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 46 of 93
Found at i:5784993 original size:27 final size:28
Alignment explanation
Indices: 5784946--5785003 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
5784936 ATAATCTTTG
*
5784946 AATTTTAATGAAATTTTAATATTAT-TTT
1 AATTTTAA-GAAATTTTAATATGATATTT
5784974 AATTTTAA-AAATTTTTAATATGATATTT
1 AATTTTAAGAAA-TTTTAATATGATATTT
5785002 AA
1 AA
5785004 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 11 0.41
28 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTTAAGAAATTTTAATATGATATTT
Found at i:5786302 original size:78 final size:77
Alignment explanation
Indices: 5786140--5786290 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 77
5786130 TATGAAATGT
* * * * *
5786140 AATTATGCAATTTACTAACAATATATAACTTTTCTATATTAATAATGTATCAAATATACACTCCA
1 AATTATGCAATTTACTAACAATATATAACTTTTATACATTAATAATATATCAAATATAAACTCAA
5786205 AAATTATTCCTA
66 AAATTATTCCTA
* * * *
5786217 AATTTATGTC-ATTTACTAACAATGTATAACTTTTATACATTAATAGTATATTAAATATAAATTC
1 AA-TTATG-CAATTTACTAACAATATATAACTTTTATACATTAATAATATATCAAATATAAACTC
5786281 AAAAATTATT
64 AAAAATTATT
5786291 ACCAACATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 2 0.03
78 60 0.95
79 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (77 bp):
AATTATGCAATTTACTAACAATATATAACTTTTATACATTAATAATATATCAAATATAAACTCAA
AAATTATTCCTA
Found at i:5790985 original size:28 final size:28
Alignment explanation
Indices: 5790930--5791000 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
5790920 GATTTTTTAA
*
5790930 AAATTAAAAAATTAAAAAATATGTTTTT
1 AAATAAAAAAATTAAAAAATATGTTTTT
5790958 ACAA-AAAAAAATTAAAAAA-AT-TAATTTT
1 A-AATAAAAAAATTAAAAAATATGT--TTTT
*
5790986 AAATACAAAAATTAA
1 AAATAAAAAAATTAA
5791001 GACCATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 30 0.81
29 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (28 bp):
AAATAAAAAAATTAAAAAATATGTTTTT
Found at i:5795271 original size:17 final size:16
Alignment explanation
Indices: 5795249--5795290 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
5795239 TGAATAATTA
5795249 AAAATACTTAT-ATTTT
1 AAAATA-TTATCATTTT
5795265 AATAATATT-TCATTTT
1 AA-AATATTATCATTTT
5795281 AAAATATTAT
1 AAAATATTAT
5795291 TTTAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 4 0.17
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTATCATTTT
Found at i:5795294 original size:13 final size:15
Alignment explanation
Indices: 5795259--5795297 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
5795249 AAAATACTTA
5795259 TATTTTAATAATATT
1 TATTTTAATAATATT
5795274 TCATTTTAA-AATA-T
1 T-ATTTTAATAATATT
5795288 TATTTTAATA
1 TATTTTAATA
5795298 CTAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 3 0.14
15 5 0.23
16 7 0.32
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTAATAATATT
Found at i:5795543 original size:17 final size:17
Alignment explanation
Indices: 5795521--5795579 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
5795511 GAAATGATTA
5795521 AAAATATTTATATTATT
1 AAAATATTTATATTATT
5795538 AAAATAATGTTAT-TATATT
1 AAAAT-AT-TTATAT-TATT
* *
5795557 -AAATAATAATAATTATT
1 AAAATATTTAT-ATTATT
5795574 AAAATA
1 AAAATA
5795580 ATGAAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
18 13 0.38
19 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATATTTATATTATT
Found at i:5795578 original size:18 final size:17
Alignment explanation
Indices: 5795532--5795581 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
5795522 AAATATTTAT
* *
5795532 ATTATTAAAATAATGTT
1 ATTATTAAAATAATATA
*
5795549 ATTATATTAAATAATAATA
1 ATTAT-TAAAATAAT-ATA
5795568 ATTATTAAAATAAT
1 ATTATTAAAATAAT
5795582 GAAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 16 0.59
19 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTATTAAAATAATATA
Found at i:5797027 original size:29 final size:29
Alignment explanation
Indices: 5796994--5797052 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
5796984 TAGAGCATTT
5796994 TGGTGTGGTTCTAAGTTTAATAGCAATGA
1 TGGTGTGGTTCTAAGTTTAATAGCAATGA
*
5797023 TGGTGTGGTTCTGAGTTTAATAGCAATGA
1 TGGTGTGGTTCTAAGTTTAATAGCAATGA
5797052 T
1 T
5797053 AATAATGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.29, T:0.39
Consensus pattern (29 bp):
TGGTGTGGTTCTAAGTTTAATAGCAATGA
Found at i:5801915 original size:326 final size:326
Alignment explanation
Indices: 5801322--5801956 Score: 979
Period size: 326 Copynumber: 1.9 Consensus size: 326
5801312 GATGAAACAT
* *
5801322 TTGTATGCAGGATCCTAGAATTACGCTGCAGCTCTAATTAGTTGATTATCGATATTTTCTGTAAG
1 TTGTATGCAGGATCCTAGAATTACGCTGCAGCTCTAATTAGTTGATTATCGACATTTTCTGCAAG
* * * *
5801387 AAGGTGTGCTATATGCCCATATCTCTAGTAAAACTCCTCTTGTCTTGATGGACTTATCTTTTTTC
66 AAGGTGTGCTATATGCCCATATCTCTAGCAAAACTCCTCTTATCTTGATGGACTTATCTTCTTCC
* * * *
5801452 ATATATCAACCAAATCTTTTATATTGTTTTGTTTGAGAAGGATAGATATCTCTTGAGATAAGGTA
131 ATATATCAACCAAATCCTCTAGATTGTTTTGTTTGAAAAGGATAGATATCTCTTGAGATAAGGTA
* * * *
5801517 GAAGTATAGCTGATTGGTAAATAATCCCATATCTTTAGTTGAATCTTTTTTTACTGGACCTTCAC
196 GAAGCATAACTGATTGGTAAACAATCCCACATCTTTAGTTGAATCTTTTTTTACTGGACCTTCAC
*
5801582 TTCGTTGGGTGACTCACAATGAGCTAATATAGACGAAAAGCAAACTAGTCGTTGAAGATAAAATA
261 TTCGTTGGGTGACTCACAATGAGCTAATACAGACGAAAAGCAAACTAGTCGTTGAAGATAAAATA
5801647 C
326 C
* *
5801648 TTGTATGCAGGATCTTAGAATTACGCTGTAGCTCTAATTAGTTGATTATCGACATTTAT-TGCAA
1 TTGTATGCAGGATCCTAGAATTACGCTGCAGCTCTAATTAGTTGATTATCGACATTT-TCTGCAA
* * **
5801712 GAAGGTGTGCTATATGCCCATGTCTCTAGCAAAATTTTTCTTATCTTGATGGACTTATCTTCTTC
65 GAAGGTGTGCTATATGCCCATATCTCTAGCAAAACTCCTCTTATCTTGATGGACTTATCTTCTTC
* *
5801777 CATATATCAATCAAATCCTCTAGATTGTTTTGTTTGAAAATGATAGATATCTCTTGAGATAAGGT
130 CATATATCAACCAAATCCTCTAGATTGTTTTGTTTGAAAAGGATAGATATCTCTTGAGATAAGGT
*
5801842 AGAAGCATAACTGATTGGTAAACAATCCTC-CATCTTTAGTTGAA-CTTTTTTTTATTGGACCTT
195 AGAAGCATAACTGATTGGTAAACAATCC-CACATCTTTAGTTGAATC-TTTTTTTACTGGACCTT
* * *
5801905 TACTTCGTTGGGTGACTTACAATGAGCTAATACAGACGACAAGCAAACTAGT
258 CACTTCGTTGGGTGACTCACAATGAGCTAATACAGACGAAAAGCAAACTAGT
5801957 AGTTCTATGG
Statistics
Matches: 279, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
325 1 0.00
326 276 0.99
327 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (326 bp):
TTGTATGCAGGATCCTAGAATTACGCTGCAGCTCTAATTAGTTGATTATCGACATTTTCTGCAAG
AAGGTGTGCTATATGCCCATATCTCTAGCAAAACTCCTCTTATCTTGATGGACTTATCTTCTTCC
ATATATCAACCAAATCCTCTAGATTGTTTTGTTTGAAAAGGATAGATATCTCTTGAGATAAGGTA
GAAGCATAACTGATTGGTAAACAATCCCACATCTTTAGTTGAATCTTTTTTTACTGGACCTTCAC
TTCGTTGGGTGACTCACAATGAGCTAATACAGACGAAAAGCAAACTAGTCGTTGAAGATAAAATA
C
Found at i:5803262 original size:59 final size:58
Alignment explanation
Indices: 5803136--5803520 Score: 262
Period size: 59 Copynumber: 6.7 Consensus size: 58
5803126 TTGTATAAGA
** ** ** *
5803136 AAAATTGATACTTTCAACTTTTT-CTT-AAAGCATTTAGAA-GTTTTTATTTT-AAGA
1 AAAATTGATACTTTCAACTTTTTCCTTAAAAATATTTTTAACAATTTTATTTTCAAGG
* *
5803190 AAAACTGATACTTTCAA-TTTTTCCTTAAAAATAGTTTTTAACAATTTTATTTTTAAAGG
1 AAAATTGATACTTTCAACTTTTTCCTTAAAAATA-TTTTTAACAATTTTA-TTTTCAAGG
* *
5803249 AAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTAGAACACTTTT-TTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCTTAAAAATATTTTT--AACAATTTTATTTTCAAGG
* **
5803308 AAAATTGATATTTTCAACTTTTT-C-TAAAAATAATTTTTTTAAAACACGTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCTTAAAAAT-A--TTTTT--AACAATTTTATTTTCAAGG
* * * * * * **
5803369 AAAATTGATACTTTCAAATTTCTCCTCCCAAAATATATTTTT--TATTTTTGTGCTCAAAGG
1 AAAATTGATACTTTCAACTTTTTCCT--TAAAA-ATATTTTTAACAATTTTATTTTC-AAGG
* * ** *
5803429 -AAATTGATACATTCAACTTTCTT--TCAAAAATATTTTT-TTAATTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTT-TTCCTTAAAAATATTTTTAACAATTTTATTTTCAAGG
* * *
5803484 AAAATTGTTACTTTC-A-TTTTTTCTCAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTTCCTTAAAAATATTTTT
5803521 TAGGAACTTT
Statistics
Matches: 271, Mismatches: 36, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
53 7 0.03
54 22 0.08
55 30 0.11
56 31 0.11
57 11 0.04
58 7 0.03
59 79 0.29
60 34 0.13
61 37 0.14
62 1 0.00
63 5 0.02
65 5 0.02
66 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCTTAAAAATATTTTTAACAATTTTATTTTCAAGG
Found at i:5803479 original size:26 final size:25
Alignment explanation
Indices: 5803450--5803521 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 25
5803440 TTCAACTTTC
5803450 TTTCAAAAATATTTTTTTAATTTTAT
1 TTTCAAAAATATTTTTTTAATTTT-T
* *
5803476 TTTCAAGAAAAATTGTTACTTTCATTTTT
1 TTTCAA-AAATATT-TT--TTTAATTTTT
*
5803505 TCTCAAAAATATTTTTT
1 TTTCAAAAATATTTTTT
5803522 AGGAACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
25 2 0.05
26 6 0.16
27 8 0.21
28 8 0.21
29 6 0.16
30 8 0.21
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTCAAAAATATTTTTTTAATTTTT
Found at i:5803623 original size:4 final size:4
Alignment explanation
Indices: 5803614--5803659 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
5803604 TAACTTAATC
5803614 AATA AATA AATA TGCAAT- AAT- AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA ---AATA AATA AATA AATA AATA AATA AATA AATA A
5803660 GAAAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.16
4 29 0.76
7 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:5806265 original size:71 final size:70
Alignment explanation
Indices: 5806190--5806710 Score: 285
Period size: 72 Copynumber: 7.3 Consensus size: 70
5806180 TTTCTAAATG
* * * *
5806190 AAAAATATAGTGGATGTTGAAATTTTGTTTTTGAAATTATGAAATTTTAACAAAAATTACGTTTT
1 AAAAACATAATGGATGTTGAAATTTTATTTTTGAAATT-TAAAATTTTAACAAAAATTACGTTTT
5806255 TAAGAT
65 TAAGAT
* * * *
5806261 AAAAAACATAAT-GATATTGAAACTTTATTTTTGAAATTTTAAAA-TTTAACAAAGAA-TGCATT
1 -AAAAACATAATGGATGTTGAAATTTTATTTTTGAAA-TTTAAAATTTTAACAAA-AATTACGTT
5806323 TTTAAGAT
63 TTTAAGAT
** * * * * * ** *
5806331 AAAAACATAGCGGATGTTGAAACTATATTTTTAAAATTTTAAAAATTTAATC-AAGACCACATTT
1 AAAAACATAATGGATGTTGAAATTTTATTTTTGAAA-TTTAAAATTTTAA-CAAAAATTAC-GTT
*
5806395 TTTAAAAT
63 TTTAAGAT
* * * * * * *
5806403 AAAAA-ATGTAA-GAGATGTTGAGATTCTATTTTTGAAATTTTAGAATTTTAATAAAGATAATG-
1 AAAAACA--TAATG-GATGTTGAAATTTTATTTTTGAAA-TTTAAAATTTTAACAAAAATTACGT
* *
5806465 CTTTGAGTAT
62 TTTTAAG-AT
* * * * * * *
5806475 AAAAA-ATGTAATGGGTGTTAGAAACTTTAGTTTTAAAATTTTAAAATTTAAAAAAAAAATTGC-
1 AAAAACA--TAATGGATGTT-GAAATTTTATTTTTGAAA-TTTAAAATTT-TAACAAAAATTACG
* *
5806538 ATTTTGAGCAT
61 TTTTTAAG-AT
*
5806549 AAAAACATAATGGATGTTGAAAATTTT-TTTTTGAAATTCTAAAATTTTAACGAAAA-T-CGTAT
1 AAAAACATAATGGATGTTG-AAATTTTATTTTTGAAATT-TAAAATTTTAACAAAAATTACGT-T
*
5806611 TTTGAGCAT
63 TTTAAG-AT
* * * * * ** *
5806620 AAAAA-ATATAGTGGACGTTAAAATTTTATTCTCGAAATTCTAAAAATTTAACAAAAATCGCATT
1 AAAAACATA-A-TGGATGTTGAAATTTTATTTTTGAAATT-TAAAATTTTAACAAAAATTACGTT
* *
5806684 GTGAAGAT
63 TTTAAGAT
5806692 AAAAACATAATGGATGTTG
1 AAAAACATAATGGATGTTG
5806711 TTACTCATAA
Statistics
Matches: 353, Mismatches: 69, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
69 10 0.03
70 55 0.16
71 78 0.22
72 101 0.29
73 86 0.24
74 22 0.06
75 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (70 bp):
AAAAACATAATGGATGTTGAAATTTTATTTTTGAAATTTAAAATTTTAACAAAAATTACGTTTTT
AAGAT
Found at i:5806780 original size:37 final size:37
Alignment explanation
Indices: 5806739--5806813 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 37
5806729 AAATAAAACA
5806739 TAAAACATC-TTTACTTAATATTATTA-TATATAAAATT
1 TAAAACA-CATTTACTTAATATTATTACT-TATAAAATT
*
5806776 TAAAATACATTTACTTAATATTATTACTTATAAAATT
1 TAAAACACATTTACTTAATATTATTACTTATAAAATT
5806813 T
1 T
5806814 GTTTTGGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 1 0.03
37 33 0.94
38 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (37 bp):
TAAAACACATTTACTTAATATTATTACTTATAAAATT
Found at i:5807426 original size:24 final size:24
Alignment explanation
Indices: 5807402--5807509 Score: 93
Period size: 24 Copynumber: 4.7 Consensus size: 24
5807392 TAACATTAAT
*
5807402 TTACATATTCAATAAATAAATAA-
1 TTACATATTAAATAAATAAATAAC
* *
5807425 TTGACTTGTT--A-AA-TAAATAAC
1 TT-ACATATTAAATAAATAAATAAC
* * *
5807446 TTACATTTTAAATAAGTAAACAAC
1 TTACATATTAAATAAATAAATAAC
5807470 TTACATATTAAATAAATAAATAAC
1 TTACATATTAAATAAATAAATAAC
**
5807494 TTATTTATTAAA-AAAT
1 TTACATATTAAATAAAT
5807510 TAAAAACCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
20 12 0.17
21 4 0.06
22 2 0.03
23 8 0.12
24 43 0.62
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (24 bp):
TTACATATTAAATAAATAAATAAC
Found at i:5807456 original size:20 final size:20
Alignment explanation
Indices: 5807414--5807488 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 20
5807404 ACATATTCAA
5807414 TAAATAAATAA-TTGAC-TTGT
1 TAAATAAATAACTT-ACATT-T
5807434 TAAATAAATAACTTACATTT
1 TAAATAAATAACTTACATTT
* *
5807454 TAAATAAGTAAACAACTTACATAT
1 T--A-AA-TAAATAACTTACATTT
5807478 TAAATAAATAA
1 TAAATAAATAA
5807489 ATAACTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 21 0.46
21 6 0.13
22 2 0.04
23 2 0.04
24 15 0.33
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAATAAATAACTTACATTT
Found at i:5807460 original size:44 final size:44
Alignment explanation
Indices: 5807402--5807488 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
5807392 TAACATTAAT
* * * *
5807402 TTACATATTCAATAAATAAATAA-TTGACTTGTTAAATAAATAAC
1 TTACATATTAAATAAATAAACAACTT-ACATATTAAATAAATAAC
* *
5807446 TTACATTTTAAATAAGTAAACAACTTACATATTAAATAAATAA
1 TTACATATTAAATAAATAAACAACTTACATATTAAATAAATAA
5807489 ATAACTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 34 0.94
45 2 0.06
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (44 bp):
TTACATATTAAATAAATAAACAACTTACATATTAAATAAATAAC
Found at i:5807498 original size:20 final size:21
Alignment explanation
Indices: 5807414--5807498 Score: 50
Period size: 20 Copynumber: 4.0 Consensus size: 21
5807404 ACATATTCAA
* * *
5807414 TAAATAAATAATTGAC-TTGT
1 TAAATAAATAAATAACATTAT
* *
5807434 TAAATAAATAACTTACATT-T
1 TAAATAAATAAATAACATTAT
* * *
5807454 TAAATAAGTAAACAACTTACATAT
1 TAAATAAATAAATAAC--A-TTAT
5807478 TAAATAAATAAATAAC-TTAT
1 TAAATAAATAAATAACATTAT
5807498 T
1 T
5807499 TATTAAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
20 31 0.62
21 2 0.04
22 1 0.02
23 1 0.02
24 15 0.30
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (21 bp):
TAAATAAATAAATAACATTAT
Found at i:5808798 original size:18 final size:19
Alignment explanation
Indices: 5808767--5808805 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
5808757 TGAAATTTTG
5808767 TTTTCAAAATTTTAAAATT
1 TTTTCAAAATTTTAAAATT
5808786 TTTTCAAAA-TTTAAAATT
1 TTTTCAAAATTTTAAAATT
5808804 TT
1 TT
5808806 AGTAAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATTTTAAAATT
Found at i:5808902 original size:71 final size:72
Alignment explanation
Indices: 5808819--5808951 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 72
5808809 AAAGAACATG
* *
5808819 TTTTTAAGATAAAAACGA-AGTGAATGTTGAAACTATATTTTCAAAATTCTAGAATTTTAATCAA
1 TTTTTAAAATAAAAACGATAGTAAATGTTGAAACTATATTTTCAAAATTCTAGAATTTTAATCAA
5808883 AATTGCA
66 AATTGCA
** * * ** *
5808890 TTTTTAAAATAAAAATTATAGTAAATGTTGAAATTTTATTTTTGAAATTTTAGAATTTTAAT
1 TTTTTAAAATAAAAACGATAGTAAATGTTGAAACTATATTTTCAAAATTCTAGAATTTTAAT
5808952 AAAGATCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
71 15 0.29
72 37 0.71
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (72 bp):
TTTTTAAAATAAAAACGATAGTAAATGTTGAAACTATATTTTCAAAATTCTAGAATTTTAATCAA
AATTGCA
Found at i:5809155 original size:72 final size:71
Alignment explanation
Indices: 5809044--5809187 Score: 173
Period size: 72 Copynumber: 2.0 Consensus size: 71
5809034 ATAAAAACGT
* * * *
5809044 AATGGATATTGAAACTTTGTTTTCGAAATTCTAAAATTTTAATGAAAAC-CATATTTTAAGCATA
1 AATGGATATTAAAACTTTATTTTCGAAATTCTAAAATTTTAATAAAAACACAT-TTTTAA-AATA
5809108 AAAAATAC
64 AAAAATAC
* * * * *
5809116 AATGGATTTTAAAATTTTATTTTTGAAATTTTGAAATTTTAATAAAAACTACATTTTTAAAATAA
1 AATGGATATTAAAACTTTATTTTCGAAATTCTAAAATTTTAATAAAAAC-ACATTTTTAAAATAA
5809181 AAAATAC
65 AAAATAC
5809188 CGGATGTTGT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
72 52 0.85
73 6 0.10
74 3 0.05
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (71 bp):
AATGGATATTAAAACTTTATTTTCGAAATTCTAAAATTTTAATAAAAACACATTTTTAAAATAAA
AAATAC
Found at i:5809907 original size:24 final size:23
Alignment explanation
Indices: 5809880--5809984 Score: 97
Period size: 24 Copynumber: 4.4 Consensus size: 23
5809870 TACATATTCG
*
5809880 ATAAGTAAATAA-TTGACTTGTTAA
1 ATAAATAAATAACTT-ACTT-TTAA
5809904 ATAAATAAATAACTTACATTTTAA
1 ATAAATAAATAACTTAC-TTTTAA
* * *
5809928 ATAAGTAAACAACTTACATATTAA
1 ATAAATAAATAACTTAC-TTTTAA
5809952 ATAAATAAATAACTTA-TTTATAGA
1 ATAAATAAATAACTTACTTT-TA-A
*
5809976 AAAAATAAA
1 ATAAATAAA
5809985 AATTTAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 61 0.88
25 4 0.06
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (23 bp):
ATAAATAAATAACTTACTTTTAA
Found at i:5809957 original size:28 final size:24
Alignment explanation
Indices: 5809900--5809967 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
5809890 AATTGACTTG
*
5809900 TTAAATAAATAAATAACTTACATT
1 TTAAATAAATAAACAACTTACATT
* *
5809924 TTAAATAAGTAAACAACTTACATA
1 TTAAATAAATAAACAACTTACATT
*
5809948 TTAAATAAATAAATAACTTA
1 TTAAATAAATAAACAACTTA
5809968 TTTATAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (24 bp):
TTAAATAAATAAACAACTTACATT
Found at i:5813078 original size:10 final size:10
Alignment explanation
Indices: 5813056--5813085 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5813046 TATTTTATAA
5813056 ATTAAAATA-
1 ATTAAAATAT
5813065 ATTAAAATAT
1 ATTAAAATAT
5813075 ATTAAAATAT
1 ATTAAAATAT
5813085 A
1 A
5813086 ACAGTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:5815305 original size:24 final size:25
Alignment explanation
Indices: 5815278--5815341 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
5815268 TTAAACTCAT
* *
5815278 TTTTTTATTTTTATATAATTTTT-A
1 TTTTTAATTTATATATAATTTTTAA
*
5815302 -TTTTAATTTATATAT-TTTTTTAA
1 TTTTTAATTTATATATAATTTTTAA
5815325 TTTTTAATTTATATATA
1 TTTTTAATTTATATATA
5815342 TGTGAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 14 0.41
24 15 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTAATTTATATATAATTTTTAA
Found at i:5817912 original size:22 final size:23
Alignment explanation
Indices: 5817872--5817918 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
5817862 TATAAAAAAT
* *
5817872 AACTTAATATAAT-CTTTTTAAA
1 AACTTAATATAATAATTTTCAAA
5817894 AACTTAATATAATAATTTTCAAA
1 AACTTAATATAATAATTTTCAAA
5817917 AA
1 AA
5817919 ATATATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
AACTTAATATAATAATTTTCAAA
Found at i:5817919 original size:25 final size:23
Alignment explanation
Indices: 5817866--5817919 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
5817856 ATTTTATATA
*
5817866 AAAAATAACTTAATATAATCTTTT
1 AAAAA-AACTTAATATAATATTTT
*
5817890 -TAAAAACTTAATATAATAATTTT
1 AAAAAAACTTAATATAAT-ATTTT
*
5817913 CAAAAAA
1 AAAAAAA
5817920 TATATTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 13 0.52
23 7 0.28
24 5 0.20
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAAAACTTAATATAATATTTT
Found at i:5818978 original size:16 final size:15
Alignment explanation
Indices: 5818948--5818977 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5818938 ATAGATATTT
5818948 TAAAAAATTAGAAAA
1 TAAAAAATTAGAAAA
*
5818963 TAAAAAATTTGAAAA
1 TAAAAAATTAGAAAA
5818978 AAATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAAAAATTAGAAAA
Found at i:5828358 original size:26 final size:27
Alignment explanation
Indices: 5828329--5828386 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
5828319 CGTGCTCATT
5828329 TTTTGT-TATTTGAC-TCTCTCTCAGTC
1 TTTTGTATATTTGACTTCT-TCTCAGTC
* * *
5828355 TTTTGTATCTTTGCCTTCTTCTTAGTC
1 TTTTGTATATTTGACTTCTTCTCAGTC
5828382 TTTTG
1 TTTTG
5828387 CTTGACTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.09, C:0.21, G:0.12, T:0.59
Consensus pattern (27 bp):
TTTTGTATATTTGACTTCTTCTCAGTC
Found at i:5829610 original size:28 final size:29
Alignment explanation
Indices: 5829577--5829633 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
5829567 TTATTGTTTC
* *
5829577 ATTATTTGAATATAGTTTTATT-TTTATT
1 ATTATTTGAATATAATTTAATTATTTATT
5829605 ATTATTTGAATATAATTTAATTATTTATT
1 ATTATTTGAATATAATTTAATTATTTATT
5829634 TTTTATTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (29 bp):
ATTATTTGAATATAATTTAATTATTTATT
Found at i:5829669 original size:33 final size:33
Alignment explanation
Indices: 5829567--5829670 Score: 83
Period size: 33 Copynumber: 3.3 Consensus size: 33
5829557 CACTACTTTA
* *
5829567 TTATTGTTTCATTATTTGAATATAGTTT--T-A-
1 TTATT-TTTTATTATTTGAATATAATTTAATCAC
* * *
5829597 TT-TTTATTATTATTTGAATATAATTTAATTAT
1 TTATTTTTTATTATTTGAATATAATTTAATCAC
* * *
5829629 TTATTTTTTATTGTTTGGATATAATTTGATCAC
1 TTATTTTTTATTATTTGAATATAATTTAATCAC
*
5829662 TTGTTTTTT
1 TTATTTTTT
5829671 TTTTTTTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.32
29 2 0.03
30 3 0.05
31 1 0.02
32 2 0.03
33 32 0.54
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (33 bp):
TTATTTTTTATTATTTGAATATAATTTAATCAC
Found at i:5830266 original size:22 final size:22
Alignment explanation
Indices: 5830238--5830285 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
5830228 ATGAAAAGAT
5830238 TCATTTGAAGCAATTCATGAAA
1 TCATTTGAAGCAATTCATGAAA
5830260 TCATTTGAAGCAATTCATGAAA
1 TCATTTGAAGCAATTCATGAAA
5830282 TCAT
1 TCAT
5830286 CTTCTACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATTTGAAGCAATTCATGAAA
Found at i:5831838 original size:24 final size:23
Alignment explanation
Indices: 5831810--5831867 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
5831800 TATATCATCA
5831810 TTTATTTTTT-AAGTATTATTATTT
1 TTTATTTTTTAAAG-ATTATT-TTT
*
5831834 TTTATTTGTTTAAAGCTTATTTTT
1 TTTATTT-TTTAAAGATTATTTTT
*
5831858 GTTATTTTTT
1 TTTATTTTTT
5831868 GTTTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 16 0.53
25 8 0.27
26 3 0.10
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.71
Consensus pattern (23 bp):
TTTATTTTTTAAAGATTATTTTT
Found at i:5835358 original size:12 final size:12
Alignment explanation
Indices: 5835309--5835364 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
5835299 AATAATAATT
5835309 TAAT-AATTTAA
1 TAATAAATTTAA
* *
5835320 TATTAAATATTAT
1 TAATAAAT-TTAA
* * *
5835333 TATTAAAATAAA
1 TAATAAATTTAA
5835345 TAATAAATTTAA
1 TAATAAATTTAA
5835357 TAATAAAT
1 TAATAAAT
5835365 GATTTCAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 3 0.09
12 22 0.63
13 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAAATTTAA
Found at i:5835363 original size:19 final size:18
Alignment explanation
Indices: 5835299--5835364 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
5835289 TATTAATACA
*
5835299 AATAATAATTTAATAATTT
1 AATAATAA-ATAATAATTT
* * *
5835318 AATATTAAATATTATTATT
1 AATAATAAATAATAAT-TT
5835337 AA-AATAAATAATAAATTT
1 AATAATAAATAAT-AATTT
5835355 AATAATAAAT
1 AATAATAAAT
5835365 GATTTCAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 17 0.46
19 20 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAATAATAATTT
Found at i:5835379 original size:24 final size:25
Alignment explanation
Indices: 5835352--5835407 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
5835342 AAATAATAAA
*
5835352 TTTAATAATAAATGATTTC-AATAT
1 TTTAATAATAAATAATTTCGAATAT
*
5835376 TTTAATAATATATAATTTCGAATAT
1 TTTAATAATAAATAATTTCGAATAT
5835401 TTTAATA
1 TTTAATA
5835408 TTTATGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTAATAATAAATAATTTCGAATAT
Found at i:5835788 original size:15 final size:15
Alignment explanation
Indices: 5835769--5835803 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
5835759 ATCTATCTTT
5835769 TAAAATTTATTTTCAA
1 TAAAA-TTATTTTCAA
5835785 -AAAATTATTTTCAA
1 TAAAATTATTTTCAA
5835799 TAAAA
1 TAAAA
5835804 CAAACAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTATTTTCAA
Found at i:5846404 original size:22 final size:23
Alignment explanation
Indices: 5846379--5846423 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5846369 TAATCTTTTC
* *
5846379 TTTTAAAT-TTTTAAATAAATAT
1 TTTTAAATATTATAAAAAAATAT
5846401 TTTTAAATATTATAAAAAAATAT
1 TTTTAAATATTATAAAAAAATAT
5846424 ATGTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTAAATATTATAAAAAAATAT
Found at i:5853709 original size:2 final size:2
Alignment explanation
Indices: 5853689--5853726 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
5853679 GGATTATTGG
* *
5853689 AT AT AA AT AT GT A- 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 AT AT AT AT AT AT A
5853727 AGCCAACTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5856146 original size:3 final size:3
Alignment explanation
Indices: 5856138--5856181 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
5856128 TTTGATTCTT
5856138 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5856182 TTGAGATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5858373 original size:13 final size:13
Alignment explanation
Indices: 5858313--5858388 Score: 61
Period size: 13 Copynumber: 6.0 Consensus size: 13
5858303 TCCTATATAT
*
5858313 TATTTATTTAAT-
1 TATTAATTTAATA
5858325 T-TTATATTTATATA
1 TATTA-ATTTA-ATA
**
5858339 TATTAATAAAAT-
1 TATTAATTTAATA
5858351 TATT-ATTTAATA
1 TATTAATTTAATA
* *
5858363 TCTTAATTTAAAA
1 TATTAATTTAATA
5858376 TATTAATTTAATA
1 TATTAATTTAATA
5858389 AAAATATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 7 0.14
12 13 0.27
13 22 0.45
14 4 0.08
15 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:5858379 original size:37 final size:38
Alignment explanation
Indices: 5858311--5858382 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
5858301 CGTCCTATAT
*
5858311 ATTATTTATTTAATTTTATATTTATATATATTAATAAA
1 ATTATTTATTTAATTTTATATTTATAAATATTAATAAA
5858349 ATTA-TTATTTAATATCTTA-ATTTA-AAATATTAAT
1 ATTATTTATTTAAT-T-TTATATTTATAAATATTAAT
5858383 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
37 18 0.58
38 10 0.32
39 3 0.10
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (38 bp):
ATTATTTATTTAATTTTATATTTATAAATATTAATAAA
Found at i:5858394 original size:17 final size:19
Alignment explanation
Indices: 5858372--5858408 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
5858362 ATCTTAATTT
5858372 AAAATATTA-ATTTA-ATA
1 AAAATATTATATTTATATA
5858389 AAAATATTATATTTATATA
1 AAAATATTATATTTATATA
5858408 A
1 A
5858409 TTAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATATTATATTTATATA
Found at i:5858400 original size:22 final size:22
Alignment explanation
Indices: 5858375--5858417 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5858365 TTAATTTAAA
*
5858375 ATATTAATTTAATAAAAATATT
1 ATATTAATATAATAAAAATATT
* *
5858397 ATATTTATATAATTAAAATAT
1 ATATTAATATAATAAAAATAT
5858418 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTAATATAATAAAAATATT
Found at i:5859637 original size:20 final size:19
Alignment explanation
Indices: 5859585--5859637 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
5859575 CGACTCGATA
5859585 TTAATTAAATATTAGTTTT
1 TTAATTAAATATTAGTTTT
*
5859604 TAAATGTAAAATATTA-TTGTT
1 TTAAT-T-AAATATTAGTT-TT
5859625 TTAATATAAATAT
1 TTAAT-TAAATAT
5859638 AAAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 9 0.32
21 15 0.54
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
TTAATTAAATATTAGTTTT
Found at i:5864419 original size:21 final size:20
Alignment explanation
Indices: 5864393--5864442 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
5864383 TTAAAAAATA
5864393 TGATATTGTGCTTGAA-TATGT
1 TGATATT-TGCTTGAATTA-GT
*
5864414 TGATATCTTGCTTTAATTAGT
1 TGATAT-TTGCTTGAATTAGT
5864435 TGATATTT
1 TGATATTT
5864443 TCACCAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 21 0.81
22 3 0.12
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (20 bp):
TGATATTTGCTTGAATTAGT
Found at i:5868925 original size:19 final size:19
Alignment explanation
Indices: 5868901--5868948 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
5868891 GAGAGAATTT
5868901 ATTATAACATAAATTTT-CA
1 ATTATAACAT-AATTTTCCA
5868920 ATTATAACATAATTTTCCA
1 ATTATAACATAATTTTCCA
5868939 ATTATAACAT
1 ATTATAACAT
5868949 TCTTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTATAACATAATTTTCCA
Found at i:5874757 original size:12 final size:12
Alignment explanation
Indices: 5874717--5874784 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
5874707 AGACACACCT
*
5874717 TTCAGTAAACCA
1 TTCAGCAAACCA
*
5874729 CTCAG-AAACATCA
1 TTCAGCAAAC--CA
5874742 TTCAGCAAACCA
1 TTCAGCAAACCA
*
5874754 TTCAG-AAACACC
1 TTCAGCAAAC-CA
*
5874766 TTCACCAAACCA
1 TTCAGCAAACCA
5874778 TTCAGCA
1 TTCAGCA
5874785 TATGATTCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 8 0.18
12 23 0.51
13 10 0.22
14 4 0.09
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.19
Consensus pattern (12 bp):
TTCAGCAAACCA
Found at i:5874774 original size:24 final size:24
Alignment explanation
Indices: 5874705--5874782 Score: 93
Period size: 25 Copynumber: 3.2 Consensus size: 24
5874695 AGCAATGTGC
* * *
5874705 TCAGACACACCTTTCAGTAAACCAC
1 TCAGAAACACC-TTCAGCAAACCAT
*
5874730 TCAGAAACATCATTCAGCAAACCAT
1 TCAGAAACA-CCTTCAGCAAACCAT
*
5874755 TCAGAAACACCTTCACCAAACCAT
1 TCAGAAACACCTTCAGCAAACCAT
5874779 TCAG
1 TCAG
5874783 CATATGATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 17 0.37
25 28 0.61
26 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.08, T:0.19
Consensus pattern (24 bp):
TCAGAAACACCTTCAGCAAACCAT
Found at i:5875648 original size:186 final size:185
Alignment explanation
Indices: 5875440--5876354 Score: 949
Period size: 186 Copynumber: 4.9 Consensus size: 185
5875430 AACCACTATT
* * * * * *
5875440 ATAATTATGTACGTAAATTAGAAGGAATTAGTGAATGTCTTTTTTTTGGAATAAATGCCTTTACT
1 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATG-CGTTTTTGTAGAATAAATGCCTTCACT
* * * * *
5875505 AACCGTTTCGAAATTTGAGTTATGAAATATTGAAGGTATTTTTCACTGGAAGACGTCTTTAATAA
65 AACCGTCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTCACTGGAAGACG-CTTTAATAA
* * * * **
5875570 TCCCAAAAATATTAAGAGAAAATTATTGAAGGCGTTTATTGT-CAAAAATGCCTTCA
129 TCTCAAAAATATTAAGAGAAAATTATTGAAGGCATTTGTTGTAAAAAAACACCTTCA
* * * * ** *
5875626 ATAATTATGCATGTATATTAGAAAGAATTAGTGAAAGCATTTTTTGTAGAATAAACACATTCACT
1 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATGC-GTTTTTGTAGAATAAATGCCTTCACT
* * *
5875691 AACCATCTCAAAATCTGAGTTGTGAAATATTGAAAGC-GTTTTCTACTGGAAGACGCCTTTAATA
65 AACCGTCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTC-ACTGGAAGACG-CTTTAATA
* ** * *
5875755 ATCTTAAAAATATTAAGAGAAAATTATTGAAGGTGTTTGTTGTCAAAAAATACCTTCA
128 ATCTCAAAAATATTAAGAGAAAATTATTGAAGGCATTTGTTGTAAAAAAACACCTTCA
* * * * *
5875813 ATAATTATACACGTAAATTAAAAAGAATTAGTAAATGCATTTTTGTAAAATAAATGCCTTCACTA
1 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATGCGTTTTTGTAGAATAAATGCCTTCACTA
* * * * * * * * * * *
5875878 ACTGTCTTAAAGTCTGAGTTATGGAATATTAAAGGCGTTTGTCCCTGGAAGATGCTATTAAAAAT
66 ACCGTCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTCACTGGAAGACGCT-TTAATAAT
* * * *
5875943 CCCAAAAATATTAAGAGAAAATTATTAAAGGTATTTTTTGTAAAAAAAAAAAACACCTTCA
130 CTCAAAAATATTAAGAGAAAATTATTGAAGGCATTTGTTGT-----AAAAAAACACCTTCA
* * *
5876004 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAAGGTGTTTTTGTAGAATAAACGCCTTCACTA
1 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATGCGTTTTTGTAGAATAAATGCCTTCACTA
* * * * **
5876069 A-CGATCCCAAAATATAAGTTGT-AAATATTGAAGGCATTTTCCACTAAAAG-CTGCTTTTAATA
66 ACCG-TCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTCACTGGAAGAC-GC-TTTAATA
* * * *
5876131 ATCTCAAAAATACTAAGAGAAAATTATTGAAGGCATTTGTTTTGAAAAAACGCCTTCA
128 ATCTCAAAAATATTAAGAGAAAATTATTGAAGGCATTTGTTGTAAAAAAACACCTTCA
* * * * * * *
5876189 AAAATTATGTATGTAAATTAAAAAGAATTAATGAAGGCGTTTCTGTAGAATAAATGCCTTCACTA
1 ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATGCGTTTTTGTAGAATAAATGCCTTCACTA
** * * *
5876254 ATTGTCTCAAAATTTGAGTTGTGAAATATTGAAGACATTTTTCACTGAAAGACGCTTTTAATAAT
66 ACCGTCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTCACTGGAAGACGC-TTTAATAAT
* *
5876319 CTCAAAAATATTAGGAGAAAATTATTGAAGGTATTT
130 CTCAAAAATATTAAGAGAAAATTATTGAAGGCATTT
5876355 TTCAATAATC
Statistics
Matches: 605, Mismatches: 108, Indels: 32
0.81 0.14 0.04
Matches are distributed among these distances:
185 94 0.16
186 313 0.52
187 49 0.08
190 65 0.11
191 84 0.14
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (185 bp):
ATAATTATGCACGTAAATTAGAAAGAATTAGTGAATGCGTTTTTGTAGAATAAATGCCTTCACTA
ACCGTCTCAAAATCTGAGTTGTGAAATATTGAAGGCATTTTTCACTGGAAGACGCTTTAATAATC
TCAAAAATATTAAGAGAAAATTATTGAAGGCATTTGTTGTAAAAAAACACCTTCA
Found at i:5876207 original size:376 final size:370
Alignment explanation
Indices: 5875442--5876356 Score: 1084
Period size: 376 Copynumber: 2.4 Consensus size: 370
5875432 CCACTATTAT
* * * * * *
5875442 AATTATGTACGTAAATTAGAAGGAATTAGTGAATGTCTTTTTTTTGGAATAAATGCCTTTACTAA
1 AATTATGTACGTAAATTAAAAAGAATTAGTGAATG-CATTTTTGTAGAATAAATGCCTTCACTAA
* *
5875507 CCGT-TTCGAAATTTGAGTTATGAAATATTGAAGGTATTTTTCACTGGAAGACGTCTTTAATAAT
65 CTGTCTT--AAATTTGAGTTATGAAATATTGAAGGCATTTTTCACTGGAAGACG-CTTTAATAAT
** * * **
5875571 CCCAAAAATATTAAGAGAAAATTATTGAAGGCGTTTATTGTCAAAAATGCCTTCAATAATTATGC
127 CCCAAAAATATTAAGAGAAAATTATTGAAGGTATTTTTTGTAAAAAACACCTTCAATAATTATGC
* * *
5875636 ATGTATATTAGAAAGAATTAGTGAAAGCATTTTTTGTAGAATAAACACATTCACTAACCATCTCA
192 ACGTAAATTAGAAAGAATTAGTGAAAGCATTTTTTGTAGAATAAACACATTCACTAACCATCCCA
* * * * ** *
5875701 AAATCTGAGTTGTGAAATATTGAAAGCGTTTTCTACTGGAAGACGCCTTTAATAATCTTAAAAAT
257 AAATATAAGTTGTGAAATATTGAAAGCATTTTCCACTAAAAGACGCCTTTAATAATCTCAAAAAT
* ** * *
5875766 ATTAAGAGAAAATTATTGAAGGTGTTTGTTGTCAAAAAATACCTTCAAT
322 ACTAAGAGAAAATTATTGAAGGCATTTGTTGTCAAAAAACACCTTCAAA
** * *
5875815 AATTATACACGTAAATTAAAAAGAATTAGTAAATGCATTTTTGTAAAATAAATGCCTTCACTAAC
1 AATTATGTACGTAAATTAAAAAGAATTAGTGAATGCATTTTTGTAGAATAAATGCCTTCACTAAC
* * * * * * * *
5875880 TGTCTTAAAGTCTGAGTTATGGAATATTAAAGGCGTTTGTCCCTGGAAGATGCTATTAAAAATCC
66 TGTCTTAAA-TTTGAGTTATGAAATATTGAAGGCATTTTTCACTGGAAGACGCT-TTAATAATCC
*
5875945 CAAAAATATTAAGAGAAAATTATTAAAGGTATTTTTTGTAAAAAAAAAAAACACCTTCAATAATT
129 CAAAAATATTAAGAGAAAATTATTGAAGGTATTTTTTGT------AAAAAACACCTTCAATAATT
* * * *
5876010 ATGCACGTAAATTAGAAAGAATTAGTG-AAG-GTGTTTTTGTAGAATAAACGCCTTCACTAACGA
188 ATGCACGTAAATTAGAAAGAATTAGTGAAAGCAT-TTTTTGTAGAATAAACACATTCACTAACCA
* *
5876073 TCCCAAAATATAAGTTGT-AAATATTGAAGGCATTTTCCACTAAAAG-CTGCTTTTAATAATCTC
252 TCCCAAAATATAAGTTGTGAAATATTGAAAGCATTTTCCACTAAAAGAC-GCCTTTAATAATCTC
* * *
5876136 AAAAATACTAAGAGAAAATTATTGAAGGCATTTGTTTTGAAAAAACGCCTTCAAA
316 AAAAATACTAAGAGAAAATTATTGAAGGCATTTGTTGTCAAAAAACACCTTCAAA
* * * * * *
5876191 AATTATGTATGTAAATTAAAAAGAATTAATGAAGGCGTTTCTGTAGAATAAATGCCTTCACTAAT
1 AATTATGTACGTAAATTAAAAAGAATTAGTGAATGCATTTTTGTAGAATAAATGCCTTCACTAAC
* * * * *
5876256 TGTCTCAAAATTTGAGTTGTGAAATATTGAAGACATTTTTCACTGAAAGACGCTTTTAATAATCT
66 TGTCT-TAAATTTGAGTTATGAAATATTGAAGGCATTTTTCACTGGAAGACGC-TTTAATAATCC
*
5876321 CAAAAATATTAGGAGAAAATTATTGAAGGTATTTTT
129 CAAAAATATTAAGAGAAAATTATTGAAGGTATTTTT
5876357 CAATAATCTC
Statistics
Matches: 453, Mismatches: 76, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
371 5 0.01
372 105 0.23
373 32 0.07
375 1 0.00
376 219 0.48
377 49 0.11
378 42 0.09
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (370 bp):
AATTATGTACGTAAATTAAAAAGAATTAGTGAATGCATTTTTGTAGAATAAATGCCTTCACTAAC
TGTCTTAAATTTGAGTTATGAAATATTGAAGGCATTTTTCACTGGAAGACGCTTTAATAATCCCA
AAAATATTAAGAGAAAATTATTGAAGGTATTTTTTGTAAAAAACACCTTCAATAATTATGCACGT
AAATTAGAAAGAATTAGTGAAAGCATTTTTTGTAGAATAAACACATTCACTAACCATCCCAAAAT
ATAAGTTGTGAAATATTGAAAGCATTTTCCACTAAAAGACGCCTTTAATAATCTCAAAAATACTA
AGAGAAAATTATTGAAGGCATTTGTTGTCAAAAAACACCTTCAAA
Found at i:5876364 original size:45 final size:43
Alignment explanation
Indices: 5876309--5876398 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 43
5876299 TGAAAGACGC
* *
5876309 TTTTAATAATCTCAAAAATATTAGGAGAAAATTATTGAAGGTAT
1 TTTTAATAATCTCAAAAATATTAAGAGAAAATTATTAAAGG-AT
5876353 TTTTCAATAATCTCAAAAATATTAAGAGAAAATTATTAAAGGAT
1 TTTT-AATAATCTCAAAAATATTAAGAGAAAATTATTAAAGGAT
5876397 TT
1 TT
5876399 GTTTTCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.37
Consensus pattern (43 bp):
TTTTAATAATCTCAAAAATATTAAGAGAAAATTATTAAAGGAT
Found at i:5876572 original size:415 final size:417
Alignment explanation
Indices: 5875940--5876764 Score: 1058
Period size: 415 Copynumber: 2.0 Consensus size: 417
5875930 TGCTATTAAA
5875940 AATCCCAAAAATATTAAGAGAAAATTATTAAAGGTATTTTTTGTAAAAAAAAAAAACACCTTCAA
1 AATCCCAAAAATATTAAGAGAAAATTATTAAAGGTATTTTTTGT----AAAAAAAACACCTTCAA
* * * *
5876005 TAATTATGCACGTAAATTAGAAAGAATTAGTGAAGGTGTTTTTGTAGAATAAACGCCTTCACTAA
62 AAATTATGCACGTAAATTAGAAAGAATTAATGAAGGTGTTTCTGTAGAATAAACACCTTCACTAA
5876070 CGATCCCAAAATATAAGTTGTAAATATTGAAGGCATTTTCCACTAAAAGCTGCTTTTAATAATCT
127 CGATCCCAAAATATAAGTTGTAAATATTGAAGGCATTTTCCACTAAAAGCTGCTTTTAATAATCT
* * * * * * *
5876135 CAAAAATACTAAGAGAAAATTATTGAAGGCATTTGTTTTGAAAAAACGCCTTCAAAAATTATGTA
192 CAAAAATACTAACAAAAAATTATTAAAGGCATTTGTTATCAAAAAACACATTCAAAAATTATGTA
* * * * * ** *
5876200 TGTAAATTAAAAAGAATTAATGAAGGCGTTTCTGTAGAATAAATGCCTTCACTAATTGTCTCAAA
257 CGTAAATTAAAAAGAATTAATAAAGACGTTTATGTAGAATAAATGCCTTCACCAACCGTATCAAA
* * * * *
5876265 ATTTGAGTTGTGAAATATTGAAGACATTTT-TCACT-GAAAGACGCTTTTAATAATC-TCAAAAA
322 ATCTAAGTTGTGAAATATTGAAGACATTTTCT-ACTGGAAA-ACACCTTTAATAATCGTAAAAAA
* *
5876327 TATTAGGAGAAAATTATTGAAGGTATTTTTCAAT
385 T-TTAAGAGAAAATTATTAAAGGTATTTTTCAAT
* * *
5876361 AATCTCAAAAATATTAAGAGAAAATTATTAAAGG-ATTTGTTT-T-CAAAAAATACCTTCAAAAA
1 AATCCCAAAAATATTAAGAGAAAATTATTAAAGGTATTT-TTTGTAAAAAAAACACCTTCAAAAA
*
5876423 TTATGCACGTAAATTAGAAAGAATTAATGAAGGTGTTTCTGTAGAATAAACACCTTCACTAACTA
65 TTATGCACGTAAATTAGAAAGAATTAATGAAGGTGTTTCTGTAGAATAAACACCTTCACTAACGA
* * * * **
5876488 TCTCAAAATTTGAGTTGTGAAATATTGAAGGCGTTTT-CACTGGAAGAC-GTCTTTT-ATAATC-
130 TCCCAAAATATAAGTTGT-AAATATTGAAGGCATTTTCCACTAAAAG-CTG-CTTTTAATAATCT
* ** * *
5876549 CTAAAAATATTAACAAAAAATTATTAAAGGTGTTTGTTATCAAAAACCACATTCAATAATTATGT
192 C-AAAAATACTAACAAAAAATTATTAAAGGCATTTGTTATCAAAAAACACATTCAAAAATTATGT
* * *
5876614 ACGTAAATTAGAAAGAATTAGTAAAGATGTTTATGTAGAATAAATGCCTTCACCAACCGTATCAA
256 ACGTAAATTAAAAAGAATTAATAAAGACGTTTATGTAGAATAAATGCCTTCACCAACCGTATCAA
* *
5876679 AATCTAAGTTGTGGAATATTGAAGGCATTTTCTACTGGAAAACACCTTTAATAATCGTAAAAAAT
321 AATCTAAGTTGTGAAATATTGAAGACATTTTCTACTGGAAAACACCTTTAATAATCGTAAAAAAT
5876744 TTAAGAGAAAATTATTAAAGG
386 TTAAGAGAAAATTATTAAAGG
5876765 CGTTTGTTCT
Statistics
Matches: 350, Mismatches: 46, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
414 1 0.00
415 273 0.78
416 35 0.10
420 5 0.01
421 36 0.10
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (417 bp):
AATCCCAAAAATATTAAGAGAAAATTATTAAAGGTATTTTTTGTAAAAAAAACACCTTCAAAAAT
TATGCACGTAAATTAGAAAGAATTAATGAAGGTGTTTCTGTAGAATAAACACCTTCACTAACGAT
CCCAAAATATAAGTTGTAAATATTGAAGGCATTTTCCACTAAAAGCTGCTTTTAATAATCTCAAA
AATACTAACAAAAAATTATTAAAGGCATTTGTTATCAAAAAACACATTCAAAAATTATGTACGTA
AATTAAAAAGAATTAATAAAGACGTTTATGTAGAATAAATGCCTTCACCAACCGTATCAAAATCT
AAGTTGTGAAATATTGAAGACATTTTCTACTGGAAAACACCTTTAATAATCGTAAAAAATTTAAG
AGAAAATTATTAAAGGTATTTTTCAAT
Found at i:5876681 original size:185 final size:185
Alignment explanation
Indices: 5876358--5876772 Score: 521
Period size: 185 Copynumber: 2.2 Consensus size: 185
5876348 GGTATTTTTC
* * * *
5876358 AATAAT-CTCAAAAATATTAAGAGAAAATTATTAAAGGATTTGTTTTCAAAAAATACCTTCAAAA
1 AATAATCCT-AAAAATATTAAGAGAAAATTATTAAAGGGTTTGTTATCAAAAAACACATTCAAAA
* * * * *
5876422 ATTATGCACGTAAATTAGAAAGAATTAATGAAGGTGTTTCTGTAGAATAAACACCTTCACTAACT
65 ATTATGCACGTAAATTAGAAAGAATTAATAAAGATGTTTATGTAGAATAAACACCTTCACCAACC
* * * * * **
5876487 ATCTCAAAATTTGAGTTGTGAAATATTGAAGGCGTTTTC-ACTGGAAGACGTCTTT
130 ATATCAAAATCTAAGTTGTGAAATATTGAAGGCATTTTCTACTGGAAAACACCTTT
* * * * *
5876542 TATAATCCTAAAAATATTAACAAAAAATTATTAAAGGTGTTTGTTATCAAAAACCACATTCAATA
1 AATAATCCTAAAAATATTAAGAGAAAATTATTAAAGG-GTTTGTTATCAAAAAACACATTCAAAA
* * **
5876607 ATTATGTACGTAAATTAGAAAGAATTAGTAAAGATGTTTATGTAGAATAAATGCCTTCACCAACC
65 ATTATGCACGTAAATTAGAAAGAATTAATAAAGATGTTTATGTAGAATAAACACCTTCACCAACC
* *
5876672 GTATCAAAATCTAAGTTGTGGAATATTGAAGGCATTTTCTACTGGAAAACACCTTT
130 ATATCAAAATCTAAGTTGTGAAATATTGAAGGCATTTTCTACTGGAAAACACCTTT
*
5876728 AATAATCGTAAAAA-ATTTAAGAGAAAATTATTAAAGGCGTTTGTT
1 AATAATCCTAAAAATA-TTAAGAGAAAATTATTAAAGG-GTTTGTT
5876773 CTTAAGAAAT
Statistics
Matches: 195, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
184 31 0.16
185 113 0.58
186 51 0.26
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (185 bp):
AATAATCCTAAAAATATTAAGAGAAAATTATTAAAGGGTTTGTTATCAAAAAACACATTCAAAAA
TTATGCACGTAAATTAGAAAGAATTAATAAAGATGTTTATGTAGAATAAACACCTTCACCAACCA
TATCAAAATCTAAGTTGTGAAATATTGAAGGCATTTTCTACTGGAAAACACCTTT
Found at i:5886517 original size:21 final size:21
Alignment explanation
Indices: 5886493--5886533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5886483 ATAATAAAAA
5886493 TATTATTTAA-TATATTATTAT
1 TATTATTTAATTAT-TTATTAT
*
5886514 TATTTTTTAATTATTTATTA
1 TATTATTTAATTATTTATTA
5886534 ATAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTATTTAATTATTTATTAT
Found at i:5886653 original size:8 final size:9
Alignment explanation
Indices: 5886625--5886655 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
5886615 TAATTTTTAA
5886625 TTTAATATT
1 TTTAATATT
5886634 TTTAATATT
1 TTTAATATT
5886643 TTTAATATT
1 TTTAATATT
5886652 TTTA
1 TTTA
5886656 TTATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTAATATT
Found at i:5886725 original size:21 final size:21
Alignment explanation
Indices: 5886701--5886769 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
5886691 TTAAAAAATT
5886701 TTTTTTTATTATTAATTTTAA
1 TTTTTTTATTATTAATTTTAA
* *
5886722 TTTTATTATTA-TAATAATTAA
1 TTTTTTTATTATTAAT-TTTAA
* *
5886743 TTTTATATCTATCATTATTTTTAA
1 TTTT-T-T-TATTATTAATTTTAA
5886767 TTT
1 TTT
5886770 CATCAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.11
21 18 0.49
23 1 0.03
24 11 0.30
25 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTATTATTAATTTTAA
Found at i:5887710 original size:20 final size:19
Alignment explanation
Indices: 5887678--5887725 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
5887668 TTTATTTTAT
* * *
5887678 AAAAAATTAATTAGTTAAC
1 AAAAAATAAATTAATCAAC
5887697 AAAAAATAATATTAATCAAC
1 AAAAAATAA-ATTAATCAAC
5887717 AAAAAATAA
1 AAAAAATAA
5887726 GATAATAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAATAAATTAATCAAC
Found at i:5887971 original size:42 final size:46
Alignment explanation
Indices: 5887888--5887971 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 46
5887878 ATTTAACCCG
* **
5887888 ACTTAAAATATTATTATATTAATAAATAATATTTTTATTTAATTTT
1 ACTTAAAATATTATAATATTAATAAATAATAAGTTTATTTAATTTT
*
5887934 ACTTAAAA-ATTATAATATTAAT-ATTAA-AAGTTT-TTTAA
1 ACTTAAAATATTATAATATTAATAAATAATAAGTTTATTTAA
5887972 CATTTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
42 5 0.15
43 4 0.12
44 4 0.12
45 13 0.38
46 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (46 bp):
ACTTAAAATATTATAATATTAATAAATAATAAGTTTATTTAATTTT
Found at i:5888474 original size:16 final size:16
Alignment explanation
Indices: 5888453--5888491 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
5888443 TAAAATGAGA
*
5888453 AAATATTTTATAGT-AT
1 AAATATTTT-TAATAAT
5888469 AAATATTTTTAATAAT
1 AAATATTTTTAATAAT
5888485 AAATATT
1 AAATATT
5888492 ACTATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
AAATATTTTTAATAAT
Found at i:5888519 original size:20 final size:20
Alignment explanation
Indices: 5888454--5888563 Score: 54
Period size: 20 Copynumber: 5.7 Consensus size: 20
5888444 AAAATGAGAA
* *
5888454 AATATTTT-ATAGTATAAAT
1 AATATTTTAATATTAAAAAT
* *
5888473 -AT-TTTTAATAATAAATATT
1 AATATTTTAATATTAAA-AAT
*
5888492 ACTA-TTTAATATTAAAAAT
1 AATATTTTAATATTAAAAAT
* *
5888511 AATATTTTAAGAATT-AAAGT
1 AATATTTTAA-TATTAAAAAT
* *
5888531 AAT-TTTTAGT-TTTAAAAT
1 AATATTTTAATATTAAAAAT
*
5888549 ATTAATTTTAATATT
1 AAT-ATTTTAATATT
5888564 TTTATTTATT
Statistics
Matches: 67, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.09
18 14 0.21
19 12 0.18
20 30 0.45
21 5 0.07
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (20 bp):
AATATTTTAATATTAAAAAT
Found at i:5888691 original size:210 final size:208
Alignment explanation
Indices: 5888325--5888707 Score: 564
Period size: 210 Copynumber: 1.8 Consensus size: 208
5888315 TTTTTTTCAT
5888325 TTTTTAGTTTAAAATATATAATTTTATATTTTTATTTATTAAGGTATTAATATTCCTATTTTAAT
1 TTTTTAGTTTAAAATATATAATTTTATATTTTTATTTATTAAGGTATTAATATTCCTATTTTAAT
* * *
5888390 AATAATATAAATAAAAAATTTTAGTTATGACTTAAAAATATATCCCTTTTAATTAAAATGAGAAA
66 AATAATAGAAATAAAAAAATTTAGTTATGACTTAAAAATATATACCTTTTAATTAAAATGAGAAA
*
5888455 ATATTTTATAGTATAAATATTTTTAATAATAAATATTACTATTTAATATTAAAAATAATATTTTA
131 ATATTTTATAGTATAAATATTTTTAATAATAAATATTAATATTTAATATTAAAAATAATATTTTA
5888520 AGAATTAAAGTAA
196 AGAATTAAAGTAA
5888533 TTTTTAGTTTTAAAATAT-TAATTTTAATATTTTTATTTATTAA-GTATTTATATATTACC-ATT
1 TTTTTAG-TTTAAAATATATAATTTT-ATATTTTTATTTATTAAGGTA-TTA-ATATT-CCTATT
* * *
5888595 TTTATAATAAATTAGAAATAAAAAAATTTAGTTATGATTTAAAAATATATAGC-TTTAATATAAA
61 TTAATAAT-AA-TAGAAATAAAAAAATTTAGTTATGACTTAAAAATATATACCTTTTAAT-TAAA
*
5888659 AT-A-CAAATATTTTAATAGTATAAATA-TTTTAATAATAAATATTAATATT
123 ATGAGAAAATATTTT-ATAGTATAAATATTTTTAATAATAAATATTAATATT
5888708 AAAAATAAAA
Statistics
Matches: 158, Mismatches: 8, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
208 17 0.11
209 30 0.19
210 46 0.29
211 23 0.15
212 42 0.27
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (208 bp):
TTTTTAGTTTAAAATATATAATTTTATATTTTTATTTATTAAGGTATTAATATTCCTATTTTAAT
AATAATAGAAATAAAAAAATTTAGTTATGACTTAAAAATATATACCTTTTAATTAAAATGAGAAA
ATATTTTATAGTATAAATATTTTTAATAATAAATATTAATATTTAATATTAAAAATAATATTTTA
AGAATTAAAGTAA
Found at i:5888698 original size:15 final size:16
Alignment explanation
Indices: 5888663--5888701 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
5888653 TATAAAATAC
5888663 AAATATTTTAATAGTAT
1 AAATATTTTAATAG-AT
5888680 AAATATTTTAATA-AT
1 AAATATTTTAATAGAT
5888695 AAATATT
1 AAATATT
5888702 AATATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 9 0.41
17 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AAATATTTTAATAGAT
Found at i:5888834 original size:33 final size:33
Alignment explanation
Indices: 5888770--5888834 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
5888760 ATATAAAGAA
* * * *
5888770 TAATAAATAATTTTATTTTGAGTATTTTTATAT
1 TAATAAATAATTTTATATTAAATATTATTATAT
5888803 TAATAAAT-ATTTTAATATTAAATATTATTATA
1 TAATAAATAATTTT-ATATTAAATATTATTATA
5888835 AAAATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (33 bp):
TAATAAATAATTTTATATTAAATATTATTATAT
Found at i:5888889 original size:25 final size:25
Alignment explanation
Indices: 5888856--5888917 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
5888846 ATTCTTGAAT
*
5888856 AATAATTTAATAATAAATAA-TTTG
1 AATATTTTAATAATAAATAACTTTG
*
5888880 AATATCTTTAATAATAAATAACTTTT
1 AATAT-TTTAATAATAAATAACTTTG
5888906 AATATTTTAATA
1 AATATTTTAATA
5888918 CTTATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 4 0.12
25 22 0.65
26 8 0.24
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (25 bp):
AATATTTTAATAATAAATAACTTTG
Found at i:5889236 original size:6 final size:6
Alignment explanation
Indices: 5889214--5889261 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
5889204 AATTAAATTA
* * * *
5889214 AATTTC AATTTC AATTTTG ATTTTA AATTTG AATTTG AATTTG AATTT
1 AATTTG AATTTG AA-TTTG AATTTG AATTTG AATTTG AATTTG AATTT
5889262 TTTTCTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
6 32 0.89
7 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (6 bp):
AATTTG
Found at i:5890222 original size:27 final size:26
Alignment explanation
Indices: 5890182--5890240 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
5890172 TATTTGATAC
*
5890182 ATAA-ATTATAATAAGA-TAGGATAAG
1 ATAATATTATAATAAGATTA-GATAAA
5890207 ATAATATTATGAATAAGATTAGATAAA
1 ATAATATTAT-AATAAGATTAGATAAA
5890234 ATAATAT
1 ATAATAT
5890241 CATACTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 4 0.13
26 5 0.17
27 19 0.63
28 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (26 bp):
ATAATATTATAATAAGATTAGATAAA
Found at i:5891620 original size:89 final size:89
Alignment explanation
Indices: 5891482--5891651 Score: 200
Period size: 89 Copynumber: 1.9 Consensus size: 89
5891472 TGAGTCTCAA
* * * *
5891482 GGGTTTTGGGGTTTGGTCTTAGGGTTTAGAGGGTTTTAGGGCTTGAATTTTAAGGTTTGGAA-AG
1 GGGTTTTGAGGTTTGGTCTTAGAGTTTAGAGGGTTTAAGGGCTTGAATTTCAAGGTTTGGAAGA-
5891546 CTTAGGATTTTGATTTTTAGGTTTG
65 CTTAGGATTTTGATTTTTAGGTTTG
* * ** * * *
5891571 GGGTTTTGAGGTTTTGTTTTAGAGTTT-GAAGGGTTTAAGGTTTTTAATTTCATGGTTTGGAGGA
1 GGGTTTTGAGGTTTGGTCTTAGAGTTTAG-AGGGTTTAAGGGCTTGAATTTCAAGGTTTGGAAGA
*
5891635 TTTAGGATTTTGATTTT
65 CTTAGGATTTTGATTTT
5891652 ATGGTTTATG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
88 1 0.01
89 65 0.97
90 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (89 bp):
GGGTTTTGAGGTTTGGTCTTAGAGTTTAGAGGGTTTAAGGGCTTGAATTTCAAGGTTTGGAAGAC
TTAGGATTTTGATTTTTAGGTTTG
Found at i:5891708 original size:29 final size:29
Alignment explanation
Indices: 5891528--5891863 Score: 117
Period size: 29 Copynumber: 11.4 Consensus size: 29
5891518 TAGGGCTTGA
* *
5891528 ATTTTAAGGTTTGGAAAGCTTAGGA-TTTTG
1 ATTTTAAGGTTT-G-AAGGTTTGGAGTTTTG
* * *
5891558 ATTTTTAGGTTTG-GGGTTTTGAGGTTTTG
1 ATTTTAAGGTTTGAAGGTTTGGA-GTTTTG
* *
5891587 -TTTT-AGAGTTTGAAGGGTTTAAGG-TTTTTA
1 ATTTTAAG-GTTTGAA-GGTTT--GGAGTTTTG
* * *
5891617 ATTTCATGGTTTGGAGGATTTAGGA-TTTTG
1 ATTTTAAGGTTTGAAGG-TTT-GGAGTTTTG
* * *
5891647 ATTTTATGGTTT-ATGGGGTTTAGG-G-TTTA
1 ATTTTAAGGTTTGA--AGGTTT-GGAGTTTTG
5891676 ATTTTAAGGTTTGAAGGTTTGGAGTTTTG
1 ATTTTAAGGTTTGAAGGTTTGGAGTTTTG
* *
5891705 ATTTTATA-GTTTGGAGGTTTGGGGTTTTG
1 ATTTTA-AGGTTTGAAGGTTTGGAGTTTTG
* * *
5891734 ATTGTAAGGTTTAGAAAGTTTAGG-G-TTTA
1 ATTTTAAGGTTT-GAAGGTTT-GGAGTTTTG
* **
5891763 ATTTTAGGGTTTAGGGGGTTTAGGA-TTTTG
1 ATTTTAAGGTTT-GAAGGTTT-GGAGTTTTG
* * * *
5891793 -TTTTTAGAGTTTGGAGGTTTAGAG-TTTA
1 ATTTTAAG-GTTTGAAGGTTTGGAGTTTTG
* * * *
5891821 ATTTTAGGGTTTAAGAGGTTTAGAGTTTCG
1 ATTTTAAGGTTTGA-AGGTTTGGAGTTTTG
* *
5891851 TTTTTAGGGTTTG
1 ATTTTAAGGTTTG
5891864 GATTTCAAGG
Statistics
Matches: 233, Mismatches: 45, Indels: 56
0.70 0.13 0.17
Matches are distributed among these distances:
27 9 0.04
28 25 0.11
29 106 0.45
30 75 0.32
31 16 0.07
32 2 0.01
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.49
Consensus pattern (29 bp):
ATTTTAAGGTTTGAAGGTTTGGAGTTTTG
Found at i:5891813 original size:58 final size:57
Alignment explanation
Indices: 5891547--5891865 Score: 189
Period size: 58 Copynumber: 5.4 Consensus size: 57
5891537 TTTGGAAAGC
* ** * *
5891547 TTAGGATTTTGATTTTTAGGTTTGG-GGTTTTGAGGTTTTGTTTTAGAGTTT-GAAGGGT
1 TTAGGATTTTG-TTTTTAGGTTTGGAGGTTTAG-GGTTTAATTTTAGGGTTTAG-GGGGT
* ** * * * * *
5891605 TTAAGGTTTTTAATTTCATGGTTTGGAGGATTTAGGATTTTGATTTTATGGTTTATGGGGT
1 TT-AGGATTTTGTTTTTA-GGTTTGGAGG-TTTAGG-GTTTAATTTTAGGGTTTAGGGGGT
* ** * * * ** *
5891666 TTAGGGTTTAATTTTAAGGTTTGAAGGTTT-GGAGTTTTGATTTTATAGTTT-GGAGGT
1 TTAGGATTTTGTTTTTAGGTTTGGAGGTTTAGG-G-TTTAATTTTAGGGTTTAGGGGGT
* * * * * *
5891723 TTGGGGTTTTGATTGTAAGGTTTAGAAAGTTTAGGGTTTAATTTTAGGGTTTAGGGGGT
1 TTAGGATTTTG-TTTTTAGGTTT-GGAGGTTTAGGGTTTAATTTTAGGGTTTAGGGGGT
* * *
5891782 TTAGGATTTTGTTTTTAGAGTTTGGAGGTTTAGAGTTTAATTTTAGGGTTTAAGAGGT
1 TTAGGATTTTGTTTTTAG-GTTTGGAGGTTTAGGGTTTAATTTTAGGGTTTAGGGGGT
*
5891840 TTA-GAGTTTCGTTTTTAGGGTTTGGA
1 TTAGGA-TTTTGTTTTTA-GGTTTGGA
5891866 TTTCAAGGTC
Statistics
Matches: 207, Mismatches: 40, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
57 17 0.08
58 102 0.49
59 50 0.24
60 16 0.08
61 22 0.11
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (57 bp):
TTAGGATTTTGTTTTTAGGTTTGGAGGTTTAGGGTTTAATTTTAGGGTTTAGGGGGT
Found at i:5891842 original size:87 final size:86
Alignment explanation
Indices: 5891625--5891863 Score: 239
Period size: 87 Copynumber: 2.7 Consensus size: 86
5891615 TAATTTCATG
* * * * *
5891625 GTTTGGAGGATTTAGGATTTTGATTTTATGGTTTATGGGGTTTAGGGTTTAATTTTAAGGTTTGA
1 GTTTGGAGG-TTTA-GAGTTTGATTTTAAGGTTTAAGAGGTTTAGGGTTTAATTTTAGGGTTTGA
*
5891690 AGGTTTGGAGTTTTGATTTTATA
64 AGGTTTGGAGTTTTGATTTTAGA
* * * *
5891713 GTTTGGAGGTTTGGGGTTTTGATTGTAAGGTTT-AGAAAGTTTAGGGTTTAATTTTAGGGTTTAG
1 GTTTGGAGGTTTAGAG-TTTGATTTTAAGGTTTAAG-AGGTTTAGGGTTTAATTTTAGGGTTT-G
** *
5891777 GGGGTTTAGGA-TTTTGTTTTTAGA
63 AAGGTTT-GGAGTTTTGATTTTAGA
* * * **
5891801 GTTTGGAGGTTTAGAGTTTAATTTTAGGGTTTAAGAGGTTTAGAGTTTCGTTTTTAGGGTTTG
1 GTTTGGAGGTTTAGAGTTTGATTTTAAGGTTTAAGAGGTTTAGGGTTT-AATTTTAGGGTTTG
5891864 GATTTCAAGG
Statistics
Matches: 123, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
86 2 0.02
87 65 0.53
88 53 0.43
89 3 0.02
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (86 bp):
GTTTGGAGGTTTAGAGTTTGATTTTAAGGTTTAAGAGGTTTAGGGTTTAATTTTAGGGTTTGAAG
GTTTGGAGTTTTGATTTTAGA
Found at i:5891893 original size:14 final size:15
Alignment explanation
Indices: 5891856--5891894 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5891846 TTTCGTTTTT
5891856 AGGGTTTGGATTTCA
1 AGGGTTTGGATTTCA
5891871 A-GGTCTTGGATTT-A
1 AGGGT-TTGGATTTCA
5891885 AGGGTTTGGA
1 AGGGTTTGGA
5891895 AATTTTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.21, C:0.05, G:0.36, T:0.38
Consensus pattern (15 bp):
AGGGTTTGGATTTCA
Found at i:5891947 original size:14 final size:14
Alignment explanation
Indices: 5891752--5891969 Score: 77
Period size: 14 Copynumber: 15.2 Consensus size: 14
5891742 GTTTAGAAAG
*
5891752 TTTAGGGTTT-AAT
1 TTTAGGGTTTGGAT
**
5891765 TTTAGGGTTTAGGGGG
1 TTTAGGGTTT--GGAT
* * *
5891781 TTTAGGATTTTGTT
1 TTTAGGGTTTGGAT
* *
5891795 TTTAGAGTTTGGAGG
1 TTTAGGGTTTGGA-T
* *
5891810 TTTAGAGTTT-AAT
1 TTTAGGGTTTGGAT
* *
5891823 TTTAGGGTTTAAGAGG
1 TTTAGGGTTT-GGA-T
* * *
5891839 TTTAGAGTTTCGTT
1 TTTAGGGTTTGGAT
5891853 TTTAGGGTTTGGAT
1 TTTAGGGTTTGGAT
* *
5891867 TTCAAGGTCTTGGAT
1 TTTAGGGT-TTGGAT
*
5891882 TTAAGGGTTTGGAAAT
1 TTTAGGGTTTGG--AT
* *
5891898 TTTA-AGTTTTGAT
1 TTTAGGGTTTGGAT
*
5891911 TTTAGAGTTTTGG--
1 TTTAG-GGTTTGGAT
*
5891924 TTTAGAGGTTTTGAT
1 TTTAG-GGTTTGGAT
* *
5891939 TTTAGGGTTAGGTT
1 TTTAGGGTTTGGAT
* *
5891953 TTTAAGGTTTAGAT
1 TTTAGGGTTTGGAT
5891967 TTT
1 TTT
5891970 TTATTTTTTA
Statistics
Matches: 148, Mismatches: 43, Indels: 27
0.68 0.20 0.12
Matches are distributed among these distances:
13 36 0.24
14 51 0.34
15 38 0.26
16 23 0.16
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTGGAT
Found at i:5891960 original size:28 final size:28
Alignment explanation
Indices: 5891852--5891969 Score: 107
Period size: 28 Copynumber: 4.1 Consensus size: 28
5891842 AGAGTTTCGT
* *
5891852 TTTTAGGGTTTGGATTTCAAGGTCTTGGA
1 TTTTAGGGTTTGGATTTTAAGGT-TTTGA
*
5891881 TTTAAGGGTTTGGAAATTTTAA-GTTTTGA
1 TTTTAGGGTTTGG--ATTTTAAGGTTTTGA
*
5891910 TTTTAGAGTTTTGG--TTTAGAGGTTTTGA
1 TTTTAG-GGTTTGGATTTTA-AGGTTTTGA
* * *
5891938 TTTTAGGGTTAGGTTTTTAAGGTTTAGA
1 TTTTAGGGTTTGGATTTTAAGGTTTTGA
5891966 TTTT
1 TTTT
5891970 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
26 4 0.05
27 6 0.08
28 25 0.34
29 25 0.34
30 8 0.11
31 6 0.08
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (28 bp):
TTTTAGGGTTTGGATTTTAAGGTTTTGA
Found at i:5892118 original size:11 final size:11
Alignment explanation
Indices: 5892096--5892138 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
5892086 ATATGAAAAT
5892096 TTATTATTATTA
1 TTATT-TTATTA
5892108 TTATTTTATTA
1 TTATTTTATTA
*
5892119 TTATCTTTTTTA
1 TTAT-TTTATTA
5892131 TATATTTT
1 T-TATTTT
5892139 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.36
12 15 0.54
13 3 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:5893522 original size:17 final size:19
Alignment explanation
Indices: 5893500--5893537 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
5893490 TTCTTTTTTT
5893500 TTTTAAAA-TTTAA-ATTA
1 TTTTAAAATTTTAATATTA
5893517 TTTTAAAATTTTAATATTA
1 TTTTAAAATTTTAATATTA
5893536 TT
1 TT
5893538 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAAAATTTTAATATTA
Found at i:5893685 original size:28 final size:28
Alignment explanation
Indices: 5893621--5893700 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
5893611 TATAGGTTTT
*
5893621 GAGCCCAATTGAATTG-AATTGGG-CTT
1 GAGCCCAATTGAATTGAAATTGGGCCTA
*
5893647 GAAGCCCAATTGAATTGAAATCGGGCCTA
1 G-AGCCCAATTGAATTGAAATTGGGCCTA
* *
5893676 GAGCTCAATTGAATCGAAATTGGGC
1 GAGCCCAATTGAATTGAAATTGGGC
5893701 ATGAGTCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 15 0.33
28 27 0.59
29 3 0.07
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (28 bp):
GAGCCCAATTGAATTGAAATTGGGCCTA
Found at i:5894083 original size:37 final size:37
Alignment explanation
Indices: 5894042--5894290 Score: 108
Period size: 37 Copynumber: 6.7 Consensus size: 37
5894032 GTGAGTTAAG
** * *
5894042 AAGTAAAGAACTGATTGGGATAATACCATAAGTCAAA
1 AAGTAAAGAACTGACCGGGATAACACCACAAGTCAAA
* * **
5894079 AAGTAAAAAATTGACCGGGATAACACCACAAGTTGAA
1 AAGTAAAGAACTGACCGGGATAACACCACAAGTCAAA
** * * * * *
5894116 AAGTAAAGAGTTAATCGGGATAACACCGCGAGTTAAA
1 AAGTAAAGAACTGACCGGGATAACACCACAAGTCAAA
* * * * * *
5894153 ATAATAAAGAAAATGACTGGGACAACACCGCAAGTCAGA
1 A-AGTAAAG-AACTGACCGGGATAACACCACAAGTCAAA
*** * **
5894192 AA-TAAAGAA-TCGATTAGGACAACACTGCAAGTCAAA
1 AAGTAAAGAACT-GACCGGGATAACACCACAAGTCAAA
* * * * * * *
5894228 AAGTACAG-AGTCAACCGAGACAACACCACAAATCGAA
1 AAGTAAAGAACT-GACCGGGATAACACCACAAGTCAAA
* *
5894265 AAGTAAAGAAAATGATCGGGATAACA
1 AAGTAAAG-AACTGACCGGGATAACA
5894291 TCGGGAGTTG
Statistics
Matches: 160, Mismatches: 45, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
35 1 0.01
36 26 0.16
37 94 0.59
38 16 0.10
39 23 0.14
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (37 bp):
AAGTAAAGAACTGACCGGGATAACACCACAAGTCAAA
Found at i:5894310 original size:149 final size:150
Alignment explanation
Indices: 5894100--5894378 Score: 339
Period size: 150 Copynumber: 1.9 Consensus size: 150
5894090 TGACCGGGAT
* * **
5894100 AACACCACAAGTTGAAAAGTAAAGAGTTAATCGGGATAACACCGCGAGTTAAAATAATAAAGAAA
1 AACACCACAAATCGAAAAGTAAAGAAATAATCGGGATAACACCGCGAGTTAAAATAATAAAGAAA
* * *
5894165 ATGACTGGGACAACACCGCAAG-TCAGAAATAAAGAATCGATTAGGACAACACTGC-AAGTCAAA
66 ATGACTGAGACAACACCGCAAGTTCAAAAATAAAGAATCAATTAGGACAACACTGCGAA-TCAAA
5894228 AAGTACAGAGTCAACCGAGAC
130 AAGTACAGAGTCAACCGAGAC
* * * * * * *
5894249 AACACCACAAATCGAAAAGTAAAGAAAATGATCGGGATAACATCGGGAGTTGAGA-AGTAAAGAG
1 AACACCACAAATCGAAAAGTAAAG-AAATAATCGGGATAACACCGCGAGTTAAAATAATAAAGAA
* * * * * *
5894313 AATGACTGAGACAACACTGTAAGTTGAAAAATAAAGATTCAATTGGGACAACATTGCGAATCAAA
65 AATGACTGAGACAACACCGCAAGTTCAAAAATAAAGAATCAATTAGGACAACACTGCGAATCAAA
5894378 A
130 A
5894379 TTATGCCCGA
Statistics
Matches: 107, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
149 49 0.46
150 56 0.52
151 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (150 bp):
AACACCACAAATCGAAAAGTAAAGAAATAATCGGGATAACACCGCGAGTTAAAATAATAAAGAAA
ATGACTGAGACAACACCGCAAGTTCAAAAATAAAGAATCAATTAGGACAACACTGCGAATCAAAA
AGTACAGAGTCAACCGAGAC
Found at i:5894403 original size:22 final size:22
Alignment explanation
Indices: 5894376--5894440 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
5894366 TTGCGAATCA
5894376 AAATTATGCCCGAAGGTCTTA-
1 AAATTATGCCCGAAGGTCTTAG
* *
5894397 AAGATTATGCTCGGAGGTCTTAG
1 AA-ATTATGCCCGAAGGTCTTAG
* *
5894420 AAATCATGCCCGAAAGTCTTA
1 AAATTATGCCCGAAGGTCTTA
5894441 TAGAATTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
AAATTATGCCCGAAGGTCTTAG
Found at i:5894541 original size:22 final size:22
Alignment explanation
Indices: 5894507--5894559 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
5894497 ATCGTGAATC
*
5894507 GAAATTATTCCCGAAAGTCTTA
1 GAAATTATGCCCGAAAGTCTTA
*
5894529 -AAGATTATGCCCGAAGGTCTTA
1 GAA-ATTATGCCCGAAAGTCTTA
5894551 GAAATTATG
1 GAAATTATG
5894560 TCTAGAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (22 bp):
GAAATTATGCCCGAAAGTCTTA
Found at i:5894578 original size:132 final size:131
Alignment explanation
Indices: 5894321--5894747 Score: 417
Period size: 132 Copynumber: 3.2 Consensus size: 131
5894311 AGAATGACTG
* * * * * * *
5894321 AGACAACACTGTAAGTTGAAAAATAAAGATTCAATTGGGACAACATTGCGAATCAAAATTATGCC
1 AGACAACACCGTAAG-TAAAAAATAAAGAATCGATTGGGACAACATCGCGAATCGAAATTATTCC
* * * * * *
5894386 CGAAGGTCTTAAAGATTATGCTCGGAGGTCTTAGAAATCATGCCCGAAAGTCTTATAGAATTGAT
65 CGAAAGTCTTAAAGATTATGCCCGAAGGTCTTAGAAATCATGCCAGAAAGTCTTACAGAATCGAT
5894451 TC
130 TC
* * * *
5894453 AGACAACACCGCAAGTCAAAAAGTAAAGAATCGATTGGGATAACATCGTGAATCGAAATTATTCC
1 AGACAACACCGTAAGT-AAAAAATAAAGAATCGATTGGGACAACATCGCGAATCGAAATTATTCC
* * * *
5894518 CGAAAGTCTTAAAGATTATGCCCGAAGGTCTTAGAAATTATGTCTAG-AGGTTTTACAGAATCGA
65 CGAAAGTCTTAAAGATTATGCCCGAAGGTCTTAGAAATCATG-CCAGAAAGTCTTACAGAATCGA
*
5894582 TTG
129 TTC
* * * * * *
5894585 GGACAACACCGTAAGTAAAAAATTAGAGAATCGATCGAGACAATATCGCGAATCGAAATTA-TGC
1 AGACAACACCGTAAGTAAAAAA-TAAAGAATCGATTGGGACAACATCGCGAATCGAAATTATTCC
* * * * * * *
5894649 CTAAAGGTCTTGAAGATTATGCCCGAAAGTCTTAGAAATCATGCCCGAAGGTCTTATAAAATCGA
65 CGAAA-GTCTTAAAGATTATGCCCGAAGGTCTTAGAAATCATGCCAGAAAGTCTTACAGAATCGA
* *
5894714 CTG
129 TTC
* * * *
5894717 GGACAATATCGTAAGTTAAAAAGTAAAGAAT
1 AGACAACACCGTAAG-TAAAAAATAAAGAAT
5894748 TATCGGGATA
Statistics
Matches: 243, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
131 14 0.06
132 221 0.91
133 8 0.03
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (131 bp):
AGACAACACCGTAAGTAAAAAATAAAGAATCGATTGGGACAACATCGCGAATCGAAATTATTCCC
GAAAGTCTTAAAGATTATGCCCGAAGGTCTTAGAAATCATGCCAGAAAGTCTTACAGAATCGATT
C
Found at i:5894680 original size:22 final size:22
Alignment explanation
Indices: 5894639--5894704 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
5894629 ATCGCGAATC
*
5894639 GAAATTATG-CCTAAAGGTCTT-
1 GAAATTATGCCCGAAA-GTCTTA
5894660 GAAGATTATGCCCGAAAGTCTTA
1 GAA-ATTATGCCCGAAAGTCTTA
* *
5894683 GAAATCATGCCCGAAGGTCTTA
1 GAAATTATGCCCGAAAGTCTTA
5894705 TAAAATCGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.08
22 28 0.72
23 8 0.21
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
GAAATTATGCCCGAAAGTCTTA
Found at i:5894923 original size:110 final size:108
Alignment explanation
Indices: 5894677--5894923 Score: 266
Period size: 109 Copynumber: 2.3 Consensus size: 108
5894667 ATGCCCGAAA
* * * * * * *
5894677 GTCTTAGAAATCATGCCCGAAGGTCTTATAAAATCGACTGGGACAATATCGTAAGTTAAAAAGTA
1 GTCTTAGAAATCATGCCTGAAGGTTTTACAAAATCGACTGGAACAACATCGTAAGTCAAAAAATA
* * * *
5894742 AAGAATTATCGGGATAACACCATGAATCAAAATCATGCCTGGAT
66 AAGAATAATCCGGACAACACCA-GAATCAAAATCATGCCTGGAG
* * *
5894786 GTCTTA-AAGATTATG-CTAAAAGGTTTTACAGAATCGACTGGAACAACATCGTAAGTCAAAAAA
1 GTCTTAGAA-ATCATGCCT-GAAGGTTTTACAAAATCGACTGGAACAACATCGTAAGTCAAAAAA
* * *
5894849 TAGAGAATCAATCCGGACAACATCGCA-AATCAAAATTATGCTTGGAG
64 TAAAGAAT-AATCCGGACAACA-C-CAGAATCAAAATCATGCCTGGAG
5894896 GTCTTAGAAATCATGCCTGAAGGTTTTA
1 GTCTTAGAAATCATGCCTGAAGGTTTTA
5894924 TAGATCTCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
108 3 0.03
109 55 0.49
110 47 0.42
111 5 0.04
112 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (108 bp):
GTCTTAGAAATCATGCCTGAAGGTTTTACAAAATCGACTGGAACAACATCGTAAGTCAAAAAATA
AAGAATAATCCGGACAACACCAGAATCAAAATCATGCCTGGAG
Found at i:5896096 original size:33 final size:33
Alignment explanation
Indices: 5895986--5896180 Score: 164
Period size: 33 Copynumber: 5.9 Consensus size: 33
5895976 TTTTAGGGTC
* * *
5895986 AGATAAATTGGGCTT-AAATTTCATTAA-GAGCC
1 AGATAAACTGGGCTTAAAACTTCATTAATG-GCT
* * ***
5896018 AGTTAAATTGGGCTTAAAACCTT-ATTTGGGGCCT
1 AGATAAACTGGGCTTAAAA-CTTCATTAATGG-CT
*
5896052 A-ATAAATTGGGCTTAAAACTTCATTAATGGCT
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCT
* * * *
5896084 AGATAGACTGGGCTTAAAACTTCAATGATGGCC
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCT
* * *
5896117 AGATAAACTGGGCTTAAAATTTCCTTAAGGGCT
1 AGATAAACTGGGCTTAAAACTTCATTAATGGCT
* * *
5896150 AGCTAAACTGAGCTTAAAACTTCATTGATGG
1 AGATAAACTGGGCTTAAAACTTCATTAATGG
5896181 ACACATAAAT
Statistics
Matches: 130, Mismatches: 27, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
32 20 0.15
33 105 0.81
34 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (33 bp):
AGATAAACTGGGCTTAAAACTTCATTAATGGCT
Found at i:5896179 original size:66 final size:66
Alignment explanation
Indices: 5895985--5896190 Score: 222
Period size: 66 Copynumber: 3.1 Consensus size: 66
5895975 CTTTTAGGGT
* * * * *
5895985 CAGATAAATTGGGCTT-AAATTTCATTAAGAGCCAGTTAAATTGGGCTTAAAACCTT-ATTTG-G
1 CAGATAAATTGGGCTTAAAATTTCATTAAGGGCTAGATAAACTGGGCTTAAAA-CTTCA-TTGAT
5896047 GGC
64 GGC
* * * *
5896050 CTA-ATAAATTGGGCTTAAAACTTCATTAATGGCTAGATAGACTGGGCTTAAAACTTCAATGATG
1 C-AGATAAATTGGGCTTAAAATTTCATTAAGGGCTAGATAAACTGGGCTTAAAACTTCATTGATG
5896114 GC
65 GC
* * * *
5896116 CAGATAAACTGGGCTTAAAATTTCCTTAAGGGCTAGCTAAACTGAGCTTAAAACTTCATTGATGG
1 CAGATAAATTGGGCTTAAAATTTCATTAAGGGCTAGATAAACTGGGCTTAAAACTTCATTGATGG
*
5896181 A
66 C
*
5896182 CACATAAAT
1 CAGATAAAT
5896191 CTAGCTTAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
65 20 0.17
66 96 0.83
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (66 bp):
CAGATAAATTGGGCTTAAAATTTCATTAAGGGCTAGATAAACTGGGCTTAAAACTTCATTGATGG
C
Found at i:5896320 original size:28 final size:28
Alignment explanation
Indices: 5896238--5896322 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
5896228 CTTAAATTTT
* * *
5896238 ATTGAGGGCCAGTTAAATTG-GACATAAA
1 ATTGAGGGCCAGCTAAACTGAG-CTTAAA
*
5896266 ATTGGGGGCCAGCTAAACTGAGCTTAAA
1 ATTGAGGGCCAGCTAAACTGAGCTTAAA
* * *
5896294 ATTGAGGGCCAGCTACACTGGGTTTAAA
1 ATTGAGGGCCAGCTAAACTGAGCTTAAA
5896322 A
1 A
5896323 CTTCATTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 47 0.98
29 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (28 bp):
ATTGAGGGCCAGCTAAACTGAGCTTAAA
Found at i:5896529 original size:23 final size:22
Alignment explanation
Indices: 5896500--5896565 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
5896490 TACGAGATTT
5896500 TATGCCAGCTAATTTGGGCTTA
1 TATGCCAGCTAATTTGGGCTTA
* * * *
5896522 TTGTGCCAGTTGAA-CTAGGCTTA
1 -TATGCCAGCT-AATTTGGGCTTA
*
5896545 TATGCCATCTAATTTGGGCTT
1 TATGCCAGCTAATTTGGGCTT
5896566 GCATACTAGT
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
21 2 0.06
22 13 0.41
23 15 0.47
24 2 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (22 bp):
TATGCCAGCTAATTTGGGCTTA
Found at i:5897532 original size:115 final size:115
Alignment explanation
Indices: 5897338--5897559 Score: 385
Period size: 115 Copynumber: 1.9 Consensus size: 115
5897328 TTCAGACAAG
5897338 AAATTAGGTAATAAAGGGGAACTCAAAAGATTCATGTTCATTTTTTCAAGAGAAATACTTCAATT
1 AAATTAGGTAATAAAGGGGAACTCAAAAGATTCATGTTCATTTTTTCAAGAGAAATACTTCAATT
*
5897403 TTAAGCTTTCATACTTGATCCAATAT-ATACTTTTCAAAGGTTCAGATAGA
66 TTAACCTTTCATACTTGATCCAATATGA-ACTTTTCAAAGGTTCAGATAGA
* *
5897453 AAATTAGGTAATAAAGGGGAACTCAAAAGATTCATGTTCATTTTTTCATGAGAAATGCTTCAATT
1 AAATTAGGTAATAAAGGGGAACTCAAAAGATTCATGTTCATTTTTTCAAGAGAAATACTTCAATT
5897518 TTAAACCTTT-ATACTTGATCCAATATGAACTTTTCAAAGGTT
66 TT-AACCTTTCATACTTGATCCAATATGAACTTTTCAAAGGTT
5897560 GTAACGTAGG
Statistics
Matches: 102, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
115 95 0.93
116 7 0.07
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (115 bp):
AAATTAGGTAATAAAGGGGAACTCAAAAGATTCATGTTCATTTTTTCAAGAGAAATACTTCAATT
TTAACCTTTCATACTTGATCCAATATGAACTTTTCAAAGGTTCAGATAGA
Found at i:5900567 original size:4 final size:4
Alignment explanation
Indices: 5900541--5900628 Score: 61
Period size: 4 Copynumber: 22.0 Consensus size: 4
5900531 TGCATTATAT
* * * * *
5900541 TGAA TGAA T-ACA TAAA TGGA TGAA TGAG TGAG TGAA TGAA TGAA TCAA
1 TGAA TGAA TGA-A TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
* ** * * *
5900589 TGCA CAAA TGAA TGAA TGAA TGAG TGAA TGCA TGAC TGAA
1 TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
5900629 AAAACTCTTT
Statistics
Matches: 63, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
3 1 0.02
4 61 0.97
5 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.24
Consensus pattern (4 bp):
TGAA
Found at i:5900618 original size:20 final size:20
Alignment explanation
Indices: 5900555--5900628 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
5900545 TGAATACATA
* *
5900555 AATGGATGAATGAGTGAGTG
1 AATGAATGAATGAATGAGTG
* **
5900575 AATGAATGAATCAATGCA-CA
1 AATGAATGAATGAATG-AGTG
5900595 AATGAATGAATGAATGAGTG
1 AATGAATGAATGAATGAGTG
* *
5900615 AATGCATGACTGAA
1 AATGAATGAATGAA
5900629 AAAACTCTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (20 bp):
AATGAATGAATGAATGAGTG
Found at i:5902972 original size:29 final size:29
Alignment explanation
Indices: 5902851--5903148 Score: 153
Period size: 29 Copynumber: 10.2 Consensus size: 29
5902841 TCTCAATGGT
* * * *
5902851 TTTAGGGTTTGGTCTTAGGGTTTAGAGGG
1 TTTAGGGTTTTGTTTTAGAGTTTGGAGGG
* * **
5902880 TTTTAGGG-CTTGAATTTTAGGGTTTGGAAAG
1 -TTTAGGGTTTTG--TTTTAGAGTTTGGAGGG
* * * **
5902911 CTTAGGGTTTTGATTTTTGGGTTTGG-GTA
1 TTTAGGGTTTTG-TTTTAGAGTTTGGAGGG
5902940 TTTAGGGTTTTGTTTTAGAGTTTGGAGGG
1 TTTAGGGTTTTGTTTTAGAGTTTGGAGGG
* * * *
5902969 TTTAAGGTTTTAATTTTACAGTTTGGAGGA
1 TTTAGGGTTTT-GTTTTAGAGTTTGGAGGG
5902999 TTTAGGGTTTTGATTTTAGAGTTTGGA-GG
1 TTTAGGGTTTTG-TTTTAGAGTTTGGAGGG
* * * * *
5903028 TTTGGGGTGTTGGTTGTA-AGGTTTAGAAGG
1 TTTAGGGT-TTTGTTTTAGA-GTTTGGAGGG
* **
5903058 TTTAGAGTTTAATTTTA-AGGTTTGG-GGG
1 TTTAGGGTTTTGTTTTAGA-GTTTGGAGGG
* * *
5903086 TTTAGGGTTTCGTTTTTAGGGTTTTGA-GG
1 TTTAGGGTTTTG-TTTTAGAGTTTGGAGGG
* ** *
5903115 TTTAAGGTTTAATTTTAGGGTTTAGG-GGG
1 TTTAGGGTTTTGTTTTAGAGTTT-GGAGGG
5903144 TTTAG
1 TTTAG
5903149 AAATTCGTTT
Statistics
Matches: 208, Mismatches: 46, Indels: 29
0.73 0.16 0.10
Matches are distributed among these distances:
28 34 0.16
29 83 0.40
30 75 0.36
31 16 0.08
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (29 bp):
TTTAGGGTTTTGTTTTAGAGTTTGGAGGG
Found at i:5902992 original size:30 final size:30
Alignment explanation
Indices: 5902916--5903027 Score: 120
Period size: 30 Copynumber: 3.8 Consensus size: 30
5902906 GAAAGCTTAG
* * * * *
5902916 GGTTTTGATTTTTGGGTTTGG-GTATTTAG
1 GGTTTTAATTTTAGAGTTTGGAGGATTTAA
* *
5902945 GGTTTT-GTTTTAGAGTTTGGAGGGTTTAA
1 GGTTTTAATTTTAGAGTTTGGAGGATTTAA
* *
5902974 GGTTTTAATTTTACAGTTTGGAGGATTTAG
1 GGTTTTAATTTTAGAGTTTGGAGGATTTAA
*
5903004 GGTTTTGATTTTAGAGTTTGGAGG
1 GGTTTTAATTTTAGAGTTTGGAGG
5903028 TTTGGGGTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.16
29 17 0.25
30 41 0.59
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.49
Consensus pattern (30 bp):
GGTTTTAATTTTAGAGTTTGGAGGATTTAA
Found at i:5903062 original size:59 final size:59
Alignment explanation
Indices: 5902939--5903093 Score: 149
Period size: 59 Copynumber: 2.6 Consensus size: 59
5902929 GGGTTTGGGT
* * * *
5902939 ATTTAGGGTTTTG-TTTTAGAGTTTGGAGGGTTTAAGGTTTTAATTTTACAGTTTGGAGG
1 ATTTAGGGTTTTGATTTTAGAGTTTGGA-GGTTTAGGGTGTTAATTGTACAGTTTGAAGG
* **
5902998 ATTTAGGGTTTTGATTTTAGAGTTTGGAGGTTTGGGGTGTTGGTTGTA-AGGTTTAGAAGG
1 ATTTAGGGTTTTGATTTTAGAGTTTGGAGGTTTAGGGTGTTAATTGTACA-GTTT-GAAGG
* * *
5903058 -TTTAGAG-TTTAATTTTA-AGGTTTGGGGGTTTAGGGT
1 ATTTAGGGTTTTGATTTTAGA-GTTTGGAGGTTTAGGGT
5903094 TTCGTTTTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 25 0.31
59 37 0.46
60 18 0.22
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (59 bp):
ATTTAGGGTTTTGATTTTAGAGTTTGGAGGTTTAGGGTGTTAATTGTACAGTTTGAAGG
Found at i:5903174 original size:14 final size:14
Alignment explanation
Indices: 5903157--5903197 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
5903147 AGAAATTCGT
5903157 TTTTAGGGTTTGGA
1 TTTTAGGGTTTGGA
*
5903171 TTTTAAGGTTTTGGA
1 TTTT-AGGGTTTGGA
*
5903186 TTTAAGGGTTTG
1 TTTTAGGGTTTG
5903198 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (14 bp):
TTTTAGGGTTTGGA
Found at i:5903183 original size:15 final size:14
Alignment explanation
Indices: 5903161--5903197 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5903151 ATTCGTTTTT
5903161 AGGGTTTGGATTTTA
1 AGGGTTTGGA-TTTA
*
5903176 AGGTTTTGGATTTA
1 AGGGTTTGGATTTA
5903190 AGGGTTTG
1 AGGGTTTG
5903198 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
AGGGTTTGGATTTA
Found at i:5903400 original size:3 final size:3
Alignment explanation
Indices: 5903386--5903470 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
5903376 ATATGAAAAT
*
5903386 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5903434 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5903471 CTTTTTTATA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5905022 original size:28 final size:28
Alignment explanation
Indices: 5904978--5905040 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
5904968 TGATTGAATC
*
5904978 AAATTGGGCCTGAAGCCCAACTAAATTG
1 AAATTGGACCTGAAGCCCAACTAAATTG
** *
5905006 AAATTGGACCT-AGAGCCCAGTTGAATTG
1 AAATTGGACCTGA-AGCCCAACTAAATTG
5905034 AAATTGG
1 AAATTGG
5905041 GCTTGAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (28 bp):
AAATTGGACCTGAAGCCCAACTAAATTG
Found at i:5907226 original size:22 final size:22
Alignment explanation
Indices: 5907201--5907246 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5907191 ATTTAATAAA
*
5907201 AATTAATTGATTAATAAAAAAT
1 AATTAATTGATTAACAAAAAAT
* *
5907223 AATTTATTTATTAACAAAAAAT
1 AATTAATTGATTAACAAAAAAT
5907245 AA
1 AA
5907247 GATAATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTAATTGATTAACAAAAAAT
Found at i:5907829 original size:42 final size:42
Alignment explanation
Indices: 5907727--5907831 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
5907717 TTAGTATTTC
5907727 AATAATAAATAGTATTATATTATTATTTTAATAATAAATAGAAA
1 AATAATAAATAGTATT-T-TTATTATTTTAATAATAAATAGAAA
* **
5907771 AAT-ATAAAATAGTATTTTTATTATTTTAATAATTAAT-GTTA
1 AATAAT-AAATAGTATTTTTATTATTTTAATAATAAATAGAAA
*
5907812 AATAATATAATAATATTTTT
1 AATAATA-AATAGTATTTTT
5907832 TCAATCTGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
41 6 0.11
42 32 0.59
43 3 0.06
44 13 0.24
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.47
Consensus pattern (42 bp):
AATAATAAATAGTATTTTTATTATTTTAATAATAAATAGAAA
Found at i:5908013 original size:37 final size:37
Alignment explanation
Indices: 5907959--5908039 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
5907949 TTATTTATGA
*
5907959 TTTAATAATATATACTTTTAAT-ATAAAATATAA-ATAT
1 TTTAATAATATAAACTTTTAATAAT-AAATATAATA-AT
* *
5907996 TTTAATAGTATAAACTTTTAATAATAAATATTATAAT
1 TTTAATAATATAAACTTTTAATAATAAATATAATAAT
5908033 TTTAATA
1 TTTAATA
5908040 TTAATAAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (37 bp):
TTTAATAATATAAACTTTTAATAATAAATATAATAAT
Found at i:5908227 original size:26 final size:25
Alignment explanation
Indices: 5908196--5908255 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
5908186 TTGAATAATA
5908196 ATTTTAATAATAAATAA-TTTCAAT
1 ATTTTAATAATAAATAACTTTCAAT
*
5908220 ATGCTTTAATAATAAATAACTTTTAAT
1 AT--TTTAATAATAAATAACTTTCAAT
5908247 ATTTTAATA
1 ATTTTAATA
5908256 CATATAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.06
25 7 0.22
26 15 0.47
27 8 0.25
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTTTAATAATAAATAACTTTCAAT
Found at i:5908348 original size:26 final size:27
Alignment explanation
Indices: 5908319--5908370 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
5908309 TTTTTTATTA
*
5908319 ACTTATTCAAACAATA-AAAAATTTTT
1 ACTTATTCAAAAAATATAAAAATTTTT
* *
5908345 ACTTTTTCAAAAAATATAAACATTTT
1 ACTTATTCAAAAAATATAAAAATTTT
5908371 CTAAAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (27 bp):
ACTTATTCAAAAAATATAAAAATTTTT
Found at i:5909604 original size:27 final size:26
Alignment explanation
Indices: 5909542--5909605 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
5909532 TATTTGGTAT
*
5909542 ATAAAATTATAATAAGATAGAATAAA
1 ATAATATTATAATAAGATAGAATAAA
* *
5909568 ATGATATTATGAATAAGATTA-AATTAA
1 ATAATATTAT-AATAAGA-TAGAATAAA
*
5909595 ATAATGTTATA
1 ATAATATTATA
5909606 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 9 0.29
27 20 0.65
28 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (26 bp):
ATAATATTATAATAAGATAGAATAAA
Found at i:5922701 original size:26 final size:25
Alignment explanation
Indices: 5922652--5922716 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 25
5922642 TTACTATATG
5922652 TATTAAAATATTAAAAGTTATTTAT
1 TATTAAAATATTAAAAGTTATTTAT
*
5922677 TATTAAAGCATATTGAAA-TTATTTAT
1 TATTAAA--ATATTAAAAGTTATTTAT
5922703 TATTAAAATTATTA
1 TATTAAAA-TATTA
5922717 TTCAAGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 11 0.31
26 15 0.43
27 8 0.23
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (25 bp):
TATTAAAATATTAAAAGTTATTTAT
Found at i:5923681 original size:22 final size:22
Alignment explanation
Indices: 5923656--5923717 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
5923646 AGCTATTATC
*
5923656 TTATTTTTTGTTAATAAATAAA
1 TTATTTTTTATTAATAAATAAA
* *
5923678 TTATTTTTTATTAATCAAT-CA
1 TTATTTTTTATTAATAAATAAA
5923699 --ATTTTTTATTAAATAAATA
1 TTATTTTTTATT-AATAAATA
5923718 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.29
20 6 0.18
21 1 0.03
22 17 0.50
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTTTTTATTAATAAATAAA
Found at i:5924872 original size:27 final size:29
Alignment explanation
Indices: 5924793--5924872 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
5924783 CTTAGACTTG
5924793 AGCCCAATTTCGATTCAA-CTAGGC-TCTA
1 AGCCCAATTTCGATTCAATC-AGGCTTCTA
* **
5924821 AGCCCAATTTCGATTCAGTTGGGCTTC-A
1 AGCCCAATTTCGATTCAATCAGGCTTCTA
5924849 AGCCCAA-TTCGATTCAATCAGGCT
1 AGCCCAATTTCGATTCAATCAGGCT
5924873 CGAAACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.32
28 28 0.64
29 2 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (29 bp):
AGCCCAATTTCGATTCAATCAGGCTTCTA
Found at i:5924980 original size:7 final size:7
Alignment explanation
Indices: 5924968--5925009 Score: 56
Period size: 6 Copynumber: 6.6 Consensus size: 7
5924958 AATAATATTA
5924968 AAAATTT
1 AAAATTT
5924975 AAAATTT
1 AAAATTT
5924982 AAAA-TT
1 AAAATTT
5924988 -AAATTT
1 AAAATTT
5924994 -AAATTT
1 AAAATTT
5925000 AAAA-TT
1 AAAATTT
5925006 AAAA
1 AAAA
5925010 AAAAAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.09
6 16 0.48
7 14 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:5924999 original size:18 final size:19
Alignment explanation
Indices: 5924969--5925008 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
5924959 ATAATATTAA
5924969 AAATTTAAAATTTAAAATT
1 AAATTTAAAATTTAAAATT
5924988 AAATTT-AAATTTAAAATT
1 AAATTTAAAATTTAAAATT
5925006 AAA
1 AAA
5925009 AAAAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTTAAAATTTAAAATT
Found at i:5926387 original size:3 final size:3
Alignment explanation
Indices: 5926379--5926433 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
5926369 TATAAAAAAG
5926379 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5926427 ATA ATA A
1 ATA ATA A
5926434 ATTTTCATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5926649 original size:15 final size:15
Alignment explanation
Indices: 5926559--5926662 Score: 60
Period size: 14 Copynumber: 7.3 Consensus size: 15
5926549 TAAAAAATAA
*
5926559 AAAATCT-AAACCCG
1 AAAATCTAAAACCCT
* *
5926573 AAAATCGAAACCCCT
1 AAAATCTAAAACCCT
* *
5926588 -AAA-CAAAAACTCT
1 AAAATCTAAAACCCT
*
5926601 AAAATC-AAAA-CTT
1 AAAATCTAAAACCCT
* *
5926614 AAAATTTTCAAACCCGT
1 AAAA-TCTAAAACCC-T
5926631 -AAATCTAAAACCCT
1 AAAATCTAAAACCCT
*
5926645 AAAATC-CAAACCCT
1 AAAATCTAAAACCCT
5926659 AAAA
1 AAAA
5926663 ATGAATTTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
13 12 0.18
14 29 0.43
15 22 0.32
16 4 0.06
17 1 0.01
ACGTcount: A:0.53, C:0.26, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAATCTAAAACCCT
Found at i:5926763 original size:57 final size:58
Alignment explanation
Indices: 5926638--5926764 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 58
5926628 CGTAAATCTA
* * ** *
5926638 AAACCCTAAA-ATCCAAACCCTAAAAATGAATTTCTAAACCCCCTAAATCTTAAAATT
1 AAACCCTAAACCTCCAAACCCTAAAAACGAACCTCTAAACCCCCTAAACCTTAAAATT
* * *
5926695 AAACCTTAAACCTCCAAACTCTAAAAACGAAACCT-TAAATCCCC-AAACCTTAAAATT
1 AAACCCTAAACCTCCAAACCCTAAAAACG-AACCTCTAAACCCCCTAAACCTTAAAATT
5926752 AAACCCTAAACCT
1 AAACCCTAAACCT
5926765 TCTAAACCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 33 0.56
58 23 0.39
59 3 0.05
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (58 bp):
AAACCCTAAACCTCCAAACCCTAAAAACGAACCTCTAAACCCCCTAAACCTTAAAATT
Found at i:5926771 original size:29 final size:28
Alignment explanation
Indices: 5926671--5926938 Score: 130
Period size: 29 Copynumber: 9.2 Consensus size: 28
5926661 AAATGAATTT
* *
5926671 CTAAACCCCCTAAATCTTAAAATTAAACC
1 CTAAACCTCC-AAACCTTAAAATTAAACC
* * **
5926700 TTAAACCTCCAAACTCTAAAAACGAAACC
1 CTAAACCTCCAAAC-CTTAAAATTAAACC
*
5926729 TTAAATCC-CCAAACCTTAAAATTAAACC
1 CTAAA-CCTCCAAACCTTAAAATTAAACC
* * *
5926757 CTAAACCTTCTAAACCTTACAATCAACACC
1 CTAAACC-TCCAAACCTTAAAATTAA-ACC
* * *
5926787 CCAAACCTCCAAA-CTCTAAAATCAAAATC
1 CTAAACCTCCAAACCT-TAAAAT-TAAACC
* * *
5926816 CTAAATTCTCCAAACCGTGAAATTAAAACC
1 CTAAA-CCTCCAAACCTTAAAATT-AAACC
* **
5926846 TTAAACCCTCCAAA-CTCTAAAACAAAACC
1 CTAAA-CCTCCAAACCT-TAAAATTAAACC
* ** *
5926875 CTAAATAC-CCAAACCCAAAAATCAAAACC
1 CTAAA-CCTCCAAACCTTAAAAT-TAAACC
* * * *
5926904 CTAAGCTTTCCAAACCCTAAAATTCAAGCC
1 CTAAAC-CTCCAAACCTTAAAATT-AAACC
5926934 CTAAA
1 CTAAA
5926939 ACCCTCTAAA
Statistics
Matches: 179, Mismatches: 44, Indels: 31
0.70 0.17 0.12
Matches are distributed among these distances:
27 2 0.01
28 29 0.16
29 82 0.46
30 65 0.36
31 1 0.01
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (28 bp):
CTAAACCTCCAAACCTTAAAATTAAACC
Found at i:5926829 original size:30 final size:30
Alignment explanation
Indices: 5926706--5926926 Score: 143
Period size: 29 Copynumber: 7.5 Consensus size: 30
5926696 AACCTTAAAC
* * * *
5926706 CTCCAAACTCTAAAAACGAAACCTTAAA-T
1 CTCCAAACCCTAAAATCAAAACCCTAAATT
* * *
5926735 CCCCAAACCTTAAAAT-TAAACCCTAAACCTT
1 CTCCAAACCCTAAAATCAAAACCCTAAA--TT
* * * * *
5926766 CT--AAACCTTACAATCAACACCCCAAA-C
1 CTCCAAACCCTAAAATCAAAACCCTAAATT
* *
5926793 CTCCAAACTCTAAAATCAAAATCCTAAATT
1 CTCCAAACCCTAAAATCAAAACCCTAAATT
* * * * **
5926823 CTCCAAACCGTGAAATTAAAACCTTAAACC
1 CTCCAAACCCTAAAATCAAAACCCTAAATT
* *
5926853 CTCCAAACTCTAAAA-CAAAACCCTAAATA
1 CTCCAAACCCTAAAATCAAAACCCTAAATT
* *
5926882 C-CCAAACCCAAAAATCAAAACCCTAAGCTT
1 CTCCAAACCCTAAAATCAAAACCCTAA-ATT
5926912 -TCCAAACCCTAAAAT
1 CTCCAAACCCTAAAAT
5926927 TCAAGCCCTA
Statistics
Matches: 143, Mismatches: 39, Indels: 19
0.71 0.19 0.09
Matches are distributed among these distances:
27 2 0.01
28 20 0.14
29 63 0.44
30 56 0.39
31 2 0.01
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (30 bp):
CTCCAAACCCTAAAATCAAAACCCTAAATT
Found at i:5926896 original size:88 final size:88
Alignment explanation
Indices: 5926737--5926972 Score: 210
Period size: 88 Copynumber: 2.7 Consensus size: 88
5926727 CCTTAAATCC
* * * * * * * * *
5926737 CCAAACCTTAAAATT-AAACCCT-AAACCTTCTAAACCTTACAATCAACACCCCAAACCTCCAAA
1 CCAAACCCTAAAATTCAAAACCTAAAACCCTCCAAACCCTA-AAACAAAACCCTAAAAC-CCAAA
* * *
5926800 CTCTAAAATCAAAATCCTAA-ATTCT
64 CCCAAAAATCAAAACCCTAAGATT-T
* * * *
5926825 CCAAACCGTGAAATT-AAAACCTTAAACCCTCCAAACTCTAAAACAAAACCCTAAATACCCAAAC
1 CCAAACCCTAAAATTCAAAACCTAAAACCCTCCAAACCCTAAAACAAAACCCTAAA-ACCCAAAC
*
5926889 CCAAAAATCAAAACCCTAAGCTTT
65 CCAAAAATCAAAACCCTAAGATTT
** * * *
5926913 CCAAACCCTAAAATTCAAGCCCTAAAACCCTCTAAACCCTAAGACCAAACCCTAAAACCC
1 CCAAACCCTAAAATTCAAAACCTAAAACCCTCCAAACCCTAAAACAAAACCCTAAAACCC
5926973 TTGAGACTCA
Statistics
Matches: 120, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
88 71 0.59
89 49 0.41
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.18
Consensus pattern (88 bp):
CCAAACCCTAAAATTCAAAACCTAAAACCCTCCAAACCCTAAAACAAAACCCTAAAACCCAAACC
CAAAAATCAAAACCCTAAGATTT
Found at i:5926916 original size:58 final size:60
Alignment explanation
Indices: 5926777--5926926 Score: 162
Period size: 58 Copynumber: 2.5 Consensus size: 60
5926767 TAAACCTTAC
* * * * ***
5926777 AATCAACACCCCAAA-CCTCCAAACTCTAAAATCAAAATCCTAAATTCTCCAAACCGTGA
1 AATCAAAACCCTAAACCCTCCAAACTCTAAAATCAAAACCCTAAATACTCCAAACCCAAA
* *
5926836 AATTAAAACCTTAAACCCTCCAAACTCTAAAA-CAAAACCCTAAATAC-CCAAACCCAAA
1 AATCAAAACCCTAAACCCTCCAAACTCTAAAATCAAAACCCTAAATACTCCAAACCCAAA
* ** *
5926894 AATCAAAACCCTAAGCTTTCCAAACCCTAAAAT
1 AATCAAAACCCTAAACCCTCCAAACTCTAAAAT
5926927 TCAAGCCCTA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
58 34 0.46
59 24 0.32
60 16 0.22
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (60 bp):
AATCAAAACCCTAAACCCTCCAAACTCTAAAATCAAAACCCTAAATACTCCAAACCCAAA
Found at i:5926979 original size:22 final size:22
Alignment explanation
Indices: 5926937--5926993 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
5926927 TCAAGCCCTA
*
5926937 AAACCCTCTAAACCCTAAGAC-C
1 AAACCCT-AAAACCCTAAGACTC
*
5926959 AAACCCTAAAACCCTTGAGACTC
1 AAACCCTAAAACCC-TAAGACTC
5926982 AAA-CC-AAAACCC
1 AAACCCTAAAACCC
5926994 CAAAATCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.44, C:0.39, G:0.05, T:0.12
Consensus pattern (22 bp):
AAACCCTAAAACCCTAAGACTC
Found at i:5930258 original size:4 final size:4
Alignment explanation
Indices: 5930245--5930317 Score: 58
Period size: 4 Copynumber: 18.2 Consensus size: 4
5930235 TCAGTCACGA
* * * * * *
5930245 ATTC ACTC ATTC ATTC GTTC ATTT ATGC ATTC ATTC GTTC ATTC ACTC
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC ATTC
* *
5930293 ATTC ATCC ATTT ATGT- ATTC ATTC A
1 ATTC ATTC ATTC AT-TC ATTC ATTC A
5930318 ATATAATGCA
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
3 1 0.02
4 50 0.96
5 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.05, T:0.47
Consensus pattern (4 bp):
ATTC
Found at i:5930295 original size:20 final size:20
Alignment explanation
Indices: 5930245--5930298 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
5930235 TCAGTCACGA
5930245 ATTCACTCATTCATTCGTTC
1 ATTCACTCATTCATTCGTTC
*
5930265 ATTTA-TGCATTCATTCGTTC
1 ATTCACT-CATTCATTCGTTC
5930285 ATTCACTCATTCAT
1 ATTCACTCATTCAT
5930299 CCATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.46
Consensus pattern (20 bp):
ATTCACTCATTCATTCGTTC
Found at i:5933130 original size:20 final size:22
Alignment explanation
Indices: 5933105--5933149 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
5933095 TGAAAGAATG
5933105 TAAAAGAAAA-AAAGAA-AAAA
1 TAAAAGAAAAGAAAGAACAAAA
*
5933125 TAAAAGAAAAGGAAGAACAAAA
1 TAAAAGAAAAGAAAGAACAAAA
5933147 TAA
1 TAA
5933150 GGAAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (22 bp):
TAAAAGAAAAGAAAGAACAAAA
Done.