Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 53 of 141
Found at i:17116541 original size:27 final size:27
Alignment explanation
Indices: 17116470--17116542 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
17116460 ACACGAGTAA
*
17116470 TGCCGCCAATCA-GTATGGCACCATTGG
1 TGCCGCCAATCACCT-TGGCACCATTGG
** * *
17116497 TGCCGCCAATGGCTTTGGCACCTTTGG
1 TGCCGCCAATCACCTTGGCACCATTGG
17116524 TGCCGCCAATCACCTTGGC
1 TGCCGCCAATCACCTTGGC
17116543 CTGACCAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.16, C:0.33, G:0.26, T:0.25
Consensus pattern (27 bp):
TGCCGCCAATCACCTTGGCACCATTGG
Found at i:17117238 original size:9 final size:9
Alignment explanation
Indices: 17117207--17117257 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 9
17117197 TAAAAAATCT
*
17117207 TTAAAATAA
1 TTAAAATTA
*
17117216 TTATAAAGTA
1 TTA-AAATTA
17117226 TTAAAATTA
1 TTAAAATTA
17117235 TTAAAAATATA
1 TT-AAAAT-TA
17117246 TTAAAATTA
1 TTAAAATTA
17117255 TTA
1 TTA
17117258 TTTTAGCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 15 0.42
10 17 0.47
11 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
TTAAAATTA
Found at i:17117304 original size:23 final size:23
Alignment explanation
Indices: 17117273--17117323 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
17117263 GCATAAATTT
*
17117273 TAATAATTTTAATATAATCTTAA
1 TAATAATTTTAACATAATCTTAA
* *
17117296 TAATTATTTTAACATAATTTTAA
1 TAATAATTTTAACATAATCTTAA
17117319 -AATAA
1 TAATAA
17117324 AATCGGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATAATTTTAACATAATCTTAA
Found at i:17117315 original size:11 final size:11
Alignment explanation
Indices: 17117274--17117323 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
17117264 CATAAATTTT
17117274 AATAATTTTAA
1 AATAATTTTAA
* *
17117285 TATAATCTTAA
1 AATAATTTTAA
*
17117296 TAATTATTTTAA
1 -AATAATTTTAA
*
17117308 CATAATTTTAA
1 AATAATTTTAA
17117319 AATAA
1 AATAA
17117324 AATCGGAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 22 0.73
12 8 0.27
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (11 bp):
AATAATTTTAA
Found at i:17118200 original size:14 final size:14
Alignment explanation
Indices: 17118176--17118222 Score: 69
Period size: 13 Copynumber: 3.4 Consensus size: 14
17118166 AACAAAATAA
17118176 AAAATAAAAAAAATT
1 AAAAT-AAAAAAATT
*
17118191 AAAAT-TAAAAATT
1 AAAATAAAAAAATT
17118204 AAAATAAAAAAATT
1 AAAATAAAAAAATT
17118218 AAAAT
1 AAAAT
17118223 CTTAAATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 12 0.41
15 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAAAAAATT
Found at i:17118229 original size:21 final size:22
Alignment explanation
Indices: 17118191--17118240 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
17118181 AAAAAAAATT
17118191 AAAATTAAAAATTAAAAT-AAA
1 AAAATTAAAAATTAAAATCAAA
*
17118212 AAAATT-AAAATCTTAAATCCAAA
1 AAAATTAAAAAT-TAAAAT-CAAA
17118235 AAAATT
1 AAAATT
17118241 GATTTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
23 9 0.36
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATTAAAAATTAAAATCAAA
Found at i:17119045 original size:3 final size:3
Alignment explanation
Indices: 17119037--17119074 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17119027 GCAGTACATC
17119037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17119075 CCCAAACCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17123314 original size:23 final size:23
Alignment explanation
Indices: 17123288--17123331 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17123278 ATAATTATAA
17123288 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
17123311 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
17123332 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:17123423 original size:18 final size:18
Alignment explanation
Indices: 17123390--17123428 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17123380 TTAATTAAGC
17123390 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
17123409 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
17123426 AAA
1 AAA
17123429 GATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:17127673 original size:20 final size:20
Alignment explanation
Indices: 17127650--17127687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17127640 ACTCTATCAT
17127650 TATAAGTCCACTTCTACCGA
1 TATAAGTCCACTTCTACCGA
**
17127670 TATAAGTTTACTTCTACC
1 TATAAGTCCACTTCTACC
17127688 CATACATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (20 bp):
TATAAGTCCACTTCTACCGA
Found at i:17135003 original size:37 final size:37
Alignment explanation
Indices: 17134949--17135102 Score: 157
Period size: 37 Copynumber: 4.1 Consensus size: 37
17134939 AAGTACACTT
*
17134949 TCGAGCCAAATCTTACCGTTATACTGAATAAAGCTCAA
1 TCGAG-CAAATCTTACCGTTATACTGAATGAAGCTCAA
* *
17134987 TCGAGCAAATCATACCGTTATACTGAATGGAGCTCAA
1 TCGAGCAAATCTTACCGTTATACTGAATGAAGCTCAA
* * ** * *
17135024 TTGAGCAAACCTTACTATTATACTGAATGATGTTCAA
1 TCGAGCAAATCTTACCGTTATACTGAATGAAGCTCAA
* * * *
17135061 TAGAGCAAAT-TCTACTGTAATACTGAGTGAAGCTCAA
1 TCGAGCAAATCT-TACCGTTATACTGAATGAAGCTCAA
*
17135098 ACGAG
1 TCGAG
17135103 TAGAAATCTA
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
36 1 0.01
37 89 0.94
38 5 0.05
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (37 bp):
TCGAGCAAATCTTACCGTTATACTGAATGAAGCTCAA
Found at i:17139068 original size:62 final size:63
Alignment explanation
Indices: 17138927--17139068 Score: 151
Period size: 62 Copynumber: 2.3 Consensus size: 63
17138917 ACACAGCCTG
* * * * **
17138927 GACACACGCCTATGTCCTCTGCCCGTGTAGTTTTGAAGCATAAAAAATGAGTTATACGGCCTG
1 GACACACGCCTATGTCCTCTGCCCGTGTAGTCTTGAACCACAAAAAATGAGTTACACGGCCCA
** * * * * *
17138990 GACACACGCCCGTGTCC-CTGGCCGTGTGGTCTTGTACCACAAACAGTGAGTTACACGGCCCA
1 GACACACGCCTATGTCCTCTGCCCGTGTAGTCTTGAACCACAAAAAATGAGTTACACGGCCCA
*
17139052 GACACACGTCTATGTCC
1 GACACACGCCTATGTCC
17139069 GTTTCCCGTG
Statistics
Matches: 63, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
62 48 0.76
63 15 0.24
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (63 bp):
GACACACGCCTATGTCCTCTGCCCGTGTAGTCTTGAACCACAAAAAATGAGTTACACGGCCCA
Found at i:17153702 original size:49 final size:49
Alignment explanation
Indices: 17153648--17153747 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
17153638 TTAGAATGTT
17153648 GTGCCCTAACGCATTGGGTGTGACATTTTCTTTCTCTGAAATGATAAGG
1 GTGCCCTAACGCATTGGGTGTGACATTTTCTTTCTCTGAAATGATAAGG
17153697 GTGCCCTAACGCATTGGGTGTGACATTTTCTTTCTCTGAAATGATAAGG
1 GTGCCCTAACGCATTGGGTGTGACATTTTCTTTCTCTGAAATGATAAGG
17153746 GT
1 GT
17153748 CTTAATGCGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (49 bp):
GTGCCCTAACGCATTGGGTGTGACATTTTCTTTCTCTGAAATGATAAGG
Found at i:17157049 original size:5 final size:5
Alignment explanation
Indices: 17157039--17157091 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
17157029 GTCTACCTGC
** *
17157039 AAAAT AAAAT AAAAT AGAAGG AAGAAGA AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT A-AAAT AA-AA-T AAAAT AAAAT AAAAT AAAAT
17157087 AAAAT
1 AAAAT
17157092 GTGCAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 32 0.80
6 6 0.15
7 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:17163974 original size:494 final size:492
Alignment explanation
Indices: 17163036--17164014 Score: 1376
Period size: 494 Copynumber: 2.0 Consensus size: 492
17163026 GTACCAAAAC
* ** * *
17163036 ATACTAAACATGAAGTCAAAGCATTATTAGCATATTTGACATTTCAATACGCATTATCAATTTTA
1 ATACCAAACATGAAGTCAAAGCATTACCAGCATATTTGACATCTCAATACACATTATCAATTTTA
* *
17163101 ACCTTATATAAGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTCCGATCTTTGTGGTTGT
66 ACCTTATATAAGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATTGT
* * *
17163166 AATTATCCTTGGTGAACTTGGGTAGATTGGGTTGGTTAGCAAATCTGTAATGTGAAAAAATTGTA
131 AATTACCCTTGGTGAACTTGAGTAGATTGGGTTGGTTAGAAAATCTGTAATGTGAAAAAATTGTA
* * * * *
17163231 TAATGGACTCATTATCTAGGTAAGGCCCTACAGAGGTAGATTGTTGAAACGAATTACATCAATAA
196 TAATAGACTCATTATCTAGATAAGGCCCCACAGAGGTAGATTATTGAAACGAATTACATCAACAA
*
17163296 ATTTTCGGTCTCCATCTTCATTTATCTTATTTTTATTCTCTTGCCCTAACTATCAAAACTCACAT
261 ATTCTCGGTCTCCATCTTCATTTATCTTATTTTTATTCTCTTGCCCTAACTATCAAAACTCACAT
* * * * *
17163361 TGCAACATTAATAATGTCTACTAACTAAAATTTTCTATAACCATACTTAATCAACCTTACAGAAT
326 TGCAACATCAATAACGTCTACTAACTAAAATGTTCTATAACCAGACTTAATCAACCTTACAAAAT
*
17163426 TAAAAGGACGGGATTCCAATTATCAAAATCAAAGTTTCTCAACAAAAAAAACTTAGAATTGTTGA
391 TAAAAGGACAGGATTCCAATTATCAAAATCAAAGTTTCTCAACAAAAAAAACTTAGAATTGTTGA
*
17163491 CGTTCTCCTTCAATCTAAGTATTTAATGGAGTCAAAT
456 CATTCTCCTTCAATCTAAGTATTTAATGGAGTCAAAT
* *
17163528 ATACCAAACATGAAGTCAAAGCATTACCAGCATATTTGATATCTCAATACATATTATCAATTTTA
1 ATACCAAACATGAAGTCAAAGCATTACCAGCATATTTGACATCTCAATACACATTATCAATTTTA
* * *
17163593 GCTTTATATATATGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTATGATCTTTGTGATT
66 ACCTTATATA-A-GGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATT
* * **
17163658 GTAATTACCCTTGGTGAGCTTGAGTAGATTGGGTTGTTTAGAAAATCTGTAATGTGAAAATTTTG
129 GTAATTACCCTTGGTGAACTTGAGTAGATTGGGTTGGTTAGAAAATCTGTAATGTGAAAAAATTG
* ** *
17163723 TATAATAGACTCATTATCTAGATAAGGCCCCATAGAGGTAGATTATTGAATGGAATTGCATCAAC
194 TATAATAGACTCATTATCTAGATAAGGCCCCACAGAGGTAGATTATTGAAACGAATTACATCAAC
* * ** * * *
17163788 AAGTTCTCGGTCTTCATCTTTGTTTATCTTGTTGTTTTTATTCTCTTGTCGC-AACTATTAAAAC
259 AAATTCTCGGTCTCCATCTTCATTTATC---TTATTTTTATTCTCTTG-CCCTAACTATCAAAAC
*
17163852 TCACATTGCAACATCAATAGCGTCTACTAACTAAAATCGTT-TATAACCAGACTTAATCAACCTT
320 TCACATTGCAACATCAATAACGTCTACTAACTAAAAT-GTTCTATAACCAGACTTAATCAACCTT
* * * ** * *
17163916 TCAAAATT-GAAGTACATTATTCTAATTA-CCAAATCAAAGTTTCT-AA-AAAAACAAACTTAGA
384 ACAAAATTAAAAGGACAGGATTCCAATTATCAAAATCAAAGTTTCTCAACAAAAA-AAACTTAGA
*
17163977 ATTGTTGACATTCTCCTTCAATCTAAGTATTTGATGGA
448 ATTGTTGACATTCTCCTTCAATCTAAGTATTTAATGGA
17164015 AAGTTATGCC
Statistics
Matches: 427, Mismatches: 52, Indels: 14
0.87 0.11 0.03
Matches are distributed among these distances:
492 66 0.15
493 6 0.01
494 233 0.55
495 15 0.04
496 14 0.03
497 89 0.21
498 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (492 bp):
ATACCAAACATGAAGTCAAAGCATTACCAGCATATTTGACATCTCAATACACATTATCAATTTTA
ACCTTATATAAGGAGGTTTTGGATTGAGAGTGAGAGCATACAAGCTGTACGATCTTTGTGATTGT
AATTACCCTTGGTGAACTTGAGTAGATTGGGTTGGTTAGAAAATCTGTAATGTGAAAAAATTGTA
TAATAGACTCATTATCTAGATAAGGCCCCACAGAGGTAGATTATTGAAACGAATTACATCAACAA
ATTCTCGGTCTCCATCTTCATTTATCTTATTTTTATTCTCTTGCCCTAACTATCAAAACTCACAT
TGCAACATCAATAACGTCTACTAACTAAAATGTTCTATAACCAGACTTAATCAACCTTACAAAAT
TAAAAGGACAGGATTCCAATTATCAAAATCAAAGTTTCTCAACAAAAAAAACTTAGAATTGTTGA
CATTCTCCTTCAATCTAAGTATTTAATGGAGTCAAAT
Found at i:17173612 original size:20 final size:19
Alignment explanation
Indices: 17173582--17173622 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17173572 TAATATATAT
*
17173582 ATCAATTTAATCCATTTCA
1 ATCAATTTAATCCAATTCA
*
17173601 ATCAACTTTAATTCAATTCA
1 ATCAA-TTTAATCCAATTCA
17173621 AT
1 AT
17173623 ATCAAAGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (19 bp):
ATCAATTTAATCCAATTCA
Found at i:17175656 original size:34 final size:34
Alignment explanation
Indices: 17175617--17175709 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
17175607 TGTTTGTCTA
17175617 TTATTTCGT-TTATTATTCTTT-ATTTTTCTTAAAT
1 TTATTT-GTATTATTATTCTTTCA-TTTTCTTAAAT
* * *
17175651 TTATTTTTATTTTTATTTTTTCATTTTCTTAAAT
1 TTATTTGTATTATTATTCTTTCATTTTCTTAAAT
* * *
17175685 TTATTTTTATTTTTATTTTTTCATT
1 TTATTTGTATTATTATTCTTTCATT
17175710 CTTTTTCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
33 1 0.02
34 52 0.96
35 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (34 bp):
TTATTTGTATTATTATTCTTTCATTTTCTTAAAT
Found at i:17175669 original size:5 final size:6
Alignment explanation
Indices: 17175650--17175737 Score: 70
Period size: 6 Copynumber: 13.5 Consensus size: 6
17175640 TTTTCTTAAA
**
17175650 TTTATT TTTATT TTTATTT TTTCATTT TCTTAAA TTTATT TTTATT TTTATTT
1 TTTATT TTTATT TTTA-TT TTT-A-TT T-TTATT TTTATT TTTATT TTTA-TT
*
17175703 TTTCATT CTTT-TT CTTTGTT TTTATT TTTATT TTT
1 TTT-ATT -TTTATT -TTTATT TTTATT TTTATT TTT
17175738 TATATATCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
6 43 0.61
7 15 0.21
8 10 0.14
9 2 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:17175738 original size:34 final size:34
Alignment explanation
Indices: 17175640--17175738 Score: 148
Period size: 34 Copynumber: 2.9 Consensus size: 34
17175630 TATTCTTTAT
17175640 TTTTCTTAAATTTATTTTTATTTTTATTTTTTCA
1 TTTTCTTAAATTTATTTTTATTTTTATTTTTTCA
17175674 TTTTCTTAAATTTATTTTTATTTTTATTTTTTCA
1 TTTTCTTAAATTTATTTTTATTTTTATTTTTTCA
** *
17175708 TTCTT-TT-TCTTTGTTTTTATTTTTATTTTTT
1 TT-TTCTTAAATTTATTTTTATTTTTATTTTTT
17175739 ATATATCTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
33 21 0.34
34 38 0.62
35 2 0.03
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (34 bp):
TTTTCTTAAATTTATTTTTATTTTTATTTTTTCA
Found at i:17183835 original size:50 final size:50
Alignment explanation
Indices: 17183775--17183954 Score: 233
Period size: 50 Copynumber: 3.7 Consensus size: 50
17183765 AAGGAAAAGG
17183775 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
* *
17183825 GACCAAGGCGAAAACCCGTAAAGAGCGCTTTGAGTCCT---AAAAA-AAA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
*** *
17183871 GACCAAATTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAGA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
* * * * *
17183921 GGCCAAGGTGAAAACCCGTAAAGGGAGCCTTGAG
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAG
17183955 ACCAAAGGGG
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 36 0.32
47 5 0.04
49 5 0.04
50 66 0.59
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (50 bp):
GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
Found at i:17183899 original size:46 final size:46
Alignment explanation
Indices: 17183775--17183918 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 46
17183765 AAGGAAAAGG
*
17183775 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAAA
1 GACCAAAGCGAAAACCCGCAAAGGGCGCTTTGAGTCCT---AAAAA-AAA
* * *
17183825 GACCAAGGCGAAAACCCGTAAAGAGCGCTTTGAGTCCTAAAAAAAA
1 GACCAAAGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAA
**
17183871 GACCAAATTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAA
1 GACCAAAGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAA
17183917 GA
1 GA
17183919 GAGGCCAAGG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 46 0.53
47 5 0.06
50 36 0.41
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (46 bp):
GACCAAAGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAA
Found at i:17185286 original size:44 final size:43
Alignment explanation
Indices: 17185175--17185295 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
17185165 TTTATGGCGG
17185175 ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACTA
1 ATCTTA-CCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACTA
* **
17185219 ATCTTACCCCCTGAAGTTGCAGTGGGGTAGATTAAAGTTAC-A
1 ATCTTACCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACTA
* * * *
17185261 AGTTTTGTCTCCCTGAAGTTGCAGTGGAGCAGATT
1 A-TCTT-ACCCCCTGAAGTTGCAGTGGAGTAGATT
17185296 GAGGATAACT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.03
43 35 0.52
44 30 0.45
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (43 bp):
ATCTTACCCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACTA
Found at i:17185510 original size:179 final size:179
Alignment explanation
Indices: 17185311--17185656 Score: 469
Period size: 179 Copynumber: 1.9 Consensus size: 179
17185301 TAACTAATCC
* * * * *
17185311 TATCTTCCTGAGGTTGCAGTGGATTAGACTGAAGATAGCATATCTCATGTCCCTAAAGTTACAGT
1 TATCTTCCAGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTCATGTCCCTAAAGTTACAG-
* * * * *
17185376 GG-AACAGATTAAAGCTATAAATTATAGATCTTACCTCTCTGAAGTTGCAGTAGAGCAGATCATA
65 GGAAAAAAATTAAAGCTATAAATTACAGATCTCACCTCTCTGAAGTTGCAGTAGAACAGATCATA
* *
17185440 GCAAACCCTATCTCTCTAAAGTTGCAGTAGAGTAGGTTGAAGACAAGTCT
130 GCAAACCCTATCTCCCTAAAGTTACAGTAGAGTAGGTTGAAGACAAGTCT
* * * *
17185490 TATCTTCCAGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTCATTTCCGTGAAGTTGCAGG
1 TATCTTCCAGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTCATGTCCCTAAAGTTACAGG
* * *
17185555 GAAAAAAATTGAAGCTATAAATTACAGATCTCATCTCTCTGAAGTTGCAGTAGAACAGATCATAT
66 GAAAAAAATTAAAGCTATAAATTACAGATCTCACCTCTCTGAAGTTGCAGTAGAACAGATCATAG
* * * *
17185620 CAAACCTTATCTCCCTGAAGTTACCGTGGAGTAGGTT
131 CAAACCCTATCTCCCTAAAGTTACAGTAGAGTAGGTT
17185657 ACAAAGAAGC
Statistics
Matches: 143, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
178 2 0.01
179 141 0.99
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (179 bp):
TATCTTCCAGAAGTTGCAGTGGAGTAGACTGAAGATAACAAATCTCATGTCCCTAAAGTTACAGG
GAAAAAAATTAAAGCTATAAATTACAGATCTCACCTCTCTGAAGTTGCAGTAGAACAGATCATAG
CAAACCCTATCTCCCTAAAGTTACAGTAGAGTAGGTTGAAGACAAGTCT
Found at i:17189922 original size:5 final size:5
Alignment explanation
Indices: 17189902--17189939 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
17189892 CCTAAAGAGT
*
17189902 ATTAA ATAATA ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTA-A ATTAA ATTAA ATTAA ATTAA ATTAA AT
17189940 ATTGGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATTAA
Found at i:17201466 original size:9 final size:9
Alignment explanation
Indices: 17201452--17201479 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17201442 GAGTTAAACG
17201452 AATCGAGTT
1 AATCGAGTT
17201461 AATCGAGTT
1 AATCGAGTT
17201470 AATCGAGTT
1 AATCGAGTT
17201479 A
1 A
17201480 TTTGAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (9 bp):
AATCGAGTT
Found at i:17203618 original size:3 final size:3
Alignment explanation
Indices: 17203610--17203656 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
17203600 AAATTGAATG
*
17203610 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
17203657 GTATGTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17208058 original size:126 final size:127
Alignment explanation
Indices: 17207900--17208154 Score: 494
Period size: 126 Copynumber: 2.0 Consensus size: 127
17207890 TCTAATCTGG
17207900 TAGATTTATGTCATCCTATTTCTAGGATTGCATGCAACTCCACTCAATTATGTTAGATCTACTCT
1 TAGATTTATGT-ATCCTATTTCTAGGATTGCATGCAACTCCACTCAATTATGTTAGATCTACTCT
17207965 TAAACAGAGACTTTTGCTCCACTGAAATAAGCACATTAAACTTGAATTAATATCTCATAAATA
65 TAAACAGAGACTTTTGCTCCACTGAAATAAGCACATTAAACTTGAATTAATATCTCATAAATA
17208028 TAGATTTATGT-TCCTATTTCTAGGATTGCATGCAACTCCACTCAATTATGTTAGATCTACTCTT
1 TAGATTTATGTATCCTATTTCTAGGATTGCATGCAACTCCACTCAATTATGTTAGATCTACTCTT
17208092 AAACAGAGACTTTTGCTCCACTGAAATAAGCACATTAAACTTGAATTAATATCTCATAAATA
66 AAACAGAGACTTTTGCTCCACTGAAATAAGCACATTAAACTTGAATTAATATCTCATAAATA
17208154 T
1 T
17208155 TAAAAGAAGA
Statistics
Matches: 127, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 116 0.91
128 11 0.09
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (127 bp):
TAGATTTATGTATCCTATTTCTAGGATTGCATGCAACTCCACTCAATTATGTTAGATCTACTCTT
AAACAGAGACTTTTGCTCCACTGAAATAAGCACATTAAACTTGAATTAATATCTCATAAATA
Found at i:17208448 original size:16 final size:16
Alignment explanation
Indices: 17208427--17208480 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
17208417 ACAATAGTAG
17208427 TAATTACACTTTCATT
1 TAATTACACTTTCATT
*
17208443 TAATTACTACTTT-A-G
1 TAATTAC-ACTTTCATT
* *
17208458 TAGTTACATTTTCATT
1 TAATTACACTTTCATT
17208474 TAATTAC
1 TAATTAC
17208481 TCTATGTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 14 0.47
17 5 0.17
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (16 bp):
TAATTACACTTTCATT
Found at i:17218935 original size:44 final size:44
Alignment explanation
Indices: 17218878--17219809 Score: 713
Period size: 44 Copynumber: 20.5 Consensus size: 44
17218868 GAAATGTAAT
* * *
17218878 TTCAACCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* *
17218922 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * ** * * * *
17218966 TTCAATCAGGTTTACTGTAGCTTCAGAGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * *
17219011 TTCAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * *
17219055 TTCAATCTGCTCCACTACAACTTTAGGGAGATGAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * *
17219099 TTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
** * *
17219144 TTCAATCTATTCCACCGCAACTTCAGGAAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* *
17219188 -TCTAACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTGCAGC
1 TTC-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-----T--AGC
* * * * * * * *
17219239 TTTAATCTGTTCCACTACAACTTCGGGGAAATAATATTTTCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGC
* * * * **
17219284 TTCAATCTGCTCCATTGCAACTTCAGGGAAATAAGATTCGCATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
17219328 TTCAATCTGCTCCATTGTAACTTCAGAGAGATAAGGTTTGTAACTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-----G--ATTTGTAGC
* ** * * * *
17219379 TTTAATCTATTCCCCTGC-ACTTCAAGGAAATAAGACTCATTACGGTAGA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--TT---GTAGC
* * * * *
17219428 TTTAATCTGAC-CCACTGCAACTTCAGAGG-TATATGATTTATCGC
1 TTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGC
* * * *
17219472 TTCAATCTACTCTACTGTAACTTCAGGGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * *
17219517 TTCAATCTGTTCCACTGCAACTTCAGGGAGAAAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * *
17219561 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTATGGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* *
17219605 TTTAATCTGCTCCACTGCAACTTCAGGGGGATAAGATTCACTACAGT-GAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT---T---GTAG-C
* * * *
17219655 TTCAATTTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * * *
17219700 TTCAATCTACTCTACTACAACTTCAGGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * ** * ** **
17219744 TTCAATTTGTTGTACTGCAACTTTAGAAAGATAAGATTTGTTATT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
*
17219789 TTCAATTTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAAC
17219810 CTAAAGGAGA
Statistics
Matches: 705, Mismatches: 142, Indels: 81
0.76 0.15 0.09
Matches are distributed among these distances:
43 6 0.01
44 361 0.51
45 200 0.28
46 2 0.00
47 5 0.01
49 22 0.03
50 58 0.08
51 47 0.07
52 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
Found at i:17219123 original size:133 final size:133
Alignment explanation
Indices: 17218878--17219809 Score: 730
Period size: 133 Copynumber: 6.8 Consensus size: 133
17218868 GAAATGTAAT
* * * * * *
17218878 TTCAACCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** * *
17218943 TTCAGGGAGATAAGATTTGTAGCTTCAATCAGGTTTACTGTAGCTTCAGAGAGATAAGATTTGCT
66 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
17219008 ATC
131 ATC
* * *
17219011 TTCAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTACAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * *
17219076 TTTAGGGAGATGAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGATTCGCT
66 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
17219141 ATC
131 ATC
** * *
17219144 TTCAATCTATTCCACCGCAACTTCA-GGAAGATAAGATTTGTAGC-TCTAACCTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAGCTTC-AATCTGCTCCACTGCA
* * * * * * *
17219207 ACTTCAGGGAGATGAGATTTGTAACTTGCAGCTTTAATCTGTTCCACTACAACTTCGGGGAAATA
64 ACTTCAGGGAGATAAGATTTG-----T--AGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATA
* *
17219272 ATATTTTCTATC
122 AGATTTGCTATC
* * * ** * *
17219284 TTCAATCTGCTCCATTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCTGCTCCATTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * ** * *
17219349 TTCAGAGAGATAAGGTTTGTAACTTGTAGCTTTAATCTATTCCCCTGC-ACTTCA-AGGAAATAA
66 TTCAGGGAGATAA-----G--ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAA
* **
17219412 GACTCATTACGGTAGA
123 GA-T--TT--GCTATC
* * * * * * * *
17219428 TTTAATCTGAC-CCACTGCAACTTCAGAGG-TATATGATTTATCGCTTCAATCTACTCTACTGTA
1 TTCAATCTG-CTCCACTGCAACTTCAG-GGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
* * * *
17219491 ACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGTTCCACTGCAACTTCAGGGAGAAAAGATTT
64 ACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
*
17219556 G-TAAC
128 GCTATC
* * *
17219561 TTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTATGGCTTTAATCTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
* * *
17219625 CTTCAGGGGGATAAGATTCACTACAGT-GACTTCAATTTGCTCTACTGCAACTTCAGAGAGATAA
65 CTTCAGGGAGATAAGATT---T---GTAG-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
*
17219689 GATTTGTTATC
123 GATTTGCTATC
* * * * * * * **
17219700 TTCAATCTACTCTACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGTTGTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* ** ** *
17219765 TTTAGAAAGATAAGATTTGTTATTTTCAATTTGCTCCACTGCAAC
66 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
17219810 CTAAAGGAGA
Statistics
Matches: 636, Mismatches: 120, Indels: 85
0.76 0.14 0.10
Matches are distributed among these distances:
131 2 0.00
132 7 0.01
133 251 0.39
134 22 0.03
136 4 0.01
137 4 0.01
138 57 0.09
139 93 0.15
140 118 0.19
141 6 0.01
142 3 0.00
144 61 0.10
145 4 0.01
147 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (133 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
ATC
Found at i:17219820 original size:89 final size:89
Alignment explanation
Indices: 17218878--17219809 Score: 554
Period size: 89 Copynumber: 10.2 Consensus size: 89
17218868 GAAATGTAAT
* * * * * * * *
17218878 TTCAACCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCAAC
** *
17218943 TTCAGGGAGATAAGATTTG-TAGC
66 TTCAGAAAGATAAGATTTGTTATC
* * ** * * * * * *
17218966 TTCAATCAGGTTTACTGTAGCTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGTAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATTTGCTCTACTGCAA
* *
17219031 CTTCAGGGAA-ATAAGATTTG-TAGC
65 CTTCA-GAAAGATAAGATTTGTTATC
* * * * * *
17219055 TTCAATCTGCTCCACTACAACTTTAGGGAGATGAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCAAC
** * * *
17219120 TTCAGGGAGATGAGATTCGCTATC
66 TTCAGAAAGATAAGATTTGTTATC
** * * * ** *
17219144 TTCAATCTATTCCACCGCAACTTCAGGAAGATAAGATTTGTAGC-TCTAACCTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTC-AATTTGCTCTACTGCAA
** * *
17219208 CTTCAGGGAGATGAGATTTGTAACTTGCAGC
65 CTTCAGAAAGATAAGATTTG----TT--ATC
* * * * * * * * * * *
17219239 TTTAATCTGTTCCACTACAACTTCGGGGAAATAATATTTTCTATCTTCAATCTGCTCCATTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTCAATTTGCTCTACTGCAA
* * * *
17219304 CTTCAGGGAA-ATAAGATTCG-CATA
65 CTTCA-GAAAGATAAGATTTGTTATC
* * * * * * **
17219328 TTCAATCTGCTCCATTGTAACTTCAGAGAGATAAGGTTTGTAACTTGTAGCTTTAATCTATTCCC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT-CA-ATTTGCTCTA-----
* * **
17219393 CTGC-ACTTCAAGGAA-ATAAGACTCATTACGGTAGA
59 CTGCAACTTC-AGAAAGATAAGA-T--TT--GTTATC
* * * * ** * * *
17219428 TTTAATCTGAC-CCACTGCAACTTCAGAGG-TATATGATTTATCGCTTCAATCTACTCTACTGTA
1 TTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCA
** *
17219491 ACTTCAGGGAGATAAGATTTGCTATC
64 ACTTCAGAAAGATAAGATTTGTTATC
* * * *
17219517 TTCAATCTGTTCCACTGCAACTTCAGGGAGAAAAGATTTGTAACTTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCAAC
* * **
17219582 TTCAGGAAGATAAGATTT-ATGGC
66 TTCAGAAAGATAAGATTTGTTATC
* * *
17219605 TTTAATCTGCTCCACTGCAACTTCAGGGGGATAAGATTCACTACAGTGACTTCAATTTGCTCTAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT---T---GTAACTTCAATTTGCTCTAC
*
17219670 TGCAACTTCAGAGAGATAAGATTTGTTATC
60 TGCAACTTCAGAAAGATAAGATTTGTTATC
* * * * *
17219700 TTCAATCTACTCTACTACAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGTTGTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCAAC
* *
17219765 TTTAGAAAGATAAGATTTGTTATT
66 TTCAGAAAGATAAGATTTGTTATC
*
17219789 TTCAATTTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAAC
17219810 CTAAAGGAGA
Statistics
Matches: 660, Mismatches: 143, Indels: 81
0.75 0.16 0.09
Matches are distributed among these distances:
87 3 0.00
88 112 0.17
89 304 0.46
90 8 0.01
91 3 0.00
92 1 0.00
93 9 0.01
94 65 0.10
95 70 0.11
96 34 0.05
97 6 0.01
98 7 0.01
99 2 0.00
100 34 0.05
101 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCTACTGCAAC
TTCAGAAAGATAAGATTTGTTATC
Found at i:17228619 original size:17 final size:17
Alignment explanation
Indices: 17228597--17228629 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17228587 ATGAAGAAAT
*
17228597 ATTATAATAATAACATA
1 ATTATAACAATAACATA
17228614 ATTATAACAATAACAT
1 ATTATAACAATAACAT
17228630 TGACATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTATAACAATAACATA
Found at i:17237743 original size:22 final size:25
Alignment explanation
Indices: 17237692--17237757 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 25
17237682 AAAAATTAAG
17237692 TTATATA-TATAAATTTATAAAATA
1 TTATATATTATAAATTTATAAAATA
**
17237716 AAATATATTAT-AATTT-T-AAATA
1 TTATATATTATAAATTTATAAAATA
17237738 TTATATATATATGAAATTTA
1 TTATATAT-TAT-AAATTTA
17237758 ACTACATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 11 0.33
23 4 0.12
24 10 0.30
25 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TTATATATTATAAATTTATAAAATA
Found at i:17237758 original size:24 final size:23
Alignment explanation
Indices: 17237693--17237758 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
17237683 AAAATTAAGT
17237693 TATATATATAAATTTATAAAATAA
1 TATATATATAAATTTA-AAAATAA
* * * *
17237717 AATATATTATAATTTTAAATATTA
1 TATATA-TATAAATTTAAAAATAA
17237741 TATATATATGAAATTTAA
1 TATATATAT-AAATTTAA
17237759 CTACATCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.09
24 22 0.65
25 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATATATATAAATTTAAAAATAA
Found at i:17239603 original size:2 final size:2
Alignment explanation
Indices: 17239596--17239627 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17239586 TGTTTCAAAC
17239596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17239628 GGTTCAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17244603 original size:13 final size:14
Alignment explanation
Indices: 17244584--17244622 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
17244574 ATCCCACCTC
17244584 AAATACAGATACAG
1 AAATACAGATACAG
*
17244598 -AATACAGAAACAG
1 AAATACAGATACAG
17244611 AAATAACAGATA
1 AAAT-ACAGATA
17244623 TAACATGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 12 0.57
14 3 0.14
15 6 0.29
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAATACAGATACAG
Found at i:17248907 original size:20 final size:20
Alignment explanation
Indices: 17248882--17248934 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
17248872 TATTTTGTAA
17248882 AAAGTATAGATACT-TGGTGC
1 AAAGTATAGATACTCT-GTGC
*
17248902 AAAGTATCGATACTCTGTGC
1 AAAGTATAGATACTCTGTGC
17248922 AAAGTATAGATAC
1 AAAGTATAGATAC
17248935 CTTGACCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AAAGTATAGATACTCTGTGC
Found at i:17252375 original size:27 final size:28
Alignment explanation
Indices: 17252321--17252385 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
17252311 ATAAAAAATA
*
17252321 ACCAAAATAGTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
17252349 ACCAAAATATTATAA-TTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
17252376 ACCAAAATAT
1 ACCAAAATAT
17252386 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAACTTTTTTTTATTT
Found at i:17252821 original size:19 final size:19
Alignment explanation
Indices: 17252797--17252865 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
17252787 ATTAAAATAG
17252797 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
17252816 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* * *
17252834 TCTCATTTAACAACTCTAT
1 TTTAATTTAATAACTCTAT
*
17252853 TTTAATTTTATAA
1 TTTAATTTAATAA
17252866 ATTTAATATA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
18 13 0.34
19 25 0.66
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:17253318 original size:13 final size:13
Alignment explanation
Indices: 17253300--17253337 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
17253290 CTGTGGCAGG
17253300 GTTTTTTTTCTT-T
1 GTTTTTTTT-TTCT
17253313 GTTTTTTTTTTCT
1 GTTTTTTTTTTCT
17253326 GTTTTTTGTTTT
1 GTTTTTT-TTTT
17253338 TTTGGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 17 0.74
14 4 0.17
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (13 bp):
GTTTTTTTTTTCT
Found at i:17253321 original size:15 final size:15
Alignment explanation
Indices: 17253301--17253339 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
17253291 TGTGGCAGGG
17253301 TTTTTTTTCT-TTGTT
1 TTTTTTTTCTGTT-TT
17253316 TTTTTTTTCTGTTTT
1 TTTTTTTTCTGTTTT
17253331 TTGTTTTTT
1 TT-TTTTTT
17253340 TGGTATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (15 bp):
TTTTTTTTCTGTTTT
Found at i:17253374 original size:27 final size:28
Alignment explanation
Indices: 17253344--17253409 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
17253334 TTTTTTTGGT
*
17253344 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
17253371 ATATTTTGGTAAATAAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAAGTTATA
17253400 ATATTTTGGT
1 ATATTTTGGT
17253410 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 14 0.39
29 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:17255445 original size:19 final size:18
Alignment explanation
Indices: 17255412--17255448 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17255402 TCCGGGATTT
*
17255412 AGAAACATATAAATTACA
1 AGAAAAATATAAATTACA
17255430 AGAAAAATACTAAATTACA
1 AGAAAAATA-TAAATTACA
17255449 CTAACCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (18 bp):
AGAAAAATATAAATTACA
Found at i:17256413 original size:56 final size:57
Alignment explanation
Indices: 17256339--17256452 Score: 221
Period size: 56 Copynumber: 2.0 Consensus size: 57
17256329 TTAACACTAC
17256339 AAAACAGTGGAAAACGAAACAGGATAAGCACTTTGTGCTTAGTAAGCTCATGTAACA
1 AAAACAGTGGAAAACGAAACAGGATAAGCACTTTGTGCTTAGTAAGCTCATGTAACA
17256396 AAAACAGTGG-AAACGAAACAGGATAAGCACTTTGTGCTTAGTAAGCTCATGTAACA
1 AAAACAGTGGAAAACGAAACAGGATAAGCACTTTGTGCTTAGTAAGCTCATGTAACA
17256452 A
1 A
17256453 GAATTATACT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 47 0.82
57 10 0.18
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (57 bp):
AAAACAGTGGAAAACGAAACAGGATAAGCACTTTGTGCTTAGTAAGCTCATGTAACA
Found at i:17259919 original size:18 final size:20
Alignment explanation
Indices: 17259882--17259919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17259872 ACCAAATACA
17259882 TAAACATCAATCTGACATATT
1 TAAACATCAATC-GACATATT
17259903 TAAACAT-AATC-ACATAT
1 TAAACATCAATCGACATAT
17259920 ACTTCCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (20 bp):
TAAACATCAATCGACATATT
Found at i:17260733 original size:27 final size:28
Alignment explanation
Indices: 17260657--17260737 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
17260647 GGAATTTAGT
* *
17260657 TGAATCAAGTATAACACACATAAAGTAC
1 TGAATCAAATATAACACACATAAAGCAC
*
17260685 TGAATCAAATATAACACACATAAAGCAT
1 TGAATCAAATATAACACACATAAAGCAC
* * *
17260713 TGGATC-CATATAACACGCATAAAGC
1 TGAATCAAATATAACACACATAAAGC
17260738 GTTAGATCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 17 0.36
28 30 0.64
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (28 bp):
TGAATCAAATATAACACACATAAAGCAC
Found at i:17260745 original size:27 final size:27
Alignment explanation
Indices: 17260666--17260745 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
17260656 TTGAATCAAG
* * *
17260666 TATAACACACATAAAGTACT-GAATCAAA
1 TATAACACACATAAAGCATTAG-ATC-CA
*
17260694 TATAACACACATAAAGCATTGGATCCA
1 TATAACACACATAAAGCATTAGATCCA
* *
17260721 TATAACACGCATAAAGCGTTAGATC
1 TATAACACACATAAAGCATTAGATC
17260746 TCCCGCCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.51
28 21 0.47
29 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (27 bp):
TATAACACACATAAAGCATTAGATCCA
Found at i:17262329 original size:21 final size:22
Alignment explanation
Indices: 17262303--17262348 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
17262293 AATCTATATA
17262303 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
17262324 TATACATGTACATATTTATTTTT
1 TATACATGTA-ATATTTATTTTT
17262347 TA
1 TA
17262349 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:17262604 original size:19 final size:20
Alignment explanation
Indices: 17262563--17262604 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
17262553 ATTTCTATGC
* *
17262563 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
17262583 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
17262602 CAT
1 CAT
17262605 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:17268641 original size:23 final size:23
Alignment explanation
Indices: 17268615--17268659 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17268605 TTTCTTATTG
17268615 TAGTAATTTTCGAGG-TATTACAA
1 TAGTAATTTTCG-GGATATTACAA
17268638 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
17268660 CGTATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:17282414 original size:30 final size:30
Alignment explanation
Indices: 17282378--17282468 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
17282368 GGTGAATTAA
17282378 GTTGCTCACACAAGCTAACATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAGG
* *
17282408 GTTGCTCACACAAACTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAGG
* *
17282438 GTTGTTCACATAAGCTTAA-ATTTATATCAGG
1 GTTGCTCACACAAGC-TAACA-TTATATCAGG
17282469 TTACCCATCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 41 0.77
31 12 0.23
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAGG
Found at i:17283031 original size:21 final size:19
Alignment explanation
Indices: 17282994--17283035 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
17282984 TTTTCACCTC
*
17282994 AATATTAAATCATGCAATT
1 AATATTAAATCAGGCAATT
17283013 AATATATAAATGCAGGCAATT
1 AATAT-TAAAT-CAGGCAATT
17283034 AA
1 AA
17283036 ATCTATCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AATATTAAATCAGGCAATT
Found at i:17285079 original size:82 final size:80
Alignment explanation
Indices: 17284941--17285171 Score: 275
Period size: 82 Copynumber: 2.8 Consensus size: 80
17284931 GGAGAAGTAG
** * * * *
17284941 GTTCAAATATTGAGGACTACATTGTTGGGAGGGGCAGCCATAATTCCTAAACATAGATCGTAAAA
1 GTTCAAACCTTGAGGACGATATTGTT-GGAAGGGCAGCCATAA-TCCTGAACATAGATCGTAAAA
*
17285006 TGGACACAGAGACGTAA
64 TGGACACAAAGACGTAA
* *
17285023 GTTCAAACCTTGAGGATGATATTGTTGGAAGAGGCAACCATGAATCCTGAACATAGATCGTAAAA
1 GTTCAAACCTTGAGGACGATATTGTTGGAAG-GGCAGCCAT-AATCCTGAACATAGATCGTAAAA
*
17285088 TAGACACAAAGACGTAA
64 TGGACACAAAGACGTAA
* * *
17285105 GTTCAAACCTTGAGGACGATATTGTTAGAAGGAGCAGCCATAAAT-CTCGAACATAAAGCGTAAA
1 GTTCAAACCTTGAGGACGATATTGTTGGAAGG-GCAGCCAT-AATCCT-GAACATAGATCGTAAA
17285169 ATG
63 ATG
17285172 AATATGAAGA
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
81 7 0.05
82 119 0.93
83 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (80 bp):
GTTCAAACCTTGAGGACGATATTGTTGGAAGGGCAGCCATAATCCTGAACATAGATCGTAAAATG
GACACAAAGACGTAA
Found at i:17288654 original size:24 final size:24
Alignment explanation
Indices: 17288626--17288674 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17288616 CTTAGAACCT
17288626 TAGGTCAGCTTTGTTAGAGAGTGA
1 TAGGTCAGCTTTGTTAGAGAGTGA
17288650 TAGGTCAGCTTTGTTAGAGAGTGA
1 TAGGTCAGCTTTGTTAGAGAGTGA
17288674 T
1 T
17288675 CCCACATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.33, T:0.35
Consensus pattern (24 bp):
TAGGTCAGCTTTGTTAGAGAGTGA
Found at i:17293792 original size:5 final size:5
Alignment explanation
Indices: 17293782--17293852 Score: 67
Period size: 5 Copynumber: 14.0 Consensus size: 5
17293772 TTTGGAAAGT
*
17293782 TTTAA TTTAA TTTAA TTTAA TTT-T TTTATA TTTTAA TTTAA TTATAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA-A -TTTAA TTTAA TT-TAA
*
17293829 --TAT TTTAA TTTAA TTATAA TTTAA
1 TTTAA TTTAA TTTAA TT-TAA TTTAA
17293853 AAATGTCACA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
3 2 0.04
4 3 0.05
5 37 0.67
6 9 0.16
7 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:17293833 original size:19 final size:19
Alignment explanation
Indices: 17293809--17293848 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17293799 TAATTTTTTT
17293809 ATATTTTAATTTAATTATA
1 ATATTTTAATTTAATTATA
17293828 ATATTTTAATTTAATTATA
1 ATATTTTAATTTAATTATA
17293847 AT
1 AT
17293849 TTAAAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTAATTTAATTATA
Found at i:17301581 original size:31 final size:31
Alignment explanation
Indices: 17301521--17301581 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
17301511 ATTATGCACG
*
17301521 TAAAACTTTAATTGTGATTCAAACCTATACT
1 TAAAACTTTAATTGTGATTCAAACATATACT
* * * *
17301552 TAAAATTTTAATTTTGATTTAATCATATAC
1 TAAAACTTTAATTGTGATTCAAACATATAC
17301582 ATTTAAAGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (31 bp):
TAAAACTTTAATTGTGATTCAAACATATACT
Found at i:17301758 original size:29 final size:30
Alignment explanation
Indices: 17301705--17301761 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
17301695 TAATTTGATC
* * *
17301705 AAATTAAAATTTATTGTATAGAATTACACA
1 AAATCAAAATTTATTATATACAATTACACA
17301735 AAATCAAAATTTA-TATATACAATTACA
1 AAATCAAAATTTATTATATACAATTACA
17301762 TATTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTTATTATATACAATTACACA
Found at i:17302643 original size:15 final size:15
Alignment explanation
Indices: 17302622--17302662 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
17302612 TATTTTGTTC
17302622 AAAATTTTA-GTATT
1 AAAATTTTATGTATT
17302636 ACAAA-TTTATGTATT
1 A-AAATTTTATGTATT
17302651 AATAATTTTATG
1 AA-AATTTTATG
17302663 CTGTAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.26
15 11 0.48
16 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (15 bp):
AAAATTTTATGTATT
Found at i:17303312 original size:3 final size:3
Alignment explanation
Indices: 17303304--17303330 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17303294 TCCTAAAATT
17303304 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
17303331 AGGATAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17311619 original size:25 final size:25
Alignment explanation
Indices: 17311565--17311687 Score: 74
Period size: 25 Copynumber: 4.9 Consensus size: 25
17311555 ATGTAAACGA
** *
17311565 GAAGCTCTTTCGAGCCATATAAT-AG
1 GAAGCTCTTGAGAGCCAAAT-ATCAG
* *
17311590 AAAGCTCTTGCGAGCCAAATATCAG
1 GAAGCTCTTGAGAGCCAAATATCAG
* * *
17311615 GAAGCT-TAAGAGAGCC-ATTAACCAG
1 GAAGCTCT-TGAGAGCCAAAT-ATCAG
* * *
17311640 GAAGCTCATGGGAGCCAATTATCAG
1 GAAGCTCTTGAGAGCCAAATATCAG
*
17311665 GAAGCT-TGTGAGAGCCAAGTATC
1 GAAGCTCT-TGAGAGCCAAATATC
17311688 GAGAAGATCA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
24 5 0.06
25 69 0.90
26 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
GAAGCTCTTGAGAGCCAAATATCAG
Found at i:17312414 original size:21 final size:21
Alignment explanation
Indices: 17312390--17312429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17312380 AGTTTTGCAA
*
17312390 ATTAATCCTCGAGATAGCTAG
1 ATTAAGCCTCGAGATAGCTAG
*
17312411 ATTAAGCTTCGAGATAGCT
1 ATTAAGCCTCGAGATAGCT
17312430 TAAGCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
ATTAAGCCTCGAGATAGCTAG
Found at i:17317820 original size:82 final size:82
Alignment explanation
Indices: 17317683--17317928 Score: 492
Period size: 82 Copynumber: 3.0 Consensus size: 82
17317673 GCTAGGGCTT
17317683 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
1 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
17317748 TTTATATTCTTTTTGTG
66 TTTATATTCTTTTTGTG
17317765 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
1 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
17317830 TTTATATTCTTTTTGTG
66 TTTATATTCTTTTTGTG
17317847 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
1 TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
17317912 TTTATATTCTTTTTGTG
66 TTTATATTCTTTTTGTG
17317929 AGTGCTCTAT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 164 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (82 bp):
TTCTTGAGGGCGACAAGATGTAGTCGCCAATGAGTTTTGGTGGGAGTTTTATGGTAAAAGAGTAT
TTTATATTCTTTTTGTG
Found at i:17319607 original size:2 final size:2
Alignment explanation
Indices: 17319600--17319627 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17319590 TGCATACGGA
17319600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17319628 TGATGTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17322227 original size:4 final size:4
Alignment explanation
Indices: 17322218--17322256 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
17322208 AAGAGCTGAT
* * *
17322218 AGAA AGAA AGCA AGAA TGAA AGAT AGAA AGAA AGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
17322257 GAGGAGAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.67, C:0.03, G:0.26, T:0.05
Consensus pattern (4 bp):
AGAA
Found at i:17323031 original size:12 final size:11
Alignment explanation
Indices: 17323001--17323034 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
17322991 TCTATTAAGC
17323001 TTTTTATTTAA
1 TTTTTATTTAA
*
17323012 TATTTATTTATA
1 TTTTTATTTA-A
17323024 TTTTTATTTAA
1 TTTTTATTTAA
17323035 AAATAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:17324004 original size:13 final size:14
Alignment explanation
Indices: 17323986--17324014 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17323976 TCAATAATAA
17323986 AAAATAAAAT-ACC
1 AAAATAAAATAACC
17323999 AAAATAAAATAACC
1 AAAATAAAATAACC
17324013 AA
1 AA
17324015 GAAATCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAATAACC
Found at i:17325559 original size:16 final size:17
Alignment explanation
Indices: 17325531--17325565 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
17325521 TTATGTTAAG
17325531 TATTTTCATGTTATAAA
1 TATTTTCATGTTATAAA
17325548 TATTTT-ATGTTATAAA
1 TATTTTCATGTTATAAA
17325564 TA
1 TA
17325566 GGTGAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
TATTTTCATGTTATAAA
Found at i:17330973 original size:199 final size:200
Alignment explanation
Indices: 17330621--17331020 Score: 793
Period size: 199 Copynumber: 2.0 Consensus size: 200
17330611 AATGATTTTA
17330621 AATTTTCAATTATTAGACTAATAAGTTCTATATATTACACTATAAATAAGCATTATGTAATTGAA
1 AATTTTCAATTATTAGACTAATAAGTTCTATATATTACACTATAAATAAGCATTATGTAATTGAA
17330686 TATACCAAATGACATAGAAAATATAGGGAAATGAGCATGCTAAAATGTATGATAAATGGTTAAAT
66 TATACCAAATGACATAGAAAATATAGGGAAATGAGCATGCTAAAATGTATGATAAATGGTTAAAT
17330751 TTGTGAATATTAAGATACCAAGGTATGACCTTAGGCATTGTTTGGTATAACCAGAGCCAAAAAGC
131 TTGTGAATATTAAGATACCAAGGTATGACCTTAGGCATTGTTTGGTATAACCAGAGCCAAAAAGC
17330816 TAACC
196 TAACC
17330821 AATTTTCAATT-TTAGACTAATAAGTTCTATATATTACACTATAAATAAGCATTATGTAATTGAA
1 AATTTTCAATTATTAGACTAATAAGTTCTATATATTACACTATAAATAAGCATTATGTAATTGAA
17330885 TATACCAAATGACATAGAAAATATAGGGAAATGAGCATGCTAAAATGTATGATAAATGGTTAAAT
66 TATACCAAATGACATAGAAAATATAGGGAAATGAGCATGCTAAAATGTATGATAAATGGTTAAAT
17330950 TTGTGAATATTAAGATACCAAGGTATGACCTTAGGCATTGTTTGGTATAACCAGAGCCAAAAAGC
131 TTGTGAATATTAAGATACCAAGGTATGACCTTAGGCATTGTTTGGTATAACCAGAGCCAAAAAGC
17331015 TAACC
196 TAACC
17331020 A
1 A
17331021 TATTCATCAA
Statistics
Matches: 200, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
199 189 0.94
200 11 0.05
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (200 bp):
AATTTTCAATTATTAGACTAATAAGTTCTATATATTACACTATAAATAAGCATTATGTAATTGAA
TATACCAAATGACATAGAAAATATAGGGAAATGAGCATGCTAAAATGTATGATAAATGGTTAAAT
TTGTGAATATTAAGATACCAAGGTATGACCTTAGGCATTGTTTGGTATAACCAGAGCCAAAAAGC
TAACC
Found at i:17333826 original size:19 final size:18
Alignment explanation
Indices: 17333782--17333826 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
17333772 GTGTCTTTCG
17333782 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* * *
17333800 TTTACAAATCGTTATTCAA
1 TTTCCAAAACATTATTC-A
17333819 TTTCCAAA
1 TTTCCAAA
17333827 CGGTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:17334806 original size:17 final size:18
Alignment explanation
Indices: 17334770--17334806 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
17334760 CCATGATGTT
*
17334770 TGCCCGTGTAGGCCCGCA
1 TGCCCGTGTAGGCCCACA
17334788 TGCCCGTGT-GGCCCACA
1 TGCCCGTGTAGGCCCACA
17334805 TG
1 TG
17334807 GCTGTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.38, G:0.32, T:0.19
Consensus pattern (18 bp):
TGCCCGTGTAGGCCCACA
Found at i:17349962 original size:51 final size:51
Alignment explanation
Indices: 17349886--17350073 Score: 229
Period size: 51 Copynumber: 3.7 Consensus size: 51
17349876 CATGAGAACT
* * * **
17349886 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTATGGTCA
17349937 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTATGGTCA
* * * *
17349988 -AGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GGTATTGGTCA
1 CA-TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTA-TGGTCA
* *
17350039 CGTGTGTAGTACTAAGTGTAGGCTACTATGTGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
17350074 TGAATAGCAT
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
51 114 0.96
52 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTATGGTCA
Found at i:17350064 original size:102 final size:102
Alignment explanation
Indices: 17349888--17350073 Score: 275
Period size: 102 Copynumber: 1.8 Consensus size: 102
17349878 TGAGAACTCA
* * *
17349888 TGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAG
17349953 TGCAGGCTACTATGTGTACCAGATAGCTTTGGTCAAG
66 TGCAGGCTACTATGTGTACCAGATAGCTTTGGTCAAG
* ** * *
17349990 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GGTATTGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACAAGATAGTTA-TGGTCACATGTGTAGTACTAA
*
17350054 GTGTAGGCTACTATGTGTAC
65 GTGCAGGCTACTATGTGTAC
17350074 TGAATAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 3 0.04
102 71 0.96
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (102 bp):
TGTGTAGTACTATGTGCAGGCTACTACGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAG
TGCAGGCTACTATGTGTACCAGATAGCTTTGGTCAAG
Found at i:17350102 original size:51 final size:49
Alignment explanation
Indices: 17349942--17350108 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 49
17349932 GGTCACATGT
* *
17349942 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTTGGTC-AAGTG
1 GTAGTACTAAGTGCAGGCTACTATGTGTACGA-ATAGCATTGGTCAAAG-G
* * * * * *
17349992 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTATTGGTC-ACGTG
1 -GTAGTACTAAGTGCAGGCTACTATGTGTA-CGAATAGCATTGGTCAAAG-G
*
17350043 TGTAGTACTAAGTGTAGGCTACTATGTGTACTGAATAGCATTGGTCATAAGG
1 -GTAGTACTAAGTGCAGGCTACTATGTGTAC-GAATAGCATTGGTCA-AAGG
* *
17350095 GTGGTACTATGTGC
1 GTAGTACTAAGTGC
17350109 GGAACCACCG
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
50 1 0.01
51 89 0.95
52 2 0.02
53 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGCTACTATGTGTACGAATAGCATTGGTCAAAGG
Found at i:17352427 original size:39 final size:39
Alignment explanation
Indices: 17352384--17352540 Score: 215
Period size: 39 Copynumber: 4.0 Consensus size: 39
17352374 GTTCATTTTG
* * * * *
17352384 ATAATCATATTACTTTTAAGCATTTATCACATTACACAT
1 ATAATCACATAACATTTAAGCATATATCACAATACACAT
* *
17352423 ATAATCACATAACATTTAAGCAAATATCACAATACTCAT
1 ATAATCACATAACATTTAAGCATATATCACAATACACAT
* *
17352462 ATAATCACATAAAATTTAAGCATATATCACAATACTCAT
1 ATAATCACATAACATTTAAGCATATATCACAATACACAT
* *
17352501 ATAATCACATAACATTCAAGTATATATCACAATACACAT
1 ATAATCACATAACATTTAAGCATATATCACAATACACAT
17352540 A
1 A
17352541 ACATGTTTAT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (39 bp):
ATAATCACATAACATTTAAGCATATATCACAATACACAT
Found at i:17357231 original size:22 final size:22
Alignment explanation
Indices: 17357203--17357245 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17357193 CTGCGGCGCT
*
17357203 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
17357225 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
17357246 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:17367442 original size:63 final size:62
Alignment explanation
Indices: 17367304--17367466 Score: 175
Period size: 63 Copynumber: 2.6 Consensus size: 62
17367294 ATATCTTTGT
17367304 CCCATGTGACTCTAATTTCAAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
1 CCCATGTGACTCTAATTT-AAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
* ** * * * * **
17367367 CCCGTGCAACTCTAATTCTAAAGCAGTGAGTTACGC-GACCTGGACGCACACTCGTGTCCCTGG
1 CCCATGTGACTCTAATT-TAAAACAGTGAGTTACACAG-CCTAGACACACACTCGTGTCCCTAA
* * *
17367430 TCCATGTGACTCTAATTTTAAAATAGTGTGTTACACA
1 CCCATGTGACTCTAA-TTTAAAACAGTGAGTTACACA
17367467 ATCGTGTTGC
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
62 1 0.01
63 75 0.95
64 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (62 bp):
CCCATGTGACTCTAATTTAAAACAGTGAGTTACACAGCCTAGACACACACTCGTGTCCCTAA
Found at i:17377376 original size:23 final size:23
Alignment explanation
Indices: 17377346--17377391 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17377336 TTCTTAGTGT
17377346 GCTCATCTACATATATATATATA
1 GCTCATCTACATATATATATATA
17377369 GCTCATCTACATATATATATATA
1 GCTCATCTACATATATATATATA
17377392 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (23 bp):
GCTCATCTACATATATATATATA
Found at i:17381090 original size:34 final size:34
Alignment explanation
Indices: 17381011--17381090 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
17381001 ATATCATATT
* *
17381011 AGAATGTCACATTACCAAAAACATATATCAAATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
* * *
17381045 AAAATGTCATATTCCCAAAAACATATACCAGATC
1 AGAATGTCATATTACCAAAAACATATACCAAATC
*
17381079 AGAATGCCATAT
1 AGAATGTCATAT
17381091 CAAATTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.24
Consensus pattern (34 bp):
AGAATGTCATATTACCAAAAACATATACCAAATC
Found at i:17390075 original size:22 final size:22
Alignment explanation
Indices: 17390050--17390094 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17390040 TTGGCTGAGA
*
17390050 TAGGAGAAATGGTTGGAAAGGT
1 TAGGAGAAATGGTTAGAAAGGT
17390072 TAGGAGAAATGGTTAGAAAGGT
1 TAGGAGAAATGGTTAGAAAGGT
17390094 T
1 T
17390095 GTCAAGTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (22 bp):
TAGGAGAAATGGTTAGAAAGGT
Found at i:17395882 original size:90 final size:91
Alignment explanation
Indices: 17395782--17395964 Score: 359
Period size: 90 Copynumber: 2.0 Consensus size: 91
17395772 TACATTCATT
17395782 TATTAAAGTAGAGCAAAAGTAATTATAAAATTATAAAAAAATAGATTATTAACAATTTTAATTTT
1 TATTAAAGTAGAGCAAAAGTAATTATAAAATTATAAAAAAATAGATTATTAACAATTTTAATTTT
17395847 AGAACAAATTAATTTAA-ATTATGTA
66 AGAACAAATTAATTTAACATTATGTA
17395872 TATTAAAGTAGAGCAAAAGTAATTATAAAATTATAAAAAAATAGATTATTAACAATTTTAATTTT
1 TATTAAAGTAGAGCAAAAGTAATTATAAAATTATAAAAAAATAGATTATTAACAATTTTAATTTT
17395937 AGAACAAATTAATTTAACATTATGTA
66 AGAACAAATTAATTTAACATTATGTA
17395963 TA
1 TA
17395965 AAAATATAAC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 82 0.89
91 10 0.11
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (91 bp):
TATTAAAGTAGAGCAAAAGTAATTATAAAATTATAAAAAAATAGATTATTAACAATTTTAATTTT
AGAACAAATTAATTTAACATTATGTA
Found at i:17396074 original size:16 final size:16
Alignment explanation
Indices: 17396053--17396084 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17396043 TTTTTTGTAT
*
17396053 TTTTTAATATTAAATA
1 TTTTTAAAATTAAATA
17396069 TTTTTAAAATTAAATA
1 TTTTTAAAATTAAATA
17396085 ACATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTTAAAATTAAATA
Found at i:17406296 original size:25 final size:25
Alignment explanation
Indices: 17406262--17406315 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17406252 AAAAGCAACT
* *
17406262 AAAACAAAATTAAAAAGAAAGAT-AA
1 AAAACAAAATGAAAAA-AAAAATGAA
*
17406287 AAAATAAAATGAAAAAAAAAATGAA
1 AAAACAAAATGAAAAAAAAAATGAA
17406312 AAAA
1 AAAA
17406316 AACTTAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (25 bp):
AAAACAAAATGAAAAAAAAAATGAA
Found at i:17406301 original size:13 final size:12
Alignment explanation
Indices: 17406262--17406317 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
17406252 AAAAGCAACT
* *
17406262 AAAACAAAATTA
1 AAAAAAAAATGA
*
17406274 AAAAGAAAGAT-A
1 AAAA-AAAAATGA
17406286 AAAAATAAAATGA
1 AAAAA-AAAATGA
17406299 AAAAAAAAATGA
1 AAAAAAAAATGA
17406311 AAAAAAA
1 AAAAAAA
17406318 CTTAATGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.03
12 27 0.71
13 10 0.26
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:17406491 original size:4 final size:4
Alignment explanation
Indices: 17406478--17406507 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
17406468 AAAATATAAC
17406478 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
17406508 AGGGGTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:17406639 original size:21 final size:21
Alignment explanation
Indices: 17406613--17406655 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17406603 TGCAATTAAA
17406613 AATTAACCCAATTTTCACATG
1 AATTAACCCAATTTTCACATG
17406634 AATTAACCCAATTTTCACATG
1 AATTAACCCAATTTTCACATG
17406655 A
1 A
17406656 CTATGTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTAACCCAATTTTCACATG
Found at i:17410024 original size:38 final size:39
Alignment explanation
Indices: 17409952--17410029 Score: 115
Period size: 38 Copynumber: 2.0 Consensus size: 39
17409942 ATAGAATTAT
17409952 ACATTTACAAAAAGTGGAAAACGTTTTTGAAATTAAAATA
1 ACATTTACAAAAAGT-GAAAACGTTTTTGAAATTAAAATA
*
17409992 ACATTTAC-AAAAGT-AAAACGTTTTTTGAAATTAGAATA
1 ACATTTACAAAAAGTGAAAACG-TTTTTGAAATTAAAATA
17410030 TATATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 6 0.17
38 16 0.44
39 6 0.17
40 8 0.22
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.32
Consensus pattern (39 bp):
ACATTTACAAAAAGTGAAAACGTTTTTGAAATTAAAATA
Found at i:17414962 original size:20 final size:20
Alignment explanation
Indices: 17414937--17414976 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17414927 ACATCTACAC
17414937 CTCTCCCAGTAAACTGAAAT
1 CTCTCCCAGTAAACTGAAAT
17414957 CTCTCCCAGTAAACTGAAAT
1 CTCTCCCAGTAAACTGAAAT
17414977 AGAAGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (20 bp):
CTCTCCCAGTAAACTGAAAT
Found at i:17418577 original size:14 final size:14
Alignment explanation
Indices: 17418558--17418585 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17418548 TTCAAACACT
17418558 ACATGTTCGATAGA
1 ACATGTTCGATAGA
17418572 ACATGTTCGATAGA
1 ACATGTTCGATAGA
17418586 GGCTTGAAAG
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:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
ACATGTTCGATAGA
Found at i:17419246 original size:23 final size:24
Alignment explanation
Indices: 17419207--17419254 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
17419197 TTTATTTGAT
17419207 AATATGTTTTGATATAACAAATTAA
1 AATATGTTTTGATATAA-AAATTAA
*
17419232 AATAT-TTTTGA-ATAAAAGTTAA
1 AATATGTTTTGATATAAAAATTAA
17419254 A
1 A
17419255 GTTGAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 6 0.27
25 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATATGTTTTGATATAAAAATTAA
Found at i:17419382 original size:20 final size:18
Alignment explanation
Indices: 17419357--17419408 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
17419347 TCAACATTTA
17419357 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT--TTTT
*
17419377 AATCAAGTTAGAACTTTTT
1 AATCAAGTTA-AAATTTTT
17419396 AATCAAAGTTAAA
1 AATC-AAGTTAAA
17419409 TTGTCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 16 0.55
21 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTT
Found at i:17419417 original size:20 final size:18
Alignment explanation
Indices: 17419357--17419417 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 18
17419347 TCAACATTTA
*
17419357 AATCAAGTTAAAATGGTTTT
1 AATCAAGTT-AAATTG-TTT
17419377 AATCAAGTTAGAACTT-TTT
1 AATCAAGTTA-AA-TTGTTT
17419396 AATCAAAGTTAAATTGTCTT
1 AATC-AAGTTAAATTGT-TT
17419416 AA
1 AA
17419418 AACAAGTCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 21 0.60
21 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
AATCAAGTTAAATTGTTT
Found at i:17422120 original size:41 final size:41
Alignment explanation
Indices: 17422069--17422253 Score: 210
Period size: 41 Copynumber: 4.5 Consensus size: 41
17422059 TATATACCAT
* ** *
17422069 TAGTGGCGTTTTTCTTATAAACGCCGCAAAAGGTAAAGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
*
17422110 TAGTGGCG-TTTCTCCCATAAACACCGCAAAAGATAAAGCAA
1 TAGTGGCGTTTTC-CCCATAAACACCGCAAAAGGTAAAGCAA
* ** * *
17422151 TAGTGGCGCTTTCCCCATAAATGCCGCAAAAGGTGAGGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
* * * * *
17422192 TAGCGGCATTTTCCCCATAAACATCGTAAAAGGTAAGGCAA
1 TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
*
17422233 TAGCGGCGTTTTCCCCATAAA
1 TAGTGGCGTTTTCCCCATAAA
17422254 TGTCGCGAAT
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.02
41 116 0.94
42 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
TAGTGGCGTTTTCCCCATAAACACCGCAAAAGGTAAAGCAA
Found at i:17428989 original size:115 final size:115
Alignment explanation
Indices: 17428772--17428989 Score: 287
Period size: 115 Copynumber: 1.9 Consensus size: 115
17428762 AGTGGACCAA
* * * *
17428772 ACTAAAACCACGAATCTCATCCCCCTGAAGTTGCTGCGAAGAAGATTGAAGTTACAAGTCGTATC
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
* * * *
17428837 TCTCTGAAGTGCAATAGAGTGGATTGAAGCTAGAAGACACAGTGAAGCAG
66 TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
* ** *
17428887 ACTAAAACCATGAATCTTGTCCCCTTAAAGTTGCTGCGAAGAAGATT-AATGCTACAACTCATAT
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAA-GCTACAACTCATAT
*
17428951 CTCTCTGAAGTG-AAGTAGAGTGTATCGAAACAACAAGAC
65 CTCTCTGAAGTGCAA-TAGAGTGGATCGAAACAACAAGAC
17428990 CCAATGGACT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 4 0.05
115 84 0.95
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (115 bp):
ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
Found at i:17431486 original size:19 final size:18
Alignment explanation
Indices: 17431445--17431487 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
17431435 CGTCTCTTTT
17431445 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
17431464 TGCATTACATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
17431483 TGCAT
1 TGCAT
17431488 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:17433759 original size:10 final size:10
Alignment explanation
Indices: 17433746--17433808 Score: 67
Period size: 10 Copynumber: 6.4 Consensus size: 10
17433736 AATTGTTAAA
17433746 AAAAAAGAAG
1 AAAAAAGAAG
17433756 -AAAAA-AAG
1 AAAAAAGAAG
17433764 AAAAAAGAAG
1 AAAAAAGAAG
* *
17433774 GAAAAAGAAA
1 AAAAAAGAAG
*
17433784 AAAAAAGAAT
1 AAAAAAGAAG
*
17433794 AAGAAAAAAAG
1 AA-AAAAGAAG
17433805 AAAA
1 AAAA
17433809 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 3 0.07
9 10 0.23
10 23 0.52
11 8 0.18
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:17433769 original size:18 final size:18
Alignment explanation
Indices: 17433746--17433806 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 18
17433736 AATTGTTAAA
17433746 AAAAAAGAAGAAAAAAAG
1 AAAAAAGAAGAAAAAAAG
*
17433764 AAAAAAGAAG-GAAAAAG
1 AAAAAAGAAGAAAAAAAG
* * *
17433781 AAAAAAAAAGAATAAGA-
1 AAAAAAGAAGAAAAAAAG
17433798 AAAAAAGAA
1 AAAAAAGAA
17433807 AAGGAGAGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAGAAAAAAAG
Found at i:17433778 original size:17 final size:17
Alignment explanation
Indices: 17433746--17433802 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
17433736 AATTGTTAAA
*
17433746 AAAAAAGAAGAAAAAAAG
1 AAAAAAGAAG-GAAAAAG
17433764 AAAAAAGAAGGAAAAAG
1 AAAAAAGAAGGAAAAAG
* *
17433781 AAAAAA-AAAGAATAAG
1 AAAAAAGAAGGAAAAAG
17433797 AAAAAA
1 AAAAAA
17433803 AGAAAAGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 14 0.39
17 12 0.33
18 10 0.28
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAGGAAAAAG
Found at i:17433803 original size:17 final size:17
Alignment explanation
Indices: 17433744--17433803 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
17433734 AAAATTGTTA
17433744 AAAAAAAAGAAGAAAAA-
1 AAAAAAAA-AAGAAAAAG
17433761 AAGAAAAAAGAAGGAAAAAG
1 AA-AAAAAA-AA-GAAAAAG
*
17433781 -AAAAAAAAAGAATAAG
1 AAAAAAAAAAGAAAAAG
17433797 AAAAAAA
1 AAAAAAA
17433804 GAAAAGGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 6 0.16
17 10 0.26
18 15 0.39
19 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:17435150 original size:45 final size:45
Alignment explanation
Indices: 17435040--17435254 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 45
17435030 AACAGATCAG
* * * * * *
17435040 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGAAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * * *
17435084 TCGAAGACATCAG-CCTTGCCTTCATGTATTGACAGCGGAGCAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* ** * * *
17435129 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGTAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* * * *
17435173 TCGAAGACACCAG-CCTTGCTTTCCTGTACTGACAGCGGAGCAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
* *
17435218 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCG
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCG
17435255 AAGTAGATCG
Statistics
Matches: 127, Mismatches: 38, Indels: 11
0.72 0.22 0.06
Matches are distributed among these distances:
44 65 0.51
45 62 0.49
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (45 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGGAGCAGAC
Found at i:17435191 original size:89 final size:89
Alignment explanation
Indices: 17435040--17435266 Score: 337
Period size: 89 Copynumber: 2.6 Consensus size: 89
17435030 AACAGATCAG
* * * *
17435040 TGAAGATAGCAGATCTTACCTTCCTGTACTAACGGTGAAGAAGATCGAAGACATCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
*
17435105 TCATGTATTGACAGCGGAGCAGAC
66 TCATGTACTGACAGCGGAGCAGAC
* * *
17435129 TGAAGATAGCAGATCTTGCCTTTCTGTACTGATGGTGAAGTAGATCGAAGACACCAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
*
17435194 TCCTGTACTGACAGCGGAGCAGAC
66 TCATGTACTGACAGCGGAGCAGAC
* * * *
17435218 TGAAGATAGCAGATCATGCCTTCCTGTACTGGCAGCGAAGTAGATCGAA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAA
17435267 AAATAACGAA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 123 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGTGAAGTAGATCGAAGACACCAGCCTTGCCT
TCATGTACTGACAGCGGAGCAGAC
Found at i:17435645 original size:115 final size:115
Alignment explanation
Indices: 17435428--17435645 Score: 287
Period size: 115 Copynumber: 1.9 Consensus size: 115
17435418 AGTGGACCAA
* * * *
17435428 ACTAAAACCACGAATCTCATCCCCCTGAAGTTGCTGCGAAGAAGATTGAAGTTACAAGTCGTATC
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
* * * *
17435493 TCTCTGAAGTGCAATAGAGTGGATTGAAGCTAGAAGACACAGTGAAGCAG
66 TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
* ** *
17435543 ACTAAAACCATGAATCTTGTCCCCTTAAAGTTGCTGCGAAGAAGATT-AATGCTACAACTCATAT
1 ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAA-GCTACAACTCATAT
*
17435607 CTCTCTGAAGTG-AAGTAGAGTGTATCGAAACAACAAGAC
65 CTCTCTGAAGTGCAA-TAGAGTGGATCGAAACAACAAGAC
17435646 CCAATGGACT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 4 0.05
115 84 0.95
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (115 bp):
ACTAAAACCACGAATCTCATCCCCCTAAAGTTGCTGCGAAGAAGATTGAAGCTACAACTCATATC
TCTCTGAAGTGCAATAGAGTGGATCGAAACAACAAGACACAGTGAAGCAG
Found at i:17437139 original size:32 final size:30
Alignment explanation
Indices: 17437077--17437136 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
17437067 TATCAACACT
17437077 TTTTATATTTTTAATTTTAATTTTGATTTTA
1 TTTTATATTTTTAATTTTAATTTT-ATTTTA
* *
17437108 TTTTATTTTTTATAATTTTAA-ATTATTTT
1 TTTTATATTTT-TAATTTTAATTTTATTTT
17437137 TTAATGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.46
32 9 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (30 bp):
TTTTATATTTTTAATTTTAATTTTATTTTA
Found at i:17437178 original size:8 final size:8
Alignment explanation
Indices: 17437165--17437211 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
17437155 CTATGTTAAA
17437165 TTATAATT
1 TTATAATT
17437173 TTATAATT
1 TTATAATT
*
17437181 TTAT-TTT
1 TTATAATT
*
17437188 TTTTAATT
1 TTATAATT
17437196 TTATAATT
1 TTATAATT
17437204 TTA-AATT
1 TTATAATT
17437211 T
1 T
17437212 AGCTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 10 0.29
8 24 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTATAATT
Found at i:17437205 original size:15 final size:15
Alignment explanation
Indices: 17437165--17437211 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
17437155 CTATGTTAAA
17437165 TTATAATTTTATAATT
1 TTATAATTTT-TAATT
**
17437181 TTATTTTTTTTAATT
1 TTATAATTTTTAATT
*
17437196 TTATAATTTTAAATT
1 TTATAATTTTTAATT
17437211 T
1 T
17437212 AGCTAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATAATTTTTAATT
Found at i:17437614 original size:13 final size:13
Alignment explanation
Indices: 17437598--17437639 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17437588 GCTTGAAAAA
17437598 AATATTTGTAACT
1 AATATTTGTAACT
*
17437611 AATATTCGTAACT
1 AATATTTGTAACT
*
17437624 AACT-TTTGTAATT
1 AA-TATTTGTAACT
17437637 AAT
1 AAT
17437640 TAGGTTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (13 bp):
AATATTTGTAACT
Found at i:17438024 original size:35 final size:35
Alignment explanation
Indices: 17437976--17438042 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
17437966 ATATTTAAAG
17437976 ATGATAATCATAACTTACATAAACATTTAAAGTTT
1 ATGATAATCATAACTTACATAAACATTTAAAGTTT
* * *
17438011 ATGATTATGATAACTTATATAAACATTTAAAG
1 ATGATAATCATAACTTACATAAACATTTAAAG
17438043 AATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACATTTAAAGTTT
Found at i:17444250 original size:14 final size:14
Alignment explanation
Indices: 17444231--17444257 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17444221 ATGCTGCCAA
17444231 AGAACATGACCTTT
1 AGAACATGACCTTT
17444245 AGAACATGACCTT
1 AGAACATGACCTT
17444258 AAGCGGTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (14 bp):
AGAACATGACCTTT
Found at i:17444326 original size:43 final size:43
Alignment explanation
Indices: 17444274--17444390 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
17444264 TGCTTTTACT
** * * *
17444274 AAAAACGCCGCTAAATATCATGTTCTTTAGCGGCGTTTGTGTG
1 AAAAACGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTATG
* *
17444317 AAAACCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTTTATG
1 AAAAACGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTATG
* *
17444360 AGAAGCGCCGCTAAAGGTCATGTTCTATAGC
1 AAAAACGCCGCTAAAGGTCATGTTCTATAGC
17444391 AGTGTTTTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTATG
Found at i:17456320 original size:30 final size:30
Alignment explanation
Indices: 17456248--17456312 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
17456238 ATAATAATGA
17456248 CACACG-ACTGTGTAGGGTGGCCATGTGTGG
1 CACACGAAC-GTGTAGGGTGGCCATGTGTGG
* *
17456278 CACACGAACGTGTAGGGTGGTCGTGTGTGG
1 CACACGAACGTGTAGGGTGGCCATGTGTGG
17456308 CACAC
1 CACAC
17456313 AGCCGTGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (30 bp):
CACACGAACGTGTAGGGTGGCCATGTGTGG
Found at i:17462072 original size:17 final size:18
Alignment explanation
Indices: 17462050--17462088 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17462040 TATCATTAAC
17462050 ATTAAAA-TCCTTAATAA
1 ATTAAAATTCCTTAATAA
*
17462067 ATTAAAATTCCTTAATCA
1 ATTAAAATTCCTTAATAA
17462085 ATTA
1 ATTA
17462089 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAAATTCCTTAATAA
Found at i:17463332 original size:5 final size:5
Alignment explanation
Indices: 17463322--17463347 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17463312 CTCGAAAATT
17463322 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
17463348 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:17473172 original size:50 final size:49
Alignment explanation
Indices: 17473098--17473199 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 49
17473088 AACTCATATA
* * *
17473098 AGCTTACCTATTTCAGCTCGTGAGAGCTTACCAATTC-TCAGCTCGTATG
1 AGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCAT-AGCTCGTATG
**
17473147 AGCTTACCGATTTTCAGCTCATGAGAGCATACTGATTCATAGCTCGTATG
1 AGCTTACCGA-TTTCAGCTCATGAGAGCATACCAATTCATAGCTCGTATG
17473197 AGC
1 AGC
17473200 ATACATGTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 9 0.20
50 36 0.78
51 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
AGCTTACCGATTTCAGCTCATGAGAGCATACCAATTCATAGCTCGTATG
Found at i:17473183 original size:25 final size:25
Alignment explanation
Indices: 17473098--17473183 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
17473088 AACTCATATA
*
17473098 AGCTTACCTA-TTTCAGCTCGTGAG
1 AGCTTACCGATTTTCAGCTCGTGAG
* *
17473122 AGCTTACCAATTCTCAGCTCGT-ATG
1 AGCTTACCGATTTTCAGCTCGTGA-G
*
17473147 AGCTTACCGATTTTCAGCTCATGAG
1 AGCTTACCGATTTTCAGCTCGTGAG
* *
17473172 AGCATACTGATT
1 AGCTTACCGATT
17473184 CATAGCTCGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
24 10 0.19
25 41 0.79
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTACCGATTTTCAGCTCGTGAG
Found at i:17473199 original size:25 final size:25
Alignment explanation
Indices: 17473102--17473203 Score: 77
Period size: 25 Copynumber: 4.1 Consensus size: 25
17473092 CATATAAGCT
* *
17473102 TACCTATT-TCAGCTCGTGA-GAGCT
1 TACCGATTATCAGCTCGT-ATGAGCA
* * *
17473126 TACCAATTCTCAGCTCGTATGAGCT
1 TACCGATTATCAGCTCGTATGAGCA
* *
17473151 TACCGATTTTCAGCTCATGA-GAGCA
1 TACCGATTATCAGCTCGT-ATGAGCA
*
17473176 TACTGATTCAT-AGCTCGTATGAGCA
1 TACCGATT-ATCAGCTCGTATGAGCA
17473201 TAC
1 TAC
17473204 ATGTACAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
24 9 0.14
25 54 0.83
26 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (25 bp):
TACCGATTATCAGCTCGTATGAGCA
Found at i:17480301 original size:134 final size:134
Alignment explanation
Indices: 17480139--17480936 Score: 838
Period size: 134 Copynumber: 6.0 Consensus size: 134
17480129 GAACCTAAAC
* * *
17480139 TGTGATCGTAAATCAGCTAACTATTTGAATGGAGTTGTGATCGTAAATCAGCTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * *
17480204 ATTGTTCATGATTGTAAATCAGTGAACTTAGGTTGTGCTCGTAATTCAGCGAGCCTTAATAATAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
17480269 TAGT
131 CAGT
* * * * *
17480273 CGTGATCGTAAATCAACTAGCTGTTTGAATGGAGTTACGATCGTAAATTAGGTAACTCAAAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * * * * *
17480338 AATGTTCATGATCGTAAAGCAGTGAACTTAGGTTGTGATTGTAAAACAACGAGCCTTAATATTAT
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
*
17480403 TAGT
131 CAGT
* * * *
17480407 TATGGTCGTAAATCAA-TGAACTGTTTGAATGGAGTTGCGATCGTAAATTAGCTAACTCAGAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * * *
17480471 AATCT-TTTATGATCGTAAAGT-AGA-GAAGTTAGGCTGTGATCATAAATCAGCGAGCCTTAATA
65 AAT-TGTTCATGATCGTAAA-TCA-ATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATA
17480533 ATATCAGT
127 ATATCAGT
* * * * * *
17480541 TGTGATCATAAATC-ATTAAATTATTTGAATGGATTTGCGATCGTAAATCACCTAACTCAAAATA
1 TGTGATCGTAAATCAACT-AACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATA
* * * * * * *
17480605 AATTGTTCAAGATCGTAAATCAATGGACTTAGGCTGTGATCGTAAATTAGTGAGGCTTAATAGTA
65 AATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
17480670 TCAGT
130 TCAGT
* * * * * * ** * * * *
17480675 TGTGATCATAAATCATCGAACAGTTTCACTGGAGTTATGATTGTAAAACAACTAACTCATAAT-A
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * * *
17480739 ATTGTTCATGATCATAAATCAATGAACTTA-ATCTGTTATCGTAAATCAACGAGCCTTAATAATA
66 ATTGTTCATGATCGTAAATCAATGAACTTAGGT-TGTGATCGTAAATCAGCGAGCCTTAATAATA
*
17480803 TAAGT
130 TCAGT
* * * * * * * * *
17480808 CGTGATGGTAAACCATCGAACTGTTTGAATGGAGTTGCAATCGTTAATCGGCTAACTCAGAATAA
1 TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
* * *
17480873 ATTGTTCATGCA-CGTAAATCAATGAACTTAGGTTGTGATCATAAATTACCGAGCCTTAATAATA
66 ATTGTTCATG-ATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATA
17480937 ATGTAACACC
Statistics
Matches: 547, Mismatches: 104, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
133 109 0.20
134 435 0.80
135 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (134 bp):
TGTGATCGTAAATCAACTAACTGTTTGAATGGAGTTGCGATCGTAAATCAGCTAACTCAAAATAA
ATTGTTCATGATCGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAGCGAGCCTTAATAATAT
CAGT
Found at i:17481199 original size:17 final size:17
Alignment explanation
Indices: 17481177--17481218 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17481167 AGAACAGGGG
*
17481177 TCACACGGTAGTCTGAC
1 TCACACGGTAGTATGAC
* *
17481194 TCACACTGTCGTATGAC
1 TCACACGGTAGTATGAC
17481211 TCACACGG
1 TCACACGG
17481219 CTGAGACACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (17 bp):
TCACACGGTAGTATGAC
Found at i:17493427 original size:222 final size:222
Alignment explanation
Indices: 17493032--17493697 Score: 1215
Period size: 222 Copynumber: 3.0 Consensus size: 222
17493022 TTAATAACAC
*
17493032 TCCGTAAATATTTAGTAAAATATTTATAACTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
17493097 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
17493162 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
*
17493227 CTTGCTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
* *
17493254 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCAATATCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
*
17493319 TCTAACACCACTTGGCTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
* * * * * *
17493384 TTCCAATTCAAATTTATTTTAATATCATATTTGCCTGATAAATATTAAATAATATCACTTAGGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
17493449 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
17493476 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
1 TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
*
17493541 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAAAAACATAAAT
66 TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
*
17493606 TGCCAATTCAAATTTATTTTAATACCATATTTGAATCATAAATATTAAATAATATCATTTACGAA
131 TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
17493671 CTTACTCGTTGGATTTGTGGCCACAAA
196 CTTACTCGTTGGATTTGTGGCCACAAA
17493698 ACCACTATTT
Statistics
Matches: 422, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
222 422 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (222 bp):
TCCGTAAATATTTAGTAAAATATTTATAGCTCAGTTTATAGAAACTAGATCTCGATACCTCATTT
TCTAACACCACTTGACTTTAGGGTAAGACTACTTAAACCTAATTATTCATTCAAATAACATAAAT
TGCCAATTCAAATTTATTTTAATACCATATTTGACTCATAAATATTAAATAATATCATTTACGAA
CTTACTCGTTGGATTTGTGGCCACAAA
Found at i:17495926 original size:22 final size:22
Alignment explanation
Indices: 17495901--17495944 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17495891 TTAAGTATAT
*
17495901 AAGAACTA-TATTTAATCTAAAC
1 AAGAACTAGT-TTTAAACTAAAC
*
17495923 AAGAAGTAGTTTTAAACTAAAC
1 AAGAACTAGTTTTAAACTAAAC
17495945 TTTCTTGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (22 bp):
AAGAACTAGTTTTAAACTAAAC
Found at i:17502285 original size:36 final size:35
Alignment explanation
Indices: 17502238--17502306 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
17502228 GGTAAACTCT
*
17502238 ATTCAATTTAGCAACCTTTTGGATCTATTCTGACTG
1 ATTCAATTTAGCAACCTTTCGGA-CTATTCTGACTG
*
17502274 ATTCATTTTAGCAACCTTTCGGACTATTCTGAC
1 ATTCAATTTAGCAACCTTTCGGACTATTCTGAC
17502307 AGATGCGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (35 bp):
ATTCAATTTAGCAACCTTTCGGACTATTCTGACTG
Done.