTTGCGGCGTTCAAAAAAAACGCCGCT-AAAGGAAGCAATAGCAGCAC
3682039 TTTTATAAAAAACGCCACAAAAAACA
377 TTTTAT-AAAAACGCCACAAAAAACA
3682065 TTTCACTTTA
Statistics
Matches: 360, Mismatches: 29, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
480 12 0.03
481 100 0.28
482 32 0.09
483 25 0.07
484 16 0.04
485 1 0.00
486 15 0.04
487 45 0.12
488 1 0.00
492 29 0.08
493 72 0.20
494 12 0.03
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (481 bp):
AAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATAGGTAT
AAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTATAGCATAACAA
AACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATAAAAAAACGCCGCAAAAATAAAT
CAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAA
AATTTTTGCGGCGTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCAGCACTTTTATAAAAACGC
CACAAAAAACAAATCAACTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAAAACGGCGT
CATTTTGTTCAAAATGAAATAGCCGC
Found at i:3682144 original size:21 final size:22
Alignment explanation
Indices: 3682113--3682154 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3682103 CCCCCCTCCG
3682113 AAATCCCCAACTTTCCACCCTA
1 AAATCCCCAACTTTCCACCCTA
*
3682135 AAAT-CCCAACTTTCCCCCCT
1 AAATCCCCAACTTTCCACCCT
3682155 CCTAAACGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.29, C:0.48, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATCCCCAACTTTCCACCCTA
Found at i:3683796 original size:66 final size:66
Alignment explanation
Indices: 3683690--3683815 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
3683680 CATTTCAGAG
*
3683690 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTGCAAGA
3683755 T
66 T
3683756 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTG
3683816 TAATATAAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.17
Consensus pattern (66 bp):
AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:3684030 original size:57 final size:60
Alignment explanation
Indices: 3683937--3684084 Score: 214
Period size: 57 Copynumber: 2.5 Consensus size: 60
3683927 ACCCTAATTC
* * *
3683937 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
3683995 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
3684056 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
3684085 ACCGTCAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.56
60 1 0.01
61 1 0.01
62 21 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:3688402 original size:24 final size:23
Alignment explanation
Indices: 3688374--3688421 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
3688364 AATTTAAAAA
3688374 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
3688398 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
3688421 A
1 A
3688422 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:3688514 original size:43 final size:43
Alignment explanation
Indices: 3688449--3688696 Score: 336
Period size: 43 Copynumber: 5.8 Consensus size: 43
3688439 GTTATGTTTT
* * * ** *
3688449 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAATATCATGGTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
3688492 TAGCGGCATTTGTGATAAAAGCGCCGATAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
3688535 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
3688578 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAGGGTCATGGTTTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
3688621 TAGCGGCGTTTGTGGGAAAATCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
3688664 TAGCGGCGCTTGTG-GGAAAGCGCCGCTAAAGGT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT
3688697 ATTTGTTTCT
Statistics
Matches: 183, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
42 17 0.09
43 166 0.91
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:3689277 original size:6 final size:6
Alignment explanation
Indices: 3689252--3689314 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
3689242 CATTCTTCTC
* ** *
3689252 CCCTTT CCCCTT CTCC-TT CCCTTT CCCCTAC CCCTTT CCCTTA CCCTTT
1 CCCTTT CCCTTT C-CCTTT CCCTTT -CCCTTT CCCTTT CCCTTT CCCTTT
3689301 CCCTTT CCCGTTT C
1 CCCTTT CCC-TTT C
3689315 GAAGCCTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
5 2 0.04
6 34 0.74
7 10 0.22
ACGTcount: A:0.03, C:0.54, G:0.02, T:0.41
Consensus pattern (6 bp):
CCCTTT
Found at i:3689286 original size:13 final size:12
Alignment explanation
Indices: 3689270--3689303 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
3689260 CCTTCTCCTT
3689270 CCCTTTCCCCTA
1 CCCTTTCCCCTA
*
3689282 CCCCTTTCCCTTA
1 -CCCTTTCCCCTA
3689295 CCCTTTCCC
1 CCCTTTCCC
3689304 TTTCCCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.06, C:0.59, G:0.00, T:0.35
Consensus pattern (12 bp):
CCCTTTCCCCTA
Found at i:3691847 original size:20 final size:20
Alignment explanation
Indices: 3691822--3691861 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3691812 AATATTTTCT
*
3691822 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
3691842 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
3691862 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:3691864 original size:34 final size:35
Alignment explanation
Indices: 3691810--3691876 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3691800 CAAACACCAG
* *
3691810 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
3691845 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
3691877 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:3691868 original size:14 final size:14
Alignment explanation
Indices: 3691845--3691884 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3691835 ACAGAAAAGT
*
3691845 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
3691859 AAATCATTTTACGG
1 AAAACATTTTACAG
3691873 AAAACATTTTAC
1 AAAACATTTTAC
3691885 TAGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:3692967 original size:25 final size:24
Alignment explanation
Indices: 3692931--3693014 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
3692921 ACAGCTTTAT
*
3692931 GAGCTT-CTCGATTTGCAGCTCGTGA
1 GAGCTTAC-CGATTT-CAGCTTGTGA
3692956 GAGCTTACCGATTCTCAGCTTGT-A
1 GAGCTTACCGATT-TCAGCTTGTGA
*
3692980 TGAGCTTACCGATTCACAGCTTGTGA
1 -GAGCTTACCGATT-TCAGCTTGTGA
*
3693006 GAGCATACC
1 GAGCTTACC
3693015 AATTCATAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
24 1 0.02
25 48 0.92
26 3 0.06
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTTGTGA
Found at i:3693000 original size:50 final size:49
Alignment explanation
Indices: 3692922--3693019 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
3692912 GGACACACCA
** * *
3692922 CAGCTTTATGAGCTTCTCGATTTGCAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTTTATGAGCTTCTCGATTCACAGCTCGTGAGAGCATACCAATTCT
*
3692971 CAGCTTGTATGAGCTTAC-CGATTCACAGCTTGTGAGAGCATACCAATTC
1 CAGCTT-TATGAGCTT-CTCGATTCACAGCTCGTGAGAGCATACCAATTC
3693020 ATAGCTCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 6 0.14
50 35 0.83
51 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (49 bp):
CAGCTTTATGAGCTTCTCGATTCACAGCTCGTGAGAGCATACCAATTCT
Found at i:3693019 original size:25 final size:25
Alignment explanation
Indices: 3692946--3693025 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
3692936 TCTCGATTTG
* *
3692946 CAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTTGTGAGAGCTTACCGATTCA
3692971 CAGCTTGT-ATGAGCTTACCGATTCA
1 CAGCTTGTGA-GAGCTTACCGATTCA
* *
3692996 CAGCTTGTGAGAGCATACCAATTCA
1 CAGCTTGTGAGAGCTTACCGATTCA
*
3693021 TAGCT
1 CAGCT
3693026 CGTATAAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTTGTGAGAGCTTACCGATTCA
Found at i:3706680 original size:31 final size:30
Alignment explanation
Indices: 3706645--3706739 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 30
3706635 AATTTATCAT
3706645 ATTAATAAAATCATATTTAGATAAATATTAA
1 ATTAATAAAAT-ATATTTAGATAAATATTAA
* * * *
3706676 ATTAAATTAAATAT-CTTATATTAATATTAA
1 ATT-AATAAAATATATTTAGATAAATATTAA
* *
3706706 ATTAATAAAATACTATCTGGATAAATATTAA
1 ATTAATAAAATA-TATTTAGATAAATATTAA
3706737 ATT
1 ATT
3706740 CATTAAAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 8 0.16
30 17 0.33
31 19 0.37
32 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTAATAAAATATATTTAGATAAATATTAA
Found at i:3708863 original size:39 final size:39
Alignment explanation
Indices: 3708820--3708896 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
3708810 CTGTTCTCAC
3708820 CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAAT
1 CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAAT
*
3708859 CAGATTCGGCAGCAACAGGACTTGAGCCTCTAAATGAA
1 CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAA
3708897 CACTTGGCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.19
Consensus pattern (39 bp):
CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAAT
Found at i:3710747 original size:34 final size:35
Alignment explanation
Indices: 3710671--3710751 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 35
3710661 ATAAAAATTG
3710671 AATTAATTATAAATAAATAAATTTAAAATATTTATC
1 AATTAA-TATAAATAAATAAATTTAAAATATTTATC
*
3710707 ATTTAATAT-AATAAAT-AATTTAAAATGATTATAT-
1 AATTAATATAAATAAATAAATTTAAAAT-ATT-TATC
3710741 AATTAAT-TAAA
1 AATTAATATAAA
3710752 ATATTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 11 0.28
34 18 0.45
35 6 0.15
36 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (35 bp):
AATTAATATAAATAAATAAATTTAAAATATTTATC
Found at i:3710752 original size:21 final size:20
Alignment explanation
Indices: 3710717--3710762 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3710707 ATTTAATATA
3710717 ATAAATAATTTAAAATGATTAT
1 ATAAATAATTTAAAAT-ATT-T
*
3710739 ATAATTAA-TTAAAATATTT
1 ATAAATAATTTAAAATATTT
3710758 ATAAA
1 ATAAA
3710763 AATGTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 7 0.32
22 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAAATAATTTAAAATATTT
Found at i:3714016 original size:22 final size:21
Alignment explanation
Indices: 3713981--3714114 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
3713971 AAATGGTATC
* *
3713981 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
3714002 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
3714025 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
3714044 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
3714063 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
3714082 TATATAT--TATTTCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
3714101 TGCATATCATATCT
1 TACAAATCATATCT
3714115 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:3714024 original size:23 final size:22
Alignment explanation
Indices: 3713981--3714038 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
3713971 AAATGGTATC
* *
3713981 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
3714002 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
3714025 TGCATATCATATCT
1 TACAAATCATATCT
3714039 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:3714041 original size:19 final size:19
Alignment explanation
Indices: 3714017--3714127 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
3714007 AATCATATCT
3714017 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
3714036 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
3714055 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** * *
3714074 TCTAAGATTATATATTATT
1 TCTAAGATTGCATATCATA
3714093 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
3714112 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
3714128 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:3714064 original size:38 final size:38
Alignment explanation
Indices: 3714017--3714120 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
3714007 AATCATATCT
3714017 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
3714055 TCTAAGATTGCATATCATATCTAAGATTATATATTATT
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
3714093 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
3714121 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:3717530 original size:39 final size:39
Alignment explanation
Indices: 3717487--3717563 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
3717477 CTGTTCTCAC
*
3717487 CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAAT
1 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAAT
3717526 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAA
1 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAA
3717564 CACTTGGCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (39 bp):
CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAAT
Found at i:3719385 original size:21 final size:21
Alignment explanation
Indices: 3719360--3719408 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3719350 TAGCGGTGGA
*
3719360 GGTGAGAATAGTTACTGTAGC
1 GGTGAGAATAGATACTGTAGC
* *
3719381 GGTGAGATTGGATACTGTAGC
1 GGTGAGAATAGATACTGTAGC
3719402 GGTGAGA
1 GGTGAGA
3719409 TTAAAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.39, T:0.27
Consensus pattern (21 bp):
GGTGAGAATAGATACTGTAGC
Found at i:3726563 original size:34 final size:32
Alignment explanation
Indices: 3726489--3726563 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 32
3726479 AAAAATTGAA
*
3726489 ATAATT-ATAAATAAATAAATTTAAAATATTT
1 ATAATTAATAAATAAATAAATTTAAAAGATTT
*
3726520 ATCATTTAATATAATAAAT-AATTTAAAACGATTTT
1 AT-AATTAATA-AATAAATAAATTTAAAA-GA-TTT
3726555 ATAATTAAT
1 ATAATTAAT
3726564 TAAAATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.06
32 3 0.08
33 12 0.33
34 14 0.39
35 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (32 bp):
ATAATTAATAAATAAATAAATTTAAAAGATTT
Found at i:3733983 original size:5 final size:5
Alignment explanation
Indices: 3733973--3734021 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
3733963 TTATTTTGGT
* *
3733973 ATCAG ATCAG ATCAA ATCAG ATCAG ATGAG ATCAG ATCAG ATCAG ATCA
1 ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCA
3734022 TTATCTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (5 bp):
ATCAG
Found at i:3739573 original size:15 final size:15
Alignment explanation
Indices: 3739550--3739580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3739540 AAATTAGGAT
3739550 AACAACAAGACATAA
1 AACAACAAGACATAA
*
3739565 AACATCAAGACATAA
1 AACAACAAGACATAA
3739580 A
1 A
3739581 GAAACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (15 bp):
AACAACAAGACATAA
Found at i:3740511 original size:2 final size:2
Alignment explanation
Indices: 3740504--3740528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3740494 TCTTGTCAAC
3740504 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
3740529 ATTATGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3741685 original size:28 final size:29
Alignment explanation
Indices: 3741656--3741769 Score: 81
Period size: 29 Copynumber: 3.8 Consensus size: 29
3741646 TATTTAAGTT
3741656 AAATTATAATTAAAAATATTTTTATATTA
1 AAATTATAATTAAAAATATTTTTATATTA
* * *
3741685 AAATTTTATTATTAAAAAAATTATATCATATT-
1 AAA--TTATAATTAAAAATATT-T-TTATATTA
* * * *
3741717 AAATAACAA-TAAAAATCGTTATTATATTA
1 AAATTATAATTAAAAAT-ATTTTTATATTA
*
3741746 AAATTATAA-TAAAATTAATTTTTA
1 AAATTATAATTAAAAAT-ATTTTTA
3741770 AAAAAAATTA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
28 6 0.10
29 27 0.43
30 5 0.08
31 15 0.24
32 4 0.06
33 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (29 bp):
AAATTATAATTAAAAATATTTTTATATTA
Found at i:3742068 original size:26 final size:26
Alignment explanation
Indices: 3742038--3742091 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
3742028 ATTCTTTTAA
3742038 AAATATGATGTGACATATTTTTATTG
1 AAATATGATGTGACATATTTTTATTG
3742064 AAATATGATGTGACATATTTTTATTG
1 AAATATGATGTGACATATTTTTATTG
3742090 AA
1 AA
3742092 TACATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (26 bp):
AAATATGATGTGACATATTTTTATTG
Found at i:3743990 original size:23 final size:23
Alignment explanation
Indices: 3743964--3744015 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
3743954 TTTTATACTT
3743964 TTTCAAATATATATCATATCAAA
1 TTTCAAATATATATCATATCAAA
3743987 TTTCAAATATATATCATATCAAA
1 TTTCAAATATATATCATATCAAA
*
3744010 TCTCAA
1 TTTCAA
3744016 CTAGTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTCAAATATATATCATATCAAA
Found at i:3745551 original size:27 final size:26
Alignment explanation
Indices: 3745491--3745551 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
3745481 AGAAAAAAGG
* *
3745491 TTATAAAATATATACATGTACATATA
1 TTATAAAATATATACATATACATAGA
* * *
3745517 TAAAAAAATTATATACATATATATAGA
1 TTATAAAA-TATATACATATACATAGA
3745544 TTATAAAA
1 TTATAAAA
3745552 AAGATAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATAAAATATATACATATACATAGA
Found at i:3745551 original size:30 final size:30
Alignment explanation
Indices: 3745515--3745571 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3745505 CATGTACATA
*
3745515 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
3745545 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
3745572 TAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:3745755 original size:17 final size:17
Alignment explanation
Indices: 3745733--3745776 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
3745723 TAGGAAATAA
3745733 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
3745750 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
3745767 -ATATGTATAT
1 AAAATGTATAT
3745777 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:3745910 original size:3 final size:3
Alignment explanation
Indices: 3745902--3745926 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3745892 ATATATAGTT
3745902 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
3745927 CTTAATAACA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3745969 original size:7 final size:7
Alignment explanation
Indices: 3745950--3745979 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
3745940 AAATCAAATT
3745950 TAATAAA
1 TAATAAA
3745957 -AATAAA
1 TAATAAA
3745963 TAATAAA
1 TAATAAA
3745970 TAATAAA
1 TAATAAA
3745977 TAA
1 TAA
3745980 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:3746282 original size:24 final size:25
Alignment explanation
Indices: 3746251--3746298 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
3746241 AAATTAAATC
3746251 TCTAAGATTACA-AAATCATATCTT
1 TCTAAGATTACATAAATCATATCTT
* *
3746275 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
3746299 AAGATCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (25 bp):
TCTAAGATTACATAAATCATATCTT
Found at i:3746323 original size:14 final size:12
Alignment explanation
Indices: 3746290--3746315 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3746280 GATTGCATAT
3746290 ATCATATCTAAG
1 ATCATATCTAAG
3746302 ATCATATCTAAG
1 ATCATATCTAAG
3746314 AT
1 AT
3746316 TACATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:3746912 original size:37 final size:37
Alignment explanation
Indices: 3746860--3746932 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
3746850 TTGCTTTCTC
* * * *
3746860 AGTCTGCTTCTCTGCAACTTCAGGGAGATAAGACTAG
1 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTAG
3746897 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTA
1 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTA
3746933 TATACGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (37 bp):
AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTAG
Found at i:3746999 original size:44 final size:42
Alignment explanation
Indices: 3746948--3747060 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
3746938 GATCTGTTTT
* * *
3746948 CTGCAACTTCAGAGAGATAAAATTTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTG-G-CTTTAATCCGCTCCA
* *
3746992 CTGCAACTTCAGGGAGATAAGATATAGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TTGGCTTTAATCCGCTCCA
*
3747035 CTACAACTTCAGGGAGATAAGATTTG
1 CTGCAACTTCAGGGAGATAAGATTTG
3747061 CCATCTACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.57
44 22 0.36
45 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
CTGCAACTTCAGGGAGATAAGATTTGGCTTTAATCCGCTCCA
Found at i:3747456 original size:35 final size:35
Alignment explanation
Indices: 3747410--3747476 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
3747400 TGCTATTTTT
*
3747410 AACCTACTCCACTATTG-CTCAGGGAGATAGGATTC
1 AACCTACTCCACTACTGAC-CAGGGAGATAGGATTC
* *
3747445 AACCTATTCCACTGCTGACCAGGGAGATAGGA
1 AACCTACTCCACTACTGACCAGGGAGATAGGA
3747477 CCTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (35 bp):
AACCTACTCCACTACTGACCAGGGAGATAGGATTC
Found at i:3747496 original size:44 final size:43
Alignment explanation
Indices: 3747442--3747607 Score: 217
Period size: 44 Copynumber: 3.8 Consensus size: 43
3747432 GGAGATAGGA
3747442 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATC
* * * *
3747486 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCT-CAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA--CTACAATC
* *
3747530 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATC
* *
3747574 TTTAACCTATTCCACTGCTGACCAGGGGGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
3747608 GTTGGGGTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
44 103 0.97
45 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTACAATC
Found at i:3747591 original size:88 final size:88
Alignment explanation
Indices: 3747442--3747606 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
3747432 GGAGATAGGA
* *
3747442 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAACCTATTCCACTGCTGA
3747507 CCAGGGAGATAGAATTCTCAATT
66 CCAGGGAGATAGAATTCTCAATT
* * *
3747530 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACCATCTTTAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCT-ACAATCTTCAACCTATTCCACTGCTG
*
3747594 ACCAGGGGGATAG
65 ACCAGGGAGATAG
3747607 GGTTGGGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 69 0.99
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (88 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGAATTCTCAATT
Found at i:3747669 original size:88 final size:88
Alignment explanation
Indices: 3747618--3748271 Score: 1004
Period size: 88 Copynumber: 7.4 Consensus size: 88
3747608 GTTGGGGTCA
* *
3747618 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
3747683 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
3747706 TCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAATATCTGCTATTTTTAACCTACTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
3747771 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
3747794 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTA-TTTTAACCTGCTTCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
3747858 CCAGGGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
3747881 TCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
3747946 CCAAGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
3747969 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
3748034 CTAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
3748057 TCAATCTGTTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTTTTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
3748122 CTAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
3748145 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * *
3748210 CCAGAGAAGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
3748233 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
3748272 TTATCTTCAC
Statistics
Matches: 508, Mismatches: 57, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 79 0.16
88 429 0.84
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:3747892 original size:43 final size:43
Alignment explanation
Indices: 3747764--3747892 Score: 107
Period size: 43 Copynumber: 3.0 Consensus size: 43
3747754 ACCTACTCCG
* *
3747764 CTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 CTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGATCTGCTTCA
**** * * * * ** *
3747807 CTGTCGGTGCAGGAAGGAAAGATCTGCTAT-TTTAACCTGCTTCA
1 CTG-CAACCCAGGGAGGAAAG-GCTGGTGTCTTCGATCTGCTTCA
*
3747851 CTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTC
1 CTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGATCTGCTTC
3747893 GCTATCAGTG
Statistics
Matches: 58, Mismatches: 25, Indels: 6
0.65 0.28 0.07
Matches are distributed among these distances:
42 5 0.09
43 24 0.41
44 24 0.41
45 5 0.09
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.26
Consensus pattern (43 bp):
CTGCAACCCAGGGAGGAAAGGCTGGTGTCTTCGATCTGCTTCA
Found at i:3748025 original size:351 final size:352
Alignment explanation
Indices: 3747618--3748268 Score: 1052
Period size: 351 Copynumber: 1.9 Consensus size: 352
3747608 GTTGGGGTCA
* *
3747618 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTACAAC
* * * *
3747683 CCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGTAGGAAGGCAATATCTGCTA
66 CCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTA
*
3747748 TTTTTAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCG
131 TTTTTAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
* * * * * * *
3747813 GTGCAGGAAGGAAAGATCTGCTA-TTTTAACCTGCTTCACTGCAACCCAGGGAGGTAAGGCTGGT
196 ATGCAGGAAGGAAAGATCTGCTATTTTTAACCTACTCCACTACAACCCAGAGAAGCAAGGCTGGT
3747877 GTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTA
261 GTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTA
3747942 CAACCCAAGGAGGCAAGGCTGGTGTCT
326 CAACCCAAGGAGGCAAGGCTGGTGTCT
** *
3747969 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTACAAC
* * *
3748034 CTAGGGAGGCAAGGCTGGTGTCTTCAATCTGTTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTT
66 CCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTA
* *
3748099 TTTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
131 TTTTTAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
* * *
3748164 ATGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGAGAAGCAAGGTTGGT
196 ATGCAGGAAGGAAAGATCTGCTATTTTTAACCTACTCCACTACAACCCAGAGAAGCAAGGCTGGT
* *
3748229 GTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAT
261 GTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGAT
3748269 CTGTTATCTT
Statistics
Matches: 272, Mismatches: 27, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
351 201 0.74
352 71 0.26
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (352 bp):
TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTA
TTTTTAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG
ATGCAGGAAGGAAAGATCTGCTATTTTTAACCTACTCCACTACAACCCAGAGAAGCAAGGCTGGT
GTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTA
CAACCCAAGGAGGCAAGGCTGGTGTCT
Found at i:3750465 original size:25 final size:26
Alignment explanation
Indices: 3750414--3750467 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
3750404 AAGAAAATCC
* **
3750414 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
3750440 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
3750465 AAA
1 AAA
3750468 TTGAATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:3754371 original size:28 final size:29
Alignment explanation
Indices: 3754340--3754395 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
3754330 AGGGTACAAC
* *
3754340 ATATATACATGTACATA-TATATAAAAAT
1 ATATATACATATACATAGAATATAAAAAT
*
3754368 ATATATACATATATATAGAATATAAAAA
1 ATATATACATATACATAGAATATAAAAA
3754396 AGATAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (29 bp):
ATATATACATATACATAGAATATAAAAAT
Found at i:3754396 original size:30 final size:31
Alignment explanation
Indices: 3754356--3754440 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
3754346 ACATGTACAT
*
3754356 ATATATAAAAATAT-ATATACATATATATAGA
1 ATATATAAAAAGATAAT-TACATATATATAGA
*
3754387 ATATA-AAAAAGATAATTACATATATATA-T
1 ATATATAAAAAGATAATTACATATATATAGA
* * *
3754416 ATAAACAAATA-ATAATTACATATAT
1 ATATATAAAAAGATAATTACATATAT
3754441 TAAAATTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.38
30 23 0.48
31 7 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (31 bp):
ATATATAAAAAGATAATTACATATATATAGA
Found at i:3754438 original size:29 final size:27
Alignment explanation
Indices: 3754354--3754440 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 27
3754344 ATACATGTAC
3754354 ATATATAT-AAAAATAT-ATATACATAT
1 ATATATATAAAAAATATAAT-TACATAT
*
3754380 ATATAGAATATAAAAAAGATAATTACATAT
1 ATAT---ATATAAAAAATATAATTACATAT
3754410 ATATATATAAACAAATAATAATTACATAT
1 ATATATATAAA-AAAT-ATAATTACATAT
3754439 AT
1 AT
3754441 TAAAATTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.08
27 7 0.13
28 3 0.06
29 18 0.35
30 18 0.35
31 2 0.04
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
ATATATATAAAAAATATAATTACATAT
Found at i:3754597 original size:19 final size:18
Alignment explanation
Indices: 3754573--3754611 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3754563 AAGTTAGGAA
*
3754573 ATAAAATATGTATATGTAT
1 ATAAAA-ATGTAAATGTAT
3754592 AT-AAAATGTAAATGTAT
1 ATAAAAATGTAAATGTAT
3754609 ATA
1 ATA
3754612 TATGTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 13 0.72
18 3 0.17
19 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
ATAAAAATGTAAATGTAT
Found at i:3754625 original size:60 final size:62
Alignment explanation
Indices: 3754546--3754662 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 62
3754536 TATAAAAGCA
* * * *
3754546 TATATATATGCATATAAAAGTTA-GGAAATAAAAT-ATGTATATGTATATAAAATGTAAATG
1 TATATATATGCATAAAAAAGTTATGCAAATAAAATAATATATATATATATAAAATGTAAATG
* * *
3754606 TATATATATGTATAAAAAAGTTATGCAAATAGAATAATATATATATATATAATATGT
1 TATATATATGCATAAAAAAGTTATGCAAATAAAATAATATATATATATATAAAATGT
3754663 GCATGTGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 21 0.44
61 9 0.19
62 18 0.38
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (62 bp):
TATATATATGCATAAAAAAGTTATGCAAATAAAATAATATATATATATATAAAATGTAAATG
Found at i:3754748 original size:3 final size:3
Alignment explanation
Indices: 3754740--3754778 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
3754730 GTATATATAG
* *
3754740 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3754779 CTTAATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3761296 original size:19 final size:19
Alignment explanation
Indices: 3761269--3761306 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3761259 AAATATATAT
*
3761269 TTTTTATTTTTAATTTTAA
1 TTTTAATTTTTAATTTTAA
3761288 TTTTAATTTTTAATTTTAA
1 TTTTAATTTTTAATTTTAA
3761307 AATACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTTTTAATTTTAA
Found at i:3761298 original size:7 final size:7
Alignment explanation
Indices: 3761267--3761304 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
3761257 ATAAATATAT
*
3761267 ATTTTTT
1 ATTTTTA
3761274 ATTTTTA
1 ATTTTTA
3761281 A-TTTTA
1 ATTTTTA
3761287 A-TTTTA
1 ATTTTTA
3761293 ATTTTTA
1 ATTTTTA
3761300 ATTTT
1 ATTTT
3761305 AAAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:3761305 original size:13 final size:13
Alignment explanation
Indices: 3761269--3761306 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3761259 AAATATATAT
*
3761269 TTTTTATTTTTAA
1 TTTTTAATTTTAA
3761282 -TTTTAATTTTAA
1 TTTTTAATTTTAA
3761294 TTTTTAATTTTAA
1 TTTTTAATTTTAA
3761307 AATACTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:3761306 original size:6 final size:6
Alignment explanation
Indices: 3761270--3761306 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
3761260 AATATATATT
*
3761270 TTTTAT TTTTAA TTTTAA TTTTAA TTTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA
3761307 AATACTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Done.