Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 61 of 345
Found at i:18788585 original size:54 final size:55
Alignment explanation
Indices: 18788500--18788625 Score: 173
Period size: 54 Copynumber: 2.3 Consensus size: 55
18788490 CGAGCCTACC
* *
18788500 AAAACAACACGGGCGTGCGACACGCCTGTGTGGAAGAACCATGGGCGAACC-GTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGCGAACCTGTT
* * * *
18788554 AAAACAACACGGGCGTTCGACACGCCCGTGTGGAACAGCCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGCGAACCTGTT
**
18788609 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
18788626 GGGGTTTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
54 45 0.73
55 17 0.27
ACGTcount: A:0.29, C:0.26, G:0.30, T:0.15
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGCGAACCTGTT
Found at i:18788684 original size:13 final size:13
Alignment explanation
Indices: 18788666--18788690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18788656 AATGAAGCTA
18788666 GACACGGCCGTGC
1 GACACGGCCGTGC
18788679 GACACGGCCGTG
1 GACACGGCCGTG
18788691 TGAACCCACA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:18796924 original size:43 final size:44
Alignment explanation
Indices: 18796823--18796930 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 44
18796813 GGTTACCAAG
* * *
18796823 ATGTGATTGCATGTAAGACCATGTCTGGGACATTAGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATAGCATCGATA
*** * *
18796867 AT-TGATTTTGTGTAAGACCCTGTCTGGGACAATGGCATCGAT-
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATAGCATCGATA
*
18796909 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
18796931 ATCTAGGAGA
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 2 0.04
43 47 0.92
44 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAATAGCATCGATA
Found at i:18800608 original size:28 final size:27
Alignment explanation
Indices: 18800576--18800641 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
18800566 TTGGAGGAAG
*
18800576 TACTG-TATTAGTGGCTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCAACGT--T
* *
18800604 TACTGCT-CTGGTGGCTTTGCAACGTT
1 TACTGCTATTAGTGGCTTTGCAACGTT
*
18800630 TACTGTTATTAG
1 TACTGCTATTAG
18800642 CAGCACTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 2 0.07
28 20 0.67
29 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
TACTGCTATTAGTGGCTTTGCAACGTT
Found at i:18812076 original size:29 final size:30
Alignment explanation
Indices: 18812044--18812102 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
18812034 TAAAATAAAG
18812044 GTTAATAAAATAAGAAAACATAATA-TTTT
1 GTTAATAAAATAAGAAAACATAATAGTTTT
*
18812073 GTTAATAAAATAAGTAAACATAATAGTTTT
1 GTTAATAAAATAAGAAAACATAATAGTTTT
18812103 CTTCCCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (30 bp):
GTTAATAAAATAAGAAAACATAATAGTTTT
Found at i:18812960 original size:19 final size:20
Alignment explanation
Indices: 18812928--18812971 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
18812918 CAGAAAATGA
18812928 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18812948 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18812967 TTTCT
1 TTTCT
18812972 AGTGTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:18813074 original size:14 final size:14
Alignment explanation
Indices: 18813055--18813088 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18813045 TGTTTTTACA
18813055 TATATTAATAAATG
1 TATATTAATAAATG
*
18813069 TATATTAATAAATT
1 TATATTAATAAATG
18813083 TATATT
1 TATATT
18813089 TTAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATATTAATAAATG
Found at i:18814374 original size:32 final size:32
Alignment explanation
Indices: 18814328--18814407 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
18814318 TGTTAATCAT
*
18814328 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
18814360 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
18814392 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
18814408 CTAAATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:18816033 original size:16 final size:16
Alignment explanation
Indices: 18816012--18816042 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18816002 TGAAAATCTA
18816012 AAATTTTATGGACAAG
1 AAATTTTATGGACAAG
18816028 AAATTTTATGGACAA
1 AAATTTTATGGACAA
18816043 AATTGGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (16 bp):
AAATTTTATGGACAAG
Found at i:18817214 original size:23 final size:23
Alignment explanation
Indices: 18817188--18817236 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
18817178 ATTTTTAAGA
18817188 AATATTTTGAAGTTTTTTATTTT
1 AATATTTTGAAGTTTTTTATTTT
18817211 AATATTTTGAAGTTTTTTATTTT
1 AATATTTTGAAGTTTTTTATTTT
18817234 AAT
1 AAT
18817237 TCCCCTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (23 bp):
AATATTTTGAAGTTTTTTATTTT
Found at i:18818725 original size:52 final size:52
Alignment explanation
Indices: 18818664--18818764 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
18818654 AACAAAAGGG
** *
18818664 TATTAAACAGTATCTAGGGAATTGCCAAAATTACCTTTTAAAAAGTGGAGGA
1 TATTAAACAGTATCTACAGAATTGCCAAAATTACCTGTTAAAAAGTGGAGGA
* *
18818716 TATTCAACAGTATTTACAGAATTGCCAAAATTACCTGTTAAAAAGTGGA
1 TATTAAACAGTATCTACAGAATTGCCAAAATTACCTGTTAAAAAGTGGA
18818765 CTAGTAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (52 bp):
TATTAAACAGTATCTACAGAATTGCCAAAATTACCTGTTAAAAAGTGGAGGA
Found at i:18820580 original size:35 final size:35
Alignment explanation
Indices: 18820531--18820649 Score: 150
Period size: 35 Copynumber: 3.4 Consensus size: 35
18820521 ATGTGAAACA
* *
18820531 TAGGTATGGAATTTCTCATACCGAATGGTGACATG
1 TAGGTATGGTATTTCTCATACCGAATGGTGAAATG
* * * *
18820566 TAGGTATGGCATTTCCCATACCGAGTGGTGAAACG
1 TAGGTATGGTATTTCTCATACCGAATGGTGAAATG
* *
18820601 TAGGTATGGTATTT-TCCATACTGAATTGTGAAATG
1 TAGGTATGGTATTTCT-CATACCGAATGGTGAAATG
18820636 TAGGTATGGTATTT
1 TAGGTATGGTATTT
18820650 TAATGAGGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (35 bp):
TAGGTATGGTATTTCTCATACCGAATGGTGAAATG
Found at i:18828604 original size:18 final size:18
Alignment explanation
Indices: 18828576--18828619 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
18828566 AACAACGCCA
18828576 TGTTA-ATTTGTGT-TCTG
1 TGTTATATTTGTGTCT-TG
18828593 TGTTATATTTGTGTCTTG
1 TGTTATATTTGTGTCTTG
18828611 TGTTATATT
1 TGTTATATT
18828620 GTTAACAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.20
18 19 0.76
19 1 0.04
ACGTcount: A:0.14, C:0.05, G:0.20, T:0.61
Consensus pattern (18 bp):
TGTTATATTTGTGTCTTG
Found at i:18830655 original size:19 final size:19
Alignment explanation
Indices: 18830631--18830668 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18830621 TTTAATATTG
*
18830631 AATTTAATGTAATATTTAT
1 AATTTAATCTAATATTTAT
18830650 AATTTAATCTAATATTTAT
1 AATTTAATCTAATATTTAT
18830669 CAAGATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTAATCTAATATTTAT
Found at i:18836807 original size:22 final size:21
Alignment explanation
Indices: 18836753--18836808 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
18836743 TCTGTAATTA
18836753 TTCATTTCGAACTCATATTTT
1 TTCATTTCGAACTCATATTTT
18836774 TTCATTTCGAACTCATATTTT
1 TTCATTTCGAACTCATATTTT
*
18836795 TTCATATCAGAACT
1 TTCATTTC-GAACT
18836809 TTGCCCGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (21 bp):
TTCATTTCGAACTCATATTTT
Found at i:18836994 original size:25 final size:25
Alignment explanation
Indices: 18836966--18837037 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
18836956 TACGAGTTGT
** *
18836966 ATATCGGGAAGCTTTTGCGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
18836991 ATATCGGGAAGCTCATGAGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
* *
18837016 GTATCGGGAAGCTCAAGAGAGC
1 ATATCGGGAAGCTCATGAGAGC
18837038 TGTGGTGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (25 bp):
ATATCGGGAAGCTCATGAGAGCCAA
Found at i:18839755 original size:17 final size:17
Alignment explanation
Indices: 18839733--18839765 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18839723 CTCTGCCTTT
18839733 CTTTTTCCTTTT-TTTTC
1 CTTTTT-CTTTTGTTTTC
18839750 CTTTTTCTTTTGTTTT
1 CTTTTTCTTTTGTTTT
18839766 TTTTTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTTCTTTTGTTTTC
Found at i:18843312 original size:26 final size:27
Alignment explanation
Indices: 18843262--18843312 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
18843252 GAGCTAAAAT
*
18843262 TTAATTTATTTAAAAAATTCGATTCAA
1 TTAATTTATTTAAAAAATCCGATTCAA
* *
18843289 TTAATTT-TTTCAAAAATCCTATTC
1 TTAATTTATTTAAAAAATCCGATTC
18843313 TAAGCGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATTTATTTAAAAAATCCGATTCAA
Found at i:18846190 original size:22 final size:21
Alignment explanation
Indices: 18846142--18846190 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
18846132 TATTTAAGCT
* *
18846142 ATTTAAAAAATTAAAATTTTA
1 ATTTAAAAAAATAAAATTATA
*
18846163 AATTAATAAAAATAAAATTATA
1 ATTTAA-AAAAATAAAATTATA
*
18846185 CTTTAA
1 ATTTAA
18846191 CTCTTAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTAAAAAAATAAAATTATA
Found at i:18849985 original size:22 final size:23
Alignment explanation
Indices: 18849921--18850019 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 23
18849911 CACAAAAAGT
* *
18849921 AACACTAAAATAGCATCA-AAAC
1 AACACAAAAAAAGCATCACAAAC
* * * *
18849943 ATCACCAAACAA-CAT-AAAAAC
1 AACACAAAAAAAGCATCACAAAC
18849964 AACACAAAAAATAGCA-C-CAAAC
1 AACACAAAAAA-AGCATCACAAAC
* *
18849986 GACACAAAAAAAGCATCACCAAC
1 AACACAAAAAAAGCATCACAAAC
*
18850009 AACACCAAAAA
1 AACACAAAAAA
18850020 CCTGCAAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.02
21 19 0.32
22 24 0.41
23 15 0.25
ACGTcount: A:0.62, C:0.27, G:0.04, T:0.07
Consensus pattern (23 bp):
AACACAAAAAAAGCATCACAAAC
Found at i:18850422 original size:18 final size:19
Alignment explanation
Indices: 18850396--18850432 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18850386 TCTTACCCAT
18850396 GCTAAAGTCGAT-TTGGAA
1 GCTAAAGTCGATGTTGGAA
*
18850414 GCTACAGTCGATGTTGGAA
1 GCTAAAGTCGATGTTGGAA
18850433 TTGCCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (19 bp):
GCTAAAGTCGATGTTGGAA
Found at i:18853314 original size:47 final size:47
Alignment explanation
Indices: 18853251--18853896 Score: 881
Period size: 47 Copynumber: 13.6 Consensus size: 47
18853241 CCCTTCGGGA
* * * *
18853251 CTTATCACATTTATACACTTCCACATCCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18853298 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCCGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
18853345 CTTATCTTATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
18853392 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
18853439 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
18853486 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
18853533 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
18853580 CTTATCACATATATATATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
18853631 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
18853678 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
18853727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
18853774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18853821 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
18853870 CTTATCACATATATACACTTTTACATT
1 CTTATCACATATATACACTTTCACATT
18853897 TATTCAAATA
Statistics
Matches: 556, Mismatches: 31, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.00
47 419 0.75
49 93 0.17
51 41 0.07
52 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:18855409 original size:56 final size:56
Alignment explanation
Indices: 18855342--18855461 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
18855332 TATTAGTTTA
18855342 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
18855398 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
18855454 TTGCCCAT
1 TTGCCCAT
18855462 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:18857254 original size:10 final size:10
Alignment explanation
Indices: 18857202--18857261 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
18857192 ATCTCATATA
*
18857202 TATTTTTAAT
1 TATTTATAAT
* *
18857212 TGTTTATGAT
1 TATTTATAAT
18857222 TA--TATAAT
1 TATTTATAAT
* *
18857230 TTTTTATACAA
1 TATTTATA-AT
18857241 TATTTATAAT
1 TATTTATAAT
18857251 TATTTATAAT
1 TATTTATAAT
18857261 T
1 T
18857262 TAACCATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 6 0.16
10 24 0.63
11 8 0.21
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTTATAAT
Found at i:18872528 original size:15 final size:15
Alignment explanation
Indices: 18872508--18872541 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
18872498 CTGTAATGTG
18872508 ATCTCACTCGATTCA
1 ATCTCACTCGATTCA
18872523 ATCTCACTCGATTCA
1 ATCTCACTCGATTCA
18872538 ATCT
1 ATCT
18872542 TTTTATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
ATCTCACTCGATTCA
Found at i:18892708 original size:19 final size:19
Alignment explanation
Indices: 18892664--18892710 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
18892654 CTTAACTGAG
18892664 ACTAATTTTTATTCTTCAT
1 ACTAATTTTTATTCTTCAT
* *
18892683 ATTTAATTTTATATT-TTTAT
1 A-CTAATTTT-TATTCTTCAT
18892703 ACTAATTT
1 ACTAATTT
18892711 CACTTTAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (19 bp):
ACTAATTTTTATTCTTCAT
Found at i:18898671 original size:1 final size:1
Alignment explanation
Indices: 18898665--18898692 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18898655 TCATCTAGTC
18898665 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
18898693 GGTCTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18903872 original size:10 final size:10
Alignment explanation
Indices: 18903857--18903881 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18903847 CTAACTCTAA
18903857 AAATTAAAAT
1 AAATTAAAAT
18903867 AAATTAAAAT
1 AAATTAAAAT
18903877 AAATT
1 AAATT
18903882 TATTTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:18904136 original size:23 final size:23
Alignment explanation
Indices: 18904096--18904139 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18904086 TAATTAAACC
18904096 TAAAATATTAATAATTAAAATTA
1 TAAAATATTAATAATTAAAATTA
* * *
18904119 TAAAATTTTTATATTTAAAAT
1 TAAAATATTAATAATTAAAAT
18904140 CAAATTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAATATTAATAATTAAAATTA
Found at i:18908286 original size:21 final size:21
Alignment explanation
Indices: 18908260--18908308 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
18908250 CAGAAACAGT
* *
18908260 TATACCGGAGGATCATCGATG
1 TATACCGGACGATCATCGACG
*
18908281 TATACCGGTCGATCATCGACG
1 TATACCGGACGATCATCGACG
18908302 TATACCG
1 TATACCG
18908309 ATCATCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TATACCGGACGATCATCGACG
Found at i:18912778 original size:7 final size:7
Alignment explanation
Indices: 18912766--18912795 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
18912756 ACTCACCGTA
18912766 TGGAAAG
1 TGGAAAG
*
18912773 TGGAAAA
1 TGGAAAG
18912780 TGGAAAG
1 TGGAAAG
18912787 TGGAAAG
1 TGGAAAG
18912794 TG
1 TG
18912796 TGTGTTTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (7 bp):
TGGAAAG
Found at i:18918845 original size:14 final size:14
Alignment explanation
Indices: 18918826--18918855 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18918816 TCAATACTAA
18918826 TGGCAAACAACTTT
1 TGGCAAACAACTTT
*
18918840 TGGCAAACCACTTT
1 TGGCAAACAACTTT
18918854 TG
1 TG
18918856 TTGAATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (14 bp):
TGGCAAACAACTTT
Found at i:18919655 original size:16 final size:16
Alignment explanation
Indices: 18919592--18919656 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 16
18919582 TCAATTCAAA
18919592 TAATTT-TA-TTAAAT
1 TAATTTATATTTAAAT
* *
18919606 GAATTTATATGATAAAT
1 TAATTTATAT-TTAAAT
* *
18919623 AAATTTTAAATTT-AAT
1 TAA-TTTATATTTAAAT
18919639 TAATTTATATTTAAAT
1 TAATTTATATTTAAAT
18919655 TA
1 TA
18919657 TTATGTTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.13
15 10 0.26
16 10 0.26
17 8 0.21
18 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTTATATTTAAAT
Found at i:18926779 original size:6 final size:6
Alignment explanation
Indices: 18926768--18926836 Score: 138
Period size: 6 Copynumber: 11.5 Consensus size: 6
18926758 AAAAGTCTTC
18926768 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
18926816 AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAA
18926837 AATAATAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:18928464 original size:23 final size:23
Alignment explanation
Indices: 18928432--18928477 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18928422 AGAGACAAAG
*
18928432 AGAAATAAAATAAAATAA-AATAA
1 AGAAACAAAATAAAA-AATAATAA
18928455 AGAAACAAAATAAAAAATAATAA
1 AGAAACAAAATAAAAAATAATAA
18928478 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AGAAACAAAATAAAAAATAATAA
Found at i:18932155 original size:15 final size:14
Alignment explanation
Indices: 18932138--18932164 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18932128 AAGCAATTTA
18932138 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
18932152 AAAAGAAAAATTA
1 AAAAGAAAAATTA
18932165 AGCTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:18938083 original size:16 final size:16
Alignment explanation
Indices: 18938062--18938092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18938052 CTGAAACTAG
*
18938062 ACTCATATATCTACTT
1 ACTCATATAGCTACTT
18938078 ACTCATATAGCTACT
1 ACTCATATAGCTACT
18938093 CTGACCCCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
ACTCATATAGCTACTT
Found at i:18946293 original size:30 final size:29
Alignment explanation
Indices: 18946236--18946314 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 29
18946226 TATAAGAAGC
* *
18946236 TCAATTAATCAA--TATGAGTTATCAAAT
1 TCAAATAATCAATTTATAAGTTATCAAAT
* *
18946263 T-AAATTAATTAATTTTATAAGTTATTAAAT
1 TCAAA-TAATCAA-TTTATAAGTTATCAAAT
18946293 TCAAATAATCAATTTATAAGTT
1 TCAAATAATCAATTTATAAGTT
18946315 TATGATATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.05
27 7 0.17
29 10 0.24
30 20 0.48
31 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (29 bp):
TCAAATAATCAATTTATAAGTTATCAAAT
Found at i:18953626 original size:42 final size:42
Alignment explanation
Indices: 18953567--18953655 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
18953557 TCCTAATTGG
18953567 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
18953609 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
18953651 TAAAA
1 GAAAA
18953656 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:18953676 original size:43 final size:42
Alignment explanation
Indices: 18953568--18953677 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
18953558 CCTAATTGGG
* * * *
18953568 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
* * * *
18953610 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-A
18953653 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
18953678 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
Found at i:18966335 original size:43 final size:43
Alignment explanation
Indices: 18966284--18966370 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
18966274 ATATGTGATT
**
18966284 TCGATATGTGTTTACGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGACTAC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCA
18966327 TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
18966370 T
1 T
18966371 TGTACGACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
TCGATATGTGACTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:18967916 original size:50 final size:50
Alignment explanation
Indices: 18967792--18968029 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
18967782 AGCCGAAGCT
* *
18967792 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
18967841 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * *
18967891 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA--CA
* * * *
18967942 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACA
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
18967992 ATATGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
18968030 TGTGTACTCA
Statistics
Matches: 163, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
49 42 0.26
50 81 0.50
51 39 0.24
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:18968002 original size:101 final size:99
Alignment explanation
Indices: 18967795--18968029 Score: 303
Period size: 101 Copynumber: 2.4 Consensus size: 99
18967785 CGAAGCTATC
* * *
18967795 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAGTAGC
* * * *
18967860 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACACGCGACCTAACAATA
* * *
18967894 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA--CAATCTG-GTACACATAG
* *
18967957 TAGCCTGCACTTAGTACTACACATGCGACTTAACAATA
62 TAGCCTGCACTTAGTACTACACACGCGACCTAACAATA
*
18967995 TGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACA
18968030 TGTGTACTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
99 37 0.31
100 5 0.04
101 76 0.64
102 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAGTAGC
CTGCACTTAGTACTACACACGCGACCTAACAATA
Found at i:18981475 original size:14 final size:14
Alignment explanation
Indices: 18981456--18981486 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18981446 AAACCTTATC
18981456 TACTAACACATATT
1 TACTAACACATATT
18981470 TACTAACACATATT
1 TACTAACACATATT
18981484 TAC
1 TAC
18981487 CTAAAGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TACTAACACATATT
Found at i:18984716 original size:16 final size:16
Alignment explanation
Indices: 18984670--18984716 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18984660 ACAACTTTAC
*
18984670 ATGGCTCGCATTTTTG
1 ATGGCTCGCATCTTTG
*
18984686 CTGAGCTCGC-TCTTTG
1 ATG-GCTCGCATCTTTG
*
18984702 ATGGCTCGCAACTTT
1 ATGGCTCGCATCTTT
18984717 ACAACTAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (16 bp):
ATGGCTCGCATCTTTG
Found at i:18985511 original size:66 final size:66
Alignment explanation
Indices: 18985391--18985522 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
18985381 TCTGAAGATA
* * * * * *
18985391 TAGCTGGAGTTCATCATATTTTCTTGTTGCCTCTGCTTTCCTTGTTGCTGCCTCCGCTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTT
18985456 G
66 G
18985457 TAGCTGGAGTTCATCATATTTTCTT-TAAGCCTCTAC-TTCTCTCGATGCTACCTCCACTTTAAG
1 TAGCTGGAGTTCATCATATTTTCTTGT-AGCCTCTACTTTC-CTCGATGCTACCTCCACTTTAAG
18985520 TTG
64 TTG
18985523 AGCAATTTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 4 0.07
66 54 0.93
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTT
G
Found at i:18989467 original size:22 final size:21
Alignment explanation
Indices: 18989411--18989492 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
18989401 TCCGAGCTGA
*
18989411 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCT-TCGAGC
*
18989433 T-AAAATGGT-AGCTCTGTCGAGC
1 TGAACA--GTAAGCTCT-TCGAGC
*
18989455 TGAACAGTAAGCTCATACGAGC
1 TGAACAGTAAGCTC-TTCGAGC
*
18989477 TGAAACGGTAAGCTCT
1 TG-AACAGTAAGCTCT
18989493 AACAATCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.10
22 26 0.54
23 17 0.35
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
TGAACAGTAAGCTCTTCGAGC
Found at i:18996385 original size:13 final size:13
Alignment explanation
Indices: 18996367--18996391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18996357 GTTTATTAAA
18996367 CTAATTAACTAAG
1 CTAATTAACTAAG
18996380 CTAATTAACTAA
1 CTAATTAACTAA
18996392 TTAAACTAAA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
CTAATTAACTAAG
Found at i:19000783 original size:40 final size:39
Alignment explanation
Indices: 19000739--19000815 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
19000729 AGTGACCATA
* *
19000739 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGACATTTGTGCGAGATACTAAT
* *
19000779 TCCGGGCTAAGCCCGAAGACATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTA
19000816 TAACCGGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTAAT
Found at i:19000802 original size:39 final size:40
Alignment explanation
Indices: 19000702--19000843 Score: 141
Period size: 40 Copynumber: 3.6 Consensus size: 40
19000692 AATGATGTCT
* * *
19000702 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
19000742 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
* *
19000782 GGGCTAAG-CCCGAAGACATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
19000821 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
19000844 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 33 0.38
40 42 0.49
41 10 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:19001137 original size:47 final size:47
Alignment explanation
Indices: 19001068--19001282 Score: 349
Period size: 47 Copynumber: 4.6 Consensus size: 47
19001058 AAGGGTTGGT
19001068 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19001115 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
19001162 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
19001209 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
19001256 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
19001283 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 156 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:19004198 original size:35 final size:35
Alignment explanation
Indices: 19004150--19004220 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
19004140 TAATTACTAG
19004150 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
1 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
*
19004185 TACTTTTAGTCCTCGTGGATACAATATTCCCGATC
1 TACTTTTACTCCTCGTGGATACAATATTCCCGATC
19004220 T
1 T
19004221 CACCATAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.38
Consensus pattern (35 bp):
TACTTTTACTCCTCGTGGATACAATATTCCCGATC
Found at i:19004384 original size:28 final size:28
Alignment explanation
Indices: 19004353--19004408 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19004343 TTTATTACTT
19004353 TAGCCATTTTTACTTTTATTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
19004381 TAGCCATTTTTACTTTTATTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
19004409 CTTTTTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TAGCCATTTTTACTTTTATTGCAATTTA
Found at i:19006262 original size:49 final size:49
Alignment explanation
Indices: 19006209--19006383 Score: 226
Period size: 49 Copynumber: 3.5 Consensus size: 49
19006199 TTGGTACGCA
*
19006209 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
** * * * * *
19006258 TAGTAGCCTATACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG-GTACACG
* *
19006309 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
19006358 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
19006384 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 62 0.59
50 9 0.09
51 34 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:19006373 original size:100 final size:100
Alignment explanation
Indices: 19006202--19006388 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
19006192 AGGTTATTTG
* *
19006202 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCT
*
19006267 ATACTTAGTACTACACACGTGATCGAAGTTATCGA
66 ACACTTAGTACTACACACGTGATCGAAGTTATCGA
*
19006302 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCT
*
19006367 GCACTTAGTACTACACACGTGA
66 ACACTTAGTACTACACACGTGA
19006389 CCTCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGTGATCGAAGTTATCGA
Found at i:19007020 original size:30 final size:30
Alignment explanation
Indices: 19006986--19007044 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
19006976 CCAAAATCAT
19006986 ATTTTGGAAAAATTACAATTTTGCCCCTAA
1 ATTTTGGAAAAATTACAATTTTGCCCCTAA
** *
19007016 ATTTTGTCAAAATTACATTTTTGCCCCTA
1 ATTTTGGAAAAATTACAATTTTGCCCCTA
19007045 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (30 bp):
ATTTTGGAAAAATTACAATTTTGCCCCTAA
Found at i:19012175 original size:49 final size:48
Alignment explanation
Indices: 19012097--19012285 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 48
19012087 GTAGACAAGG
* * *
19012097 TTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATC-GGTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
** * * * *
19012146 TTATTCGGTACATGTAGTAGCATGTACTTAGTACTACACACGTGATCGAA
1 TTA-TCGGTACACATAGTAGCCTGTACTTAGTACTACACATGCGA-CCAA
* *
19012196 GTTATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCG-GTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
*
19012246 TTATCTGGTACACATAGTAGCCTATACTTAGTACTACACA
1 TTATC-GGTACACATAGTAGCCTGTACTTAGTACTACACA
19012286 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 69 0.60
50 12 0.10
51 34 0.30
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
TTATCGGTACACATAGTAGCCTGTACTTAGTACTACACATGCGACCAA
Found at i:19012274 original size:100 final size:100
Alignment explanation
Indices: 19012096--19012290 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
19012086 TGTAGACAAG
**
19012096 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACATGT
1 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACAT
*
19012161 AGTAGCATGTACTTAGTACTACACACGTGATCGAA
66 AGTAGCATATACTTAGTACTACACACGTGATCGAA
*
19012196 GTTATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCTGGTACAC
1 GTTATCTG-GTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTC-GGTACAC
*
19012259 ATAGTAGCCTATACTTAGTACTACACACGTGA
64 ATAGTAGCATATACTTAGTACTACACACGTGA
19012291 CCTCACAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 3 0.03
100 85 0.97
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACAT
AGTAGCATATACTTAGTACTACACACGTGATCGAA
Found at i:19012922 original size:30 final size:30
Alignment explanation
Indices: 19012888--19012946 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19012878 CCAAAATCAT
19012888 ATTTTGGAAAAATTACAATTT-TGCCCCTAA
1 ATTTTGGAAAAATTAC-ATTTGTGCCCCTAA
**
19012918 ATTTTGTCAAAATTACATTTGTGCCCCTA
1 ATTTTGGAAAAATTACATTTGTGCCCCTA
19012947 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (30 bp):
ATTTTGGAAAAATTACATTTGTGCCCCTAA
Found at i:19036796 original size:19 final size:20
Alignment explanation
Indices: 19036761--19036806 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
19036751 CGGAAAGTAA
*
19036761 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
19036781 TTTCTGG-AAATAATTTACT
1 TTTCTGGAAAATAATTTACT
19036800 TTTCTGG
1 TTTCTGG
19036807 TGTTTGGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:19037352 original size:21 final size:22
Alignment explanation
Indices: 19037327--19037373 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19037317 TTGTTCCATA
*
19037327 TTTTCTGAAATGACTTAAA-GT
1 TTTTCTAAAATGACTTAAAGGT
19037348 TTTTCTAAAATGACTTAAAGGT
1 TTTTCTAAAATGACTTAAAGGT
19037370 TTTT
1 TTTT
19037374 GTCTCACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTTCTAAAATGACTTAAAGGT
Found at i:19037737 original size:17 final size:18
Alignment explanation
Indices: 19037711--19037746 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19037701 GGGGTTGAGT
*
19037711 TTGCATCTTTG-ATAAGC
1 TTGCAACTTTGAATAAGC
19037728 TTGCAACTTTGAATAAGC
1 TTGCAACTTTGAATAAGC
19037746 T
1 T
19037747 CATAACTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGCAACTTTGAATAAGC
Found at i:19037753 original size:18 final size:17
Alignment explanation
Indices: 19037732--19037781 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
19037722 ATAAGCTTGC
19037732 AACTTTGAATAAGCTCAT
1 AACTTTGAATAAG-TCAT
* *
19037750 AACTGTGGATGAAGTCAT
1 AACTTTGAAT-AAGTCAT
*
19037768 AAATTTGAATAAGT
1 AACTTTGAATAAGT
19037782 TCGTAGGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 4 0.15
18 19 0.73
19 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (17 bp):
AACTTTGAATAAGTCAT
Found at i:19038363 original size:20 final size:20
Alignment explanation
Indices: 19038338--19038390 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
19038328 TCAGCCTTGT
19038338 TCCAATTCAAGAACAATATC
1 TCCAATTCAAGAACAATATC
*
19038358 TCCAATTCAAGAACAATATG
1 TCCAATTCAAGAACAATATC
19038378 TCCAATTCAAGAA
1 TCCAATTCAAGAA
19038391 AATTTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (20 bp):
TCCAATTCAAGAACAATATC
Found at i:19041959 original size:435 final size:433
Alignment explanation
Indices: 19041111--19041976 Score: 1556
Period size: 435 Copynumber: 2.0 Consensus size: 433
19041101 AACAGGACAA
19041111 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
1 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
19041176 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
66 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
19041241 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
131 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
* *
19041306 ATACTTTTATTAATGGTATAATTACCATATAAGGACCTTAAGTTTTGAATTCCATAGCTATTTGA
196 ATACTTTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
* *
19041371 TCTTCATAGCTACTAGAATTCAACTTTTGCATTTTATGCGATTTAGTTCTTCTCGTAATTAGGCA
261 TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
* *
19041436 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTATGGGCCATAT
326 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
19041501 GGTAAAATAAAAATAAAATATTTTTTGGATCGTATTTGTGGTCTT
391 GGTAAAATAAAAATAAAATA--TTTTGGATCGTATTTGTGGTCTT
*
19041546 GAAAGCTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
1 GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
*
19041611 GGTTGAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
66 GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
*
19041676 GTATTTCCAATTTAGTCCCTTGT-TTTTTCTATAATTCCATGGATGAGTTACCATAAAAATCTAC
131 GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
*
19041740 ATACTTTTATTAATGGTATAATTACCAGATAAAGATCTTAAGTTTTGAATTCCATAGCTATTTGA
196 ATACTTTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
*
19041805 TCTTCATAGCTACTAGAATTC-ACTTTCGCATTTTATGTGATTTAGTCCTTCTCGTAATTAGGCA
261 TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
* *
19041869 CTAAATTGATAAAATTTTCATATCAAAAATTTTGCATGTCATTTCTATCATATTACGAGCCATAT
326 CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
*
19041934 GGTAAAATAAAAATAAAATATATTTTGGATTGTATTTGTGGTC
391 GGTAAAATAAAAAT-AAA-ATATTTTGGATCGTATTTGTGGTC
19041977 CCGAAACCAC
Statistics
Matches: 415, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
433 135 0.33
434 126 0.30
435 154 0.37
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (433 bp):
GAAAACTTACCCAATTAGGCCTTGAAAGCTTCTTTTCTCTCTCCTATGGTTTCCATGTATTTTTA
GGTTAAAGATGATGAAAATAAAATGATATAATTTCTTTTCATCTTTCAATTAATTAAGTATTTTG
GTATTTCCAATTTAGTCCCTTGTCTTTTTCTATAATTCCATGGATGAGTCACCATAAAAATCTAC
ATACTTTTATTAATGGTATAATTACCAGATAAAGACCTTAAGTTTTGAATTCCATAGCTATTTGA
TCTTCATAGCTACTAGAATTCAACTTTCGCATTTTATGCGATTTAGTCCTTCTCGTAATTAGGCA
CTAAATCGATAAAATTTTCATATCAAAAATTTCGCATGTCATTTCTATCATATTACGAGCCATAT
GGTAAAATAAAAATAAAATATTTTGGATCGTATTTGTGGTCTT
Found at i:19049083 original size:12 final size:12
Alignment explanation
Indices: 19049066--19049092 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19049056 CCTTCTTCTC
19049066 CCCTTTCCCCTT
1 CCCTTTCCCCTT
19049078 CCCTTTCCCCTT
1 CCCTTTCCCCTT
19049090 CCC
1 CCC
19049093 CTTGGGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:19049214 original size:25 final size:27
Alignment explanation
Indices: 19049154--19049214 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
19049144 CCAGGTAAGG
*
19049154 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
19049182 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
19049205 CTTCTCTTCT
1 CTTCTCTTCT
19049215 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:19049730 original size:12 final size:13
Alignment explanation
Indices: 19049707--19049732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19049697 TCAATGAACC
19049707 CTTAATTTTTTTG
1 CTTAATTTTTTTG
19049720 CTTAATTTTTTTG
1 CTTAATTTTTTTG
19049733 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:19053146 original size:21 final size:21
Alignment explanation
Indices: 19053120--19053172 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
19053110 CGCTGTTTCT
* *
19053120 AATCTCACCTCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
19053141 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
19053162 AATCTCACCGC
1 AATCTCACCGC
19053173 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:19076343 original size:81 final size:79
Alignment explanation
Indices: 19076154--19076369 Score: 249
Period size: 81 Copynumber: 2.7 Consensus size: 79
19076144 TGAACCCTTA
* * *
19076154 TGCAAACCCTTGCATGAAATCCCCATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGTGCAC
1 TGCAAACCCTTGCATGAAATCCCTATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGCGAAC
19076219 CCCCTATTTACATG
66 CCCCTATTTACATG
* * * *
19076233 TGCGAACCCTTGCATGAAAACCCTCATAGGCA-AA-TCCTCTTGATGCATGCGAACCTTTATGCG
1 TGCAAACCCTTGCATGAAATCCCT-ATAGG-AGAAGCCCT-TTGATGCATGCGAACCCTTATGCG
* *
19076296 AACCCCCATGTTTGCATG
63 AACCCCC-TATTTACATG
* * *
19076314 TGCAAACCCTTGCATGAAATCCACTATAGGTA-AACCCCTTTGATGTATGCAAACCC
1 TGCAAACCCTTGCATGAAATCC-CTATAGG-AGAAGCCCTTTGATGCATGCGAACCC
19076370 CAAAAATGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
79 24 0.21
80 35 0.30
81 51 0.44
82 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (79 bp):
TGCAAACCCTTGCATGAAATCCCTATAGGAGAAGCCCTTTGATGCATGCGAACCCTTATGCGAAC
CCCCTATTTACATG
Found at i:19079067 original size:47 final size:47
Alignment explanation
Indices: 19078958--19079068 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
19078948 CCGGGATAAG
* * *
19078958 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
19079005 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
19079052 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
19079069 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:19079827 original size:4 final size:4
Alignment explanation
Indices: 19079814--19079848 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
19079804 TCAAATTTCC
19079814 CTTT -TTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
19079849 ACGTTTGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:19083842 original size:27 final size:27
Alignment explanation
Indices: 19083812--19083871 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
19083802 TAAGTGACAT
19083812 AAACTCTTCACTATACTTATTACTTAA
1 AAACTCTTCACTATACTTATTACTTAA
19083839 AAACTCTTCACTATACTTATTACTTAA
1 AAACTCTTCACTATACTTATTACTTAA
*
19083866 GAACTC
1 AAACTC
19083872 AATATGTCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (27 bp):
AAACTCTTCACTATACTTATTACTTAA
Found at i:19084636 original size:24 final size:24
Alignment explanation
Indices: 19084600--19084645 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
19084590 AATAGCAAGT
19084600 GTTAATATATTAT-TTAATATTTGA
1 GTTAATATATTATGTTAA-ATTTGA
19084624 GTTAGATAT-TTATGTTAAATTT
1 GTTA-ATATATTATGTTAAATTT
19084646 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (24 bp):
GTTAATATATTATGTTAAATTTGA
Found at i:19084764 original size:18 final size:20
Alignment explanation
Indices: 19084733--19084769 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
19084723 TTCATAATTT
19084733 TGTTAATATAATAAATTTGG
1 TGTTAATATAATAAATTTGG
19084753 TGTTAAT-T-ATAAATTTG
1 TGTTAATATAATAAATTTG
19084770 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (20 bp):
TGTTAATATAATAAATTTGG
Found at i:19086092 original size:23 final size:23
Alignment explanation
Indices: 19086032--19086119 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
19086022 TTATTAACAT
* *
19086032 TGTTCATGAACATGTTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
* * *
19086056 TGTTCATGAGCATGTTCGTTTAA
1 TGTTAATGAACATGTTCGATTAA
** *
19086079 TGTTTGTGAACATGTACGATTAA
1 TGTTAATGAACATGTTCGATTAA
19086102 -GTTAAATGAACATGTTCG
1 TGTT-AATGAACATGTTCG
19086120 GTGAACACTA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
22 3 0.06
23 30 0.58
24 19 0.37
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:19086181 original size:27 final size:27
Alignment explanation
Indices: 19086128--19086186 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
19086118 CGGTGAACAC
* * *
19086128 TAAACAAACGAAAATAAACACATATTT
1 TAAATAAACGAAAATAAACAAAAATTT
* *
19086155 TAAATAAACGAACATGAACAAAAATTT
1 TAAATAAACGAAAATAAACAAAAATTT
*
19086182 AAAAT
1 TAAAT
19086187 TCTAAATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAATAAACGAAAATAAACAAAAATTT
Found at i:19087520 original size:10 final size:10
Alignment explanation
Indices: 19087507--19087541 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
19087497 TAAAGAATAT
19087507 ATTATATTAA
1 ATTATATTAA
*
19087517 ATTAAATTAA
1 ATTATATTAA
19087527 ATTATATTATA
1 ATTATATTA-A
19087538 ATTA
1 ATTA
19087542 AATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTATATTAA
Found at i:19087532 original size:20 final size:20
Alignment explanation
Indices: 19087502--19087548 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
19087492 AATACTAAAG
*
19087502 AATATATTATATTA-AATTA
1 AATAAATTATATTATAATTA
19087521 AATTAAATTATATTATAATTA
1 AA-TAAATTATATTATAATTA
19087542 AATAAAT
1 AATAAAT
19087549 AAACAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAATTATATTATAATTA
Found at i:19087598 original size:17 final size:17
Alignment explanation
Indices: 19087562--19087620 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
19087552 CAAAACAAAT
*
19087562 AAAAGAAA-AAGAATAGA
1 AAAAGAAACAA-AGTAGA
19087579 AAAAGAAACAAAGTTA-A
1 AAAAGAAACAAAG-TAGA
* *
19087596 AAATGAAACAGAGTAGA
1 AAAAGAAACAAAGTAGA
19087613 AAAAGAAA
1 AAAAGAAA
19087621 GAAAAGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.06
17 29 0.83
18 4 0.11
ACGTcount: A:0.71, C:0.03, G:0.17, T:0.08
Consensus pattern (17 bp):
AAAAGAAACAAAGTAGA
Found at i:19087632 original size:34 final size:33
Alignment explanation
Indices: 19087562--19087633 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
19087552 CAAAACAAAT
*
19087562 AAAAGAAAAAGAATAGAAAAAGAAACAAAGTTAA
1 AAAAGAAAAAGAATAGAAAAAGAAAAAAAG-TAA
* * *
19087596 AAATGAAACAGAGTAGAAAAAGAAAGAAAAG-AA
1 AAAAGAAAAAGAATAGAAAAAGAAA-AAAAGTAA
19087629 AAAAG
1 AAAAG
19087634 GAAAGAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
33 6 0.19
34 22 0.69
35 4 0.12
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (33 bp):
AAAAGAAAAAGAATAGAAAAAGAAAAAAAGTAA
Found at i:19088587 original size:40 final size:40
Alignment explanation
Indices: 19088464--19088604 Score: 103
Period size: 40 Copynumber: 3.6 Consensus size: 40
19088454 CGACCTCAAG
*
19088464 TCGATGAGACACTGGGTGT-TAATCTATTACTTC-AGATTAAT
1 TCGATGAGACACTGGGTGTCAAAT-TATTACTTCGA-ATT-AT
** * * * ** *
19088505 TCGATGAGGTACTGGGT-ACCAA-T-TTACTTTGGTTTAA
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
*
19088542 CCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
* **
19088582 TCGATGAGGCAAAGGGTGTCAAA
1 TCGATGAGACACTGGGTGTCAAA
19088605 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
37 15 0.20
38 11 0.15
39 2 0.03
40 29 0.39
41 17 0.23
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
Found at i:19097563 original size:11 final size:11
Alignment explanation
Indices: 19097547--19097580 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
19097537 ATGTCAAATC
*
19097547 ATCAAGAATAA
1 ATCAAGAACAA
19097558 ATCAAGAACAA
1 ATCAAGAACAA
19097569 ATCAAGAACAA
1 ATCAAGAACAA
19097580 A
1 A
19097581 ACTAGATGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.12
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:19101877 original size:56 final size:56
Alignment explanation
Indices: 19101791--19101910 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
19101781 ACAAGGGATG
19101791 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19101847 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
19101903 ATGGGCAA
1 ATGGGCAA
19101911 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:19103472 original size:47 final size:47
Alignment explanation
Indices: 19103420--19103729 Score: 442
Period size: 47 Copynumber: 6.6 Consensus size: 47
19103410 GATAATTGTG
* *
19103420 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19103467 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19103514 ATGTAAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19103563 ATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19103610 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
19103657 ATGTGAAAGTGCATATATGTGACAAGG-CTGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
*
19103704 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
19103730 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.81
49 42 0.18
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19105762 original size:40 final size:40
Alignment explanation
Indices: 19105714--19105992 Score: 450
Period size: 40 Copynumber: 7.0 Consensus size: 40
19105704 TCGAATGATG
19105714 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
19105754 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
19105794 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
19105834 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
19105874 TCCGGGCTAAGTCCCGAATAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * *
19105914 TCCGAGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* ** * *
19105954 TCCGTGCTAAACCCCGAAGAGCAATCATGCTGGTGATGT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
19105993 GTATTCGGGC
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:19107343 original size:56 final size:56
Alignment explanation
Indices: 19107257--19107376 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
19107247 ACAAGGGATG
19107257 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19107313 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
19107369 ATGGGCAA
1 ATGGGCAA
19107377 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:19108934 original size:47 final size:47
Alignment explanation
Indices: 19108882--19109190 Score: 449
Period size: 47 Copynumber: 6.6 Consensus size: 47
19108872 GATAATTGTG
* *
19108882 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19108929 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19108976 ATGTGAAAGTGTATATATATATGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19109025 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19109072 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
19109119 ATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19109165 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
19109191 TCATGAATGT
Statistics
Matches: 240, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 39 0.16
47 158 0.66
49 43 0.18
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19109186 original size:16 final size:16
Alignment explanation
Indices: 19109165--19109218 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
19109155 AACGTGATGG
19109165 ATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATAA
* *
19109181 ATGTGATAAGT-CATGA
1 ATGTGA-AAGTGTATAA
*
19109197 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAA
19109213 ATGTGA
1 ATGTGA
19109219 CAGGGCCGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 4 0.13
16 23 0.74
17 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (16 bp):
ATGTGAAAGTGTATAA
Found at i:19109208 original size:78 final size:79
Alignment explanation
Indices: 19109115--19109271 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
19109105 GGCCGATGTG
19109115 ATGAATGTGAAAGTGTATATATGTGACA-GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
19109179 AAATGTGATAAGTC
66 AAATGTGATAAGTC
19109193 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
19109258 AAATGTGATAAGTC
66 AAATGTGATAAGTC
19109272 CCGAAGGGCA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 28 0.36
79 50 0.64
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (79 bp):
ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
AAATGTGATAAGTC
Found at i:19109218 original size:94 final size:92
Alignment explanation
Indices: 19108882--19109190 Score: 352
Period size: 96 Copynumber: 3.3 Consensus size: 92
19108872 GATAATTGTG
* * * ** *
19108882 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGAAG-TGT-ATGAATGTGAAAGTGTATATAT
19108947 GTGATAAGGCCGAATGGCCAATGTGATGA
64 GTGATAAGGCCGAATGGCCAATGTGATGA
* *
19108976 ATGTGAAAGTGTATATATATATGATAAGGCCTAATAGCCGATGTG-ATGAATGTGAAAGTGTATA
1 ATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAAT-G--GAAGTGTATGAATGTGAAAGTGTATA
* * *
19109040 TATGTGATAAGGCCTAATAGCCGATGTGATGA
61 TATGTGATAAGGCCGAATGGCCAATGTGATGA
* * **
19109072 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGAAG-TGT-ATGAATGTGAAAGTGTATATAT
* * * *
19109137 GTGA-CAGGCCGAGTGGCCAACGTGATGG
64 GTGATAAGGCCGAATGGCCAATGTGATGA
19109165 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATAAATGTGATAAG
19109191 TCATGAATGT
Statistics
Matches: 183, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
91 2 0.01
92 2 0.01
93 42 0.23
94 54 0.30
96 78 0.43
97 1 0.01
98 2 0.01
99 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (92 bp):
ATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGAAGTGTATGAATGTGAAAGTGTATATATGT
GATAAGGCCGAATGGCCAATGTGATGA
Found at i:19118700 original size:13 final size:13
Alignment explanation
Indices: 19118682--19118707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19118672 AAATAATCGT
19118682 ACACGGGCGTGTC
1 ACACGGGCGTGTC
19118695 ACACGGGCGTGTC
1 ACACGGGCGTGTC
19118708 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:19119858 original size:10 final size:10
Alignment explanation
Indices: 19119843--19119868 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19119833 ATTGAAATGA
19119843 ATAAATGTGC
1 ATAAATGTGC
19119853 ATAAATGTGC
1 ATAAATGTGC
19119863 ATAAAT
1 ATAAAT
19119869 ATTACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (10 bp):
ATAAATGTGC
Found at i:19120161 original size:50 final size:50
Alignment explanation
Indices: 19120020--19120163 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
19120010 TGCTAGGGAG
**
19120020 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATCAACACCGAT
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACACCGAT
* * * * * *
19120070 AGATGAGAGCCAGTGTAATACCATATCTGGGACATGACATTGGC-CTCGAT
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACAC-CGAT
* * *
19120120 ATATGAGAGTTAGTGTAAGACCATGCCTGGGACATGGCATTGAC
1 ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGAC
19120164 TTTGATGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 1 0.01
50 76 0.99
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACACCGAT
Found at i:19144576 original size:24 final size:24
Alignment explanation
Indices: 19144544--19144593 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19144534 CTTGTGTCAC
19144544 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
19144568 ATTTTAATAGAAACAAAAATAATA
1 ATTTTAATAGAAACAAAAATAATA
19144592 AT
1 AT
19144594 CATTTAGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
ATTTTAATAGAAACAAAAATAATA
Found at i:19149851 original size:50 final size:50
Alignment explanation
Indices: 19149771--19149876 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
19149761 AATTGTAAAA
*
19149771 AAAGTAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGTTAGTTTGCATGGG
1 AAAG-AAAACTTTCTTTCTTTCTCTCTTCTTCTCACGATAGTTTGCATGGG
19149822 AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGATAGTTTGCATGGG
1 AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGATAGTTTGCATGGG
19149872 AAAGA
1 AAAGA
19149877 TAATTGATGG
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 50 0.93
51 4 0.07
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.42
Consensus pattern (50 bp):
AAAGAAAACTTTCTTTCTTTCTCTCTTCTTCTCACGATAGTTTGCATGGG
Found at i:19152169 original size:23 final size:24
Alignment explanation
Indices: 19152123--19152169 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19152113 ATACACGGAT
*
19152123 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
*
19152147 TCCAACCAAAACACATCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
19152170 ATCATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:19152803 original size:46 final size:46
Alignment explanation
Indices: 19152640--19153048 Score: 439
Period size: 46 Copynumber: 8.9 Consensus size: 46
19152630 TTATCTTCGA
* * * * * *
19152640 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * * * ** ***
19152686 TAGGTTTCCATGGTATCTTCCAACCATGGTCTTATTCATTTCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATAT
** *
19152733 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
19152779 CACGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19152825 CATGTTGCCATGGTATCTTTCAACCATGGTCTTCCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
19152871 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
19152917 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTGA-AT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * * * * * *
19152962 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCGTTTGA-AT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * * * *
19153007 CCTGATGCCATAGCT-TCTTTCAGCTATGGTCTTACTCATTTC
1 CATGTTGCCAT-GGTATCTTTCAACCATGGTCTTACACATTTC
19153049 TGGTATGATG
Statistics
Matches: 321, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
45 78 0.24
46 204 0.64
47 39 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:19153109 original size:33 final size:33
Alignment explanation
Indices: 19153057--19153212 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 33
19153047 TCTGGTATGA
* * *
19153057 TGCCATAGTCCAACTATGGTCTTACACGTGTAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
* * **
19153090 TGCCATGGCCTAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCCATGGTCTTACACGT-GTAT
* **
19153123 TGCCATATCCCAGATATGGTCTTATCAGCAG-G-A-
1 TGCCATAGCCCAGCCATGGTCTTA-CA-C-GTGTAT
* * * *
19153156 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
*
19153189 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
19153213 TCCGTCAATT
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 85 0.90
34 2 0.02
35 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (33 bp):
TGCCATAGCCCAGCCATGGTCTTACACGTGTAT
Found at i:19153193 original size:66 final size:66
Alignment explanation
Indices: 19153090--19153214 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
19153080 ACACGTGTAT
* * * * *
19153090 TGCCATGGCCTAGCCATGGTCTTACACTCGTGGTGCCATATCCCAGATATGGTCTTATCAGCAGG
1 TGCCATAGCCTAGCCATGGTCTTACACTCATAGTGCCATAGCCCAGACATGGTCTTATCAGCAGG
19153155 A
66 A
* * * *
19153156 TGCCATAGCCTAGCTATGGTCTTACACAT-ATATTGCCATGGCCCAGCCATGGTCTTATC
1 TGCCATAGCCTAGCCATGGTCTTACAC-TCATAGTGCCATAGCCCAGACATGGTCTTATC
19153215 CGTCAATTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 48 0.98
67 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (66 bp):
TGCCATAGCCTAGCCATGGTCTTACACTCATAGTGCCATAGCCCAGACATGGTCTTATCAGCAGG
A
Found at i:19156267 original size:29 final size:30
Alignment explanation
Indices: 19156209--19156277 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
19156199 CCACCCTTAA
* * * *
19156209 AATATTTGCACTATTAGTCCTTCAACTTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
*
19156239 TATATTTACACT-TTAATCCCTCAAATTTT
1 AATATTTACACTATTAATCCCTCAAATTTT
19156268 AAGTATTTAC
1 AA-TATTTAC
19156278 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.46
Consensus pattern (30 bp):
AATATTTACACTATTAATCCCTCAAATTTT
Found at i:19159170 original size:32 final size:33
Alignment explanation
Indices: 19159128--19159191 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
19159118 ATTTGAGTTA
19159128 AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
1 AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
* *
19159161 AAAAA-TATTTAAAAATTATTTTCTGTTTTTA
1 AAAAAGTATTTAAAAAATATTTTCTGTATTTA
19159192 TTTTGTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (33 bp):
AAAAAGTATTTAAAAAATATTTTCTGTATTTAG
Found at i:19159661 original size:7 final size:7
Alignment explanation
Indices: 19159649--19159673 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19159639 AGACCCATGC
19159649 TTGAATT
1 TTGAATT
19159656 TTGAATT
1 TTGAATT
19159663 TTGAATT
1 TTGAATT
19159670 TTGA
1 TTGA
19159674 TGAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTGAATT
Found at i:19169588 original size:49 final size:47
Alignment explanation
Indices: 19169465--19169643 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 47
19169455 AGGGTATAGT
* *
19169465 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAA
* * * *
19169512 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATTGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATC--AA-TCAA
* * * **
19169561 GCCGACGCCATGTCCTAGGCATGGTCTTACACTAGCTCTCA-CATATCCGT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACTCATCA-AT-CAA
* *
19169611 GCCGATGCCATGTCCTAGACACGGACTTACACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT
19169644 AACACCTCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
46 3 0.03
47 34 0.32
48 1 0.01
49 33 0.31
50 31 0.29
51 3 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATCAATCAA
Found at i:19169714 original size:39 final size:40
Alignment explanation
Indices: 19169667--19169763 Score: 106
Period size: 46 Copynumber: 2.3 Consensus size: 40
19169657 GTGTCGATAC
* *
19169667 CATGTCCCAAACTTACACTGAC-ACATCTCGTAGCTGATG
1 CATGTCCCAAACTTACACTGACTACATCTCGAAGCCGATG
*
19169706 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
1 CATGTCCCA-A-A---CTTACACTGAC-TACATCTCGAAGCCGATG
19169752 CATGTCCCAAAC
1 CATGTCCCAAAC
19169764 ATGTCTTACA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
39 9 0.19
40 1 0.02
41 2 0.04
44 11 0.23
45 1 0.02
46 24 0.50
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (40 bp):
CATGTCCCAAACTTACACTGACTACATCTCGAAGCCGATG
Found at i:19169752 original size:46 final size:47
Alignment explanation
Indices: 19169689--19169854 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 47
19169679 TTACACTGAC
* *
19169689 ACATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
19169735 ACATCTCGAAGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
**
19169782 -CATCTC-AATATCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGAA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* **
19169830 -CATAAT-GTGGCCGATGCATGTCCCA
1 ACAT-CTCGAAGCCGATGCATGTCCCA
19169855 AACTTGTTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 52 0.51
47 23 0.23
48 23 0.23
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:19169843 original size:94 final size:92
Alignment explanation
Indices: 19169702--19169872 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
19169692 TCTCGTAGCT
*
19169702 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAAACATG
19169767 TCTTACACTAGCTCTCATCTCAATATC
66 TCTTACACTAGCTCTCATCTCAATATC
**
19169794 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAAA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAAGCCGATGCATGTCCCAAA
* * *
19169857 CTTGTTTTACGCTAGC
62 CATGTCTTACACTAGC
19169873 ACACAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 49 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAAACATG
TCTTACACTAGCTCTCATCTCAATATC
Found at i:19171369 original size:68 final size:69
Alignment explanation
Indices: 19171297--19171454 Score: 178
Period size: 68 Copynumber: 2.3 Consensus size: 69
19171287 CATCATGTGT
* ** * * * *
19171297 ACAAGAGAGCTACGAGATA-CTATGTAGTAGCTAGGTCACATGTGTGAT-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATAGATAAAT-GTAGCTAGGTCACATATGTGATCAAGGGAAGGA-CACC
19171359 ATGTAG
64 ATGTAG
* *
19171365 ACAAGAGAGCTACGAGAGAGATAAATGTAGCTAGGTCACATATGTGATCCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATATGTGAT--CAAGGGAAGGACACC
19171430 ATGTAG
64 ATGTAG
19171436 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
19171455 AATTGGCTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
68 39 0.52
69 3 0.04
70 1 0.01
71 32 0.43
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATATGTGATCAAGGGAAGGACACCAT
GTAG
Found at i:19177162 original size:144 final size:144
Alignment explanation
Indices: 19176902--19177316 Score: 582
Period size: 144 Copynumber: 2.9 Consensus size: 144
19176892 GTACCAATGT
* * *
19176902 CATGTCCCTGACATGGCCTTACATGAATCCACATATCATCATCGATGCCATGTCCCAGACATGGT
1 CATGTCCCTAACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCAGACATGGT
* *
19176967 CTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACAT
66 CTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
19177032 ATCATCACCGATGC
131 ATCATCACCGATGC
* * *
19177046 CATGTCCCCAACATGGTCTTACATGAATCCACATATCATCGTCAATGCCATGTCCCATACATGGT
1 CATGTCCCTAACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCAGACATGGT
* * * *
19177111 CTTACATTGGCACACATATCTTCCCCGATGCCATGTCCCAGACATGGTCTTACACAGGCACATAT
66 CTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
*
19177176 ATCATCGCCGATGC
131 ATCATCACCGATGC
* * ** * *
19177190 CATGT-CCTAGACATGGTTTTACA-CAGGCACATATATCATCGTCGATGCCATGTCCAAGACATG
1 CATGTCCCTA-ACATGGTCTTACATGAATC-CACATATCATCGTCGATGCCATGTCCCAGACATG
* * * * *
19177253 GTTTTACACAGGCACATATATCATCATCGATGCCATGTCCTAGACATGGTCTTACACAGGCACA
64 GTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
19177317 TTTAGCACGG
Statistics
Matches: 239, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
143 5 0.02
144 234 0.98
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (144 bp):
CATGTCCCTAACATGGTCTTACATGAATCCACATATCATCGTCGATGCCATGTCCCAGACATGGT
CTTACACTGGCACACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACAT
ATCATCACCGATGC
Found at i:19177317 original size:48 final size:48
Alignment explanation
Indices: 19176931--19177316 Score: 497
Period size: 48 Copynumber: 8.0 Consensus size: 48
19176921 TACATGAATC
* *
19176931 CACATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
19176979 CACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* **
19177027 CACATATCATCACCGATGCCATGTCCCCA-ACATGGTCTTACATGAATC-
1 CACATATCATCACCGATGCCATGT-CCCAGACATGGTCTTACA-CAGGCA
** * * **
19177075 CACATATCATCGTCAATGCCATGTCCCATACATGGTCTTACATTGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* *
19177123 CACATATCTTCCCCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * * *
19177171 CATATATCATCGCCGATGCCATGTCCTAGACATGGTTTTACACAGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* ** * *
19177219 CATATATCATCGTCGATGCCATGTCCAAGACATGGTTTTACACAGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
* * *
19177267 CATATATCATCATCGATGCCATGTCCTAGACATGGTCTTACACAGGCA
1 CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
19177315 CA
1 CA
19177317 TTTAGCACGG
Statistics
Matches: 304, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
47 5 0.02
48 294 0.97
49 5 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
CACATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCA
Found at i:19184376 original size:48 final size:47
Alignment explanation
Indices: 19184307--19184523 Score: 247
Period size: 48 Copynumber: 4.5 Consensus size: 47
19184297 TAAAGTACCA
* * * * *
19184307 ATGCAATGTCCCCGACATGGTCTTACAT-GAATCCACATATCATCGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATAGCA--CACATATCATCGCCG
* * *
19184355 ATGTCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TAGCACACATATCATCGCCG
* * * **
19184403 ATGCCATGTCCCAAACATGGTCTTACATAGGCACATAAATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACATA-GCACACATATCATCGCCG
* *
19184451 ATGCCATGTCCCAGACATGGTTTTACATAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATA-GCACACATATCATCGCCG
19184499 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
19184524 TACAGGCACA
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
47 1 0.01
48 143 0.97
49 1 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGCACACATATCATCGCCG
Found at i:19184531 original size:48 final size:48
Alignment explanation
Indices: 19184343--19184534 Score: 258
Period size: 48 Copynumber: 4.0 Consensus size: 48
19184333 ATGAATCCAC
* * * * *
19184343 ATATCATCGTCAATGTCATGTCCCAAACATGGTCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
*
19184391 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACATAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* ** * * *
19184439 AAATCATCATCGATGCCATGTCCCAGACATGGTTTTACATAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
* *
19184487 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTATACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
19184535 TTAGCACGGT
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAAACATGGTCTTACACAGGCACAT
Found at i:19192221 original size:44 final size:42
Alignment explanation
Indices: 19192147--19192228 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 42
19192137 TATTCTATTT
* * *
19192147 AACCAAATAATTAATATTATTACTTGTCTATTCCATTCAACC
1 AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
*
19192189 AACCAAACAATGTAATATCTATTACCTCTCTATTTCATTC
1 AACCAAACAAT-TAATAT-TATTACCTCTCTATTCCATTC
19192229 CCATCGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.29
43 6 0.18
44 18 0.53
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (42 bp):
AACCAAACAATTAATATTATTACCTCTCTATTCCATTCAACC
Found at i:19193747 original size:13 final size:14
Alignment explanation
Indices: 19193724--19193766 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
19193714 AAGGTTTAAA
19193724 AATATTTAAATATT
1 AATATTTAAATATT
19193738 AATA-TTAAATATT
1 AATATTTAAATATT
* *
19193751 ATTACTTTCAATATT
1 AATA-TTTAAATATT
19193766 A
1 A
19193767 TCACAGGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 4 0.16
15 9 0.36
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:19194070 original size:3 final size:3
Alignment explanation
Indices: 19194059--19194113 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
19194049 TGTTTTTTTC
19194059 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
19194105 CTT CTT CTT
1 CTT CTT CTT
19194114 TCTCCTTCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:19195396 original size:32 final size:32
Alignment explanation
Indices: 19195350--19195415 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
19195340 AGATGAAGCG
*
19195350 TAGAAGTACGACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
*
19195382 TAGAAATACTACCAGAAAAAGAAAAAGGAAAA
1 TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
19195414 TA
1 TA
19195416 AAAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (32 bp):
TAGAAATACGACCAGAAAAAGAAAAAGGAAAA
Found at i:19195419 original size:13 final size:13
Alignment explanation
Indices: 19195403--19195470 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
19195393 CCAGAAAAAG
19195403 AAAAAGGAAAATA
1 AAAAAGGAAAATA
* *
19195416 AAAAAAGAAAAGA
1 AAAAAGGAAAATA
*
19195429 AAAAGGGAAGAA-A
1 AAAAAGGAA-AATA
** *
19195442 ATGAGGGAAAATA
1 AAAAAGGAAAATA
19195455 AAAAA-GAAAATA
1 AAAAAGGAAAATA
19195467 AAAA
1 AAAA
19195471 GAGGTACAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
12 13 0.30
13 29 0.66
14 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (13 bp):
AAAAAGGAAAATA
Found at i:19195424 original size:26 final size:30
Alignment explanation
Indices: 19195362--19195434 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
19195352 GAAGTACGAC
19195362 CAGAAAAAGAAAAAGGAAAATAGAAATACTA
1 CAGAAAAAGAAAAAGGAAAATAGAAATAC-A
19195393 CCAGAAAAAGAAAAAGGAAAATA-AAA-A-A
1 -CAGAAAAAGAAAAAGGAAAATAGAAATACA
19195421 -AG-AAAAGAAAAAGG
1 CAGAAAAAGAAAAAGG
19195435 GAAGAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
25 12 0.29
26 2 0.05
28 1 0.02
30 1 0.02
31 3 0.07
32 22 0.54
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (30 bp):
CAGAAAAAGAAAAAGGAAAATAGAAATACA
Found at i:19195737 original size:31 final size:32
Alignment explanation
Indices: 19195669--19195741 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
19195659 TTAACCTTAC
*
19195669 AATAAATTATTAATATTATATATTGTTTTAAT
1 AATAAATTATTAATATTACATATTGTTTTAAT
19195701 -A-AAATTATCTAATATTACAT-TT-TTTTAAT
1 AATAAATTAT-TAATATTACATATTGTTTTAAT
19195730 AATAAATT-TTAA
1 AATAAATTATTAA
19195742 CTTTGACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 16 0.43
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
AATAAATTATTAATATTACATATTGTTTTAAT
Found at i:19198177 original size:27 final size:26
Alignment explanation
Indices: 19198140--19198190 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
19198130 GCTTGGATCA
19198140 ATGAAATGTTGGAATAGATGAACTTT
1 ATGAAATGTTGGAATAGATGAACTTT
19198166 ATGAATATGTTGGAATAGATGAACT
1 ATGAA-ATGTTGGAATAGATGAACT
19198191 AAAATTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (26 bp):
ATGAAATGTTGGAATAGATGAACTTT
Done.