Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 55 of 93
Found at i:6966538 original size:3 final size:3
Alignment explanation
Indices: 6966530--6966555 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6966520 AGTTATATAT
6966530 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6966556 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6967215 original size:20 final size:20
Alignment explanation
Indices: 6967172--6967216 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6967162 CCGGCCAACT
*
6967172 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
6967192 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
6967212 TCCGG
1 TCCGG
6967217 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:6967477 original size:14 final size:15
Alignment explanation
Indices: 6967458--6967499 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
6967448 CCGAGCCGAG
6967458 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
6967472 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
6967485 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
6967499 C
1 C
6967500 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:6967490 original size:13 final size:14
Alignment explanation
Indices: 6967458--6967494 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6967448 CCGAGCCGAG
6967458 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
6967472 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
6967484 TCCGAGCCGTT
1 -CCGAGCCGTT
6967495 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:6967569 original size:12 final size:12
Alignment explanation
Indices: 6967554--6967586 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6967544 GGTTTTTTTT
6967554 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6967566 TTTTTTTTTGAA
1 TTTTTTTTTGAA
6967578 TTTTTTTTT
1 TTTTTTTTT
6967587 ATTTGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:6967602 original size:28 final size:28
Alignment explanation
Indices: 6967550--6967604 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6967540 TCCAGGTTTT
* **
6967550 TTTTTTTTTTTTTGAATTTTTTTTTGAA
1 TTTTTTTTTATTTGAATTTGATTTTGAA
*
6967578 TTTTTTTTTATTTGACTTTGATTTTGA
1 TTTTTTTTTATTTGAATTTGATTTTGA
6967605 TCTTGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (28 bp):
TTTTTTTTTATTTGAATTTGATTTTGAA
Found at i:6967897 original size:152 final size:152
Alignment explanation
Indices: 6967616--6967913 Score: 551
Period size: 152 Copynumber: 2.0 Consensus size: 152
6967606 CTTGATTTTT
*
6967616 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
6967681 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
6967746 TTTCCAATAATTAATTGGATGA
131 TTTCCAACAACTAATTGGATGA
*
6967768 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
6967833 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
6967898 TTTCCAACAACTAATT
131 TTTCCAACAACTAATT
6967914 ACTTGGTAAA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 141 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (152 bp):
TTTTCTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAACAACTAATTGGATGA
Found at i:6968297 original size:15 final size:16
Alignment explanation
Indices: 6968266--6968302 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
6968256 AAAAAAAGTC
6968266 AATTCAAATTGTTTTAT
1 AATT-AAATTGTTTTAT
6968283 AATTAAATT-TTTTAT
1 AATTAAATTGTTTTAT
6968298 AATTA
1 AATTA
6968303 TACTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 5 0.25
17 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
AATTAAATTGTTTTAT
Found at i:6968309 original size:15 final size:15
Alignment explanation
Indices: 6968277--6968311 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6968267 ATTCAAATTG
*
6968277 TTTTATAATTAAATT
1 TTTTATAATTAAACT
*
6968292 TTTTATAATTATACT
1 TTTTATAATTAAACT
6968307 TTTTA
1 TTTTA
6968312 AGATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTATAATTAAACT
Found at i:6968428 original size:24 final size:26
Alignment explanation
Indices: 6968401--6968462 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
6968391 AAAATAAATG
*
6968401 AATAAATAAAAAAT-AATATCAT-AT
1 AATAAATAAAAAATAAATATCATGAA
* *
6968425 AATAAATAATAAATGAAATATGATGAA
1 AATAAATAAAAAAT-AAATATCATGAA
6968452 AATAAATAAAA
1 AATAAATAAAA
6968463 TCAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 13 0.42
26 7 0.23
27 11 0.35
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (26 bp):
AATAAATAAAAAATAAATATCATGAA
Found at i:6968485 original size:6 final size:6
Alignment explanation
Indices: 6968476--6968508 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6968466 AATAAAATCA
6968476 AAAAAG AAAAA- AAAAAG AAAAAG AAAAA- AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
6968509 CTCACCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6968489 original size:17 final size:17
Alignment explanation
Indices: 6968476--6968508 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6968466 AATAAAATCA
6968476 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
6968493 AAAAAGAAAAAAAAAA
1 AAAAAGAAAAAAAAAA
6968509 CTCACCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:6968491 original size:11 final size:11
Alignment explanation
Indices: 6968475--6968508 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6968465 AAATAAAATC
6968475 AAAAAAGAAAA
1 AAAAAAGAAAA
6968486 AAAAAAGAAAA
1 AAAAAAGAAAA
6968497 AGAAAAA-AAAA
1 A-AAAAAGAAAA
6968508 A
1 A
6968509 CTCACCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:6969131 original size:9 final size:9
Alignment explanation
Indices: 6969117--6969142 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6969107 TTGTTTGTGG
6969117 TTTTTTTTA
1 TTTTTTTTA
6969126 TTTTTTTTA
1 TTTTTTTTA
6969135 TTTTTTTT
1 TTTTTTTT
6969143 TATAGTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6969132 original size:10 final size:10
Alignment explanation
Indices: 6969117--6969145 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
6969107 TTGTTTGTGG
6969117 TTTTTTTTA-
1 TTTTTTTTAT
6969126 TTTTTTTTAT
1 TTTTTTTTAT
6969136 TTTTTTTTAT
1 TTTTTTTTAT
6969146 AGTGTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:6969995 original size:23 final size:23
Alignment explanation
Indices: 6969969--6970012 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6969959 CTTCAAACTA
* *
6969969 TAAAAATTAAAAAATGGAAAATG
1 TAAAAAGTAAAAAATGAAAAATG
6969992 TAAAAAGTAAAAAATGAAAAA
1 TAAAAAGTAAAAAATGAAAAA
6970013 AAATGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.18
Consensus pattern (23 bp):
TAAAAAGTAAAAAATGAAAAATG
Found at i:6970039 original size:18 final size:18
Alignment explanation
Indices: 6970018--6970058 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6970008 AAAAAAAATG
*
6970018 AAAAATTTTAAA-TTTTA
1 AAAAATTTGAAACTTTTA
*
6970035 AAAAATTTGAAACTTTTT
1 AAAAATTTGAAACTTTTA
6970053 AAAAAT
1 AAAAAT
6970059 CCATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAAATTTGAAACTTTTA
Found at i:6970090 original size:17 final size:18
Alignment explanation
Indices: 6970063--6970096 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6970053 AAAAATCCAT
*
6970063 AAAAATATAAAATATGAA
1 AAAAATATAAAAAATGAA
6970081 AAAAAT-TAAAAAATGA
1 AAAAATATAAAAAATGA
6970097 GATATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAAATATAAAAAATGAA
Found at i:6970515 original size:17 final size:17
Alignment explanation
Indices: 6970495--6970542 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
6970485 ATCTTTAAAA
*
6970495 TTTTTAAAATTTTA-TT
1 TTTTTAAAATTTTAGAT
6970511 TTTTTAGAAAATTTTAGAT
1 TTTTT--AAAATTTTAGAT
6970530 TTTTTAAAATTTT
1 TTTTTAAAATTTT
6970543 TAGGAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.18
17 8 0.29
18 9 0.32
19 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTAAAATTTTAGAT
Found at i:6970862 original size:18 final size:18
Alignment explanation
Indices: 6970841--6970884 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6970831 GAATATTTTT
6970841 AATTTTTTGGAT-TTTGAA
1 AATTTTTTGGATCTTT-AA
* *
6970859 AATTTTTAGGATCTTTTA
1 AATTTTTTGGATCTTTAA
6970877 AATTTTTT
1 AATTTTTT
6970885 AAAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (18 bp):
AATTTTTTGGATCTTTAA
Found at i:6970875 original size:27 final size:27
Alignment explanation
Indices: 6970824--6970875 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
6970814 ACTTTTAAAA
*
6970824 ATTTTGAGAATATTTTTAATTTTTTGG
1 ATTTTGAGAATATTTTTAATCTTTTGG
6970851 ATTTTGA-AA-ATTTTTAGGATCTTTT
1 ATTTTGAGAATATTTTTA--ATCTTTT
6970876 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (27 bp):
ATTTTGAGAATATTTTTAATCTTTTGG
Found at i:6970895 original size:56 final size:55
Alignment explanation
Indices: 6970796--6970904 Score: 130
Period size: 56 Copynumber: 2.0 Consensus size: 55
6970786 ATTTTGGAAA
* * * * *
6970796 ATTTTAAAAGTTTTTTGGACTTTTAAAAATTTTGAGAATATTTTTAATTTTTTGG
1 ATTTTAAAAGTTTTTAGGACTTTTAAAAATTTTAAAAAAATTTTGAATTTTTTGG
**
6970851 ATTTTGAAAA-TTTTTAGGATCTTTTAAATTTTTTAAAAAAATTTTGAATTTTTT
1 ATTTT-AAAAGTTTTTAGGA-CTTTTAAAAATTTTAAAAAAATTTTGAATTTTTT
6970905 TATTTTTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
55 13 0.29
56 32 0.71
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (55 bp):
ATTTTAAAAGTTTTTAGGACTTTTAAAAATTTTAAAAAAATTTTGAATTTTTTGG
Found at i:6970940 original size:19 final size:19
Alignment explanation
Indices: 6970897--6970940 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
6970887 AAAAATTTTG
**
6970897 AATTTTTTTATTTTTTTCA
1 AATTTTTTTATTTTTTAAA
6970916 AATTTTTTTA-TTTTTAAA
1 AATTTTTTTATTTTTTAAA
*
6970934 AACTTTT
1 AATTTTT
6970941 AAAATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTTATTTTTTAAA
Found at i:6970959 original size:10 final size:10
Alignment explanation
Indices: 6970926--6971007 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
6970916 AATTTTTTTA
*
6970926 TTTTTAAAAA
1 TTTTTAAAAT
*
6970936 CTTTTAAAAT
1 TTTTTAAAAT
6970946 TTTTCTAAAA-
1 TTTT-TAAAAT
6970956 TTTTT-AAAT
1 TTTTTAAAAT
* **
6970965 TTATT--GGT
1 TTTTTAAAAT
6970973 TTTTCTAAAAT
1 TTTT-TAAAAT
*
6970984 TTTTTAAGAT
1 TTTTTAAAAT
6970994 TTTTTAAAAAT
1 TTTTT-AAAAT
6971005 TTT
1 TTT
6971008 CTTTGAATAC
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
8 7 0.13
9 6 0.11
10 25 0.45
11 17 0.31
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:6971447 original size:3 final size:3
Alignment explanation
Indices: 6971439--6971470 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6971429 ATTATATCAA
6971439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6971471 ATGGTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6972402 original size:16 final size:17
Alignment explanation
Indices: 6972381--6972412 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6972371 AATCCATTGT
6972381 TTTTATTTTT-TTTTAC
1 TTTTATTTTTATTTTAC
6972397 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
6972413 TCATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTTAC
Found at i:6972412 original size:11 final size:11
Alignment explanation
Indices: 6972380--6972413 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6972370 GAATCCATTG
6972380 TTTTTATTTT-
1 TTTTTATTTTA
6972390 TTTTTACTTTTA
1 TTTTTA-TTTTA
6972402 TTTTTATTTTA
1 TTTTTATTTTA
6972413 T
1 T
6972414 CATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 10 0.45
12 6 0.27
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:6972733 original size:23 final size:23
Alignment explanation
Indices: 6972707--6972774 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
6972697 AATATAAGAC
*
6972707 TTAAGCCTAGATTAGTTGGTACT
1 TTAAGCCTAGATTAGTTGGCACT
* *
6972730 TTAAGCTTGGATTAGTTGGCACT
1 TTAAGCCTAGATTAGTTGGCACT
* *
6972753 TTAAGCCCAGATTAGCTGGCAC
1 TTAAGCCTAGATTAGTTGGCAC
6972775 CTAAGTCCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (23 bp):
TTAAGCCTAGATTAGTTGGCACT
Found at i:6972823 original size:22 final size:22
Alignment explanation
Indices: 6972755--6972830 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
6972745 TTGGCACTTT
6972755 AAGCCCAGATTAGCTGGCA-CC
1 AAGCCCAGATTAGCTGGCATCC
* * * **
6972776 TAAGTCCATATCAATTGGCATCC
1 -AAGCCCAGATTAGCTGGCATCC
*
6972799 AAGCCCAGATTAGCTGGTATCC
1 AAGCCCAGATTAGCTGGCATCC
*
6972821 AAGCCTAGAT
1 AAGCCCAGAT
6972831 CAACTGACAC
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (22 bp):
AAGCCCAGATTAGCTGGCATCC
Found at i:6972926 original size:23 final size:23
Alignment explanation
Indices: 6972896--6972962 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
6972886 CTAAATCAAA
*
6972896 TTAAGCCCAAATTAGTTGGTACT
1 TTAAGCCCAAATTAGTTGGCACT
*
6972919 TTAAGCCCAAATTAATTGGCACT
1 TTAAGCCCAAATTAGTTGGCACT
* *
6972942 TTAAACTCAAATTAGTTGGCA
1 TTAAGCCCAAATTAGTTGGCA
6972963 ACGACAGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (23 bp):
TTAAGCCCAAATTAGTTGGCACT
Found at i:6973853 original size:4 final size:4
Alignment explanation
Indices: 6973844--6973873 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
6973834 TATATAATAA
6973844 TAAT TAAT TAA- TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
6973874 ACCAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:6973857 original size:11 final size:11
Alignment explanation
Indices: 6973841--6973873 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
6973831 ATTTATATAA
6973841 TAATAATTAAT
1 TAATAATTAAT
6973852 TAATAATTAAT
1 TAATAATTAAT
6973863 TAATTAATTAA
1 TAA-TAATTAA
6973874 ACCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAATTAAT
Found at i:6973864 original size:15 final size:14
Alignment explanation
Indices: 6973838--6973870 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
6973828 ATCATTTATA
6973838 TAATAATAATTAAT
1 TAATAATAATTAAT
6973852 TAATAATTAATTAAT
1 TAATAA-TAATTAAT
6973867 TAAT
1 TAAT
6973871 TAAACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATAATAATTAAT
Found at i:6973899 original size:18 final size:18
Alignment explanation
Indices: 6973876--6973911 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6973866 TTAATTAAAC
6973876 CAAAAAAAATAAAAAAGG
1 CAAAAAAAATAAAAAAGG
*
6973894 CAAAAAAAATGAAAAAGG
1 CAAAAAAAATAAAAAAGG
6973912 TAGAGGGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.06
Consensus pattern (18 bp):
CAAAAAAAATAAAAAAGG
Found at i:6974899 original size:9 final size:9
Alignment explanation
Indices: 6974885--6974923 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
6974875 TTGCTTTTTT
*
6974885 ATAATAACA
1 ATAATAAAA
6974894 ATAATAAAA
1 ATAATAAAA
6974903 ATAATAATAA
1 ATAATAA-AA
6974913 ATAATATAAA
1 ATAATA-AAA
6974923 A
1 A
6974924 ACAAAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 15 0.56
10 11 0.41
11 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
ATAATAAAA
Found at i:6975011 original size:3 final size:3
Alignment explanation
Indices: 6974978--6975030 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
6974968 ACTTTATAAG
6974978 ATA AT- ATA ATA A-A A-A ATA ACTA A-A GATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA ATA
6975021 ATA ATA ATA A
1 ATA ATA ATA A
6975031 AATGAAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 7 0.16
3 34 0.76
4 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6976857 original size:6 final size:6
Alignment explanation
Indices: 6976843--6976877 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
6976833 TATTTATTTT
6976843 TATACAA TATAAA TATAAA TATAAA TATAAA -ATAA
1 TATA-AA TATAAA TATAAA TATAAA TATAAA TATAA
6976878 TTATTTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 4 0.14
6 20 0.71
7 4 0.14
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
TATAAA
Found at i:6978383 original size:25 final size:25
Alignment explanation
Indices: 6978349--6978397 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6978339 ATGTAATATG
* *
6978349 TTGATAATTACTGATGAAAAATCCA
1 TTGATAATTACCGAAGAAAAATCCA
6978374 TTGATAATTACCGAAGAAAAATCC
1 TTGATAATTACCGAAGAAAAATCC
6978398 GTCAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
TTGATAATTACCGAAGAAAAATCCA
Found at i:6978405 original size:25 final size:25
Alignment explanation
Indices: 6978352--6978408 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
6978342 TAATATGTTG
* * **
6978352 ATAATTACTGATGAAAAATCCATTG
1 ATAATTACCGAAGAAAAATCCATCA
*
6978377 ATAATTACCGAAGAAAAATCCGTCA
1 ATAATTACCGAAGAAAAATCCATCA
6978402 ATAATTA
1 ATAATTA
6978409 TAAACAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAATTACCGAAGAAAAATCCATCA
Found at i:6978561 original size:14 final size:14
Alignment explanation
Indices: 6978529--6978562 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6978519 TCAGTAATAA
6978529 TAAAATTCTGTTGG
1 TAAAATTCTGTTGG
*
6978543 T-AAATTTTGTTGG
1 TAAAATTCTGTTGG
6978556 TAAAATT
1 TAAAATT
6978563 ACAGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (14 bp):
TAAAATTCTGTTGG
Found at i:6980126 original size:10 final size:10
Alignment explanation
Indices: 6980111--6980136 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6980101 TAATGAAATC
6980111 TTAAAATTTA
1 TTAAAATTTA
6980121 TTAAAATTTA
1 TTAAAATTTA
6980131 TTAAAA
1 TTAAAA
6980137 AGATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:6982128 original size:18 final size:18
Alignment explanation
Indices: 6982105--6982141 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6982095 TCTTTTTTTT
*
6982105 AATTATTAATATTATTAA
1 AATTATTAATAATATTAA
*
6982123 AATTATTATTAATATTAA
1 AATTATTAATAATATTAA
6982141 A
1 A
6982142 CTGGAAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTATTAATAATATTAA
Found at i:6982440 original size:50 final size:49
Alignment explanation
Indices: 6982328--6982470 Score: 213
Period size: 50 Copynumber: 3.0 Consensus size: 49
6982318 TTTATTTTTG
* *
6982328 AAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAA-T-TC-TCTTAA
1 AAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTCATCTTAA
*
6982374 AAAAGC-TCATCTCAGTAGAGGCTTAACAACTTTAAAAATTCTCATCTTAA
1 AAAAGCTTC-TCTCAGTAGAGGCTCAACAACTTT-AAAATTCTCATCTTAA
6982424 AAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTCATCTT
1 AAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTCATCTT
6982471 GGTTTAAAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
45 1 0.01
46 28 0.32
47 4 0.05
48 1 0.01
49 16 0.18
50 35 0.40
51 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (49 bp):
AAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTCATCTTAA
Found at i:6982534 original size:68 final size:68
Alignment explanation
Indices: 6982408--6982540 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 68
6982398 AACAACTTTA
* *
6982408 AAAATTCTCATCTTAAAAAAGCTTCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTCATCTTGG
1 AAAATTCTCATCTTAAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGG
6982473 TTT
66 TTT
* * *
6982476 AAAATTTTCATCTT-AAAAAGCTTTTCTCAGCAGAGGCTCAACAACTTTAAAAAATCTCATTTTG
1 AAAATTCTCATCTTAAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATCTTG
6982540 G
65 G
6982541 AAAAGCTCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 32 0.54
68 27 0.46
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (68 bp):
AAAATTCTCATCTTAAAAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGG
TTT
Found at i:6982546 original size:50 final size:48
Alignment explanation
Indices: 6982473--6982769 Score: 291
Period size: 50 Copynumber: 6.1 Consensus size: 48
6982463 CTCATCTTGG
* * *
6982473 TTTAAAATTTTCATCTT-AAAAAGCTTTTCTCAGCAGAGGCTCAACAAC
1 TTTAAAA-TCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
* * * * *
6982521 TTTAAAAAATCTCATTTTGGAAAAGCTCTTCTAAGCTGAGGCTCTACAAT
1 TTT--AAAATCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
* *
6982571 TTTAAAAAAATCTCATCTTGAAAAAGCTCCT-TCAGCAGAGGCTCAACAAC
1 TTT---AAAATCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
* * * *
6982621 TTTAAAATTTCATCTAG-AAAAGCT-TTCTTAGCAGAGGCTCAACAAC
1 TTTAAAATCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
* * ** *
6982667 TTTAAAATCTCA-TCTGAAAAAGCTCATCTCAATAGAGGCTCAACAAA
1 TTTAAAATCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
* *
6982714 TTTAAAATCTCATTTTGTAAAAAGCTCCTT-TCAACAGAGGCTAAACAAC
1 TTTAAAATCTCATTTTG-AAAAAGCT-CTTCTCAGCAGAGGCTCAACAAC
6982763 TTTAAAA
1 TTTAAAA
6982770 AATTTTCATC
Statistics
Matches: 206, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 43 0.21
47 41 0.20
48 6 0.03
49 38 0.18
50 52 0.25
51 24 0.12
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (48 bp):
TTTAAAATCTCATTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAAC
Found at i:6982755 original size:49 final size:47
Alignment explanation
Indices: 6982473--6982769 Score: 253
Period size: 46 Copynumber: 6.1 Consensus size: 47
6982463 CTCATCTTGG
* * * *
6982473 TTTAAAATTTTCATCTT-AAAAAGCTTTTCTCAGCAGAGGCTCAACAAC
1 TTTAAAA-TCTCATTTTGAAAAAGCTCTT-TCAACAGAGGCTCAACAAC
* * * *
6982521 TTTAAAAAATCTCATTTTGGAAAAGCTC-TTCTAAGCTGAGGCTCTACAAT
1 TTT--AAAATCTCATTTTGAAAAAGCTCTTTC-AA-CAGAGGCTCAACAAC
* * *
6982571 TTTAAAAAAATCTCATCTTGAAAAAGCTCCTTCAGCAGAGGCTCAACAAC
1 TTT---AAAATCTCATTTTGAAAAAGCTCTTTCAACAGAGGCTCAACAAC
* * * * *
6982621 TTTAAAATTTCATCTAG-AAAAGCT-TTCTTAGCAGAGGCTCAACAAC
1 TTTAAAATCTCATTTTGAAAAAGCTCTT-TCAACAGAGGCTCAACAAC
* * * *
6982667 TTTAAAATCTCA-TCTGAAAAAGCTCATCTCAATAGAGGCTCAACAAA
1 TTTAAAATCTCATTTTGAAAAAGCTC-TTTCAACAGAGGCTCAACAAC
*
6982714 TTTAAAATCTCATTTTGTAAAAAGCTCCTTTCAACAGAGGCTAAACAAC
1 TTTAAAATCTCATTTTG-AAAAAGCT-CTTTCAACAGAGGCTCAACAAC
6982763 TTTAAAA
1 TTTAAAA
6982770 AATTTTCATC
Statistics
Matches: 203, Mismatches: 32, Indels: 27
0.77 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 43 0.21
47 39 0.19
48 9 0.04
49 41 0.20
50 42 0.21
51 24 0.12
52 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (47 bp):
TTTAAAATCTCATTTTGAAAAAGCTCTTTCAACAGAGGCTCAACAAC
Found at i:6983594 original size:15 final size:15
Alignment explanation
Indices: 6983574--6983606 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6983564 TAAGTCATCA
6983574 TTTTTTC-TCTTTCTT
1 TTTTTTCTTCTTT-TT
6983589 TTTTTTCTTCTTTTT
1 TTTTTTCTTCTTTTT
6983604 TTT
1 TTT
6983607 AAGCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTCTTTTT
Found at i:6983605 original size:13 final size:13
Alignment explanation
Indices: 6983574--6983606 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6983564 TAAGTCATCA
*
6983574 TTTTTTCTCTTTC
1 TTTTTTTTCTTTC
6983587 TTTTTTTTC-TTC
1 TTTTTTTTCTTTC
6983599 TTTTTTTT
1 TTTTTTTT
6983607 AAGCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:6986115 original size:18 final size:18
Alignment explanation
Indices: 6986094--6986128 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6986084 TTGATTTGGT
6986094 TCCAAATGTACATTTAGC
1 TCCAAATGTACATTTAGC
6986112 TCCAAATGTACATTTAG
1 TCCAAATGTACATTTAG
6986129 TAGGATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (18 bp):
TCCAAATGTACATTTAGC
Found at i:6991832 original size:16 final size:16
Alignment explanation
Indices: 6991811--6991846 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6991801 TTCTAATCTG
6991811 CTTCTTTATATCTCTA
1 CTTCTTTATATCTCTA
* *
6991827 CTTCTTTGTATCTCTG
1 CTTCTTTATATCTCTA
6991843 CTTC
1 CTTC
6991847 ATACTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.56
Consensus pattern (16 bp):
CTTCTTTATATCTCTA
Found at i:6995589 original size:19 final size:19
Alignment explanation
Indices: 6995565--6995603 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6995555 GTTGCCGCCA
*
6995565 GATGCCATCGTCGATCACC
1 GATGCCATCGCCGATCACC
* *
6995584 GATGCCGTCGCCGGTCACC
1 GATGCCATCGCCGATCACC
6995603 G
1 G
6995604 TCACCTGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.18
Consensus pattern (19 bp):
GATGCCATCGCCGATCACC
Found at i:6996076 original size:15 final size:15
Alignment explanation
Indices: 6996056--6996089 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6996046 CTTTTTTTTA
* *
6996056 ATTATTAATATTATT
1 ATTATTAAAAGTATT
6996071 ATTATTAAAAGTATT
1 ATTATTAAAAGTATT
6996086 ATTA
1 ATTA
6996090 ATATTAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTATTAAAAGTATT
Found at i:7001893 original size:31 final size:31
Alignment explanation
Indices: 7001857--7001951 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
7001847 ACTTTTCCTC
7001857 AAAAATATTCTTTTGAAACTTTAATTTCGAG
1 AAAAATATTCTTTTGAAACTTTAATTTCGAG
* * **
7001888 AAAAATTGATAC-TTT-CAAC-TT--TTTC-CT
1 AAAAA-T-ATTCTTTTGAAACTTTAATTTCGAG
7001915 AAAAATATT-TTTTGAAAACTTTAATTTCGAG
1 AAAAATATTCTTTTG-AAACTTTAATTTCGAG
7001946 AAAAAT
1 AAAAAT
7001952 TGATACTTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 8 0.17
28 6 0.13
30 6 0.13
31 14 0.30
32 4 0.09
33 3 0.06
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (31 bp):
AAAAATATTCTTTTGAAACTTTAATTTCGAG
Found at i:7001896 original size:58 final size:57
Alignment explanation
Indices: 7001831--7002042 Score: 295
Period size: 58 Copynumber: 3.7 Consensus size: 57
7001821 TTGTTGAGGG
7001831 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTCTTTTGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGAAACTTTAATTTCGAGA
7001889 AAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTG-AAACTTTAATTTCGAGA
* * * * *
7001947 AAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTGAAAATTT--TTTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTGAAACTTTAATTTC--GAGA
*
7002005 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
7002043 ATTTAAAAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
56 4 0.03
57 17 0.12
58 104 0.74
59 15 0.11
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTAATTTCGAGA
Found at i:7001966 original size:31 final size:31
Alignment explanation
Indices: 7001873--7001967 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 31
7001863 ATTCTTTTGA
7001873 AACTTTAATTTCGAGAAAAATTGATACTTTC
1 AACTTTAATTTCGAGAAAAATTGATACTTTC
* * *
7001904 AACTTT--TTCCTA-AAAATATT--T--TTTGAA
1 AACTTTAATTTCGAGAAAA-ATTGATACTTT--C
7001931 AACTTTAATTTCGAGAAAAATTGATACTTTC
1 AACTTTAATTTCGAGAAAAATTGATACTTTC
7001962 AACTTT
1 AACTTT
7001968 TCCTCAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
25 3 0.06
27 7 0.15
28 4 0.08
29 14 0.29
30 4 0.08
31 13 0.27
33 3 0.06
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (31 bp):
AACTTTAATTTCGAGAAAAATTGATACTTTC
Found at i:7002076 original size:27 final size:26
Alignment explanation
Indices: 7002046--7002122 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
7002036 TAATTTTATT
7002046 TAAAAAAAATAAAATAAT-AAAATAAAA
1 TAAAAAAAATAAAA-AATGAAAAT-AAA
*
7002073 TAAATAAAAT-AAAAATGAAAATAAA
1 TAAAAAAAATAAAAAATGAAAATAAA
*
7002098 TAATAAATAAAT-AAAAATAAAAATA
1 TAA-AAA-AAATAAAAAATGAAAATA
7002123 TTAAACAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.20
26 10 0.23
27 25 0.57
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (26 bp):
TAAAAAAAATAAAAAATGAAAATAAA
Found at i:7002093 original size:6 final size:5
Alignment explanation
Indices: 7002046--7002119 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
7002036 TAATTTTATT
7002046 TAAAA -AAAA TAAAA T--AA TAAAA TAAAA T-AAA TAAAA TAAAAA TGAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA
7002094 T-AAA TAATAA -ATAAA TAAAAA TAAAA
1 TAAAA TAA-AA TA-AAA T-AAAA TAAAA
7002120 ATATTAAACA
Statistics
Matches: 58, Mismatches: 1, Indels: 20
0.73 0.01 0.25
Matches are distributed among these distances:
3 3 0.05
4 12 0.21
5 25 0.43
6 17 0.29
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:7002095 original size:21 final size:20
Alignment explanation
Indices: 7002046--7002118 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
7002036 TAATTTTATT
*
7002046 TAAAAAAAATAAAATAATAAAA
1 TAAAATAAATAAAAT-A-AAAA
7002068 TAAAATAAATAAAATAAAAA
1 TAAAATAAATAAAATAAAAA
*
7002088 TGAAAATAAATAATAA-ATAAA
1 T-AAAATAAATAA-AATAAAAA
7002109 TAAAAATAAA
1 T-AAAATAAA
7002119 AATATTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.11
21 25 0.54
22 16 0.35
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAAATAAATAAAATAAAAA
Found at i:7002103 original size:33 final size:33
Alignment explanation
Indices: 7002050--7002122 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
7002040 TTTATTTAAA
7002050 AAAAATAAAATAATAAAATAAAATAAAT-AAAAT
1 AAAAATAAAATAATAAAAT-AAATAAATAAAAAT
*
7002083 AAAAATGAAAATAA-ATAATAAATAAATAAAAAT
1 AAAAAT-AAAATAATAAAATAAATAAATAAAAAT
7002116 AAAAATA
1 AAAAATA
7002123 TTAAACAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
32 9 0.24
33 21 0.57
34 7 0.19
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (33 bp):
AAAAATAAAATAATAAAATAAATAAATAAAAAT
Found at i:7003000 original size:10 final size:10
Alignment explanation
Indices: 7002985--7003024 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
7002975 AATCTTCAAC
7002985 CAAAAAAAAT
1 CAAAAAAAAT
7002995 C-AAAAAAAT
1 CAAAAAAAAT
*
7003004 AAAAAAAAAT
1 CAAAAAAAAT
7003014 CAAATAAAAAT
1 CAAA-AAAAAT
7003025 ATTAATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 12 0.46
11 6 0.23
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (10 bp):
CAAAAAAAAT
Found at i:7003108 original size:22 final size:19
Alignment explanation
Indices: 7003078--7003122 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 19
7003068 TTAAAAATAA
7003078 ATAATAGATAAATTATAGTAT
1 ATAATAGATAAA-TATA-TAT
7003099 ATAATCAGATAAATATATAT
1 ATAAT-AGATAAATATATAT
7003119 ATAA
1 ATAA
7003123 ATATTAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAATAGATAAATATATAT
Found at i:7003175 original size:4 final size:4
Alignment explanation
Indices: 7003168--7003261 Score: 69
Period size: 4 Copynumber: 24.5 Consensus size: 4
7003158 TATATATATT
*
7003168 AATA AATA GTAAT- AATA AATA AATA AAT- AAT- AATA CATA AGA-A AA-A
1 AATA AATA --AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA
* *
7003214 AATA AATA AAAA AATA AAT- AA-A AATAA AATA AA-A AATA AAAA AATA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA
7003260 AA
1 AA
7003262 GATAAAAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
3 20 0.27
4 46 0.62
5 5 0.07
6 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:7003192 original size:21 final size:20
Alignment explanation
Indices: 7003168--7003253 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
7003158 TATATATATT
*
7003168 AATAAATAGTAATAATAAATA
1 AATAAATAATAATAATAAA-A
7003189 AATAAATAATAATACATAAGAA
1 AATAAATAATAATA-ATAA-AA
7003211 AA-AAATAAATAA-AA-AAATA
1 AATAAAT-AATAATAATAAA-A
7003230 AATAAA-AATAA-AATAAAA
1 AATAAATAATAATAATAAAA
7003248 AATAAA
1 AATAAA
7003254 AAAATAAAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 15
0.78 0.01 0.20
Matches are distributed among these distances:
18 15 0.26
19 8 0.14
20 4 0.07
21 18 0.31
22 12 0.21
23 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAAATAATAATAATAAAA
Found at i:7003196 original size:25 final size:26
Alignment explanation
Indices: 7003168--7003252 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
7003158 TATATATATT
* * *
7003168 AATAAATAGTA-ATAATAAATAAATA
1 AATAAATAATACATAAGAAAAAAATA
7003193 AAT-AATAATACATAAGAAAAAAATA
1 AATAAATAATACATAAGAAAAAAATA
* *
7003218 AATAAAAAAATAAATAA-AAATAAAATA
1 AAT-AAATAATACATAAGAAA-AAAATA
7003245 AA-AAATAA
1 AATAAATAA
7003253 AAAAATAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 6 0.12
25 23 0.46
26 3 0.06
27 18 0.36
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.21
Consensus pattern (26 bp):
AATAAATAATACATAAGAAAAAAATA
Found at i:7003200 original size:18 final size:18
Alignment explanation
Indices: 7003168--7003261 Score: 81
Period size: 18 Copynumber: 5.3 Consensus size: 18
7003158 TATATATATT
*
7003168 AATAAAT-AGTAATAATA
1 AATAAATAAATAATAATA
7003185 AATAAATAAATAATAATA
1 AATAAATAAATAATAATA
* *
7003203 CATAAGA-AAAAAATAAATA
1 AATAA-ATAAATAAT-AATA
* *
7003222 AAAAAATAAATAAAAATAA
1 AATAAATAAATAATAAT-A
7003241 AATAAA-AAATAA-AA-A
1 AATAAATAAATAATAATA
7003256 AATAAA
1 AATAAA
7003262 GATAAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
15 7 0.11
17 9 0.14
18 29 0.45
19 19 0.30
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (18 bp):
AATAAATAAATAATAATA
Found at i:7003257 original size:15 final size:15
Alignment explanation
Indices: 7003178--7003271 Score: 77
Period size: 15 Copynumber: 6.1 Consensus size: 15
7003168 AATAAATAGT
* *
7003178 AATAATAAATAAATA
1 AATAAAAAATAAAAA
7003193 AATAATAATACATAAGAAA
1 AATAA-AA-A-ATAA-AAA
*
7003212 AA-AATAAATAAAAA
1 AATAAAAAATAAAAA
*
7003226 AATAAATAAA-AATAA
1 AATAAA-AAATAAAAA
7003241 AATAAAAAATAAAAA
1 AATAAAAAATAAAAA
*
7003256 AAT-AAAGATAAAAA
1 AATAAAAAATAAAAA
7003270 AA
1 AA
7003272 AGAAAATGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.31
15 28 0.43
16 5 0.08
17 2 0.03
18 6 0.09
19 4 0.06
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:7003274 original size:11 final size:10
Alignment explanation
Indices: 7003181--7003261 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 10
7003171 AAATAGTAAT
7003181 AATAAATAAATA
1 AATAAA-AAA-A
* *
7003193 AATAATAATA
1 AATAAAAAAA
*
7003203 CATAAGAAAAA
1 AATAA-AAAAA
7003214 AATAAATAAAAA
1 AAT-AA-AAAAA
*
7003226 AATAAATAAA
1 AATAAAAAAA
7003236 AATAAAATAAA
1 AATAAAA-AAA
*
7003247 AA-ATAAAAA
1 AATAAAAAAA
7003256 AATAAA
1 AATAAA
7003262 GATAAAAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
9 5 0.09
10 20 0.37
11 14 0.26
12 15 0.28
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:7003277 original size:22 final size:20
Alignment explanation
Indices: 7003209--7003277 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 20
7003199 AATACATAAG
7003209 AAAAAAAT-AAATAAAAAAATA
1 AAAAAAATAAAAT-AAAAAA-A
*
7003230 AATAAAAATAAAATAAAAAAT
1 AA-AAAAATAAAATAAAAAAA
7003251 AAAAAAATAAAGATAAAAAAA
1 AAAAAAATAAA-ATAAAAAAA
*
7003272 AGAAAA
1 AAAAAA
7003278 TGGGCTTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.21
21 17 0.40
22 12 0.29
23 4 0.10
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAAATAAAATAAAAAAA
Found at i:7003278 original size:20 final size:20
Alignment explanation
Indices: 7003178--7003270 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 20
7003168 AATAAATAGT
* *
7003178 AATAATAAATAAATAAATAA
1 AATAAAAAATAAAAAAATAA
* * *
7003198 TAATACATAAGAAAAAAAT-A
1 -AATAAAAAATAAAAAAATAA
7003218 AATAAAAAAATAAATAAAAATAA
1 AAT-AAAAAAT-AA-AAAAATAA
7003241 AATAAAAAATAAAAAAATAA
1 AATAAAAAATAAAAAAATAA
7003261 AGATAAAAAA
1 A-ATAAAAAA
7003271 AAGAAAATGG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.05
20 14 0.24
21 25 0.42
22 13 0.22
23 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.18
Consensus pattern (20 bp):
AATAAAAAATAAAAAAATAA
Found at i:7003553 original size:42 final size:43
Alignment explanation
Indices: 7003473--7003649 Score: 182
Period size: 42 Copynumber: 4.1 Consensus size: 43
7003463 TCCTTTAAGT
* * * *
7003473 AGAGGCTCAATGACTTTGAAAAATATAAACAATGCTCCTCTGATC
1 AGAGGCTCAACGACTTTG--AAATATAAACAAAGCTCCTCTAAAC
*
7003518 AGAGGCTCAACGACTTTG-AATATAAATAAAGCTCCTCTAAAC
1 AGAGGCTCAACGACTTTGAAATATAAACAAAGCTCCTCTAAAC
* * ** *
7003560 AGAGGCTCAATGACTTTTGAAGA-GT-AA-ATGGCTCCTCTAATC
1 AGAGGCTCAACGAC-TTTGAA-ATATAAACAAAGCTCCTCTAAAC
* *
7003602 AGAGGCTCAACAACTTTGAAAAATAAACAAAGCTCCTCTAAAC
1 AGAGGCTCAACGACTTTGAAATATAAACAAAGCTCCTCTAAAC
7003645 AGAGG
1 AGAGG
7003650 TAATTTTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 7 0.06
42 59 0.54
43 23 0.21
44 2 0.02
45 18 0.16
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (43 bp):
AGAGGCTCAACGACTTTGAAATATAAACAAAGCTCCTCTAAAC
Found at i:7003755 original size:43 final size:41
Alignment explanation
Indices: 7003690--7003777 Score: 122
Period size: 43 Copynumber: 2.1 Consensus size: 41
7003680 TTTGATCGAA
* *
7003690 GCTCTCTAAGCAGAGGCTCAACGTCTTTGAGAAACATAAATG
1 GCTCTCTAAGCAGAGGCTCAACGACTTTGA-AAAAATAAATG
* *
7003732 GCTCATCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTC-TCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATG
7003774 GCTC
1 GCTC
7003778 CTCTTTGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 17 0.41
43 24 0.59
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (41 bp):
GCTCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATG
Found at i:7003783 original size:23 final size:23
Alignment explanation
Indices: 7003757--7003804 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
7003747 GGCTCAACGA
*
7003757 CTTTGAAAAAATAAATTGCTCCT
1 CTTTGAAAAAATAAATGGCTCCT
7003780 CTTTGAAAAAATAAATGGCTCCT
1 CTTTGAAAAAATAAATGGCTCCT
7003803 CT
1 CT
7003805 AATCAGAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (23 bp):
CTTTGAAAAAATAAATGGCTCCT
Found at i:7003818 original size:65 final size:69
Alignment explanation
Indices: 7003713--7003849 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 69
7003703 AGGCTCAACG
* *
7003713 TCTTTGAGAAACATAAATGGCTCATCTAATCAGAGGCTCAACGAC-TT-TG-AAAAAATAAATTG
1 TCTTTGAGAAAAATAAATGGCTCATCTAATCAGAGGCTCAACGACTTTGTGTAAAAAATAAATGG
7003775 CTCC
66 CTCC
* *
7003779 TCTTTGA-AAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGACTTTGTGTAAAAAATAAATGG
1 TCTTTGAGAAAAATAAATGGCTCATCTAATCAGAGGCTCAACGACTTTGTGTAAAAAATAAATGG
7003843 CTCC
66 CTCC
7003847 TCT
1 TCT
7003850 AATCAAAGGC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
65 34 0.53
66 9 0.14
67 2 0.03
68 19 0.30
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (69 bp):
TCTTTGAGAAAAATAAATGGCTCATCTAATCAGAGGCTCAACGACTTTGTGTAAAAAATAAATGG
CTCC
Found at i:7003888 original size:110 final size:108
Alignment explanation
Indices: 7003693--7003891 Score: 299
Period size: 110 Copynumber: 1.8 Consensus size: 108
7003683 GATCGAAGCT
* * *
7003693 CTCTAAGCAGAGGCTCAACGTCTTTGAGAAACATAAATGGCTCATCTAATCAGAGGCTCAACGAC
1 CTCTAAGCAGAGGCTCAACGACTTTGAGAAAAATAAATGGCTCATCTAATCAAAGGCTCAACGAC
*
7003758 TTTGAAAAAATAAATTGCTCCTCTTTGAAAAAATAAATGGCTC
66 TTTGAAAAAATAAATGGCTCCTCTTTGAAAAAATAAATGGCTC
* * * * *
7003801 CTCTAATCAGAGGCTCAATGACTTTGTGTAAAAAATAAATGGCTCCTCTAATCAAAGGCTCAATG
1 CTCTAAGCAGAGGCTCAACGACTTTGAG--AAAAATAAATGGCTCATCTAATCAAAGGCTCAACG
7003866 ACTTTGAAAAAATAAATGGCTCCTCT
64 ACTTTGAAAAAATAAATGGCTCCTCT
7003892 AATCAGAGGC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 24 0.30
110 56 0.70
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (108 bp):
CTCTAAGCAGAGGCTCAACGACTTTGAGAAAAATAAATGGCTCATCTAATCAAAGGCTCAACGAC
TTTGAAAAAATAAATGGCTCCTCTTTGAAAAAATAAATGGCTC
Found at i:7003889 original size:42 final size:42
Alignment explanation
Indices: 7003780--7004042 Score: 311
Period size: 42 Copynumber: 6.5 Consensus size: 42
7003770 AATTGCTCCT
7003780 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
1 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
*
7003822 CTTTGTGTAAAAAATAAATGGCTCCTCTAATCAAAGGCTCAATGA
1 C-TT-TG-AAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
*
7003867 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGA
1 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
* * *
7003909 CTTTG-AGAAATAAAGGGCTCCTTTAATCAGA-G------GA
1 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
*
7003943 CTTTG-AAAAATAAAT---TGCTCTAATCAGAGGCTCAATGA
1 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
* * *
7003981 CTTT-AAAAAATAAATTGCTCCTCTAAACAGAGGCTCAACGA
1 CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
7004022 CTTTTG-AAAAATAAATGGCTC
1 C-TTTGAAAAAATAAATGGCTC
7004043 ATTGACAATC
Statistics
Matches: 191, Mismatches: 14, Indels: 32
0.81 0.06 0.14
Matches are distributed among these distances:
31 11 0.06
32 1 0.01
34 15 0.08
38 16 0.08
40 1 0.01
41 44 0.23
42 58 0.30
43 4 0.02
44 4 0.02
45 37 0.19
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
CTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGA
Found at i:7003974 original size:72 final size:74
Alignment explanation
Indices: 7003865--7004013 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 74
7003855 AAGGCTCAAT
* *
7003865 GACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAGAAATAAAGGGCTCC
1 GACTTTGAAAAAATAAAT-G-TCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAAGGGCTCC
* *
7003930 TTTAATCAGAG
64 TCTAAACAGAG
* * **
7003941 GACTTTG-AAAAATAAAT-TGCTCTAATCAGAGGCTCAATGACTTTAAAAAATAAATTGCTCCTC
1 GACTTTGAAAAAATAAATGTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAAGGGCTCCTC
7004004 TAAACAGAG
66 TAAACAGAG
7004013 G
1 G
7004014 CTCAACGACT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
72 48 0.74
75 10 0.15
76 7 0.11
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (74 bp):
GACTTTGAAAAAATAAATGTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAAGGGCTCCTC
TAAACAGAG
Found at i:7005053 original size:26 final size:25
Alignment explanation
Indices: 7005022--7005089 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
7005012 TTGAGTCCTC
*
7005022 CTTTTTCATCACTTTTTTTTCTTTTT
1 CTTTTTCATCA-TTTTTTTTATTTTT
**
7005048 CTTTTTTTTCATTTTTTTTATTTTT
1 CTTTTTCATCATTTTTTTTATTTTT
*
7005073 CATTTTT-TTCATTTTTT
1 C-TTTTTCATCATTTTTT
7005090 CCATTTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (25 bp):
CTTTTTCATCATTTTTTTTATTTTT
Found at i:7005055 original size:16 final size:15
Alignment explanation
Indices: 7005034--7005098 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 15
7005024 TTTTCATCAC
7005034 TTTTTTTTC-TTTTT
1 TTTTTTTTCATTTTT
7005048 CTTTTTTTTCATTTTT
1 -TTTTTTTTCATTTTT
7005064 TTTATTTTTCATTTTT
1 TTT-TTTTTCATTTTT
7005080 TTCATTTTTTCCATTTTT
1 TT--TTTTTT-CATTTTT
7005098 T
1 T
7005099 CAAGCATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.27
16 19 0.42
17 5 0.11
18 9 0.20
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTCATTTTT
Found at i:7005062 original size:25 final size:25
Alignment explanation
Indices: 7005034--7005089 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7005024 TTTTCATCAC
* *
7005034 TTTTTTTTCTTTTTCTTTTTTTTCA
1 TTTTTTTTATTTTTCATTTTTTTCA
7005059 TTTTTTTTATTTTTCATTTTTTTCA
1 TTTTTTTTATTTTTCATTTTTTTCA
7005084 TTTTTT
1 TTTTTT
7005090 CCATTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTTTTTTATTTTTCATTTTTTTCA
Found at i:7005095 original size:25 final size:25
Alignment explanation
Indices: 7005035--7005097 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
7005025 TTTCATCACT
*
7005035 TTTTTTTC-TTTTTCTTTTTTTTCA
1 TTTTTTTCATTTTTCATTTTTTTCA
*
7005059 TTTTTTTTATTTTTCATTTTTTTCA
1 TTTTTTTCATTTTTCATTTTTTTCA
*
7005084 TTTTTTCCATTTTT
1 TTTTTTTCATTTTT
7005098 TCAAGCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.21
25 27 0.79
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTTCATTTTTCATTTTTTTCA
Found at i:7005096 original size:8 final size:8
Alignment explanation
Indices: 7005051--7005100 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
7005041 TCTTTTTCTT
7005051 TTTTTTCA
1 TTTTTTCA
*
7005059 TTTTTT-T
1 TTTTTTCA
7005066 TATTTTTCA
1 T-TTTTTCA
7005075 TTTTTTTCA
1 -TTTTTTCA
7005084 TTTTTTCCA
1 TTTTTT-CA
7005093 TTTTTTCA
1 TTTTTTCA
7005101 AGCATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 1 0.03
8 19 0.53
9 15 0.42
10 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:7005099 original size:9 final size:9
Alignment explanation
Indices: 7005043--7005098 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
7005033 CTTTTTTTTC
*
7005043 TTTTTCTTT
1 TTTTTCATT
7005052 TTTTTCATT
1 TTTTTCATT
*
7005061 TTTTT--TA
1 TTTTTCATT
7005068 TTTTTCATT
1 TTTTTCATT
7005077 TTTTTCATT
1 TTTTTCATT
*
7005086 TTTTCCATT
1 TTTTTCATT
7005095 TTTT
1 TTTT
7005099 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 6 0.15
9 35 0.85
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCATT
Found at i:7015646 original size:60 final size:58
Alignment explanation
Indices: 7015462--7015690 Score: 281
Period size: 58 Copynumber: 3.9 Consensus size: 58
7015452 TTATGCAGGG
* * *
7015462 AAAATTAATACTTTCAACTTTTTTCC-CAAAAATA-TTCTTT-GAACTTTAATTTCAAGA
1 AAAATTGATACTTTCAAC--TTTTCCTCAAAAATATTTTTTTAAAACTTTAATTTCAAGA
*
7015519 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTAATTTCAAGA
* * *
7015577 AAAATTGATACTTTCAACTTTTCCTCAAAACCTTATTTTTTTTGAAAA-TTTATTTTTAAG-
1 AAAATTGATACTTTCAACTTTTCCTCAAAA--ATA-TTTTTTT-AAAACTTTAATTTCAAGA
*
7015637 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAACTTTTAATTTC
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAC-TTTAATTTC
7015691 GACCCAAAAA
Statistics
Matches: 151, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
55 9 0.06
56 15 0.10
57 31 0.21
58 45 0.30
59 5 0.03
60 26 0.17
61 16 0.11
62 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAACTTTAATTTCAAGA
Found at i:7015707 original size:33 final size:34
Alignment explanation
Indices: 7015659--7015725 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
7015649 TTCAACTTTT
*
7015659 CCCAAAAATATTTTTTTGAAACTTTTAATTTCGA
1 CCCAAAAATATTTTTTTGAAAATTTTAATTTCGA
7015693 CCCAAAAATA-TTTTTTGAAAATTTTAATTTCGA
1 CCCAAAAATATTTTTTTGAAAATTTTAATTTCGA
7015726 GGAAAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.69
34 10 0.31
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (34 bp):
CCCAAAAATATTTTTTTGAAAATTTTAATTTCGA
Found at i:7015798 original size:27 final size:27
Alignment explanation
Indices: 7015754--7015845 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
7015744 ACTTTTCCTC
** *
7015754 AAAAATAATTTTATTTAAAAAAATAAA
1 AAAAATAAAATTAATTAAAAAAATAAA
** *
7015781 AAAAATAAAATTAATT-AATTAAT--T
1 AAAAATAAAATTAATTAAAAAAATAAA
*
7015805 AAAAATGAAAATAAATTAAAAATGAATAAA
1 AAAAAT-AAAATTAATTAAAAA--AATAAA
7015835 AATAAATAAAA
1 AA-AAATAAAA
7015846 ATAAAAATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
24 6 0.12
25 9 0.19
26 7 0.15
27 13 0.27
28 3 0.06
30 6 0.12
31 4 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAATAAAATTAATTAAAAAAATAAA
Found at i:7015836 original size:11 final size:10
Alignment explanation
Indices: 7015807--7015850 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
7015797 AATTAATTAA
*
7015807 AAATGAAAAT
1 AAATAAAAAT
7015817 AAATTAAAAAT
1 AAA-TAAAAAT
*
7015828 GAATAAAAAT
1 AAATAAAAAT
7015838 AAATAAAAAT
1 AAATAAAAAT
7015848 AAA
1 AAA
7015851 AATATTAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:7016207 original size:14 final size:14
Alignment explanation
Indices: 7016169--7016211 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7016159 CAGCAGAAAC
7016169 CTTCT-TCCC-TCT
1 CTTCTCTCCCTTCT
*
7016181 CTCTCTCTTCCTTCT
1 CT-TCTCTCCCTTCT
7016196 CTTCTCTCCCTTCT
1 CTTCTCTCCCTTCT
7016210 CT
1 CT
7016212 CTAAAAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 2 0.08
13 3 0.12
14 16 0.62
15 5 0.19
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (14 bp):
CTTCTCTCCCTTCT
Found at i:7016402 original size:19 final size:19
Alignment explanation
Indices: 7016375--7016411 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7016365 ACCAGAATAG
7016375 TCACCGAAAAATTCAACCT
1 TCACCGAAAAATTCAACCT
*
7016394 TCACTGAAAAATTCAACC
1 TCACCGAAAAATTCAACC
7016412 GAAATCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.22
Consensus pattern (19 bp):
TCACCGAAAAATTCAACCT
Found at i:7016853 original size:22 final size:19
Alignment explanation
Indices: 7016823--7016867 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 19
7016813 TTAAAAATAA
7016823 ATAATAGATAAATTATAGTAT
1 ATAATAGATAAA-TATA-TAT
7016844 ATAATCAGATAAATATATAT
1 ATAAT-AGATAAATATATAT
7016864 ATAA
1 ATAA
7016868 ATATTAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAATAGATAAATATATAT
Found at i:7016919 original size:51 final size:49
Alignment explanation
Indices: 7016851--7016946 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 49
7016841 TATATAATCA
*
7016851 GATAAATATATATATAAATATTAACAA-AAA-AAATAGTAATAATAATAAG
1 GATAAATATATATATAAATAGTAACAATAAATAAATA--AATAATAATAAG
* *
7016900 GATATATATATATTAATAAATAGTAATAATAAATAAATAAATAATAA
1 GATAAATATATA-T-ATAAATAGTAACAATAAATAAATAAATAATAA
7016947 ATACATAAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 11 0.28
50 1 0.03
51 20 0.50
52 3 0.08
53 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (49 bp):
GATAAATATATATATAAATAGTAACAATAAATAAATAAATAATAATAAG
Found at i:7016944 original size:15 final size:15
Alignment explanation
Indices: 7016914--7016966 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
7016904 TATATATATT
7016914 AATAAATAGTAATAATA
1 AATAAATA--AATAATA
7016931 AATAAATAAATAATA
1 AATAAATAAATAATA
*
7016946 AATACATAAGATAA-A
1 AATAAATAA-ATAATA
7016961 AATAAA
1 AATAAA
7016967 AGAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 21 0.64
16 4 0.12
17 8 0.24
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (15 bp):
AATAAATAAATAATA
Found at i:7016972 original size:24 final size:24
Alignment explanation
Indices: 7016945--7016991 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7016935 AATAAATAAT
7016945 AAATACATAAGATA-AAAATAAAAG
1 AAATACAT-AGATATAAAATAAAAG
* *
7016969 AAATATATATATATAAAATAAAA
1 AAATACATAGATATAAAATAAAA
7016992 TATAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATACATAGATATAAAATAAAAG
Found at i:7017000 original size:24 final size:23
Alignment explanation
Indices: 7016901--7017001 Score: 57
Period size: 24 Copynumber: 4.2 Consensus size: 23
7016891 AATAATAAGG
*
7016901 ATATATATATATTAATAAATAGT-A
1 ATATATATATA-AAATAAATA-TAA
*
7016925 ATA-ATAAAT-AAATAAATAATAA
1 ATATATATATAAAATAAAT-ATAA
* * *
7016947 ATACATAAGATAAAAATAAA-AGAAA
1 ATATAT-ATAT-AAAATAAATA-TAA
7016972 TATATATATATAAAATAAAATATAA
1 -ATATATATATAAAAT-AAATATAA
7016997 ATATA
1 ATATA
7017002 AAATACAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
21 8 0.13
22 5 0.08
23 7 0.12
24 17 0.28
25 10 0.17
26 13 0.22
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (23 bp):
ATATATATATAAAATAAATATAA
Found at i:7017021 original size:19 final size:18
Alignment explanation
Indices: 7016981--7017027 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7016971 ATATATATAT
* *
7016981 ATAAAATAAAATATAAAT
1 ATAAAATAAAAAATAAAG
7016999 ATAAAATACAAAAATAAAG
1 ATAAAATA-AAAAATAAAG
7017018 ATAAAA-AAAA
1 ATAAAATAAAA
7017028 TGGGCTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 14 0.54
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
ATAAAATAAAAAATAAAG
Found at i:7017025 original size:13 final size:13
Alignment explanation
Indices: 7016983--7017025 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
7016973 ATATATATAT
*
7016983 AAAATAAAATATA
1 AAAATAAAATACA
*
7016996 AATATAAAATACA
1 AAAATAAAATACA
7017009 AAAATAAAGATA-A
1 AAAATAAA-ATACA
7017022 AAAA
1 AAAA
7017026 AATGGGCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATAAAATACA
Found at i:7027854 original size:12 final size:12
Alignment explanation
Indices: 7027837--7027861 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7027827 ACTGTTCTGT
7027837 TCTGTCTCTCTC
1 TCTGTCTCTCTC
7027849 TCTGTCTCTCTC
1 TCTGTCTCTCTC
7027861 T
1 T
7027862 ATCTCTCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.08, T:0.52
Consensus pattern (12 bp):
TCTGTCTCTCTC
Found at i:7028633 original size:21 final size:22
Alignment explanation
Indices: 7028609--7028649 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7028599 TCCTTTAATC
7028609 AATA-TTAATTGTTATATAAAT
1 AATATTTAATTGTTATATAAAT
* *
7028630 AATATTTAATTTTTTTATAA
1 AATATTTAATTGTTATATAA
7028650 TTTTGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATATTTAATTGTTATATAAAT
Found at i:7029548 original size:17 final size:17
Alignment explanation
Indices: 7029515--7029567 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
7029505 TAACAATCCA
7029515 ATTTATCAA-TA-CAAT
1 ATTTATCAATTATCAAT
**
7029530 ATTTATTTATTATCAAT
1 ATTTATCAATTATCAAT
*
7029547 ATTGATCAATTATCAA-
1 ATTTATCAATTATCAAT
7029563 ATTTA
1 ATTTA
7029568 AATCTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 17 0.57
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTATCAATTATCAAT
Found at i:7029768 original size:61 final size:61
Alignment explanation
Indices: 7029662--7029777 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
7029652 ATTATGATAT
* * * *
7029662 GAGAGATATTATAATAATTTTAACTAATGATAGTATGAGAGTATTTTCGTAATTAGGGCTA
1 GAGAAATATTATAATAATTTTAACCAATGATAATATGAGAGTATTTTAGTAATTAGGGCTA
* *
7029723 GAGAAATATTATAGTAATTTTAACCAATTATAATA-GA-AGGATATTTTAGTAATTA
1 GAGAAATATTATAATAATTTTAACCAATGATAATATGAGA-G-TATTTTAGTAATTA
7029778 TAATAAGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 1 0.02
60 3 0.06
61 43 0.91
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.38
Consensus pattern (61 bp):
GAGAAATATTATAATAATTTTAACCAATGATAATATGAGAGTATTTTAGTAATTAGGGCTA
Found at i:7029801 original size:26 final size:25
Alignment explanation
Indices: 7029748--7029807 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
7029738 AATTTTAACC
* * * *
7029748 AATTATAATAGAAGGATATTTTAGT
1 AATTATAATAGAAAGACATTATAAT
7029773 AATTATAATAAGAAAGACATTATAAT
1 AATTATAAT-AGAAAGACATTATAAT
*
7029799 AATTTTAAT
1 AATTATAAT
7029808 TGATTATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (25 bp):
AATTATAATAGAAAGACATTATAAT
Found at i:7030078 original size:62 final size:61
Alignment explanation
Indices: 7029981--7030157 Score: 162
Period size: 62 Copynumber: 2.9 Consensus size: 61
7029971 ATTATAGTAA
* * * *
7029981 GAAGA-TATTATAGTAAATTTGATC-AATTATAATATTAAGGGCATTTTCATAATTATGGTAG
1 GAAGAGTATTATAATAATTTTGA-CAAATTATGATATT-AGGGCATTTTCATAATTATGATAG
* * *
7030042 G-AGAGGTATTATAATAATTTTGAGAAATTATGATATTAGAGGTATTTTTATAATTATGATAG
1 GAAGA-GTATTATAATAATTTTGACAAATTATGATATTAG-GGCATTTTCATAATTATGATAG
* * * * * ** *
7030104 TAAGAGTGTCATAATAATTTTGCCAAATTATGCTAGGAGGGCATTATCATAATT
1 GAAGAGTATTATAATAATTTTGACAAATTATGATATTAGGGCATTTTCATAATT
7030158 TTAACTAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
60 3 0.03
61 15 0.16
62 72 0.77
63 3 0.03
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (61 bp):
GAAGAGTATTATAATAATTTTGACAAATTATGATATTAGGGCATTTTCATAATTATGATAG
Found at i:7032240 original size:6 final size:6
Alignment explanation
Indices: 7032229--7032268 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
7032219 CTTTTTTTTG
*
7032229 TTTATT TTTATT TTTA-T TTTAAT TTTATT TTTCATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT-ATT TTTA
7032269 ATTCATTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:7032244 original size:12 final size:12
Alignment explanation
Indices: 7032229--7032268 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
7032219 CTTTTTTTTG
7032229 TTTATTTTTATT
1 TTTATTTTTATT
*
7032241 TTTA-TTTTAAT
1 TTTATTTTTATT
7032252 TTTATTTTTCATT
1 TTTATTTTT-ATT
7032265 TTTA
1 TTTA
7032269 ATTCATTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:7032249 original size:17 final size:18
Alignment explanation
Indices: 7032229--7032271 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7032219 CTTTTTTTTG
*
7032229 TTTATTTTTATTTTT-AT
1 TTTAATTTTATTTTTCAT
7032246 TTTAATTTTATTTTTCATT
1 TTTAATTTTATTTTTCA-T
7032265 TTTAATT
1 TTTAATT
7032272 CATTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.61
18 1 0.04
19 8 0.35
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTAATTTTATTTTTCAT
Found at i:7033695 original size:17 final size:18
Alignment explanation
Indices: 7033645--7033695 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 18
7033635 TTAGAGATAT
7033645 AAAATGAAATGAAGATGAAA
1 AAAATGAAA--AAGATGAAA
*
7033665 ATAAATAAAAAAAGAT-AAA
1 A-AAAT-GAAAAAGATGAAA
7033684 AAAATGAAAAAG
1 AAAATGAAAAAG
7033696 TAACGGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 6 0.22
18 4 0.15
19 4 0.15
20 6 0.22
21 4 0.15
22 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAATGAAAAAGATGAAA
Found at i:7036792 original size:3 final size:3
Alignment explanation
Indices: 7036784--7036837 Score: 83
Period size: 3 Copynumber: 17.7 Consensus size: 3
7036774 AAAATTGTCA
7036784 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT
7036831 AA- AAT AA
1 AAT AAT AA
7036838 ACAAATAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7046634 original size:47 final size:48
Alignment explanation
Indices: 7046540--7046636 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 48
7046530 TAGGTGCACC
* * * * *
7046540 CATATATCATACTTATGTAGACCTTCTTAGTCTCTTCTAGTCCACTCA
1 CATATACCATACTTATGTAGACCTTCTCAATCTCCTCTAATCCACTCA
*
7046588 CATATACCATAC-TATGTAGATCC-TCTCAATCTCCTCTAATCTACTCA
1 CATATACCATACTTATGTAGA-CCTTCTCAATCTCCTCTAATCCACTCA
7046635 CA
1 CA
7046637 AATATTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
47 29 0.69
48 13 0.31
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (48 bp):
CATATACCATACTTATGTAGACCTTCTCAATCTCCTCTAATCCACTCA
Found at i:7050469 original size:27 final size:28
Alignment explanation
Indices: 7050439--7050492 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
7050429 TTATAATTCG
7050439 AATTTAATCAATA-TTTATTAAAAATAA
1 AATTTAATCAATATTTTATTAAAAATAA
*
7050466 AATTTTATCAATATTTTTATTAAAAAT
1 AATTTAATCAATA-TTTTATTAAAAAT
7050493 GTCAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTTAATCAATATTTTATTAAAAATAA
Found at i:7052640 original size:2 final size:2
Alignment explanation
Indices: 7052633--7052659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7052623 TCTAAGTCTC
7052633 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7052660 CCAAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7055465 original size:44 final size:46
Alignment explanation
Indices: 7055368--7055475 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 46
7055358 ATATTATCGA
* * *
7055368 TGATTTACTATTAAGTTATATCACTAATTTACTATTAAAATATGAAT
1 TGATTTATTATTAAGTTAT-CCACTAATTTACTATTAAAATATAAAT
* * **
7055415 AG-TTTATTATTAAGTTATCCA-TATTTTACTATTAAGCTA-AAAT
1 TGATTTATTATTAAGTTATCCACTAATTTACTATTAAAATATAAAT
7055458 TGATTTATTA-TAA-TTATC
1 TGATTTATTATTAAGTTATC
7055476 ATTAGTTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
42 5 0.10
43 7 0.13
44 22 0.42
45 2 0.04
46 15 0.29
47 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (46 bp):
TGATTTATTATTAAGTTATCCACTAATTTACTATTAAAATATAAAT
Found at i:7055513 original size:22 final size:22
Alignment explanation
Indices: 7055488--7055567 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
7055478 TAGTTTATTG
7055488 TTATCACTGATTTATAACTAAA
1 TTATCACTGATTTATAACTAAA
* * *
7055510 TTATAACTGATTTATCATTAAA
1 TTATCACTGATTTATAACTAAA
* * * * *
7055532 TTATCAATAAATTATGACTAAG
1 TTATCACTGATTTATAACTAAA
*
7055554 TTAACACTGATTTA
1 TTATCACTGATTTA
7055568 ATATTATAAC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (22 bp):
TTATCACTGATTTATAACTAAA
Found at i:7055757 original size:22 final size:22
Alignment explanation
Indices: 7055677--7055842 Score: 129
Period size: 22 Copynumber: 7.5 Consensus size: 22
7055667 GATAACTAAA
* *
7055677 TTATCATTGATTTATTATTACG
1 TTATCAATGATTTATTATTAAG
* *
7055699 TTATCAATTATTTATTATTAAA
1 TTATCAATGATTTATTATTAAG
* * *
7055721 TTATTAATAATTTACTATTAAG
1 TTATCAATGATTTATTATTAAG
* * *
7055743 TTATGAATGATTTACTACTAAG
1 TTATCAATGATTTATTATTAAG
** * *
7055765 TTATTGATAATTTATTATAAAG
1 TTATCAATGATTTATTATTAAG
* *
7055787 TTAT-AACTAAGTTT-TTATAAAG
1 TTATCAA-TGA-TTTATTATTAAG
* * *
7055809 TTATCAATGATTTAGTATAAAA
1 TTATCAATGATTTATTATTAAG
7055831 TTATCAATGATT
1 TTATCAATGATT
7055843 AACTAATTTA
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
21 4 0.03
22 110 0.92
23 5 0.04
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (22 bp):
TTATCAATGATTTATTATTAAG
Found at i:7055768 original size:66 final size:66
Alignment explanation
Indices: 7055673--7055822 Score: 155
Period size: 66 Copynumber: 2.3 Consensus size: 66
7055663 GATTGATAAC
* * * * *
7055673 TAAA-TTATCATTGATTTATTATTACGTTATCAATTATTTATTATTAAA-TTATTAA-TAA-TTT
1 TAAAGTTATCAATGATTTACTACTAAGTTATCAATAATTTATTA-TAAAGTTA-TAACTAAGTTT
7055734 ACTA
64 -CTA
* * ** *
7055738 TTAAGTTATGAATGATTTACTACTAAGTTATTGATAATTTATTATAAAGTTATAACTAAGTTTTT
1 TAAAGTTATCAATGATTTACTACTAAGTTATCAATAATTTATTATAAAGTTATAACTAAGTTTCT
7055803 A
66 A
7055804 TAAAGTTATCAATGATTTA
1 TAAAGTTATCAATGATTTA
7055823 GTATAAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
65 10 0.14
66 56 0.81
67 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (66 bp):
TAAAGTTATCAATGATTTACTACTAAGTTATCAATAATTTATTATAAAGTTATAACTAAGTTTCT
A
Found at i:7056033 original size:22 final size:23
Alignment explanation
Indices: 7055995--7056057 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7055985 ACATTTTAAT
*
7055995 AATTAGCTATTAAGTTATCAATT-
1 AATTA-CTACTAAGTTATCAATTG
* * *
7056018 ATTTATTACTAAGTTATTAATTG
1 AATTACTACTAAGTTATCAATTG
*
7056041 AATTACTACAAAGTTAT
1 AATTACTACTAAGTTAT
7056058 TTTTTATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (23 bp):
AATTACTACTAAGTTATCAATTG
Found at i:7056359 original size:22 final size:22
Alignment explanation
Indices: 7056334--7056482 Score: 97
Period size: 22 Copynumber: 6.8 Consensus size: 22
7056324 CTTATCACTG
*
7056334 ATTTATTATTAAATTAT-CATC
1 ATTTATTATTAAGTTATACATC
* *
7056355 AATTTATCACTAAGTTATACATC
1 -ATTTATTATTAAGTTATACATC
* * *
7056378 ATTTACTATTAAGTTATAAATG
1 ATTTATTATTAAGTTATACATC
* * ** *
7056400 ATTTACTACTAAGTTATTGATA
1 ATTTATTATTAAGTTATACATC
* * *
7056422 ATTTACTATTAAGTTATAGATA
1 ATTTATTATTAAGTTATACATC
*
7056444 ATTTATTA-TAATGTTATTAC-TT
1 ATTTATTATTAA-GTTA-TACATC
* *
7056466 ATTTACTATGAAGTTAT
1 ATTTATTATTAAGTTAT
7056483 TGATGATTTA
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.04
22 92 0.88
23 8 0.08
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTATTATTAAGTTATACATC
Found at i:7056404 original size:44 final size:44
Alignment explanation
Indices: 7056356--7056492 Score: 145
Period size: 44 Copynumber: 3.1 Consensus size: 44
7056346 ATTATCATCA
* *
7056356 ATTTATCACTAAGTTATACATCATTTACTATTAAGTTATAAATG
1 ATTTATCACTAAGTTATACATAATTTACTATTAAGTTATAGATG
** *
7056400 ATTTA-CTACTAAGTTATTGATAATTTACTATTAAGTTATAGATA
1 ATTTATC-ACTAAGTTATACATAATTTACTATTAAGTTATAGATG
* * * *
7056444 ATTTATTA-TAATGTTATTAC-TTATTTACTATGAAGTTATTGATG
1 ATTTATCACTAA-GTTA-TACATAATTTACTATTAAGTTATAGATG
7056488 ATTTA
1 ATTTA
7056493 CTATGAAGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
43 4 0.05
44 72 0.94
45 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.47
Consensus pattern (44 bp):
ATTTATCACTAAGTTATACATAATTTACTATTAAGTTATAGATG
Found at i:7056439 original size:66 final size:66
Alignment explanation
Indices: 7056365--7056517 Score: 177
Period size: 66 Copynumber: 2.3 Consensus size: 66
7056355 AATTTATCAC
*
7056365 TAAGTTATACATCATTTACTATTAA-GTTATAAATGATTTACTACT-AAGTTATTGATAATTTAC
1 TAAGTTATACATAATTTACTA-TAATGTTATAAATGATTTACTA-TGAAGTTATTGATAATTTAC
7056428 TAT
64 TAT
* * * * * *
7056431 TAAGTTATAGATAATTTATTATAATGTTATTACTTATTTACTATGAAGTTATTGATGATTTACTA
1 TAAGTTATACATAATTTACTATAATGTTATAAATGATTTACTATGAAGTTATTGATAATTTACTA
7056496 T
66 T
* *
7056497 GAAGTTATTA-ATAATTAACTA
1 TAAGTTA-TACATAATTTACTA
7056518 ATTTACAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
65 4 0.05
66 68 0.92
67 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (66 bp):
TAAGTTATACATAATTTACTATAATGTTATAAATGATTTACTATGAAGTTATTGATAATTTACTA
T
Found at i:7056483 original size:22 final size:20
Alignment explanation
Indices: 7056378--7056517 Score: 109
Period size: 22 Copynumber: 6.4 Consensus size: 20
7056368 GTTATACATC
* *
7056378 ATTTACTATTAAGTTATAAATG
1 ATTTACTA-TAAGTTAT-TATA
7056400 ATTTACTACTAAGTTATTGATA
1 ATTTACTA-TAAGTTATT-ATA
*
7056422 ATTTACTATTAAGTTATAGATA
1 ATTTACTA-TAAGTTAT-TATA
* *
7056444 ATTTATTATAATGTTATTACTT
1 ATTTACTATAA-GTTATTA-TA
*
7056466 ATTTACTATGAAGTTATTGATG
1 ATTTACTAT-AAGTTATT-ATA
7056488 ATTTACTATGAAGTTATTAATA
1 ATTTACTAT-AAGTTATT-ATA
*
7056510 ATTAACTA
1 ATTTACTA
7056518 ATTTACAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.04
22 92 0.93
23 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTTACTATAAGTTATTATA
Found at i:7056504 original size:44 final size:42
Alignment explanation
Indices: 7056378--7056517 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 42
7056368 GTTATACATC
*
7056378 ATTTACTATTAAGTTATAAATGATTTACTACTAAGTTATTGATA
1 ATTTACTATTAAGTTATAGATGATTTACTA-TAAGTTATT-ATA
* * *
7056422 ATTTACTATTAAGTTATAGATAATTTATTATAATGTTATTACTT
1 ATTTACTATTAAGTTATAGATGATTTACTATAA-GTTATTA-TA
* *
7056466 ATTTACTATGAAGTTATTGATGATTTACTATGAAGTTATTAATA
1 ATTTACTATTAAGTTATAGATGATTTACTAT-AAGTTATT-ATA
*
7056510 ATTAACTA
1 ATTTACTA
7056518 ATTTACAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.05
44 75 0.91
45 3 0.04
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (42 bp):
ATTTACTATTAAGTTATAGATGATTTACTATAAGTTATTATA
Found at i:7056541 original size:22 final size:22
Alignment explanation
Indices: 7056516--7056589 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
7056506 AATAATTAAC
7056516 TAATTTACAATTAAATTATCAT
1 TAATTTACAATTAAATTATCAT
* *
7056538 TAATTTATAACTAAATTATCAT
1 TAATTTACAATTAAATTATCAT
* * *
7056560 TTATTTACAATTAAGTTATCAA
1 TAATTTACAATTAAATTATCAT
*
7056582 TGATTTAC
1 TAATTTAC
7056590 TGTGACATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (22 bp):
TAATTTACAATTAAATTATCAT
Done.