Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 342 of 410
Found at i:105559952 original size:43 final size:43
Alignment explanation
Indices: 105559857--105559960 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
105559847 ATCGAGATGT
* * *
105559857 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTGTTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
*
105559900 GATTGCATGTAAGACCATGTCTAGGACATTGGCATCG-ATATGTA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT-TG-A
*
105559944 -TTTACATGTAAGACCAT
1 GATTACATGTAAGACCAT
105559961 ATCTGTGACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
Found at i:105570315 original size:48 final size:47
Alignment explanation
Indices: 105570250--105570344 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 47
105570240 AAGACATTCC
105570250 TTTAACACAACCAAATAAAATGGCAAACACGTTGTGGGACATTTAAA
1 TTTAACACAACCAAATAAAATGGCAAACACGTTGTGGGACATTTAAA
* *
105570297 TTTAACACCACCCAAATAAAATGGCGAACACGTTGTGGGACATTTAAA
1 TTTAACA-CAACCAAATAAAATGGCAAACACGTTGTGGGACATTTAAA
105570345 GACCAAGCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 7 0.16
48 38 0.84
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (47 bp):
TTTAACACAACCAAATAAAATGGCAAACACGTTGTGGGACATTTAAA
Found at i:105572135 original size:2 final size:2
Alignment explanation
Indices: 105572075--105572115 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
105572065 CATGATCTAG
105572075 TA 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 TA T
105572116 TATGTTAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105573679 original size:26 final size:26
Alignment explanation
Indices: 105573650--105573757 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
105573640 TGGTACAAAT
*
105573650 TGATAATGGGTTAGGTAAATGTTGCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
105573676 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105573702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105573728 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105573754 TGAT
1 TGAT
105573758 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105578412 original size:48 final size:48
Alignment explanation
Indices: 105578351--105578624 Score: 245
Period size: 48 Copynumber: 5.7 Consensus size: 48
105578341 TATGTGTGAT
* * * * *
105578351 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGTGTGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
*
105578399 AGTGTAAGACCATGTTTGGAACATGGCATCGG-CA-ATGTATAAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACAT-TATGAGAGCC
* * * * *
105578446 AATGTAAGACCATGTTTGGAACATGGTATCAGCAAAATGTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACAT-TATGAGAGCC
* * **
105578495 AGTGTAAGACCATGTTTTGAACATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
* * * * * *
105578543 AGAGTAAGACCATGTCTAGG-ATATGGCATTGG---CATTGAGACGAGAGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGGCCACATT---ATGAGAGCC
* *
105578591 AGTGTAAGACCATGTTTGGGACATGGCATTGGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCC
105578625 TCGACATGTA
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 41 0.22
48 96 0.51
49 46 0.25
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
Found at i:105578588 original size:96 final size:95
Alignment explanation
Indices: 105578396--105578619 Score: 274
Period size: 96 Copynumber: 2.3 Consensus size: 95
105578386 CATTATGTGT
105578396 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTATAAGAGCCAATGTAAGACCATGT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTATAAGAGCCAATGTAAGACCATGT
* * * *
105578461 TTGGAACATGGTATCAGCAAAATGTATGAGA
66 TAGGAACATGGCATCAGC-AAATGGACGAGA
* *
105578492 GCCAGTGTAAGACCATGTTTTGAACATGGCATCGGCAATGTTATGAGAGCCAGA-GTAAGACCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TATAAGAGCCA-ATGTAAGACCAT
* ** *
105578556 GTCTAGG-ATATGGCATTGGC-ATTGAGACGAGA
64 GT-TAGGAACATGGCATCAGCAAATG-GACGAGA
* *
105578588 GCTAGTGTAAGACCATGTTTGGGACATGGCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCAT
105578620 TGGCCTCGAC
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
95 3 0.03
96 73 0.66
97 31 0.28
98 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTATAAGAGCCAATGTAAGACCATGT
TAGGAACATGGCATCAGCAAATGGACGAGA
Found at i:105580666 original size:43 final size:41
Alignment explanation
Indices: 105580558--105580675 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 41
105580548 GATTTGAGGT
* * *
105580558 TTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATATGA
1 TTACATGTAAGA-CATGTCTGGGACAGTGGCATCGTATATGA
* * * *
105580600 TTTCATGTAAGATCCTG-CATGGGACAGTGGCATCGATATTTTA
1 TTACATGTAAGA-CATGTC-TGGGACAGTGGCATCG-TATATGA
105580643 TTACATGTAAGACGATGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGAC-ATGTCTGGGACAG-TGGCAT
105580676 TGTACGAACT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 30 0.49
44 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (41 bp):
TTACATGTAAGACATGTCTGGGACAGTGGCATCGTATATGA
Found at i:105582356 original size:42 final size:42
Alignment explanation
Indices: 105582310--105582403 Score: 136
Period size: 42 Copynumber: 2.2 Consensus size: 42
105582300 TGCCTCTGTA
* * *
105582310 CCAGACA-GCGACTTACACGAAATCAGATACGATGCCGATTTT
1 CCAGACATG-GACTTACACAAAATCAGATACGATGCCGATGTC
*
105582352 CCAGACATGGTCTTACACAAAATCAGATACGATGCCGATGTC
1 CCAGACATGGACTTACACAAAATCAGATACGATGCCGATGTC
105582394 CCAGACATGG
1 CCAGACATGG
105582404 TTTTACATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (42 bp):
CCAGACATGGACTTACACAAAATCAGATACGATGCCGATGTC
Found at i:105582404 original size:42 final size:42
Alignment explanation
Indices: 105582321--105582410 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
105582311 CAGACAGCGA
* * *
105582321 CTTACACGAAATCAGATACGATGCCGATTTTCCAGACATGGT
1 CTTACACAAAATCAGATACGATGCCGATGTCCCAGACATGGT
105582363 CTTACACAAAATCAGATACGATGCCGATGTCCCAGACATGGT
1 CTTACACAAAATCAGATACGATGCCGATGTCCCAGACATGGT
*
105582405 TTTACA
1 CTTACA
105582411 TGTAAATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
CTTACACAAAATCAGATACGATGCCGATGTCCCAGACATGGT
Found at i:105585422 original size:22 final size:22
Alignment explanation
Indices: 105585397--105585440 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
105585387 AGTGTAAAGA
105585397 ATGTCAGTTCTGAACTATGTTT
1 ATGTCAGTTCTGAACTATGTTT
105585419 ATGTCAGTTCTGAACTATGTTT
1 ATGTCAGTTCTGAACTATGTTT
105585441 CGATATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (22 bp):
ATGTCAGTTCTGAACTATGTTT
Found at i:105589076 original size:31 final size:31
Alignment explanation
Indices: 105589038--105589101 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
105589028 CCTTTTCATA
105589038 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
105589069 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
105589100 TT
1 TT
105589102 ATTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:105589339 original size:24 final size:24
Alignment explanation
Indices: 105589307--105589387 Score: 121
Period size: 23 Copynumber: 3.4 Consensus size: 24
105589297 CTAGAGGCCT
105589307 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTTAATAACTGGGG-CATA
*
105589332 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
105589356 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
105589379 AGCCCTTTT
1 AGCCCTTTT
105589388 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.47
24 24 0.45
25 4 0.08
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:105589463 original size:20 final size:20
Alignment explanation
Indices: 105589438--105589497 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
105589428 TATGATTACC
105589438 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
105589458 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
105589478 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
105589498 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105589572 original size:25 final size:25
Alignment explanation
Indices: 105589540--105589587 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105589530 ATACATAAAC
* * *
105589540 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105589565 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105589588 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105592684 original size:48 final size:47
Alignment explanation
Indices: 105592608--105592844 Score: 233
Period size: 48 Copynumber: 4.9 Consensus size: 47
105592598 ATTTGGGTGA
* * * *
105592608 TATGCGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAT
1 TATGAGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CAAAT
* * ** *
105592656 TATGTGTGCTAGTGTAAGACCATGTTTGGAACATGGCATCCCCAATGT
1 TATGAGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA-AT
* * * *
105592704 TATGAGAGCCAGTGTAAGACCATATTTGGAATATAGCATCGGCAAAAT
1 TATGAGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC-AAAT
* ** *
105592752 GTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAATGT
1 -TATGAGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA-AT
* * *
105592801 TATGAGAT-CCAGAGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TATGAG-TGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
105592845 TTGAGACAAG
Statistics
Matches: 157, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 114 0.73
49 41 0.26
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (47 bp):
TATGAGTGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAAAT
Found at i:105592788 original size:97 final size:96
Alignment explanation
Indices: 105592618--105592844 Score: 292
Period size: 97 Copynumber: 2.4 Consensus size: 96
105592608 TATGCGTGCT
* * * * * * * *
105592618 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGTGTGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATATTTGGAACATAGCATCGGCAAAATTATGAGAGCCAGTGTAAGACCATGTTT
**
105592683 GGAACATGGCATCCCCAATGTTATGAGAGCC
66 GGAACATGGCATCAACAATGTTATGAGAGCC
*
105592714 AGTGTAAGACCATATTTGGAATATAGCATCGGCAAAATGTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATATTTGGAACATAGCATCGGCAAAAT-TATGAGAGCCAGTGTAAGACCATGTT
*
105592779 TGGAACATGGCATCAACAATGTTATGAGATCC
65 TGGAACATGGCATCAACAATGTTATGAGAGCC
* * * * *
105592811 AGAGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATATTTGGAACATAGCATCGGCA
105592845 TTGAGACAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
96 32 0.29
97 80 0.71
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATATTTGGAACATAGCATCGGCAAAATTATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCAACAATGTTATGAGAGCC
Found at i:105596893 original size:16 final size:17
Alignment explanation
Indices: 105596872--105596905 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
105596862 ATTTATCAGC
*
105596872 TTATTTT-ATTTTTTTA
1 TTATTTTAAATTTTTTA
105596888 TTATTTTAAATTTTTTA
1 TTATTTTAAATTTTTTA
105596905 T
1 T
105596906 AATTATTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTAAATTTTTTA
Found at i:105599720 original size:25 final size:25
Alignment explanation
Indices: 105599691--105599738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105599681 TTATAATATG
* * *
105599691 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
105599716 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
105599739 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:105599807 original size:20 final size:20
Alignment explanation
Indices: 105599782--105599840 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
105599772 TAAATATGGT
105599782 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
105599802 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
105599822 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
105599841 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:105599822 original size:11 final size:11
Alignment explanation
Indices: 105599786--105599840 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
105599776 TATGGTATGT
105599786 ATGATATGCAC
1 ATGATATGCAC
* *
105599797 ATGAAATG--T
1 ATGATATGCAC
105599806 ATGATATGCAC
1 ATGATATGCAC
*
105599817 ATGATATG--T
1 ATGATATGCAC
105599826 ATGATATGCAC
1 ATGATATGCAC
105599837 ATGA
1 ATGA
105599841 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:105599918 original size:24 final size:24
Alignment explanation
Indices: 105599891--105600042 Score: 153
Period size: 24 Copynumber: 6.0 Consensus size: 24
105599881 GAGGAAGTGA
*
105599891 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
105599915 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
105599939 AAAAGGGCTTATGCCCAAAAGGGCTTATAGTT
1 AAAAGGGCTTATGCCC--CA--G--T-TA-TT
105599971 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
105599995 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
105600019 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
105600043 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
24 72 0.65
25 13 0.12
26 2 0.02
28 2 0.02
30 2 0.02
31 2 0.02
32 17 0.15
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:105599959 original size:16 final size:16
Alignment explanation
Indices: 105599938--105599986 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
105599928 CCCCAGTTAT
105599938 CAAAAGGGCTTATGCC
1 CAAAAGGGCTTATGCC
*
105599954 CAAAAGGGCTTATAG-T
1 CAAAAGGGCTTAT-GCC
*
105599970 TAAAAGGGCTTATGCC
1 CAAAAGGGCTTATGCC
105599986 C
1 C
105599987 CAGTTATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (16 bp):
CAAAAGGGCTTATGCC
Found at i:105600269 original size:31 final size:31
Alignment explanation
Indices: 105600234--105600297 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
105600224 CGTTTACAGT
105600234 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
105600265 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
105600296 AA
1 AA
105600298 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:105607480 original size:25 final size:25
Alignment explanation
Indices: 105607452--105607499 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105607442 TTATAATATG
* * *
105607452 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
105607477 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
105607500 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:105607568 original size:20 final size:20
Alignment explanation
Indices: 105607543--105607601 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
105607533 TAAATATGGT
105607543 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
105607563 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
105607583 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
105607602 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:105607583 original size:11 final size:11
Alignment explanation
Indices: 105607547--105607601 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
105607537 TATGGTATGT
105607547 ATGATATGCAC
1 ATGATATGCAC
* *
105607558 ATGAAATG--T
1 ATGATATGCAC
105607567 ATGATATGCAC
1 ATGATATGCAC
*
105607578 ATGATATG--T
1 ATGATATGCAC
105607587 ATGATATGCAC
1 ATGATATGCAC
105607598 ATGA
1 ATGA
105607602 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:105607679 original size:24 final size:24
Alignment explanation
Indices: 105607652--105607841 Score: 296
Period size: 24 Copynumber: 8.0 Consensus size: 24
105607642 GAGGAAGTGA
105607652 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
105607676 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
105607700 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
105607723 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
105607747 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
105607770 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
105607794 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
105607818 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
105607842 ATGATAAAGC
Statistics
Matches: 157, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 46 0.29
24 100 0.64
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:105607728 original size:47 final size:48
Alignment explanation
Indices: 105607652--105607841 Score: 296
Period size: 47 Copynumber: 4.0 Consensus size: 48
105607642 GAGGAAGTGA
105607652 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
105607700 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
*
105607747 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
* * * *
105607794 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
105607842 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
47 91 0.68
48 32 0.24
49 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
Found at i:105607768 original size:71 final size:71
Alignment explanation
Indices: 105607652--105607842 Score: 296
Period size: 71 Copynumber: 2.7 Consensus size: 71
105607642 GAGGAAGTGA
105607652 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCC
105607716 AGTTATC
65 AGTTATC
105607723 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
*
105607788 GTTATT
66 GTTATC
* * * *
105607794 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTATA
105607843 TGATAAAGCA
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
70 13 0.12
71 87 0.78
72 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCA
GTTATC
Found at i:105608068 original size:31 final size:31
Alignment explanation
Indices: 105608033--105608127 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
105608023 CGTTTACAGT
105608033 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
105608064 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
105608095 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
105608126 AA
1 AA
105608128 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:105610033 original size:2 final size:2
Alignment explanation
Indices: 105610026--105610052 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105610016 GAGACTAGTC
105610026 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
105610053 CATGTCATGA
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:105611270 original size:67 final size:64
Alignment explanation
Indices: 105611132--105611315 Score: 210
Period size: 67 Copynumber: 2.8 Consensus size: 64
105611122 ATATAGTTTG
* * * * * * *
105611132 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
* * *
105611195 GCTCTCTTGTCTACATGGTGTCCTTCACATGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
105611260 TA
63 TA
* *
105611262 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
105611316 CATAATGTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.29
66 23 0.23
67 30 0.30
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:105612083 original size:30 final size:30
Alignment explanation
Indices: 105612049--105612109 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
105612039 TCCTTAACTC
105612049 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
105612079 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
105612109 A
1 A
105612110 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:105614473 original size:12 final size:13
Alignment explanation
Indices: 105614436--105614475 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
105614426 TTATTCTATT
* *
105614436 TTATTTATCTTAG
1 TTATTTATTTTAA
105614449 TTATTTATTTTAA
1 TTATTTATTTTAA
105614462 TTATTT-TTTTAA
1 TTATTTATTTTAA
105614474 TT
1 TT
105614476 TTCTATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (13 bp):
TTATTTATTTTAA
Found at i:105620491 original size:25 final size:25
Alignment explanation
Indices: 105620457--105620613 Score: 248
Period size: 25 Copynumber: 6.2 Consensus size: 25
105620447 CATGAAATTC
105620457 TTATCATGAAACATTTACCTAACC-A
1 TTATCATG-AACATTTACCTAACCTA
*
105620482 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
105620508 TTATCATGAACATTTACCTAACC-A
1 TTATCATGAACATTTACCTAACCTA
105620532 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
105620558 TTATCATGGAACATTTA-CTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
105620583 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
105620608 TTATCA
1 TTATCA
105620614 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
24 17 0.13
25 84 0.66
26 27 0.21
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:105621810 original size:30 final size:30
Alignment explanation
Indices: 105621776--105621836 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
105621766 TCCTTAACTC
105621776 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
105621806 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
105621836 A
1 A
105621837 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:105630452 original size:26 final size:26
Alignment explanation
Indices: 105630416--105630575 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
105630406 TGATACAAAT
*
105630416 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105630442 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105630468 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105630494 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105630520 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
105630546 TGATAAT--GTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105630570 TGATAA
1 TGATAA
105630576 GAATTTCATG
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
24 23 0.18
26 108 0.82
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:105635098 original size:17 final size:18
Alignment explanation
Indices: 105635076--105635109 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
105635066 TTTGTCACTA
105635076 AAAAAATATAA-AAATAT
1 AAAAAATATAAGAAATAT
*
105635093 AAAAAATTTAAGAAATA
1 AAAAAATATAAGAAATA
105635110 AGATTGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAGAAATAT
Found at i:105636572 original size:13 final size:13
Alignment explanation
Indices: 105636546--105636585 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
105636536 TCAAATAGAA
105636546 AATTAAAA-AAAT
1 AATTAAAATAAAT
105636558 AATTAAAATAAAT
1 AATTAAAATAAAT
* *
105636571 AACTAAGATAAAT
1 AATTAAAATAAAT
105636584 AA
1 AA
105636586 AATAGAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AATTAAAATAAAT
Found at i:105639726 original size:64 final size:64
Alignment explanation
Indices: 105639622--105639826 Score: 218
Period size: 66 Copynumber: 3.2 Consensus size: 64
105639612 CATCATGTGT
* * *
105639622 ACAAGAGAGCTACAAGACATTAGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTAC--GAGA-TAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
105639687 AG
63 AG
* * * * * * *
105639689 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTA
105639754 G
64 G
* * *
105639755 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
105639816 TACAAGAGAGC
1 -ACAAGAGAGC
105639827 CAAACTATGA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.16
63 1 0.01
64 26 0.22
65 24 0.21
66 32 0.28
67 13 0.11
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:105642828 original size:31 final size:31
Alignment explanation
Indices: 105642790--105642883 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
105642780 CCCTTTTCTA
*
105642790 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105642821 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105642852 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
105642882 TT
1 TT
105642884 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 13 0.21
31 49 0.79
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:105643224 original size:23 final size:24
Alignment explanation
Indices: 105643073--105643243 Score: 211
Period size: 24 Copynumber: 7.0 Consensus size: 24
105643063 GCTTTATCAT
* * *
105643073 ATAACTGAGGCCT-AGCCTCTTTTA
1 ATAACTGGGGCATAAGCC-CTTTTG
* **
105643097 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
*
105643121 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
105643145 ACTAACATAATGGGGCATAAGCCCTTTTG
1 A-TAAC----TGGGGCATAAGCCCTTTTG
105643174 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105643198 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
105643221 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
105643244 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
23 23 0.17
24 79 0.59
25 8 0.06
28 4 0.03
29 19 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:105643336 original size:18 final size:20
Alignment explanation
Indices: 105643293--105643349 Score: 93
Period size: 18 Copynumber: 3.0 Consensus size: 20
105643283 TATGATTACC
105643293 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
105643313 TCATGTGCATA-CATACAT-
1 TCATGTGCATATCATACATA
105643331 TCATGTGCATATCAT-CATA
1 TCATGTGCATATCATACATA
105643350 CCATATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 14 0.40
19 10 0.29
20 11 0.31
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:105643424 original size:25 final size:25
Alignment explanation
Indices: 105643392--105643439 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
105643382 ATACATAAAC
* * *
105643392 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
105643417 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
105643440 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:105645882 original size:68 final size:66
Alignment explanation
Indices: 105645810--105645981 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
105645800 CATCATGTGT
* * * *
105645810 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
105645873 TGTAG
62 TGTAG
** * *
105645878 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
105645943 AG
65 AG
* * * *
105645945 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
105645982 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:105645915 original size:64 final size:64
Alignment explanation
Indices: 105645834--105646017 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
105645824 AGACATTATG
* * *
105645834 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
105645898 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
105645963 AA
63 AA
* * *
105645965 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
105646018 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:105657889 original size:16 final size:18
Alignment explanation
Indices: 105657856--105657889 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
105657846 TCAGGCTGTA
105657856 TCAGAACAAGAGCTTGAG
1 TCAGAACAAGAGCTTGAG
105657874 TCAGAAC-AGA-CTTGAG
1 TCAGAACAAGAGCTTGAG
105657890 CTTCTCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (18 bp):
TCAGAACAAGAGCTTGAG
Found at i:105661655 original size:13 final size:13
Alignment explanation
Indices: 105661639--105661663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105661629 ATCCCACCCC
105661639 AAAATAGATACAA
1 AAAATAGATACAA
105661652 AAAATAGATACA
1 AAAATAGATACA
105661664 GAATTTACAG
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAATAGATACAA
Found at i:105663673 original size:16 final size:16
Alignment explanation
Indices: 105663652--105663684 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
105663642 AATTAGGATT
105663652 TAAATAAAAAATCTTA
1 TAAATAAAAAATCTTA
*
105663668 TAAATAAAAAATTTTA
1 TAAATAAAAAATCTTA
105663684 T
1 T
105663685 TTACAGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATAAAAAATCTTA
Found at i:105669418 original size:21 final size:21
Alignment explanation
Indices: 105669378--105669418 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
105669368 CTTTGATAAC
*
105669378 AAGTTACAAAGAAACTAAATT
1 AAGTTACAAAGAAACAAAATT
* *
105669399 AAGTTACATAGTAACAAAAT
1 AAGTTACAAAGAAACAAAAT
105669419 GAACAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGTTACAAAGAAACAAAATT
Found at i:105673662 original size:48 final size:48
Alignment explanation
Indices: 105673591--105673774 Score: 289
Period size: 48 Copynumber: 3.8 Consensus size: 48
105673581 CGGCCACGAT
* * **
105673591 ATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGACCACATC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATC
* *
105673639 ATGAGAGCCAGTTTAAGACCATGTCTGGGACATGGCATCGACCATATC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATC
*
105673687 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCCATC-AGCCACATC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACATC
105673735 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
105673775 GCATTGAGAC
Statistics
Matches: 124, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
47 1 0.01
48 123 0.99
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATC
Found at i:105673796 original size:96 final size:95
Alignment explanation
Indices: 105673593--105673822 Score: 286
Period size: 96 Copynumber: 2.4 Consensus size: 95
105673583 GCCACGATAT
* * ** *
105673593 GAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGACCACATCATGAGAGCCAGTTTAAGAC
1 GAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTGTAAGAC
*
105673658 CATGTCTGGGACATGGCATCGACCATATCA
66 CATGTCTGGGACATGGCATCGACCATAACA
* * *
105673688 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGCCATC-AGCCACATCATGAGAGCCAGTGTAAG
1 -GAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACATCATGAGAGCCAGTGTAAG
*
105673752 ACCATGTCTGGGACATGGCATCG-GCATTGAGACA
64 ACCATGTCTGGGACATGGCATCGACCA-T-A-ACA
* *
105673786 -AGAACTAGTGTAAGACAATGTCTAGGACATGGCATCG
1 GAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCG
105673823 GCCTCGACAA
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
95 3 0.03
96 110 0.95
97 1 0.01
98 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.21
Consensus pattern (95 bp):
GAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCGACCATAACA
Found at i:105673846 original size:48 final size:48
Alignment explanation
Indices: 105673593--105673854 Score: 253
Period size: 48 Copynumber: 5.5 Consensus size: 48
105673583 GCCACGATAT
* * ** * * *
105673593 GAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGACCACATCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATCAA
* * *
105673641 GAGAGCCAGTTTAAGACCATGTCTGGGACATGGCATCGACCAT-ATCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCATCAA
* * * *
105673689 GAGAGCCAGTGTAAGACCATGTCTGGGACATGCCATCAGCCACATCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATCAA
* * *
105673737 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-TCAA
* * *
105673787 GA-A-CTAGTGTAAGACAATGTCTAGGACATGGCATCGGCCTCGA-CAA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATCAA
* * *
105673833 GTGAGCCATTGTAAGACTATGT
1 GAGAGCCAGTGTAAGACCATGT
105673855 TTGGAAGATG
Statistics
Matches: 180, Mismatches: 27, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
46 4 0.02
47 2 0.01
48 168 0.93
49 2 0.01
50 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATCAA
Found at i:105678991 original size:26 final size:26
Alignment explanation
Indices: 105678954--105679011 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
105678944 TGATACAAGT
105678954 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105678980 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105679006 TGATAA
1 TGATAA
105679012 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:105681832 original size:11 final size:10
Alignment explanation
Indices: 105681810--105681839 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
105681800 TCTGTAAGTA
105681810 TTCTGAATTT
1 TTCTGAATTT
105681820 TTCTGAATATT
1 TTCTGAAT-TT
105681831 TTCTGAATT
1 TTCTGAATT
105681840 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:105684710 original size:26 final size:26
Alignment explanation
Indices: 105684673--105684756 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105684663 TGATACAAAT
* *
105684673 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105684699 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105684725 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105684751 TGATAA
1 TGATAA
105684757 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105689615 original size:25 final size:26
Alignment explanation
Indices: 105689541--105689623 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
105689531 GTCTTGATAT
105689541 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
* *
105689567 AAGGCTCTTTGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
* *
105689593 ATGGCTCTCCG-GAGCTTCTCGA-TA
1 ATGGCTCTTCGTGAGCTTCCCGATTA
*
105689617 TTGGCTC
1 ATGGCTC
105689624 ACTTAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 8 0.16
25 10 0.20
26 32 0.64
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.34
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCCCGATTA
Found at i:105698939 original size:23 final size:22
Alignment explanation
Indices: 105698882--105698939 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
105698872 AATGTACTAT
* *
105698882 ATTAAAATG-AAA-AAAATTAA
1 ATTAAATTGTAAATAAAATAAA
*
105698902 ATTAAATTGTGAATAAAATAAA
1 ATTAAATTGTAAATAAAATAAA
*
105698924 ATTTAATATGTAAATA
1 ATTAAAT-TGTAAATA
105698940 CATTAGACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
22 13 0.43
23 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
ATTAAATTGTAAATAAAATAAA
Found at i:105699480 original size:294 final size:294
Alignment explanation
Indices: 105698948--105699567 Score: 693
Period size: 294 Copynumber: 2.1 Consensus size: 294
105698938 TACATTAGAC
* * * * *
105698948 TATGCATAATGCAATTAAAATGTAAATATTATATTAAATTAAAGTCATGGTTTAGTTGTAAAATT
1 TATGCATAATACAATTAAAATGTAAATATTATATTAAAATAAAGTCATAGTTCAGATGTAAAATT
* * * * *
105699013 GTTTAATTATTGTTAATAACTTGAGTTAAAATCCAATCATATACAATTTTCTATTTGTTTTTCAG
66 GTTT-ATTATTGTAAATAACATAAGTTAAAATCCAATCACATACAATTTTCTATTGGTTTTTCAG
* * * * * *
105699078 AAAGAGAAAGACTAAAAACTCTCGAATTATATAACTAATTTTAATTATTGAAAGACATTTTTGAA
130 AAAGAAAAAGAATAAAAACTCACAAATAATATAACTAATTTTAATTATTGAAAAACATTTTTGAA
*
105699143 ATTTTCCTAACTGAGTTGGTGCTCGATTAACTCATAACACCAACTTAGTTACGGGATTAAATAAT
195 ATTTTCCTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAG----GGGATTAAATAAT
* * * * *
105699208 AGTATA-A-ATAAATATATAATTGATGGATATTATAAAA
256 AGTATATAGATAAAGATACAATTGATAGAGATAATAAAA
* *
105699245 TATGCATAATACAATTAAAATGTATATATTATATTAAAATAAA-TCTTTAGTTCA-ATGATAAAA
1 TATGCATAATACAATTAAAATGTAAATATTATATTAAAATAAAGTC-ATAGTTCAGATG-TAAAA
* * * * *
105699308 TTG-TT-TTATTGTAAATAGCATAAGTTTAAATCTAATCACATACAATTTTTTATTGGTTTTT-T
64 TTGTTTATTATTGTAAATAACATAAGTTAAAATCCAATCACATACAATTTTCTATTGGTTTTTCA
* * * *
105699370 TAAATAAAAAGAATAAAATA-TCCACAAATAATATAAGTTATTTTAATTA-TGAAATAACATTTT
129 GAAAGAAAAAGAATAAAA-ACT-CACAAATAATATAACTAATTTTAATTATTGAAA-AACATTTT
* * * *
105699433 TGAAA-TTTCTCTAACTGAGTTGGTGCCCGGTTGACTCATGACACCAACTTAGGGGCTTAAATAA
191 TGAAATTTTC-CTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAGGGGATTAAATAA
* *
105699497 TAGTATATAGATATAGATACAATTGATAGAGATAATAAAG
255 TAGTATATAGATAAAGATACAATTGATAGAGATAATAAAA
* * *
105699537 TATGTATAATATAATTAAAATTTAAATATTA
1 TATGCATAATACAATTAAAATGTAAATATTA
105699568 AAATAAAGCT
Statistics
Matches: 272, Mismatches: 43, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
290 18 0.07
291 1 0.00
292 50 0.18
293 24 0.09
294 120 0.44
296 6 0.02
297 53 0.19
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (294 bp):
TATGCATAATACAATTAAAATGTAAATATTATATTAAAATAAAGTCATAGTTCAGATGTAAAATT
GTTTATTATTGTAAATAACATAAGTTAAAATCCAATCACATACAATTTTCTATTGGTTTTTCAGA
AAGAAAAAGAATAAAAACTCACAAATAATATAACTAATTTTAATTATTGAAAAACATTTTTGAAA
TTTTCCTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAGGGGATTAAATAATAGTAT
ATAGATAAAGATACAATTGATAGAGATAATAAAA
Found at i:105699671 original size:294 final size:289
Alignment explanation
Indices: 105699084--105699740 Score: 677
Period size: 294 Copynumber: 2.2 Consensus size: 289
105699074 TCAGAAAGAG
* * * * * * *
105699084 AAAGACTAAAA-ACTCTCGAATTATATAACTAATTTTAATTATTGAAAGACATTTTTGAAATTTT
1 AAAGAATAAAATACTCACAAATAATATAAGTTATTTTAATTA-TGAAATACATTTTTGAAATTTT
*
105699148 CCTAACTGAGTTGGTGCTCGATTAACTCATAACACCAACTTAGTTACGGGATTAAATAATAGTAT
65 CCTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAG-T--GGGATTAAATAATAGTAT
* * * * *
105699213 AAATAAATATATAATTGATGGATATTATAAAATATGCATAATACAATTAAAATGTATATATTATA
127 AAATAAAGATACAATTGATAGAGATAATAAAATATGCATAATACAATTAAAATGTATATA-TATA
* * *
105699278 TTAAAATAAATCTTTAGTTCAATGATAAAATTGTTTTATTGTAAATAGCATAAGTTTAAATCTAA
191 TTAAAATAAAGCTTTAGTTCAATGATAAAATTGTTTTATTATAAATAGCATAAGTTCAAATCTAA
* ** *
105699343 TCACATACAATTTTTTATTGGTTTTTTTAAATAA
256 TCACATAAAATTTTTTATTAATTTTTTAAAATAA
105699377 AAAGAATAAAATA-TCCACAAATAATATAAGTTATTTTAATTATGAAATAACATTTTTGAAA-TT
1 AAAGAATAAAATACT-CACAAATAATATAAGTTATTTTAATTATGAAAT-ACATTTTTGAAATTT
* * * *
105699440 TCTCTAACTGAGTTGGTGCCCGGTTGACTCATGACACCAACTTAG-GGGCTTAAATAATAGTATA
64 TC-CTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAGTGGGATTAAATAATAGTATA
* * * *
105699504 TAGATATAGATACAATTGATAGAGATAATAAAGTATGTATAATATAATTAAAAT-T-TA-A-ATA
128 -A-ATAAAGATACAATTGATAGAGATAATAAAATATGCATAATACAATTAAAATGTATATATATA
* * * * * **
105699565 TTAAAATAAAGCTTTCGATT-AGTGGTAAAATTTTTTTATTAATATATATATAGTATGGGTTCAA
191 TTAAAATAAAGCTTTAG-TTCAATGATAAAATTGTTTTA-T--TATA-A-ATAGCATAAGTTCAA
* *
105699629 ATCTAGTTACATATAAATTTTTTATTAATTTTTTAAAAATAA
250 ATCTAATCACATA-AAATTTTTTATTAATTTTTT-AAAATAA
* * * * * *
105699671 AAATACTAAAATACTCTCAAATAAT-TTAGCATATTTTAATTATGGAAATACATTTTTAAAATTT
1 AAAGAATAAAATACTCACAAATAATATAAG-TTATTTTAATTAT-GAAATACATTTTTGAAATTT
105699735 TCCTAA
64 TCCTAA
105699741 TCGAATTGGT
Statistics
Matches: 303, Mismatches: 43, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
287 33 0.11
288 3 0.01
289 1 0.00
290 23 0.08
291 3 0.01
292 64 0.21
293 40 0.13
294 126 0.42
295 10 0.03
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (289 bp):
AAAGAATAAAATACTCACAAATAATATAAGTTATTTTAATTATGAAATACATTTTTGAAATTTTC
CTAACTGAGTTGGTGCCCGATTAACTCATAACACCAACTTAGTGGGATTAAATAATAGTATAAAT
AAAGATACAATTGATAGAGATAATAAAATATGCATAATACAATTAAAATGTATATATATATTAAA
ATAAAGCTTTAGTTCAATGATAAAATTGTTTTATTATAAATAGCATAAGTTCAAATCTAATCACA
TAAAATTTTTTATTAATTTTTTAAAATAA
Found at i:105711338 original size:18 final size:19
Alignment explanation
Indices: 105711315--105711358 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
105711305 GGAAACAAAT
* *
105711315 AATAAAATAAG-CATTAAA
1 AATAAAATAAGAAATAAAA
*
105711333 AATAAACTAAGAAATAAAA
1 AATAAAATAAGAAATAAAA
105711352 AATAAAA
1 AATAAAA
105711359 AAGGAAATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AATAAAATAAGAAATAAAA
Found at i:105718108 original size:2 final size:2
Alignment explanation
Indices: 105718101--105718141 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
105718091 TTGATGGAAG
105718101 AT AT AT AT 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
105718142 CGAACGAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:105729678 original size:18 final size:18
Alignment explanation
Indices: 105729655--105729690 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105729645 TGTCAAAAGG
105729655 GAAAATCACATAAACTGT
1 GAAAATCACATAAACTGT
*
105729673 GAAAATTACATAAACTGT
1 GAAAATCACATAAACTGT
105729691 CTTTTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (18 bp):
GAAAATCACATAAACTGT
Found at i:105732354 original size:11 final size:11
Alignment explanation
Indices: 105732338--105732365 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
105732328 TGAGTTAGGT
105732338 TGTTATCATTA
1 TGTTATCATTA
105732349 TGTTATCATTA
1 TGTTATCATTA
105732360 TGTTAT
1 TGTTAT
105732366 ACAGTCTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (11 bp):
TGTTATCATTA
Found at i:105739945 original size:9 final size:9
Alignment explanation
Indices: 105739931--105739961 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
105739921 ATTGTATTTA
105739931 TCATCATCG
1 TCATCATCG
105739940 TCATCATCG
1 TCATCATCG
*
105739949 TCATCATCA
1 TCATCATCG
105739958 TCAT
1 TCAT
105739962 GCCATGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:105742024 original size:101 final size:101
Alignment explanation
Indices: 105741893--105742094 Score: 377
Period size: 101 Copynumber: 2.0 Consensus size: 101
105741883 AAACTAATGT
*
105741893 TTCTACCCAATGAGAACATTTACATATGCAAAACCAAGAGAATGAAATCAACTATTAACAATAAT
1 TTCTACCCAATGAGAACATTTAAATATGCAAAACCAAGAGAATGAAATCAACTATTAACAATAAT
105741958 ATGATCCATCTGTATCATTCAATGTAGCTTACCAAC
66 ATGATCCATCTGTATCATTCAATGTAGCTTACCAAC
* *
105741994 TTCTATCCAATGAGAACATTTAAATATGCAAAACCTAGAGAATGAAATCAACTATTAACAATAAT
1 TTCTACCCAATGAGAACATTTAAATATGCAAAACCAAGAGAATGAAATCAACTATTAACAATAAT
105742059 ATGATCCATCTGTATCATTCAATGTAGCTTACCAAC
66 ATGATCCATCTGTATCATTCAATGTAGCTTACCAAC
105742095 ACCAATCGAC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (101 bp):
TTCTACCCAATGAGAACATTTAAATATGCAAAACCAAGAGAATGAAATCAACTATTAACAATAAT
ATGATCCATCTGTATCATTCAATGTAGCTTACCAAC
Found at i:105746708 original size:102 final size:102
Alignment explanation
Indices: 105746532--105746735 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
105746522 AAGGTCTTAC
105746532 TAATAGAATTGGCATAAATTTAAATTTCACCATAAATATATTTTTAACATAACTTATTTTAAATA
1 TAATAGAATTGGCATAAATTTAAATTTCACCATAAATATATTTTTAACATAACTTATTTTAAATA
105746597 ATATATATTTGTAATTACACTAATTAGATTAACGTTT
66 ATATATATTTGTAATTACACTAATTAGATTAACGTTT
105746634 TAATAGAATTGGCATAAATTTAAATTTCACCATAAATATATTTTTAACATAACTTATTTTAAATA
1 TAATAGAATTGGCATAAATTTAAATTTCACCATAAATATATTTTTAACATAACTTATTTTAAATA
*
105746699 ATATATATTTGTAATTACACTAATTAGATTAATGTTT
66 ATATATATTTGTAATTACACTAATTAGATTAACGTTT
105746736 GATTAACTCG
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (102 bp):
TAATAGAATTGGCATAAATTTAAATTTCACCATAAATATATTTTTAACATAACTTATTTTAAATA
ATATATATTTGTAATTACACTAATTAGATTAACGTTT
Found at i:105748257 original size:53 final size:53
Alignment explanation
Indices: 105748173--105748278 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
105748163 AGTATGCATA
105748173 TAAAACAAGTGTACTGTATGTGAACTACCAGGTATCCTATGAGGTTTTTAGTT
1 TAAAACAAGTGTACTGTATGTGAACTACCAGGTATCCTATGAGGTTTTTAGTT
*
105748226 TAAAACAAGTGTACTGTATGTGAACTGCCAGGTATCCTATGAGGTTTTTAGTT
1 TAAAACAAGTGTACTGTATGTGAACTACCAGGTATCCTATGAGGTTTTTAGTT
105748279 CAACGCTCTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (53 bp):
TAAAACAAGTGTACTGTATGTGAACTACCAGGTATCCTATGAGGTTTTTAGTT
Found at i:105753158 original size:19 final size:20
Alignment explanation
Indices: 105753093--105753158 Score: 55
Period size: 24 Copynumber: 3.1 Consensus size: 20
105753083 ATATTATTTC
105753093 AATAATTTTAAAATTATTCTTAA
1 AATAA-TTTAAAATT-TTC-TAA
*
105753116 CAATAATTCTAAAATTTAT-AAA
1 -AATAATT-TAAAATTT-TCTAA
105753138 AATAA-TTAAAATTTTCTAA
1 AATAATTTAAAATTTTCTAA
105753157 AA
1 AA
105753159 AATCAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 1 0.03
19 12 0.32
20 1 0.03
21 5 0.14
22 2 0.05
23 3 0.08
24 13 0.35
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATTTAAAATTTTCTAA
Found at i:105753161 original size:21 final size:20
Alignment explanation
Indices: 105753100--105753159 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
105753090 TTCAATAATT
*
105753100 TTAAAATTATTCTTAACAATAA
1 TTAAAATT-TTC-TAAAAATAA
*
105753122 TTCTAAAA-TTTATAAAAATAA
1 -T-TAAAATTTTCTAAAAATAA
105753143 TTAAAATTTTCTAAAAA
1 TTAAAATTTTCTAAAAA
105753160 ATCAATTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 8 0.25
22 2 0.06
23 2 0.06
24 5 0.16
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAATTTTCTAAAAATAA
Found at i:105753176 original size:22 final size:21
Alignment explanation
Indices: 105753100--105753168 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
105753090 TTCAATAATT
* *
105753100 TTAAAATTATTCTTAACAATAA
1 TTAAAATT-TTCTAAAAAATAA
*
105753122 TTCTAAAA-TTTAT-AAAAATAA
1 -T-TAAAATTTTCTAAAAAATAA
105753143 TTAAAATTTTCTAAAAAATCAA
1 TTAAAATTTTCTAAAAAAT-AA
105753165 TTAA
1 TTAA
105753169 GTTCTTCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 5 0.13
20 5 0.13
21 13 0.33
22 9 0.23
23 2 0.05
24 5 0.13
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATTTTCTAAAAAATAA
Found at i:105753686 original size:19 final size:20
Alignment explanation
Indices: 105753653--105753691 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
105753643 TTTTTAAGTT
105753653 AATTTCTAATAATTTTTATA
1 AATTTCTAATAATTTTTATA
*
105753673 AATTT-TAATTATTTTTATA
1 AATTTCTAATAATTTTTATA
105753692 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTCTAATAATTTTTATA
Found at i:105758221 original size:43 final size:44
Alignment explanation
Indices: 105758108--105758222 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 44
105758098 TGTAATTTTG
* *
105758108 TGTAAGACCACGTCTGGTACGTTGGCATCGATTTATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTACA
* * *
105758152 TGTAAGACC-CTGTCTAGGATAGTGGCATCGATTGT-TGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATT-TATGATTTACA
*
105758195 TGTAAGACCACGTTTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
105758223 TGTATGAGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 28 0.47
44 30 0.51
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTATGATTTACA
Found at i:105760440 original size:33 final size:33
Alignment explanation
Indices: 105760398--105760465 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
105760388 AAACACGAGA
105760398 CTAAAGAATTCAAAGACACTGTTGATGACGATG
1 CTAAAGAATTCAAAGACACTGTTGATGACGATG
*
105760431 CTAAAGAATTTAAAGACACTGTTGATGACGATG
1 CTAAAGAATTCAAAGACACTGTTGATGACGATG
105760464 CT
1 CT
105760466 GAGCGAGCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (33 bp):
CTAAAGAATTCAAAGACACTGTTGATGACGATG
Found at i:105763751 original size:20 final size:22
Alignment explanation
Indices: 105763718--105763761 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
105763708 AATAACAACC
*
105763718 AAAACAAAGTAAACCAAC-AAA
1 AAAACAAAGCAAACCAACTAAA
*
105763739 AAAACAAA-CAAACTAACTAAA
1 AAAACAAAGCAAACCAACTAAA
105763760 AA
1 AA
105763762 TCTATGTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.73, C:0.18, G:0.02, T:0.07
Consensus pattern (22 bp):
AAAACAAAGCAAACCAACTAAA
Found at i:105763760 original size:21 final size:21
Alignment explanation
Indices: 105763718--105763761 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
105763708 AATAACAACC
*
105763718 AAAACAAAGTAAACCAACAAA
1 AAAACAAAGCAAACCAACAAA
* *
105763739 AAAACAAA-CAAACTAACTAA
1 AAAACAAAGCAAACCAACAAA
105763759 AAA
1 AAA
105763762 TCTATGTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.73, C:0.18, G:0.02, T:0.07
Consensus pattern (21 bp):
AAAACAAAGCAAACCAACAAA
Found at i:105766551 original size:22 final size:21
Alignment explanation
Indices: 105766525--105766574 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
105766515 TGTATGTAGA
105766525 GTCACAACATC-AATCTGTACGG
1 GTCACAACATCGAA-CTGTAC-G
* *
105766547 GTCACAGCATCGAACTTTACG
1 GTCACAACATCGAACTGTACG
105766568 GTCACAA
1 GTCACAA
105766575 TATTAAGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
GTCACAACATCGAACTGTACG
Found at i:105768075 original size:55 final size:53
Alignment explanation
Indices: 105767988--105768242 Score: 195
Period size: 55 Copynumber: 4.8 Consensus size: 53
105767978 ATTAAGGTTT
* *
105767988 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
105768043 AAGGAAATCATGCAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
105768098 AAAGG-TCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
105768151 AAGGATA-CTATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATATC-ATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* * * * *
105768200 AAGGTTACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATATCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
105768243 GTACCCGCAT
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 8 0.05
53 37 0.23
54 12 0.07
55 66 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:105768169 original size:53 final size:54
Alignment explanation
Indices: 105767988--105768195 Score: 221
Period size: 55 Copynumber: 3.9 Consensus size: 54
105767978 ATTAAGGTTT
* *
105767988 AAGGATAC-CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACTCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
105768043 AAGGA-AATCATGCAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACTCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* *
105768098 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACTCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
105768151 AAGGATACT-ATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACTCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
105768196 TCAAAAGGTT
Statistics
Matches: 128, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
52 6 0.05
53 41 0.32
54 11 0.09
55 66 0.52
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACTCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:105768194 original size:108 final size:110
Alignment explanation
Indices: 105767996--105768195 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
105767986 TTAAGGATAC
105767996 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGCAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGCAAGAC
*
105768061 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
* * * *
105768106 CATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATA-CTATGTAAG
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAATC-ATGCAAG
* *
105768167 ACCATGTCGAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
105768196 TCAAAAGGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 4 0.05
108 45 0.56
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGCAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:105775736 original size:53 final size:53
Alignment explanation
Indices: 105775557--105775811 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
105775547 ATTAGGGTTT
* *
105775557 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
105775612 AAGGAAATCATGCAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
105775667 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
105775720 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * * *
105775769 AAGGTTACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
105775812 GTACCCGCAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 8 0.05
53 43 0.26
54 8 0.05
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:105775763 original size:108 final size:110
Alignment explanation
Indices: 105775564--105775764 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
105775554 TTTAAGGATA
*
105775564 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGCAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGCAAGA
*
105775629 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
105775674 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGCAAG
* *
105775736 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
105775765 TCAAAAGGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGCAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:105779872 original size:2 final size:2
Alignment explanation
Indices: 105779865--105779899 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
105779855 GAAGAGAAAG
105779865 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 T
105779900 GAACACTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105784462 original size:22 final size:21
Alignment explanation
Indices: 105784436--105784480 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
105784426 ATCTTAAATT
*
105784436 ATATAAAAAAAACATTTTTAAA
1 ATATAAAAAAAA-ATTTATAAA
* *
105784458 ATATACAACAAAATTTATAAA
1 ATATAAAAAAAAATTTATAAA
105784479 AT
1 AT
105784481 TATTGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
ATATAAAAAAAAATTTATAAA
Found at i:105784591 original size:9 final size:9
Alignment explanation
Indices: 105784559--105784597 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
105784549 GCATTTTTCT
105784559 TTTTTATAA
1 TTTTTATAA
*
105784568 TTTTTTTAA
1 TTTTTATAA
*
105784577 TGTTTATAA
1 TTTTTATAA
105784586 TTTTTAT-A
1 TTTTTATAA
105784594 TTTT
1 TTTT
105784598 AAAATACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTTATAA
Found at i:105785811 original size:4 final size:4
Alignment explanation
Indices: 105785802--105785827 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
105785792 CTTTTATATT
105785802 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
105785828 CCTTCAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:105792211 original size:65 final size:67
Alignment explanation
Indices: 105792092--105792218 Score: 170
Period size: 65 Copynumber: 1.9 Consensus size: 67
105792082 AAATGCCGCT
* *
105792092 AAAGGTATAACAACAATAGCGATGTTTTTCCTATAAACGCCACAAAAGGTAAAGCAA-AACGTCG
1 AAAGGTATAAAAACAATAGCGATGTTTTTACTATAAACGCCACAAAAGGTAAAGCAATAACGTCG
105792156 CA
66 CA
* * * *
105792158 AAAGGT-TAAAAACGATAGCGGTG-TTTTACTAATAAACGCCGCTAAAGGTAAAGCAATAACG
1 AAAGGTATAAAAACAATAGCGATGTTTTTACT-ATAAACGCCACAAAAGGTAAAGCAATAACG
105792219 GCATTTTGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 6 0.11
65 37 0.70
66 10 0.19
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.20
Consensus pattern (67 bp):
AAAGGTATAAAAACAATAGCGATGTTTTTACTATAAACGCCACAAAAGGTAAAGCAATAACGTCG
CA
Found at i:105794210 original size:13 final size:12
Alignment explanation
Indices: 105794161--105794209 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
105794151 TTTAAACTAA
*
105794161 ACTTTTCAAAAT
1 ACTTTTCAAAAC
*
105794173 ACTTTTTCACAAC
1 AC-TTTTCAAAAC
105794186 ACTTTTCAAAAGC
1 ACTTTTCAAAA-C
105794199 ACTTTTCAAAA
1 ACTTTTCAAAA
105794210 GTATTGCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (12 bp):
ACTTTTCAAAAC
Found at i:105804733 original size:5 final size:5
Alignment explanation
Indices: 105804718--105804747 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
105804708 CCCTTATTTC
*
105804718 CTTTT CCTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
105804748 TTGTTTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:105804743 original size:15 final size:15
Alignment explanation
Indices: 105804704--105804747 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
105804694 TCTCTCTCTT
* * *
105804704 TTTTCCCTTATTTCC
1 TTTTCCTTTCTTTTC
105804719 TTTTCCTTTCTTTTC
1 TTTTCCTTTCTTTTC
*
105804734 TTTTCTTTTCTTTT
1 TTTTCCTTTCTTTT
105804748 TTGTTTTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCCTTTCTTTTC
Found at i:105808417 original size:15 final size:14
Alignment explanation
Indices: 105808385--105808463 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 14
105808375 CACATAATGT
*
105808385 TTATATATCTTTATA
1 TTATATAT-TATATA
105808400 TTATATATTATATAA
1 TTATATATTATAT-A
*
105808415 TTATTTTATTATACATTA
1 TTA-TATATTAT--A-TA
*
105808433 TTTTATATTAT-TA
1 TTATATATTATATA
*
105808446 TTATTTATTATATA
1 TTATATATTATATA
105808460 TTAT
1 TTAT
105808464 TTTTTACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 11 0.21
14 10 0.19
15 12 0.23
16 7 0.13
17 7 0.13
18 4 0.08
19 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:105808418 original size:20 final size:18
Alignment explanation
Indices: 105808398--105808463 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 18
105808388 TATATCTTTA
105808398 TATTATATATTATATAA-T
1 TATT-TATATTATATAATT
*
105808416 TATTT-TATTATA-CA-T
1 TATTTATATTATATAATT
*
105808431 TATTTTATATTATTATTATT
1 TA-TTTATATTA-TATAATT
105808451 TATTATATATTAT
1 TATT-TATATTAT
105808464 TTTTTACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
15 4 0.10
16 10 0.25
17 6 0.15
18 6 0.15
19 4 0.10
20 10 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTATATAATT
Found at i:105808433 original size:30 final size:29
Alignment explanation
Indices: 105808399--105808497 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 29
105808389 ATATCTTTAT
105808399 ATTATATATTATATAATTATTTTATTATAC
1 ATTAT-TATTATATAATTATTTTATTATAC
* *
105808429 ATTATT-TTATATTATTATTATTTATTATAT
1 ATTATTATTATATAATTA-T-TTTATTATAC
* * * *
105808459 ATTATT-TTTTACAAACTATTATTATTTTAC
1 ATTATTATTATA-TAATTATT-TTATTATAC
105808489 ATTATTATT
1 ATTATTATT
105808498 TACATATTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
28 10 0.18
29 3 0.05
30 38 0.68
31 5 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTATTATTATATAATTATTTTATTATAC
Found at i:105808464 original size:20 final size:20
Alignment explanation
Indices: 105808396--105808464 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
105808386 TATATATCTT
*
105808396 TATATTATATATTATATAATTA
1 TATATTAT-TATTAT-TTATTA
* *
105808418 T-T-TTATTA-TACATTATTT
1 TATATTATTATTA-TTTATTA
105808436 TATATTATTATTATTTATTA
1 TATATTATTATTATTTATTA
105808456 TATATTATT
1 TATATTATT
105808465 TTTTACAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 24 0.63
21 3 0.08
22 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATTATTATTTATTA
Found at i:105808464 original size:23 final size:24
Alignment explanation
Indices: 105808336--105808464 Score: 81
Period size: 23 Copynumber: 5.4 Consensus size: 24
105808326 ATTAATTAAC
*
105808336 ATATATCATTACTTATTATTTATTAT
1 ATATAT-ATTA-TTATTATATATTAT
* * * *
105808362 A-ATATATTTTTATCACATAATGTTT
1 ATATATATTATTATTATAT-AT-TAT
*
105808387 ATATATCTT-TATATTATATATTAT
1 ATATATATTAT-TATTATATATTAT
*
105808411 ATA-ATTATT-TTATTATACATTAT
1 ATATA-TATTATTATTATATATTAT
* *
105808434 -TTTATATTATTATTATTTATTAT
1 ATATATATTATTATTATATATTAT
105808457 ATAT-TATT
1 ATATATATT
105808465 TTTTACAAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
22 5 0.06
23 36 0.45
24 16 0.20
25 10 0.12
26 13 0.16
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.59
Consensus pattern (24 bp):
ATATATATTATTATTATATATTAT
Found at i:105808494 original size:13 final size:13
Alignment explanation
Indices: 105808476--105808508 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
105808466 TTTACAAACT
105808476 ATTATTATTTTAC
1 ATTATTATTTTAC
105808489 ATTATTA-TTTAC
1 ATTATTATTTTAC
105808501 A-TATTATT
1 ATTATTATT
105808509 ATTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 7 0.37
13 7 0.37
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:105808500 original size:30 final size:30
Alignment explanation
Indices: 105808444--105808513 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
105808434 TTTATATTAT
* *
105808444 TATTATTTATTATATATTATTTTTTACAAAC
1 TATTA-TTATTATACATTATTATTTACAAAC
* * *
105808475 TATTATTATTTTACATTATTATTTACATAT
1 TATTATTATTATACATTATTATTTACAAAC
105808505 TATTATTAT
1 TATTATTAT
105808514 ATTTTTACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTATTATTATACATTATTATTTACAAAC
Found at i:105808932 original size:17 final size:17
Alignment explanation
Indices: 105808912--105808974 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
105808902 TCTAAACCAT
*
105808912 TATATTTTATATTTTTA
1 TATATATTATATTTTTA
*
105808929 TATA-ATTATTATTCTTA
1 TATATATTA-TATTTTTA
*
105808946 TAAATA-TATATTTTTA
1 TATATATTATATTTTTA
105808962 TTATATATTATAT
1 -TATATATTATAT
105808975 CACATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 10 0.27
17 21 0.57
18 6 0.16
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATTATATTTTTA
Found at i:105808982 original size:82 final size:85
Alignment explanation
Indices: 105808816--105808984 Score: 190
Period size: 87 Copynumber: 2.0 Consensus size: 85
105808806 TTTCATATTA
*
105808816 TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATATAAATTCTTTCATATTT
1 TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATATAAATTCTTTCATATAT
* *
105808881 GATATTTTATACATTATTTT
66 GATATTATATACATCATTTT
* * * *
105808901 TTCTAAACCATTATATTT-TATATTTTTATATAATTATTATTCTTATAAATATATATT-TTT-AT
1 TTCTAAA-C-TTATATTTATATA-TATTATACAATTATT-TTATTATAAATATAAATTCTTTCAT
105808963 -TAT-ATATTATAT-CA-CATTTT
62 ATATGATATTATATACATCATTTT
105808983 TT
1 TT
105808985 ATATATGCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
82 7 0.10
83 2 0.03
84 8 0.11
85 9 0.12
86 7 0.10
87 24 0.33
88 16 0.22
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (85 bp):
TTCTAAACTTATATTTATATATATTATACAATTATTTTATTATAAATATAAATTCTTTCATATAT
GATATTATATACATCATTTT
Found at i:105810660 original size:23 final size:21
Alignment explanation
Indices: 105810629--105810685 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
105810619 AAACCTATCT
105810629 TAATAAACATACACTACAAAA
1 TAATAAACATACACTACAAAA
* *
105810650 TGAAATAAACATATACTGCAAAA
1 T--AATAAACATACACTACAAAA
105810673 TAATAAAACATAC
1 TAAT-AAACATAC
105810686 TTACACTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 19 0.63
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.21
Consensus pattern (21 bp):
TAATAAACATACACTACAAAA
Found at i:105812248 original size:16 final size:17
Alignment explanation
Indices: 105812221--105812260 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
105812211 CCAGATTCAT
105812221 TTTTTATATAAAATATA
1 TTTTTATATAAAATATA
*
105812238 TTTTTAT-TAAATTATA
1 TTTTTATATAAAATATA
105812254 TATTTTA
1 T-TTTTA
105812261 AATATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTATATAAAATATA
Found at i:105815267 original size:38 final size:38
Alignment explanation
Indices: 105815216--105815290 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
105815206 CAGGAGGAAG
*
105815216 TATTCTGTTCTGAAACAGTGGTTAACTCACTAGTATCA
1 TATTCTATTCTGAAACAGTGGTTAACTCACTAGTATCA
*
105815254 TATTCTATTCTGAAATAGTGGTTAACTCACTAGTATC
1 TATTCTATTCTGAAACAGTGGTTAACTCACTAGTATC
105815291 TATGTTCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (38 bp):
TATTCTATTCTGAAACAGTGGTTAACTCACTAGTATCA
Found at i:105818473 original size:15 final size:16
Alignment explanation
Indices: 105818447--105818477 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
105818437 AGTCAATCAT
105818447 ATATATTTTCAATTCA
1 ATATATTTTCAATTCA
105818463 ATATA-TTTCAATTCA
1 ATATATTTTCAATTCA
105818478 CTTTACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTTTCAATTCA
Found at i:105819314 original size:9 final size:9
Alignment explanation
Indices: 105819300--105819327 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
105819290 AAAACCTTAA
105819300 TTCTCCCTT
1 TTCTCCCTT
105819309 TTCTCCCTT
1 TTCTCCCTT
105819318 TTCTCCCTT
1 TTCTCCCTT
105819327 T
1 T
105819328 CTTTCTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (9 bp):
TTCTCCCTT
Found at i:105819397 original size:2 final size:2
Alignment explanation
Indices: 105819392--105819428 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
105819382 TCTTTTACTT
105819392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105819429 ATAACAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:105823572 original size:15 final size:16
Alignment explanation
Indices: 105823544--105823577 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
105823534 AAAATTGAAG
105823544 GAAAACAGAAGAAAAA
1 GAAAACAGAAGAAAAA
*
105823560 GAAAACA-AAGAAACA
1 GAAAACAGAAGAAAAA
105823575 GAA
1 GAA
105823578 GAGGGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.74, C:0.09, G:0.18, T:0.00
Consensus pattern (16 bp):
GAAAACAGAAGAAAAA
Found at i:105827686 original size:19 final size:19
Alignment explanation
Indices: 105827642--105827702 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
105827632 ATTAAACATA
*
105827642 TATAATTAGAGTTCATATAATT
1 TATAATTA-AGTTCA-A-ACTT
105827664 TATAATTAAGTTCAAACTT
1 TATAATTAAGTTCAAACTT
105827683 TATAATTAAGTTCAAACTT
1 TATAATTAAGTTCAAACTT
105827702 T
1 T
105827703 TCGCCTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 23 0.61
20 1 0.03
21 6 0.16
22 8 0.21
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (19 bp):
TATAATTAAGTTCAAACTT
Found at i:105827752 original size:27 final size:27
Alignment explanation
Indices: 105827713--105827769 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
105827703 TCGCCTATTA
*
105827713 ATTATAAATTTATTTAGTTAC-AAAGTT
1 ATTATAAACTTATTTAGTTACGAAA-TT
105827740 ATTATAAACTTATTTAGTTACGAAATT
1 ATTATAAACTTATTTAGTTACGAAATT
105827767 ATT
1 ATT
105827770 TCATGATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (27 bp):
ATTATAAACTTATTTAGTTACGAAATT
Found at i:105829162 original size:18 final size:20
Alignment explanation
Indices: 105829129--105829165 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
105829119 ATTAAATTTT
105829129 AAATATATAGAACTTTAAAC
1 AAATATATAGAACTTTAAAC
105829149 AAAT-TATA-AACTTTAAA
1 AAATATATAGAACTTTAAA
105829166 TCTTTACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
AAATATATAGAACTTTAAAC
Found at i:105829567 original size:17 final size:16
Alignment explanation
Indices: 105829523--105829575 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
105829513 CAAAAACATA
105829523 TTATT-TAATAATATTT
1 TTATTCTAA-AATATTT
*
105829539 TTATTTCGAAAATACTTT
1 TTA-TTCTAAAATA-TTT
105829557 TTATTCTAAAAATATTT
1 TTATTCT-AAAATATTT
105829574 TT
1 TT
105829576 TAAAAACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 3 0.10
17 14 0.45
18 14 0.45
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (16 bp):
TTATTCTAAAATATTT
Found at i:105830666 original size:67 final size:67
Alignment explanation
Indices: 105830584--105830780 Score: 331
Period size: 67 Copynumber: 2.9 Consensus size: 67
105830574 AGTACCATTA
* * * *
105830584 AAAAATTTAACGGGATGATATGGAATTTAATGTATGGAACATTTTTAATGAGATGTAATCTATAT
1 AAAAAGTTAACGGGATGATGTGGAATTTAATATATGGAACATTTTTAATGAGATGTAATCTATAC
105830649 TG
66 TG
*
105830651 AAAAAGTTAACGGGATGATGTGGAATTTAATATATGGAACATTTTTAATGAAATGTAATCTATAC
1 AAAAAGTTAACGGGATGATGTGGAATTTAATATATGGAACATTTTTAATGAGATGTAATCTATAC
105830716 TG
66 TG
* *
105830718 AAAAAGTTAACGGGATGATGTGGAATTTCATATATGTAACATTTTTAATGAGATGTAATCTAT
1 AAAAAGTTAACGGGATGATGTGGAATTTAATATATGGAACATTTTTAATGAGATGTAATCTAT
105830781 TACTTAGGTA
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 122 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (67 bp):
AAAAAGTTAACGGGATGATGTGGAATTTAATATATGGAACATTTTTAATGAGATGTAATCTATAC
TG
Found at i:105834217 original size:3 final size:3
Alignment explanation
Indices: 105834209--105834249 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
105834199 AATCGCTGTT
105834209 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
105834250 TTTTTGAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:105838712 original size:38 final size:38
Alignment explanation
Indices: 105838670--105838759 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
105838660 ATGTCTACTA
105838670 CTAGTGTTCAATTGAATACATGTTAAGCATATCCACTG
1 CTAGTGTTCAATTGAATACATGTTAAGCATATCCACTG
*
105838708 CTAGTGTTCAATTGAATACATGTTAAGCATGTCCACTG
1 CTAGTGTTCAATTGAATACATGTTAAGCATATCCACTG
*
105838746 CTAGTGTTGAATTG
1 CTAGTGTTCAATTG
105838760 TTCTATTACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (38 bp):
CTAGTGTTCAATTGAATACATGTTAAGCATATCCACTG
Found at i:105838884 original size:41 final size:41
Alignment explanation
Indices: 105838819--105839028 Score: 165
Period size: 43 Copynumber: 5.0 Consensus size: 41
105838809 ACGGAGGAAG
* * * *
105838819 AGTGGCAGTTTATCTGCAAATATGTTTTGTAACCACAA-CC
1 AGTGACAGTTTATCTGTAAATATGTTGTGCAACCACAACCC
* * *
105838859 AGTGACAATTTTATTTGTAAATATGTTGTGCATCCACAACCC
1 AGTGAC-AGTTTATCTGTAAATATGTTGTGCAACCACAACCC
* * **
105838901 AGTGGCAGTTTATCTGTAAATATGTTGTACATTCACAACCC
1 AGTGACAGTTTATCTGTAAATATGTTGTGCAACCACAACCC
** * * **
105838942 AGTTG-CAGTTTTTATCTACAAATATATTGTACATTCACAACCC
1 AG-TGACAG--TTTATCTGTAAATATGTTGTGCAACCACAACCC
* *
105838985 AGTTG-CAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
1 AG-TGACAG--TTTATCTGTAAATATGTTGTGCAACCACAACCC
105839028 A
1 A
105839029 ATAGCGGTTT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 5 0.03
41 62 0.42
42 9 0.06
43 70 0.48
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (41 bp):
AGTGACAGTTTATCTGTAAATATGTTGTGCAACCACAACCC
Found at i:105838972 original size:43 final size:43
Alignment explanation
Indices: 105838877--105839062 Score: 250
Period size: 43 Copynumber: 4.4 Consensus size: 43
105838867 TTTTATTTGT
* * **
105838877 AAATATGTTGTGCATCCACAACCCAGTGGCAG--TTTATCTGT
1 AAATATGTTGTGCATTCACAACCCAGTTGCAGTTTTTATCTAC
*
105838918 AAATATGTTGTACATTCACAACCCAGTTGCAGTTTTTATCTAC
1 AAATATGTTGTGCATTCACAACCCAGTTGCAGTTTTTATCTAC
* * *
105838961 AAATATATTGTACATTCACAACCCAGTTGCAGTTTTTATCTGC
1 AAATATGTTGTGCATTCACAACCCAGTTGCAGTTTTTATCTAC
* * * *
105839004 AAATATGTTGTGCATCCACAACCCAATAGCGGTTTTTATCTAC
1 AAATATGTTGTGCATTCACAACCCAGTTGCAGTTTTTATCTAC
105839047 AAATATGTTGTGCATT
1 AAATATGTTGTGCATT
105839063 TGATTTGTTG
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 29 0.23
43 99 0.77
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (43 bp):
AAATATGTTGTGCATTCACAACCCAGTTGCAGTTTTTATCTAC
Found at i:105839039 original size:86 final size:84
Alignment explanation
Indices: 105838819--105839062 Score: 273
Period size: 86 Copynumber: 2.9 Consensus size: 84
105838809 ACGGAGGAAG
* * * **
105838819 AGTGGCAGTTTATCTGCAAATATGTTTTGTA-A-CCACAA-CCAGT-GACA-ATTTTATTTGTAA
1 AGTGGCAGTTTATCTGCAAATATG--TTGTACATCCACAACCCAATAG-CAGTTTTTATCTACAA
*
105838879 ATATGTTGTGCATCCACAACCC
63 ATATGTTGTGCATTCACAACCC
* * * *
105838901 AGTGGCAGTTTATCTGTAAATATGTTGTACATTCACAACCCAGTTGCAGTTTTTATCTACAAATA
1 AGTGGCAGTTTATCTGCAAATATGTTGTACATCCACAACCCAATAGCAGTTTTTATCTACAAATA
* *
105838966 TATTGTACATTCACAACCC
66 TGTTGTGCATTCACAACCC
* * *
105838985 AGTTGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCCAATAGCGGTTTTTATCTACAAA
1 AGTGGCAG--TTTATCTGCAAATATGTTGTACATCCACAACCCAATAGCAGTTTTTATCTACAAA
105839050 TATGTTGTGCATT
64 TATGTTGTGCATT
105839063 TGATTTGTTG
Statistics
Matches: 137, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.04
81 1 0.01
82 28 0.20
83 7 0.05
84 36 0.26
86 60 0.44
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (84 bp):
AGTGGCAGTTTATCTGCAAATATGTTGTACATCCACAACCCAATAGCAGTTTTTATCTACAAATA
TGTTGTGCATTCACAACCC
Found at i:105843762 original size:17 final size:17
Alignment explanation
Indices: 105843742--105843800 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
105843732 GAATATTTGG
105843742 TGAGCTCGCAGTCTTGT
1 TGAGCTCGCAGTCTTGT
* *
105843759 TGAGCTCACAGTCTTGA
1 TGAGCTCGCAGTCTTGT
* *
105843776 TGAGCTCGTAGTTTTGT
1 TGAGCTCGCAGTCTTGT
*
105843793 AGAGCTCG
1 TGAGCTCG
105843801 TGCATTTGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (17 bp):
TGAGCTCGCAGTCTTGT
Found at i:105851404 original size:18 final size:18
Alignment explanation
Indices: 105851381--105851415 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
105851371 GTTTAGCTCA
105851381 CATGAGCTTCAGTTAATT
1 CATGAGCTTCAGTTAATT
*
105851399 CATGAGTTTCAGTTAAT
1 CATGAGCTTCAGTTAAT
105851416 CCTAATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (18 bp):
CATGAGCTTCAGTTAATT
Found at i:105851501 original size:42 final size:41
Alignment explanation
Indices: 105851455--105851538 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
105851445 GTTTCAGTTT
*
105851455 AACCC-TACTAGGTTTTTGTTCAGCTCTTATGAGCTTTTGTTC
1 AACCCTTAC-AGGTTTTTGTT-AGCACTTATGAGCTTTTGTTC
* *
105851497 AACCCTTACGGGTTTTTGTTAGCACTTATGTGCTTTTGTTC
1 AACCCTTACAGGTTTTTGTTAGCACTTATGAGCTTTTGTTC
105851538 A
1 A
105851539 GCCTTCGGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 20 0.53
42 15 0.39
43 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (41 bp):
AACCCTTACAGGTTTTTGTTAGCACTTATGAGCTTTTGTTC
Found at i:105851533 original size:20 final size:21
Alignment explanation
Indices: 105851468--105851540 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
105851458 CCTACTAGGT
*
105851468 TTTTGTTCAGCTCTTATGAGC
1 TTTTGTTCAGCACTTATGAGC
* * * * *
105851489 TTTTGTTCAACCCTTACGGGT
1 TTTTGTTCAGCACTTATGAGC
*
105851510 TTTTGTT-AGCACTTATGTGC
1 TTTTGTTCAGCACTTATGAGC
105851530 TTTTGTTCAGC
1 TTTTGTTCAGC
105851541 CTTCGGGCTC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTTGTTCAGCACTTATGAGC
Done.