Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 91
Found at i:4864201 original size:20 final size:20
Alignment explanation
Indices: 4864178--4864228 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
4864168 CGATAGTCAG
*
4864178 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4864198 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4864218 ATTCGCATTGC
1 ATTCGCATTGC
4864229 AAATTAGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4864264 original size:20 final size:20
Alignment explanation
Indices: 4864239--4864305 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
4864229 AAATTAGGAA
4864239 AATCGCAATGCGATAGTCAG
1 AATCGCAATGCGATAGTCAG
* * * *
4864259 AATCGCAACGCGA-ATTTGGAA
1 AATCGCAATGCGATA-GT-CAG
4864280 AATCGCAATGCGATAGTCAG
1 AATCGCAATGCGATAGTCAG
4864300 AATCGC
1 AATCGC
4864306 GTTGCGAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 14 0.39
22 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (20 bp):
AATCGCAATGCGATAGTCAG
Found at i:4864313 original size:41 final size:41
Alignment explanation
Indices: 4864220--4864321 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
4864210 ATTTACGTAT
* *
4864220 TCGCATTGCAAATTAGGAAAATCGCAATGCGATAGTCAGAA
1 TCGCATTGCGAATTTGGAAAATCGCAATGCGATAGTCAGAA
**
4864261 TCGCAACGCGAATTTGGAAAATCGCAATGCGATAGTCAGAA
1 TCGCATTGCGAATTTGGAAAATCGCAATGCGATAGTCAGAA
* *
4864302 TCGCGTTGCGAATCTGGAAA
1 TCGCATTGCGAATTTGGAAA
4864322 CTGGTTTGCG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (41 bp):
TCGCATTGCGAATTTGGAAAATCGCAATGCGATAGTCAGAA
Found at i:4865297 original size:28 final size:27
Alignment explanation
Indices: 4865258--4865310 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
4865248 AATTATAATT
4865258 AAAAAATATTGA-ATAACTAATTACATC
1 AAAAAATATTGAGA-AACTAATTACATC
* *
4865285 AAAAAACTGTTGAGAACCTAATTACA
1 AAAAAA-TATTGAGAAACTAATTACA
4865311 CTATTAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 6 0.27
28 15 0.68
29 1 0.05
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAAAATATTGAGAAACTAATTACATC
Found at i:4877458 original size:2 final size:2
Alignment explanation
Indices: 4877451--4877489 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4877441 TATTATAAAT
4877451 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4877490 TATCAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4896191 original size:55 final size:55
Alignment explanation
Indices: 4896107--4896218 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
4896097 AATTGATAAT
4896107 TAAAGAAGGCGCTACCTATAATGTTATAGCTATAGACTTATTTTTGTTATTGGTG
1 TAAAGAAGGCGCTACCTATAATGTTATAGCTATAGACTTATTTTTGTTATTGGTG
4896162 TAAAGAAGGCGCTACCTATAATGTTATAGCTATAGACTTATTTTTGTTATTGGTG
1 TAAAGAAGGCGCTACCTATAATGTTATAGCTATAGACTTATTTTTGTTATTGGTG
4896217 TA
1 TA
4896219 CTAATTTGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (55 bp):
TAAAGAAGGCGCTACCTATAATGTTATAGCTATAGACTTATTTTTGTTATTGGTG
Found at i:4897554 original size:2 final size:2
Alignment explanation
Indices: 4897547--4897579 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4897537 AATTAAATAC
4897547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4897580 ACTCAGCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4897650 original size:18 final size:18
Alignment explanation
Indices: 4897627--4897663 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4897617 CAGCCCACTG
4897627 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
4897645 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
4897663 C
1 C
4897664 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCATTTAAATTTTAAAA
Found at i:4902201 original size:23 final size:23
Alignment explanation
Indices: 4902171--4902215 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4902161 AGTGTAAACT
*
4902171 GTTTGTATACTGCATTATGCTTG
1 GTTTGTATACTGAATTATGCTTG
4902194 GTTTGTATACTGAATTATGCTT
1 GTTTGTATACTGAATTATGCTT
4902216 CCAGTTCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (23 bp):
GTTTGTATACTGAATTATGCTTG
Found at i:4902395 original size:16 final size:16
Alignment explanation
Indices: 4902356--4902395 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4902346 TTGTAAACTG
*
4902356 TTTTTTAATTAAAAAA
1 TTTTTAAATTAAAAAA
* *
4902372 ATTTTAAATTCAAAAA
1 TTTTTAAATTAAAAAA
4902388 TTTTTAAA
1 TTTTTAAA
4902396 AATTTTGGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTTAAATTAAAAAA
Found at i:4902494 original size:29 final size:29
Alignment explanation
Indices: 4902438--4902494 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
4902428 ACCGAAATTT
** ** *
4902438 GTTCGGTTCGGTTAATTTTTTCATAAAAG
1 GTTCGGTTCGGTTAATGGTTAAAGAAAAG
4902467 GTTCGGTTCGGTTAATGGTTAAAGAAAA
1 GTTCGGTTCGGTTAATGGTTAAAGAAAA
4902495 AAAAATTCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.39
Consensus pattern (29 bp):
GTTCGGTTCGGTTAATGGTTAAAGAAAAG
Found at i:4903481 original size:13 final size:13
Alignment explanation
Indices: 4903463--4903487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4903453 ACGAACAAGA
4903463 TTTTTTCTTTTCT
1 TTTTTTCTTTTCT
4903476 TTTTTTCTTTTC
1 TTTTTTCTTTTC
4903488 ATTGTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:4903568 original size:19 final size:19
Alignment explanation
Indices: 4903544--4903597 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
4903534 AAATTGCACT
4903544 ATTTTTCTGCACTGTTTGA
1 ATTTTTCTGCACTGTTTGA
4903563 ATTTTTCTGCACTGTTTGA
1 ATTTTTCTGCACTGTTTGA
4903582 ATTTTTCTGCACTGTT
1 ATTTTTCTGCACTGTT
4903598 CGAACAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.54
Consensus pattern (19 bp):
ATTTTTCTGCACTGTTTGA
Found at i:4904011 original size:13 final size:13
Alignment explanation
Indices: 4903993--4904022 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4903983 AGGCTCAAAA
4903993 TTCACATGAAAGG
1 TTCACATGAAAGG
*
4904006 TTCACATGCAAGG
1 TTCACATGAAAGG
4904019 TTCA
1 TTCA
4904023 AATTTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (13 bp):
TTCACATGAAAGG
Found at i:4907316 original size:21 final size:20
Alignment explanation
Indices: 4907278--4907318 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4907268 AATTATAGAA
* *
4907278 AATAATTTTTTTGTTCGTAT
1 AATAATTTTTATGGTCGTAT
4907298 AATAATTTTTATGCGTCGTAT
1 AATAATTTTTATG-GTCGTAT
4907319 CCAATGTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (20 bp):
AATAATTTTTATGGTCGTAT
Found at i:4912931 original size:18 final size:18
Alignment explanation
Indices: 4912910--4912957 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4912900 TATTAATGGA
4912910 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
4912928 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
4912946 G-AATAAAAATAA
1 GTAAAAAAAATAA
4912958 TGTGTACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:4913281 original size:23 final size:22
Alignment explanation
Indices: 4913224--4913323 Score: 71
Period size: 23 Copynumber: 4.4 Consensus size: 22
4913214 ACATCTATAC
**
4913224 ATATATATATATATATATATAATG
1 ATATATA-ATATATATA-ATAAAA
4913248 ATATA-AGATATATATAATAAAA
1 ATATATA-ATATATATAATAAAA
*
4913270 ATAGTATAATATAAATAA-AAAA
1 ATA-TATAATATATATAATAAAA
* * *
4913292 AGGAATATAGTAAATA-AATAAAA
1 A--TATATAATATATATAATAAAA
4913315 ATATATAAT
1 ATATATAAT
4913324 TAAAAATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
21 6 0.10
22 14 0.23
23 34 0.56
24 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
ATATATAATATATATAATAAAA
Found at i:4913305 original size:21 final size:18
Alignment explanation
Indices: 4913255--4913329 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 18
4913245 ATGATATAAG
**
4913255 ATATATATAATAAAAATAGT
1 ATATATA-AATAAAAA-AAA
4913275 ATAATATAAATAAAAAAAGGA
1 AT-ATATAAATAAAAAAA--A
*
4913296 ATATAGTAAATAAATAAAA
1 ATATA-TAAATAAAAAAAA
*
4913315 ATATATAATTAAAAA
1 ATATATAAATAAAAA
4913330 TATATATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
18 8 0.17
19 7 0.15
20 13 0.28
21 18 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
ATATATAAATAAAAAAAA
Found at i:4913327 original size:14 final size:14
Alignment explanation
Indices: 4913305--4913335 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4913295 AATATAGTAA
4913305 ATAAATAAAAATAT
1 ATAAATAAAAATAT
*
4913319 ATAATTAAAAATAT
1 ATAAATAAAAATAT
4913333 ATA
1 ATA
4913336 TATGGGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:4914834 original size:110 final size:110
Alignment explanation
Indices: 4914679--4914876 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
4914669 AATTGGGAAA
* * *
4914679 TTGTTTGTTGACAGACATCCGTCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTTGAGTTCAATA
1 TTGTTTGTTGACAGACATCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
* *
4914744 TCCTTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGAAAAG
66 TCCATCGCTGTGAAGTTAAAATTGACTTTGAATGAAACTGAAAAG
* *
4914789 TTGTTTGTTGACA-ATCAGT-CGCCCCTTCGTTATGAATTTGAGCTTGTGTTGTCTTGAGTCCAA
1 TTGTTTGTTGACAGA-CA-TCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCTTGAGTCCAA
4914852 TATCCATCGCTGTGAAGTTAAAATT
64 TATCCATCGCTGTGAAGTTAAAATT
4914877 AGCTCTGAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 1 0.01
110 77 0.97
111 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (110 bp):
TTGTTTGTTGACAGACATCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
TCCATCGCTGTGAAGTTAAAATTGACTTTGAATGAAACTGAAAAG
Found at i:4915667 original size:21 final size:22
Alignment explanation
Indices: 4915609--4915660 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
4915599 AAACGGTCTC
4915609 AAGGGAAACAAAATTTTGTTTT
1 AAGGGAAACAAAATTTTGTTTT
4915631 AAGGGAAACAAAATTTTGTTTT
1 AAGGGAAACAAAATTTTGTTTT
4915653 AAGGGAAA
1 AAGGGAAA
4915661 TAAATTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (22 bp):
AAGGGAAACAAAATTTTGTTTT
Found at i:4915742 original size:67 final size:65
Alignment explanation
Indices: 4915631--4915783 Score: 182
Period size: 65 Copynumber: 2.3 Consensus size: 65
4915621 ATTTTGTTTT
* ** * *
4915631 AAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGATGATTTTGTGTTTCAAGAGAAACTTT
1 AAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGAAACTGT
*
4915696 CTC
63 ATC
*
4915699 AAGGGAGACAAAATTTGTTTT-AGGAGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTGTAT
1 AAGGGAGACAAAATTTGTTTTAAGG-GAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTAT
4915763 C
65 C
* *
4915764 AAGAGAGACGAAATTTGTTT
1 AAGGGAGACAAAATTTGTTT
4915784 CAATAGAAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
65 36 0.48
66 6 0.08
67 21 0.28
68 12 0.16
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (65 bp):
AAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACTGTATC
Found at i:4915786 original size:21 final size:21
Alignment explanation
Indices: 4915762--4915844 Score: 52
Period size: 22 Copynumber: 4.2 Consensus size: 21
4915752 GGAAACTGTA
4915762 TCAAGAGAGACGAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
* * *
4915783 TC---A-ATA-GAAA-CTGTC
1 TCAAGAGAGACGAAATTTGTT
* *
4915798 TCAAGAGAGACAAAACTTAGTT
1 TCAAGAGAGACGAAA-TTTGTT
* *
4915820 CCAAAAGAGACGAAATTTGTT
1 TCAAGAGAGACGAAATTTGTT
4915841 TCAA
1 TCAA
4915845 ATAAAACATA
Statistics
Matches: 42, Mismatches: 13, Indels: 14
0.61 0.19 0.20
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 2 0.05
18 2 0.05
19 2 0.05
20 3 0.07
21 10 0.24
22 14 0.33
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACGAAATTTGTT
Found at i:4915952 original size:36 final size:36
Alignment explanation
Indices: 4915864--4915952 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
4915854 ATTCAAATAT
*
4915864 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTATTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
* *
4915900 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACGAAA
1 TTTATTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
4915936 TTTATTTCAAGGGAAAT
1 TTTATTTCAAGGGAAAT
4915953 GTTTTTAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (36 bp):
TTTATTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
Found at i:4915993 original size:44 final size:44
Alignment explanation
Indices: 4915942--4916074 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 44
4915932 GAAATTTATT
* *
4915942 TCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAATTGTC
1 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
* ** * *
4915986 TCAAGGG--A-G---GCAAAATTT-TGTTTCAAGGGAAACTATC
1 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
4916023 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
4916067 TCAAGGGA
1 TCAAGGGA
4916075 GACAATATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
37 23 0.33
38 5 0.07
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 6 0.09
44 32 0.46
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (44 bp):
TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
Found at i:4916025 original size:37 final size:37
Alignment explanation
Indices: 4915967--4916113 Score: 141
Period size: 37 Copynumber: 3.8 Consensus size: 37
4915957 TTAATGTTTA
* * * *
4915967 TGTTTCAAGAGAAATTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAATATTT
* * *
4916004 TGTTTCAAGGGAAACTATCTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTATCTCAAGGG--A-G---ACAATATTT
*
4916047 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTT
1 -TGTTTCAAGAGAAACTATCTCAAGGGAGACAATATTT
* *
4916085 TGTTTCAAGGGAAACTATCTCAAGCGAGA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGA
4916114 TAAAATCTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
37 49 0.54
38 7 0.08
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 6 0.07
44 24 0.27
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAATATTT
Found at i:4916030 original size:81 final size:81
Alignment explanation
Indices: 4915942--4916108 Score: 298
Period size: 81 Copynumber: 2.1 Consensus size: 81
4915932 GAAATTTATT
* * *
4915942 TCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGGCAAAATTTTGT
1 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
4916007 TTCAAGGGAAACTATC
66 TTCAAGGGAAACTATC
*
4916023 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATATTTTGT
1 TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
4916088 TTCAAGGGAAACTATC
66 TTCAAGGGAAACTATC
4916104 TCAAG
1 TCAAG
4916109 CGAGATAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (81 bp):
TCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
TTCAAGGGAAACTATC
Found at i:4917699 original size:69 final size:69
Alignment explanation
Indices: 4917586--4917721 Score: 218
Period size: 69 Copynumber: 2.0 Consensus size: 69
4917576 TCTCTCTCTT
**
4917586 GATGCTCTATGATCTTCGAGTGGAGTGATCCAGTAATTCAGAAATGATTGTGCTTGATCAATCTC
1 GATGCTCTATGATCTTCGAGTCAAGTGATCCAGTAATTCAGAAATGATTGTGCTTGATCAATCTC
4917651 ATTG
66 ATTG
* * * *
4917655 GATGCTCTATGATCTTCGAGTCAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATCTC
1 GATGCTCTATGATCTTCGAGTCAAGTGATCCAGTAATTCAGAAATGATTGTGCTTGATCAATCTC
4917720 AT
66 AT
4917722 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (69 bp):
GATGCTCTATGATCTTCGAGTCAAGTGATCCAGTAATTCAGAAATGATTGTGCTTGATCAATCTC
ATTG
Found at i:4917836 original size:14 final size:13
Alignment explanation
Indices: 4917794--4917842 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
4917784 TTTTCTTCAA
4917794 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
4917806 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
4917818 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
4917833 TTTTCTCTTT
1 TTTTCTCTTT
4917843 TTGTTCTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
14 10 0.30
15 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:4917840 original size:27 final size:25
Alignment explanation
Indices: 4917793--4917844 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
4917783 TTTTTCTTCA
4917793 ATTTTCCTTTGTTTTTTCTCTTTTT
1 ATTTTCCTTTGTTTTTTCTCTTTTT
4917818 ATTTTCTCTTTGCTTTTTTCTCTTTTT
1 ATTTTC-CTTTG-TTTTTTCTCTTTTT
4917845 GTTCTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 14 0.56
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTTTCCTTTGTTTTTTCTCTTTTT
Found at i:4921008 original size:19 final size:17
Alignment explanation
Indices: 4920958--4921011 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 17
4920948 ACAAAGCACG
*
4920958 TAAAAAATAAAAAATAA
1 TAAAAATTAAAAAATAA
*
4920975 TAAAAATAAACAAAATGAA
1 TAAAAATTAA-AAAAT-AA
*
4920994 TAAAATGTTAAAAAATAA
1 TAAAA-ATTAAAAAATAA
4921012 AGATACAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.27
18 7 0.23
19 12 0.40
20 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (17 bp):
TAAAAATTAAAAAATAA
Found at i:4921063 original size:18 final size:18
Alignment explanation
Indices: 4921042--4921089 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4921032 TATTAATGGA
4921042 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
4921060 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
4921078 G-AATAAAAATAA
1 GTAAAAAAAATAA
4921090 TGTTTACACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:4921237 original size:2 final size:2
Alignment explanation
Indices: 4921225--4921258 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4921215 TAAAGTAAAA
4921225 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4921259 AAAACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4921291 original size:36 final size:38
Alignment explanation
Indices: 4921250--4921333 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 38
4921240 ATATATATAT
4921250 ATATATATAAAAAC-A-AAAATAGAATATTAAGAAAAA
1 ATATATATAAAAACAATAAAATAGAATATTAAGAAAAA
*
4921286 ATATATATAAAAACATATAAAATATAATATTAAGAAAAA
1 ATATATATAAAAACA-ATAAAATAGAATATTAAGAAAAA
4921325 ATATATATA
1 ATATATATA
4921334 TACATAGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 14 0.32
38 1 0.02
39 29 0.66
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (38 bp):
ATATATATAAAAACAATAAAATAGAATATTAAGAAAAA
Found at i:4921339 original size:37 final size:39
Alignment explanation
Indices: 4921250--4921344 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
4921240 ATATATATAT
*
4921250 ATATATATAAAA-ACA--AAAATAGAATATTAAGAAAAA
1 ATATATATAAAACATAGTAAAATAGAATATTAAGAAAAA
*
4921286 ATATATATAAAAACATA-TAAAATATAATATTAAGAAAAA
1 ATATATAT-AAAACATAGTAAAATAGAATATTAAGAAAAA
*
4921325 ATATATAT-ATACATAGTAAA
1 ATATATATAAAACATAGTAAA
4921345 TGGAGAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.15
37 10 0.19
38 6 0.12
39 28 0.54
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (39 bp):
ATATATATAAAACATAGTAAAATAGAATATTAAGAAAAA
Found at i:4921410 original size:20 final size:20
Alignment explanation
Indices: 4921370--4921427 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
4921360 ACATCTATAC
*
4921370 ATATATATATATATAATATAAG
1 ATATATATA-ATA-AAAATAAG
*
4921392 ATATATATAATAAAAATAAT
1 ATATATATAATAAAAATAAG
4921412 ATA-ATATAAATAAAAA
1 ATATATAT-AATAAAAA
4921428 AAGGAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
20 17 0.52
21 3 0.09
22 9 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATATAATAAAAATAAG
Found at i:4921424 original size:14 final size:15
Alignment explanation
Indices: 4921365--4921423 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 15
4921355 TTAATACATC
*
4921365 TATACATATATATATA
1 TATA-ATATAAATATA
4921381 TATAATATAAGATATA
1 TATAATATAA-ATATA
*
4921397 TATAATAAAAATA-A
1 TATAATATAAATATA
4921411 TATAATATAAATA
1 TATAATATAAATA
4921424 AAAAAAGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
14 13 0.33
15 8 0.21
16 18 0.46
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
TATAATATAAATATA
Found at i:4921424 original size:23 final size:23
Alignment explanation
Indices: 4921382--4921454 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
4921372 ATATATATAT
*
4921382 ATAATATAAGATATATATAATAAAA
1 ATAATAT-A-ATATAAATAATAAAA
4921407 ATAATATAATATAAATAA-AAAA
1 ATAATATAATATAAATAATAAAA
* *
4921429 AGGAATAT-A-GTAAATAAATAAAA
1 A-TAATATAATATAAAT-AATAAAA
4921452 ATA
1 ATA
4921455 TAATTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
21 5 0.12
22 9 0.22
23 19 0.46
24 1 0.02
25 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
ATAATATAATATAAATAATAAAA
Found at i:4926952 original size:43 final size:43
Alignment explanation
Indices: 4926901--4926988 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
4926891 AATCTTAGTC
* *
4926901 ATTTTTAATGTTAATCTTGTATTAACTAGAGTTTAAAATATAT
1 ATTTTTAATGTTAATCTTGTATTAACTAGAGTTAAAAACATAT
*
4926944 ATTTTTAATTTTAATCTTGTATTAACTAGAGTTAAAAACATAT
1 ATTTTTAATGTTAATCTTGTATTAACTAGAGTTAAAAACATAT
4926987 AT
1 AT
4926989 GAAATCTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (43 bp):
ATTTTTAATGTTAATCTTGTATTAACTAGAGTTAAAAACATAT
Found at i:4927420 original size:11 final size:11
Alignment explanation
Indices: 4927404--4927428 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4927394 ACACGATTCC
4927404 TTTTTGAATAA
1 TTTTTGAATAA
4927415 TTTTTGAATAA
1 TTTTTGAATAA
4927426 TTT
1 TTT
4927429 CACTCTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTTTGAATAA
Found at i:4927443 original size:13 final size:13
Alignment explanation
Indices: 4927425--4927454 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4927415 TTTTTGAATA
4927425 ATTTCACTCTAAC
1 ATTTCACTCTAAC
4927438 ATTTCACTCTAAC
1 ATTTCACTCTAAC
4927451 ATTT
1 ATTT
4927455 TAAATCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTTCACTCTAAC
Found at i:4927637 original size:18 final size:18
Alignment explanation
Indices: 4927598--4927636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4927588 TATTATTGAC
4927598 TTTTATATTTTAAGTATA
1 TTTTATATTTTAAGTATA
* *
4927616 TTTTATGTTTTTA-TATA
1 TTTTATATTTTAAGTATA
4927633 TTTT
1 TTTT
4927637 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTAAGTATA
Found at i:4931712 original size:26 final size:26
Alignment explanation
Indices: 4931673--4931752 Score: 133
Period size: 26 Copynumber: 3.1 Consensus size: 26
4931663 ACTAAGTGCA
*
4931673 TATGGTGGGTACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
4931699 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* *
4931725 TATGGTGGCCACGACCTTGTGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
4931751 TA
1 TA
4931753 GCACTTCAGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:4932889 original size:17 final size:17
Alignment explanation
Indices: 4932855--4932903 Score: 80
Period size: 17 Copynumber: 2.8 Consensus size: 17
4932845 TACATAGTAA
*
4932855 TATCGGTACTCCTTTGGG
1 TATCGGTA-TCATTTGGG
4932873 TATCGGTATCATTTGGG
1 TATCGGTATCATTTGGG
4932890 TATCGGTATCATTT
1 TATCGGTATCATTT
4932904 TTGCATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 22 0.73
18 8 0.27
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (17 bp):
TATCGGTATCATTTGGG
Found at i:4934416 original size:19 final size:19
Alignment explanation
Indices: 4934379--4934430 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
4934369 TTTAAATCAT
4934379 TTTTCAAAATTTC-ATTTTGA
1 TTTTCAAAA--TCAATTTTGA
*
4934399 TTTTCAAAATCAATTTTGG
1 TTTTCAAAATCAATTTTGA
*
4934418 CTTTCAAAATCAA
1 TTTTCAAAATCAA
4934431 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 18 0.62
20 9 0.31
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (19 bp):
TTTTCAAAATCAATTTTGA
Found at i:4934938 original size:15 final size:15
Alignment explanation
Indices: 4934918--4934954 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4934908 CACCTTCTTC
*
4934918 TTCTTCTTTTCTTTA
1 TTCTTCTTTTCCTTA
4934933 TTCTTCTTTTCCTTA
1 TTCTTCTTTTCCTTA
4934948 TT-TTCTT
1 TTCTTCTT
4934955 CATTATCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (15 bp):
TTCTTCTTTTCCTTA
Found at i:4956056 original size:42 final size:40
Alignment explanation
Indices: 4956004--4956116 Score: 158
Period size: 42 Copynumber: 2.8 Consensus size: 40
4955994 GATGAAAACA
4956004 TTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGTTT
1 TTGTCACTAGTC-TA-TTGGTGATTTGTGACGATAATTGTTT
* *
4956046 TTGTCCCTAGTCATATTTGGTGATTTGTGAAGATAATTGTTT
1 TTGTCACTAGTC-TA-TTGGTGATTTGTGACGATAATTGTTT
4956088 TTGTCACTAGTCT-TT-GTGATTTGTGACGA
1 TTGTCACTAGTCTATTGGTGATTTGTGACGA
4956117 CAATAATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 13 0.20
39 2 0.03
41 1 0.02
42 49 0.75
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (40 bp):
TTGTCACTAGTCTATTGGTGATTTGTGACGATAATTGTTT
Found at i:4956496 original size:22 final size:22
Alignment explanation
Indices: 4956468--4956513 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
4956458 AAGTGTGATG
4956468 TATTTTTATTTCTTAACTGTTA
1 TATTTTTATTTCTTAACTGTTA
4956490 TATTTTTATTTCTTAACTGTTA
1 TATTTTTATTTCTTAACTGTTA
4956512 TA
1 TA
4956514 GTAATAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTTTTATTTCTTAACTGTTA
Found at i:4957706 original size:2 final size:2
Alignment explanation
Indices: 4957699--4957725 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4957689 ATACAACTAA
4957699 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4957726 AACAAGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4958983 original size:8 final size:8
Alignment explanation
Indices: 4958970--4959033 Score: 73
Period size: 8 Copynumber: 8.4 Consensus size: 8
4958960 TATTATTGTA
4958970 AATTTATT
1 AATTTATT
4958978 AATTTATT
1 AATTTATT
4958986 AATTTATT
1 AATTTATT
4958994 AATTTATT
1 AATTTATT
4959002 AATATT-TT
1 AAT-TTATT
*
4959010 --TTTACT
1 AATTTATT
*
4959016 ATTTTATT
1 AATTTATT
4959024 -ATTTATT
1 AATTTATT
4959031 AAT
1 AAT
4959034 AATATTAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
7 6 0.12
8 36 0.75
9 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (8 bp):
AATTTATT
Found at i:4958991 original size:16 final size:15
Alignment explanation
Indices: 4958958--4959033 Score: 70
Period size: 16 Copynumber: 5.1 Consensus size: 15
4958948 AACAATATTT
4958958 TTTATTATTGTA--AA
1 TTTATTATT-TATTAA
4958972 TTTATTAATTTATTAA
1 TTTATT-ATTTATTAA
4958988 TTTATTAATTTATTAA
1 TTTATT-ATTTATTAA
* *
4959004 TATT-TT-TTTACTAT
1 T-TTATTATTTATTAA
4959018 TTTATTATTTATTAA
1 TTTATTATTTATTAA
4959033 T
1 T
4959034 AATATTAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.04
14 17 0.33
15 10 0.19
16 21 0.40
17 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (15 bp):
TTTATTATTTATTAA
Found at i:4959039 original size:16 final size:15
Alignment explanation
Indices: 4958974--4959040 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
4958964 ATTGTAAATT
*
4958974 TATTAATTTATTAATT
1 TATT-ATTTATTAATA
4958990 TATTAATTTATTAATA
1 TATT-ATTTATTAATA
* * * *
4959006 T-TTTTTTACTATTT
1 TATTATTTATTAATA
4959020 TATTATTTATTAATAA
1 TATTATTTATTAAT-A
4959036 TATTA
1 TATTA
4959041 AAGTGATATA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 8 0.20
15 11 0.28
16 21 0.52
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTTATTAATA
Found at i:4963044 original size:20 final size:20
Alignment explanation
Indices: 4963015--4963052 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4963005 CCTCTTCAAA
*
4963015 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4963035 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4963053 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4969795 original size:18 final size:20
Alignment explanation
Indices: 4969759--4969795 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
4969749 TTTCTTTAGA
*
4969759 TTAATATAAGTATTTTCATT
1 TTAATATAAGTATTGTCATT
4969779 TTAATAT-A-TATTGTCAT
1 TTAATATAAGTATTGTCAT
4969796 ATTATGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAATATAAGTATTGTCATT
Found at i:4970176 original size:191 final size:192
Alignment explanation
Indices: 4969852--4970205 Score: 507
Period size: 191 Copynumber: 1.8 Consensus size: 192
4969842 ATATGGTGAC
*
4969852 GTTATGCATAATCATCATTCAAAATACTATTACATAACATTATATTATGTCACTAAAAATTGGAC
1 GTTATGCATAATCATCATTCAAAATACTATTACATAACATTATATTACGTCACTAAAAATTGGAC
* * * *
4969917 AATATCTCTTTCGTAACATATAGGTTGATTTTATTGTAGTATTCGTGACGATATAAATTATTAAT
66 AATATCTCTTTCGTAACATATAGATTGATTTTAATGTAGTATTCATGACAATATAAATTATTAAT
* *
4969982 -AAAAATATTATATAATTTAGTGACGTAACTAACAGTCATGCAATATAAGTTATAAAATGAT
131 AAAAAAAATTATATAATTTAATGACGTAACTAACAGTCATGCAATATAAGTTATAAAATGAT
* * ** * *
4970043 GTTATGCATAAGT-GTCATTCATAATACTATTAGGTAACGTTATATTACGTCACTGAAAA-TGTG
1 GTTATGCATAA-TCATCATTCAAAATACTATTACATAACATTATATTACGTCACTAAAAATTG-G
* * * *
4970106 ACAATATCTCTTTCGTCACATATAGATTGATTTTAATGTATTATTCATGACAATGTGAATTATTA
64 ACAATATCTCTTTCGTAACATATAGATTGATTTTAATGTAGTATTCATGACAATATAAATTATTA
4970171 ATAAAAAAAAATTATATAATTTAATGACGTAACTA
129 AT-AAAAAAAATTATATAATTTAATGACGTAACTA
4970206 GTTGTCATTG
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
190 2 0.01
191 110 0.77
192 1 0.01
193 29 0.20
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.38
Consensus pattern (192 bp):
GTTATGCATAATCATCATTCAAAATACTATTACATAACATTATATTACGTCACTAAAAATTGGAC
AATATCTCTTTCGTAACATATAGATTGATTTTAATGTAGTATTCATGACAATATAAATTATTAAT
AAAAAAAATTATATAATTTAATGACGTAACTAACAGTCATGCAATATAAGTTATAAAATGAT
Found at i:4971426 original size:15 final size:15
Alignment explanation
Indices: 4971408--4971445 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4971398 ACTAATGTAA
*
4971408 TAGTGGCGGAGTTAT
1 TAGTGACGGAGTTAT
4971423 TAGTGACGGAGTTAT
1 TAGTGACGGAGTTAT
4971438 TAGTGACG
1 TAGTGACG
4971446 ACTTGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.37, T:0.32
Consensus pattern (15 bp):
TAGTGACGGAGTTAT
Found at i:4974957 original size:22 final size:20
Alignment explanation
Indices: 4974907--4974957 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
4974897 AAAAAAGGAG
4974907 AAAAAATAT-TAAGAAAATA
1 AAAAAATATGTAAGAAAATA
* **
4974926 CAAAGGTATGTAATGTAAAATA
1 AAAAAATATGTAA-G-AAAATA
4974948 AAAAAATATG
1 AAAAAATATG
4974958 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 1 0.04
22 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (20 bp):
AAAAAATATGTAAGAAAATA
Found at i:4975721 original size:2 final size:2
Alignment explanation
Indices: 4975714--4975770 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
4975704 AATATTCTTT
4975714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4975756 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
4975771 GTGTGTGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4975829 original size:2 final size:2
Alignment explanation
Indices: 4975824--4975866 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
4975814 ATATTTTTTC
4975824 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4975866 A
1 A
4975867 CAGAGTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4977259 original size:21 final size:21
Alignment explanation
Indices: 4977233--4977284 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
4977223 TGCCTTTAAA
4977233 GTATCGATACCTTAGAAACAT
1 GTATCGATACCTTAGAAACAT
4977254 GTATCGATACCTTAGAAACAT
1 GTATCGATACCTTAGAAACAT
4977275 GTATCGATAC
1 GTATCGATAC
4977285 ATGACAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (21 bp):
GTATCGATACCTTAGAAACAT
Found at i:4977419 original size:214 final size:211
Alignment explanation
Indices: 4977043--4977430 Score: 510
Period size: 214 Copynumber: 1.8 Consensus size: 211
4977033 CGGCTAAATA
* *
4977043 GTATCGATACCTTACACACATGTATCAATATATGACATAACAGGCTGAAATTTGACAAAAACGAA
1 GTATCGATACCTTACAAACATGTATCAATACATGACATAACAGGCTGAAATTTGACAAAAACGAA
* * * * *
4977108 TTCAATTTGATAAAACCAGTAAAGAGATACCGAAATTGTTGACAGTATCGATACTTTTATAAGTA
66 TTCAATTTGACAAAACCAGTAAAGAGATACCGAAATTCTTGAAAGTATCAATACGTTTATAAGTA
* *
4977173 TGTGTACCAAAGTATCGATACTATAAGAATTGAAAAGAATTGAATAATAGTGCCTTTAAAGTATC
131 TATGTACCAAAGTATCGATACTATAAGAATTGAAAAGAAATGAATAATAGTGCCTTTAAAGTATC
4977238 GATACCTTAGAAACAT
196 GATACCTTAGAAACAT
* * * * *
4977254 GTATCGATACCTTAGAAACATGTATCGATACATGACAATATAACATGTTGAAATTTGACAAAATC
1 GTATCGATACCTTACAAACATGTATCAATACATGAC---ATAACAGGCTGAAATTTGACAAAAAC
** * *
4977319 GTTTTCAATTTGACAAAACC-GATAAAGCGCTACC-AGAATTCTTGAAAGTATCAATACGTTTAT
63 GAATTCAATTTGACAAAACCAG-TAAAGAGATACCGA-AATTCTTGAAAGTATCAATACGTTTAT
* * * **
4977382 AAGTATATGTACCATAGTATCGGTACTTTCGGAATTGAAAAGAAATGAA
126 AAGTATATGTACCAAAGTATCGATACTATAAGAATTGAAAAGAAATGAA
4977431 AAAAGGAAAA
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
211 32 0.21
213 2 0.01
214 115 0.77
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (211 bp):
GTATCGATACCTTACAAACATGTATCAATACATGACATAACAGGCTGAAATTTGACAAAAACGAA
TTCAATTTGACAAAACCAGTAAAGAGATACCGAAATTCTTGAAAGTATCAATACGTTTATAAGTA
TATGTACCAAAGTATCGATACTATAAGAATTGAAAAGAAATGAATAATAGTGCCTTTAAAGTATC
GATACCTTAGAAACAT
Found at i:4980759 original size:17 final size:18
Alignment explanation
Indices: 4980726--4980759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4980716 CTCATCTTGT
4980726 CTTTCATTCTCGTGACTG
1 CTTTCATTCTCGTGACTG
*
4980744 CTTTCTTTCT-GTGACT
1 CTTTCATTCTCGTGACT
4980760 CAACTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.50
Consensus pattern (18 bp):
CTTTCATTCTCGTGACTG
Found at i:4981861 original size:211 final size:211
Alignment explanation
Indices: 4981456--4982050 Score: 819
Period size: 211 Copynumber: 2.8 Consensus size: 211
4981446 GGATACACAA
4981456 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATG-A
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
* * *
4981520 AATATGG-GTAAATAACAAGTATCGCTACTTGCTATTTACGACTATTTTTCATTATACCAG-A-A
66 AATA-GGCGTAAATAACAAG---CGCTACTTGTTATTTACGACTA-TTTTCATTATAACGGAACA
* *
4981582 --TTTATCCGTTTACATTGTTAGTTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTTCAAGT
126 CTTTTATCCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTTCAAGT
*
4981645 ATCGATACTTTTTATTTACAT
191 ATCGATACTTGTTATTTACAT
* * * **
4981666 GTATAAAATATCGATACTTAGCTAAAATAACAATGTAAATGGTAAAAGTCTACCAATGTAATGAA
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
* *
4981731 AATAGGCGTAAATGACAAGCGCTACTTGTTATTTACAACTATTTTCATTATAACGGAACACTTTT
66 AATAGGCGTAAATAACAAGCGCTACTTGTTATTTACGACTATTTTCATTATAACGGAACACTTTT
* *
4981796 ATCCATTTACATTGTTAATTGACATATTACTTTAAAGTAATAGGTTTCGAAATTTCAAGTATCGA
131 ATCCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTTCAAGTATCGA
*
4981861 TACTTGTTATTTATAT
196 TACTTGTTATTTACAT
* *
4981877 GTATAAAGTATCGATACTTAGGTAAATTAACAATGTAAACAGTAAAAGTCTACCGGTGTAATGAA
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
* ** * * *
4981942 AATAGGCGT-AATAAAAATTATTGCTACTTGTTAGTTACGGCTATTTTCATTAT-ATGAGAACAC
66 AATAGGCGTAAAT-AACA--AGCGCTACTTGTTATTTACGACTATTTTCATTATAACG-GAACAC
* *
4982005 TTTTATTCATTTAAATTGTTAATTTACCTATTACTTTAAAGTAATA
127 TTTTATCCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATA
4982051 AAGCACCTAT
Statistics
Matches: 340, Mismatches: 35, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
207 13 0.04
208 21 0.06
209 1 0.00
210 63 0.19
211 163 0.48
212 2 0.01
213 77 0.23
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (211 bp):
GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
AATAGGCGTAAATAACAAGCGCTACTTGTTATTTACGACTATTTTCATTATAACGGAACACTTTT
ATCCATTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTTCAAGTATCGA
TACTTGTTATTTACAT
Found at i:4982610 original size:200 final size:200
Alignment explanation
Indices: 4982377--4982814 Score: 639
Period size: 200 Copynumber: 2.2 Consensus size: 200
4982367 AATTTGTCTG
4982377 CAACAAAGA-ATCGATACCCATATATAAAGTATCGATACTGGGAATTTCAAAACCTATTACTTTA
1 CAACAAA-ATATCGATA-CCATATATAAAGTATCGATACTGGGAATTTCAAAACCTATTACTTTA
4982441 AAGTAATAGGTAAATTTACAATGAAAACGGTAAAAGTCTAC-TGGTATAATGATAATAGGCGTAA
64 AAGTAATAGGTAAATTTACAATGAAAACGGTAAAAGTCTACAT-GTATAATGATAATAGGCGTAA
* * * *
4982505 ACATAAAGTATCGATATTTTTTATCTCAGTATCGATACTTTTATACCAGCATGCTTATCAAACAA
128 ACATAAAGTATAGATATTGTTTATATCAGTATCAATACTTTTATACCAGCATGCTTATCAAACAA
4982570 TTTAAACA
193 TTTAAACA
* * *
4982578 CAA-AAAATATCGATACACTTATATAAAGTATCGATGCTTGGAATTTCAAAACCTATTACTTTAA
1 CAACAAAATATCGATAC-CATATATAAAGTATCGATACTGGGAATTTCAAAACCTATTACTTTAA
*
4982642 AGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACATGTATAATGATAATAGGCGTAAAC
65 AGTAATAGGTAAATTTACAATGAAAACGGTAAAAGTCTACATGTATAATGATAATAGGCGTAAAC
* ** * * *
4982707 ATAAAGTATATATATTGTTTATATCAGTATCAATACTTTTATTTCATCATGCTTCTCAAATAATT
130 ATAAAGTATAGATATTGTTTATATCAGTATCAATACTTTTATACCAGCATGCTTATCAAACAATT
** *
4982772 TGTACG
195 TAAACA
**
4982778 CAACAATGTATCGATACCAATATATAAAGTATCGATA
1 CAACAAAATATCGATACC-ATATATAAAGTATCGATA
4982815 TCGATATAAT
Statistics
Matches: 211, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
199 2 0.01
200 178 0.84
201 31 0.15
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (200 bp):
CAACAAAATATCGATACCATATATAAAGTATCGATACTGGGAATTTCAAAACCTATTACTTTAAA
GTAATAGGTAAATTTACAATGAAAACGGTAAAAGTCTACATGTATAATGATAATAGGCGTAAACA
TAAAGTATAGATATTGTTTATATCAGTATCAATACTTTTATACCAGCATGCTTATCAAACAATTT
AAACA
Found at i:4982966 original size:15 final size:15
Alignment explanation
Indices: 4982928--4982960 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4982918 TAACAATATA
4982928 TACGGTAAACGTTTC
1 TACGGTAAACGTTTC
4982943 TACGGTAAACGTTTC
1 TACGGTAAACGTTTC
4982958 TAC
1 TAC
4982961 TTTAAAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (15 bp):
TACGGTAAACGTTTC
Found at i:4983025 original size:9 final size:11
Alignment explanation
Indices: 4982992--4983022 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
4982982 ACAATGTACA
4982992 TGATAATATAT
1 TGATAATATAT
4983003 TGATAATATAT
1 TGATAATATAT
4983014 TGATAATAT
1 TGATAATAT
4983023 TGAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (11 bp):
TGATAATATAT
Found at i:4983504 original size:226 final size:223
Alignment explanation
Indices: 4983005--4983625 Score: 759
Period size: 226 Copynumber: 2.8 Consensus size: 223
4982995 TAATATATTG
* * *
4983005 ATAATATATTGATAATATTGAAAACAAATCAAGTAATTAACCTATTTTGTTATTGTCGGATTTCT
1 ATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTATTATTGTCGGATTTCT
* * *
4983070 AAAGTTTCAT-AAGCTTTAAACAGGTGCA--ACCTTTTACATTAAATAAGCTCTACTTGTTATGT
66 -AAGGTTCATCAA-CTTTAAACA--TGCACTACCTATTACATTAAATAAGCGCTAC-TGTTATGT
* * *
4983132 TATTATGGTTGATAATGTTTTCAGTAATTAACCTA-TTTGTTATCGTTGGATTTCTAAGAATGCA
126 TATTATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGAATCCA
*
4983196 TTAGCTTAAACTTTGGTAACATTTTATGCACTAC
191 TCAGCTTAAACTTTGGTAACATTTTATG-ACTAC
* * *
4983230 CTAATACGTTGATAACATTGATAACAAATCAAGTAATTAACCTATTTTATTATTGTCGGATTTCT
1 ATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTATTATTGTCGGATTTCT
*
4983295 AAGGCTTCATCAACTTTAAACATGCACTACCTATTATATTAAATAAGCGCTATCTGTTATGTTAT
66 AAGG-TTCATCAACTTTAAACATGCACTACCTATTACATTAAATAAGCGCTA-CTGTTATGTTAT
* * *
4983360 TATGATTGATAATGTTTCCAATAATTAACCTATTTTGTTATCGTCGGATTTCTAA-AGCTCCATC
129 TATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGA-ATCCATC
*
4983424 AGCTTAAACTTTGGTAACATTGTTATTG-TTAC
193 AGCTTAAACTTTGGTAACATT-TTA-TGACTAC
* ** *
4983456 ATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACTTATTTTATTATCATCGGATTTTT
1 ATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTATTATTGTCGGATTTCT
* ** * ** * * * *
4983521 AAGGTCCCATCAGTTTTAAAAATGTGCTACCTATTACGTTACATAAGTGCTACCTGTTATGCTAT
66 AAGGT-TCATCAACTTTAAACATGCACTACCTATTACATTAAATAAGCGCTA-CTGTTATGTTAT
* * * *
4983586 TATGGTTGATAATATTTCTAGTAATTAACCGATTATGTTA
129 TATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTA
4983626 AAGTCAATAT
Statistics
Matches: 343, Mismatches: 43, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
223 4 0.01
224 3 0.01
225 136 0.40
226 195 0.57
227 3 0.01
228 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (223 bp):
ATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTATTATTGTCGGATTTCT
AAGGTTCATCAACTTTAAACATGCACTACCTATTACATTAAATAAGCGCTACTGTTATGTTATTA
TGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGAATCCATCAGC
TTAAACTTTGGTAACATTTTATGACTAC
Found at i:4985414 original size:10 final size:9
Alignment explanation
Indices: 4985387--4985412 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4985377 TAAAAAAATT
4985387 ATTTTTTTA
1 ATTTTTTTA
4985396 ATTTTTTTA
1 ATTTTTTTA
4985405 ATTTTTTT
1 ATTTTTTT
4985413 TATTATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:4991397 original size:21 final size:21
Alignment explanation
Indices: 4991373--4991416 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4991363 AATAAATTAG
4991373 TAAATATTTTAAAT-AAAAAAA
1 TAAA-ATTTTAAATCAAAAAAA
* *
4991394 TAAAATTTTGAATCAAATAAA
1 TAAAATTTTAAATCAAAAAAA
4991415 TA
1 TA
4991417 TCAAAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAATTTTAAATCAAAAAAA
Found at i:4992503 original size:2 final size:2
Alignment explanation
Indices: 4992496--4992542 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4992486 TAATTCAATT
4992496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4992538 TA TA T
1 TA TA T
4992543 TACGATTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4993711 original size:21 final size:21
Alignment explanation
Indices: 4993663--4993711 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
4993653 CATGACATCT
*
4993663 ATAACAACAAACTTTAAATCC
1 ATAATAACAAACTTTAAATCC
4993684 ATAATAACAAACTTTAAATCC
1 ATAATAACAAACTTTAAATCC
*
4993705 ATTATAA
1 ATAATAA
4993712 TAAATCAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATAACAAACTTTAAATCC
Found at i:4993711 original size:24 final size:22
Alignment explanation
Indices: 4993661--4993725 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 22
4993651 AACATGACAT
*
4993661 CTATAACAACAAACTTTAAATC
1 CTATAATAACAAACTTTAAATC
4993683 C-ATAATAACAAACTTTAAATC
1 CTATAATAACAAACTTTAAATC
4993704 CATTATAATAAATCAAACTTTA
1 C--TATAAT-AA-CAAACTTTA
4993726 TATTAACGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 20 0.54
22 1 0.03
24 5 0.14
25 2 0.05
26 9 0.24
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
CTATAATAACAAACTTTAAATC
Found at i:4997908 original size:138 final size:138
Alignment explanation
Indices: 4997658--4997909 Score: 407
Period size: 138 Copynumber: 1.8 Consensus size: 138
4997648 ATGTAATGAA
* *
4997658 TATCGATCGATTTTGCGTAATGCATAAAGGTGCATTTTCGTATCAGTACTATGTGTACTTTCGGC
1 TATCGATCGATTTTGCGTAATGCATAAAGGTGCATTTTCATATCAGTACTATATGTACTTTCGGC
*
4997723 ACTAGATGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCATTTTGACATACAATTATGC
66 ACTAGATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTTGACATACAATTATGC
4997788 ATAAGAGT
131 ATAAGAGT
** * *
4997796 TATCGATCGATTTTGTTTAATGCATAACGGTGTATTTTCATATCAGTACTATATGTACTTTCGGC
1 TATCGATCGATTTTGCGTAATGCATAAAGGTGCATTTTCATATCAGTACTATATGTACTTTCGGC
* *
4997861 ACTATG-TGTGCATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTT
66 ACTA-GATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTT
4997910 CGGCACTTAG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
138 103 0.99
139 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (138 bp):
TATCGATCGATTTTGCGTAATGCATAAAGGTGCATTTTCATATCAGTACTATATGTACTTTCGGC
ACTAGATGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTTGACATACAATTATGC
ATAAGAGT
Found at i:5008279 original size:19 final size:20
Alignment explanation
Indices: 5008240--5008283 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
5008230 ACAATTGAAT
5008240 TTGCCACGACATTTCATCCAA
1 TTGCCACGACA-TTCATCCAA
5008261 CTTGCCACGACA-T-ATCCAA
1 -TTGCCACGACATTCATCCAA
5008280 TTGC
1 TTGC
5008284 TACCACACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 1 0.05
22 11 0.50
ACGTcount: A:0.27, C:0.34, G:0.11, T:0.27
Consensus pattern (20 bp):
TTGCCACGACATTCATCCAA
Found at i:5026591 original size:20 final size:20
Alignment explanation
Indices: 5026568--5026610 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5026558 AATCCACCAC
*
5026568 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
5026588 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
5026608 ATG
1 ATG
5026611 GGCTCCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:5028345 original size:42 final size:42
Alignment explanation
Indices: 5028286--5028395 Score: 220
Period size: 42 Copynumber: 2.6 Consensus size: 42
5028276 TAGCACTGTT
5028286 AAACTGAACCCCATTGTTGGAGCAGCTATTCACAACTCAACC
1 AAACTGAACCCCATTGTTGGAGCAGCTATTCACAACTCAACC
5028328 AAACTGAACCCCATTGTTGGAGCAGCTATTCACAACTCAACC
1 AAACTGAACCCCATTGTTGGAGCAGCTATTCACAACTCAACC
5028370 AAACTGAACCCCATTGTTGGAGCAGC
1 AAACTGAACCCCATTGTTGGAGCAGC
5028396 AAAATATAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
AAACTGAACCCCATTGTTGGAGCAGCTATTCACAACTCAACC
Found at i:5029575 original size:41 final size:41
Alignment explanation
Indices: 5029458--5029607 Score: 140
Period size: 41 Copynumber: 3.7 Consensus size: 41
5029448 ATGTTTGAAC
* ** * *
5029458 AAAAATACCACTAAAGTACAAGTCTATAG-AGGTGTTTGTAT
1 AAAAACACCACTAAAGTATGAGTCTTTAGCA-GCGTTTGTAT
* * * *
5029499 AAAAACACCACTACAGTATGACTCTATAGCGGCGTTTGTAT
1 AAAAACACCACTAAAGTATGAGTCTTTAGCAGCGTTTGTAT
* * * * *
5029540 ACAAACACCACAAAAGTGTGAGTCTTTAGCAGCGTTTTTAC
1 AAAAACACCACTAAAGTATGAGTCTTTAGCAGCGTTTGTAT
* *
5029581 ATAAACACCACTAAAGTAAGAGTCTTT
1 AAAAACACCACTAAAGTATGAGTCTTT
5029608 TACGGCGTTC
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (41 bp):
AAAAACACCACTAAAGTATGAGTCTTTAGCAGCGTTTGTAT
Found at i:5029616 original size:41 final size:41
Alignment explanation
Indices: 5029450--5029616 Score: 138
Period size: 41 Copynumber: 4.1 Consensus size: 41
5029440 CTATTACGAT
* * * ** * * *
5029450 GTTTGAACAAAAATACCACTAAAGTACAAGTCTATAGAGGT
1 GTTTGTACACAAACACCACTAAAGTATGAGTCTTTAGCGGC
* * * * *
5029491 GTTTGTATAAAAACACCACTACAGTATGACTCTATAGCGGC
1 GTTTGTACACAAACACCACTAAAGTATGAGTCTTTAGCGGC
* * * *
5029532 GTTTGTATACAAACACCACAAAAGTGTGAGTCTTTAGCAGC
1 GTTTGTACACAAACACCACTAAAGTATGAGTCTTTAGCGGC
* * *
5029573 GTTTTTACATAAACACCACTAAAGTAAGAGTCTTTTA-CGGC
1 GTTTGTACACAAACACCACTAAAGTATGAGTC-TTTAGCGGC
5029614 GTT
1 GTT
5029617 CGATCAAGAA
Statistics
Matches: 102, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 98 0.96
42 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (41 bp):
GTTTGTACACAAACACCACTAAAGTATGAGTCTTTAGCGGC
Found at i:5029984 original size:44 final size:44
Alignment explanation
Indices: 5029926--5030054 Score: 188
Period size: 44 Copynumber: 2.9 Consensus size: 44
5029916 CGTTTATAAT
*
5029926 AAAAACACCACTAAGGTACATGACTATTGAGGCGTTTATTACAA
1 AAAAATACCACTAAGGTACATGACTATTGAGGCGTTTATTACAA
*
5029970 AAAAATGCCACTAAGGTACATGACTATTGAGGCGTTTATTACAA
1 AAAAATACCACTAAGGTACATGACTATTGAGGCGTTTATTACAA
* ** *
5030014 AAAAATATCACTAAATTACATGATTATTGCA-GCGTTTATTA
1 AAAAATACCACTAAGGTACATGACTATTG-AGGCGTTTATTA
5030055 TACAAAGGCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 76 0.99
45 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (44 bp):
AAAAATACCACTAAGGTACATGACTATTGAGGCGTTTATTACAA
Found at i:5030468 original size:83 final size:83
Alignment explanation
Indices: 5030350--5030555 Score: 243
Period size: 83 Copynumber: 2.5 Consensus size: 83
5030340 TTACTCATTG
* * ** * * *
5030350 CGGCGTTTGTATAAAAACGTTGTTAAACTACTACTCTAG-TGTGACGATTGTTGAAAAAACACCA
1 CGGCGTTTGTCTAACAACGCCGCTAAAGTACTACTCT-GTTGCGACGATTGTTGAAAAAACACCA
*
5030414 CTATATATGAAATCTATTA
65 CTATATATGAAACCTATTA
* * *
5030433 CGGCGTTTGTCTAACAACGCCGCTAAAGTACTACTCTGTTGCGGCGTTTGTTGAAGAAACACCAC
1 CGGCGTTTGTCTAACAACGCCGCTAAAGTACTACTCTGTTGCGACGATTGTTGAAAAAACACCAC
*
5030498 TATATATGAAACCTATTG
66 TATATATGAAACCTATTA
* ** **
5030516 TGGTATTTGTCTAACAATACCGCTAAAGTACTACTCTGTT
1 CGGCGTTTGTCTAACAACGCCGCTAAAGTACTACTCTGTT
5030556 ACGGCCAGGG
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
82 1 0.01
83 104 0.99
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (83 bp):
CGGCGTTTGTCTAACAACGCCGCTAAAGTACTACTCTGTTGCGACGATTGTTGAAAAAACACCAC
TATATATGAAACCTATTA
Found at i:5030645 original size:21 final size:21
Alignment explanation
Indices: 5030621--5030669 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
5030611 TTCGAGTAAC
*
5030621 CCGCGACGGCCGCAATAACGT
1 CCGCGACGACCGCAATAACGT
*
5030642 CCGCGACGACCGCAATAGCGT
1 CCGCGACGACCGCAATAACGT
5030663 CCGCGAC
1 CCGCGAC
5030670 ACCCGCGACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.29, T:0.08
Consensus pattern (21 bp):
CCGCGACGACCGCAATAACGT
Found at i:5030678 original size:30 final size:30
Alignment explanation
Indices: 5030642--5030699 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5030632 GCAATAACGT
*
5030642 CCGCGACGACCGCAATAGCGTCCGCGACAC
1 CCGCGACGACCGCAATAACGTCCGCGACAC
* *
5030672 CCGCGACGGCCGTAATAACGTCCGCGAC
1 CCGCGACGACCGCAATAACGTCCGCGAC
5030700 GGTCGCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.28, T:0.09
Consensus pattern (30 bp):
CCGCGACGACCGCAATAACGTCCGCGACAC
Found at i:5030698 original size:21 final size:21
Alignment explanation
Indices: 5030672--5030712 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5030662 TCCGCGACAC
*
5030672 CCGCGACGGCCGTAATAACGT
1 CCGCGACGGCCGCAATAACGT
*
5030693 CCGCGACGGTCGCAATAACG
1 CCGCGACGGCCGCAATAACG
5030713 GTAAATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.34, G:0.29, T:0.12
Consensus pattern (21 bp):
CCGCGACGGCCGCAATAACGT
Found at i:5037119 original size:23 final size:23
Alignment explanation
Indices: 5037073--5037119 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5037063 GACCAAACAT
**
5037073 TAAACAATAAAATAAAAATTAAA
1 TAAACAATAAAATAAAAAGGAAA
5037096 TAAACAA-AAGAATAAAAAGGAAA
1 TAAACAATAA-AATAAAAAGGAAA
5037119 T
1 T
5037120 TTTAATTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (23 bp):
TAAACAATAAAATAAAAAGGAAA
Found at i:5037893 original size:3 final size:3
Alignment explanation
Indices: 5037885--5037934 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
5037875 AAAATAAAAT
5037885 TAA TAA TAA T-A TAA T-A TAA TATA TAA -AA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA
5037929 TAA TAA
1 TAA TAA
5037935 ACTTAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 6 0.14
3 30 0.71
4 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5038005 original size:2 final size:2
Alignment explanation
Indices: 5037988--5038021 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
5037978 TTTCAAAATC
5037988 AT AT A- AT AT GAT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
5038022 TAATGTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5038042 original size:22 final size:22
Alignment explanation
Indices: 5038028--5038159 Score: 123
Period size: 22 Copynumber: 6.2 Consensus size: 22
5038018 ATATTAATGT
5038028 TTTTCAAAAAC--TA-TATATA
1 TTTTCAAAAACTATATTATATA
*
5038047 TTTTC-AAAACTATATAATAATA
1 TTTTCAAAAACTATATTAT-ATA
* * *
5038069 TGTTTTAAAAATTATACTATATA
1 T-TTTCAAAAACTATATTATATA
* *
5038092 TTTTCAAAAACTATATCATATG
1 TTTTCAAAAACTATATTATATA
* *
5038114 TTTTTAAAAACTATACTATATA
1 TTTTCAAAAACTATATTATATA
*
5038136 TTTTCCAAAACTATA-TAT-TA
1 TTTTCAAAAACTATATTATATA
5038156 TTTT
1 TTTT
5038160 TTGACCAAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
18 5 0.05
19 5 0.05
20 8 0.09
21 5 0.05
22 51 0.56
23 7 0.08
24 10 0.11
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTTCAAAAACTATATTATATA
Found at i:5038062 original size:44 final size:43
Alignment explanation
Indices: 5038013--5038153 Score: 146
Period size: 44 Copynumber: 3.2 Consensus size: 43
5038003 TATATATATA
5038013 TATATATATTAATGTTTTTCAAAAACTA-TATATATTTTCAAAAC
1 TATATATA-TAATGTTTTT-AAAAACTACTATATATTTTCAAAAC
* *
5038057 TATATA-ATAATATGTTTTAAAAATTATACTATATATTTTCAAAAAC
1 TATATATATAATGT-TTTTAAAAA--CTACTATATATTTTC-AAAAC
*
5038103 TATAT-CAT-ATGTTTTTAAAAACTATACTATATATTTTCCAAAAC
1 TATATATATAATGTTTTTAAAAAC--TACTATATATTTT-CAAAAC
5038147 TATATAT
1 TATATAT
5038154 TATTTTTTGA
Statistics
Matches: 82, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
42 10 0.12
43 5 0.06
44 40 0.49
45 15 0.18
46 12 0.15
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (43 bp):
TATATATATAATGTTTTTAAAAACTACTATATATTTTCAAAAC
Found at i:5039562 original size:6 final size:6
Alignment explanation
Indices: 5039551--5039592 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
5039541 TTTTATAAGT
5039551 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG
5039593 AAGTGGGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:5048289 original size:82 final size:82
Alignment explanation
Indices: 5048129--5048289 Score: 227
Period size: 82 Copynumber: 2.0 Consensus size: 82
5048119 TGAATATCTA
* * *
5048129 TTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAACTTATATATTAAAAGATACTGGTT
1 TTTAATATTTTAAATTTAAAAGATATCATTATCTATTTAAACTTAGATATTAAAAGATACTAGTT
* *
5048194 GGAGTAAATCTCTCAGG
66 AGAGTAAAACTCTCAGG
* *
5048211 TTTAATATTTTAAATTTAAAAGATATCATTATCTATTTAAATTTAGATATTAGAATAGAT-TTAG
1 TTTAATATTTTAAATTTAAAAGATATCATTATCTATTTAAACTTAGATATTA-AA-AGATACTAG
5048275 TTAGAG-AAAACTCTC
64 TTAGAGTAAAACTCTC
5048290 TCGAAATTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 57 0.81
83 9 0.13
84 4 0.06
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (82 bp):
TTTAATATTTTAAATTTAAAAGATATCATTATCTATTTAAACTTAGATATTAAAAGATACTAGTT
AGAGTAAAACTCTCAGG
Found at i:5049776 original size:37 final size:37
Alignment explanation
Indices: 5049726--5049800 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
5049716 TTGTATTTTC
*
5049726 GCTCTTATCGTATTTTCGCATCAAATTAACTCTCAAA
1 GCTCTTATCGTATTTTCGAATCAAATTAACTCTCAAA
*
5049763 GCTCTTATCGTATTTTTGAATCAAATTAACTCTCAAA
1 GCTCTTATCGTATTTTCGAATCAAATTAACTCTCAAA
5049800 G
1 G
5049801 TTGTTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (37 bp):
GCTCTTATCGTATTTTCGAATCAAATTAACTCTCAAA
Found at i:5050137 original size:20 final size:20
Alignment explanation
Indices: 5050104--5050141 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5050094 ATATATTTAA
*
5050104 TAAAAAATATAAAAAAAATC
1 TAAAAAATAAAAAAAAAATC
*
5050124 TAAAATATAAAAAAAAAA
1 TAAAAAATAAAAAAAAAA
5050142 AACTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAAATAAAAAAAAAATC
Found at i:5051107 original size:17 final size:18
Alignment explanation
Indices: 5051087--5051124 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5051077 AGTATTCAAA
* *
5051087 TATTAAATATTAAAAT-T
1 TATTAAAAATAAAAATAT
5051104 TATTAAAAATAAAAATAT
1 TATTAAAAATAAAAATAT
5051122 TAT
1 TAT
5051125 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTAAAAATAAAAATAT
Found at i:5051135 original size:24 final size:25
Alignment explanation
Indices: 5051091--5051140 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
5051081 TTCAAATATT
5051091 AAATATTAAAATTTATTAAAAATAA
1 AAATATTAAAATTTATTAAAAATAA
*
5051116 AAATATT-ATATTT-TTAAAAAATAA
1 AAATATTAAAATTTATT-AAAAATAA
5051140 A
1 A
5051141 TTAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 14 0.61
25 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATATTAAAATTTATTAAAAATAA
Found at i:5051601 original size:33 final size:33
Alignment explanation
Indices: 5051559--5051630 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
5051549 CTCAAAGTTT
5051559 GGGACTTTAAATTTCAAAGGTATAACTAAATTA
1 GGGACTTTAAATTTCAAAGGTATAACTAAATTA
5051592 GGGACTTTAAATTTCAAAGGTATAACTAAATTA
1 GGGACTTTAAATTTCAAAGGTATAACTAAATTA
5051625 GGGACT
1 GGGACT
5051631 ATACGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (33 bp):
GGGACTTTAAATTTCAAAGGTATAACTAAATTA
Found at i:5056659 original size:64 final size:64
Alignment explanation
Indices: 5056537--5056662 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
5056527 CCGCAATAGG
* * * * * *
5056537 GTTAATATATAGTGGCGTTTTAACATACAAACGCCGCAATAGAATGTCATTTCGCGGCGTTTGT
1 GTTAATATATAGTGGCATTTTAACAAACAAACGCCGCAACAGAAAGTAATTTAGCGGCGTTTGT
* * *
5056601 GTTATTATATAGTGGCATTTTATCAAACAAACGCCGCAACAGAAAGTAATTTATCGGCGTTT
1 GTTAATATATAGTGGCATTTTAACAAACAAACGCCGCAACAGAAAGTAATTTAGCGGCGTTT
5056663 TTAGAGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (64 bp):
GTTAATATATAGTGGCATTTTAACAAACAAACGCCGCAACAGAAAGTAATTTAGCGGCGTTTGT
Found at i:5056761 original size:83 final size:84
Alignment explanation
Indices: 5056602--5056769 Score: 214
Period size: 83 Copynumber: 2.0 Consensus size: 84
5056592 GGCGTTTGTG
* * * * *
5056602 TTATTATATAGTGGCATTTTATCAAACAAACGCCGCAACAGAAAGTAATTTATCGGCGTTTTTAG
1 TTATTATATAGTGGCATTTTAACAAACAAACACCGCAACAGAAAGTAAGTTAGCGGCGTTTTTAA
* *
5056667 AGAAAATCCGCAAT-AGGT
66 ACAAAAGCCGCAATAAGGT
* * *
5056685 TTATTATGTAGTGGCGTTTTAACACACAAACACCGCAACAGAAAAG-AAGTTAGCGGCGTTTTTA
1 TTATTATATAGTGGCATTTTAACAAACAAACACCGCAACAG-AAAGTAAGTTAGCGGCGTTTTTA
*
5056749 AACAAACGCCGCAATAAGGT
65 AACAAAAGCCGCAATAAGGT
5056769 T
1 T
5056770 ACTCTATAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
83 63 0.88
84 9 0.12
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (84 bp):
TTATTATATAGTGGCATTTTAACAAACAAACACCGCAACAGAAAGTAAGTTAGCGGCGTTTTTAA
ACAAAAGCCGCAATAAGGT
Found at i:5056785 original size:83 final size:83
Alignment explanation
Indices: 5056606--5056797 Score: 210
Period size: 83 Copynumber: 2.3 Consensus size: 83
5056596 TTTGTGTTAT
* * * * * * *
5056606 TATATAGTGGCATTTTATCAAACAAACGCCGCAACAGAAAGTAATTTATCGGCGTTTTTAGAGAA
1 TATATAGTGGCGTTTTAACAAACAAACACCGCAACAGAAAGTAAGTTAGCGGCGTTTTTAAACAA
* *
5056671 AATCCGCAATAGGTTTAT
66 AAGCCGCAATAGGTTTAC
* *
5056689 TATGTAGTGGCGTTTTAACACACAAACACCGCAACAGAAAAG-AAGTTAGCGGCGTTTTTAAACA
1 TATATAGTGGCGTTTTAACAAACAAACACCGCAACAG-AAAGTAAGTTAGCGGCGTTTTTAAACA
*
5056753 AACGCCGCAATAAGG-TTAC
65 AAAGCCGCAAT-AGGTTTAC
* * *
5056772 TCTATAGTAGCGTTTT-CCAAACAAAC
1 TATATAGTGGCGTTTTAACAAACAAAC
5056798 GCCACAATTA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
82 8 0.09
83 75 0.83
84 7 0.08
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (83 bp):
TATATAGTGGCGTTTTAACAAACAAACACCGCAACAGAAAGTAAGTTAGCGGCGTTTTTAAACAA
AAGCCGCAATAGGTTTAC
Found at i:5056984 original size:83 final size:83
Alignment explanation
Indices: 5056886--5057280 Score: 351
Period size: 83 Copynumber: 4.8 Consensus size: 83
5056876 ATTTAGCGGT
* * * * * * *
5056886 GTTTTTTTACAAATGTTGTAATAGGGTTATTATATAGTGGCATTTTATCAAATAAACGCCGCAGC
1 GTTTTTATGCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAAC
*
5056951 AGAAAGTAATTTCGTGGC
66 AGAAAGTAAATTCGTGGC
* * * * ** **
5056969 GTTTTTATGCAAATGTCTCAATAGGGTTAATATATAGTGGCATTTTAACTTACAAACGCCATAAC
1 GTTTTTATGCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAAC
* * ** *
5057034 AAAAACT-AATTTATCGGT
66 AGAAAGTAAATTCGT-GGC
* * * * *
5057052 GTTTTTATAG-AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAC-AACGCCGTAA
1 GTTTTTAT-GCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAA
5057115 CAGAAAGTAAATTCGTGGC
65 CAGAAAGTAAATTCGTGGC
* * * * *
5057134 GTTTTTATAG-AAACGTCGAAATAGGTTTATTATATAGTGGTGTTTTATCACACAAACGCCGCAA
1 GTTTTTAT-GCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAA
5057198 CAGAAAGTAAATTCGT---
65 CAGAAAGTAAATTCGTGGC
* ** * * * *
5057214 G---ATAAACAAATGCCGCAACAGGGTTATTATATAGTGGCGTTTTATCAAATAAACGCCGCAAT
1 GTTTTTATGCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAAC
5057276 AGAAA
66 AGAAA
5057281 TGTTAAACTC
Statistics
Matches: 257, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
77 53 0.21
80 1 0.00
82 71 0.28
83 131 0.51
84 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (83 bp):
GTTTTTATGCAAATGTCGCAATAGGGTTATTATATAGTGGCGTTTTATCAAACAAACGCCGCAAC
AGAAAGTAAATTCGTGGC
Found at i:5057098 original size:40 final size:40
Alignment explanation
Indices: 5057054--5057181 Score: 107
Period size: 40 Copynumber: 3.1 Consensus size: 40
5057044 TTATCGGTGT
*
5057054 TTTTATAGAAACGCCGCAATAGGTTTATTATATAGTGGCG
1 TTTTATAGAAACGCCGAAATAGGTTTATTATATAGTGGCG
* * * ** * * *
5057094 TTTTATCACACAACGCCGTAACA-G-AAAGTAAATTCGTGGCG
1 TTTTAT-AGA-AACGCCGAAATAGGTTTATTATA-TAGTGGCG
* *
5057135 TTTTTATAGAAACGTCGAAATAGGTTTATTATATAGTGGTG
1 -TTTTATAGAAACGCCGAAATAGGTTTATTATATAGTGGCG
5057176 TTTTAT
1 TTTTAT
5057182 CACACAAACG
Statistics
Matches: 64, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
40 25 0.39
41 19 0.30
42 20 0.31
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (40 bp):
TTTTATAGAAACGCCGAAATAGGTTTATTATATAGTGGCG
Found at i:5057110 original size:42 final size:42
Alignment explanation
Indices: 5057063--5057197 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 42
5057053 TTTTTATAGA
5057063 AACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAC
1 AACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAC
* * ** * * * *
5057105 AACGCCGTAACA-G-AAAGTAAATTCGTGGCGTTTTTAT-AGA-
1 AACGCCGCAATAGGTTTATTATA-TAGTGGCG-TTTTATCACAC
* * *
5057145 AACGTCGAAATAGGTTTATTATATAGTGGTGTTTTATCACAC
1 AACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAC
5057187 AAACGCCGCAA
1 -AACGCCGCAA
5057198 CAGAAAGTAA
Statistics
Matches: 66, Mismatches: 20, Indels: 13
0.67 0.20 0.13
Matches are distributed among these distances:
40 19 0.29
41 19 0.29
42 20 0.30
43 8 0.12
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (42 bp):
AACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAC
Found at i:5057268 original size:77 final size:78
Alignment explanation
Indices: 5057062--5057280 Score: 253
Period size: 77 Copynumber: 2.8 Consensus size: 78
5057052 GTTTTTATAG
* *
5057062 AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACACAACGCCGTAACAGAAAGTAAAT
1 AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAAAACGCCGCAACAGAAAGTAAAT
* * *
5057127 TCGTGGCGTTTTTATAG
66 TCGT-G-G--TATAAAC
* * *
5057144 AAACGTCGAAATAGGTTTATTATATAGTGGTGTTTTATCACACAAACGCCGCAACAGAAAGTAAA
1 AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACA-AAACGCCGCAACAGAAAGTAAA
5057209 TTCGT-G-ATAAAC
65 TTCGTGGTATAAAC
* * * * *
5057221 AAATGCCGCAACAGGGTTATTATATAGTGGCGTTTTATCAAATAAACGCCGCAATAGAAA
1 AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACA-AAACGCCGCAACAGAAA
5057281 TGTTAAACTC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 54 0.45
80 1 0.01
82 39 0.33
83 25 0.21
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (78 bp):
AAACGCCGCAATAGGTTTATTATATAGTGGCGTTTTATCACAAAACGCCGCAACAGAAAGTAAAT
TCGTGGTATAAAC
Found at i:5059764 original size:22 final size:22
Alignment explanation
Indices: 5059738--5059782 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
5059728 ATATAAAAGT
5059738 TTTATAATTTAGTAGTGATTAG
1 TTTATAATTTAGTAGTGATTAG
5059760 TTTATAATTTAGTAGTGATTAG
1 TTTATAATTTAGTAGTGATTAG
5059782 T
1 T
5059783 GATTTGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (22 bp):
TTTATAATTTAGTAGTGATTAG
Found at i:5064337 original size:150 final size:150
Alignment explanation
Indices: 5064066--5064366 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
5064056 AAACACGTCT
5064066 TCTATCCGGTTACTTAGGCATAGTTGGTCGTAATGCTAATCTTTTACCGATCAATTATGAGTCAT
1 TCTATCCGGTTACTTAGGCATAGTTGGTCGTAATGCTAATCTTTTACCGATCAATTATGAGTCAT
5064131 GGCGCGAAATGCCTAATAGTAACAAAAATCAAACGTTGGATTTTGTTAAGGTAATAATGTCATTA
66 GGCGCGAAATGCCTAATAGTAACAAAAATCAAACGTTGGATTTTGTTAAGGTAATAATGTCATTA
5064196 TAATAGATACTCTATAACAA
131 TAATAGATACTCTATAACAA
5064216 TCTATCCGGTTACTTAGGCATAGTTGGTCGTAATGCTAATCTTTTACCGATCAATTATGAGTCAT
1 TCTATCCGGTTACTTAGGCATAGTTGGTCGTAATGCTAATCTTTTACCGATCAATTATGAGTCAT
5064281 GGCGCGAAATGCCTAATAGTAACAAAAATCAAACGTTGGATTTTGTTAAGGTAATAATGTCATTA
66 GGCGCGAAATGCCTAATAGTAACAAAAATCAAACGTTGGATTTTGTTAAGGTAATAATGTCATTA
5064346 TAATAGATACTCTATAACAA
131 TAATAGATACTCTATAACAA
5064366 T
1 T
5064367 TCAATACTAA
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (150 bp):
TCTATCCGGTTACTTAGGCATAGTTGGTCGTAATGCTAATCTTTTACCGATCAATTATGAGTCAT
GGCGCGAAATGCCTAATAGTAACAAAAATCAAACGTTGGATTTTGTTAAGGTAATAATGTCATTA
TAATAGATACTCTATAACAA
Found at i:5065800 original size:44 final size:43
Alignment explanation
Indices: 5065747--5065961 Score: 200
Period size: 44 Copynumber: 4.9 Consensus size: 43
5065737 AAAAAATGTT
* *
5065747 GCTATATACCAGATCTTTTGCGGCATTTGTATCTGAAAAACGCC
1 GCTATATAACAGA-CTTTTGCGGCGTTTGTATCTGAAAAACGCC
* * * * * *
5065791 ACTATATACCAGACATTTTGTGGTGTTTGTA--TGGAAAATGCC
1 GCTATATAACAGAC-TTTTGCGGCGTTTGTATCTGAAAAACGCC
* * * * * *
5065833 GCTATATATCAAACCTTTTACGACGTTTGTATCAGAAAAATGCC
1 GCTATATAACAGA-CTTTTGCGGCGTTTGTATCTGAAAAACGCC
* * *
5065877 GCTATATAACAGACTTTTTGCGGTGTTTTGTATCTAAAAAACGCT
1 GCTATATAACAGAC-TTTTGCGGCG-TTTGTATCTGAAAAACGCC
*
5065922 GCTATATAACAGACCTTTTGCGGCGTTTGTATCCGAAAAA
1 GCTATATAACAGA-CTTTTGCGGCGTTTGTATCTGAAAAA
5065962 TACCACTAAA
Statistics
Matches: 137, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
42 31 0.23
43 3 0.02
44 65 0.47
45 37 0.27
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
GCTATATAACAGACTTTTGCGGCGTTTGTATCTGAAAAACGCC
Found at i:5065829 original size:86 final size:88
Alignment explanation
Indices: 5065719--5065961 Score: 269
Period size: 86 Copynumber: 2.8 Consensus size: 88
5065709 AATTTTGATT
* * * * *
5065719 TTTTGCGGTG-TTTGTAAC-AAAAAATGTTGCTATATACCAGATCTTTTGCGGCATTTGTATCTG
1 TTTTGCGGTGTTTTGT-ACTAAAAAATGCTGCTATATAACAGACCTTTTGCGGCGTTTGTATCAG
*
5065782 AAAAACGCCACTATATACCAGACA
65 AAAAACGCCACTATATAACAGACA
* ** * * * * *
5065806 TTTTGTGGTG-TTTGTA-TGGAAAATGCCGCTATATATCAAACCTTTTACGACGTTTGTATCAGA
1 TTTTGCGGTGTTTTGTACTAAAAAATGCTGCTATATAACAGACCTTTTGCGGCGTTTGTATCAGA
* * *
5065869 AAAATGCCGCTATATAACAGACT
66 AAAACGCCACTATATAACAGACA
* *
5065892 TTTTGCGGTGTTTTGTATCTAAAAAACGCTGCTATATAACAGACCTTTTGCGGCGTTTGTATCCG
1 TTTTGCGGTGTTTTGTA-CTAAAAAATGCTGCTATATAACAGACCTTTTGCGGCGTTTGTATCAG
5065957 AAAAA
65 AAAAA
5065962 TACCACTAAA
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
86 64 0.51
87 20 0.16
89 42 0.33
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (88 bp):
TTTTGCGGTGTTTTGTACTAAAAAATGCTGCTATATAACAGACCTTTTGCGGCGTTTGTATCAGA
AAAACGCCACTATATAACAGACA
Found at i:5067257 original size:3 final size:3
Alignment explanation
Indices: 5067249--5067360 Score: 73
Period size: 3 Copynumber: 35.3 Consensus size: 3
5067239 TTTTAATATT
* * * * *
5067249 TAA TAA TAA AAA TAGT TAT TAA ATAA TAAA TAA TAA CAT TAA TAA T-A
1 TAA TAA TAA TAA TA-A TAA TAA -TAA T-AA TAA TAA TAA TAA TAA TAA
* * * *
5067296 TGAA TTAA TAA TAA AAA TAA TAT TAA TAA TAA TGAA TACT TTA TAA TAA
1 T-AA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA TAA TAA
5067345 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
5067361 GGTAAAATAT
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
2 2 0.02
3 67 0.79
4 15 0.18
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5067273 original size:20 final size:21
Alignment explanation
Indices: 5067245--5067283 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5067235 TATATTTTAA
*
5067245 TATTTAATAATAAA-AATAGT
1 TATTAAATAATAAATAATAGT
5067265 TATTAAATAATAAATAATA
1 TATTAAATAATAAATAATA
5067284 ACATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TATTAAATAATAAATAATAGT
Found at i:5067497 original size:25 final size:25
Alignment explanation
Indices: 5067462--5067510 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
5067452 ATCCCATTAG
* *
5067462 TTTTTGTTGACATGGCAGTTAACAT
1 TTTTTGCTGACATGGCAATTAACAT
5067487 TTTTTGCTGACATGGCAATTAACA
1 TTTTTGCTGACATGGCAATTAACA
5067511 CTCTGTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (25 bp):
TTTTTGCTGACATGGCAATTAACAT
Found at i:5068719 original size:3 final size:3
Alignment explanation
Indices: 5068713--5068750 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5068703 CAACAACAAC
5068713 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5068751 ACCGAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5069205 original size:17 final size:17
Alignment explanation
Indices: 5069170--5069212 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
5069160 AACTGTCGGG
5069170 AAATAATAA-AATATTT
1 AAATAATAATAATATTT
*
5069186 AAATAATAATAATTTTT
1 AAATAATAATAATATTT
*
5069203 AAAAAATAAT
1 AAATAATAAT
5069213 TAGATGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATAATAATAATATTT
Found at i:5070185 original size:45 final size:45
Alignment explanation
Indices: 5070117--5070220 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
5070107 TGACAGAGTT
* * * * *
5070117 TTCAGCTACGGCTTGAGAAGATGATCCTCTGTTGGCGACGGAGGC
1 TTCAGCAACGGCTTGAGAAGATGATCCGCTATTGGAGACGGAGAC
* *
5070162 TTCAGCAACGGCTTGAGATGATGATCCGGTATTGGAGACGGAGAC
1 TTCAGCAACGGCTTGAGAAGATGATCCGCTATTGGAGACGGAGAC
**
5070207 ACCAGCAACGGCTT
1 TTCAGCAACGGCTT
5070221 CTGATGATCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (45 bp):
TTCAGCAACGGCTTGAGAAGATGATCCGCTATTGGAGACGGAGAC
Found at i:5072281 original size:17 final size:17
Alignment explanation
Indices: 5072259--5072305 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
5072249 CGTTAAGAAT
* *
5072259 TCGAGTTGAGTTTGAGC
1 TCGAGTCGAGTTCGAGC
5072276 TCGAGTCGAGTTCGAGC
1 TCGAGTCGAGTTCGAGC
5072293 TCGAGTCGAGTTC
1 TCGAGTCGAGTTC
5072306 ATTCGATTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (17 bp):
TCGAGTCGAGTTCGAGC
Found at i:5072290 original size:6 final size:6
Alignment explanation
Indices: 5072258--5072318 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 6
5072248 TCGTTAAGAA
* * *
5072258 TTCGAG TT-GAG TTTGAG CTCGAG -TCGAG TTCGAG CTCGAG -TCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
5072303 TTC-A- TTCGA- TTCGAG T
1 TTCGAG TTCGAG TTCGAG T
5072319 GTTAATCGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 3 0.06
5 22 0.47
6 22 0.47
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (6 bp):
TTCGAG
Found at i:5072623 original size:21 final size:21
Alignment explanation
Indices: 5072597--5072637 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5072587 ACAATCCTCA
*
5072597 TATCATTATAGCAAGTAAAAT
1 TATCATTATAACAAGTAAAAT
5072618 TATCATTATAACAAGTAAAA
1 TATCATTATAACAAGTAAAA
5072638 AGTCATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (21 bp):
TATCATTATAACAAGTAAAAT
Found at i:5073193 original size:152 final size:152
Alignment explanation
Indices: 5072777--5073231 Score: 871
Period size: 152 Copynumber: 3.0 Consensus size: 152
5072767 AGCCATGGGC
*
5072777 ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTGTTGGCTTATCCCTGTA
1 ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTCTTGGCTTATCCCTGTA
5072842 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
66 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
5072907 CTCCCCATCGAGCAGCAGTTCT
131 CTCCCCATCGAGCAGCAGTTCT
5072929 ATGAAAGGATTGGGCAGAA-ATGAGAGATGCCGGTGATGTTAGGCA--CTTGGCTTATCCCTGTA
1 ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTCTTGGCTTATCCCTGTA
5072991 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
66 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
5073056 CTCCCCATCGAGCAGCAGTTCT
131 CTCCCCATCGAGCAGCAGTTCT
5073078 ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTCTTGGCTTATCCCTGTA
1 ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTCTTGGCTTATCCCTGTA
*
5073143 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGCTCAATA
66 GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
5073208 CTCCCCATCGAGCAGCAGTTCT
131 CTCCCCATCGAGCAGCAGTTCT
5073230 AT
1 AT
5073232 ATTTTCATCA
Statistics
Matches: 298, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
149 122 0.41
150 26 0.09
151 26 0.09
152 124 0.42
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (152 bp):
ATGAAAGGATTGGGCAGAACATGAGAGATGCCGGTGATGTTAGGCACTCTTGGCTTATCCCTGTA
GACCCAAAAATCAATTACTTTACGAGAGGTAAAGGATCTATCATTTCTACTAGATGTGGTCAATA
CTCCCCATCGAGCAGCAGTTCT
Found at i:5075248 original size:18 final size:18
Alignment explanation
Indices: 5075227--5075505 Score: 125
Period size: 18 Copynumber: 15.5 Consensus size: 18
5075217 GGTAACCTGT
5075227 TTTTAGGTTATAATGTGA
1 TTTTAGGTTATAATGTGA
* **
5075245 TTTTAGGTTGTAACCT-A
1 TTTTAGGTTATAATGTGA
*
5075262 TTTATAGGTTATAATGAGA
1 TTT-TAGGTTATAATGTGA
* * * **
5075281 -TTCAAGTTGTAACCT-A
1 TTTTAGGTTATAATGTGA
*
5075297 TTTTTAGGTTATAATGAGA
1 -TTTTAGGTTATAATGTGA
* **
5075316 TTTTAGGTTGTAACCT-A
1 TTTTAGGTTATAATGTGA
*
5075333 TTTTTAGGTTATAATGAGA
1 -TTTTAGGTTATAATGTGA
* **
5075352 TTTTAGGTTGTAACCT-A
1 TTTTAGGTTATAATGTGA
5075369 TTTTTAGGTTATAAT-TGGA
1 -TTTTAGGTTATAATGT-GA
* **
5075388 TTTTAGGTTGTAACCTG-
1 TTTTAGGTTATAATGTGA
5075405 TTGTTAGGTTATAACTG-GA
1 TT-TTAGGTTATAA-TGTGA
* * *
5075424 CTTTAGGTTGTAACT-TGT
1 TTTTAGGTTATAA-TGTGA
5075442 TTTTAGGTTATAAT-TAGA
1 TTTTAGGTTATAATGT-GA
* *
5075460 TTTTATGTTGTAGCATGT--
1 TTTTAGGTTATA--ATGTGA
5075478 TTTTAGGTTATAAT-TGGA
1 TTTTAGGTTATAATGT-GA
5075496 TTTTTAGGTT
1 -TTTTAGGTT
5075506 GTAAACTGAA
Statistics
Matches: 190, Mismatches: 48, Indels: 45
0.67 0.17 0.16
Matches are distributed among these distances:
15 1 0.01
16 3 0.02
17 18 0.09
18 150 0.79
19 15 0.08
20 2 0.01
21 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.48
Consensus pattern (18 bp):
TTTTAGGTTATAATGTGA
Found at i:5075259 original size:36 final size:36
Alignment explanation
Indices: 5075207--5075509 Score: 364
Period size: 36 Copynumber: 8.4 Consensus size: 36
5075197 GAAACCTAAA
* *
5075207 ATTTTAAGTTGGTAACCTGTTTTTAGGTTATAATGTG
1 ATTTTAGGTT-GTAACCTATTTTTAGGTTATAATGTG
* *
5075244 ATTTTAGGTTGTAACCTATTTATAGGTTATAATGAG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGTG
* * *
5075280 A-TTCAAGTTGTAACCTATTTTTAGGTTATAATGAG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGTG
*
5075315 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGAG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGTG
5075351 ATTTTAGGTTGTAACCTATTTTTAGGTTATAAT-TGG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGT-G
* *
5075387 ATTTTAGGTTGTAACCTGTTGTTAGGTTATAACTG-G
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAA-TGTG
* * *
5075423 ACTTTAGGTTGTAACTTGTTTTTAGGTTATAAT-TAG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGT-G
* * * *
5075459 ATTTTATGTTGTAGCATGTTTTTAGGTTATAAT-TGG
1 ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGT-G
5075495 ATTTTTAGGTTGTAA
1 A-TTTTAGGTTGTAA
5075510 ACTGAATTTT
Statistics
Matches: 237, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
35 33 0.14
36 183 0.77
37 21 0.09
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (36 bp):
ATTTTAGGTTGTAACCTATTTTTAGGTTATAATGTG
Found at i:5075518 original size:20 final size:20
Alignment explanation
Indices: 5075477--5075532 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
5075467 TTGTAGCATG
* * *
5075477 TTTTTAGGTTAT-AATTGGA
1 TTTTTAGGTTGTAAACTGAA
5075496 TTTTTAGGTTGTAAACTGAA
1 TTTTTAGGTTGTAAACTGAA
* *
5075516 TTTTTAAGTTGGAAACT
1 TTTTTAGGTTGTAAACT
5075533 TGATTTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.48
Consensus pattern (20 bp):
TTTTTAGGTTGTAAACTGAA
Found at i:5075538 original size:20 final size:19
Alignment explanation
Indices: 5075494--5075539 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
5075484 GTTATAATTG
* *
5075494 GATTTTTAGGTTGTAAACT
1 GATTTTTAAGTTGGAAACT
5075513 GAATTTTTAAGTTGGAAACTT
1 G-ATTTTTAAGTTGGAAAC-T
5075534 GATTTT
1 GATTTT
5075540 AGACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (19 bp):
GATTTTTAAGTTGGAAACT
Done.