Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 74 of 218
Found at i:22110441 original size:22 final size:22
Alignment explanation
Indices: 22110413--22110456 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22110403 TTTTCATTTC
22110413 ATGTTTGAACAACAGTTAGAAT
1 ATGTTTGAACAACAGTTAGAAT
22110435 ATGTTTGAACAACAGTTAGAAT
1 ATGTTTGAACAACAGTTAGAAT
22110457 GAACAGTTTA
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:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
ATGTTTGAACAACAGTTAGAAT
Found at i:22116371 original size:26 final size:26
Alignment explanation
Indices: 22116341--22116393 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
22116331 TTGGATAAAA
22116341 AGGGGTCT-CTAAGTG-TGGATTCCCCG
1 AGGGGT-TGCTAAGTGCT-GATTCCCCG
22116367 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
22116393 A
1 A
22116394 ATTATTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 1 0.04
26 23 0.92
27 1 0.04
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:22116417 original size:42 final size:43
Alignment explanation
Indices: 22116370--22116604 Score: 209
Period size: 43 Copynumber: 5.6 Consensus size: 43
22116360 TTCCCCGAGG
* *
22116370 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAAGGT
* *
22116412 GGTTGCTAAGTACTGATTCCACTGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATTA-TTGATTGT-AAAGGT
* * * * *
22116455 GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAAGGT
* *
22116497 GGTTGCTAAGTGTTGATTCCATCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TATTGATTGT-AAAGGT
* * * **
22116540 GGTTGCTATGTGGTGATTCC-CCGTATCACTAAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTA-TTGATTGTAAAGGT
*
22116581 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
22116605 AGTAATGGAT
Statistics
Matches: 154, Mismatches: 27, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
40 4 0.03
41 22 0.14
42 57 0.37
43 61 0.40
44 10 0.06
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAAGGT
Found at i:22116514 original size:85 final size:85
Alignment explanation
Indices: 22116367--22116602 Score: 332
Period size: 85 Copynumber: 2.8 Consensus size: 85
22116357 GGATTCCCCG
* * * * * *
22116367 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTACTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
22116432 ACT-GTATATTTGATTGTGAA
65 ACTCGTATATTTGATTGTGAA
*
22116452 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
22116517 A-TCGTATCTTTGATTGTGAA
65 ACTCGTATATTTGATTGTGAA
* * * *
22116537 AGGGGTTGCTATGTGGTGATTCCCCGTATCACTAAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
22116602 C
66 C
22116603 CGAGTAATGG
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
84 26 0.19
85 109 0.81
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CTCGTATATTTGATTGTGAA
Found at i:22119529 original size:66 final size:65
Alignment explanation
Indices: 22119446--22119579 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 65
22119436 ATTCTGAAGC
* * * *
22119446 TGTAGTTGGAGTTCATCATATTTTCTGCTTG-CCTCTGCTTCCCTCGCTGCTACCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCATATCTTCT--TTGACCTCTGCTTCCCTCGATGCTACCTCCACTTTAA
22119510 GT
64 GT
** *
22119512 TGTAGCTGGAGTTCATCATATCTTCTTTGATCCTCTGCTTTTCTCGATGCTGCCTCCACTTTAAG
1 TGTAGCTGGAGTTCATCATATCTTCTTTGA-CCTCTGCTTCCCTCGATGCTACCTCCACTTTAAG
22119577 T
65 T
22119578 TG
1 TG
22119580 AGCAATTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 3 0.05
66 56 0.95
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATCTTCTTTGACCTCTGCTTCCCTCGATGCTACCTCCACTTTAAGT
Found at i:22129716 original size:27 final size:27
Alignment explanation
Indices: 22129686--22129940 Score: 276
Period size: 27 Copynumber: 9.4 Consensus size: 27
22129676 AAGTATAATA
22129686 ACCGTAATGCCCCTGTAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
*
22129713 ACCGTAATGCCCCTGTAAGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* * * *
22129740 ACCATAATACCCCTGTAGGGTAAATTA
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* **
22129767 ATCGTAATGCCCCCATAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* * * * *
22129794 ACCATAATGCCCTTATAGGTTAAAATA
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* *
22129821 ACCGTAATACCCCTGTAGGGTAAAATA
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* *
22129848 ACCGTAATACCCCTATAGGGTAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
** *
22129875 ATTGTAATGCCCCTGTAGGGTAAAATA
1 ACCGTAATGCCCCTGTAGGGTAAAATG
* ** ***
22129902 ACCGTAATACCCCCATAACATAAAATG
1 ACCGTAATGCCCCTGTAGGGTAAAATG
22129929 ACCGTAATGCCC
1 ACCGTAATGCCC
22129941 ATAAAGGGTA
Statistics
Matches: 187, Mismatches: 41, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (27 bp):
ACCGTAATGCCCCTGTAGGGTAAAATG
Found at i:22129829 original size:81 final size:80
Alignment explanation
Indices: 22129682--22129956 Score: 320
Period size: 81 Copynumber: 3.4 Consensus size: 80
22129672 AAATAAGTAT
* * *
22129682 AATAACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTA-AGGTAAAATGACCATA
1 AATAACCGTAATGCCCCTATAGGGTAAAATGACCGTAATG-CCCT-TATAGGTAAAATAACCGTA
22129746 ATACCCCTGTAGGGTAA
64 ATACCCCTGTAGGGTAA
* * * *
22129763 ATTAATCGTAATGCCCCCATAGGGTAAAATGACCATAATGCCCTTATAGGTTAAAATAACCGTAA
1 AATAACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTATAGG-TAAAATAACCGTAA
22129828 TACCCCTGTAGGGTAA
65 TACCCCTGTAGGGTAA
* ** * *
22129844 AATAACCGTAATACCCCTATAGGGTAAAATGATTGTAATGCCCCTGTAGGGTAAAATAACCGTAA
1 AATAACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTATA-GGTAAAATAACCGTAA
** ***
22129909 TACCCCCATAACATAA
65 TACCCCTGTAGGGTAA
* * *
22129925 AATGACCGTAATGCCCATAAAGGGT-AAATGAC
1 AATAACCGTAATGCCCCTATAGGGTAAAATGAC
22129957 TATTTTACCC
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.01
80 13 0.08
81 148 0.90
82 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (80 bp):
AATAACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCTTATAGGTAAAATAACCGTAAT
ACCCCTGTAGGGTAA
Found at i:22130002 original size:24 final size:24
Alignment explanation
Indices: 22129973--22130021 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22129963 ACCCTTCGAG
22129973 TGTAAATAATTAACTTGTCCGTGA
1 TGTAAATAATTAACTTGTCCGTGA
* * * *
22129997 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATAATTAACTTGTCCGTGA
22130021 T
1 T
22130022 TTGTATGACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (24 bp):
TGTAAATAATTAACTTGTCCGTGA
Found at i:22130139 original size:27 final size:27
Alignment explanation
Indices: 22130099--22130163 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
22130089 ATGGAGGAAG
*
22130099 TACTG-TACTAGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
22130124 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
22130152 TACTATTACTGG
1 TACTGTTACTGG
22130164 CAACATTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 26 0.76
28 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:22130261 original size:32 final size:32
Alignment explanation
Indices: 22130205--22130362 Score: 147
Period size: 32 Copynumber: 4.9 Consensus size: 32
22130195 TTGCTGTGAT
* * * *
22130205 GTTACTGATGGATTTGTACCGATCATATTACC
1 GTTACTAATGGCTTTATGCCGATCATATTACC
*
22130237 GTTACTAATGGCTTTATGCTGATCATATTACC
1 GTTACTAATGGCTTTATGCCGATCATATTACC
* *
22130269 GTTACTGATGGCTTTGTGCCGATCATATTACC
1 GTTACTAATGGCTTTATGCCGATCATATTACC
** * * * * *
22130301 GTTACTGTTGGCTGTGTGCCGAACATATCACT
1 GTTACTAATGGCTTTATGCCGATCATATTACC
* **
22130333 GCTACTGGTGGCTTTATGCC-AGTCATATTA
1 GTTACTAATGGCTTTATGCCGA-TCATATTA
22130363 TTGCACTTAT
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 1 0.01
32 105 0.99
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (32 bp):
GTTACTAATGGCTTTATGCCGATCATATTACC
Found at i:22130313 original size:64 final size:64
Alignment explanation
Indices: 22130205--22130362 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 64
22130195 TTGCTGTGAT
* * * * * *
22130205 GTTACTGATGGATTTGTACCGATCATATTACCGTTACTAATGGCTTTATGCTGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTGTATGCCGAACATATCACC
** * *
22130269 GTTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGTTGGCTGTGTGCCGAACATATCACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTGTATGCCGAACATATCACC
* * *
22130333 GCTACTGGTGGCTTTATGCC-AGTCATATTA
1 GTTACTGATGGCTTTGTGCCGA-TCATATTA
22130363 TTGCACTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 1 0.01
64 79 0.99
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (64 bp):
GTTACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTGTATGCCGAACATATCACC
Found at i:22133896 original size:81 final size:80
Alignment explanation
Indices: 22133622--22133902 Score: 314
Period size: 81 Copynumber: 3.5 Consensus size: 80
22133612 ACCCTAAAAT
* * * *
22133622 AGGTATAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGG
1 AGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGA
* * *
22133687 TCGTAATGCCCCTGTA
66 CCGTAATACCCC-ATA
* * * * *** *
22133703 AGGTAAAATAACCATAATAG-CCCTATGGGGTAAAATGACCGTAATGCCCCCATAGGGTAAAATA
1 AGGTAAAATGACCGTAAT-GCCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATG
*
22133767 ACAGTAATACCCCCATA
65 ACCGTAATA-CCCCATA
* *
22133784 GGGTAAAATGACCGTAATGCCTCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGA
1 AGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGA
22133849 CCGTAATACTCCCATA
66 CCGTAATAC-CCCATA
* * **
22133865 ACGTAAAATGATCGTAATGCCCCTGGGGGGT-AAATGAC
1 AGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAC
22133903 TATTTTGCCC
Statistics
Matches: 163, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
80 9 0.06
81 149 0.91
82 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (80 bp):
AGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGA
CCGTAATACCCCATA
Found at i:22133897 original size:27 final size:27
Alignment explanation
Indices: 22133623--22133902 Score: 278
Period size: 27 Copynumber: 10.4 Consensus size: 27
22133613 CCCTAAAATA
* * *
22133623 GGTATAATGATCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
22133650 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** *
22133677 GGTAAAATGGTCGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
22133704 GGTAAAATAACCATAATAG-CCCTATGG
1 GGTAAAATGACCGTAAT-GCCCCTGTAG
**
22133731 GGTAAAATGACCGTAATGCCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * **
22133758 GGTAAAATAACAGTAATACCCCCATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
22133785 GGTAAAATGACCGTAATGCCTCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
22133812 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
22133839 GGTAAAATGACCGTAATACTCCC-ATAA
1 GGTAAAATGACCGTAATGC-CCCTGTAG
* * **
22133866 CGTAAAATGATCGTAATGCCCCTGGGG
1 GGTAAAATGACCGTAATGCCCCTGTAG
22133893 GGT-AAATGAC
1 GGTAAAATGAC
22133903 TATTTTGCCC
Statistics
Matches: 208, Mismatches: 41, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
26 10 0.05
27 195 0.94
28 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:22133951 original size:24 final size:24
Alignment explanation
Indices: 22133919--22133981 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
22133909 GCCCCTTAAG
*
22133919 TGTAAATGATTGATTTGTCTGTAA
1 TGTAAATGATTGATTTGTCTATAA
*
22133943 TGTAAATGACTGATTTGTCTATAA
1 TGTAAATGATTGATTTGTCTATAA
* **
22133967 TTTGTATGATTGATT
1 TGTAAATGATTGATT
22133982 CTAAGCATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (24 bp):
TGTAAATGATTGATTTGTCTATAA
Found at i:22134113 original size:27 final size:27
Alignment explanation
Indices: 22134065--22134129 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
22134055 ATGGAGGAAG
*
22134065 TACTA-TATTGGTGGCTCTGCCACA-A
1 TACTATTACTGGTGGCTCTGCCACATA
*
22134090 TCACTGTTACTGGTGGCT-TGGCCACATA
1 T-ACTATTACTGGTGGCTCT-GCCACATA
22134118 TACTATTACTGG
1 TACTATTACTGG
22134130 CAGCTTTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 26 0.79
28 2 0.06
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
TACTATTACTGGTGGCTCTGCCACATA
Found at i:22134135 original size:27 final size:27
Alignment explanation
Indices: 22134083--22134135 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
22134073 TGGTGGCTCT
* **
22134083 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
22134110 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
22134136 TGCTTTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Found at i:22134171 original size:26 final size:26
Alignment explanation
Indices: 22134117--22134171 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
22134107 TTGGCCACAT
**
22134117 ATACTATTACTGGCAGCTTTGCTTTG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
22134143 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
22134169 ATA
1 ATA
22134172 TTACTGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:22134336 original size:96 final size:96
Alignment explanation
Indices: 22134172--22134350 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 96
22134162 TGCTGCGATA
* * * *
22134172 TTACTGATGGATTTGTGCCGATCATATTATCGTTACTGATGGCTTTTTGCCGATCATATTACCGT
1 TTACTAATGGATTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
22134237 TACTGATGGCTT-TGTGCCGGTCATATTATCG
66 TACTGATGG-TTGTGTGCCGGTCATATTATCG
* *
22134268 TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGGTCATATTACCGT
1 TTACTAATGGATTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
22134333 TACTGATGGTTGTGTGCC
66 TACTGATGGTTGTGTGCC
22134351 AAACATATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
95 2 0.03
96 74 0.97
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.40
Consensus pattern (96 bp):
TTACTAATGGATTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
TACTGATGGTTGTGTGCCGGTCATATTATCG
Found at i:22134358 original size:32 final size:32
Alignment explanation
Indices: 22134172--22134350 Score: 261
Period size: 32 Copynumber: 5.6 Consensus size: 32
22134162 TGCTGCGATA
* *
22134172 TTACTGATGGATTTGTGCCGATCATATTATCG
1 TTACTGATGGCTTTGTGCCGATCATATTACCG
*
22134204 TTACTGATGGCTTTTTGCCGATCATATTACCG
1 TTACTGATGGCTTTGTGCCGATCATATTACCG
* *
22134236 TTACTGATGGCTTTGTGCCGGTCATATTATCG
1 TTACTGATGGCTTTGTGCCGATCATATTACCG
*
22134268 TTACTAATGGCTTTGTGCCGATCATATTACCG
1 TTACTGATGGCTTTGTGCCGATCATATTACCG
* * *
22134300 TTACTAATGGCTTTATGCCGGTCATATTACCG
1 TTACTGATGGCTTTGTGCCGATCATATTACCG
22134332 TTACTGATGG-TTGTGTGCC
1 TTACTGATGGCTT-TGTGCC
22134351 AAACATATCA
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
31 2 0.02
32 131 0.98
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.40
Consensus pattern (32 bp):
TTACTGATGGCTTTGTGCCGATCATATTACCG
Found at i:22134358 original size:64 final size:64
Alignment explanation
Indices: 22134172--22134379 Score: 274
Period size: 64 Copynumber: 3.2 Consensus size: 64
22134162 TGCTGCGATA
* * * *
22134172 TTACTGATGGATTTGTGCCGATCATATTATCGTTACTGATGGCTTTTTGCCGATCATATTACCG
1 TTACTAATGGCTTTGTGCCGGTCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACCG
* *
22134236 TTACTGATGGCTTTGTGCCGGTCATATTATCGTTACTAATGGCTTTGTGCCGATCATATTACCG
1 TTACTAATGGCTTTGTGCCGGTCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACCG
* * * * * *
22134300 TTACTAATGGCTTTATGCCGGTCATATTACCGTTACTGATGG-TTGTGTGCCAAACATATCACTG
1 TTACTAATGGCTTTGTGCCGGTCATATTATCGTTACTGATGGCTT-TGTGCCGATCATATTACCG
* *
22134364 CTACTAATGACTTTGT
1 TTACTAATGGCTTTGT
22134380 ACAAATCATA
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
63 2 0.02
64 126 0.98
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (64 bp):
TTACTAATGGCTTTGTGCCGGTCATATTATCGTTACTGATGGCTTTGTGCCGATCATATTACCG
Found at i:22134358 original size:96 final size:96
Alignment explanation
Indices: 22134172--22134407 Score: 280
Period size: 96 Copynumber: 2.5 Consensus size: 96
22134162 TGCTGCGATA
* * * * *
22134172 TTACTGATGGATTTGTGCCGATCATATTATCGTTACTGATGGCTTTTTGCCGATCATATTACCGT
1 TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
*** *
22134237 TACTGATGGCTTTGTGCCGGTCATATTA-TCG
66 TACTGATGGCTTTGTGCCAAACATATCACT-G
*
22134268 TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGGTCATATTACCGT
1 TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
22134333 TACTGATGG-TTGTGTGCCAAACATATCACTG
66 TACTGATGGCTT-TGTGCCAAACATATCACTG
* * * ** * *
22134364 CTACTAATGACTTTGTACAAATCATATTACTG-TACTTATGGCTT
1 TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTT
22134408 GTAGCCATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
95 13 0.11
96 107 0.88
97 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (96 bp):
TTACTAATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTTTATGCCGATCATATTACCGT
TACTGATGGCTTTGTGCCAAACATATCACTG
Found at i:22136573 original size:40 final size:40
Alignment explanation
Indices: 22136512--22136587 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
22136502 AGTAAAAAAA
*
22136512 TTTGCGGCGTTTTTCCCATAAACACCGCTATTGCTTACCT
1 TTTGAGGCGTTTTTCCCATAAACACCGCTATTGCTTACCT
* **
22136552 TTTGAGGCGTTTTTCCTATAAATGCCGCTATTGCTT
1 TTTGAGGCGTTTTTCCCATAAACACCGCTATTGCTT
22136588 TACTTATTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (40 bp):
TTTGAGGCGTTTTTCCCATAAACACCGCTATTGCTTACCT
Found at i:22144660 original size:28 final size:27
Alignment explanation
Indices: 22144596--22144660 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
22144586 TTAACAGTAG
* *
22144596 CAGTACAGCGTGGGCCTTAGCCCAATA
1 CAGTACAGTGTGGGCCTAAGCCCAATA
* * *
22144623 TAGAAACAGTGTGGGCCTAAGCCCGATA
1 CAG-TACAGTGTGGGCCTAAGCCCAATA
22144651 CAGTATCAGT
1 CAGTA-CAGT
22144661 ATGGTGCAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTAAGCCCAATA
Found at i:22144990 original size:32 final size:32
Alignment explanation
Indices: 22144898--22145137 Score: 145
Period size: 32 Copynumber: 7.5 Consensus size: 32
22144888 ATGTGATTGA
* *
22144898 CACAAAGCCATCAGTAGTAGTGATATGATCGA
1 CACAAAGCCATCAGTAATAGTGATATGATCGG
* * * *
22144930 CATACAA-CCATCAGTAA-CGATAACATGATCGG
1 CACA-AAGCCATCAGTAATAG-TGATATGATCGG
* *
22144962 CACAAAGCCATCAGTAATTGTGATATGATTGG
1 CACAAAGCCATCAGTAATAGTGATATGATCGG
** * *
22144994 CACACAA-TTATCAGTAACAGTGAAATGATCGG
1 CACA-AAGCCATCAGTAATAGTGATATGATCGG
* *
22145026 CACACAA-CCATC-GATAA-CGATAATATGATCGG
1 CACA-AAGCCATCAG-TAATAG-TGATATGATCGG
* * * **
22145058 TACAATGCCATTAGTAACGGT-ACTATGATCGG
1 CACAAAGCCATCAGTAATAGTGA-TATGATCGG
* * *
22145090 CACAAAGCCATCAGTAATGGT-ACTATAATCGA
1 CACAAAGCCATCAGTAATAGTGA-TATGATCGG
*
22145122 CACAAAGCCATTAGTA
1 CACAAAGCCATCAGTA
22145138 GCATCGCAGC
Statistics
Matches: 164, Mismatches: 33, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
31 7 0.04
32 150 0.91
33 7 0.04
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (32 bp):
CACAAAGCCATCAGTAATAGTGATATGATCGG
Found at i:22145103 original size:96 final size:96
Alignment explanation
Indices: 22144898--22145106 Score: 244
Period size: 96 Copynumber: 2.2 Consensus size: 96
22144888 ATGTGATTGA
** * *
22144898 CACAAAGCCATCAGTAGTAGTGATATGATCGACATACAACCATCAGTAACGATAACATGATCGGC
1 CACAAAGCCATCAGTAACAGTGAAATGATCGACACACAACCATCAGTAACGATAACATGATCGGC
** *
22144963 ACAAAGCCATCAGTAATTGTGATATGATTGG
66 ACAAAGCCATCAGTAACGGTGATATGATCGG
** * *
22144994 CACACAA-TTATCAGTAACAGTGAAATGATCGGCACACAACCATC-GATAACGATAATATGATCG
1 CACA-AAGCCATCAGTAACAGTGAAATGATCGACACACAACCATCAG-TAACGATAACATGATCG
* * *
22145057 GTACAATGCCATTAGTAACGGT-ACTATGATCGG
64 GCACAAAGCCATCAGTAACGGTGA-TATGATCGG
22145090 CACAAAGCCATCAGTAA
1 CACAAAGCCATCAGTAA
22145107 TGGTACTATA
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
95 4 0.04
96 87 0.94
97 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAGTGAAATGATCGACACACAACCATCAGTAACGATAACATGATCGGC
ACAAAGCCATCAGTAACGGTGATATGATCGG
Found at i:22145137 original size:64 final size:64
Alignment explanation
Indices: 22144898--22145125 Score: 198
Period size: 64 Copynumber: 3.6 Consensus size: 64
22144888 ATGTGATTGA
* * * *
22144898 CACAAAGCCATCAGTAGTAGTGATATGATCGACATACAACCATCAGTAACGATAACATGATCGG
1 CACAAAGCCATCAGTAATGGTGATATGATCGACACACAACCATCAGTAACGGTAACATGATCGG
* * * ** *
22144962 CACAAAGCCATCAGTAATTGTGATATGATTGGCACACAATTATCAGTAACAGTGAA-ATGATCGG
1 CACAAAGCCATCAGTAATGGTGATATGATCGACACACAACCATCAGTAACGGT-AACATGATCGG
* * * ** * *
22145026 CACACAA-CCATC-GATAACGATAATATGATCGGTACA-ATGCCATTAGTAACGGT-ACTATGAT
1 CACA-AAGCCATCAG-TAATGGTGATATGATCGACACACA-ACCATCAGTAACGGTAAC-ATGAT
22145087 CGG
62 CGG
*
22145090 CACAAAGCCATCAGTAATGGT-ACTATAATCGACACA
1 CACAAAGCCATCAGTAATGGTGA-TATGATCGACACA
22145126 AAGCCATTAG
Statistics
Matches: 130, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 119 0.92
65 5 0.04
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (64 bp):
CACAAAGCCATCAGTAATGGTGATATGATCGACACACAACCATCAGTAACGGTAACATGATCGG
Found at i:22145390 original size:27 final size:27
Alignment explanation
Indices: 22145360--22145711 Score: 445
Period size: 27 Copynumber: 13.1 Consensus size: 27
22145350 GAAAAAATAA
*
22145360 TCATTTTACCTTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
22145387 TCATTTTACCTTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
22145414 TCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
*
22145441 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
22145468 TCATTTTACCCTACA-GGGCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
* *
22145494 TCATTTTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
22145521 TTATTTTACCCTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
22145548 TCATTTTACCCTACAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
* * * *
22145575 TTATTTTACTCTATAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
* *
22145602 TTATTTTACCCTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
22145629 TCATTTTACCCTACTGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
** * *
22145656 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTACAGGGGTATTACGG
** *
22145683 TCATTTTACCCTTTAGGGGTATTTCGG
1 TCATTTTACCCTACAGGGGTATTACGG
22145710 TC
1 TC
22145712 CAGATATCGA
Statistics
Matches: 289, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
26 24 0.08
27 265 0.92
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:22147548 original size:14 final size:14
Alignment explanation
Indices: 22147529--22147560 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22147519 TCTCTAAGTT
22147529 AGAAATGTTGCATG
1 AGAAATGTTGCATG
22147543 AGAAATGTTGCATG
1 AGAAATGTTGCATG
22147557 AGAA
1 AGAA
22147561 GTTAGACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (14 bp):
AGAAATGTTGCATG
Found at i:22167087 original size:16 final size:17
Alignment explanation
Indices: 22167066--22167100 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22167056 AATTTTAATT
*
22167066 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
22167082 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
22167099 AA
1 AA
22167101 CCCGATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:22169402 original size:41 final size:41
Alignment explanation
Indices: 22169354--22169518 Score: 206
Period size: 41 Copynumber: 4.0 Consensus size: 41
22169344 TAATTATACT
* *
22169354 CTGAATTGCACATATGTGCCCTTGTTTGTTA-TTCGGTACCC
1 CTGAATTGCACATAAGTGCCCCTGTTTG-TACTTCGGTACCC
*
22169395 CTAAATTGCACATAAGTGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATTGCACATAAGTGCCCCTGTTTGTACTTCGGTACCC
** *
22169436 CTGAATCCCACATAAGTGCCCCTGTTTGTACTTCAGTACCC
1 CTGAATTGCACATAAGTGCCCCTGTTTGTACTTCGGTACCC
* * * * * *
22169477 TTGAACTGCACATATGTGCCCCTATTTGTACTACGATACCC
1 CTGAATTGCACATAAGTGCCCCTGTTTGTACTTCGGTACCC
22169518 C
1 C
22169519 AAATAGCACT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 2 0.02
41 104 0.98
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (41 bp):
CTGAATTGCACATAAGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:22170384 original size:42 final size:42
Alignment explanation
Indices: 22170325--22170428 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
22170315 CTAGCACATG
*
22170325 GCCTGGCACACGGGCGTGTGAGGCCATTTTGAGAGTTACACA
1 GCCTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTTACACA
22170367 GCCTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTTACACA
1 GCCTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTTACACA
*
22170409 GCCTGGCACACGGGCATGTG
1 GCCTGGCACACGGGCGTGTG
22170429 GCTTGGCTGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (42 bp):
GCCTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTTACACA
Found at i:22193182 original size:14 final size:15
Alignment explanation
Indices: 22193162--22193196 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22193152 CATTTAATTA
22193162 GAAAATTAA-TTAAT
1 GAAAATTAATTTAAT
*
22193176 TAAAATTAATTTAAT
1 GAAAATTAATTTAAT
22193191 GAAAAT
1 GAAAAT
22193197 GTCTATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
GAAAATTAATTTAAT
Found at i:22199805 original size:27 final size:26
Alignment explanation
Indices: 22199767--22199992 Score: 258
Period size: 27 Copynumber: 8.5 Consensus size: 26
22199757 GGCCATAATA
22199767 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCA-TTTACCCTATGAGGGTATTTCG
22199794 GTCATTCTACCCTATG-GGGTTATTTCG
1 GTCATT-TACCCTATGAGGG-TATTTCG
22199821 GTCATTTACCCTATGAGGGTATTTCG
1 GTCATTTACCCTATGAGGGTATTTCG
* * *
22199847 GTCATTTTACACTATAAGGGTATTTTG
1 GTCA-TTTACCCTATGAGGGTATTTCG
* * *
22199874 ATCATTTACCTTATGGGGGTATTTCG
1 GTCATTTACCCTATGAGGGTATTTCG
* *
22199900 ATCATTTACCCTATGGGGGTATTTCG
1 GTCATTTACCCTATGAGGGTATTTCG
* * **
22199926 ATCATTTTACCCAATG-GGAGTATTTTA
1 GTCA-TTTACCCTATGAGG-GTATTTCG
*
22199953 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCA-TTTACCCTATGAGGGTATTTCG
22199980 GTCATTTACCCTA
1 GTCATTTACCCTA
22199993 CATAGATATA
Statistics
Matches: 173, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
26 81 0.47
27 90 0.52
28 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
GTCATTTACCCTATGAGGGTATTTCG
Found at i:22199829 original size:53 final size:52
Alignment explanation
Indices: 22199767--22199992 Score: 258
Period size: 53 Copynumber: 4.2 Consensus size: 52
22199757 GGCCATAATA
*
22199767 GTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGTTATTTCG
1 GTCA-TTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGG-TATTTCG
* * *
22199821 GTCATTTACCCTATGAGGGTATTTCGGTCATTTTACACTATAAGGGTATTTTG
1 GTCATTTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
* * * *
22199874 ATCATTTACCTTATGGGGGTATTTCGATCA-TTTACCCTATGGGGGTATTTCG
1 GTCATTTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
* * ** *
22199926 ATCATTTTACCCAATG-GGAGTATTTTAGTCATTTTATCCTATGAGGGTATTTCG
1 GTCA-TTTACCCTATGAGG-GTATTTCGGTCATTTTACCCTATG-GGGTATTTCG
22199980 GTCATTTACCCTA
1 GTCATTTACCCTA
22199993 CATAGATATA
Statistics
Matches: 147, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
52 24 0.16
53 94 0.64
54 29 0.20
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (52 bp):
GTCATTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
Found at i:22209918 original size:14 final size:14
Alignment explanation
Indices: 22209899--22209930 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
22209889 CTGACATGTC
22209899 ATTACTCAAAAATA
1 ATTACTCAAAAATA
*
22209913 ATTACTCATAAATA
1 ATTACTCAAAAATA
22209927 ATTA
1 ATTA
22209931 ACTTAATCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTACTCAAAAATA
Found at i:22210782 original size:17 final size:18
Alignment explanation
Indices: 22210750--22210793 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
22210740 TATTGATACT
22210750 AAATCGATACCTTTTTTA
1 AAATCGATACCTTTTTTA
*
22210768 AAATTGATACC-TTTTTA
1 AAATCGATACCTTTTTTA
22210785 AAATCGATA
1 AAATCGATA
22210794 ACAAAATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (18 bp):
AAATCGATACCTTTTTTA
Found at i:22212106 original size:22 final size:21
Alignment explanation
Indices: 22212064--22212107 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22212054 ATCAAACTCG
*
22212064 TATCGCGCATAATCAAACCTA
1 TATCGCGCATAATAAAACCTA
*
22212085 TATCGCGCATATTAAAAACCTA
1 TATCGCGCATAAT-AAAACCTA
22212107 T
1 T
22212108 TGGTATGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (21 bp):
TATCGCGCATAATAAAACCTA
Found at i:22222884 original size:14 final size:14
Alignment explanation
Indices: 22222865--22222892 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22222855 AACATAACCC
22222865 ATAATTAGGAAGTT
1 ATAATTAGGAAGTT
22222879 ATAATTAGGAAGTT
1 ATAATTAGGAAGTT
22222893 TTCCTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
ATAATTAGGAAGTT
Found at i:22229702 original size:16 final size:15
Alignment explanation
Indices: 22229675--22229708 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22229665 ATAACTAGTA
*
22229675 TATAATTATATTTAT
1 TATAATTATATTAAT
22229690 TATAATATATATTAAT
1 TATAAT-TATATTAAT
22229706 TAT
1 TAT
22229709 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:22239844 original size:29 final size:28
Alignment explanation
Indices: 22239805--22239861 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
22239795 ATCGTTACTT
22239805 TATTAATTTATTAATT-ATATATGAATTAA
1 TATTAATTTATTAATTGA-ATAT-AATTAA
* *
22239834 TATTATTTTATTTATTGAATATAATTAA
1 TATTAATTTATTAATTGAATATAATTAA
22239862 GAGGAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 18 0.72
30 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTAATTTATTAATTGAATATAATTAA
Found at i:22240641 original size:6 final size:6
Alignment explanation
Indices: 22240630--22240654 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22240620 TTTTATATAT
22240630 TATAGA TATAGA TATAGA TATAGA T
1 TATAGA TATAGA TATAGA TATAGA T
22240655 GGATGAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TATAGA
Found at i:22241799 original size:17 final size:19
Alignment explanation
Indices: 22241777--22241815 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
22241767 TGAGGATGTA
22241777 TTAATTTT-TATG-TTTTT
1 TTAATTTTATATGATTTTT
22241794 TTAATTTTGATATGATTTTT
1 TTAATTTT-ATATGATTTTT
22241814 TT
1 TT
22241816 TCTTCTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TTAATTTTATATGATTTTT
Found at i:22249200 original size:113 final size:112
Alignment explanation
Indices: 22249061--22249330 Score: 281
Period size: 113 Copynumber: 2.4 Consensus size: 112
22249051 TCTCAAGACC
* * * * ** *
22249061 AAAACGCATCGTTTTTGTCTTGATGTATACAATAATTAGTGGCGATTATGATAAAACGCC-GCTA
1 AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCGATTACAAAAAAACGCCAG-TA
* * *
22249125 AAGCAAGTATTAGCGGCGCATTGCGGGAAGCGCCGCAAAAATCTTAACG
65 AAACAAGTATTAGCGGCGC-TTACGGAAAGCGCCGCAAAAATCTTAACG
** *
22249174 AAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCGTTTACAAAAAAACGCCAGTAA
1 AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCGATTACAAAAAAACGCCAGTAA
* ** *
22249239 AACAAGTCTTAGCGGCGCTTACGGAAAGCGCCGCAAAATATGATAACC
66 AACAAGTATTAGCGGCGCTTACGGAAAGCGCCGCAAAA-ATCTTAACG
* ** * * * **
22249287 AAAATGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGGCG
1 AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCG
22249331 CTTTATAGAA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
112 18 0.14
113 113 0.86
114 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (112 bp):
AAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCGATTACAAAAAAACGCCAGTAA
AACAAGTATTAGCGGCGCTTACGGAAAGCGCCGCAAAAATCTTAACG
Found at i:22249387 original size:75 final size:75
Alignment explanation
Indices: 22249264--22249405 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
22249254 CGCTTACGGA
* * * * *
22249264 AAGCGCCGCAAAATATGATAACCAAAATGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGG
1 AAGCGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
22249329 CGCTTTATAG
66 CGCTTTATAG
* * *
22249339 AAGCGCCGCAAAAAATGTTAACCAAAATGCAGTGGTTTGGTCTCGATGTATAATACAATTAGTGG
1 AAGCGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
22249404 CG
66 CG
22249406 TTAGGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (75 bp):
AAGCGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
CGCTTTATAG
Found at i:22249421 original size:75 final size:74
Alignment explanation
Indices: 22249247--22249422 Score: 183
Period size: 75 Copynumber: 2.3 Consensus size: 74
22249237 AAAACAAGTC
* * * * * *
22249247 TTAGCGGCGCTTACGGAAAGCGCCGCAAAATATGATAACCAAAATGCAGAGTTTTGATCTTGATG
1 TTAGTGGCGCTTA-GAAAAACGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATG
* *
22249312 TATATTAGAA
65 TATAATACAA
* * * * * *
22249322 TTAGTGGCGCTTTATAGAAGCGCCGCAAAAAATGTTAACCAAAATGCAGTGGTTTGGTCTCGATG
1 TTAGTGGCGC-TTAGAAAAACGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATG
22249387 TATAATACAA
65 TATAATACAA
22249397 TTAGTGGCG-TTAGGGAAAAACGCCGC
1 TTAGTGGCGCTTA--GAAAAACGCCGC
22249423 TAAAGCATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
73 3 0.04
75 77 0.93
76 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (74 bp):
TTAGTGGCGCTTAGAAAAACGCCGCAAAAAATGATAACCAAAATGCAGAGGTTTGATCTCGATGT
ATAATACAA
Found at i:22249537 original size:114 final size:114
Alignment explanation
Indices: 22249337--22249786 Score: 427
Period size: 114 Copynumber: 3.9 Consensus size: 114
22249327 GGCGCTTTAT
* * * * * * * * *
22249337 AGAAGCGCCGCAAAAAATGTTA-ACCAAAATGCAGTGGTTTGGTCTCGATGTATAATACAATTAG
1 AGAAGCGCCGCAAGATATG-CACACCAAAACGCAG-AGTTTGGTCTTGAGGTATATTAGAATTAG
* *
22249401 TGGCG-TTA-GGGAAAAACGCCGCTAAAGCATAAC-ATTAGCGGCGATTTTCT
64 TGGCGCTTACTGG-AAAACGCCGCTAAAGCAT-ACTATTAGCGGCGATTTTCC
* * *
22249451 AGAATCACCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTG
1 AGAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
* * **
22249516 GCGCTTACTGTAAAACGCCGCTAAAGCGTACTATTAGCAACG-TTTCTCC
66 GCGCTTACTGGAAAACGCCGCTAAAGCATACTATTAGCGGCGATTT-TCC
* * * * * * *
22249565 AAAAGCGCTGCTAA-AT-TTCTTA-ACCAAAACTCAGAGTTTTGGTCTTGATGTATACTATAATT
1 AGAAGCGCCGC-AAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAGAATT
** * *
22249627 AGTGGCGCTTAC-GAGAAAACGCCGCTAAATAATAGTATTAGCGGCGA-TTT-G
62 AGTGGCGCTTACTG-GAAAACGCCGCTAAAGCATACTATTAGCGGCGATTTTCC
22249678 AGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
1 AG--AAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
* * *
22249743 TGGCGCTGATTGGAAAACGCCGCTAAAGTATACTATTAGCGGCG
64 TGGCGCTTACTGGAAAACGCCGCTAAAGCATACTATTAGCGGCG
22249787 CGTTTTTAGA
Statistics
Matches: 271, Mismatches: 48, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
113 37 0.14
114 144 0.53
115 88 0.32
116 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (114 bp):
AGAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
GCGCTTACTGGAAAACGCCGCTAAAGCATACTATTAGCGGCGATTTTCC
Found at i:22249762 original size:229 final size:228
Alignment explanation
Indices: 22249356--22249782 Score: 610
Period size: 229 Copynumber: 1.9 Consensus size: 228
22249346 GCAAAAAATG
* *
22249356 TTAACCAAAATGCAGTGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGGGAAAAACGCC
1 TTAACCAAAATGCAGAGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
* * *
22249421 GCTAAAGCATAACATTAGCGGCGATTTTCTAGAATCACCGCAAGATATGCACACCAAAACGCAGA
66 GCTAAAGAATAACATTAGCGGCGATTTTCGAGAAGCACCGCAAGATATGCACACCAAAACGCAGA
* * * *
22249486 GTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTACTGTAAAACGCCGCTAAAGCGTACTATT
131 GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATT
22249551 AGCAACGTTTCTCCAAAAGCGCTGCTAAATTTC
196 AGCAACGTTTCTCCAAAAGCGCTGCTAAATTTC
* * * *
22249584 TTAACCAAAACT-CAGAGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACGAG-AAAAC
1 TTAACCAAAA-TGCAGAGGTTTGGTCTCGATGTATAATACAATTAGTGGCG-TTA-GAGAAAAAC
* ** *
22249647 GCCGCTAAATAATAGTATTAGCGGCGA-TTT-GAGTTAAGCGCCGCAAGATATGCACACCAAAAC
63 GCCGCTAAAGAATAACATTAGCGGCGATTTTCGAG--AAGCACCGCAAGATATGCACACCAAAAC
* *
22249710 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGATTGGAAAACGCCGCTAAAGTATA
126 GCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATA
22249775 CTATTAGC
191 CTATTAGC
22249783 GGCGCGTTTT
Statistics
Matches: 175, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
227 2 0.01
228 46 0.26
229 125 0.71
230 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (228 bp):
TTAACCAAAATGCAGAGGTTTGGTCTCGATGTATAATACAATTAGTGGCGTTAGAGAAAAACGCC
GCTAAAGAATAACATTAGCGGCGATTTTCGAGAAGCACCGCAAGATATGCACACCAAAACGCAGA
GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATT
AGCAACGTTTCTCCAAAAGCGCTGCTAAATTTC
Found at i:22249938 original size:229 final size:227
Alignment explanation
Indices: 22249383--22249926 Score: 603
Period size: 229 Copynumber: 2.4 Consensus size: 227
22249373 GTTTGGTCTC
* * * *
22249383 GATGTATAATACAATTAGTGGCGTTAGGGAAAAACGCCGCTAAAGCATAACATTAGCGGCGATTT
1 GATGTATACTAGAATTAGTGGCGTTA-CGAAAAACGCCGCTAAAGCATAATATTAGCGGCGATTT
* * * *
22249448 TCTAG-AATCACCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATT
65 T-TGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATT
* * * *
22249512 AGTGGCGCTTACTGTAAAACGCCGCTAAAGCGTACTATTAGCAACGTTTCTCCAAAAGCGCTGCT
129 AGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATTAGCAACGTTTCTCCAAAAGCGCCGCT
* * ****
22249577 AAATTTCTTAACCAAAACTCAGAGTTTTGGTCTT
194 AAATATATTAACCAAAACTCAGAGTTCAAATCTT
* ** *
22249611 GATGTATACTATAATTAGTGGCGCTTACGAGAAAACGCCGCTAAATAATAGTATTAGCGGCGATT
1 GATGTATACTAGAATTAGTGGCG-TTACGA-AAAACGCCGCTAAAGCATAATATTAGCGGCGATT
** *
22249676 TGAGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATT
64 TTTGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATT
* * ** * * *
22249741 AGTGGCGCTGATTGGAAAACGCCGCTAAAGTATACTATTAGCGGCGCGTTT-T-TAGATGCGCCG
129 AGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATTAGC--AACGTTTCTCCAAAAGCGCCG
* * *
22249804 C-AGAATATATTAACCGAAA-TGCTGCGTTCAAATCTT
192 CTA-AATATATTAACCAAAACT-CAGAGTTCAAATCTT
* * * *
22249840 GATGTATACTGGAATTAGTGGCGTTCACGATAAATCGCCGCTAAAGCATATTATTAGCGGCGCTT
1 GATGTATACTAGAATTAGTGGCGTT-ACGA-AAAACGCCGCTAAAGCATAATATTAGCGGCGATT
*
22249905 TTTGGTAAGCGCCGCAAAATAT
64 TTTGGTAAGCGCCGCAAGATAT
22249927 CTTAACCAAA
Statistics
Matches: 262, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
228 27 0.10
229 229 0.87
230 1 0.00
231 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (227 bp):
GATGTATACTAGAATTAGTGGCGTTACGAAAAACGCCGCTAAAGCATAATATTAGCGGCGATTTT
TGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
TGGCGCTGACTGGAAAACGCCGCTAAAGCATACTATTAGCAACGTTTCTCCAAAAGCGCCGCTAA
ATATATTAACCAAAACTCAGAGTTCAAATCTT
Found at i:22250726 original size:23 final size:24
Alignment explanation
Indices: 22250677--22250740 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
22250667 TATAATACAT
* *
22250677 TAATTTAATAA-TATAAATAATTTA
1 TAATTT-ATAATTTTAAATAATTGA
22250701 TAATTTATAATTTTAAAT-ATTGA
1 TAATTTATAATTTTAAATAATTGA
22250724 TAATATT-TAAATTTTAA
1 TAAT-TTAT-AATTTTAA
22250741 TGTATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 13 0.37
24 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATTTATAATTTTAAATAATTGA
Found at i:22251414 original size:44 final size:44
Alignment explanation
Indices: 22251364--22251457 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
22251354 AATTCTTGCG
* *
22251364 TCCTTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
*
22251408 TCCTTCTTGCCGAATTTCTTGAAATCCCAAATCCCTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
22251452 TCCTTC
1 TCCTTC
22251458 CTCCTTCCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.34
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
Found at i:22253114 original size:19 final size:19
Alignment explanation
Indices: 22253090--22253153 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
22253080 TTTAAAGTTA
22253090 TATTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
***
22253109 TATTTT-AATCA-CGAATTT
1 TATTTTAAAT-ATTTTATTT
*
22253127 TTTTTTAAATATTTTATTT
1 TATTTTAAATATTTTATTT
22253146 TATTTTAA
1 TATTTTAA
22253154 TCACGAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTAAATATTTTATTT
Found at i:22253167 original size:37 final size:35
Alignment explanation
Indices: 22253092--22253175 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 35
22253082 TAAAGTTATA
**
22253092 TTTTAAATATTTTATTTTATTTTAATCACGAATTTTT
1 TTTTAAATATTTTATTTTATTTTAATCACGAA--AAT
22253129 TTTTAAATATTTTATTTTATTTTAATCACGAAAAT
1 TTTTAAATATTTTATTTTATTTTAATCACGAAAAT
22253164 TTTTAAATATTT
1 TTTTAAATATTT
22253176 AAATTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 13 0.29
37 32 0.71
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (35 bp):
TTTTAAATATTTTATTTTATTTTAATCACGAAAAT
Found at i:22253226 original size:9 final size:9
Alignment explanation
Indices: 22253202--22253279 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
22253192 CAAATTTCAC
*
22253202 AACTTACGT
1 AACTTACAT
*
22253211 AATTTACAT
1 AACTTACAT
22253220 AACTTACAT
1 AACTTACAT
22253229 AA-TT-CAT
1 AACTTACAT
22253236 AACTTACAT
1 AACTTACAT
* *
22253245 AATTTAAATTT
1 AACTTACA--T
*
22253256 ATA-ATACAT
1 A-ACTTACAT
22253265 AACTTACAT
1 AACTTACAT
22253274 AACTTA
1 AACTTA
22253280 TTAATATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 39 0.71
11 5 0.09
12 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (9 bp):
AACTTACAT
Found at i:22253238 original size:16 final size:16
Alignment explanation
Indices: 22253197--22253275 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
22253187 AAGTTCAAAT
* *
22253197 TTCACAACTTACGTAA
1 TTCATAACTTACATAA
22253213 TTTACATAACTTACATAA
1 -TT-CATAACTTACATAA
22253231 TTCATAACTTACATAA
1 TTCATAACTTACATAA
* *
22253247 TT--TAAATT-TATAA
1 TTCATAACTTACATAA
*
22253260 TACATAACTTACATAA
1 TTCATAACTTACATAA
22253276 CTTATTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 20 0.39
17 4 0.08
18 12 0.24
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.38
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:22253322 original size:19 final size:20
Alignment explanation
Indices: 22253300--22253337 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22253290 TATAGTTTTA
22253300 ATATATATATTT-AAAATTT
1 ATATATATATTTGAAAATTT
*
22253319 ATATATATTTTTGAAAATT
1 ATATATATATTTGAAAATT
22253338 GATACATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATATATATATTTGAAAATTT
Found at i:22253389 original size:23 final size:22
Alignment explanation
Indices: 22253339--22253402 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
22253329 TTGAAAATTG
22253339 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
22253362 CTACATACATAAGCTTACAT---
1 ATACATACATAA-CTTACATAAC
*
22253382 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
22253403 TTAAATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 2 0.06
22 7 0.21
23 11 0.32
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:22253543 original size:34 final size:36
Alignment explanation
Indices: 22253456--22253548 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 36
22253446 ATCATATCAC
** *
22253456 AACTTACATAACTTACATAATAATACATACCGTACATA
1 AACTTACATAACTTACATAAT-ATACATA-CAAACAAA
* * *
22253494 AA-TTAAATAAGTTACAGAATATACA-A-AAACAAA
1 AACTTACATAACTTACATAATATACATACAAACAAA
22253527 AACTTACATAACTTACATAATA
1 AACTTACATAACTTACATAATA
22253549 ACTTACATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
33 6 0.13
34 16 0.36
35 1 0.02
36 5 0.11
37 15 0.33
38 2 0.04
ACGTcount: A:0.54, C:0.16, G:0.03, T:0.27
Consensus pattern (36 bp):
AACTTACATAACTTACATAATATACATACAAACAAA
Found at i:22253551 original size:12 final size:12
Alignment explanation
Indices: 22253534--22253585 Score: 86
Period size: 12 Copynumber: 4.3 Consensus size: 12
22253524 AAAAACTTAC
22253534 ATAACTTACATA
1 ATAACTTACATA
22253546 ATAACTTACATA
1 ATAACTTACATA
*
22253558 ATATCTTACATA
1 ATAACTTACATA
*
22253570 ATAACTTACATC
1 ATAACTTACATA
22253582 ATAA
1 ATAA
22253586 TGCGTACCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:22253570 original size:24 final size:21
Alignment explanation
Indices: 22253527--22253580 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 21
22253517 CAAAAACAAA
22253527 AACTTACATAACTTACATAAT
1 AACTTACATAACTTACATAAT
22253548 AACTTACATAATATCTTACATAAT
1 AACTTACAT-A-A-CTTACATAAT
22253572 AACTTACAT
1 AACTTACAT
22253581 CATAATGCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.30
22 1 0.03
23 1 0.03
24 19 0.63
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (21 bp):
AACTTACATAACTTACATAAT
Found at i:22253654 original size:96 final size:95
Alignment explanation
Indices: 22253463--22253843 Score: 412
Period size: 92 Copynumber: 3.9 Consensus size: 95
22253453 CACAACTTAC
* * *
22253463 ATAACTTACATAATAATACATACCGTACATAAATTAAATAAGTTACAGAATATACAAAAACAAAA
1 ATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
* *
22253528 ACTTACATAACTTACATAATAACTTACATA
66 ACGTACATAACTTACATAATATCTTACATA
*
22253558 ATATCTTACATAATAACTTACATCATAATGCGTACCCTACATAAATTAAATAAGTTACATAATAC
1 ATAACTTACATAATAA--T--A-C---A----TACCCTACATAAATTAAATAAGTTACATAATAC
** *
22253623 ACAAAAACAAAAACGTAGTGTAACTTACATAATATCTTACACA
54 ACAAAAACAAAAACGTA-CATAACTTACATAATATCTTACATA
22253666 ATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
1 ATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
* *
22253731 ACTTACATAACTTACATAATATCTTATATA
66 ACGTACATAACTTACATAATATCTTACATA
* * * * * **
22253761 ATGACTTACATAATACATA-AT---TTACATAACTTACATAAGTTTCATAATACACAACTTAC-A
1 ATAACTTACATAATA-ATACATACCCTACATAAATTAAATAAGTTACATAATACACAA-AAACAA
* *
22253821 CAACTTACATAACTTACATAATA
64 AAACGTACATAACTTACATAATA
22253844 CATAACTTAT
Statistics
Matches: 248, Mismatches: 23, Indels: 33
0.82 0.08 0.11
Matches are distributed among these distances:
92 52 0.21
93 2 0.01
95 52 0.21
96 52 0.21
97 1 0.00
99 1 0.00
100 2 0.01
103 2 0.01
104 1 0.00
106 1 0.00
107 46 0.19
108 36 0.15
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (95 bp):
ATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAA
ACGTACATAACTTACATAATATCTTACATA
Found at i:22253663 original size:12 final size:12
Alignment explanation
Indices: 22253643--22253681 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22253633 AAACGTAGTG
22253643 TAACTTACATAA
1 TAACTTACATAA
* *
22253655 TATCTTACACAA
1 TAACTTACATAA
22253667 TAACTTACATAA
1 TAACTTACATAA
22253679 TAA
1 TAA
22253682 TACATACCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:22253761 original size:12 final size:11
Alignment explanation
Indices: 22253731--22253776 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
22253721 AAAAACAAAA
22253731 ACTTACAT-A-
1 ACTTACATAAT
22253740 ACTTACATAAT
1 ACTTACATAAT
*
22253751 ATCTTATATAAT
1 A-CTTACATAAT
22253763 GACTTACATAAT
1 -ACTTACATAAT
22253775 AC
1 AC
22253777 ATAATTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 8 0.26
10 1 0.03
11 3 0.10
12 18 0.58
13 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (11 bp):
ACTTACATAAT
Found at i:22253798 original size:25 final size:26
Alignment explanation
Indices: 22253733--22253848 Score: 86
Period size: 25 Copynumber: 4.7 Consensus size: 26
22253723 AAACAAAAAC
*
22253733 TTACATAACTTACATAA-TATC-TTAT
1 TTACATAACTTACATAATTA-CATAAT
* *
22253758 ATA-ATGACTTACATAA-TACATAAT
1 TTACATAACTTACATAATTACATAAT
*
22253782 TTACATAACTTACATAAGTTTCATAA-
1 TTACATAACTTACATAA-TTACATAAT
* * *
22253808 -TACACAACTTACACAACTTACATAAC
1 TTACATAACTTACATAA-TTACATAAT
22253834 TTACATAA--TACATAA
1 TTACATAACTTACATAA
22253849 CTTATTCCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
23 1 0.01
24 19 0.26
25 41 0.56
27 12 0.16
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (26 bp):
TTACATAACTTACATAATTACATAAT
Found at i:22253810 original size:34 final size:34
Alignment explanation
Indices: 22253764--22253852 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
22253754 TTATATAATG
* *
22253764 ACTTACATAATACATAATTTACATAACTTACATA
1 ACTTACATAATACATAACTTACACAACTTACATA
* * *
22253798 AGTTTCATAATACACAACTTACACAACTTACATA
1 ACTTACATAATACATAACTTACACAACTTACATA
22253832 ACTTACATAATACATAACTTA
1 ACTTACATAATACATAACTTA
22253853 TTCCTAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (34 bp):
ACTTACATAATACATAACTTACACAACTTACATA
Found at i:22255480 original size:19 final size:19
Alignment explanation
Indices: 22255453--22255495 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
22255443 GTTCAGAGAA
*
22255453 GCTCCTTCACAGACCAGTG
1 GCTCTTTCACAGACCAGTG
22255472 GCTCTTTCACAGACCAGTG
1 GCTCTTTCACAGACCAGTG
22255491 GCTCT
1 GCTCT
22255496 GAAATCTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.26
Consensus pattern (19 bp):
GCTCTTTCACAGACCAGTG
Found at i:22259396 original size:21 final size:21
Alignment explanation
Indices: 22259332--22259396 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
22259322 AACTTAAAGT
* *
22259332 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
* *
22259353 AAAGGCTGCAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
*
22259374 AGATGCCGCAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
22259395 AG
1 AG
22259397 CGAGAGAAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.20, G:0.43, T:0.03
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGAGAAGC
Found at i:22259398 original size:12 final size:12
Alignment explanation
Indices: 22259381--22259408 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22259371 AGCAGATGCC
22259381 GCAGCGAGAGAA
1 GCAGCGAGAGAA
22259393 GCAGCGAGAGAA
1 GCAGCGAGAGAA
22259405 GCAG
1 GCAG
22259409 AGGTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:22259959 original size:43 final size:43
Alignment explanation
Indices: 22259869--22260137 Score: 203
Period size: 43 Copynumber: 6.3 Consensus size: 43
22259859 GAACACTACT
* * *
22259869 TTTAGCGGCGTTTT-TTACC-AAGCGTC-GCTATAGAACATTA-C
1 TTTAGCGGCGTTTTCTT-CCTAAGC-ACAGCTAAAGAACATGATC
* * * *
22259910 TTTTAGCGACGTTTCCTTCCTAAGCACAGCTAAAGATCATGTTC
1 -TTTAGCGGCGTTTTCTTCCTAAGCACAGCTAAAGAACATGATC
* * ** * * *
22259954 TTTAGCTGCGTTTT-TTCCAAAGTGCCGCTATAGAACATTA-C
1 TTTAGCGGCGTTTTCTTCCTAAGCACAGCTAAAGAACATGATC
* *
22259995 TTTTAGCGGCGTTTTCTTCCTAAGCGCAGCTAAAGATCATGATC
1 -TTTAGCGGCGTTTTCTTCCTAAGCACAGCTAAAGAACATGATC
* *
22260039 TTTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTCTTCCTAAGCACAGCTAAAGAACATGATC
** * * * * * *
22260082 TTTAGTAGCGATTT-TTCGGT-AGCGCCGCTAAAGAACTTGAGC
1 TTTAGCGGCGTTTTCTTC-CTAAGCACAGCTAAAGAACATGATC
22260124 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
22260138 TTTCTATAAG
Statistics
Matches: 180, Mismatches: 39, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 79 0.44
43 98 0.54
44 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGTTTTCTTCCTAAGCACAGCTAAAGAACATGATC
Found at i:22259967 original size:85 final size:85
Alignment explanation
Indices: 22259869--22260077 Score: 303
Period size: 85 Copynumber: 2.4 Consensus size: 85
22259859 GAACACTACT
*
22259869 TTTAGCGGCGTTTTTTACC-AAGCGTCGCTATAGAACATTACTTTTAGCGACGTTTCCTTCCTAA
1 TTTAGCGGCGTTTTTT-CCAAAGCGCCGCTATAGAACATTACTTTTAGCGACGTTTCCTTCCTAA
*
22259933 GCACAGCTAAAGATCATGTTC
65 GCACAGCTAAAGATCATGATC
* * * *
22259954 TTTAGCTGCGTTTTTTCCAAAGTGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCCTAAG
1 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTATAGAACATTACTTTTAGCGACGTTTCCTTCCTAAG
*
22260019 CGCAGCTAAAGATCATGATC
66 CACAGCTAAAGATCATGATC
* * *
22260039 TTTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACAT
1 TTTAGCGGCG-TTTTTTCCAAAGCGCCGCTATAGAACAT
22260078 GATCTTTAGT
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 2 0.02
85 84 0.76
86 24 0.22
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTTCCAAAGCGCCGCTATAGAACATTACTTTTAGCGACGTTTCCTTCCTAAG
CACAGCTAAAGATCATGATC
Found at i:22260084 original size:128 final size:127
Alignment explanation
Indices: 22259846--22260139 Score: 330
Period size: 128 Copynumber: 2.3 Consensus size: 127
22259836 TTTGTGAAAT
* * * *
22259846 AAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTTTTACCAAGCGTCGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGTCGCTAAAGAACATGACT
* * *
22259911 TTTAGCGACGTTTCCTTCCTAAGCACAGCTAAAGATCATGTTCTTTAGCT-GCGTTTTTTCCA
66 TTTAGCGACGTTTCCTTCCTAAGCACAGCTAAAGAACATGATCTTTAG-TAGCGATTTTTCCA
* * *
22259973 AAGTGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTT-CCTAAGCG-CAGCTAAAGATCATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TTACC-AAGCGTC-GCTAAAGAACATG
* ** * *
22260036 A-TCTTTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGATCTTTAGTAGCGATTTTTCG
63 ACT-TTTAGCGACGTTTCCTTCCTAAGCACAGCTAAAGAACATGATCTTTAGTAGCGATTTTTCC
*
22260100 G
127 A
*
22260101 TAGCGCCGCTAAAGAAC-TTGAGC-TTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATT-A-CTTTTAGCGGCGTTTTTT
22260140 TCTATAAGCG
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
127 42 0.30
128 98 0.70
129 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTACCAAGCGTCGCTAAAGAACATGACT
TTTAGCGACGTTTCCTTCCTAAGCACAGCTAAAGAACATGATCTTTAGTAGCGATTTTTCCA
Found at i:22260106 original size:85 final size:86
Alignment explanation
Indices: 22259869--22260141 Score: 272
Period size: 85 Copynumber: 3.2 Consensus size: 86
22259859 GAACACTACT
* ** * *
22259869 TTTAGCGGCGTTTTTTACC-AAGCGTCGCTATAGAACATTACTTTTAGC-GACG-TTTCCTTCCT
1 TTTAGCGGCGTTTTTTTCCAAAGCACCGCTAAAGAACATGACTTTTAGCAG-CGATTT-CTTCCT
* *
22259931 AAGCACAGCTAAAGATCATGTTC
64 AAGCGCAGCTAAAGATCATGATC
* ** * * * *
22259954 TTTAGCTGCG-TTTTTTCCAAAGTGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCTTCCTAA
1 TTTAGCGGCGTTTTTTTCCAAAGCACCGCTAAAGAACATGACTTTTAGCAGCGATTTCTTCCTAA
22260018 GCGCAGCTAAAGATCATGATC
66 GCGCAGCTAAAGATCATGATC
* * *
22260039 TTTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGA-TCTTTAGTAGCGATTT-TTCGGT
1 TTTAGCGGCGTTTTTTTCCAAAGCACCGCTAAAGAACATGACT-TTTAGCAGCGATTTCTTC-CT
* * * *
22260102 -AGCGCCGCTAAAGAACTTGAGC
64 AAGCGCAGCTAAAGATCATGATC
22260124 TTTAGCGGCGTTTTTTTC
1 TTTAGCGGCGTTTTTTTC
22260142 TATAAGCGCC
Statistics
Matches: 162, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
84 7 0.04
85 114 0.70
86 41 0.25
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (86 bp):
TTTAGCGGCGTTTTTTTCCAAAGCACCGCTAAAGAACATGACTTTTAGCAGCGATTTCTTCCTAA
GCGCAGCTAAAGATCATGATC
Found at i:22260110 original size:42 final size:43
Alignment explanation
Indices: 22259845--22260158 Score: 193
Period size: 43 Copynumber: 7.3 Consensus size: 43
22259835 ATTTGTGAAA
* *
22259845 TAAGCGCCGCGAAAGAACACT-A-CTTTTAGCGGCGT-TTTTTACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCAGCGTATTTTT-CC
* * * *
22259888 -AAGCGTCGCTATAGAACATTA-CTTTTAGC-GACGT-TTCCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCAG-CGTATT-TTTCC
* * * * *
22259930 TAAGCACAGCTAAAGATCATGTTCTTTAGCTGCGT-TTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTATTTTTCC
* * * * *
22259972 AAAGTGCCGCTATAGAACATTA-CTTTTAGCGGCGT-TTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCAGCGTATTT-TTCC
* * * *
22260015 TAAGCGCAGCTAAAGATCATGATCTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTATTTTTCC
* * *
22260058 TAAGCACCGCTAAAGAACATGATCTTTAGTAGCG-ATTTTTCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTATTTTTC-C
* * * * *
22260101 T-AGCGCCGCTAAAGAACTTGAGCTTTAGCGGCGTTTTTTTCTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTATTTTTC-C
*
22260144 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
22260159 TTAGCGACGT
Statistics
Matches: 215, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.01
42 95 0.44
43 99 0.46
44 18 0.08
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTATTTTTCC
Found at i:22260323 original size:16 final size:16
Alignment explanation
Indices: 22260302--22260334 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22260292 ATCGCACACC
*
22260302 ACATGTATTTTTGCTG
1 ACATGTATTCTTGCTG
22260318 ACATGTATTCTTGCTG
1 ACATGTATTCTTGCTG
22260334 A
1 A
22260335 TGTGGAAAAA
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:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (16 bp):
ACATGTATTCTTGCTG
Found at i:22261806 original size:10 final size:10
Alignment explanation
Indices: 22261791--22261819 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22261781 CTGTACTAAT
22261791 ATTGTTTCCG
1 ATTGTTTCCG
22261801 ATTGTTTCCG
1 ATTGTTTCCG
22261811 ATTGTTTCC
1 ATTGTTTCC
22261820 TTAATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (10 bp):
ATTGTTTCCG
Found at i:22278608 original size:23 final size:22
Alignment explanation
Indices: 22278565--22278608 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
22278555 TTCTAAATCG
22278565 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
22278588 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
22278609 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:22278718 original size:45 final size:45
Alignment explanation
Indices: 22278654--22278741 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
22278644 ACAGATACTC
* * *
22278654 GGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGTCT
22278699 GGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGT
22278742 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGTCT
Found at i:22287507 original size:13 final size:13
Alignment explanation
Indices: 22287491--22287521 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22287481 TTATATTGTT
22287491 AACTTATACACAC
1 AACTTATACACAC
*
22287504 AACTTATTCACAC
1 AACTTATACACAC
22287517 AACTT
1 AACTT
22287522 TGAGAGCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (13 bp):
AACTTATACACAC
Found at i:22288960 original size:3 final size:3
Alignment explanation
Indices: 22288952--22288983 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
22288942 AATTAACCAT
22288952 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22288984 GAGTATGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22299146 original size:101 final size:102
Alignment explanation
Indices: 22299025--22299209 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 102
22299015 AAAGTGATGG
*
22299025 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAG
22299087 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
22299126 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
22299191 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
22299210 TGAACCGATA
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
101 39 0.49
102 36 0.46
103 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:22299155 original size:51 final size:49
Alignment explanation
Indices: 22299022--22299216 Score: 221
Period size: 51 Copynumber: 3.9 Consensus size: 49
22299012 TTGAAAGTGA
* **
22299022 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * *
22299072 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
22299122 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
* *
22299172 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
22299217 ATATCTTTGA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
50 41 0.34
51 79 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:22299211 original size:26 final size:26
Alignment explanation
Indices: 22299131--22299211 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
22299121 TTCGATCACG
22299131 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
22299157 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
22299182 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
22299208 TGTG
1 TGTG
22299212 AACCGATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:22299269 original size:26 final size:26
Alignment explanation
Indices: 22299235--22299284 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
22299225 GAATATAAAG
22299235 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
*
22299261 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
22299285 GATTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:22299300 original size:33 final size:34
Alignment explanation
Indices: 22299263--22299397 Score: 123
Period size: 33 Copynumber: 3.8 Consensus size: 34
22299253 TTCCCCAAGG
*
22299263 GGTTGCTAAGTGTTGATTCC-CCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
22299296 GGTTGCTAAGTGCTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCCACCGAT-TCATTG---GT
* *
22299333 GAAAGGGGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
*
22299372 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCCACCGAT
22299398 AATAGATAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 25
0.74 0.04 0.22
Matches are distributed among these distances:
33 39 0.46
34 13 0.15
37 2 0.02
39 2 0.02
42 8 0.10
43 20 0.24
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
Found at i:22301696 original size:8 final size:8
Alignment explanation
Indices: 22301683--22301707 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22301673 TTTTAAATAA
22301683 TATTTTAT
1 TATTTTAT
22301691 TATTTTAT
1 TATTTTAT
22301699 TATTTTAT
1 TATTTTAT
22301707 T
1 T
22301708 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:22306651 original size:31 final size:31
Alignment explanation
Indices: 22306613--22306676 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
22306603 GACCAAGCAA
22306613 GATAGTTACTCCTATCAAGCTTTACGAGACT
1 GATAGTTACTCCTATCAAGCTTTACGAGACT
22306644 GATAGTTACTCCTATCAAGCTTTACGAGACT
1 GATAGTTACTCCTATCAAGCTTTACGAGACT
22306675 GA
1 GA
22306677 CTTGCAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (31 bp):
GATAGTTACTCCTATCAAGCTTTACGAGACT
Found at i:22308304 original size:22 final size:22
Alignment explanation
Indices: 22308211--22308297 Score: 111
Period size: 22 Copynumber: 4.0 Consensus size: 22
22308201 GTATGGGTTT
* * *
22308211 AGCACTTTTGTGCTTTTTGTTC
1 AGCACTTTGGTGCTCTCTGTTC
*
22308233 AGCACTTTGGTGCTCTCTATTC
1 AGCACTTTGGTGCTCTCTGTTC
* *
22308255 AGCACTTCGGTGCTCTCTGATC
1 AGCACTTTGGTGCTCTCTGTTC
*
22308277 ATCACTTTGGTGCTCTCTGTT
1 AGCACTTTGGTGCTCTCTGTT
22308298 TTGCACTATG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (22 bp):
AGCACTTTGGTGCTCTCTGTTC
Found at i:22312136 original size:33 final size:31
Alignment explanation
Indices: 22312096--22312156 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
22312086 AAATTTAAAT
*
22312096 TTAAATTAAATTCATAATAAAAAACTAACAAAA
1 TTAAATTAAATTAAT-A-AAAAAACTAACAAAA
22312129 TTAAATTAAATTAATAAAAAAACTAACA
1 TTAAATTAAATTAATAAAAAAACTAACA
22312157 TTTAAAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (31 bp):
TTAAATTAAATTAATAAAAAAACTAACAAAA
Found at i:22313609 original size:17 final size:17
Alignment explanation
Indices: 22313587--22313639 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
22313577 TTTATTTGGG
22313587 TTTTATTTTATAAATTA
1 TTTTATTTTATAAATTA
*
22313604 TTTTA-TTTATGAATTA
1 TTTTATTTTATAAATTA
*
22313620 TTTTCATTTTA-AAAATA
1 TTTT-ATTTTATAAATTA
22313637 TTT
1 TTT
22313640 GAATTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 14 0.45
17 13 0.42
18 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATTTTATAAATTA
Found at i:22313962 original size:58 final size:60
Alignment explanation
Indices: 22313844--22313968 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 60
22313834 CATAATGTAA
22313844 TACCTTAGTTTCACTTAACATTTTTTTCTGCCAGTCAATTAAACTATTTTAGTACTGATATTAT
1 TACCTTAGTTTCACTTAACA----TTTCTGCCAGTCAATTAAACTATTTTAGTACTGATATTAT
22313908 TACCTTAGTTTCACTTAACA-TT-TGCCAGTCAATTAAACTATTTTAGTACTGATATTAT
1 TACCTTAGTTTCACTTAACATTTCTGCCAGTCAATTAAACTATTTTAGTACTGATATTAT
22313966 TAC
1 TAC
22313969 AAATATTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
58 39 0.64
59 2 0.03
64 20 0.33
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.45
Consensus pattern (60 bp):
TACCTTAGTTTCACTTAACATTTCTGCCAGTCAATTAAACTATTTTAGTACTGATATTAT
Found at i:22320797 original size:51 final size:51
Alignment explanation
Indices: 22320673--22320903 Score: 272
Period size: 51 Copynumber: 4.5 Consensus size: 51
22320663 GATAGTCATG
* * * * * * * *
22320673 TGTGTAGTACTATGTGCAGGCTACTACGTGTAGCAGA-ATG-ATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GCTTCGATCACA
*
22320723 TTTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
* * *
22320774 TTTGTAGTACTATGTGCATGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
* * *
22320825 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-TGAT-GATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT--TCGATCACA
22320876 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
22320904 TGAACCGGTA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 34 0.21
51 124 0.78
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
Found at i:22323534 original size:34 final size:33
Alignment explanation
Indices: 22323495--22323568 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
22323485 TCTAATTTTC
*
22323495 TTTTTTACATAATTAAATATTTCTTATTTTGAAT
1 TTTTTTACATAATTAAATATTT-TTATTTTAAAT
*
22323529 TTTTTTACTTAATTAAATATTTTTATTTTAAAT
1 TTTTTTACATAATTAAATATTTTTATTTTAAAT
*
22323562 ATTTTTA
1 TTTTTTA
22323569 TTTACCTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 16 0.43
34 21 0.57
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTTTTACATAATTAAATATTTTTATTTTAAAT
Found at i:22323572 original size:14 final size:15
Alignment explanation
Indices: 22323507--22323571 Score: 76
Period size: 15 Copynumber: 4.1 Consensus size: 15
22323497 TTTTACATAA
22323507 TTAAATATTTCTTATT
1 TTAAATATTT-TTATT
* *
22323523 TTGAATTTTTTTACTT
1 TTAAATATTTTTA-TT
22323539 AATTAAATATTTTTATT
1 --TTAAATATTTTTATT
22323556 TTAAATATTTTTATT
1 TTAAATATTTTTATT
22323571 T
1 T
22323572 ACCTTGTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 19 0.45
16 10 0.24
17 2 0.05
18 11 0.26
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAAATATTTTTATT
Found at i:22324231 original size:12 final size:12
Alignment explanation
Indices: 22324210--22324254 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
22324200 TCCAATTAAC
*
22324210 ATAGATGTAGAT
1 ATAGAAGTAGAT
22324222 ATAGAAGTAGAT
1 ATAGAAGTAGAT
* *
22324234 GTAGTAGTAGAT
1 ATAGAAGTAGAT
*
22324246 GTAGAAGTA
1 ATAGAAGTA
22324255 AAATTAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (12 bp):
ATAGAAGTAGAT
Found at i:22324234 original size:18 final size:18
Alignment explanation
Indices: 22324211--22324250 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22324201 CCAATTAACA
22324211 TAGATGTAGATA-TAGAAG
1 TAGATGTAG-TAGTAGAAG
*
22324229 TAGATGTAGTAGTAGATG
1 TAGATGTAGTAGTAGAAG
22324247 TAGA
1 TAGA
22324251 AGTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (18 bp):
TAGATGTAGTAGTAGAAG
Found at i:22324973 original size:24 final size:24
Alignment explanation
Indices: 22324946--22324995 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
22324936 TCCAAAGTAG
22324946 TTCTAACATAAAAATAACATGAAA
1 TTCTAACATAAAAATAACATGAAA
22324970 TTCTAACATAAAAATAACATGAAA
1 TTCTAACATAAAAATAACATGAAA
22324994 TT
1 TT
22324996 ATTATAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (24 bp):
TTCTAACATAAAAATAACATGAAA
Found at i:22332044 original size:3 final size:3
Alignment explanation
Indices: 22332036--22332077 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22332026 AGTTAGTAAG
22332036 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22332078 AAGGCTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22337623 original size:26 final size:26
Alignment explanation
Indices: 22337594--22337658 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
22337584 TTTACCCACA
*
22337594 GTAAAATTTTGATGATTTTA-CCATCG
1 GTAAAATTTTGACGATTTTATCCAT-G
* *
22337620 GTAAATTTTTTGACGATTTTATGCATG
1 GTAAA-ATTTTGACGATTTTATCCATG
22337647 GTAAAATTTTGA
1 GTAAAATTTTGA
22337659 GAAAATATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.33
27 19 0.58
28 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTATCCATG
Found at i:22339194 original size:27 final size:27
Alignment explanation
Indices: 22339164--22339415 Score: 342
Period size: 27 Copynumber: 9.3 Consensus size: 27
22339154 TACCCTTGAT
*
22339164 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* ** *
22339191 GGGTAAAATGACCGTAACGCCTTTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
22339218 GGGTAAAATGACCGTAATGCTCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* **
22339245 GAGTAAAATGAAAGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
22339272 GGGTAAAATGACTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
22339299 GGGTAAAATAATCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
22339326 GGGTAAAATGACCGTAATGCCCATGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* **
22339353 GGGTAAAATAATTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
22339380 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
22339407 AGGTAAAAT
1 GGGTAAAAT
22339416 AACTATTTTG
Statistics
Matches: 196, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:22339472 original size:24 final size:24
Alignment explanation
Indices: 22339445--22339522 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
22339435 TTTAAATCAT
22339445 TGATTTGCCTATGATGTAAATGAA
1 TGATTTGCCTATGATGTAAATGAA
* *
22339469 TGATTTGTCCCA-GATGTAAATGAC
1 TGATTTG-CCTATGATGTAAATGAA
* * *
22339493 TGATTTGCTTGTGATTTAAAT-AA
1 TGATTTGCCTATGATGTAAATGAA
22339516 CTGATTT
1 -TGATTT
22339523 ATCTGTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 2 0.05
24 39 0.89
25 3 0.07
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (24 bp):
TGATTTGCCTATGATGTAAATGAA
Found at i:22339783 original size:32 final size:32
Alignment explanation
Indices: 22339717--22339859 Score: 142
Period size: 32 Copynumber: 4.5 Consensus size: 32
22339707 ACAGCGATGC
* * * *
22339717 TACTAATGGCTTTGTATCGATCATAGTATTGT
1 TACTAATGGCTTTGTACCGATCATATTACTAT
**
22339749 TACTAATGGCTTTGTACCGATCATATTACCGT
1 TACTAATGGCTTTGTACCGATCATATTACTAT
** * * * *
22339781 TACCGATGGCTGTGTGCCGGTCATTTTACTAT
1 TACTAATGGCTTTGTACCGATCATATTACTAT
* * * *
22339813 TACTAATGGCTGTGTACTGATCATATCACTAC
1 TACTAATGGCTTTGTACCGATCATATTACTAT
22339845 TACTAATGGCTTTGT
1 TACTAATGGCTTTGT
22339860 TCCAATTACA
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (32 bp):
TACTAATGGCTTTGTACCGATCATATTACTAT
Found at i:22343927 original size:39 final size:39
Alignment explanation
Indices: 22343868--22343962 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 39
22343858 TTAGTATTAT
** * *
22343868 GATATATGCTTGAACGTTATGCGATTATATGAGTATTGC
1 GATATATGCTTGAAAATTATGCAATTATATGAGTAATGC
* * ** *
22343907 GATATGTGCTTGAAAATTATGTAATTATATTTGTAATGT
1 GATATATGCTTGAAAATTATGCAATTATATGAGTAATGC
22343946 GATATATGCTT-AAAATT
1 GATATATGCTTGAAAATT
22343963 TAATATGTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
38 6 0.13
39 40 0.87
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (39 bp):
GATATATGCTTGAAAATTATGCAATTATATGAGTAATGC
Found at i:22348059 original size:17 final size:17
Alignment explanation
Indices: 22348014--22348059 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
22348004 TCTCAGATTT
22348014 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
* **
22348031 TAATACATATATCTTTC
1 TGATACCCATATCTTTC
22348048 TGATACCCATAT
1 TGATACCCATAT
22348060 ATTTGACTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:22352626 original size:17 final size:17
Alignment explanation
Indices: 22352604--22352636 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22352594 TCTCAGATTT
22352604 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
22352621 TGATACCCATATCTTT
1 TGATACCCATATCTTT
22352637 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:22356627 original size:27 final size:27
Alignment explanation
Indices: 22356596--22356649 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22356586 TTTGCACGAG
22356596 TAATCTTCTTTACTTTTAGATCGTGCT
1 TAATCTTCTTTACTTTTAGATCGTGCT
22356623 TAATCTTCTTTACTTTTAGATCGTGCT
1 TAATCTTCTTTACTTTTAGATCGTGCT
22356650 CAAATGGTTG
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:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (27 bp):
TAATCTTCTTTACTTTTAGATCGTGCT
Found at i:22371544 original size:12 final size:12
Alignment explanation
Indices: 22371522--22371550 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22371512 TTATTAATGG
22371522 TGAAT-AATATT
1 TGAATGAATATT
22371533 TGAATGAATATT
1 TGAATGAATATT
22371545 TGAATG
1 TGAATG
22371551 TGCTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:22387315 original size:8 final size:8
Alignment explanation
Indices: 22387302--22387326 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22387292 GTTTTGGCAA
22387302 ATTATGTG
1 ATTATGTG
22387310 ATTATGTG
1 ATTATGTG
22387318 ATTATGTG
1 ATTATGTG
22387326 A
1 A
22387327 ATAATTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (8 bp):
ATTATGTG
Found at i:22391093 original size:30 final size:30
Alignment explanation
Indices: 22391057--22391113 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
22391047 ATGAATGGAA
22391057 CAAGATTTTTAAATAAAAAAGTAAAATTTT
1 CAAGATTTTTAAATAAAAAAGTAAAATTTT
22391087 CAAGATTTTTAAATAAAAAAGTAAAAT
1 CAAGATTTTTAAATAAAAAAGTAAAAT
22391114 GACTCAGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (30 bp):
CAAGATTTTTAAATAAAAAAGTAAAATTTT
Found at i:22395935 original size:11 final size:11
Alignment explanation
Indices: 22395921--22395972 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
22395911 TAAATATTAG
22395921 TTTATTAATAT
1 TTTATTAATAT
22395932 TTTAATTTAAT-T
1 TTT-A-TTAATAT
*
22395944 TTTAAATAATAT
1 TTT-ATTAATAT
*
22395956 TTTATTATTAT
1 TTTATTAATAT
22395967 TTTATT
1 TTTATT
22395973 TAGTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 19 0.54
12 11 0.31
13 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:22404106 original size:20 final size:20
Alignment explanation
Indices: 22404081--22404153 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
22404071 TTGTATTAGC
22404081 TACCATTTACACATACATAA
1 TACCATTTACACATACATAA
22404101 TACCATTTACACATTTACACATACATAA
1 TACCATTT----A----CACATACATAA
22404129 TACCATTTACACATACATAA
1 TACCATTTACACATACATAA
22404149 TACCA
1 TACCA
22404154 AAACATAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
20 24 0.53
24 2 0.04
28 19 0.42
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (20 bp):
TACCATTTACACATACATAA
Found at i:22404115 original size:28 final size:28
Alignment explanation
Indices: 22404084--22404142 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
22404074 TATTAGCTAC
22404084 CATTTACACATACATAATACCATTTACA
1 CATTTACACATACATAATACCATTTACA
22404112 CATTTACACATACATAATACCATTTACA
1 CATTTACACATACATAATACCATTTACA
22404140 CAT
1 CAT
22404143 ACATAATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.32
Consensus pattern (28 bp):
CATTTACACATACATAATACCATTTACA
Found at i:22411040 original size:23 final size:23
Alignment explanation
Indices: 22411014--22411086 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
22411004 ATAAGTGCAA
22411014 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22411037 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
22411060 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
22411083 CACT
1 CACT
22411087 AATCAATAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:22425767 original size:44 final size:44
Alignment explanation
Indices: 22425670--22426115 Score: 133
Period size: 44 Copynumber: 9.8 Consensus size: 44
22425660 TGAAGCCAGA
** * ** *
22425670 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCT-AAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-AAAATAAAG
* *
22425714 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
1 AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
* * * * * *
22425758 GATCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCGCATTAGATTGAAGCCAG
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-TAG-ATTAAAAT-AA---AG
* * **
22425811 AAATCTTATCTCCCTGAGATTACAGCGTAGCT-GATTGAAGCT--AG
1 -AATCTTATCTCCCTGAGATTACAGTGGAG-TAGATT-AAAATAAAG
* * **
22425855 TAATCCTATCACCCTGAGATTACAGTGGAGCGGATTAAAATAAA-
1 -AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
* * *
22425899 AGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTA-A--A-A-T-AA---AG
* * * * ***
22425953 AAATCTTACCTCCCTGAGATTACAGCGGAGCAGATT-GAAGCCAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
* * ** *
22425997 TAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAGTAAAG
1 -AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
* ** * * * *
22426042 GATCTTATCTTTCTGA-AGTTACAGTTGAGTAGA-TCACAT-CAG
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATAAAG
* *
22426084 -GTCTTATCTCCCTGAGATTACAGTGGAATAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGTAGA
22426116 CCGAAGAATT
Statistics
Matches: 293, Mismatches: 75, Indels: 71
0.67 0.17 0.16
Matches are distributed among these distances:
41 25 0.09
42 3 0.01
43 13 0.04
44 165 0.56
45 6 0.02
46 1 0.00
47 3 0.01
48 3 0.01
49 11 0.04
50 8 0.03
51 3 0.01
53 4 0.01
54 45 0.15
55 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
Found at i:22425827 original size:142 final size:141
Alignment explanation
Indices: 22425572--22426083 Score: 789
Period size: 142 Copynumber: 3.6 Consensus size: 141
22425562 TCTACGAAAT
* * * *
22425572 TAGTAATCCCATCTCCCTAAGATTATAGTGGAGCGGATT---A-AAAGGATCTTATCTCTATGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
*
22425633 GTTACAATAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGA
66 GTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GA
22425698 GCAGATTGAAGC
130 GCAGATTGAAGC
* *
22425710 TAATAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* *
22425775 GTTATAGTAGAGTAGATCGCATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGTA
66 GTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCG-A
*
22425840 GCTGATTGAAGC
130 GCAGATTGAAGC
* *
22425852 TAGTAATCCTATCACCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* *
22425917 GTTACAGTAGAGTAGATCACATCAGATTGAAGCCAGAAATCTTACCTCCCTGAGATTACAGCGGA
66 GTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GA
22425982 GCAGATTGAAGC
130 GCAGATTGAAGC
* * * *
22425994 CAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAGTAAAGGATCTTATCTTTCTGAA
1 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
* *
22426059 GTTACAGTTGAGTAGATCACATCAG
66 GTTACAGTAGAGTAGATCGCATCAG
22426084 GTCTTATCTC
Statistics
Matches: 342, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
138 34 0.10
141 2 0.01
142 305 0.89
143 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (141 bp):
TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA
GTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGAG
CAGATTGAAGC
Found at i:22428461 original size:17 final size:18
Alignment explanation
Indices: 22428428--22428461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22428418 ATATGTATAT
*
22428428 ATTATAAAAAACTATGCG
1 ATTAAAAAAAACTATGCG
22428446 ATTAAAAAAAAC-ATGC
1 ATTAAAAAAAACTATGC
22428462 ATATATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (18 bp):
ATTAAAAAAAACTATGCG
Found at i:22435456 original size:17 final size:16
Alignment explanation
Indices: 22435436--22435467 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22435426 CTGTTTTCAT
22435436 TTTCTTTTACTTTTATG
1 TTTCTTTT-CTTTTATG
22435453 TTTCTTTTCTTTTAT
1 TTTCTTTTCTTTTAT
22435468 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTTATG
Found at i:22437347 original size:6 final size:6
Alignment explanation
Indices: 22437338--22437363 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22437328 CACTCACAGA
22437338 AGCATC AGCATC AGCATC AGCATC AG
1 AGCATC AGCATC AGCATC AGCATC AG
22437364 TTTTCACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (6 bp):
AGCATC
Found at i:22446239 original size:4 final size:4
Alignment explanation
Indices: 22446224--22446260 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
22446214 AAGATGAAGG
*
22446224 TTTA TGTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
22446261 AATCAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:22446872 original size:15 final size:15
Alignment explanation
Indices: 22446844--22446890 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
22446834 TTTATATTAT
*
22446844 TATA-ATTGTGTGTA
1 TATATATTGTATGTA
22446858 TATATATTGTATGTA
1 TATATATTGTATGTA
* *
22446873 TATATATTATATGCA
1 TATATATTGTATGTA
22446888 TAT
1 TAT
22446891 CAATGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (15 bp):
TATATATTGTATGTA
Found at i:22453337 original size:13 final size:13
Alignment explanation
Indices: 22453319--22453366 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
22453309 TTCTACCATA
22453319 TTGGACCACCCCC
1 TTGGACCACCCCC
* *
22453332 TTGGACCACTCCA
1 TTGGACCACCCCC
22453345 TTGGACC-CCTCCC
1 TTGGACCACC-CCC
*
22453358 TTGAACCAC
1 TTGGACCAC
22453367 TCTCTTGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.19, C:0.46, G:0.15, T:0.21
Consensus pattern (13 bp):
TTGGACCACCCCC
Found at i:22453375 original size:26 final size:26
Alignment explanation
Indices: 22453318--22453368 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
22453308 ATTCTACCAT
*
22453318 ATTGGACCACCCCCTTGGACCACTCC
1 ATTGGACCACCCCCTTGAACCACTCC
22453344 ATTGGACC-CCTCCCTTGAACCACTC
1 ATTGGACCACC-CCCTTGAACCACTC
22453369 TCTTGGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.20, C:0.45, G:0.14, T:0.22
Consensus pattern (26 bp):
ATTGGACCACCCCCTTGAACCACTCC
Done.