Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 44 of 208
Found at i:16865458 original size:17 final size:17
Alignment explanation
Indices: 16865432--16865470 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16865422 GTAATTCTAC
16865432 CTTTTCCTTTTCTTTTT
1 CTTTTCCTTTTCTTTTT
* *
16865449 CTTTTTCTTTTTTTTTT
1 CTTTTCCTTTTCTTTTT
16865466 CTTTT
1 CTTTT
16865471 GATTGATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTCCTTTTCTTTTT
Found at i:16865460 original size:6 final size:6
Alignment explanation
Indices: 16865433--16865470 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
16865423 TAATTCTACC
*
16865433 TTTTCC TTTTCT TTTTCT TTTTCT TTTT-T TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
16865471 GATTGATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:16877050 original size:7 final size:7
Alignment explanation
Indices: 16877038--16877067 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16877028 CTAAAGTATG
16877038 CCATTAT
1 CCATTAT
16877045 CCATTAT
1 CCATTAT
16877052 CCATTAT
1 CCATTAT
16877059 CCATTAT
1 CCATTAT
16877066 CC
1 CC
16877068 GATTGTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (7 bp):
CCATTAT
Found at i:16879296 original size:36 final size:36
Alignment explanation
Indices: 16879249--16879321 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16879239 ATCTGAAAGA
16879249 TCCCTTTGTATGTAAGGGGAGGTTTTTGGATTTTTC
1 TCCCTTTGTATGTAAGGGGAGGTTTTTGGATTTTTC
16879285 TCCCTTTGTATGTAAGGGGAGGTTTTTGGATTTTTC
1 TCCCTTTGTATGTAAGGGGAGGTTTTTGGATTTTTC
16879321 T
1 T
16879322 TTCTTTATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.14, C:0.11, G:0.27, T:0.48
Consensus pattern (36 bp):
TCCCTTTGTATGTAAGGGGAGGTTTTTGGATTTTTC
Found at i:16880367 original size:15 final size:16
Alignment explanation
Indices: 16880337--16880370 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16880327 AAAAATAAAT
16880337 TTTATCATTTTAATAG
1 TTTATCATTTTAATAG
*
16880353 TTTAT-ATTTTTATAG
1 TTTATCATTTTAATAG
16880368 TTT
1 TTT
16880371 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAG
Found at i:16882634 original size:88 final size:89
Alignment explanation
Indices: 16882542--16882900 Score: 199
Period size: 88 Copynumber: 4.1 Consensus size: 89
16882532 CTGATTTTAC
16882542 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTA-ATTCTATCTCCCTGGGCAGCAGTGGAA
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTACATTCTATCTCCCTGGGCAGCAGTGGAA
*
16882606 TACATTGAAGATTACAGATCTTAT
66 TACATCGAAGATTACAGATCTTAT
* * * * * * * * **
16882630 CTCCCT-AGGCATTA-A-TGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTA-CAGT
1 CTCCCTGAGG--TTACAGTGGAGTACATTGAAGCTAGTACATTCTATCTCCCT--GGGCAGCAGT
* * ** * *
16882691 AGAGTACATAAAAGCCAGTA-A-TTC-TAT
62 GGAATACATCGAAG--ATTACAGATCTTAT
* * ** * * * *
16882718 CTCCCTG-GG-CAGCAGTGGAATTGATTGAAG--ATTACAGATCTTATCTCCCTAGGCAGTAGTG
1 CTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTAGTACA-TTC-TATCTCCCTGGGCAGCAGTG
* * * * *
16882779 GAGTAGATCGAAGATGACAGATTTTAC
63 GAATACATCGAAGATTACAGATCTTAT
**
16882806 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTA-ATTCTATCTCCCTGTTC-GACAGTGGA
1 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTACATTCTATCTCCCTGGGCAG-CAGTGGA
*
16882869 AT-CGATCGAAGAATAGCAGATCTTAT
65 ATAC-ATCGAAGATTA-CAGATCTTAT
*
16882895 CCCCCT
1 CTCCCT
16882901 AAGCAGTAGT
Statistics
Matches: 191, Mismatches: 56, Indels: 47
0.65 0.19 0.16
Matches are distributed among these distances:
85 3 0.02
86 5 0.03
87 36 0.19
88 84 0.44
89 51 0.27
90 6 0.03
91 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (89 bp):
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTACATTCTATCTCCCTGGGCAGCAGTGGAA
TACATCGAAGATTACAGATCTTAT
Found at i:16882639 original size:132 final size:132
Alignment explanation
Indices: 16882397--16882918 Score: 769
Period size: 132 Copynumber: 3.9 Consensus size: 132
16882387 CAATAAAACT
*
16882397 TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAG
1 TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
** * * * * *
16882462 GCAATAGTGGAATAGATTGAAGATTATAGATCTTATCTTCCTAGGCATTAGTAGAGTAGATCGAA
66 GCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA
16882527 GA
131 GA
* *
16882529 TGGCTGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGG
1 TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
* *
16882594 GCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAGGCATTAATGGAGTAGATCGAA
66 GCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA
16882659 GA
131 GA
* * **
16882661 TGGCAGATTTTACCTCCCTAAGGTTACAGTAGAGTACATAAAAGCCAGTAATTCTATCTCCCTGG
1 TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
**
16882726 GCAGCAGTGGAATTGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA
66 GCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA
16882791 GA
131 GA
* * *
16882793 TGACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGT
1 TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
* * * * *
16882858 TC-GACAGTGGAAT-CGATCGAAGAATAGCAGATCTTATCCCCCTAAGCAGTAGTGGAGTAGA
66 GCAG-CAGTGGAATAC-ATTGAAGATTA-CAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGA
16882919 CTGACGACGG
Statistics
Matches: 354, Mismatches: 33, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 321 0.91
133 32 0.09
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
TGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
GCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAA
GA
Found at i:16882854 original size:44 final size:45
Alignment explanation
Indices: 16882401--16882856 Score: 179
Period size: 44 Copynumber: 10.4 Consensus size: 45
16882391 AAAACTTGGC
* * *
16882401 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
1 AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
** * * * *
16882446 A-ATTCTATCTCCCT-AGGCAATAGTGGAATAGATTGAAGATTA-T
1 AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAG-CTAGT
* * * * * *
16882489 AGA-TCTTATCTTCCT-AGGCATT--AGTAGAGTAGATCGAAGATGGCT
1 AGATTC-TATCTCCCTGAGG--TTACAGTGGAGTACATTGAAGCTAG-T
* *
16882534 -GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
1 AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
* * * *
16882578 A-ATTCTATCTCCCTG-GG-CAGCAGTGGAATACATTGAAGATTA-C
1 AGATTCTATCTCCCTGAGGTTA-CAGTGGAGTACATTGAAG-CTAGT
* * * * *
16882621 AGA-TCTTATCTCCCT-AGGCATTA-A-TGGAGTAGATCGAAGATGGC
1 AGATTC-TATCTCCCTGAGG--TTACAGTGGAGTACATTGAAGCTAGT
* * * * ** *
16882665 AGATTTTACCTCCCTAAGGTTACAGTAGAGTACATAAAAGCCAGT
1 AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
* * ** * *
16882710 A-ATTCTATCTCCCTG-GG-CAGCAGTGGAATTGATTGAAGATTA-C
1 AGATTCTATCTCCCTGAGGTTA-CAGTGGAGTACATTGAAG-CTAGT
* * * * * *
16882753 AGA-TCTTATCTCCCT-AGG-CAGTAGTGGAGTAGATCGAAGAT-GAC
1 AGATTC-TATCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCTAG-T
* *
16882797 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
1 AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
16882842 A-ATTCTATCTCCCTG
1 AGATTCTATCTCCCTG
16882857 TTCGACAGTG
Statistics
Matches: 300, Mismatches: 75, Indels: 73
0.67 0.17 0.16
Matches are distributed among these distances:
42 2 0.01
43 70 0.23
44 164 0.55
45 61 0.20
46 2 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (45 bp):
AGATTCTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGT
Found at i:16884307 original size:24 final size:24
Alignment explanation
Indices: 16884260--16884307 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16884250 AATCTTTAAT
*
16884260 TTGTTTATTTATTTATTTATTATA
1 TTGTTTATTTATTTATTTAGTATA
*
16884284 TTGTTTATGTTGTTTA-TTAGTATA
1 TTGTTTAT-TTATTTATTTAGTATA
16884308 ATTATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (24 bp):
TTGTTTATTTATTTATTTAGTATA
Found at i:16884490 original size:17 final size:17
Alignment explanation
Indices: 16884448--16884490 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
16884438 ATAGTTTATA
16884448 TATATTTTATATACATT
1 TATATTTTATATACATT
* * *
16884465 CATATTTTTTATGATATT
1 TATATTTTATAT-ACATT
16884483 TATATTTT
1 TATATTTT
16884491 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:16897098 original size:25 final size:25
Alignment explanation
Indices: 16897064--16897113 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
16897054 AAGGATTCAG
16897064 GATAAAATTAACATTTTTTTTTCTT
1 GATAAAATTAACATTTTTTTTTCTT
16897089 GATAAAATTAACATTTTTTTTTCTT
1 GATAAAATTAACATTTTTTTTTCTT
16897114 TCATTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (25 bp):
GATAAAATTAACATTTTTTTTTCTT
Found at i:16897509 original size:2 final size:2
Alignment explanation
Indices: 16897497--16897529 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
16897487 AAAGCTACAT
16897497 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16897530 AGCAAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16910464 original size:52 final size:51
Alignment explanation
Indices: 16910366--16910470 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
16910356 TTATAAAACT
* * * *
16910366 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGAAAAATATAAATA
* * *
16910417 TATACATATAAAATATATTAATGCATTTA-CAAAAAAATAAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGAAAA-ATATAAATA
16910469 TA
1 TA
16910471 ATATAAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 24 0.53
52 21 0.47
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGAAAAATATAAATA
Found at i:16911032 original size:19 final size:21
Alignment explanation
Indices: 16910994--16911032 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
16910984 CTTTTTTTAA
*
16910994 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
16911015 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
16911033 ACAGTAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:16916203 original size:13 final size:14
Alignment explanation
Indices: 16916185--16916214 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
16916175 AATGTAATAA
16916185 TTTTTTAGATTA-T
1 TTTTTTAGATTACT
16916198 TTTTTTAGATTACT
1 TTTTTTAGATTACT
16916212 TTT
1 TTT
16916215 AACTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTTAGATTACT
Found at i:16917768 original size:16 final size:19
Alignment explanation
Indices: 16917737--16917776 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
16917727 TTACGAGTAG
16917737 GTTTTTGTATGTTATTT-T
1 GTTTTTGTATGTTATTTCT
16917755 GTTTTTG-A-GTTATTTCT
1 GTTTTTGTATGTTATTTCT
16917772 GTTTT
1 GTTTT
16917777 AGAACTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 7 0.33
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (19 bp):
GTTTTTGTATGTTATTTCT
Found at i:16920939 original size:51 final size:51
Alignment explanation
Indices: 16920879--16920980 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
16920869 GATTCAGGTG
16920879 CACCTGTTGTGCCTCAAATTATGGGCTCTACATCAGCGGTTCCAATAGCTT
1 CACCTGTTGTGCCTCAAATTATGGGCTCTACATCAGCGGTTCCAATAGCTT
16920930 CACCTGTTGTGCCTCAAATTATGGGCTCTACATCAGCGGTTCCAATAGCTT
1 CACCTGTTGTGCCTCAAATTATGGGCTCTACATCAGCGGTTCCAATAGCTT
16920981 ACTCTCAGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (51 bp):
CACCTGTTGTGCCTCAAATTATGGGCTCTACATCAGCGGTTCCAATAGCTT
Found at i:16936808 original size:65 final size:65
Alignment explanation
Indices: 16936704--16936833 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
16936694 TATTCGAGCT
*
16936704 TTAATCTTTTCAATCAGAGGAAAGCTTTTCATTTCTGTAAGCCTCATTATGACTAGAGGAATTCC
1 TTAATCTTTTCAATCAGAGGAAAGCTATTCATTTCTGTAAGCCTCATTATGACTAGAGGAATTCC
16936769 TTAATCTTTTCAATCAGAGGAAAGCTATTCATTTCTGTAAGCCTCATTATGACTAGAGGAATTCC
1 TTAATCTTTTCAATCAGAGGAAAGCTATTCATTTCTGTAAGCCTCATTATGACTAGAGGAATTCC
16936834 AAGTTATCTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (65 bp):
TTAATCTTTTCAATCAGAGGAAAGCTATTCATTTCTGTAAGCCTCATTATGACTAGAGGAATTCC
Found at i:16939819 original size:21 final size:21
Alignment explanation
Indices: 16939793--16939833 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16939783 AGACGAGCAA
* *
16939793 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16939814 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16939834 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16954619 original size:16 final size:17
Alignment explanation
Indices: 16954600--16954632 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16954590 AACTAACTAA
16954600 CTAATCTTG-TAACTGC
1 CTAATCTTGCTAACTGC
*
16954616 CTAATTTTGCTAACTGC
1 CTAATCTTGCTAACTGC
16954633 TAACTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (17 bp):
CTAATCTTGCTAACTGC
Found at i:16959041 original size:120 final size:115
Alignment explanation
Indices: 16958896--16959125 Score: 277
Period size: 117 Copynumber: 2.0 Consensus size: 115
16958886 TAAAATTAAT
* *
16958896 TAATTATCACAATTTTTTTCTATA-TTTATGCTTAATTAAAGTTCTATTTAAATAATAAATATT-
1 TAATTATCACAATCTTTTTCTATATTTTATG----ATTAAAGTTCTATTCAAATAATAAAT-TTA
* * *
16958959 TTTTAAAAATTAGCACATTTCTTTAACTAATCATTATAAATTATAATTATAATTATTA
61 TTTT-AAAATTAGCACAATT-TTTAACTAATAAGTATAAATTA-AATTATAATTATTA
* ** *
16959017 TAATTAT-TCAATCTTTTTCTATATTTTATGATTAGTGTTCTATTCAAGTAATAAATTTATTTTA
1 TAATTATCACAATCTTTTTCTATATTTTATGATTAAAGTTCTATTCAAATAATAAATTTATTTTA
*
16959081 AAATTAGCACAATTTTTAACTAATAAGTCTAAATTAAATTATAAT
66 AAATTAGCACAATTTTTAACTAATAAGTATAAATTAAATTATAAT
16959126 CATTTTTAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
114 9 0.09
115 19 0.20
116 16 0.16
117 26 0.27
120 14 0.14
121 13 0.13
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (115 bp):
TAATTATCACAATCTTTTTCTATATTTTATGATTAAAGTTCTATTCAAATAATAAATTTATTTTA
AAATTAGCACAATTTTTAACTAATAAGTATAAATTAAATTATAATTATTA
Found at i:16963039 original size:21 final size:21
Alignment explanation
Indices: 16963013--16963053 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16963003 AGACGAGCAA
* *
16963013 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16963034 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16963054 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16977855 original size:16 final size:17
Alignment explanation
Indices: 16977836--16977868 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16977826 AACTAACTAA
16977836 CTAATCTTG-TAACTGC
1 CTAATCTTGCTAACTGC
*
16977852 CTAATTTTGCTAACTGC
1 CTAATCTTGCTAACTGC
16977869 TAACTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (17 bp):
CTAATCTTGCTAACTGC
Found at i:16981509 original size:14 final size:15
Alignment explanation
Indices: 16981490--16981519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16981480 TACGCATTTA
16981490 ATTTTTAAATATTGT
1 ATTTTTAAATATTGT
*
16981505 ATTTTTAATTATTGT
1 ATTTTTAAATATTGT
16981520 TATGATAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTTTAAATATTGT
Found at i:16982281 original size:120 final size:115
Alignment explanation
Indices: 16982136--16982365 Score: 277
Period size: 117 Copynumber: 2.0 Consensus size: 115
16982126 TAAAATTAAT
* *
16982136 TAATTATCACAATTTTTTTCTATA-TTTATGCTTAATTAAAGTTCTATTTAAATAATAAATATT-
1 TAATTATCACAATCTTTTTCTATATTTTATG----ATTAAAGTTCTATTCAAATAATAAAT-TTA
* * *
16982199 TTTTAAAAATTAGCACATTTCTTTAACTAATCATTATAAATTATAATTATAATTATTA
61 TTTT-AAAATTAGCACAATT-TTTAACTAATAAGTATAAATTA-AATTATAATTATTA
* ** *
16982257 TAATTAT-TCAATCTTTTTCTATATTTTATGATTAGTGTTCTATTCAAGTAATAAATTTATTTTA
1 TAATTATCACAATCTTTTTCTATATTTTATGATTAAAGTTCTATTCAAATAATAAATTTATTTTA
*
16982321 AAATTAGCACAATTTTTAACTAATAAGTCTAAATTAAATTATAAT
66 AAATTAGCACAATTTTTAACTAATAAGTATAAATTAAATTATAAT
16982366 CATTTTTAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
114 9 0.09
115 19 0.20
116 16 0.16
117 26 0.27
120 14 0.14
121 13 0.13
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (115 bp):
TAATTATCACAATCTTTTTCTATATTTTATGATTAAAGTTCTATTCAAATAATAAATTTATTTTA
AAATTAGCACAATTTTTAACTAATAAGTATAAATTAAATTATAATTATTA
Found at i:16987599 original size:18 final size:17
Alignment explanation
Indices: 16987566--16987604 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16987556 TTTTATAAAT
16987566 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16987584 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16987601 TGTG
1 TGTG
16987605 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16987856 original size:23 final size:23
Alignment explanation
Indices: 16987830--16987882 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
16987820 AGTGTTATTG
*
16987830 ATCAGTGGTAGCTTCGGCAACAT
1 ATCAGTGGTAGCTTCGACAACAT
* *
16987853 ATCAGTGGTAGCTTCGACTACTT
1 ATCAGTGGTAGCTTCGACAACAT
16987876 ATCAGTG
1 ATCAGTG
16987883 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGACAACAT
Found at i:16990595 original size:25 final size:26
Alignment explanation
Indices: 16990567--16990627 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
16990557 ATGAGCGGTA
*
16990567 AACGGTAAGCTTC-TCCGAGCTGAAT
1 AACGGTAAGCTTCATACGAGCTGAAT
*
16990592 AACGGTAAGC-TCATACGAGCTGAGT
1 AACGGTAAGCTTCATACGAGCTGAAT
*
16990617 ATCGGTAAGCT
1 AACGGTAAGCT
16990628 AATAAGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
AACGGTAAGCTTCATACGAGCTGAAT
Found at i:16990636 original size:25 final size:25
Alignment explanation
Indices: 16990583--16990638 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16990573 AAGCTTCTCC
* *
16990583 GAGCTGAATAACGGTAAGCTCATAC
1 GAGCTGAATAACGGTAAGCTAATAA
* *
16990608 GAGCTGAGTATCGGTAAGCTAATAA
1 GAGCTGAATAACGGTAAGCTAATAA
16990633 GAGCTG
1 GAGCTG
16990639 GAATCCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTAATAA
Found at i:16991984 original size:21 final size:21
Alignment explanation
Indices: 16991960--16991999 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16991950 CTTTGTTTTG
* *
16991960 CTTCCCTCGTTGCTGCCTCTA
1 CTTCCCTCGCTACTGCCTCTA
16991981 CTTCCCTCGCTACTGCCTC
1 CTTCCCTCGCTACTGCCTC
16992000 CGCTTTAAGT
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:0.05, C:0.47, G:0.12, T:0.35
Consensus pattern (21 bp):
CTTCCCTCGCTACTGCCTCTA
Found at i:16994319 original size:15 final size:15
Alignment explanation
Indices: 16994301--16994346 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
16994291 CAGATAACAG
*
16994301 AAAACTAGATGGCAA
1 AAAACTGGATGGCAA
**
16994316 AAAACTGGATGATAA
1 AAAACTGGATGGCAA
16994331 AAAACTGGATGGCAA
1 AAAACTGGATGGCAA
16994346 A
1 A
16994347 TCTAAAGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (15 bp):
AAAACTGGATGGCAA
Found at i:16995907 original size:27 final size:27
Alignment explanation
Indices: 16995877--16995940 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
16995867 AACGGTAATA
*
16995877 CAGCAGATGGTCGAGTCGACAGCGATG
1 CAGCAGATGGTCGAGTCGACAGCAATG
* * * *
16995904 CAGCAGATAGTCGGGTTGACGGCAATG
1 CAGCAGATGGTCGAGTCGACAGCAATG
*
16995931 CAACAGATGG
1 CAGCAGATGG
16995941 GTTGGGATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.36, T:0.16
Consensus pattern (27 bp):
CAGCAGATGGTCGAGTCGACAGCAATG
Found at i:16996955 original size:14 final size:14
Alignment explanation
Indices: 16996899--16996958 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
16996889 CCCTAAAATC
16996899 CTAAAACATAAAC-
1 CTAAAACATAAACA
*
16996912 CTTAAACCATAAACA
1 C-TAAAACATAAACA
* *
16996927 -TTAAACAACAAACA
1 CTAAAAC-ATAAACA
16996941 CTAAAACATAAACA
1 CTAAAACATAAACA
16996955 CTAA
1 CTAA
16996959 TCCCTAATCC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
13 5 0.14
14 27 0.73
15 5 0.14
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAAACATAAACA
Found at i:16996965 original size:21 final size:21
Alignment explanation
Indices: 16996898--16996983 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
16996888 ACCCTAAAAT
16996898 CCTAAAACATAAAC-CTTAAAC
1 CCTAAAACATAAACAC-TAAAC
*
16996919 CAT-AAACATTAAACAAC-AAAC
1 CCTAAAACA-TAAAC-ACTAAAC
* *
16996940 ACTAAAACATAAACACTAATC
1 CCTAAAACATAAACACTAAAC
** *
16996961 CCTAATCCCAAAAACACTAAAC
1 CCTAA-AACATAAACACTAAAC
16996983 C
1 C
16996984 ATGAACATTA
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 7 0.14
21 24 0.48
22 18 0.36
23 1 0.02
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAAAACATAAACACTAAAC
Found at i:16997277 original size:14 final size:15
Alignment explanation
Indices: 16997233--16997274 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
16997223 TAATACATTA
16997233 AAACCCTAAAC-CTT
1 AAACCCTAAACTCTT
**
16997247 AAACATTAAA-TCTT
1 AAACCCTAAACTCTT
16997261 AAACCCTAAACTCT
1 AAACCCTAAACTCT
16997275 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
AAACCCTAAACTCTT
Found at i:16998105 original size:41 final size:41
Alignment explanation
Indices: 16998027--16998181 Score: 193
Period size: 41 Copynumber: 3.8 Consensus size: 41
16998017 AATAAAATGT
* * * * * *
16998027 TTTTTACGGCGTTGTTATCAAAAACGCCGCTAATGCTTGAC
1 TTTTTGCGGCGTTTTTCTCATAAATGCCGCTACTGCTTGAC
*
16998068 TTTTTGCGGCGTTTTTCTCATAAATGCCTCTACTGCTTGAC
1 TTTTTGCGGCGTTTTTCTCATAAATGCCGCTACTGCTTGAC
* * *
16998109 ATTTTGCGGTGTTTTTCTCACAAATGCCGCTACTGCTTGAC
1 TTTTTGCGGCGTTTTTCTCATAAATGCCGCTACTGCTTGAC
* * *
16998150 CTTTTGGGGCGTTTTTCTCATAAACGCCGCTA
1 TTTTTGCGGCGTTTTTCTCATAAATGCCGCTA
16998182 TAGCTCTAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (41 bp):
TTTTTGCGGCGTTTTTCTCATAAATGCCGCTACTGCTTGAC
Found at i:16998207 original size:82 final size:82
Alignment explanation
Indices: 16998052--16998206 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 82
16998042 TATCAAAAAC
* * * * * *
16998052 GCCGCTAATGCTTGACTTTTTGCGGCGTTTTTCTCATAAATGCCTCTACTGCTTGACATTTTGCG
1 GCCGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTAACATTTTACA
16998117 GTGTTTTTCTCACAAAT
66 GTGTTTTTCTCACAAAT
* *
16998134 GCCGCTACTGCTTGACCTTTTGGGGCGTTTTTCTCATAAACGCCGCTA-TAGCTCTAA-ACTTTT
1 GCCGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACT-GCT-TAACA-TTTT
*
16998197 ATAGTGTTTT
63 ACAGTGTTTT
16998207 CCTATTAGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
81 1 0.02
82 47 0.77
83 13 0.21
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (82 bp):
GCCGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTTAACATTTTACA
GTGTTTTTCTCACAAAT
Found at i:17022332 original size:4 final size:4
Alignment explanation
Indices: 17022323--17022349 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17022313 ACACCATTTC
17022323 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
17022350 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:17029643 original size:21 final size:21
Alignment explanation
Indices: 17029617--17029665 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
17029607 GCTGTTTTTG
17029617 TTGTTTTTCCA-TGTTTTG-CTA
1 TTGTTTTTCCACT-TTTTGTC-A
17029638 TTGTTTTTCCACTTTTTGTCA
1 TTGTTTTTCCACTTTTTGTCA
17029659 TTGTTTT
1 TTGTTTT
17029666 GCTACCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.12, T:0.65
Consensus pattern (21 bp):
TTGTTTTTCCACTTTTTGTCA
Found at i:17034650 original size:14 final size:14
Alignment explanation
Indices: 17034628--17034698 Score: 74
Period size: 14 Copynumber: 5.2 Consensus size: 14
17034618 TTAGAATCCA
*
17034628 AACCTTGAATCTTG
1 AACCCTGAATCTTG
* *
17034642 AACCCTGAATTTTA
1 AACCCTGAATCTTG
*
17034656 AACCCT-AAACTTG
1 AACCCTGAATCTTG
17034669 AA-CCTGAATCTTG
1 AACCCTGAATCTTG
* *
17034682 AACCTTGAACCTTG
1 AACCCTGAATCTTG
17034696 AAC
1 AAC
17034699 TCAGGGATCG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 3 0.07
13 14 0.30
14 29 0.63
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (14 bp):
AACCCTGAATCTTG
Found at i:17034683 original size:7 final size:7
Alignment explanation
Indices: 17034665--17034698 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
17034655 AAACCCTAAA
17034665 CTTGAAC
1 CTTGAAC
*
17034672 C-TGAAT
1 CTTGAAC
17034678 CTTGAAC
1 CTTGAAC
17034685 CTTGAAC
1 CTTGAAC
17034692 CTTGAAC
1 CTTGAAC
17034699 TCAGGGATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (7 bp):
CTTGAAC
Found at i:17043882 original size:27 final size:28
Alignment explanation
Indices: 17043821--17043881 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
17043811 CTTTGGGTAC
17043821 TAAAAATCATATCATTATCCTTTTTCGA
1 TAAAAATCATATCATTATCCTTTTTCGA
17043849 TAAAAATCATATCATTATCCTTTTTCGA
1 TAAAAATCATATCATTATCCTTTTTCGA
17043877 TAAAA
1 TAAAA
17043882 TTACTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.41
Consensus pattern (28 bp):
TAAAAATCATATCATTATCCTTTTTCGA
Found at i:17074199 original size:22 final size:24
Alignment explanation
Indices: 17074174--17074217 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
17074164 TTGATAGTAT
17074174 AATTATATTATT-TAA-TATTATG
1 AATTATATTATTATAATTATTATG
*
17074196 AATTATTTTATTATAATTATTA
1 AATTATATTATTATAATTATTA
17074218 ATATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTATATTATTATAATTATTATG
Found at i:17074202 original size:17 final size:16
Alignment explanation
Indices: 17074175--17074222 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
17074165 TGATAGTATA
17074175 ATTAT-ATTATTTAAT
1 ATTATAATTATTTAAT
17074190 ATTATGAATTATTT--T
1 ATTAT-AATTATTTAAT
17074205 ATTATAATTA-TTAAT
1 ATTATAATTATTTAAT
17074220 ATT
1 ATT
17074223 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 15 0.52
17 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTATAATTATTTAAT
Found at i:17074838 original size:6 final size:6
Alignment explanation
Indices: 17074827--17074853 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17074817 CTTGTCCAAC
17074827 ATCCCT ATCCCT ATCCCT ATCCCT ATC
1 ATCCCT ATCCCT ATCCCT ATCCCT ATC
17074854 AATCTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.33
Consensus pattern (6 bp):
ATCCCT
Found at i:17077208 original size:2 final size:2
Alignment explanation
Indices: 17077203--17077235 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17077193 GTGTGTGTGT
17077203 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
17077236 GACAGTGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17078652 original size:2 final size:2
Alignment explanation
Indices: 17078645--17078669 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17078635 ATGATATTAG
17078645 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
17078670 ATATGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17083913 original size:132 final size:130
Alignment explanation
Indices: 17083621--17084281 Score: 758
Period size: 132 Copynumber: 5.0 Consensus size: 130
17083611 CGCCATTGTC
* * * * * * * * *
17083621 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-CATCGTCGATCCA
1 GATCTGC-TTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTA
* * * * * * * * * *
17083685 CTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAG
64 CTTCAC-GCCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTCCCACCAATATAGGAAG
17083749 ACAA
127 ACAA
17083753 GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACT
1 GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACT
*
17083818 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGAC
66 TCACGCCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTC-CCACCAATATAGGAAGAC
17083883 AA
129 AA
17083885 GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACT
1 GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACT
*
17083950 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGAC
66 TCACGCCAATACATGAAGACAAGATCTG-TTTCTTCGATCTACTTC-CCACCAATATAGGAAGAC
17084015 AA
129 AA
* *
17084017 GATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTA-CATTCGATCTAC
1 GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATC-TTCGATCTAC
* * *
17084081 TTCACGCCAATACATGAAGACAAGATCTGTTTCTTCGATCCACTTCCTACCAATATAGGAAGATA
65 TTCACGCCAATACATGAAGACAAGATCTGTTTCTTCGATCTACTTCCCACCAATATAGGAAGACA
*
17084146 G
130 A
* * * * * ** * *
17084147 GATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAATATCTGCTTTCTTCGATCTA
1 GATCTGCT-TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTA
* * * * * * * * * *
17084211 CTTC-CTACCAATATAGGAAGATAGGATCTG-TACTTCGATCTACTTCACGCCAATACATGAAGA
64 CTTCAC-GCCAATACATGAAGACAAGATCTGTTTCTTCGATCTACTTCCCACCAATATAGGAAGA
17084274 CAA
128 CAA
17084277 GATCT
1 GATCT
17084282 ACTTTAATGA
Statistics
Matches: 470, Mismatches: 51, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
130 77 0.16
131 147 0.31
132 246 0.52
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (130 bp):
GATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACT
TCACGCCAATACATGAAGACAAGATCTGTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAA
Found at i:17084102 original size:219 final size:219
Alignment explanation
Indices: 17083621--17084281 Score: 974
Period size: 219 Copynumber: 3.0 Consensus size: 219
17083611 CGCCATTGTC
* * ** * *
17083621 GATCTGCTTTCTTCGATCTACTTC-ACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCA
1 GATCTGCTTACTTCGATCTACTTCGA-CACCAATACAGGAAGACAAGATCTGCTTCTTCGATCCA
17083685 CTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
*
17083750 CAAGATCTGC-TTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATC
130 CAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTG-TATCTTCGATC
* *
17083814 TACTTCACGCCAATACATGAAGACAA
194 TACTTCACACCAATACAGGAAGACAA
* * **
17083840 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTCTTCGATCCAC
1 GATCTGCTTACTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTCTTCGATCCAC
17083905 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * * *
17083970 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
131 AAGATCTGCTTTCTTCGATCTACTTC-CTACCAATATAGGAAGATAGGATCTGTATCTTCGATCT
* * *
17084035 ACTTC-CTACCAATATAGGAAGATAG
195 ACTTCAC-ACCAATACAGGAAGACAA
* * *
17084060 GATCTGC-TACATTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGTTTCTTCGATCCA
1 GATCTGCTTAC-TTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTCTTCGATCCA
*
17084123 CTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
*
17084188 CAATATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGTA-CTTCGATCT
130 CAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGTATCTTCGATCT
* *
17084252 ACTTCACGCCAATACATGAAGACAA
195 ACTTCACACCAATACAGGAAGACAA
17084277 GATCT
1 GATCT
17084282 ACTTTAATGA
Statistics
Matches: 400, Mismatches: 36, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
217 31 0.08
218 24 0.06
219 260 0.65
220 63 0.16
221 22 0.05
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (219 bp):
GATCTGCTTACTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTTCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGATAGGATCTGTATCTTCGATCTA
CTTCACACCAATACAGGAAGACAA
Found at i:17106587 original size:17 final size:17
Alignment explanation
Indices: 17106565--17106601 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
17106555 AGCCCCAGAG
17106565 TAAGATTATCAGATAAA
1 TAAGATTATCAGATAAA
17106582 TAAGATTATCAGATAAA
1 TAAGATTATCAGATAAA
17106599 TAA
1 TAA
17106602 TTCAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (17 bp):
TAAGATTATCAGATAAA
Found at i:17122005 original size:29 final size:29
Alignment explanation
Indices: 17121956--17122012 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
17121946 CAACGGTGCC
*
17121956 TTCGAACCAATAACTCAGATATCACTTGG
1 TTCGAACCAATAACTCAGATACCACTTGG
* *
17121985 TTCGAACCAATAGCTCTGATACCACTTG
1 TTCGAACCAATAACTCAGATACCACTTG
17122013 TCATGGGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (29 bp):
TTCGAACCAATAACTCAGATACCACTTGG
Found at i:17129654 original size:21 final size:21
Alignment explanation
Indices: 17129628--17129668 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17129618 AAATGAAACT
17129628 TGTTCTAATGGTCTCGAGACA
1 TGTTCTAATGGTCTCGAGACA
** *
17129649 TGTTCTTTTTGTCTCGAGAC
1 TGTTCTAATGGTCTCGAGAC
17129669 TAAACGGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (21 bp):
TGTTCTAATGGTCTCGAGACA
Found at i:17129875 original size:20 final size:20
Alignment explanation
Indices: 17129852--17129892 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17129842 ATACCAATTA
17129852 ATATAGGTACATGCCACAAG
1 ATATAGGTACATGCCACAAG
17129872 ATATAGGTACATGCCACAAG
1 ATATAGGTACATGCCACAAG
17129892 A
1 A
17129893 CTCAAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ATATAGGTACATGCCACAAG
Found at i:17137017 original size:17 final size:19
Alignment explanation
Indices: 17136985--17137020 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
17136975 TCAATATAGA
17136985 AATTAATAATTTTAATTAT
1 AATTAATAATTTTAATTAT
17137004 AATTAAT-A-TTTAATTAT
1 AATTAATAATTTTAATTAT
17137021 GTTTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATAATTTTAATTAT
Found at i:17139153 original size:14 final size:14
Alignment explanation
Indices: 17139134--17139173 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17139124 TTGATTGGCA
17139134 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
17139148 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
17139162 GGAAAATGTTTT
1 GTAAAATGTTTT
17139174 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:17139186 original size:34 final size:35
Alignment explanation
Indices: 17139142--17139208 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
17139132 CAGTAAAATG
* *
17139142 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
17139176 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
17139209 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:17139195 original size:20 final size:20
Alignment explanation
Indices: 17139157--17139196 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17139147 CGTAAAATGA
**
17139157 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
17139177 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
17139197 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:17140756 original size:13 final size:13
Alignment explanation
Indices: 17140738--17140763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17140728 CCAGAAATTG
17140738 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
17140751 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
17140764 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:17156624 original size:46 final size:44
Alignment explanation
Indices: 17156564--17156678 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
17156554 ACAGAACAGA
* *
17156564 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
17156610 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
17156654 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
17156679 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:17156659 original size:44 final size:45
Alignment explanation
Indices: 17156564--17156697 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
17156554 ACAGAACAGA
* *
17156564 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
17156610 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
17156654 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17156698 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:17164002 original size:46 final size:46
Alignment explanation
Indices: 17163949--17164102 Score: 240
Period size: 46 Copynumber: 3.4 Consensus size: 46
17163939 AGAACAGAAA
17163949 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
17163995 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
* * *
17164041 TGAGCCATGTAAGTCCATATT--ATATATGGCATTGGAGACAGGAA
1 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
* **
17164085 TAATTCATGTAAGTCCAT
1 TGAGCCATGTAAGTCCAT
17164103 GTCAAAGACA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.34
46 67 0.66
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (46 bp):
TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
Found at i:17164116 original size:90 final size:91
Alignment explanation
Indices: 17163949--17164121 Score: 224
Period size: 90 Copynumber: 1.9 Consensus size: 91
17163939 AGAACAGAAA
* * *
17163949 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGAGCCATGTAAGTCCATA
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATAAGCCATGTAAGTCCATA
* * *
17164014 TTAGAAATATGGCTTTGGAGACAGGAT
65 TCAGAAACATGGCATTGGAGACAGGAT
* ** *
17164041 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGT
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAGCCATGTAAGTCCATAT
17164105 CA-AAGACATGGCATTGG
66 CAGAA-ACATGGCATTGG
17164122 CAGGATATTG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 2 0.03
90 47 0.67
92 21 0.30
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (91 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAGCCATGTAAGTCCATAT
CAGAAACATGGCATTGGAGACAGGAT
Found at i:17165602 original size:15 final size:15
Alignment explanation
Indices: 17165582--17165610 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17165572 TATTCGATAG
17165582 GTGCTTAGTGTCGTT
1 GTGCTTAGTGTCGTT
17165597 GTGCTTAGTGTCGT
1 GTGCTTAGTGTCGT
17165611 CGTATCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.34, T:0.45
Consensus pattern (15 bp):
GTGCTTAGTGTCGTT
Found at i:17180027 original size:27 final size:27
Alignment explanation
Indices: 17179997--17180109 Score: 147
Period size: 27 Copynumber: 4.6 Consensus size: 27
17179987 TTGAGATATA
17179997 TTTGAATGTACATATAATATATAATTT
1 TTTGAATGTACATATAATATATAATTT
*
17180024 TTTG-A---CCA-A-AATATAT-A---
1 TTTGAATGTACATATAATATATAATTT
17180041 TTTGAATGTACATATAATATATAATTT
1 TTTGAATGTACATATAATATATAATTT
17180068 TTTGAATGTACATATAATATATAATTT
1 TTTGAATGTACATATAATATATAATTT
17180095 TTTGAATGTACATAT
1 TTTGAATGTACATAT
17180110 TTATAACTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 20
0.77 0.02 0.21
Matches are distributed among these distances:
17 4 0.05
18 1 0.01
20 1 0.01
21 9 0.12
22 2 0.03
23 9 0.12
24 1 0.01
26 1 0.01
27 46 0.62
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (27 bp):
TTTGAATGTACATATAATATATAATTT
Found at i:17184487 original size:39 final size:41
Alignment explanation
Indices: 17184401--17184506 Score: 117
Period size: 39 Copynumber: 2.6 Consensus size: 41
17184391 ATTTTTTTCG
* * *
17184401 AAATCGCGTCCACGTCAGCGCGATGTCAGGGGATGTGTCAGC
1 AAATCGCGTCCACGTCAGCGCGAT-TCAGCGGATGTGGCAAC
* **
17184443 AAATCGCTTCCACGTCAGCGCGATT-A-CTTATGTGGCAAC
1 AAATCGCGTCCACGTCAGCGCGATTCAGCGGATGTGGCAAC
* *
17184482 AAATCGCGTCCATGTAAGCGCGATT
1 AAATCGCGTCCACGTCAGCGCGATT
17184507 TGCTGACGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
39 30 0.55
40 1 0.02
41 1 0.02
42 23 0.42
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (41 bp):
AAATCGCGTCCACGTCAGCGCGATTCAGCGGATGTGGCAAC
Found at i:17186700 original size:2 final size:2
Alignment explanation
Indices: 17186695--17186723 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17186685 AACTGATATA
17186695 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17186724 TTAGTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17194220 original size:126 final size:127
Alignment explanation
Indices: 17193984--17194326 Score: 526
Period size: 126 Copynumber: 2.7 Consensus size: 127
17193974 GAGAGGTCTG
* *
17193984 TTTTAGGTCAGATGCACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAATGAAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATT-A-GAAGAGGAAG
* * *
17194049 TTGGCTGGCATGCCTCAAACTTAAAGTCGGCTGCATCGTAGGTAATCAGATTCTCCTCACCCTC
64 TTGGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATAGTAGGTAATCAGATTCTCCTCACCCTC
* * * *
17194113 TTTTATGTCAGATGTACTGTTATCAATCTGAGGTTTCTCCAAATGATCCATTA-AAGAGGATGTT
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAGAAGAGGAAGTT
* *
17194177 GGCTGGCATGCCTCGAACTTAAAGTCAGTTGCATAGTAGGTAATCAGATTCTCTTCACCCTC
66 GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATAGTAGGTAATCAGATTCTCCTCACCCTC
*
17194239 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTACTGTAGAGGAAG
1 TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTA--GAAGAGGAAG
*
17194304 TTGTCTGGCATGCCTCGAACTTA
64 TTGGCTGGCATGCCTCGAACTTA
17194327 GAGTTGGCTG
Statistics
Matches: 194, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
126 117 0.60
128 1 0.01
129 76 0.39
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (127 bp):
TTTTATGTCAGATGTACTGTTGTCAATCTGAGGTTGCTCCAAATCATCCATTAGAAGAGGAAGTT
GGCTGGCATGCCTCGAACTTAAAGTCAGCTGCATAGTAGGTAATCAGATTCTCCTCACCCTC
Found at i:17196517 original size:15 final size:14
Alignment explanation
Indices: 17196494--17196528 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
17196484 TGCATATGTG
17196494 AAAAAAGAACAGTT
1 AAAAAAGAACAGTT
*
17196508 AAAAAGAGAATAGTT
1 AAAAA-AGAACAGTT
17196523 AAAAAA
1 AAAAAA
17196529 AAAAAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAAGAACAGTT
Found at i:17200657 original size:31 final size:30
Alignment explanation
Indices: 17200585--17200657 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
17200575 AATTGAATTA
* *
17200585 AAATAAAAATTTTATATATTTATATCAACC
1 AAATTAAAATTTTATATATTTATAGCAACC
* *
17200615 ACAATTTAAATTTTATATGTATTAGT-GCAACC
1 A-AATTAAAATTTTATATAT-TTA-TAGCAACC
17200647 AAATTAAAATT
1 AAATTAAAATT
17200658 CATTCATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.03
31 24 0.69
32 9 0.26
33 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTAAAATTTTATATATTTATAGCAACC
Found at i:17201293 original size:18 final size:18
Alignment explanation
Indices: 17201272--17201325 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
17201262 TTTTTGTTCA
*
17201272 AAAATACTTTTTAACCCG
1 AAAATACTTTTTAGCCCG
* *
17201290 AAAATA--TTTT-GCTCA
1 AAAATACTTTTTAGCCCG
17201305 AAAATACTTTTTAGCCCG
1 AAAATACTTTTTAGCCCG
17201323 AAA
1 AAA
17201326 GCATTTTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 8 0.29
16 4 0.14
17 4 0.14
18 12 0.43
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAATACTTTTTAGCCCG
Found at i:17201300 original size:33 final size:33
Alignment explanation
Indices: 17201263--17201325 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
17201253 AAATTTTAAT
*
17201263 TTTTGTTCAAAAATACTTTTTAACCCGAAAATA
1 TTTTGCTCAAAAATACTTTTTAACCCGAAAATA
*
17201296 TTTTGCTCAAAAATACTTTTTAGCCCGAAA
1 TTTTGCTCAAAAATACTTTTTAACCCGAAA
17201326 GCATTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (33 bp):
TTTTGCTCAAAAATACTTTTTAACCCGAAAATA
Found at i:17201316 original size:17 final size:17
Alignment explanation
Indices: 17201262--17201316 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
17201252 AAAATTTTAA
*
17201262 TTTTTGTTCAAAAATAC
1 TTTTTGCTCAAAAATAC
* * *
17201279 TTTTTAACCCGAAAATA-
1 TTTTT-GCTCAAAAATAC
17201296 -TTTTGCTCAAAAATAC
1 TTTTTGCTCAAAAATAC
17201312 TTTTT
1 TTTTT
17201317 AGCCCGAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
15 8 0.29
16 4 0.14
17 9 0.32
18 7 0.25
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (17 bp):
TTTTTGCTCAAAAATAC
Found at i:17208059 original size:43 final size:43
Alignment explanation
Indices: 17208008--17208107 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
17207998 TCCCAAACGT
*
17208008 GGTCTTACATGTAATCAA-ACAACGATGCCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAGA-AACGATGCCACTATCCCAGACAG
* * *
17208051 GGTCTTACACGTAATTAAGAAATGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAGAAACGATGCCACTATCCCAGACAG
17208094 GGTCTTACACGTAA
1 GGTCTTACACGTAA
17208108 ATCTCAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 51 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAGAAACGATGCCACTATCCCAGACAG
Found at i:17208136 original size:44 final size:45
Alignment explanation
Indices: 17208031--17208153 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 45
17208021 ATCAAACAAC
*
17208031 GATGCCACTATCCCAGACAGGGTCTTACACGT-AAT-TAAGAAAT
1 GATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTAAGAAAT
* *
17208074 GATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTCA-AATT
1 GATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTAAGAAAT
*
17208118 GATGCCAAC-GTCCCAGACATGGTCTTACACG-AAATC
1 GATGCC-ACTGTCCCAGACAGGGTCTTACACGTAAATC
17208154 ACATTTCAGC
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
43 36 0.49
44 33 0.45
45 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
GATGCCACTGTCCCAGACAGGGTCTTACACGTAAATCTAAGAAAT
Found at i:17214660 original size:18 final size:19
Alignment explanation
Indices: 17214639--17214678 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
17214629 GTTTCTTTCT
*
17214639 TTTTTATTTTA-TTTTTTG
1 TTTTTATTTTAGTTTTTAG
*
17214657 TTTTTTTTTTAGTTTTTAG
1 TTTTTATTTTAGTTTTTAG
17214676 TTT
1 TTT
17214679 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTAGTTTTTAG
Found at i:17214660 original size:19 final size:19
Alignment explanation
Indices: 17214638--17214678 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17214628 TGTTTCTTTC
*
17214638 TTTTTTATTTTA-TTTTTTG
1 TTTTTT-TTTTAGTTTTTAG
17214657 TTTTTTTTTTAGTTTTTAG
1 TTTTTTTTTTAGTTTTTAG
17214676 TTT
1 TTT
17214679 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTTAGTTTTTAG
Found at i:17221034 original size:14 final size:15
Alignment explanation
Indices: 17221006--17221042 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17220996 GAATTCTATC
*
17221006 ATGATATATTTGAAT
1 ATGATATATTCGAAT
17221021 ATGAT-TATTCGAAT
1 ATGATATATTCGAAT
17221035 AT-ATATAT
1 ATGATATAT
17221043 AATTATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 13 0.65
15 5 0.25
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (15 bp):
ATGATATATTCGAAT
Found at i:17225089 original size:18 final size:18
Alignment explanation
Indices: 17225066--17225156 Score: 137
Period size: 18 Copynumber: 5.1 Consensus size: 18
17225056 TACGACCGTT
17225066 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
*
17225084 TACGGCACTATTCATGTA
1 TACGGCACTATTCACGTA
*
17225102 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
17225120 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
17225138 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
17225156 T
1 T
17225157 GCAGTAGTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:17231462 original size:18 final size:18
Alignment explanation
Indices: 17231404--17231464 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
17231394 CTTCAATTTT
* *
17231404 TTTTAA-TATGTTCAAAA
1 TTTTAAGTATATTAAAAA
* *
17231421 TTTT-ATTATATTTAAATA
1 TTTTAAGTATA-TTAAAAA
*
17231439 TATTAAGTATATTAAAAA
1 TTTTAAGTATATTAAAAA
17231457 TTTTAAGT
1 TTTTAAGT
17231465 TAATTATACT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 1 0.03
17 7 0.21
18 21 0.62
19 5 0.15
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAGTATATTAAAAA
Found at i:17231502 original size:80 final size:80
Alignment explanation
Indices: 17231373--17231545 Score: 206
Period size: 80 Copynumber: 2.1 Consensus size: 80
17231363 AAAATAAATT
* * * * *
17231373 AAAATTTTAAAATTAGTTATACTTCAATTTTTTTTAATATGTTCAAAATTTTATTATATTTAAAT
1 AAAATTTT-AAATTAATTATACTTCAATTTTTTTTAACATATTCAAAATTTTAATATATTTAAAA
17231438 A-TATTAAGTATATTA
65 ATTATTAAGTATATTA
* *
17231453 AAAATTTTAAGTTAATTATAC-TCAACTTTTTCTTTAACATATTTAAAATTTTAATATATTTAAA
1 AAAATTTTAAATTAATTATACTTCAA-TTTTT-TTTAACATATTCAAAATTTTAATATATTTAAA
* * * *
17231517 AATTTTTAATTTTTTTA
64 AATTATTAAGTATATTA
17231534 AAAATTTTAAAT
1 AAAATTTTAAAT
17231546 ATATTAAAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.05
79 16 0.21
80 37 0.47
81 21 0.27
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (80 bp):
AAAATTTTAAATTAATTATACTTCAATTTTTTTTAACATATTCAAAATTTTAATATATTTAAAAA
TTATTAAGTATATTA
Found at i:17231511 original size:17 final size:18
Alignment explanation
Indices: 17231485--17231554 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
17231475 CAACTTTTTC
*
17231485 TTTAACATATTT-AAAAT
1 TTTAATATATTTAAAAAT
17231502 TTTAATATATTTAAAAATT
1 TTTAATATATTTAAAAA-T
* *
17231521 TTTAATTTTTTTAAAAAT
1 TTTAATATATTTAAAAAT
17231539 TTTAA-ATATATTAAAA
1 TTTAATATAT-TTAAAA
17231555 GATCTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 13 0.29
18 16 0.36
19 16 0.36
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAATATATTTAAAAAT
Found at i:17231525 original size:19 final size:19
Alignment explanation
Indices: 17231485--17231554 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
17231475 CAACTTTTTC
*
17231485 TTTAACATATTT-AAAA-T
1 TTTAATATATTTAAAAATT
17231502 TTTAATATATTTAAAAATT
1 TTTAATATATTTAAAAATT
* *
17231521 TTTAATTTTTTTAAAAATT
1 TTTAATATATTTAAAAATT
*
17231540 TTAAATATA-TTAAAA
1 TTTAATATATTTAAAA
17231555 GATCTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 11 0.24
18 10 0.22
19 24 0.53
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAATATATTTAAAAATT
Found at i:17231633 original size:22 final size:21
Alignment explanation
Indices: 17231576--17231644 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
17231566 TCTTTACCTA
*
17231576 TTAAAA-AATATATTAAAATT
1 TTAAAATAATATATTAAAAAT
*
17231596 TTAAAAT-ATATTTTAAAAAT
1 TTAAAATAATATATTAAAAAT
* *
17231616 ATAAATTGAATATATTAAAAAT
1 TTAAAAT-AATATATTAAAAAT
17231638 TTAAAAT
1 TTAAAAT
17231645 TGTTTATACT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 22 0.56
22 17 0.44
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (21 bp):
TTAAAATAATATATTAAAAAT
Found at i:17231652 original size:23 final size:23
Alignment explanation
Indices: 17231583--17231658 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 23
17231573 CTATTAAAAA
*
17231583 ATATATTAAAATTTTAAAA---T
1 ATATATTAAAAATTTAAAATTGT
* * *
17231603 ATATTTTAAAAATAT-AAATTGA
1 ATATATTAAAAATTTAAAATTGT
17231625 ATATATTAAAAATTTAAAATTGT
1 ATATATTAAAAATTTAAAATTGT
*
17231648 TTATACTTAAA
1 ATATA-TTAAA
17231659 TCTTTTTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.07
20 12 0.28
22 13 0.30
23 10 0.23
24 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (23 bp):
ATATATTAAAAATTTAAAATTGT
Found at i:17231677 original size:20 final size:19
Alignment explanation
Indices: 17231649--17231687 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17231639 TAAAATTGTT
17231649 TATACTTAAATCTTTTTTAA
1 TATACTT-AATCTTTTTTAA
* *
17231669 TATATTTAATTTTTTTTAA
1 TATACTTAATCTTTTTTAA
17231688 ATTTTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TATACTTAATCTTTTTTAA
Found at i:17231776 original size:17 final size:17
Alignment explanation
Indices: 17231751--17231789 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17231741 AAAATATATA
*
17231751 TTAAGTATATCAAAATT
1 TTAAATATATCAAAATT
* *
17231768 TTAAATATATTAAACTT
1 TTAAATATATCAAAATT
17231785 TTAAA
1 TTAAA
17231790 ATTAATTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (17 bp):
TTAAATATATCAAAATT
Found at i:17237879 original size:21 final size:20
Alignment explanation
Indices: 17237849--17237888 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
17237839 CCGCCACTCT
17237849 TTCTCCCCCTTAC-CCTCCCC
1 TTCTCCCCCTT-CTCCTCCCC
17237869 TTCTCGCCCCTTCTCCTCCC
1 TTCTC-CCCCTTCTCCTCCC
17237889 GAACGCCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.03, C:0.62, G:0.03, T:0.33
Consensus pattern (20 bp):
TTCTCCCCCTTCTCCTCCCC
Found at i:17250040 original size:52 final size:52
Alignment explanation
Indices: 17249964--17250162 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
17249954 CCATGGCAGC
* *
17249964 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
17250017 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
17250069 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * *
17250117 -TGTGATATGTG-ATCCGTATAAGACCTTGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
17250163 TATGTGATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
46 25 0.20
47 11 0.09
50 2 0.02
52 79 0.62
53 10 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:17253379 original size:26 final size:26
Alignment explanation
Indices: 17253343--17253395 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17253333 ATCGAGGTTC
17253343 AACATTTGTTGCGAACTTTCGTGTTT
1 AACATTTGTTGCGAACTTTCGTGTTT
*
17253369 AACATTTGTTGCGAACTTTTGTGTTT
1 AACATTTGTTGCGAACTTTCGTGTTT
17253395 A
1 A
17253396 CTTTCCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (26 bp):
AACATTTGTTGCGAACTTTCGTGTTT
Found at i:17253457 original size:21 final size:21
Alignment explanation
Indices: 17253433--17253509 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
17253423 GTTGAACTCA
*
17253433 TATGAGTTTCTGTTTAACCCT
1 TATGAGTTTCTGTTCAACCCT
* * *
17253454 TATGGGTTTCCGTTCAGCTCC-
1 TATGAGTTTCTGTTCAAC-CCT
* *
17253475 TATGAGCTTCCGTTCAACCCT
1 TATGAGTTTCTGTTCAACCCT
17253496 TAT-AGATTTCTGTT
1 TATGAG-TTTCTGTT
17253510 TAGCACTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.09
21 38 0.86
22 2 0.05
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCTGTTCAACCCT
Found at i:17256716 original size:50 final size:50
Alignment explanation
Indices: 17256595--17256843 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
17256585 GATAATAACA
* * * ** * *
17256595 TGCCAAAGCCATGTCCCAGAAATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17256646 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17256696 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17256746 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17256801 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17256844 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17256772 original size:100 final size:104
Alignment explanation
Indices: 17256594--17256843 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
17256584 TGATAATAAC
* **
17256594 ATGCCAAAGCCATGTCCCAGAAATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
17256659 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17256696 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
17256759 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
17256801 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17256844 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17256959 original size:13 final size:13
Alignment explanation
Indices: 17256938--17256969 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17256928 GCTTGGATCA
*
17256938 TCATCAAATAAAT
1 TCATAAAATAAAT
17256951 TCATAAAATAAAT
1 TCATAAAATAAAT
17256964 TCATAA
1 TCATAA
17256970 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17257217 original size:30 final size:30
Alignment explanation
Indices: 17257182--17257238 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17257172 CTCGACTCTG
*
17257182 ACTTTTTCAAAATTACAATTTTGCCCCTAA
1 ACTTTTACAAAATTACAATTTTGCCCCTAA
* *
17257212 ACTTTTACATAATTACATTTTTGCCCC
1 ACTTTTACAAAATTACAATTTTGCCCC
17257239 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (30 bp):
ACTTTTACAAAATTACAATTTTGCCCCTAA
Found at i:17258837 original size:51 final size:51
Alignment explanation
Indices: 17258758--17258964 Score: 268
Period size: 51 Copynumber: 4.2 Consensus size: 51
17258748 TTCTGATCAA
*
17258758 TGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
1 TGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
* * *
17258809 TGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTAT-T--T-GAT--C-AG
1 TGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
* *
17258853 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
* * *
17258904 TGGCAAGTGATAAATGGTAGC-TCAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
*
17258954 TGATAAGTGAT
1 TGACAAGTGAT
17258965 CATACGTAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
44 37 0.27
45 2 0.01
47 3 0.02
48 2 0.01
50 39 0.28
51 54 0.39
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
TGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAG
Found at i:17258873 original size:95 final size:94
Alignment explanation
Indices: 17258749--17258962 Score: 356
Period size: 95 Copynumber: 2.3 Consensus size: 94
17258739 TTTGAGTACT
* *
17258749 TCTGATCAATGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAATGACAAGTGGCA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAGTGGCA
* *
17258814 AGTGATAAGTGGTAGCTTTAGCTACACTTA
66 AGTGATAAATGGTAGC-TCAGCTACACTTA
* * *
17258844 TTTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAGTGGCA
17258909 AGTGATAAATGGTAGCTCAGCTACACTTA
66 AGTGATAAATGGTAGCTCAGCTACACTTA
17258938 TCTGATCAGTGACAAGTGATAAGTG
1 TCTGATCAGTGACAAGTGATAAGTG
17258963 ATCATACGTA
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
94 36 0.32
95 75 0.68
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (94 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAATGACAAGTGGCA
AGTGATAAATGGTAGCTCAGCTACACTTA
Found at i:17258999 original size:94 final size:94
Alignment explanation
Indices: 17258749--17259006 Score: 240
Period size: 95 Copynumber: 2.7 Consensus size: 94
17258739 TTTGAGTACT
* * * * * * * *
17258749 TCTGATCAATGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAATGACAAGTGGC
1 TCTGATCAGTGACAAGTGATAAGTGA-TAACGTAAGCCACAATTATCTGAT-AGTGAAAAGTGGC
* *
17258813 AAGTGATAAGTGGTAGCTTTAGCTACACTTA
64 AAGTGATAAATGGTAGCTTCAGCTACACTTA
* * * * * * * *
17258844 TTTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
1 TCTGATCAGTGACAAGTGATAAGTGATAACGTAAGCCACAATTATCTGAT-AGTGAAAAGTGGCA
17258909 AGTGATAAATGGTAGC-TCAGCTACACTTA
65 AGTGATAAATGGTAGCTTCAGCTACACTTA
*
17258938 TCTGATCAGTGACAAGTGATAAGTGATCATACGTAAGACCATAATTATACT-AT-G-GAAAAGTG
1 TCTGATCAGTGACAAGTGATAAGTGAT-A-ACGTAAG-CCACAATTAT-CTGATAGTGAAAAGTG
17259000 G-AAGTGA
62 GCAAGTGA
17259007 AGTACTCAAT
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
93 6 0.04
94 45 0.32
95 76 0.54
96 4 0.03
97 9 0.06
98 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (94 bp):
TCTGATCAGTGACAAGTGATAAGTGATAACGTAAGCCACAATTATCTGATAGTGAAAAGTGGCAA
GTGATAAATGGTAGCTTCAGCTACACTTA
Found at i:17261125 original size:25 final size:24
Alignment explanation
Indices: 17261097--17261286 Score: 122
Period size: 25 Copynumber: 7.9 Consensus size: 24
17261087 CCGAGTAATA
*
17261097 TAACGGGAAGCTCATGTGAGCCAT
1 TAACGGGAAGCTCATGAGAGCCAT
* * * *
17261121 GTAACGAGAAGCTCATAAGAGTC-G
1 -TAACGGGAAGCTCATGAGAGCCAT
* *
17261145 TAATCAGGAAGCTCATGCA-AGCCAA
1 TAA-CGGGAAGCTCATG-AGAGCCAT
**
17261170 TATTGGGAAGCTC-TAGAGAGCCAAT
1 TAACGGGAAGCTCAT-GAGAGCC-AT
*
17261195 TATCGGGAAGCTCAT-ATGAGCCAT
1 TAACGGGAAGCTCATGA-GAGCCAT
* * * *
17261219 AAACGGAAAGCTCAAGAGAGTCAT
1 TAACGGGAAGCTCATGAGAGCCAT
*
17261243 TAATCGGGAAGCTCGTGAGAGCCA-
1 TAA-CGGGAAGCTCATGAGAGCCAT
* *
17261267 T-ACGGGATGCTCATAAGAGC
1 TAACGGGAAGCTCATGAGAGC
17261287 TAAATAATGG
Statistics
Matches: 127, Mismatches: 28, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
22 15 0.12
23 6 0.05
24 49 0.39
25 56 0.44
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (24 bp):
TAACGGGAAGCTCATGAGAGCCAT
Found at i:17261178 original size:24 final size:26
Alignment explanation
Indices: 17261151--17261286 Score: 91
Period size: 24 Copynumber: 5.7 Consensus size: 26
17261141 GTCGTAATCA
*
17261151 GGAAGCTCAT-GCA-AGCCAA-TATTG
1 GGAAGCTCATAG-AGAGCCAATTATCG
17261175 GGAAGCTC-TAGAGAGCCAATTATCG
1 GGAAGCTCATAGAGAGCCAATTATCG
* * *
17261200 GGAAGCTCATA-TGAGCC-ATAAACG
1 GGAAGCTCATAGAGAGCCAATTATCG
* *
17261224 GAAAGCTCA-AGAGAGTC-ATTAATCG
1 GGAAGCTCATAGAGAGCCAATT-ATCG
*
17261249 GGAAGCTCGT-GAGAGCC-A-TA-CG
1 GGAAGCTCATAGAGAGCCAATTATCG
*
17261271 GGATGCTCATA-AGAGC
1 GGAAGCTCATAGAGAGC
17261287 TAAATAATGG
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
22 15 0.17
23 4 0.04
24 35 0.39
25 34 0.38
26 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (26 bp):
GGAAGCTCATAGAGAGCCAATTATCG
Found at i:17263610 original size:22 final size:21
Alignment explanation
Indices: 17263577--17263619 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17263567 TTACATGTAG
*
17263577 TTATTAAGTAAATTATATTAT
1 TTATTAAGTAAATAATATTAT
*
17263598 TTATGTAATTAAATAATATTAT
1 TTAT-TAAGTAAATAATATTAT
17263620 ACTTCGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTATTAAGTAAATAATATTAT
Found at i:17270551 original size:18 final size:18
Alignment explanation
Indices: 17270519--17270597 Score: 81
Period size: 18 Copynumber: 4.4 Consensus size: 18
17270509 GGGTATGGAT
* *
17270519 GGGGATGGGGTGGAGGAG
1 GGGGAGGGGGAGGAGGAG
17270537 GTGGG-GGGGGAGGAGGAG
1 G-GGGAGGGGGAGGAGGAG
*
17270555 GGGGAGGGGGAGGAGGTG
1 GGGGAGGGGGAGGAGGAG
*
17270573 GGGGATGGGGATGG-GGAG
1 GGGGAGGGGGA-GGAGGAG
*
17270591 GAGGAGG
1 GGGGAGG
17270598 TGGTGGTTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.06
18 43 0.84
19 5 0.10
ACGTcount: A:0.18, C:0.00, G:0.75, T:0.08
Consensus pattern (18 bp):
GGGGAGGGGGAGGAGGAG
Found at i:17270603 original size:30 final size:30
Alignment explanation
Indices: 17270515--17270603 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
17270505 TGGCGGGTAT
* *
17270515 GGATGGGGATGGGGTGGAGGAGGTGGGGGG
1 GGATGGGGATGGGGAGGAGGAGGTGGTGGG
* * *
17270545 GGA-GGAGGAGGGGGAGGGGGAGGAGGTGGG
1 GGATGG-GGATGGGGAGGAGGAGGTGGTGGG
17270575 GGATGGGGATGGGGAGGAGGAGGTGGTGG
1 GGATGGGGATGGGGAGGAGGAGGTGGTGG
17270604 TTCGTATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 2 0.04
30 45 0.92
31 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.73, T:0.10
Consensus pattern (30 bp):
GGATGGGGATGGGGAGGAGGAGGTGGTGGG
Found at i:17272458 original size:16 final size:17
Alignment explanation
Indices: 17272434--17272480 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
17272424 TATAAATTAC
17272434 ATAATATATAAAAATAAT
1 ATAA-ATATAAAAATAAT
*
17272452 AT-AATAT-AAAATATT
1 ATAAATATAAAAATAAT
*
17272467 ATAAATTTAAAAAT
1 ATAAATATAAAAAT
17272481 TAATCAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 6 0.24
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAATATAAAAATAAT
Found at i:17272482 original size:15 final size:16
Alignment explanation
Indices: 17272439--17272482 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17272429 ATTACATAAT
*
17272439 ATATAAAAATAATATA
1 ATATAAAAATTATATA
17272455 ATATAAAATATTATA-A
1 ATATAAAA-ATTATATA
*
17272471 ATTTAAAAATTA
1 ATATAAAAATTA
17272483 ATCAAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAAAATTATATA
Found at i:17280492 original size:46 final size:44
Alignment explanation
Indices: 17280432--17280546 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
17280422 ACAGGACAGA
* *
17280432 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
17280478 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
17280522 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
17280547 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:17280527 original size:44 final size:45
Alignment explanation
Indices: 17280432--17280565 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
17280422 ACAGGACAGA
* *
17280432 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
17280478 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
17280522 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
17280566 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:17284716 original size:25 final size:26
Alignment explanation
Indices: 17284688--17284961 Score: 197
Period size: 25 Copynumber: 11.1 Consensus size: 26
17284678 AGCTCTTCCA
*
17284688 AGCCATATAAT-GGGAAGCTCATGTG
1 AGCCATATAATCGGGAAGCTCATGAG
* *
17284713 AGCCATGTAA-CGGGAAGCTCATAAG
1 AGCCATATAATCGGGAAGCTCATGAG
* * *
17284738 AGTC--GTAATCAGGAAGCTCATGCA-
1 AGCCATATAATCGGGAAGCTCATG-AG
*
17284762 AGCCA-AT-ATCGAGAAGCTCCA-GAG
1 AGCCATATAATCGGGAAGCT-CATGAG
* * *
17284786 AGCCAT-TAATCAGAAAGCTCATGAA
1 AGCCATATAATCGGGAAGCTCATGAG
*
17284811 AGCCA-ATTATCGGG-AGCTCAT-ACG
1 AGCCATATAATCGGGAAGCTCATGA-G
* *
17284835 AGCCATA-AAT-GGGAAGCTTAAGAG
1 AGCCATATAATCGGGAAGCTCATGAG
17284859 AGCCAT-TAATCGGGAAGCTCATGAG
1 AGCCATATAATCGGGAAGCTCATGAG
* * *
17284884 AGCCATATAA-CGGGATGTTCATAAG
1 AGCCATATAATCGGGAAGCTCATGAG
* * *
17284909 AGCTAAATAA-CGGGAAGCTCGTGAG
1 AGCCATATAATCGGGAAGCTCATGAG
* * *
17284934 AGCCATATAA-CAGGATGCTCATAAG
1 AGCCATATAATCGGGAAGCTCATGAG
17284959 AGC
1 AGC
17284962 TAAATAATGG
Statistics
Matches: 194, Mismatches: 38, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
23 9 0.05
24 61 0.31
25 121 0.62
26 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (26 bp):
AGCCATATAATCGGGAAGCTCATGAG
Found at i:17284777 original size:24 final size:23
Alignment explanation
Indices: 17284750--17284831 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 23
17284740 TCGTAATCAG
17284750 GAAGCTCATGCAAGCCAATATCGA
1 GAAGCTCATG-AAGCCAATATCGA
*
17284774 GAAGCTCCA-GAGAGCCATTAATC-A
1 GAAGCT-CATGA-AGCCAAT-ATCGA
17284798 GAAAGCTCATGAAAGCCAATTATCG-
1 G-AAGCTCATG-AAGCCAA-TATCGA
*
17284823 GGAGCTCAT
1 GAAGCTCAT
17284832 ACGAGCCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
23 1 0.02
24 24 0.51
25 20 0.43
26 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (23 bp):
GAAGCTCATGAAGCCAATATCGA
Found at i:17284898 original size:73 final size:73
Alignment explanation
Indices: 17284686--17284898 Score: 209
Period size: 73 Copynumber: 2.9 Consensus size: 73
17284676 GAAGCTCTTC
* * * * *
17284686 CAAGCCATATAATGGGAAGCTCATGTGAGCCATGTAA-CGGGAAGCTCATAAGAGTCGTA-ATCA
1 CAAGCCATA-AATGGGAAGCTCAAGAGAGCCAT-TAATCGGGAAGCTCATGAGAGCCATATATC-
* *
17284749 GGAAGCTCATG
63 GGGAGCTCATA
* * * * * *
17284760 CAAGCCA-ATATCGAGAAGCTCCAGAGAGCCATTAATCAGAAAGCTCATGAAAGCCA-ATTATCG
1 CAAGCCATAAAT-GGGAAGCTCAAGAGAGCCATTAATCGGGAAGCTCATGAGAGCCATA-TATCG
17284823 GGAGCTCATA
64 GGAGCTCATA
* * *
17284833 CGAGCCATAAATGGGAAGCTTAAGAGAGCCATTAATCGGGAAGCTCATGAGAGCCATATAACGGG
1 CAAGCCATAAATGGGAAGCTCAAGAGAGCCATTAATCGGGAAGCTCATGAGAGCCATATATCGGG
17284898 A
66 A
17284899 TGTTCATAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
72 6 0.05
73 91 0.82
74 14 0.13
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (73 bp):
CAAGCCATAAATGGGAAGCTCAAGAGAGCCATTAATCGGGAAGCTCATGAGAGCCATATATCGGG
AGCTCATA
Found at i:17285882 original size:5 final size:5
Alignment explanation
Indices: 17285872--17285902 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
17285862 TTCTTATGTT
17285872 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA T
17285903 CCATCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:17288371 original size:40 final size:40
Alignment explanation
Indices: 17288316--17288413 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
17288306 CGACTTCGAG
*
17288316 TCGATGAGACACTGGGTGTCAACTTATTGCCTCAAATTAT
1 TCGATGAGGCACTGGGTGTCAACTTATTGCCTCAAATTAT
*
17288356 TCGATGAGGCACTGGGTGTCAACTTATTGCCTCGAATTAT
1 TCGATGAGGCACTGGGTGTCAACTTATTGCCTCAAATTAT
* *
17288396 TCAATGAGGCATTGGGTG
1 TCGATGAGGCACTGGGTG
17288414 CCAAACTGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
TCGATGAGGCACTGGGTGTCAACTTATTGCCTCAAATTAT
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 TAAAGGCATT
17303304 CTA CTA CTA CTA CTA CTA CTA CTA CTA
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA
17303331 TCTTTTATGC
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:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CTA
Found at i:17309549 original size:3 final size:3
Alignment explanation
Indices: 17309541--17309566 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17309531 ACAAACACAA
17309541 CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CA
17309567 AAATCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:17315330 original size:25 final size:25
Alignment explanation
Indices: 17315311--17315404 Score: 170
Period size: 25 Copynumber: 3.8 Consensus size: 25
17315301 AGAGCATTGT
* *
17315311 CGTGCTAGTAATCAGAGAGCATCAA
1 CGTGCTAATAATCAGAGAGCACCAA
17315336 CGTGCTAATAATCAGAGAGCACCAA
1 CGTGCTAATAATCAGAGAGCACCAA
17315361 CGTGCTAATAATCAGAGAGCACCAA
1 CGTGCTAATAATCAGAGAGCACCAA
17315386 CGTGCTAATAATCAGAGAG
1 CGTGCTAATAATCAGAGAG
17315405 TGCGCTAAAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.18
Consensus pattern (25 bp):
CGTGCTAATAATCAGAGAGCACCAA
Found at i:17316411 original size:46 final size:46
Alignment explanation
Indices: 17316338--17316477 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
17316328 ACATTGCTAT
*
17316338 AACTCAGTATGGTTTTTCTTTACCGAAATAGCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTTACCGAAATACCATACCTACTTTTCAC
*
17316385 AACTCGGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* * *
17316431 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
17316477 A
1 A
17316478 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 76 0.87
47 11 0.13
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
Found at i:17319072 original size:21 final size:21
Alignment explanation
Indices: 17319018--17319076 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
17319008 CGTAACTTGA
17319018 AATTCAATCAATTTAA--CCCCT
1 AATTC-ATCAA-TTAATTCCCCT
17319039 AATTCATCAATTAATTCCCCT
1 AATTCATCAATTAATTCCCCT
17319060 AATTCATCAATTAATTC
1 AATTCATCAATTAATTC
17319077 AACATGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 27 0.75
ACGTcount: A:0.37, C:0.25, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTCATCAATTAATTCCCCT
Found at i:17323915 original size:11 final size:11
Alignment explanation
Indices: 17323901--17323931 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
17323891 CCACCGGTCC
17323901 ACCTCCGGTAT
1 ACCTCCGGTAT
17323912 ACCTCCGGTAT
1 ACCTCCGGTAT
17323923 ACCTCCGGT
1 ACCTCCGGT
17323932 CCTCCACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.39, G:0.19, T:0.26
Consensus pattern (11 bp):
ACCTCCGGTAT
Found at i:17326439 original size:22 final size:22
Alignment explanation
Indices: 17326414--17326476 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
17326404 TGGTCATAAT
17326414 TAATTAAATAGGTAGTGAATTC
1 TAATTAAATAGGTAGTGAATTC
17326436 TAATCT-AAT--G--GTG-A-T-
1 TAAT-TAAATAGGTAGTGAATTC
*
17326451 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGGTAGTGAATTC
17326473 TAAT
1 TAAT
17326477 CTAATGGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 18
0.62 0.02 0.36
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 1 0.03
17 1 0.03
18 3 0.10
19 3 0.10
20 2 0.06
21 1 0.03
22 11 0.35
23 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (22 bp):
TAATTAAATAGGTAGTGAATTC
Found at i:17326453 original size:37 final size:37
Alignment explanation
Indices: 17326412--17326483 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
17326402 GTTGGTCATA
17326412 ATTAATTAAATAGGTAGTGAATTCTAATCTAATGGTG
1 ATTAATTAAATAGGTAGTGAATTCTAATCTAATGGTG
*
17326449 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
1 ATTAATTAAATAGGTAGTGAATTCTAATCTAATGG
17326484 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (37 bp):
ATTAATTAAATAGGTAGTGAATTCTAATCTAATGGTG
Found at i:17328134 original size:35 final size:36
Alignment explanation
Indices: 17328086--17328162 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 36
17328076 ATTTGTTAGA
*
17328086 TATTGATTATGTTTTAACCTTATTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
* *
17328122 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
17328157 TATTGA
1 TATTGA
17328163 CAATGATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTATTGGATATTGAAAT
Done.