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 44 of 410
Found at i:11218690 original size:29 final size:30
Alignment explanation
Indices: 11218656--11218729 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
11218646 TATAGTGAAT
* * *
11218656 CCGCACACTTAGTGCTATA-TATTTTCAGC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
* *
11218685 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
11218715 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
11218730 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
CCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:11226644 original size:29 final size:30
Alignment explanation
Indices: 11226610--11226683 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
11226600 TATAGTGAAT
* * *
11226610 CCGCACACTTAGTGCTATA-TATTTTCAGC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
* *
11226639 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAATTTTAAAC
11226669 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
11226684 CAATCTTGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
CCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:11232721 original size:13 final size:14
Alignment explanation
Indices: 11232705--11232733 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11232695 TTTTAAATAT
11232705 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
11232718 TTATAATGGTTTAA
1 TTATAATGGTTTAA
11232732 TT
1 TT
11232734 CGTCGGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:11233592 original size:43 final size:44
Alignment explanation
Indices: 11233545--11233628 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
11233535 GTATTTGCAA
* *
11233545 AAAAAGCGTCGCTAAAAGTCACATTCTTTAGCAGCG-TTTGTAC
1 AAAAAGCATCGCTAAAAGCCACATTCTTTAGCAGCGCTTTGTAC
* * * *
11233588 AAAAAGCATTGCTAAAGGCCATATTCTTTAGCGGCGCTTTG
1 AAAAAGCATCGCTAAAAGCCACATTCTTTAGCAGCGCTTTG
11233629 CGCTTGTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 30 0.88
44 4 0.12
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AAAAAGCATCGCTAAAAGCCACATTCTTTAGCAGCGCTTTGTAC
Found at i:11235147 original size:63 final size:62
Alignment explanation
Indices: 11235003--11235148 Score: 152
Period size: 63 Copynumber: 2.3 Consensus size: 62
11234993 TGGGTGCAAT
* * * *
11235003 CCCGTGTCCCTGGCCGTGTGGTTTCATTCCACAAACAGTGAGTTACACAGCTAAGACACACG
1 CCCGTGTCCTTGCCCGTGTGGTTTCATACCACAAACAGTGAATTACACAGCTAAGACACACG
* * * * * *
11235065 CCCGTGTGCCTTGCTCGTGTGGTTTTATACCATAAACAGTGAATTACATAGCTCTAATA-A-ATG
1 CCCGTGT-CCTTGCCCGTGTGGTTTCATACCACAAACAGTGAATTACACAG--CTAAGACACACG
11235128 CCCGTGTCCGTTGCCCGTGTG
1 CCCGTGTCC-TTGCCCGTGTG
11235149 AACCTTGCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
62 9 0.13
63 54 0.78
64 1 0.01
65 5 0.07
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (62 bp):
CCCGTGTCCTTGCCCGTGTGGTTTCATACCACAAACAGTGAATTACACAGCTAAGACACACG
Found at i:11237138 original size:21 final size:20
Alignment explanation
Indices: 11237100--11237139 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11237090 ATTAAGGTAT
*
11237100 TGCTCCTCATAGTATCCTCC
1 TGCTCCTAATAGTATCCTCC
*
11237120 TGCTCCTAAGTAGTTTCCTC
1 TGCTCCTAA-TAGTATCCTC
11237140 TAATCCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.35, G:0.12, T:0.38
Consensus pattern (20 bp):
TGCTCCTAATAGTATCCTCC
Found at i:11242646 original size:27 final size:27
Alignment explanation
Indices: 11242616--11242669 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11242606 GGATATAAAC
11242616 TTACTCTTAACATAAACTTATATGCTA
1 TTACTCTTAACATAAACTTATATGCTA
11242643 TTACTCTTAACATAAACTTATATGCTA
1 TTACTCTTAACATAAACTTATATGCTA
11242670 ACATAATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.41
Consensus pattern (27 bp):
TTACTCTTAACATAAACTTATATGCTA
Found at i:11248575 original size:43 final size:43
Alignment explanation
Indices: 11248514--11248628 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
11248504 TGCGGCGTTA
* *
11248514 CTAAAGAACATGACCTTTACCGGCGCTTTCAC-AAAAAATGCCG
1 CTAAAGAACATGACCTTTAACGGCGCTTTC-CTAAAAAACGCCG
** * *
11248557 CTAAAGAACATGACCTTTAGTGGTGCTTTCCTCAAAAACGCCG
1 CTAAAGAACATGACCTTTAACGGCGCTTTCCTAAAAAACGCCG
* **
11248600 CTAAA-TACATGATTTTTAACGGCGCTTTC
1 CTAAAGAACATGACCTTTAACGGCGCTTTC
11248629 TCCTCAAACG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 19 0.32
43 41 0.68
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAACGGCGCTTTCCTAAAAAACGCCG
Found at i:11249194 original size:23 final size:23
Alignment explanation
Indices: 11249168--11249272 Score: 165
Period size: 23 Copynumber: 4.6 Consensus size: 23
11249158 CTACACAAAG
11249168 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
*
11249191 AACATTTAAATACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
* *
11249214 AGCATTTAAATACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
* *
11249237 AGCATTTAAACACTGCAATTTAC
1 AACATTTAAACACTTCAATTTAC
11249260 AACATTTAAACAC
1 AACATTTAAACAC
11249273 CAGCAACCGT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (23 bp):
AACATTTAAACACTTCAATTTAC
Found at i:11253051 original size:72 final size:73
Alignment explanation
Indices: 11252967--11253116 Score: 205
Period size: 72 Copynumber: 2.1 Consensus size: 73
11252957 TTCGGGTATA
* * * *
11252967 AAATAGAAGAACATGTTGAGAAAGGCTGAGAAA-AAAATGGAAATTGGGAAAGAAAAGGGAATCG
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAA-GGAAATCGGGAAAGAAAAGGAAATCG
11253031 G-GGGAGAG
65 GAGGGAGAG
* * * *
11253039 AAATAGAGGAACAGGCTGAGAATGGCTGAGAAAGAAAAGGAAATCGGGAAAGAAGAGGAAATTGG
1 AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGAAATCGGGAAAGAAAAGGAAATCGG
11253104 AGGGAGAG
66 AGGGAGAG
11253112 AAATA
1 AAATA
11253117 AAACGGCGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
72 52 0.76
73 16 0.24
ACGTcount: A:0.49, C:0.05, G:0.35, T:0.11
Consensus pattern (73 bp):
AAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGAAATCGGGAAAGAAAAGGAAATCGG
AGGGAGAG
Found at i:11253649 original size:42 final size:43
Alignment explanation
Indices: 11253492--11253723 Score: 252
Period size: 43 Copynumber: 5.4 Consensus size: 43
11253482 AAAAATGCTA
* * * * *
11253492 CTATAGAACATGACATTTAGCGGCGCTTTTACAACAAATGCTG
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * * * * *
11253535 TTAGAGAACATGGCCTTTAGTGGCGCTTTTCCCACAAACACTG
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * * *
11253578 CTAAAAAACATGGCCTTTAGCGGCACTTTTCCCACAAACGCCG
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
11253621 CTATAGAACA-GACCTTTAGCGACGCTTTTTCCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
11253663 CTATAAAACA-GACCTTTAGCGGCACTTTTCCCATAAACGCCG
1 CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
*
11253705 CTAAAGAACATGACCTTTA
1 CTATAGAACATGACCTTTA
11253724 AAAAAATATT
Statistics
Matches: 157, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 71 0.45
43 86 0.55
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
Found at i:11253703 original size:84 final size:86
Alignment explanation
Indices: 11253498--11253723 Score: 267
Period size: 85 Copynumber: 2.7 Consensus size: 86
11253488 GCTACTATAG
* * * * * * * * * * *
11253498 AACATGACATTTAGCGGCGCTTTTACAACAAATGCTGTTAGAGAACATGGCCTTTAGTGGCGCTT
1 AACATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTT
**
11253563 TTCCCACAAACACTGCTAAAA
66 TTCCCACAAACACCACTAAAA
* *
11253584 AACATGGCCTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGAACA-GACCTTTAGCGACGCTT
1 AACATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTT
* * *
11253648 TTTCCACAAACGCCACTATAA
66 TTCCCACAAACACCACTAAAA
*
11253669 AACA-GACCTTTAGCGGCACTTTTCCCATAAACGCCGCTAAAGAACATGACCTTTA
1 AACATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
11253724 AAAAAATATT
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 39 0.33
85 42 0.35
86 38 0.32
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (86 bp):
AACATGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTT
TTCCCACAAACACCACTAAAA
Found at i:11253897 original size:34 final size:35
Alignment explanation
Indices: 11253859--11253924 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
11253849 CTATTAAAAT
*
11253859 TTTAACTTTA-AAACTAAATATAA-AAATTAATGAA
1 TTTAAATTTAGAAACTAAA-ATAATAAATTAATGAA
*
11253893 TTTAAATTTAGAATCTAAAATAATAAATTAAT
1 TTTAAATTTAGAAACTAAAATAATAAATTAAT
11253925 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (35 bp):
TTTAAATTTAGAAACTAAAATAATAAATTAATGAA
Found at i:11256544 original size:18 final size:17
Alignment explanation
Indices: 11256521--11256559 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
11256511 CAGCAGCGGA
11256521 AGGGGGAGAGGGAGAGGG
1 AGGGGGAGAGGGAG-GGG
*
11256539 AGGGGGAGGGGGAGGGG
1 AGGGGGAGAGGGAGGGG
11256556 AGGG
1 AGGG
11256560 AACCGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (17 bp):
AGGGGGAGAGGGAGGGG
Found at i:11256545 original size:12 final size:11
Alignment explanation
Indices: 11256521--11256559 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
11256511 CAGCAGCGGA
11256521 AGGGGGAGAGGG
1 AGGGGGAG-GGG
*
11256533 AGAGGGAGGGGG
1 AGGGGGA-GGGG
11256545 AGGGGGAGGGG
1 AGGGGGAGGGG
11256556 AGGG
1 AGGG
11256560 AACCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.33
12 15 0.62
13 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (11 bp):
AGGGGGAGGGG
Found at i:11256848 original size:17 final size:18
Alignment explanation
Indices: 11256815--11256848 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11256805 TATCTCTTAA
11256815 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
11256833 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
11256849 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:11257097 original size:20 final size:20
Alignment explanation
Indices: 11257069--11257109 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11257059 TAAATGTTAA
*
11257069 ACCCCAAACTATAAATATAT
1 ACCCCAAACCATAAATATAT
* *
11257089 ACCCTAAACCCTAAATATAT
1 ACCCCAAACCATAAATATAT
11257109 A
1 A
11257110 TTACATGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (20 bp):
ACCCCAAACCATAAATATAT
Found at i:11257966 original size:14 final size:14
Alignment explanation
Indices: 11257949--11258020 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
11257939 TCCAAACCCC
11257949 AAATTCTAAACCAT
1 AAATTCTAAACCAT
* *
11257963 AAATCCCAAACCAT
1 AAATTCTAAACCAT
* * *
11257977 AAACTCTAAGCCCT
1 AAATTCTAAACCAT
11257991 AAACTT-TAAACCAT
1 AAA-TTCTAAACCAT
*
11258005 AAATCCTAAACCAT
1 AAATTCTAAACCAT
11258019 AA
1 AA
11258021 CCCATAAATT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
13 1 0.02
14 43 0.96
15 1 0.02
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (14 bp):
AAATTCTAAACCAT
Found at i:11257979 original size:21 final size:21
Alignment explanation
Indices: 11257955--11258029 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
11257945 CCCCAAATTC
11257955 TAAACCATAAATCCCAAACCA
1 TAAACCATAAATCCCAAACCA
* **
11257976 TAAACTC-T-AAGCCCTAAACTT
1 TAAAC-CATAAATCCC-AAACCA
*
11257997 TAAACCATAAATCCTAAACCA
1 TAAACCATAAATCCCAAACCA
*
11258018 TAACCCATAAAT
1 TAAACCATAAAT
11258030 TAAATTGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 6 0.14
21 31 0.74
22 5 0.12
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCATAAATCCCAAACCA
Found at i:11257984 original size:28 final size:27
Alignment explanation
Indices: 11257938--11258020 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
11257928 AAACCCCAAC
**
11257938 CTCCAAACCCCAAATTCTAAACCATAAA
1 CTCCAAACCATAAA-TCTAAACCATAAA
* *
11257966 -TCCCAAACCATAAACTCTAAGCCCTAAA
1 CT-CCAAACCATAAA-TCTAAACCATAAA
**
11257994 CTTTAAACCATAAATCCTAAACCATAA
1 CTCCAAACCATAAAT-CTAAACCATAA
11258021 CCCATAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 2 0.05
28 40 0.93
29 1 0.02
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (27 bp):
CTCCAAACCATAAATCTAAACCATAAA
Found at i:11258215 original size:40 final size:40
Alignment explanation
Indices: 11258157--11258268 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
11258147 ATTTTTTTGT
* * *
11258157 GGCATTTTTCAAAAAGCGCCGCTAATGGTCGACCTATAGC
1 GGCATTTTTTAAAAAGCGCCACTAATGCTCGACCTATAGC
* *
11258197 GGTATTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGC
1 GGCATTTTTTAAAAAGCGCCACTAATGCTCGACCTATAGC
* ** *
11258237 GGCGTTTTTTAAAAAGTACCACTGATGCTCGA
1 GGCATTTTTTAAAAAGCGCCACTAATGCTCGA
11258269 TAACCATAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
GGCATTTTTTAAAAAGCGCCACTAATGCTCGACCTATAGC
Found at i:11266763 original size:7 final size:7
Alignment explanation
Indices: 11266751--11266782 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11266741 AGTCGTTTCA
11266751 TATTTAG
1 TATTTAG
11266758 TATTTAG
1 TATTTAG
*
11266765 TATTTAA
1 TATTTAG
11266772 TATTTAG
1 TATTTAG
11266779 TATT
1 TATT
11266783 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:11267387 original size:18 final size:18
Alignment explanation
Indices: 11267364--11267401 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11267354 TGCCAGGTGC
* *
11267364 GTATCCTAGCCCTTCTAT
1 GTATCCTAACCCTTATAT
11267382 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
11267400 GT
1 GT
11267402 TTCATTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11268876 original size:289 final size:289
Alignment explanation
Indices: 11268356--11268940 Score: 789
Period size: 289 Copynumber: 2.0 Consensus size: 289
11268346 TATTAGTTCG
*
11268356 GTCTGTCAAACTCTGTCACACAAAACCATAGCTTGTCGCGATCGTGACACACTATGTGCATGGTG
1 GTCTGTCAAACTCTATCACACAAAACCATAGCTTGTCGCGATCGTGACACACTATGTGCATGGTG
* * * *
11268421 TTGGCCCGCGCCTTCTCCTTGTTAATTTCTTACAATACCTTCTAGAACTATAAATGACTTCCCTG
66 TTGGCCCGCACCTTCGCCTTGTTAATTTCTTACAATACCTTCTAGAACCATAAATGACCTCCCTG
* * *** * * *
11268486 CATTTGGCCTTTACAACTCACTGCTCGTTTTGGAAATAGTGTCACCAAACGAAAATATGTTTCTC
131 CATTTAGCCTTTACAACTCACTACTCACATTGGAAATAGTATCACCAAACAAAAATATGTCTCTC
* * * * *
11268551 GCACAACCAAGGTTATCGGCAAATGACGCGTTCCTTTTATAACAGAATTTATGCTTTCAACCAGG
196 ACACAACCAAGGTTATCGACAAATGACGCATTCCTTTTAGAACAGAAATTATGCTTTCAACCAGG
*
11268616 CTTGTGGTCATATGACCATATCGTAGGCC
261 CTTATGGTCATATGACCATATCGTAGGCC
* * *
11268645 GTCTGTCAAACTCTATCACACAAAACCATATG-TTGTCGTGGTCGTGACACACTGTGTGCATGGT
1 GTCTGTCAAACTCTATCACACAAAACCATA-GCTTGTCGCGATCGTGACACACTATGTGCATGGT
* * * * *
11268709 GTTGGCCCGCACCTTCGCCTTGTTAATTTCTTGCCATACCTTCTGGAACCATACATGACCTCCTT
65 GTTGGCCCGCACCTTCGCCTTGTTAATTTCTTACAATACCTTCTAGAACCATAAATGACCTCCCT
* **
11268774 GCATTTAGCCTTTACGACTTGCTACTCACATTGGAAATAGTAT-AGCCAAACAAAAATATGTCTC
130 GCATTTAGCCTTTACAACTCACTACTCACATTGGAAATAGTATCA-CCAAACAAAAATATGTCTC
* ** * * * *
11268838 TCATACAACTGAGGTTGTCGACAAATGACGTATTCCTTTTAGAACAGAAATTATGCTTTCAGCTA
194 TCACACAACCAAGGTTATCGACAAATGACGCATTCCTTTTAGAACAGAAATTATGCTTTCAACCA
*
11268903 GGTTTATGGTCATATGACCATATCGTAGGCC
259 GGCTTATGGTCATATGACCATATCGTAGGCC
11268934 GTC-GTCA
1 GTCTGTCA
11268941 TATACTTGTG
Statistics
Matches: 256, Mismatches: 38, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
288 5 0.02
289 250 0.98
290 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (289 bp):
GTCTGTCAAACTCTATCACACAAAACCATAGCTTGTCGCGATCGTGACACACTATGTGCATGGTG
TTGGCCCGCACCTTCGCCTTGTTAATTTCTTACAATACCTTCTAGAACCATAAATGACCTCCCTG
CATTTAGCCTTTACAACTCACTACTCACATTGGAAATAGTATCACCAAACAAAAATATGTCTCTC
ACACAACCAAGGTTATCGACAAATGACGCATTCCTTTTAGAACAGAAATTATGCTTTCAACCAGG
CTTATGGTCATATGACCATATCGTAGGCC
Found at i:11271390 original size:127 final size:126
Alignment explanation
Indices: 11271217--11271592 Score: 540
Period size: 127 Copynumber: 3.0 Consensus size: 126
11271207 GGCCAAACAT
* * * * *
11271217 GAACTACTGTAGAAAAAGAGCGTCCATGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGACATTGCATC
* *
11271282 TTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTATTTT-AA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATT-TTTTCAA
* * *
11271343 GGAACTACTGTAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGATATTGCGT
1 -GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGACATTGCAT
* * * *
11271408 CCTGCTTGAAGCGTTTCTGACATTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
11271470 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTCAGTAATTTTGTTGAC-TGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTT-AGAAATTTTGTTGACAT-TGCA
* *
11271534 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTT
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTT
11271593 GCAGGGTAAA
Statistics
Matches: 221, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
126 45 0.20
127 176 0.80
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGAAATTTTGTTGACATTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:11271720 original size:34 final size:33
Alignment explanation
Indices: 11271674--11271775 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 33
11271664 TAGACCCTAG
* * *
11271674 ACCCTAATCCCTAATTTATTTTATTTATTTAAA
1 ACCCTAAACCCTAATTTACTTAATTTATTTAAA
11271707 ACCCTTAAACCCTAATTTACTTAATTTATTTAAAA
1 ACCC-TAAACCCTAATTTACTTAATTTATTT-AAA
* * * *
11271742 ATCATAAACTCTAATTTAATTAATTT-TTATAAA
1 ACCCTAAACCCTAATTTACTTAATTTATT-TAAA
11271775 A
1 A
11271776 TAACACTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 10 0.17
34 44 0.75
35 5 0.08
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (33 bp):
ACCCTAAACCCTAATTTACTTAATTTATTTAAA
Found at i:11278539 original size:27 final size:26
Alignment explanation
Indices: 11278501--11278556 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
11278491 TCACTCTGAG
11278501 TGACAATAATTGTAGC-ACTATTTTTT
1 TGACAATAATTGTA-CTACTATTTTTT
*
11278527 TGACTAATAATTGTACTACTTTTTTTT
1 TGAC-AATAATTGTACTACTATTTTTT
11278554 TGA
1 TGA
11278557 AGAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (26 bp):
TGACAATAATTGTACTACTATTTTTT
Found at i:11279196 original size:8 final size:8
Alignment explanation
Indices: 11279183--11279218 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
11279173 TTCTTTATTC
11279183 TTTTCAAA
1 TTTTCAAA
11279191 TTTTCAAA
1 TTTTCAAA
11279199 TTTTCAAA
1 TTTTCAAA
*
11279207 TTTTCGAA
1 TTTTCAAA
11279215 TTTT
1 TTTT
11279219 AATCATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (8 bp):
TTTTCAAA
Found at i:11283452 original size:18 final size:18
Alignment explanation
Indices: 11283431--11283469 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11283421 AATTTGAAAC
11283431 AAAACAT-AAAATTTTGGA
1 AAAACATGAAAA-TTTGGA
11283449 AAAACATGAAAATTTGGA
1 AAAACATGAAAATTTGGA
11283467 AAA
1 AAA
11283470 TAAGGGTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (18 bp):
AAAACATGAAAATTTGGA
Found at i:11288936 original size:39 final size:39
Alignment explanation
Indices: 11288882--11289005 Score: 205
Period size: 39 Copynumber: 3.2 Consensus size: 39
11288872 TGTGAATGTA
11288882 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
11288921 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11288960 TGTGC-AAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAA-TTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
11289000 TGTGCG
1 TGTGCG
11289006 GGTTACCATA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
38 2 0.03
39 62 0.77
40 16 0.20
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11289021 original size:79 final size:79
Alignment explanation
Indices: 11288882--11289035 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 79
11288872 TGTGAATGTA
*** *
11288882 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTACCATAACCGGGCTAA
11288947 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * **
11288960 TGTGC-AAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCT
1 TGTGCGAA-TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTACCATAACCGGGCT
*
11289024 ATGTCCCGAAGG
64 AAGTCCCGAAGG
11289036 TGTTTTGAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.03
78 23 0.36
79 31 0.48
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:11294549 original size:6 final size:6
Alignment explanation
Indices: 11294538--11294587 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
11294528 TAAGTCTAAG
* *
11294538 AAAATA ATAATA AACATA AAAATA AAAATA AAAATA AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
11294585 AAA
1 AAA
11294588 CAAATAGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:11296241 original size:17 final size:17
Alignment explanation
Indices: 11296221--11296299 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
11296211 AAAAACACAT
*
11296221 AAAATAGAAAATAATAA
1 AAAAAAGAAAATAATAA
*
11296238 AAAAAAGAAATTAATAA
1 AAAAAAGAAAATAATAA
* * *
11296255 GAATAATAAAGTATAATTAA
1 AAAAAAGAAA--ATAA-TAA
* *
11296275 ATAAAATAAAAT-ATAA
1 AAAAAAGAAAATAATAA
*
11296291 AATAAAGAA
1 AAAAAAGAA
11296300 CTAAAAAAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
16 9 0.19
17 23 0.49
18 2 0.04
19 3 0.06
20 10 0.21
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAAAAGAAAATAATAA
Found at i:11300262 original size:18 final size:19
Alignment explanation
Indices: 11300231--11300272 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
11300221 AAATAAAAGA
11300231 AAAATTAGAAAACAAAAAT
1 AAAATTAGAAAACAAAAAT
11300250 AAAATTA-AAAACAAAAAT
1 AAAATTAGAAAACAAAAAT
11300268 AAAAT
1 AAAAT
11300273 GCAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAATTAGAAAACAAAAAT
Found at i:11305394 original size:69 final size:67
Alignment explanation
Indices: 11305273--11305534 Score: 222
Period size: 69 Copynumber: 3.8 Consensus size: 67
11305263 TCTGAATCTA
* * * * * * * *
11305273 TGAGCCTTAGTGTGACAGCTGGGAGCTTTGGTCTTGTTAACTATGTTAGAGGCTGCGACTCTTCA
1 TGAGCCTTAATGTCATAGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTTCA
11305338 CT
66 CT
* * * * *
11305340 TGAAAGCCTTAATGTCACAGTTAGGAGCTTTCCTCTCGCTAACTGTGTTGGAGGCTGCGACTTTT
1 TG--AGCCTTAATGTCATAGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTT
11305405 CACCT
64 CA-CT
* * ** * *
11305410 GTGAGCCTTCATGTGC-TAGCTAGGAGCTTTGCTTTTACTAACTATGTTTGAGGCTGCAACTCTT
1 -TGAGCCTTAATGT-CATAGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTT
11305474 CACCT
64 CA-CT
* * * * *
11305479 ATGAGCCTTAATGTAATAGCT-GATAGCTTTGTTCTCGCTAACTGTGTTGGAAGCTG
1 -TGAGCCTTAATGTCATAGCTAG-GAGCTTTGCTCTCGCTAACTATGTTGGAGGCTG
11305535 TAGCTCTTCG
Statistics
Matches: 155, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
67 2 0.01
68 1 0.01
69 147 0.95
70 3 0.02
71 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (67 bp):
TGAGCCTTAATGTCATAGCTAGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGACTCTTCA
CT
Found at i:11306497 original size:21 final size:21
Alignment explanation
Indices: 11306472--11306521 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
11306462 TATTGTGTTG
*
11306472 GCTTCGGGCCATGATATTGGT
1 GCTTCGGGCCATGATATTGGC
11306493 GCTTCGGGCCATGATATTGGC
1 GCTTCGGGCCATGATATTGGC
*
11306514 ACTTCGGG
1 GCTTCGGG
11306522 TGTAAGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.30
Consensus pattern (21 bp):
GCTTCGGGCCATGATATTGGC
Found at i:11307010 original size:85 final size:85
Alignment explanation
Indices: 11306862--11307031 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 85
11306852 AGGAAAGTAC
*
11306862 ATATTGATATATTGAAATTATTAAATTATATTTATGTGAATACATTGAGTTTATTTCAAACGAAC
1 ATATTGACATATTGAAATTATTAAATTATATTTATGTGAATACATTGAGTTTATTTCAAACGAAC
11306927 TTACTAAGCTTTATAGCTTA
66 TTACTAAGCTTTATAGCTTA
* * *
11306947 ATATTGACGTATTGAAATTATTGAATTATATTTATGTGAATACATTGAGTTTATTTCATACGAAC
1 ATATTGACATATTGAAATTATTAAATTATATTTATGTGAATACATTGAGTTTATTTCAAACGAAC
11307012 TTACTAAGCTTTATAGCTTA
66 TTACTAAGCTTTATAGCTTA
11307032 CTTTGTTATC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.44
Consensus pattern (85 bp):
ATATTGACATATTGAAATTATTAAATTATATTTATGTGAATACATTGAGTTTATTTCAAACGAAC
TTACTAAGCTTTATAGCTTA
Found at i:11316587 original size:21 final size:20
Alignment explanation
Indices: 11316562--11316609 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
11316552 AAGAAATTGA
*
11316562 TATTTGATTTTTTTTTCTTTT
1 TATTTGAGTTTTTTTT-TTTT
*
11316583 TATTTCAGTTTTTTTTTTTT
1 TATTTGAGTTTTTTTTTTTT
11316603 T-TTTGAG
1 TATTTGAG
11316610 ATTTGACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.10, C:0.04, G:0.08, T:0.77
Consensus pattern (20 bp):
TATTTGAGTTTTTTTTTTTT
Found at i:11325829 original size:76 final size:76
Alignment explanation
Indices: 11325747--11325900 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
11325737 TCACTCCAAT
11325747 TAAATTGCCTTTTAATGTGAAAACTTTTTAACCATATTTTTTCTTCAAATATGAAGTATTTTTCA
1 TAAATTGCCTTTTAATGTGAAAACTTTTTAACCATATTTTTTCTTCAAATATGAAGTATTTTTCA
11325812 TTGTTTTAAAG
66 TTGTTTTAAAG
*
11325823 TAAATTGCCTTTTAATGTGAAAACTTTTTAACCATATTTTTTCTTTAAATATGAAGTATTTTTCA
1 TAAATTGCCTTTTAATGTGAAAACTTTTTAACCATATTTTTTCTTCAAATATGAAGTATTTTTCA
*
11325888 TTTTTTTAAAG
66 TTGTTTTAAAG
11325899 TA
1 TA
11325901 TTTTTCAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (76 bp):
TAAATTGCCTTTTAATGTGAAAACTTTTTAACCATATTTTTTCTTCAAATATGAAGTATTTTTCA
TTGTTTTAAAG
Found at i:11332925 original size:26 final size:26
Alignment explanation
Indices: 11332882--11332990 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11332872 TGATACAAAT
11332882 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11332907 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11332933 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11332959 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11332985 TGATAA
1 TGATAA
11332991 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 7 0.09
26 71 0.91
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11338739 original size:26 final size:26
Alignment explanation
Indices: 11338710--11338819 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11338700 TGATACAAAT
*
11338710 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
11338736 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
11338762 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
11338788 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
11338814 TGATAA
1 TGATAA
11338820 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:11348437 original size:16 final size:18
Alignment explanation
Indices: 11348402--11348439 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
11348392 TTTTTTTATG
11348402 TTATTCATCTAAATACTC
1 TTATTCATCTAAATACTC
*
11348420 TTATTCAT-T-AATATTC
1 TTATTCATCTAAATACTC
11348436 TTAT
1 TTAT
11348440 ATATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 1 0.05
18 8 0.42
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTCATCTAAATACTC
Found at i:11348507 original size:23 final size:21
Alignment explanation
Indices: 11348460--11348508 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
11348450 TACGTTAAAC
* *
11348460 TATTTTTTAATCTATGTACAT
1 TATTTTTTAAACTATGTACAG
*
11348481 TATTTATTTAAACTAATGTATAG
1 TATTT-TTTAAACT-ATGTACAG
11348504 TATTT
1 TATTT
11348509 CGTATATGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 11 0.48
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (21 bp):
TATTTTTTAAACTATGTACAG
Found at i:11349394 original size:40 final size:40
Alignment explanation
Indices: 11349350--11349440 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
11349340 GATTATGCAT
11349350 TAGCGGCGTTTGCA-CAAAAACGCCGCTAAAAACTGAGTAA
1 TAGCGGCGTTTGCAGCAAAAACGCCGCT-AAAACTGAGTAA
*
11349390 TAGCGGCGTTTGGAGCAAAAACGCCGCTAAAACTGAGTAA
1 TAGCGGCGTTTGCAGCAAAAACGCCGCTAAAACTGAGTAA
11349430 TAGCGGCGTTT
1 TAGCGGCGTTT
11349441 TTTAAGAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 36 0.73
41 13 0.27
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (40 bp):
TAGCGGCGTTTGCAGCAAAAACGCCGCTAAAACTGAGTAA
Found at i:11353424 original size:64 final size:64
Alignment explanation
Indices: 11353356--11353489 Score: 223
Period size: 64 Copynumber: 2.1 Consensus size: 64
11353346 TAATATTTCT
* *
11353356 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATAAAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
* * *
11353420 ATATTTCTATCACGATTTTTGATAAATTTATTTGTTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
11353484 ATATTT
1 ATATTT
11353490 AATAAAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAA
Found at i:11353502 original size:64 final size:64
Alignment explanation
Indices: 11353369--11353503 Score: 175
Period size: 64 Copynumber: 2.1 Consensus size: 64
11353359 TTTCTATCAC
* * * * *
11353369 GATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATAAAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
* * *
11353433 GATTTTTGATAAATTTATTTGTTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
11353496 -ATATTTTA
1 GAT-TTTTA
11353504 TATAGTTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
62 2 0.03
63 7 0.11
64 52 0.85
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATAAAAATATTTATATAAA
Found at i:11353564 original size:24 final size:24
Alignment explanation
Indices: 11353537--11353607 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
11353527 ATTATTATTG
*
11353537 AAATATTCTCTTCCGTTTTATCAC
1 AAATATTATCTTCCGTTTTATCAC
11353561 AAATATTAT-TGTCCGTTTTATCAC
1 AAATATTATCT-TCCGTTTTATCAC
*
11353585 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCTTCCGTTTTATCA
11353608 TTTAAGTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.02
24 42 0.98
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (24 bp):
AAATATTATCTTCCGTTTTATCAC
Found at i:11359803 original size:31 final size:32
Alignment explanation
Indices: 11359741--11359823 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
11359731 TTAGAATTAA
* *
11359741 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTATAT-CTAAATTTGC
* * *
11359774 TGTTTTTGGCTGCATTTTATAT-TATATTTGT
1 TGTTTTTGGTTGCATTTTATATCTAAATTTGC
* *
11359805 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGCATTTTA
11359824 ATGCAGGAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 23 0.55
33 19 0.45
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTATATCTAAATTTGC
Found at i:11360852 original size:130 final size:131
Alignment explanation
Indices: 11360639--11360970 Score: 380
Period size: 131 Copynumber: 2.6 Consensus size: 131
11360629 CAATTATTCA
*
11360639 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
*
11360704 TGCTGGGTTGCGATTTTCCAT-TTT-TTCAAAACAATCGAATACTT-CTTTGGAATTTCGCTTAT
66 TGCTGGGTTGCGATTTTCC-TGTTTGTTCAAAACAATCGAATA-TTCCTTTAGAATTTCGCTTAT
11360766 GTC
129 GTC
* * ** * *
11360769 TTTAAAAATTCTTCAAAATGAAGGTAATGTTTGATGTTTGGCAATTCGGAGAATTGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCGG-GAATCGTGCCCTATC
* * *
11360834 GTGCTGGGTTGCGA-TTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTCCACTCATG
65 GTGCTGGGTTGCGATTTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTTATG
11360898 CTC
130 -TC
* * * * *
11360901 TGT--AAATTC-T-AAAAC-AAGACAAT-GTCCGATGTTTGGAAATTTGAGGAATCGTGCCCTA-
1 TTTAAAAATTCTTCAAAACGAAGGCAATACT-CGATGTTTGGCAATTCG-GGAATCGTGCCCTAT
11360959 CTGTGCTGGGTT
64 C-GTGCTGGGTT
11360971 TCGGTTTTTC
Statistics
Matches: 174, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
126 2 0.01
127 42 0.24
128 5 0.03
129 2 0.01
130 59 0.34
131 60 0.34
132 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTTATGT
C
Found at i:11362825 original size:16 final size:15
Alignment explanation
Indices: 11362779--11362826 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
11362769 CAAAAATTTG
11362779 AAATAAATCATAAAAT
1 AAATAAA-CATAAAAT
*
11362795 AAATAAAAATAAAAAT
1 AAATAAACAT-AAAAT
*
11362811 AATTAATACATAAAAT
1 AAATAA-ACATAAAAT
11362827 TTAAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 22 0.81
17 3 0.11
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAACATAAAAT
Found at i:11363235 original size:32 final size:31
Alignment explanation
Indices: 11363178--11363260 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 31
11363168 AAGTGTTAAA
11363178 AAATATATATATATAGTAAAATAGATCTTTAAAAG
1 AAATATATATATATA-T-AAATAGA--TTTAAAAG
*
11363213 AAATAAAT-TATATATAAATAGATTTAAAAG
1 AAATATATATATATATAAATAGATTTAAAAG
11363243 AATATATATATATATATA
1 AA-ATATATATATATATA
11363261 TATATATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 10 0.23
31 5 0.11
32 15 0.34
33 1 0.02
34 6 0.14
35 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (31 bp):
AAATATATATATATATAAATAGATTTAAAAG
Found at i:11363251 original size:2 final size:2
Alignment explanation
Indices: 11363244--11363268 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11363234 ATTTAAAAGA
11363244 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 A
11363269 AAAAGGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11363271 original size:30 final size:30
Alignment explanation
Indices: 11363207--11363271 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
11363197 AATAGATCTT
*
11363207 TAAAAGAAATAAATTATATATAAATAGATT
1 TAAAAGAAATAAATTATATATAAATAGATA
* * *
11363237 TAAAAG-AATATATATATATATATATATATA
1 TAAAAGAAATAAAT-TATATATAAATAGATA
11363267 TAAAA
1 TAAAA
11363272 AGGGGAATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TAAAAGAAATAAATTATATATAAATAGATA
Found at i:11364181 original size:18 final size:18
Alignment explanation
Indices: 11364158--11364199 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
11364148 TCGGTAAATA
*
11364158 TGGTTTTGTTAAATTGTT
1 TGGTTTTGTTAAATTGTG
11364176 TGGTTTTGTTAAATTGTG
1 TGGTTTTGTTAAATTGTG
11364194 TGGTTT
1 TGGTTT
11364200 CTTTTGGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (18 bp):
TGGTTTTGTTAAATTGTG
Found at i:11365729 original size:25 final size:27
Alignment explanation
Indices: 11365692--11365744 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11365682 TCAAACATGC
11365692 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11365718 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11365744 A
1 A
11365745 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11367258 original size:25 final size:26
Alignment explanation
Indices: 11367224--11367331 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
11367214 ACATGAATTC
11367224 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
11367249 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11367275 TTATCATGGAATATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
11367300 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11367326 TTATCA
1 TTATCA
11367332 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 46 0.59
26 32 0.41
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11367291 original size:51 final size:51
Alignment explanation
Indices: 11367224--11367331 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
11367214 ACATGAATTC
11367224 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* * *
11367275 TTATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
11367326 TTATCA
1 TTATCA
11367332 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:11371465 original size:25 final size:27
Alignment explanation
Indices: 11371428--11371480 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11371418 TCAAACATGC
11371428 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11371454 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11371480 A
1 A
11371481 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11373020 original size:26 final size:26
Alignment explanation
Indices: 11372962--11373070 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11372952 ACATGAATTC
11372962 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
11372987 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
11373013 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
11373039 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11373065 TTATCA
1 TTATCA
11373071 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 22 0.28
26 56 0.72
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11373963 original size:40 final size:40
Alignment explanation
Indices: 11373908--11373983 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
11373898 ATACGGTACC
*
11373908 ACTTGGTGGGTAGGGTTAGATGGGTTGATTTTATCCCCAT
1 ACTTGGTGGGTAGGGTTAGATGGGTCGATTTTATCCCCAT
* *
11373948 ACTTGGTGTGTAGGGTTAGGTGGGTCGATTTTATCC
1 ACTTGGTGGGTAGGGTTAGATGGGTCGATTTTATCC
11373984 TCACATGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.12, G:0.34, T:0.38
Consensus pattern (40 bp):
ACTTGGTGGGTAGGGTTAGATGGGTCGATTTTATCCCCAT
Found at i:11374002 original size:38 final size:39
Alignment explanation
Indices: 11373911--11374002 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 39
11373901 CGGTACCACT
* * *
11373911 TGGTGGGTAGGGTTAGATGGGTTGATTTTATCCCCATACT
1 TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCA-ACA
* *
11373951 TGGTGTGTAGGGTTAGGTGGGTCGATTTTATCCTC-ACA
1 TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCAACA
*
11373989 TGGTGTGTGGGGTT
1 TGGTGTGTAGGGTT
11374003 GGACGGAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 15 0.33
40 31 0.67
ACGTcount: A:0.14, C:0.11, G:0.37, T:0.38
Consensus pattern (39 bp):
TGGTGTGTAGGGTTAGATGGGTCGATTTTATCCCCAACA
Found at i:11377077 original size:20 final size:21
Alignment explanation
Indices: 11377039--11377078 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11377029 TTACGTGTAT
*
11377039 GCCAGCCCTGCTGCATATATGC
1 GCCAACCCTGCTG-ATATATGC
11377061 GCCAACCCTGCTG-TATAT
1 GCCAACCCTGCTGATATAT
11377079 TAATATCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (21 bp):
GCCAACCCTGCTGATATATGC
Found at i:11379318 original size:15 final size:16
Alignment explanation
Indices: 11379298--11379330 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11379288 ATATATATAT
11379298 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
11379313 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
11379330 T
1 T
11379331 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:11379403 original size:21 final size:22
Alignment explanation
Indices: 11379377--11379435 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
11379367 GTTTTAAGAA
*
11379377 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
11379398 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
11379420 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
11379436 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:11379450 original size:26 final size:24
Alignment explanation
Indices: 11379406--11379455 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
11379396 ATTTGTTTTA
* *
11379406 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTAAAAT
11379430 ATATTTGATTTATTATATTTTAAAAT
1 ATATTTG-TTT-TTATATTTTAAAAT
11379456 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTAAAAT
Found at i:11380565 original size:10 final size:10
Alignment explanation
Indices: 11380550--11380575 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11380540 TTGCTAGTTT
11380550 AATATTCGCA
1 AATATTCGCA
11380560 AATATTCGCA
1 AATATTCGCA
11380570 AATATT
1 AATATT
11380576 TTATTTTAGA
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (10 bp):
AATATTCGCA
Found at i:11383185 original size:56 final size:55
Alignment explanation
Indices: 11383099--11383210 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 55
11383089 TGTATCCATT
*
11383099 AGATGATAAATTATCACTTTTAATTTGAATAGTGCTT-ATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAGTG-TTCATGAATAATT-AATTTGTA
*
11383155 AGATGATAAATCATCATTTTTAATTTGAATAGTGTTCATGAATAATTAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAGTGTTCATGAATAATTAATTTGTA
11383210 A
1 A
11383211 TCTATAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
55 11 0.21
56 42 0.79
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTGAATAGTGTTCATGAATAATTAATTTGTA
Found at i:11423072 original size:127 final size:127
Alignment explanation
Indices: 11422886--11423203 Score: 406
Period size: 127 Copynumber: 2.5 Consensus size: 127
11422876 CAAAAAAACT
** * *
11422886 GAAACCCAGCACGGTAAGGCACGATTCTTCGAACTTCCAAACATTGAACATTGCTTTGTTTTAGA
1 GAAACCCAGCACGGTAAGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTGTTTTAGA
* *
11422951 ATTT-AAAGAATACGAACGAAATTCTAAAAGAATATTCGATTATTTTGAACAAAC-GATAAATC
66 ATTTGAAA-AACACGAACGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACAG-GAAATC
* * * *
11423013 GAAACCCAACACGATAAGGCACGATTCCCCGAATTTCCAAACCTTGAGCATTGCCTTGTTTTAGA
1 GAAACCCAGCACGGTAAGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTGTTTTAGA
* *** * *
11423078 ATTTGGAAAACACGTGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACAGGAAATC
66 ATTTGAAAAACACGAACGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACAGGAAATC
* * ** *
11423140 GAAACCCAGCACGGTAGGGCACGATTTCCCGAATTTCCAAACATCAAACACTGCCTTCGTTTTA
1 GAAACCCAGCACGGTAAGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GTTTTA
11423204 AGGAATTTTC
Statistics
Matches: 163, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
127 154 0.94
128 9 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (127 bp):
GAAACCCAGCACGGTAAGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTGTTTTAGA
ATTTGAAAAACACGAACGAAATTCTAAAAGAATATTCGATTATTTTGAACAAACAGGAAATC
Found at i:11425326 original size:14 final size:15
Alignment explanation
Indices: 11425307--11425335 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11425297 TTTACTTTGC
11425307 TTTC-TTTTTTGCTT
1 TTTCTTTTTTTGCTT
11425321 TTTCTTTTTTTGCTT
1 TTTCTTTTTTTGCTT
11425336 CTGTTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTTGCTT
Found at i:11425852 original size:44 final size:44
Alignment explanation
Indices: 11425769--11425852 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11425759 CCACTCCAGT
* * * * *
11425769 CTGCTCCACTGCAACTTCAGGGAGATGAGGTTTGTAATTTCGAC
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATCTGCAATTTCGAC
11425813 CTGCCCCACTGCAACTTCAGAGG-GATAAGATCTGCAATTT
1 CTGCCCCACTGCAACTTCAG-GGAGATAAGATCTGCAATTT
11425853 ATAGCTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
CTGCCCCACTGCAACTTCAGGGAGATAAGATCTGCAATTTCGAC
Found at i:11425937 original size:45 final size:45
Alignment explanation
Indices: 11425765--11425937 Score: 136
Period size: 51 Copynumber: 3.7 Consensus size: 45
11425755 TGCCCCACTC
* * *
11425765 CAGTCTGCTCCACTGCAACTTCAGGGAGATGAGGTTTG-TAAT-TT
1 CAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTT
* * * *
11425809 C-GACCTGCCCCACTGCAACTTCAGAGGGATAAGATCTGCAATTTATAGCTT
1 CAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGC----TAT--CTT
* * * * *
11425860 CAATTTGTTCCACTGCAACTTCAGAAAAATAAGATTTGCTATCTT
1 CAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTT
*
11425905 CAGTCTGCTCCACTGCAACATCAGAGAGATAAG
1 CAGTCTGCTCCACTGCAACTTCAGAGAGATAAG
11425938 GCTTGTTTTG
Statistics
Matches: 97, Mismatches: 22, Indels: 19
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.01
44 29 0.30
45 30 0.31
47 3 0.03
48 2 0.02
49 1 0.01
51 31 0.32
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CAGTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATCTT
Found at i:11426014 original size:137 final size:139
Alignment explanation
Indices: 11425765--11426034 Score: 355
Period size: 137 Copynumber: 1.9 Consensus size: 139
11425755 TGCCCCACTC
* * * * **
11425765 CAGTCTGCTCCACTGCAACTTCAGGGAGATGAGGTTTGTAATTTCGACCTGCCCCACTGCAACTT
1 CAGTCTGCTCCACTGCAACATCAGAGAGATAAGGCTTGT-ATTTCGACCTGCCCCACAACAACTT
* * * * *
11425830 CAGAGGGATAAGATCTGCAATTTATAGCTTCAATTTGTTCCACTGCAACTTCAGAAAAATAAGAT
65 CAGAGAGATAAGATCTGCAACTTATAGCTTCAATCTATTCCACTGCAACTTCAGAAAAACAAGAT
11425895 TTGCTATCTT
130 TTGCTATCTT
*
11425905 CAGTCTGCTCCACTGCAACATCAGAGAGATAAGGCTTGT-TTT-GACCTGCCCTACAACAACTTC
1 CAGTCTGCTCCACTGCAACATCAGAGAGATAAGGCTTGTATTTCGACCTGCCCCACAACAACTTC
* * * * **
11425968 AGAGAGATAGGATCTGTAGCTTATAGCTTCAATCTATTCTACTGCAACTTCAGGGAAACAAGATT
66 AGAGAGATAAGATCTGCAACTTATAGCTTCAATCTATTCCACTGCAACTTCAGAAAAACAAGATT
11426033 TG
131 TG
11426035 TTTTGACCTG
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 74 0.66
138 3 0.03
140 35 0.31
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (139 bp):
CAGTCTGCTCCACTGCAACATCAGAGAGATAAGGCTTGTATTTCGACCTGCCCCACAACAACTTC
AGAGAGATAAGATCTGCAACTTATAGCTTCAATCTATTCCACTGCAACTTCAGAAAAACAAGATT
TGCTATCTT
Found at i:11426170 original size:91 final size:91
Alignment explanation
Indices: 11425902--11426213 Score: 401
Period size: 92 Copynumber: 3.4 Consensus size: 91
11425892 GATTTGCTAT
* * * * * * * **
11425902 CTTCAGTCTGCTCCACTGCAACATCAGAGAGATAAGGCTTGTTTTGACCTGCCCTACAACAACTT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTTGACCTGCTCTACTGCAACTT
11425967 CAGAGAGATAGGATCTGTAGCTTATAG
66 CAGAGAGATAGGATCTGTAG-TTATAG
* * * * * *
11425994 CTTCAATCTATTCTACTGCAACTTCAGGGAAACAAGATTTGTTTTGACCTGTTCTAATGCAACTT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTTGACCTGCTCTACTGCAACTT
11426059 CAGAGAGATAGGATCTGTAGTTCATAG
66 CAGAGAGATAGGATCTGTAGTT-ATAG
* *
11426086 TTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTG-TTTGACGTGCTCTACTGCAACTT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTTGACCTGCTCTACTGCAACTT
* *
11426150 TAGAGAGATAAGATCTGTAGTATATAG
66 CAGAGAGATAGGATCTGTAGT-TATAG
* *
11426177 CTTCAATCTGTTTCACTGAAACTTCAGGGAAATAAGA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA
11426214 TATGCTATTT
Statistics
Matches: 190, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
91 79 0.42
92 111 0.58
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (91 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTTGACCTGCTCTACTGCAACTT
CAGAGAGATAGGATCTGTAGTTATAG
Found at i:11426321 original size:44 final size:43
Alignment explanation
Indices: 11426233--11426348 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 43
11426223 TTTGATCTAT
11426233 TCCACTGCAACTTCAGGGAGATAAGATCTACAATTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGAT-TACAATTTCAACCTGC
** * *
11426277 TCCACTGCAA-TCTCAGGGAGATAAGATTGATGATTTTAATCTGC
1 TCCACTGCAACT-TCAGGGAGATAAGATT-ACAATTTCAACCTGC
* * *
11426321 TTCACTGCAACTTCAAGAAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
11426349 CGCCGTAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 59 0.95
45 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTACAATTTCAACCTGC
Found at i:11437894 original size:127 final size:127
Alignment explanation
Indices: 11437704--11438002 Score: 397
Period size: 127 Copynumber: 2.4 Consensus size: 127
11437694 ACAAAAAAAC
* ** * * *
11437704 CGAAACCCAGCAC-AGTAGGGCACTATTCTTCGAACTTCCAAACATTGAACATTGCTTTGTTTTA
1 CGAAACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTATTTTA
*
11437768 GAATTT-AAAGAATACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-GAGAAAT
65 GAATTTGAAA-AACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAG-GAAAT
* * *
11437831 CGAAACCCAGCACGATAAGGCACGATTCCCCGAATTTCCAAACCTTGAGCATTGCCTTATTTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTATTTTAG
* * *
11437896 AATTTGGAAAACACGTATGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAACAGGAAAT
66 AATTTGAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAAT
* * * *
11437958 CGAAACCCAGCACGGTAGGGCACGATTTCCCAAATTTTCAAACAT
1 CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACAT
11438003 CACACATTAC
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
127 146 0.97
128 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (127 bp):
CGAAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTTATTTTAG
AATTTGAAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAAT
Found at i:11438592 original size:2 final size:2
Alignment explanation
Indices: 11438585--11438610 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11438575 AATGTAAGTA
11438585 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11438611 GAAATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11440131 original size:17 final size:15
Alignment explanation
Indices: 11440111--11440149 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11440101 TTTGTTACTG
*
11440111 TTTTGCTTTGCTTTCTT
1 TTTTGCTTT-CTCT-TT
11440128 TTTTGCTTTCTCTTT
1 TTTTGCTTTCTCTTT
11440143 TTTTGCT
1 TTTTGCT
11440150 CCTGTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.00, C:0.18, G:0.10, T:0.72
Consensus pattern (15 bp):
TTTTGCTTTCTCTTT
Found at i:11440699 original size:21 final size:20
Alignment explanation
Indices: 11440670--11440727 Score: 91
Period size: 21 Copynumber: 2.9 Consensus size: 20
11440660 CTAACAGAAT
11440670 AAAAGTATCAATACTTTGAA
1 AAAAGTATCAATACTTTGAA
11440690 AAAAGGTATCAATTA-TTTGAA
1 AAAA-GTATCAA-TACTTTGAA
11440711 AAAAGTATCAATACTTT
1 AAAAGTATCAATACTTT
11440728 AAGCGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.06
20 14 0.40
21 17 0.49
22 2 0.06
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAAGTATCAATACTTTGAA
Found at i:11443765 original size:20 final size:21
Alignment explanation
Indices: 11443734--11443776 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
11443724 TATTTAAGAG
11443734 TTAAGGGTGAAAAGT-AAAAGT
1 TTAAGGGTGAAAA-TAAAAAGT
11443755 TTAAGGG-GAAAATAAAAAGT
1 TTAAGGGTGAAAATAAAAAGT
11443775 TT
1 TT
11443777 TGAGGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.62
21 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
TTAAGGGTGAAAATAAAAAGT
Found at i:11446423 original size:16 final size:17
Alignment explanation
Indices: 11446402--11446435 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11446392 CAGTCTCTAG
*
11446402 TAGTTT-ACTATAGTTT
1 TAGTTTAACTACAGTTT
11446418 TAGTTTAACTACAGTTT
1 TAGTTTAACTACAGTTT
11446435 T
1 T
11446436 CAGTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (17 bp):
TAGTTTAACTACAGTTT
Found at i:11447288 original size:34 final size:34
Alignment explanation
Indices: 11447245--11447320 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
11447235 AAACCCCTTT
** *
11447245 CAGTATCAGTAACGGTTTA-AGCCTTATCCCATCA
1 CAGTATCAGT-ACGCATTAGAGCCTTAGCCCATCA
* *
11447279 CAGTATCAGTATGCATTAGGGCCTTAGCCCATCA
1 CAGTATCAGTACGCATTAGAGCCTTAGCCCATCA
11447313 CAGTATCA
1 CAGTATCA
11447321 ATAGCAGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 5 0.14
34 31 0.86
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTACGCATTAGAGCCTTAGCCCATCA
Found at i:11459114 original size:26 final size:25
Alignment explanation
Indices: 11459085--11459145 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
11459075 TCAGTTGTTG
*
11459085 CAAACACTCAGTATCCCAAGCCAACT
1 CAAACACTCAG-AGCCCAAGCCAACT
* *
11459111 CAAACACTCCAGCGCCTAAGCCAACT
1 CAAACACT-CAGAGCCCAAGCCAACT
11459137 CAAACACTC
1 CAAACACTC
11459146 CGACGGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.03
26 27 0.87
27 3 0.10
ACGTcount: A:0.38, C:0.41, G:0.08, T:0.13
Consensus pattern (25 bp):
CAAACACTCAGAGCCCAAGCCAACT
Found at i:11459941 original size:15 final size:15
Alignment explanation
Indices: 11459917--11459965 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
11459907 ATTTAAAAAG
*
11459917 TAAATGAATAATAAA
1 TAAATAAATAATAAA
*
11459932 TAAATAAATAGATAGA
1 TAAATAAATA-ATAAA
11459948 TAAAATAAAT-ATAAA
1 T-AAATAAATAATAAA
11459963 TAA
1 TAA
11459966 TATTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.48
16 5 0.17
17 8 0.28
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
TAAATAAATAATAAA
Found at i:11459976 original size:73 final size:73
Alignment explanation
Indices: 11459741--11460178 Score: 521
Period size: 73 Copynumber: 6.2 Consensus size: 73
11459731 TGGATAATGA
* * * *
11459741 AAAAGAAATATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAAT--A-
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
*
11459803 A-CTAGAT
66 AGATAGAT
* *
11459810 --AA-AAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAGAT--A-
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
11459869 A-ATAGAT
66 AGATAGAT
*
11459876 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAATGAATAATAAATAAATAAAT
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
11459941 AGATAGAT
66 AGATAGAT
* ** *
11459949 AAAATAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAGCTAAACAAAT
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
* * *
11460014 AAACAAAT
66 AGATAGAT
** * * * *
11460022 AAAACAAATATAAATAATATCGAATTTAAAATGTTTAAAAAGTAAAATAATAACAAATAAATAAA
1 AAAACAAATATAAATAATATTAAATTT-AAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAA
11460087 TAGATA-AT
65 TAGATAGAT
** * *
11460095 ---ACAAATATAAGCAATATAAAATTTAA-TATTTAAAAAGTAAAAGAATAACAAATAAATAAAT
1 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
*
11460156 AAATAGAT
66 AGATAGAT
11460164 AAAACAAATATAAAT
1 AAAACAAATATAAAT
11460179 GGATGAAATT
Statistics
Matches: 319, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
66 58 0.18
67 2 0.01
68 39 0.12
69 57 0.18
70 20 0.06
71 1 0.00
72 11 0.03
73 97 0.30
74 34 0.11
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (73 bp):
AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAAT
AGATAGAT
Found at i:11460110 original size:22 final size:22
Alignment explanation
Indices: 11460068--11460110 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11460058 AAAAAGTAAA
*
11460068 ATAATAACAAATAAATAAATAG
1 ATAATAACAAATAAAGAAATAG
*
11460090 ATAAT-ACAAATATAAGCAATA
1 ATAATAACAAATA-AAGAAATA
11460111 TAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
ATAATAACAAATAAAGAAATAG
Found at i:11460125 original size:142 final size:138
Alignment explanation
Indices: 11459741--11460178 Score: 571
Period size: 142 Copynumber: 3.1 Consensus size: 138
11459731 TGGATAATGA
* * * *
11459741 AAAAGAAATATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAACT
1 AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAATAATAATAAATAAATAAAT
*
11459806 AGAT-A-AAAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAAT-AATAAATAGAT
66 AGATAATAAAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAATAAATAAAT
11459868 AAATAGAT
131 AAATAGAT
* *
11459876 AAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGT-AAATGAATAATAAATAAATAAA
1 AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAT-AATAATAAATAAATAAA
11459940 TAGATAGATAAAATAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAGC
65 TAGATA-ATAAAAT--ATA-AAA-AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAA-A--
* * *
11460005 TAAACAAATAAACAAAT
122 TAAATAAATAAATAGAT
* * *
11460022 AAAACAAATATAAATAATATCGAATTTAAAATGTTTAAAAAGTAAAATAATAACAAATAAATAAA
1 AAAACAAATATAAATAATATCAAATTT-AAATATTTAAAAAGTAAAATAATAATAAATAAATAAA
** *
11460087 TAGATAATACAAATATAAGCAATATAAAATTTAA-TATTTAAAAAGTAAAAGAATAACAAATAAA
65 TAGATAATA-AAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAAT---AAATAAA
11460151 TAAATAAATAGAT
126 TAAATAAATAGAT
11460164 AAAACAAATATAAAT
1 AAAACAAATATAAAT
11460179 GGATGAAATT
Statistics
Matches: 264, Mismatches: 21, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
134 3 0.01
135 59 0.22
137 1 0.00
138 5 0.02
140 3 0.01
141 3 0.01
142 84 0.32
143 14 0.05
144 3 0.01
145 5 0.02
146 41 0.16
147 39 0.15
148 4 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (138 bp):
AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAATAATAATAAATAAATAAAT
AGATAATAAAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAATAAATAAAT
AAATAGAT
Found at i:11460175 original size:215 final size:208
Alignment explanation
Indices: 11459741--11460178 Score: 583
Period size: 215 Copynumber: 2.1 Consensus size: 208
11459731 TGGATAATGA
* * *
11459741 AAAAGAAATATAAGTAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAACT
1 AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAATAACT
* * * * *
11459806 AGATAAAAATATAAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAGATAAA
66 AAATAAAAATATAAAAAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAA
* * * *
11459871 TAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAATGAATAATAAATAAA
131 TAGATAAAACAAATATAAACAATATAAAATTTAAGTATTTAAAAAGTAAAAGAATAACAAATAAA
*
11459936 TAAATAGATAGAT
196 TAAATAAATAGAT
* * *
11459949 AAAATAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAGCTAAACAAAT
1 AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAAT-A-A--TAAACAAAT
* * * *
11460014 AAAC-AAATAAAACAAATATAAATAATATCGAATTTAAAATGTTTAAAAAGTAAAATAATAACAA
62 -AACTAAAT--AA-AAATATAAAAAATATCAAATTT-AAATATTTAAAAAGTAAAAGAATAACAA
* *
11460078 ATAAATAAATAGATAATACAAATATAAGCAATATAAAATTTAA-TATTTAAAAAGTAAAAGAATA
122 ATAAATAAATAGATAAAACAAATATAAACAATATAAAATTTAAGTATTTAAAAAGTAAAAGAATA
11460142 ACAAATAAATAAATAAATAGAT
187 ACAAATAAATAAATAAATAGAT
11460164 AAAACAAATATAAAT
1 AAAACAAATATAAAT
11460179 GGATGAAATT
Statistics
Matches: 199, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
208 46 0.23
209 1 0.01
210 1 0.01
212 11 0.06
213 3 0.02
214 2 0.01
215 73 0.37
216 62 0.31
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (208 bp):
AAAACAAATATAAATAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAACAAATAACT
AAATAAAAATATAAAAAATATCAAATTTAAATATTTAAAAAGTAAAAGAATAACAAATAAATAAA
TAGATAAAACAAATATAAACAATATAAAATTTAAGTATTTAAAAAGTAAAAGAATAACAAATAAA
TAAATAAATAGAT
Found at i:11472411 original size:14 final size:15
Alignment explanation
Indices: 11472389--11472428 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11472379 TAAAATTTTA
11472389 AAAATATTTAATAA-C
1 AAAA-ATTTAATAATC
11472404 AAAAATTTAATAATC
1 AAAAATTTAATAATC
*
11472419 AAAATTTTAA
1 AAAAATTTAA
11472429 ACATCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAATTTAATAATC
Found at i:11472683 original size:41 final size:40
Alignment explanation
Indices: 11472638--11472758 Score: 109
Period size: 39 Copynumber: 3.0 Consensus size: 40
11472628 AAACAGGTTT
*
11472638 TTAGCGGCGTTTTAATAGAAAACGCCACTAAAGGTTGAGCA
1 TTAGCGGCGTTTTAA-ACAAAACGCCACTAAAGGTTGAGCA
* * * ** * * *
11472679 TTAGCGGTG-CTTCAACAAAACGCTGCAAAAGATCGAGCA
1 TTAGCGGCGTTTTAAACAAAACGCCACTAAAGGTTGAGCA
* * *
11472718 TTAGCGGCGTTTTAAATAAAGCGCCACTAAAAGGTTCAGCA
1 TTAGCGGCGTTTTAAACAAAACGCCACT-AAAGGTTGAGCA
11472759 AAATGACGTT
Statistics
Matches: 58, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
39 27 0.47
40 14 0.24
41 17 0.29
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGTTTTAAACAAAACGCCACTAAAGGTTGAGCA
Found at i:11473611 original size:7 final size:8
Alignment explanation
Indices: 11473601--11473711 Score: 52
Period size: 7 Copynumber: 15.5 Consensus size: 8
11473591 ACTATTTAAA
11473601 GGTTTA-G
1 GGTTTATG
11473608 GGTTTATG
1 GGTTTATG
*
11473616 GGTTTA-A
1 GGTTTATG
*
11473623 GGATTAT-
1 GGTTTATG
11473630 -GTTTAT-
1 GGTTTATG
*
11473636 GGCTTAT-
1 GGTTTATG
*
11473643 GGTTTAAG
1 GGTTTATG
*
11473651 GG-TT-GG
1 GGTTTATG
*
11473657 GGTTTAAG
1 GGTTTATG
11473665 GG-TTATG
1 GGTTTATG
11473672 GG-TTA-G
1 GGTTTATG
*
11473678 TGG-TTAGG
1 -GGTTTATG
11473686 GGTTTATG
1 GGTTTATG
11473694 GG-TTATG
1 GGTTTATG
11473701 GG-TTATG
1 GGTTTATG
11473708 GGTT
1 GGTT
11473712 AATGCTTAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
6 9 0.11
7 55 0.65
8 20 0.24
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (8 bp):
GGTTTATG
Found at i:11473712 original size:7 final size:7
Alignment explanation
Indices: 11473632--11473712 Score: 67
Period size: 7 Copynumber: 11.4 Consensus size: 7
11473622 AGGATTATGT
*
11473632 TTATGGC
1 TTATGGG
*
11473639 TTATGGT
1 TTATGGG
*
11473646 TTAAGGG
1 TTATGGG
*
11473653 TT-GGGG
1 TTATGGG
*
11473659 TTTAAGGG
1 -TTATGGG
11473667 TTATGGG
1 TTATGGG
11473674 TTA-GTGG
1 TTATG-GG
*
11473681 TTAGGGG
1 TTATGGG
11473688 TTTATGGG
1 -TTATGGG
11473696 TTATGGG
1 TTATGGG
11473703 TTATGGG
1 TTATGGG
11473710 TTA
1 TTA
11473713 ATGCTTAGGG
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
6 4 0.06
7 48 0.77
8 10 0.16
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:11473763 original size:14 final size:14
Alignment explanation
Indices: 11473744--11473789 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11473734 GTGGTTTAAG
11473744 GTTTAGGGGATATA
1 GTTTAGGGGATATA
* *
11473758 GTTTAGGGTACTTTA
1 GTTTAGGGGA-TATA
11473773 G--TAGGGGATATA
1 GTTTAGGGGATATA
11473785 GTTTA
1 GTTTA
11473790 ATGGATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 11 0.44
15 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGATATA
Found at i:11473831 original size:100 final size:99
Alignment explanation
Indices: 11473727--11474068 Score: 300
Period size: 100 Copynumber: 3.4 Consensus size: 99
11473717 TTAGGGGTTT
* *
11473727 TTATTTTGTGGTTTAAGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
1 TTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
11473792 GGATTAAGGTTTAGAGTATTGATTAATTAGTGTTA
66 GG-TTAAGGTTTAGAGTATTGATTAATTAGTGTTA
* * * * * **** * **
11473827 TTATTTTGTGGTTTAAGAATCAGGGGATATAGTTTAGGGT--TATGATTAATTCATACA-TTTGG
1 TTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGTACT-TTAGTAGGGGATATAGTTTAA
* ** * * *
11473889 TGGTTAAGGCTTAG-GGGTT-ATTATTTTGTGGT-
65 TGGTTAAGGTTTAGAGTATTGATTAATTAGTGTTA
* * * * * * *
11473921 TTATGGTTAGGGGATATAGTTCAGGGTTTAACGGATATAGTTTAAGGTACGTTAGTAGGGGATAT
1 TTAT--TTTGTGG---T--TT-AAGGATTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATAT
11473986 AGTTTAATGGTTTAAGGTTTAGAGTATTGATTAATTAGTGTTA
58 AGTTTAATGG-TTAAGGTTTAGAGTATTGATTAATTAGTGTTA
11474029 TTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGT
1 TTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGT
11474069 TATGATTAAT
Statistics
Matches: 177, Mismatches: 49, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
94 4 0.02
95 10 0.06
96 8 0.05
97 10 0.06
98 7 0.04
99 9 0.05
100 59 0.33
101 4 0.02
102 19 0.11
103 9 0.05
104 6 0.03
105 10 0.06
106 8 0.05
107 10 0.06
108 4 0.02
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (99 bp):
TTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAAT
GGTTAAGGTTTAGAGTATTGATTAATTAGTGTTA
Found at i:11473983 original size:202 final size:202
Alignment explanation
Indices: 11473751--11474153 Score: 725
Period size: 202 Copynumber: 2.0 Consensus size: 202
11473741 AAGGTTTAGG
* *
11473751 GGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGATTAAGGTTTAGAGTATTGATT
1 GGATATAGTTTAAGGTACGTTAGTAGGGGATATAGTTTAATGGATTAAGGTTTAGAGTATTGATT
*
11473816 AATTAGTGTTATTATTTTGTGGTTTAAGAATCAGGGGATATAGTTTAGGGTTATGATTAATTCAT
66 AATTAGTGTTATTATTTTGTGGTTTAAGAATCAAGGGATATAGTTTAGGGTTATGATTAATTCAT
11473881 ACATTTGGTGGTTAAGGCTTAGGGGTTATTATTTTGTGGTTTATGGTTAGGGGATATAGTTCAGG
131 ACATTTGGTGGTTAAGGCTTAGGGGTTATTATTTTGTGGTTTATGGTTAGGGGATATAGTTCAGG
11473946 GTTTAAC
196 GTTTAAC
*
11473953 GGATATAGTTTAAGGTACGTTAGTAGGGGATATAGTTTAATGGTTTAAGGTTTAGAGTATTGATT
1 GGATATAGTTTAAGGTACGTTAGTAGGGGATATAGTTTAATGGATTAAGGTTTAGAGTATTGATT
* *
11474018 AATTAGTGTTATTATTTTGTGGTTTAAGGATTAAGGGATATAGTTTAGGGTTATGATTAATTCAT
66 AATTAGTGTTATTATTTTGTGGTTTAAGAATCAAGGGATATAGTTTAGGGTTATGATTAATTCAT
* * *
11474083 ACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGGGGATATAGTTTAGG
131 ACATTTGGTGGTTAAGGCTTAGGGGTTATTATTTTGTGGTTTATGGTTAGGGGATATAGTTCAGG
11474148 GTTTAA
196 GTTTAA
11474154 GGTTATGGGG
Statistics
Matches: 192, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
202 192 1.00
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (202 bp):
GGATATAGTTTAAGGTACGTTAGTAGGGGATATAGTTTAATGGATTAAGGTTTAGAGTATTGATT
AATTAGTGTTATTATTTTGTGGTTTAAGAATCAAGGGATATAGTTTAGGGTTATGATTAATTCAT
ACATTTGGTGGTTAAGGCTTAGGGGTTATTATTTTGTGGTTTATGGTTAGGGGATATAGTTCAGG
GTTTAAC
Found at i:11474132 original size:28 final size:28
Alignment explanation
Indices: 11474090--11474186 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
11474080 CATACATTTT
* * *
11474090 GTGG-TTAAGGCTTAGGGGTTATTGTTTT
1 GTGGTTTAAGG-TTAGGGGATATAGTTTA
*
11474118 GTGGTTTATGGTTAGGGGATATAGTTTA
1 GTGGTTTAAGGTTAGGGGATATAGTTTA
11474146 G-GGTTTAAGGTTATGGGGATATAGTTTA
1 GTGGTTTAAGGTTA-GGGGATATAGTTTA
*
11474174 ATGGTTTAAGGTT
1 GTGGTTTAAGGTT
11474187 TAGAGTTTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 11 0.18
28 33 0.55
29 16 0.27
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (28 bp):
GTGGTTTAAGGTTAGGGGATATAGTTTA
Found at i:11474789 original size:14 final size:14
Alignment explanation
Indices: 11474770--11474800 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11474760 TTCCCCTCAA
*
11474770 TTTCCCCCAGATTT
1 TTTCCCCCAAATTT
11474784 TTTCCCCCAAATTT
1 TTTCCCCCAAATTT
11474798 TTT
1 TTT
11474801 ACCCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.03, T:0.48
Consensus pattern (14 bp):
TTTCCCCCAAATTT
Found at i:11477373 original size:14 final size:13
Alignment explanation
Indices: 11477352--11477381 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11477342 TATTACTATA
11477352 TAATTATATGAAG
1 TAATTATATGAAG
11477365 TAATATATATGAAG
1 TAAT-TATATGAAG
11477379 TAA
1 TAA
11477382 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:11478847 original size:17 final size:17
Alignment explanation
Indices: 11478825--11478858 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11478815 AATGTTTCTA
*
11478825 ATTCAAAATTAATATAT
1 ATTCAAAAGTAATATAT
11478842 ATTCAAAAGTAATATAT
1 ATTCAAAAGTAATATAT
11478859 TTTTTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTCAAAAGTAATATAT
Found at i:11478897 original size:9 final size:9
Alignment explanation
Indices: 11478883--11479211 Score: 85
Period size: 9 Copynumber: 36.8 Consensus size: 9
11478873 CCAGCAACTC
11478883 ACATAATTT
1 ACATAATTT
11478892 ACATAATTT
1 ACATAATTT
*
11478901 AC-TGAACTT
1 ACAT-AATTT
11478910 ACATAA--T
1 ACATAATTT
* *
11478917 ACATGACTT
1 ACATAATTT
11478926 ACATAATTT
1 ACATAATTT
11478935 AAACATCAAATTT
1 --ACAT--AATTT
*
11478948 -CATAACTT
1 ACATAATTT
*
11478956 ACATGA--T
1 ACATAATTT
*
11478963 ACATAACTT
1 ACATAATTT
11478972 ACATAATTT
1 ACATAATTT
11478981 AAAGACCA-AATTT
1 ----A-CATAATTT
*
11478994 -CATAAGTT
1 ACATAATTT
11479002 ACATAATTT
1 ACATAATTT
*
11479011 ACATAA-TA
1 ACATAATTT
** *
11479019 ATTTGAAGTT
1 ACAT-AATTT
11479029 -CA-AATTT
1 ACATAATTT
*
11479036 -CATAACTT
1 ACATAATTT
11479044 ACATAATTT
1 ACATAATTT
11479053 AAAGACCA-AATTT
1 ----A-CATAATTT
*
11479066 -CATAAGTT
1 ACATAATTT
11479074 ACATAATTT
1 ACATAATTT
*
11479083 ACATAACTT
1 ACATAATTT
11479092 ACATAATAATT
1 ACATAAT--TT
* *
11479103 -TA-AAGTT
1 ACATAATTT
11479110 -CA-AATTT
1 ACATAATTT
*
11479117 -CATAACTT
1 ACATAATTT
11479125 ACATAA--T
1 ACATAATTT
*
11479132 ACATAACTT
1 ACATAATTT
11479141 ACATAATTT
1 ACATAATTT
* *
11479150 AAAGATCAAAATT
1 --ACAT--AATTT
*
11479163 -CATGATTT
1 ACATAATTT
11479171 ACATAATTT
1 ACATAATTT
*
11479180 ACATAACTT
1 ACATAATTT
11479189 ACATAA--T
1 ACATAATTT
*
11479196 ACATAACTT
1 ACATAATTT
11479205 ACATAAT
1 ACATAAT
11479212 ACATGACTTA
Statistics
Matches: 241, Mismatches: 37, Indels: 84
0.67 0.10 0.23
Matches are distributed among these distances:
7 45 0.19
8 27 0.11
9 127 0.53
10 8 0.03
11 9 0.04
13 21 0.09
14 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.36
Consensus pattern (9 bp):
ACATAATTT
Found at i:11478951 original size:21 final size:21
Alignment explanation
Indices: 11478927--11478998 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
11478917 ACATGACTTA
*
11478927 CATAATTTAAACATCAAATTT
1 CATAATTTAAAGATCAAATTT
* * *
11478948 CATAACTTACATGATACATAACTTA
1 CATAATTTA-AAGAT-CA-AA-TTT
*
11478973 CATAATTTAAAGACCAAATTT
1 CATAATTTAAAGATCAAATTT
11478994 CATAA
1 CATAA
11478999 GTTACATAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
21 15 0.38
22 5 0.13
23 4 0.10
24 5 0.13
25 10 0.26
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (21 bp):
CATAATTTAAAGATCAAATTT
Found at i:11478965 original size:46 final size:45
Alignment explanation
Indices: 11478905--11479195 Score: 221
Period size: 46 Copynumber: 6.6 Consensus size: 45
11478895 TAATTTACTG
* *
11478905 AACTTACATAATACATGACTTACATAATTTAAACATCAAATTTCAT
1 AACTTACAT-ATACATAACTTACATAATTTAAAGATCAAATTTCAT
*
11478951 AACTTACATGATACATAACTTACATAATTTAAAGACCAAATTTCAT
1 AACTTACAT-ATACATAACTTACATAATTTAAAGATCAAATTTCAT
* * * * * *
11478997 AAGTTACATA-A-TTTACATA-ATAATTTGAAGTTCAAATTTCAT
1 AACTTACATATACATAACTTACATAATTTAAAGATCAAATTTCAT
** ** * * *
11479039 AACTTACATA-ATTTAA-AGACCA-AATTT---CAT-AAGTTACAT
1 AACTTACATATACATAACTTA-CATAATTTAAAGATCAAATTTCAT
* * * *
11479078 AATTTACATA-AC-TTACATA-ATAATTTAAAGTTCAAATTTCAT
1 AACTTACATATACATAACTTACATAATTTAAAGATCAAATTTCAT
*
11479120 AACTTACATAATACATAACTTACATAATTTAAAGATCAAAATTCAT
1 AACTTACAT-ATACATAACTTACATAATTTAAAGATCAAATTTCAT
* *
11479166 GATTTACATAATTTACATAACTTACATAAT
1 AACTTACAT-A--TACATAACTTACATAAT
11479196 ACATAACTTA
Statistics
Matches: 197, Mismatches: 33, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
37 1 0.01
38 7 0.04
39 19 0.10
40 1 0.01
41 1 0.01
42 47 0.24
43 14 0.07
44 4 0.02
45 6 0.03
46 80 0.41
48 17 0.09
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (45 bp):
AACTTACATATACATAACTTACATAATTTAAAGATCAAATTTCAT
Found at i:11479138 original size:16 final size:16
Alignment explanation
Indices: 11479117--11479226 Score: 107
Period size: 16 Copynumber: 6.9 Consensus size: 16
11479107 GTTCAAATTT
11479117 CATAACTTACATAATA
1 CATAACTTACATAATA
*
11479133 CATAACTTACATAATT
1 CATAACTTACATAATA
* ** * *
11479149 TA-AAGAT-CAAAATT
1 CATAACTTACATAATA
* *
11479163 CATGATTTACATAATTTA
1 CATAACTTACATAA--TA
11479181 CATAACTTACATAATA
1 CATAACTTACATAATA
11479197 CATAACTTACATAATA
1 CATAACTTACATAATA
*
11479213 CATGACTTACATAA
1 CATAACTTACATAA
11479227 CTTAATTATA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
14 7 0.09
15 5 0.07
16 51 0.67
18 13 0.17
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:11479223 original size:9 final size:9
Alignment explanation
Indices: 11479066--11479230 Score: 82
Period size: 9 Copynumber: 19.0 Consensus size: 9
11479056 GACCAAATTT
*
11479066 CATAAGTTA
1 CATAACTTA
*
11479075 CATAATTTA
1 CATAACTTA
11479084 CATAACTTA
1 CATAACTTA
*
11479093 CATAA-TAA
1 CATAACTTA
** *
11479101 TTTAAAGTT-
1 CAT-AACTTA
*
11479110 CA-AA-TTT
1 CATAACTTA
11479117 CATAACTTA
1 CATAACTTA
11479126 CATAA--TA
1 CATAACTTA
11479133 CATAACTTA
1 CATAACTTA
*
11479142 CATAATTTAAA
1 CATAACTT--A
* *
11479153 GATCAAAATT-
1 CAT--AACTTA
* *
11479163 CATGATTTA
1 CATAACTTA
*
11479172 CATAATTTA
1 CATAACTTA
11479181 CATAACTTA
1 CATAACTTA
11479190 CATAA--TA
1 CATAACTTA
11479197 CATAACTTA
1 CATAACTTA
11479206 CATAA--TA
1 CATAACTTA
*
11479213 CATGACTTA
1 CATAACTTA
11479222 CATAACTTA
1 CATAACTTA
11479231 ATTATACTTA
Statistics
Matches: 121, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
6 2 0.02
7 24 0.20
8 8 0.07
9 77 0.64
10 3 0.02
11 3 0.02
13 4 0.03
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:11484773 original size:21 final size:21
Alignment explanation
Indices: 11484708--11484762 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
11484698 ACTCAGAGCG
*
11484708 GAGGCAGCAACGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
11484729 GCGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
11484750 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
11484763 TGGCAGCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.49, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:11485030 original size:32 final size:32
Alignment explanation
Indices: 11484994--11485079 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 32
11484984 TTAGAATTAA
*
11484994 TGTTTTTGGTTGTATTTTTATGCTAAATTTAC
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTAC
* * * **
11485026 TGTTTTTGGCTGCA-TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTAC
* * *
11485057 TGTATTTGGTTGGATTTTAATGC
1 TGTTTTTGGTTGCATTTTTATGC
11485080 AGGAAGGGCT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 24 0.57
32 18 0.43
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.57
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTTATGCTAAATTTAC
Found at i:11490652 original size:2 final size:2
Alignment explanation
Indices: 11490645--11490683 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11490635 ATTTATGTTA
11490645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11490684 AGTTAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11493348 original size:20 final size:20
Alignment explanation
Indices: 11493303--11493349 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11493293 TAGTTTGATT
*
11493303 AATTTTAGTTATTAAATATT
1 AATTTTAGTTATTAAATATC
* *
11493323 ATTTTTAGTT-TTAGGATATC
1 AATTTTAGTTATTA-AATATC
11493343 AATTTTA
1 AATTTTA
11493350 ATTTAAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (20 bp):
AATTTTAGTTATTAAATATC
Found at i:11495140 original size:18 final size:18
Alignment explanation
Indices: 11495086--11495151 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
11495076 GTAGAAAAAA
*
11495086 AATAATGATATTTGAAAT
1 AATAATTATATTTGAAAT
* **
11495104 -AT-TTTATATATAAAAAT
1 AATAATTATAT-TTGAAAT
11495121 AATAATTATATTTGAAAT
1 AATAATTATATTTGAAAT
* *
11495139 AATTATTTTATTT
1 AATAATTATATTT
11495152 TATAAAATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
16 5 0.14
17 7 0.19
18 18 0.50
19 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
AATAATTATATTTGAAAT
Found at i:11495538 original size:18 final size:18
Alignment explanation
Indices: 11495515--11495552 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11495505 TGAAGACAAG
11495515 AACAGCATAGCA-AAAAAA
1 AACAGCA-AGCAGAAAAAA
*
11495533 AACAGCAAGGAGAAAAAA
1 AACAGCAAGCAGAAAAAA
11495551 AA
1 AA
11495553 ATAGAGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.68, C:0.13, G:0.16, T:0.03
Consensus pattern (18 bp):
AACAGCAAGCAGAAAAAA
Found at i:11496466 original size:20 final size:19
Alignment explanation
Indices: 11496423--11496469 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11496413 TGTTCGTATA
* *
11496423 TATTT-AAACCTTTTTATT
1 TATTTAAAACCATTTTAGT
11496441 TATTTAAAACCATTTTAGT
1 TATTTAAAACCATTTTAGT
*
11496460 TATTTTAAAC
1 TATTTAAAAC
11496470 TTTGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTTAAAACCATTTTAGT
Found at i:11496758 original size:32 final size:31
Alignment explanation
Indices: 11496721--11496792 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
11496711 TTTTATGTAT
11496721 TATATTTTAAACTATT-TATATTTTATTTTAAA
1 TATATTTTAAACT-TTATATA-TTTATTTTAAA
*
11496753 TATATTCTTAAACTTTATTTATTTATTTTAAA
1 TATATT-TTAAACTTTATATATTTATTTTAAA
*
11496785 -ATCTTTTA
1 TATATTTTA
11496793 TTTATTACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 4 0.11
32 19 0.53
33 10 0.28
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (31 bp):
TATATTTTAAACTTTATATATTTATTTTAAA
Found at i:11496887 original size:2 final size:2
Alignment explanation
Indices: 11496841--11496868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11496831 ATCTTATACT
11496841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11496869 CCTTAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11499916 original size:26 final size:26
Alignment explanation
Indices: 11499880--11500015 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
11499870 TGATACAAAT
11499880 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11499906 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11499932 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11499958 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11499984 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11500010 TGATAA
1 TGATAA
11500016 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:11502050 original size:137 final size:136
Alignment explanation
Indices: 11501804--11502089 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
11501794 GAGTAGTCTT
*
11501804 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
11501869 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
11501934 CTGTTA
131 CTGTTA
11501940 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
11502005 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
11502070 ACTGTTG
130 ACTGTTA
**
11502077 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11502090 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 122 0.86
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:11504150 original size:43 final size:42
Alignment explanation
Indices: 11504078--11504163 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
11504068 TTGAGTAAAT
* * ** * *
11504078 ATTCTTTTATTCATTTCATACTGTACAAATGATTATCCTTAG
1 ATTCTTTCATTCATATCATACCATACAAATAATCATCCTTAG
11504120 ATTCTTTCATTCATGATCATACCATACAAATAATCATCCTTAG
1 ATTCTTTCATTCAT-ATCATACCATACAAATAATCATCCTTAG
11504163 A
1 A
11504164 ATCATTCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.35
43 24 0.65
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.42
Consensus pattern (42 bp):
ATTCTTTCATTCATATCATACCATACAAATAATCATCCTTAG
Found at i:11504318 original size:23 final size:23
Alignment explanation
Indices: 11504288--11504334 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11504278 ATCTCAGGAC
11504288 CTTGAAGATGATAGAGATTGTAG
1 CTTGAAGATGATAGAGATTGTAG
11504311 CTTGAAGATGATAGAGATTGTAG
1 CTTGAAGATGATAGAGATTGTAG
11504334 C
1 C
11504335 CTATCTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (23 bp):
CTTGAAGATGATAGAGATTGTAG
Found at i:11504893 original size:11 final size:11
Alignment explanation
Indices: 11504877--11504909 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
11504867 ATCGAACTTC
11504877 AAAAAAAAAGA
1 AAAAAAAAAGA
11504888 AAAAAAAAAGA
1 AAAAAAAAAGA
11504899 AAAAGAAAAAG
1 AAAA-AAAAAG
11504910 GGAGATTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:11504903 original size:17 final size:16
Alignment explanation
Indices: 11504877--11504908 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11504867 ATCGAACTTC
11504877 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
11504893 AAAAGAAAAAGAAAAA
1 AAAA-AAAAAGAAAAA
11504909 GGGAGATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAA
Found at i:11504909 original size:6 final size:6
Alignment explanation
Indices: 11504877--11504909 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
11504867 ATCGAACTTC
11504877 AAAA-A AAAAGA AAAA-A AAAAGA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
11504910 GGAGATTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:11505444 original size:15 final size:15
Alignment explanation
Indices: 11505423--11505462 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
11505413 TGAGACCTTC
11505423 AAAAAAGAAGAAGAA
1 AAAAAAGAAGAAGAA
*
11505438 GAAAAAGAAGAAGAA
1 AAAAAAGAAGAAGAA
11505453 AAGAAAAGAA
1 AA-AAAAGAA
11505463 AAGGAGAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAGAAGAA
Done.