Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 295 of 362
Found at i:99151534 original size:84 final size:84
Alignment explanation
Indices: 99151164--99152204 Score: 1273
Period size: 84 Copynumber: 12.2 Consensus size: 84
99151154 TTTACTATCC
* * * * *
99151164 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTACT
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGTATTTTCCAGCCTGTTACCCTACTGCT
*
99151229 TAGGGGGATAAGGCTCAC-GTCT
62 TAGGGGGTTAAGGCTCACTGTCT
* * * * * *
99151251 CCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAGCCTGCTACCCTACTAC
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGC
*
99151315 TTAGGGGGTTAAGGCTCACCGTCT
61 TTAGGGGGTTAAGGCTCACTGTCT
* * *
99151339 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT-TAGCTTGTTACCCTACTGC
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGC
**
99151403 TTA-GGGGTTAAGGCTTGCTGTCT
61 TTAGGGGGTTAAGGCTCACTGTCT
* * * * * *
99151426 TCAATCTGTTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCTTGTTACCCTACTACTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
** * *
99151491 GGGTTAAGGCTTGCTATTT
66 GGGTTAAGGCTCACTGTCT
* * *
99151510 TCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTATG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
99151575 GGGTTAAGGCTCATTGTCT
66 GGGTTAAGGCTCACTGTCT
*
99151594 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
99151659 GGTTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* * * *
99151678 TCGATCTGCTCCACTACTATTTAGGGGAGACCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
99151743 GGGTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* * *
99151762 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGTTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
99151827 GGTTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
*
99151846 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC-GTTACCCTACTGCTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
99151910 GGGTTAAGACTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* * * *
99151929 TTGATATGTTCCGCTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
99151994 GGTTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* *
99152013 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTTTTACCCTACTGCTTAAG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
* *
99152078 GGGTTAAGGTTCATTGTCT
66 GGGTTAAGGCTCACTGTCT
* * * * ** * *
99152097 TTGATCTACTCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTACCCTATTG
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-A-TTTTCCAGCCTGTTACCCTACTG
* *
99152162 CCTAGGGGGTTAAGGTTCACTGTCT
60 CTTAGGGGGTTAAGGCTCACTGTCT
* * *
99152187 TTGATCTACTCCCCTACT
1 TCGATCTGCTCCACTACT
99152205 TCTTAGGAAG
Statistics
Matches: 854, Mismatches: 89, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
82 5 0.01
83 103 0.12
84 501 0.59
85 1 0.00
87 110 0.13
88 75 0.09
89 1 0.00
90 58 0.07
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (84 bp):
TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTCACTGTCT
Found at i:99151654 original size:43 final size:43
Alignment explanation
Indices: 99151522--99151654 Score: 109
Period size: 43 Copynumber: 3.1 Consensus size: 43
99151512 GATCTGCTTC
99151522 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
1 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
* * * * * * *
99151565 ACTACT-TAT-GGGGTTAAGGCTCAT-TGTCTTCGA-TCTGCT--CC-
1 ACTACTGTTTAGGGG---A-GATC-TGTATTTTCCAGCCTGTTACCCT
99151606 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
1 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
99151649 ACTACT
1 ACTACT
99151655 TAGGGGTTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 24
0.63 0.14 0.24
Matches are distributed among these distances:
38 1 0.02
39 9 0.14
40 5 0.08
41 10 0.16
42 8 0.12
43 16 0.25
44 5 0.08
45 9 0.14
46 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (43 bp):
ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
Found at i:99152015 original size:335 final size:336
Alignment explanation
Indices: 99151164--99152204 Score: 1345
Period size: 335 Copynumber: 3.1 Consensus size: 336
99151154 TTTACTATCC
* * * * *
99151164 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTACT
1 TCGATCTACTCCACTACTGTTTAGGG-G---AGATCTGTATTTTCCAGCCTGTTACCCTACTACT
* * * *
99151229 TAGGGGGATAAGGCTCAC-GTCTCCGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
62 TAGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-AT
* * * *
99151293 CTT-CAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACT
122 TTTCCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACT
* * **
99151357 GCTTAGGGAGATAAGATCTGTAATTTT-TAGCTTGTTACCCTACTGCTT-AGGGGTTAAGGCTTG
187 GTTTAGGG-G---AGATCTGT-ATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCA
* ** * * * * *
99151420 CTGTCTTCAATCTGTTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCTTGTTACCCTACTA
247 CTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTG
** * *
99151485 CTTAGGGGGTTAAGGCTTGCTATTT
312 CTTAGGGGGTTAAGGCTCACTGTCT
* * *
99151510 TCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTATG
1 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGG
*
99151575 GGGTTAAGGCTCATTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC
66 GGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC
*
99151640 TGTTACCCTACTACTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTATTTAGGGG
131 TGTTACCCTACTACTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGG
*
99151705 AGACCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTA
196 AGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTA
* *
99151770 CTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAG
261 CTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
99151835 GCTCACTGTCT
326 GCTCACTGTCT
*
99151846 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC-GTTACCCTACTGCTTAGG
1 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGG
* * * * *
99151910 GGGTTAAGACTCACTGTCTTTGATATGTTCCGCTACTGTTTAGGGGAGATCTGTATTTTCCAGCC
66 GGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC
*
99151975 TGTTACCCTACTGCTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGG
131 TGTTACCCTACTACTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGG
* * * * *
99152040 AGATCTGTATTTTCCAGCCTTTTACCCTACTGCTTAAGGGGTTAAGGTTCATTGTCTTTGATCTA
196 AGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTA
* * * * * *
99152105 CTCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTACCCTATTGCCTAGGGG
261 CTCCACTACTGTTTAGGG-G---AGATCTGT-A-TTTTTCAGCCTGTTACCCTACTGCTTAGGGG
*
99152170 GTTAAGGTTCACTGTCT
320 GTTAAGGCTCACTGTCT
* *
99152187 TTGATCTACTCCCCTACT
1 TCGATCTACTCCACTACT
99152205 TCTTAGGAAG
Statistics
Matches: 621, Mismatches: 64, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
334 5 0.01
335 240 0.39
336 134 0.22
338 5 0.01
339 80 0.13
340 1 0.00
341 57 0.09
342 47 0.08
343 27 0.04
345 1 0.00
346 24 0.04
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (336 bp):
TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGG
GGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC
TGTTACCCTACTACTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGG
AGATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCTTCGATCTA
CTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
GCTCACTGTCT
Found at i:99152384 original size:46 final size:45
Alignment explanation
Indices: 99152322--99152411 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 45
99152312 GGTGGCTAAA
* *
99152322 ATCTACTCCATAGCCGATAAATGGAGATAAAATCTCGTCATTTTCG
1 ATCTACTCCATAGCCGATAAATAGAGATAAAATCT-GTAATTTTCG
* * * *
99152368 ATCTGCTCCGTAGCCGATACATAGAGATAAGATCTGTAATTTTC
1 ATCTACTCCATAGCCGATAAATAGAGATAAAATCTGTAATTTTC
99152412 AGCCTGCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
45 8 0.21
46 30 0.79
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTACTCCATAGCCGATAAATAGAGATAAAATCTGTAATTTTCG
Found at i:99152455 original size:179 final size:177
Alignment explanation
Indices: 99152213--99152805 Score: 799
Period size: 178 Copynumber: 3.3 Consensus size: 177
99152203 CTTCTTAGGA
* * * * *
99152213 AGATAAGATCTGTAATTTTTAGCCTACTTTCTTGTTACCTTAGGAAGATAATACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* *
99152278 ACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATAAA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
*
99152343 TGGAGATAAAATCTCGTCATTTTCGATCTGCTCCGTAGCCGATACATAG
131 TGGAGATAAAA-CTCG-CATTTTCGATCTGCTCCATAGCCGATACATAG
* * * *
99152392 AGATAAGATCTGTAATTTTCAGCCTGCTTCCTTGCTACCTTAGGAAGATAAGATTTATATCTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * *
99152457 ACCTGCTCTCTTGATACCTCAGAGAGATAAGGCCGATGGCTAAAATCTGCTCCATAGCCGATATA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
* * * *
99152522 TGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACGTGG
131 TGGAGATAAAACTC-GCATTTTCGATCTGCTCCATAGCCGATACATAG
* * * * *
99152570 AGATAAGATCTATAATTTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTTGTATTTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
** * * * *
99152635 ACCTATTCTTTTGCTACCTAAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
* * * * *
99152700 TGGAAATAATACTCGAAGTTTTCGATCTGCTCCATAGCTGATACATTG
131 TGGAGATAAAACTCGCA-TTTTCGATCTGCTCCATAGCCGATACATAG
* * * *
99152748 AGATAAGATCTGTAATTTTTAGTCTACTTCTTTGCTACCTCAGGAAGATAAAACTTGT
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGT
99152806 GAATTCACCG
Statistics
Matches: 368, Mismatches: 44, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
177 1 0.00
178 239 0.65
179 128 0.35
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (177 bp):
AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
TGGAGATAAAACTCGCATTTTCGATCTGCTCCATAGCCGATACATAG
Found at i:99152485 original size:44 final size:45
Alignment explanation
Indices: 99152390--99152487 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 45
99152380 GCCGATACAT
* * * *
99152390 AGAGATAAGATCTGTAATTTTCAGCCTGCTTCCTTGCTACCTTAG
1 AGAGATAAGATCTGTAATCTTCAACCTGCTTCCTTGATACCTCAG
99152435 -GAAGATAAGAT-T-TATATCTTCAACCTGC-TCTCTTGATACCTCAG
1 AG-AGATAAGATCTGTA-ATCTTCAACCTGCTTC-CTTGATACCTCAG
99152479 AGAGATAAG
1 AGAGATAAG
99152488 GCCGATGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
43 4 0.09
44 31 0.69
45 10 0.22
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (45 bp):
AGAGATAAGATCTGTAATCTTCAACCTGCTTCCTTGATACCTCAG
Found at i:99152588 original size:45 final size:44
Alignment explanation
Indices: 99152501--99152597 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
99152491 GATGGCTAAA
* *
99152501 ATCTGCTCCATAGCCGATATATGGAGATAAGACTCACCATTTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTC
* *
99152545 GATCTGCTCCATAGCCGATACGTGGAGATAAGA-TCTATAATTTTC
1 -ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-ACAATTTTC
99152590 AGTCTGCT
1 A-TCTGCT
99152598 TCATTGCTAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 3 0.07
45 43 0.93
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTC
Found at i:99155955 original size:46 final size:46
Alignment explanation
Indices: 99155791--99155975 Score: 151
Period size: 47 Copynumber: 4.0 Consensus size: 46
99155781 AAATGTAATT
* *
99155791 TCCGTATAAGACCATAGCTGGGCTATGGC-TACA--GAGAAATGTGA
1 TCCGTATAAGACCATAGCTGGGCTATGGCAT-CAGTGTGATATGTGA
** ** * * * * * *
99155835 TTTGTGCAAGACCATATCCGGGATATGGCATCGGTGTGATATGCGC
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATATGTGA
* * *
99155881 TACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGA
1 T-CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATATGTGA
* * *
99155928 TCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGA
1 TCCGTATAAGACCATAGCTGGGCTATGGCATCAG--TGTGATATGTGA
99155976 CTATGTGCAA
Statistics
Matches: 110, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
44 23 0.21
45 1 0.01
46 35 0.32
47 39 0.35
48 12 0.11
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATATGTGA
Found at i:99157670 original size:18 final size:16
Alignment explanation
Indices: 99157640--99157675 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
99157630 CTTGTTTTTG
99157640 TTTTTGTTTTTTCTTT
1 TTTTTGTTTTTTCTTT
99157656 TTTTTGCTTTCTTTCTTT
1 TTTTTG-TTT-TTTCTTT
99157674 TT
1 TT
99157676 AGCTGCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTTTCTTT
Found at i:99160194 original size:186 final size:186
Alignment explanation
Indices: 99159875--99160251 Score: 612
Period size: 186 Copynumber: 2.0 Consensus size: 186
99159865 TTCCAACGCC
* *
99159875 TTGAATTTCTCCACCAACCATTTATATCGGTCTTCCAGTTGCTTGGAAAATTCCGCTCTTCCTTT
1 TTGATTTTCTCCACCAACCATTTATATCGGTCCTCCAGTTGCTTGGAAAATTCCGCTCTTCCTTT
* *
99159940 TTCTGCCTCCGCTACCTCATCGAAGTCAGGGACTGTAGGATTTACCCGATTGTCTTCGGGGTTAG
66 TTCTGCCTCCGCTACCTCATCAAAGTCAAGGACTGTAGGATTTACCCGATTGTCTTCGGGGTTAG
* * * *
99160005 AACACGAGCCTGTCGAGAAATTTATCGGTGTCGAAGTACCAGTCTGATGTTGGGGT
131 AACACGAGCCCGTCGAGAAATTTATCGGTGCCGAAGTACCAATCTGATGTTAGGGT
* *
99160061 TTGATTTTCTCCATCAACCATTTATATCGGTCCTCCAGTTGCTTGGAAAATTCCGCTCTTACTTT
1 TTGATTTTCTCCACCAACCATTTATATCGGTCCTCCAGTTGCTTGGAAAATTCCGCTCTT-CCTT
* * *
99160126 TTTTTGCCTTCGCTACCTCATCAAAGTCAAGGACTGTAGGATTTGCCCGATTGTCTTC-GGGTTA
65 TTTCTGCCTCCGCTACCTCATCAAAGTCAAGGACTGTAGGATTTACCCGATTGTCTTCGGGGTTA
*
99160190 GAACACGAGCCCGTCGGGAAATTTATCGGTGCCGAAGTACCAATCTGATGTTAGGGT
130 GAACACGAGCCCGTCGAGAAATTTATCGGTGCCGAAGTACCAATCTGATGTTAGGGT
99160247 TTGAT
1 TTGAT
99160252 ATTGACAGAC
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 120 0.68
187 56 0.32
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (186 bp):
TTGATTTTCTCCACCAACCATTTATATCGGTCCTCCAGTTGCTTGGAAAATTCCGCTCTTCCTTT
TTCTGCCTCCGCTACCTCATCAAAGTCAAGGACTGTAGGATTTACCCGATTGTCTTCGGGGTTAG
AACACGAGCCCGTCGAGAAATTTATCGGTGCCGAAGTACCAATCTGATGTTAGGGT
Found at i:99162786 original size:21 final size:23
Alignment explanation
Indices: 99162739--99162792 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
99162729 CATTCAAGAT
**
99162739 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
99162762 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
99162783 AAAAT-ATATA
1 AAAATAATATA
99162793 ATGTGTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:99163052 original size:29 final size:28
Alignment explanation
Indices: 99163008--99163116 Score: 66
Period size: 29 Copynumber: 3.8 Consensus size: 28
99162998 TAAAAATATA
*
99163008 ATAAATAGAAATATAACAATAGTAGAAAT
1 ATAAATAGAAACATAACAATAG-AGAAAT
* *
99163037 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAACAA-TAGAGAAAT
*
99163066 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAACAATAGAGAAAT
*
99163095 ATAAATAGAAACATAATAATAG
1 ATAAATAGAAACATAACAATAG
99163117 TAGCAATAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAACAATAGAGAAAT
Found at i:99163060 original size:15 final size:14
Alignment explanation
Indices: 99162987--99163116 Score: 63
Period size: 15 Copynumber: 9.0 Consensus size: 14
99162977 ATATTACTAT
*
99162987 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
99163000 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
99163016 A-AATATAACAATAG
1 ATAA-ATAAAAATAG
* *
99163030 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
99163045 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
99163060 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
99163074 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
99163089 ATAAATATAAATAG
1 ATAAATAAAAATAG
*
99163103 A-AACATAATAATAG
1 ATAA-ATAAAAATAG
99163117 TAGCAATAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:99163514 original size:5 final size:5
Alignment explanation
Indices: 99163506--99163537 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
99163496 ATAATTTAAT
99163506 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
99163538 ATCAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:99174317 original size:3 final size:3
Alignment explanation
Indices: 99174311--99174337 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99174301 CATCACCACG
99174311 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
99174338 AAGAATCATT
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:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:99178621 original size:18 final size:20
Alignment explanation
Indices: 99178594--99178630 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99178584 TTAAGCTTTT
99178594 AAAAGTTAAAACT-AAAAAA
1 AAAAGTTAAAACTGAAAAAA
99178613 AAAAG-TAAAACTGAAAAA
1 AAAAGTTAAAACTGAAAAA
99178631 GGGAAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (20 bp):
AAAAGTTAAAACTGAAAAAA
Found at i:99184318 original size:26 final size:26
Alignment explanation
Indices: 99184288--99184339 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
99184278 GTTAGAAAAA
*
99184288 AATATTAGAAACAGGGGACATACAAC
1 AATATTAGAAACAGGGGACACACAAC
*
99184314 AATATTAGAAATAGGGGACACACAAC
1 AATATTAGAAACAGGGGACACACAAC
99184340 CATGTCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (26 bp):
AATATTAGAAACAGGGGACACACAAC
Found at i:99185401 original size:71 final size:71
Alignment explanation
Indices: 99185222--99185585 Score: 311
Period size: 71 Copynumber: 5.1 Consensus size: 71
99185212 TAAAACTGAC
* * * * * * * * * * *
99185222 AAATAAGTGTTCCCAACACTAGTCGATATAACTGGCAATAAATGCGCCTTGTGTTGGTCGGTAGA
1 AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATGAGCCTTGCGCTGGTCGATAGA
*
99185287 A-CAAA
66 ATCGAA
* * * * * * **
99185292 AAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAAATGTGTTTTGCGCTGGTCGATAGA
1 AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATGAGCCTTGCGCTGGTCGATAGA
**
99185357 ATCGCC
66 ATCGAA
* * * *
99185363 AAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGCCTTGCGTTGGTC-AGTAG
1 AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATGAGCCTTGCGCTGGTCGA-TAG
* *
99185427 AATAGAT
65 AATCGAA
* * * *
99185434 AAATAAGTGTACCCAGCACTGGTTGGTATAATCGACAACAAATGCA-CCTTGCGCTGGTCGGTAG
1 AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATG-AGCCTTGCGCTGGTCGATAG
99185498 AATCGAA
65 AATCGAA
* * * * * ** *
99185505 AAATAAGTGTGCCCAGCACTAGTCGGTATAACTGACAATAAATGCGCCCTGTACTGGTCGGTAGA
1 AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATGAGCCTTGCGCTGGTCGATAGA
*
99185570 ACCGAA
66 ATCGAA
*
99185576 AAATTAGTGT
1 AAATAAGTGT
99185586 TCATTCATTT
Statistics
Matches: 234, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
70 52 0.22
71 181 0.77
72 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (71 bp):
AAATAAGTGTGCCCAGCACTGGTTGGTATAACCGACAATAAATGAGCCTTGCGCTGGTCGATAGA
ATCGAA
Found at i:99185531 original size:36 final size:35
Alignment explanation
Indices: 99185490--99185585 Score: 86
Period size: 35 Copynumber: 2.7 Consensus size: 35
99185480 CCTTGCGCTG
99185490 GTCGGTAGAATCGAAAAATAAGTGTGCCCAGCACTA
1 GTCGGTAGAA-CGAAAAATAAGTGTGCCCAGCACTA
* * * * * * *
99185526 GTCGGTATAACTG-ACAATAAATGCGCCCTGTACTG
1 GTCGGTAGAAC-GAAAAATAAGTGTGCCCAGCACTA
*
99185561 GTCGGTAGAACCGAAAAATTAGTGT
1 GTCGGTAGAA-CGAAAAATAAGTGT
99185586 TCATTCATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
35 27 0.60
36 18 0.40
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (35 bp):
GTCGGTAGAACGAAAAATAAGTGTGCCCAGCACTA
Found at i:99185585 original size:142 final size:141
Alignment explanation
Indices: 99185205--99185585 Score: 431
Period size: 142 Copynumber: 2.7 Consensus size: 141
99185195 TGCTTAGCAT
* * * *
99185205 TGGTCGGTA-AAACTGACAAATAAGTGTTCCCAACACTAGTCGATATAACTGGCAATAAATGCGC
1 TGGTCGGTAGAATC-GACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGC
* * * *
99185269 CTTGTGTTGGTCGGTAGAACAAAAAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAAA
65 CTTGTGTTGGTCGGTAGAACGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
****
99185334 TGTGTTTTGCGC
130 TGCACCTTGCGC
* * * * * * **
99185346 TGGTCGATAGAATCGCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGCC
1 TGGTCGGTAGAATCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
* * * * * * *
99185411 TTGCGTTGGTCAGTAGAATAGATAAATAAGTGTACCCAGCACTGGTTGGTATAATCGACAACAAA
66 TTGTGTTGGTCGGTAGAA-CGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
99185476 TGCACCTTGCGC
130 TGCACCTTGCGC
* *
99185488 TGGTCGGTAGAATCGAAAAATAAGTGTGCCCAGCACTAGTCGGTATAACTGACAATAAATGCGCC
1 TGGTCGGTAGAATCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
* ** *
99185553 CTGTACTGGTCGGTAGAACCGAAAAATTAGTGT
66 TTGTGTTGGTCGGTAGAA-CGAAAAATAAGTGT
99185586 TCATTCATTT
Statistics
Matches: 192, Mismatches: 46, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
141 65 0.34
142 127 0.66
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (141 bp):
TGGTCGGTAGAATCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
TTGTGTTGGTCGGTAGAACGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAAT
GCACCTTGCGC
Found at i:99192128 original size:71 final size:71
Alignment explanation
Indices: 99192053--99192200 Score: 163
Period size: 71 Copynumber: 2.1 Consensus size: 71
99192043 GGACTTCGAT
* ** * * * * *
99192053 CGATACCTTAAAGACTTCTACTGAAACAAGTCAAGTC-AGTAGCCAAAGTTCAACATCTCCTACT
1 CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAG-AGCCAAAGTTCAACATCCCCTACA
99192117 CTTCTAC
65 CTTCTAC
* * * *
99192124 CGATACCTTGAGGAATTCTACCAAAAAAAGTAAAGCCAAGCGCCAAAGTTCAGCATCCCCTACAC
1 CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAGAGCCAAAGTTCAACATCCCCTACAC
99192189 TTCTAC
66 TTCTAC
*
99192195 TGATAC
1 CGATAC
99192201 TCTGATGGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
71 61 0.97
72 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (71 bp):
CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAGAGCCAAAGTTCAACATCCCCTACAC
TTCTAC
Found at i:99194234 original size:26 final size:26
Alignment explanation
Indices: 99194198--99194307 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
99194188 TGATACAGAT
99194198 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99194224 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99194250 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
99194276 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
99194302 TGATAA
1 TGATAA
99194308 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:99195957 original size:27 final size:27
Alignment explanation
Indices: 99195927--99196039 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
99195917 GAGGAAGCGT
* *
99195927 TCTGATGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
99195954 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
99195981 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
99196009 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
99196035 TCTGG
1 TCTGG
99196040 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:99196032 original size:54 final size:54
Alignment explanation
Indices: 99195925--99196039 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
99195915 TGGAGGAAGC
* *
99195925 GTTCTGATGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
99195979 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
99196033 GTTCTGG
1 GTTCTGG
99196040 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:99196125 original size:19 final size:22
Alignment explanation
Indices: 99196101--99196140 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
99196091 CTCCCCACAC
99196101 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
99196120 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
99196141 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:99198174 original size:3 final size:3
Alignment explanation
Indices: 99198168--99198205 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
99198158 GATGTTTATT
99198168 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
99198206 TATTATTATT
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:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:99199048 original size:11 final size:11
Alignment explanation
Indices: 99199032--99199061 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
99199022 TGGGTGCACA
99199032 TTTTATTTTAT
1 TTTTATTTTAT
99199043 TTTTATTTTAT
1 TTTTATTTTAT
*
99199054 TTTGATTT
1 TTTTATTT
99199062 GTTTTAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:99200359 original size:4 final size:4
Alignment explanation
Indices: 99200350--99200425 Score: 143
Period size: 4 Copynumber: 19.0 Consensus size: 4
99200340 CATCTGATTG
99200350 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
99200398 AATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
99200426 TATATGCATA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:99202877 original size:57 final size:57
Alignment explanation
Indices: 99202746--99202877 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 57
99202736 CTTTCACACA
* * * * *
99202746 ATTCATCTCAATGTCATATTCGAACATCAATCTATAGGACTATACCAATTTCACATT
1 ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
* * * * ** ** *
99202803 ATTCCTTTCATTTTCATACTCTATTATCAATCTATAAGTTTATACAAAATTCATATT
1 ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
99202860 ATTCATTTCAATGTCATA
1 ATTCATTTCAATGTCATA
99202878 TGAAAAATCG
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.42
Consensus pattern (57 bp):
ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
Found at i:99203681 original size:42 final size:42
Alignment explanation
Indices: 99203632--99203727 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
99203622 ATGTCCTCAC
* ***
99203632 CCGTGTAACTCACTGAATAGGGTCACACGGCCGTGTTGC-AGG
1 CCGTGTAACTCACTAAATAGCCACACACGGCCGTG-TGCTAGG
* *
99203674 CCGTGTAACTCTCTAAATTGCCACACACGGCCGTGTGCTAGG
1 CCGTGTAACTCACTAAATAGCCACACACGGCCGTGTGCTAGG
*
99203716 CTGTGTAACTCA
1 CCGTGTAACTCA
99203728 TTGACTTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (42 bp):
CCGTGTAACTCACTAAATAGCCACACACGGCCGTGTGCTAGG
Found at i:99207378 original size:20 final size:19
Alignment explanation
Indices: 99207355--99207442 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
99207345 AAGTGCAAAT
*
99207355 AGGGGCACATATGTGCAATC
1 AGGGGCAC-TATGTACAATC
* * *
99207375 AGGGGTACTAAAGTACAACC
1 AGGGGCACT-ATGTACAATC
*
99207395 AGGGGCACGTATATACAATC
1 AGGGGCAC-TATGTACAATC
* * * *
99207415 AGGGGTATCCAAGTACAAAC
1 AGGGGCA-CTATGTACAATC
99207435 AGGGGCAC
1 AGGGGCAC
99207443 GTATATGCAA
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
19 2 0.04
20 47 0.92
21 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.16
Consensus pattern (19 bp):
AGGGGCACTATGTACAATC
Found at i:99207459 original size:80 final size:80
Alignment explanation
Indices: 99207329--99207486 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 80
99207319 GCATATATGC
* * * *
99207329 ACAATCAAGGGTACCAAAGTGCAAATAGGGGCACATATGTGCAATCAGGGGTACTAAAGTACAAC
1 ACAATCAAGGGTACCAAAGTACAAACAGGGGCACATATATGCAATCAGGGGTACTAAAGTACAAA
99207394 CAGGGGCACGTATAT
66 CAGGGGCACGTATAT
* * * * *
99207409 ACAATCAGGGGTATCC-AAGTACAAACAGGGGCACGTATATGCAATTAGGGGTATTGAAGTACAA
1 ACAATCAAGGGTA-CCAAAGTACAAACAGGGGCACATATATGCAATCAGGGGTACTAAAGTACAA
*
99207473 ACAGGGGCATGTAT
65 ACAGGGGCACGTAT
99207487 GTGCAATTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 65 0.97
81 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (80 bp):
ACAATCAAGGGTACCAAAGTACAAACAGGGGCACATATATGCAATCAGGGGTACTAAAGTACAAA
CAGGGGCACGTATAT
Found at i:99207492 original size:40 final size:40
Alignment explanation
Indices: 99207330--99207498 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
99207320 CATATATGCA
* ** * * * *
99207330 CAATCAAGGGTACCAAAGTGCAAATAGGGGCACATATGTG
1 CAATCAGGGGTATTAAAGTACAAACAGGGGCACGTATATG
* * *
99207370 CAATCAGGGGTACTAAAGTACAACCAGGGGCACGTATATA
1 CAATCAGGGGTATTAAAGTACAAACAGGGGCACGTATATG
**
99207410 CAATCAGGGGTATCCAAGTACAAACAGGGGCACGTATATG
1 CAATCAGGGGTATTAAAGTACAAACAGGGGCACGTATATG
* * * *
99207450 CAATTAGGGGTATTGAAGTACAAACAGGGGCATGTATGTG
1 CAATCAGGGGTATTAAAGTACAAACAGGGGCACGTATATG
99207490 CAATTCAGG
1 CAA-TCAGG
99207499 TATAATTAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 105 0.96
41 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (40 bp):
CAATCAGGGGTATTAAAGTACAAACAGGGGCACGTATATG
Found at i:99210309 original size:26 final size:26
Alignment explanation
Indices: 99210273--99210324 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
99210263 TGTGAAGTCA
99210273 AACCTAATCAAACCCTTAAACAATGG
1 AACCTAATCAAACCCTTAAACAATGG
*
99210299 AACCTAATCAAACCTTTAAACAATGG
1 AACCTAATCAAACCCTTAAACAATGG
99210325 CAAATCCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (26 bp):
AACCTAATCAAACCCTTAAACAATGG
Found at i:99212092 original size:23 final size:22
Alignment explanation
Indices: 99212017--99212093 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
99212007 CTTACTATTA
*
99212017 ATCCACTTCGGCAGTGTTCTGTC
1 ATCCGCTTCGG-AGTGTTCTGTC
* * *
99212040 ACCCGCTTCAGAGGTGTTTTGTC
1 ATCCGCTTCGGA-GTGTTCTGTC
*
99212063 ATCCGCTTCGGTAGTGTTCTGTT
1 ATCCGCTTCGG-AGTGTTCTGTC
*
99212086 ATTCGCTT
1 ATCCGCTT
99212094 TGGCGATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 1 0.02
23 41 0.95
24 1 0.02
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.39
Consensus pattern (22 bp):
ATCCGCTTCGGAGTGTTCTGTC
Found at i:99212766 original size:11 final size:11
Alignment explanation
Indices: 99212750--99212774 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99212740 TGATACCCAA
99212750 GATCAGGTATC
1 GATCAGGTATC
99212761 GATCAGGTATC
1 GATCAGGTATC
99212772 GAT
1 GAT
99212775 ACCTTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (11 bp):
GATCAGGTATC
Found at i:99213375 original size:36 final size:36
Alignment explanation
Indices: 99213328--99213399 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
99213318 TTTTTGAGAA
99213328 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
1 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
99213364 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
1 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
99213400 CAATTTCCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (36 bp):
AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
Found at i:99216193 original size:22 final size:22
Alignment explanation
Indices: 99216176--99216301 Score: 146
Period size: 22 Copynumber: 5.6 Consensus size: 22
99216166 CAGCTCGTAT
99216176 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
* * * *
99216198 GAGCCTACCGTTTCAGTTC-GTA
1 GAGCTTACTG-TTCAGCTCAATA
*
99216220 TTAGCTTACTGTTCAGCTCAATA
1 -GAGCTTACTGTTCAGCTCAATA
* * *
99216243 GAGTTTACCGTTTCAACTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
99216266 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
99216288 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
99216302 TCAGCTCAGG
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
22 49 0.58
23 35 0.42
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:99216226 original size:45 final size:45
Alignment explanation
Indices: 99216165--99216291 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 45
99216155 TACCGATATA
99216165 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
1 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
* * **
99216210 TCAGTTCGTATTAGCTTACTGTTCAGCTCAATAGAGTTTACCGTT
1 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
* *
99216255 TCAACTC-AATAGAGCTTACTGTTCAGCTCAATAGAGC
1 TCAGCTCGTAT-GAGCTTACTGTTCAGCTCAATAGAGC
99216292 TTACTGTTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.03
45 70 0.97
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (45 bp):
TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
Found at i:99225640 original size:18 final size:18
Alignment explanation
Indices: 99225585--99225642 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
99225575 TATATAAACT
99225585 ATTTTAAAAAATTATATT-A
1 ATTTTAAAAAA-TA-ATTAA
* **
99225604 ATTATAAAAATATTTTTAA
1 ATTTTAAAAA-ATAATTAA
99225623 ATTTTAAAAAATAATTAA
1 ATTTTAAAAAATAATTAA
99225641 AT
1 AT
99225643 GTTGGCATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 10 0.32
19 20 0.65
20 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTAAAAAATAATTAA
Found at i:99228763 original size:70 final size:71
Alignment explanation
Indices: 99228679--99228822 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 71
99228669 CGAAACGATG
99228679 TCGTAGCTAC-ATATATATATAATGTATTTGTTTTTTAATATTGTATGGTTAACAGTTCCACCTC
1 TCGTAGCTACAATATATATATAATGTATTTGTTTTTTAATATTGTATGGTTAACAGTTCCACCTC
99228743 AACCAT
66 AACCAT
99228749 TCGTAGCTACATATATATATATAATGTATTTGTTTTTTAATATTGTATGGTTAACAGTTCCACCT
1 TCGTAGCTACA-ATATATATATAATGTATTTGTTTTTTAATATTGTATGGTTAACAGTTCCACCT
99228814 CAACCAT
65 CAACCAT
99228821 TC
1 TC
99228823 ATGATATTCA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 10 0.14
72 62 0.86
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (71 bp):
TCGTAGCTACAATATATATATAATGTATTTGTTTTTTAATATTGTATGGTTAACAGTTCCACCTC
AACCAT
Found at i:99231061 original size:15 final size:14
Alignment explanation
Indices: 99231040--99231067 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99231030 TATAAAATAT
99231040 TTTAAAAAATAAAA
1 TTTAAAAAATAAAA
99231054 TTTAAAAAATAAAA
1 TTTAAAAAATAAAA
99231068 CAACTTAACT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TTTAAAAAATAAAA
Found at i:99231244 original size:16 final size:17
Alignment explanation
Indices: 99231220--99231258 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
99231210 TAAATATTCC
99231220 AAAATTTAT-AA-TTAT
1 AAAATTTATAAATTTAT
99231235 AAAATATTATAAATTTAT
1 AAAAT-TTATAAATTTAT
99231253 AAAATT
1 AAAATT
99231259 AACAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 3 0.14
18 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTTATAAATTTAT
Found at i:99231303 original size:7 final size:7
Alignment explanation
Indices: 99231288--99231329 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
99231278 TATTAATAAG
*
99231288 TAAATTA
1 TAAAATA
99231295 TAAAATA
1 TAAAATA
99231302 T-AAATA
1 TAAAATA
99231308 TAAAACTAA
1 TAAAA-T-A
99231317 TAAAATA
1 TAAAATA
99231324 TAAAAT
1 TAAAAT
99231330 TTGTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
6 6 0.19
7 17 0.55
8 2 0.06
9 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:99233913 original size:25 final size:25
Alignment explanation
Indices: 99233885--99233934 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
99233875 ATTGAAGATG
99233885 CCAATTTTCAAGTTTGAGAAAATTA
1 CCAATTTTCAAGTTTGAGAAAATTA
99233910 CCAATTTTCAAGTTTGAGAAAATTA
1 CCAATTTTCAAGTTTGAGAAAATTA
99233935 ACAGACTTCC
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:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
CCAATTTTCAAGTTTGAGAAAATTA
Found at i:99234461 original size:21 final size:20
Alignment explanation
Indices: 99234437--99234482 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
99234427 TCATTATTAT
* *
99234437 TAAATTTCCTTTTTGAGTTAA
1 TAAATTT-CTCTTTGACTTAA
99234458 TAAA-TTCTCTTTGACTTAA
1 TAAATTTCTCTTTGACTTAA
99234477 TAAATT
1 TAAATT
99234483 CTATTTGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 15 0.68
20 3 0.14
21 4 0.18
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (20 bp):
TAAATTTCTCTTTGACTTAA
Found at i:99234476 original size:19 final size:19
Alignment explanation
Indices: 99234448--99234490 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
99234438 AAATTTCCTT
* *
99234448 TTTGAGTTAATAAATTCTC
1 TTTGACTTAATAAATTCTA
99234467 TTTGACTTAATAAATTCTA
1 TTTGACTTAATAAATTCTA
99234486 TTTGA
1 TTTGA
99234491 GTTTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (19 bp):
TTTGACTTAATAAATTCTA
Found at i:99235136 original size:27 final size:26
Alignment explanation
Indices: 99235106--99235169 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
99235096 TATTTCCCAC
* *
99235106 AAAAAAGTTATCGAAAAAGTACAAAAAA
1 AAAAAA-TTATCGAAAAAATA-AAAAAT
*
99235134 AAAGAAAATA-CGAAAAAATAAAAAAT
1 AAA-AAATTATCGAAAAAATAAAAAAT
99235160 AAAAAATTAT
1 AAAAAATTAT
99235170 TATGTGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
25 5 0.17
26 8 0.27
27 9 0.30
28 5 0.17
29 3 0.10
ACGTcount: A:0.72, C:0.05, G:0.08, T:0.16
Consensus pattern (26 bp):
AAAAAATTATCGAAAAAATAAAAAAT
Found at i:99238318 original size:93 final size:93
Alignment explanation
Indices: 99238205--99238376 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
99238195 CGCCCATAAG
* *
99238205 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99238270 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
99238298 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99238363 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
99238377 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:99238373 original size:46 final size:46
Alignment explanation
Indices: 99238198--99238373 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
99238188 TGTAACCCGC
* * *
99238198 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
99238244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
99238294 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
99238337 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
99238374 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:99239728 original size:41 final size:41
Alignment explanation
Indices: 99239682--99239808 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 41
99239672 GCACGAAACT
* **
99239682 TGCTAGGCATAGAGCCTGATAC-AA-CACATGGGCACGGAGCC
1 TGCTAGGCACAGAGCCTGATACAAATCAC-T-GGCACAAAGCC
* * *
99239723 TGCTAGGCACAGAACCTGATATAAATCACTGTCACAAAGCC
1 TGCTAGGCACAGAGCCTGATACAAATCACTGGCACAAAGCC
* * **
99239764 TGCTAGGCACAGAGCCTGATATAAATCTCTGGCATGAAGCC
1 TGCTAGGCACAGAGCCTGATACAAATCACTGGCACAAAGCC
99239805 TGCT
1 TGCT
99239809 GGACTCAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 67 0.92
42 3 0.04
43 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.20
Consensus pattern (41 bp):
TGCTAGGCACAGAGCCTGATACAAATCACTGGCACAAAGCC
Found at i:99246601 original size:17 final size:18
Alignment explanation
Indices: 99246581--99246620 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
99246571 CTACTTCTTA
99246581 TTTAGGTTAATT-AGAGT
1 TTTAGGTTAATTCAGAGT
* *
99246598 TTTAGTTTACTTCAGAGT
1 TTTAGGTTAATTCAGAGT
99246616 TTTAG
1 TTTAG
99246621 AGTTTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (18 bp):
TTTAGGTTAATTCAGAGT
Found at i:99259731 original size:25 final size:25
Alignment explanation
Indices: 99259701--99259751 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
99259691 CATGAATTTG
*
99259701 GTCATGTTTTAGTATATATCATGAA
1 GTCATGTTCTAGTATATATCATGAA
99259726 GTCATGTTCTAGTATATATCATGAA
1 GTCATGTTCTAGTATATATCATGAA
99259751 G
1 G
99259752 CATAGGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (25 bp):
GTCATGTTCTAGTATATATCATGAA
Found at i:99262229 original size:19 final size:20
Alignment explanation
Indices: 99262191--99262231 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
99262181 ACATAATGAA
* *
99262191 ATATAATATATATTTTTATT
1 ATATAATATACATATTTATT
99262211 ATATAAT-TACATATTTATT
1 ATATAATATACATATTTATT
99262230 AT
1 AT
99262232 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATAATATACATATTTATT
Found at i:99271066 original size:18 final size:18
Alignment explanation
Indices: 99271040--99271085 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
99271030 AACCTTATTA
* *
99271040 TATTATATTTTTATGTTT
1 TATTTTATTTTAATGTTT
*
99271058 TATTTTATTATAATGTTT
1 TATTTTATTTTAATGTTT
*
99271076 TATTTAATTT
1 TATTTTATTT
99271086 AATAAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
TATTTTATTTTAATGTTT
Found at i:99271088 original size:17 final size:18
Alignment explanation
Indices: 99271052--99271088 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
99271042 TTATATTTTT
*
99271052 ATGTTTTATTTTATTATA
1 ATGTTTTATTTAATTATA
99271070 ATGTTTTATTTAATT-TA
1 ATGTTTTATTTAATTATA
99271087 AT
1 AT
99271089 AAAAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATGTTTTATTTAATTATA
Found at i:99281701 original size:4 final size:4
Alignment explanation
Indices: 99281686--99281720 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
99281676 TAGAAAGAAC
*
99281686 TAAT TAAC TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
99281721 GTAGACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:99285324 original size:6 final size:6
Alignment explanation
Indices: 99285313--99285337 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99285303 GCTATTCTAA
99285313 TCAAAT TCAAAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT TCAAAT T
99285338 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TCAAAT
Found at i:99287394 original size:21 final size:22
Alignment explanation
Indices: 99287368--99287414 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
99287358 CTCTGCTCAA
*
99287368 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
99287389 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
99287411 ACTC
1 ACTC
99287415 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:99293599 original size:20 final size:20
Alignment explanation
Indices: 99293436--99293592 Score: 206
Period size: 20 Copynumber: 7.8 Consensus size: 20
99293426 CAGTATATGA
* * *
99293436 CACAAAACCATGATTAGTGG
1 CACAAAGCCATCAATAGTGG
* * *
99293456 CACGAAGCCATCAACAGCGG
1 CACAAAGCCATCAATAGTGG
* *
99293476 CACAAAGCCATCAGTAGTAG
1 CACAAAGCCATCAATAGTGG
**
99293496 CACAAAGTTATCAATAGTGG
1 CACAAAGCCATCAATAGTGG
*
99293516 CACAAAGCCGTCAATAGTGG
1 CACAAAGCCATCAATAGTGG
*
99293536 CACAAAGCCATCAATAGCGG
1 CACAAAGCCATCAATAGTGG
99293556 CACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAATAGTGG
99293576 CACAAAGCCATCAATAG
1 CACAAAGCCATCAATAG
99293593 GTCCACAGTC
Statistics
Matches: 116, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 116 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
CACAAAGCCATCAATAGTGG
Found at i:99293644 original size:36 final size:36
Alignment explanation
Indices: 99293590--99293660 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
99293580 AAGCCATCAA
*
99293590 TAGGTCCACAGTCCTCTTGTGCAACCCGTGCAACCT
1 TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACCT
* * * * *
99293626 TAGGTCTATAGTCGTCTTGTACGACTCGTGCAACC
1 TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACC
99293661 ATATCAGTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (36 bp):
TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACCT
Found at i:99300726 original size:12 final size:12
Alignment explanation
Indices: 99300709--99300758 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
99300699 TATGTCTCAT
99300709 ACAGCCTACCAC
1 ACAGCCTACCAC
*
99300721 ACAGCCTAACAC
1 ACAGCCTACCAC
*
99300733 ACTGCCTACCAC
1 ACAGCCTACCAC
**
99300745 ATGGCCTACCAC
1 ACAGCCTACCAC
99300757 AC
1 AC
99300759 GGCTGTGTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.32, C:0.46, G:0.10, T:0.12
Consensus pattern (12 bp):
ACAGCCTACCAC
Found at i:99305783 original size:19 final size:19
Alignment explanation
Indices: 99305759--99305795 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
99305749 CTTGCAAAGT
99305759 ATACAGAAATTTCCTACTC
1 ATACAGAAATTTCCTACTC
99305778 ATACAGAAATTTCCTACT
1 ATACAGAAATTTCCTACT
99305796 TAGAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.32
Consensus pattern (19 bp):
ATACAGAAATTTCCTACTC
Found at i:99317598 original size:35 final size:35
Alignment explanation
Indices: 99317552--99317621 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
99317542 TTCAAAGCTA
99317552 ATATGGTTTATGCACATACCTATACCATCTTGTAC
1 ATATGGTTTATGCACATACCTATACCATCTTGTAC
*
99317587 ATATGGTTTATGCACATACCTATACCATTTTGTAC
1 ATATGGTTTATGCACATACCTATACCATCTTGTAC
99317622 CAACCCTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (35 bp):
ATATGGTTTATGCACATACCTATACCATCTTGTAC
Found at i:99319191 original size:58 final size:57
Alignment explanation
Indices: 99319072--99319268 Score: 247
Period size: 56 Copynumber: 3.5 Consensus size: 57
99319062 GAAGTATATG
* * * * **
99319072 TGGCATCGATATGTGACTCGGATATA-TATGTACGAGTAAGTCCTCGTTTAATATGT
1 TGGCATCGATATGTGACTCCGATATATTATGTGCGAGTAAGACCACGTTTAATACAT
* * *
99319128 CGGCATCGATATGTGACTACGATATATTTATGTGCGAGTAAGACCACGTTTACTACAT
1 TGGCATCGATATGTGACTCCGATATA-TTATGTGCGAGTAAGACCACGTTTAATACAT
* *
99319186 TGGCATTGATATGTGACTCCGATATATGTATGTG-G-GTAAGACCACGATTAATACAT
1 TGGCATCGATATGTGACTCCGATATAT-TATGTGCGAGTAAGACCACGTTTAATACAT
*
99319242 TGGCATCGATATATGACTCCGATATAT
1 TGGCATCGATATGTGACTCCGATATAT
99319269 GTGTACAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
56 67 0.55
57 2 0.02
58 53 0.43
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (57 bp):
TGGCATCGATATGTGACTCCGATATATTATGTGCGAGTAAGACCACGTTTAATACAT
Found at i:99334456 original size:56 final size:56
Alignment explanation
Indices: 99334389--99334656 Score: 340
Period size: 58 Copynumber: 4.7 Consensus size: 56
99334379 GAAGTATATG
*
99334389 TGGCATCGATATGTGACTCCGATATATATGTACGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
* *
99334445 TGGCATCGATATATGACTCCGATCTACATATGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGA--TATATATGTGCGAGTAAGTCCACGTTTAATACGT
* * *
99334503 TGGCATCGATATGTGACTCTGATATATATGTGTGCGAGTAAGACCACATTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATA--TGTGCGAGTAAGTCCACGTTTAATACGT
* * * *
99334561 TGGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGAT-CACGTTTAATACAT
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAG-TCCACGTTTAATACGT
* * * * * *
99334617 TGGCATCTATATATGCCTCTGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAG
99334657 ACCCTATCTA
Statistics
Matches: 186, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
56 84 0.45
58 102 0.55
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:99334593 original size:114 final size:116
Alignment explanation
Indices: 99334389--99334659 Score: 367
Period size: 114 Copynumber: 2.4 Consensus size: 116
99334379 GAAGTATATG
* * *
99334389 TGGCATCGATATGTGACTCCGATATATA--TGTACGAGTAAGTCCACGTTTAATACGTTGGCATC
1 TGGCATCGATATGTGACTCTGATATATATGTGTACGAGTAAGACCACATTTAATACGTTGGCATC
* * *
99334452 GATATATGACTCCGATCTACATATGTGCGAGTAAG-TCCACGTTTAATACGT
66 AATATATGACTCCGATATACATATGTGCGAGTAAGAT-CACGTTTAATACAT
*
99334503 TGGCATCGATATGTGACTCTGATATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATC
1 TGGCATCGATATGTGACTCTGATATATATGTGTACGAGTAAGACCACATTTAATACGTTGGCATC
* * *
99334568 AATATGTGACTCC-A-ATATATGTGTGCGAGTAAGATCACGTTTAATACAT
66 AATATATGACTCCGATATACATATGTGCGAGTAAGATCACGTTTAATACAT
* * *
99334617 TGGCATCTATATATGCCTCTG--ATATATGTGTACGAGTAAGACC
1 TGGCATCGATATGTGACTCTGATATATATGTGTACGAGTAAGACC
99334660 CTATCTAGGG
Statistics
Matches: 140, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
112 21 0.15
114 74 0.53
115 2 0.01
116 43 0.31
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (116 bp):
TGGCATCGATATGTGACTCTGATATATATGTGTACGAGTAAGACCACATTTAATACGTTGGCATC
AATATATGACTCCGATATACATATGTGCGAGTAAGATCACGTTTAATACAT
Found at i:99338405 original size:26 final size:26
Alignment explanation
Indices: 99338376--99338431 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
99338366 TGATAAAAAT
* *
99338376 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAAAGTTCCA
99338402 TGATAATAGGTTAGGTAAAAGTTCCA
1 TGATAATAGGTTAGGTAAAAGTTCCA
99338428 TGAT
1 TGAT
99338432 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAAAGTTCCA
Found at i:99344848 original size:27 final size:27
Alignment explanation
Indices: 99344805--99344916 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
99344795 AGGAAGCGTC
* *
99344805 CTGGTGGCTATGTCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
99344832 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
99344859 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
99344887 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
99344913 CTGG
1 CTGG
99344917 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.73
28 14 0.20
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:99346578 original size:5 final size:5
Alignment explanation
Indices: 99346568--99346596 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
99346558 TAATAATAAT
99346568 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
99346597 GCAAGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:99350388 original size:26 final size:26
Alignment explanation
Indices: 99350342--99350464 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
99350332 CCTCTTTAAT
*
99350342 AACTGGGGCA-AAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
99350367 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
99350393 AACTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
99350419 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
99350445 AACTGGGGCAT-AGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
99350465 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 19 0.21
26 71 0.79
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:99350540 original size:20 final size:20
Alignment explanation
Indices: 99350517--99350569 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
99350507 TGAATACATC
99350517 TGTGCATATCATA-CATATCA
1 TGTGCATATCATATCA-ATCA
99350537 TGTGCATATCATATCAATCA
1 TGTGCATATCATATCAATCA
99350557 TGT--ATATCATATC
1 TGTGCATATCATATC
99350570 CCACGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (20 bp):
TGTGCATATCATATCAATCA
Found at i:99350551 original size:5 final size:5
Alignment explanation
Indices: 99350521--99350569 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
99350511 TACATCTGTG
* *
99350521 CATAT CATA- CATAT CATGT GCATAT CATAT CA-AT CATGT -ATAT CATAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CATAT
99350569 C
1 C
99350570 CCACGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:99354052 original size:43 final size:42
Alignment explanation
Indices: 99354005--99354106 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
99353995 TGAGATTAAT
* *
99354005 TGTAAGACCATGTCTGGCACATTGGCAT-TGTATTGTGATTACG
1 TGTAAGACCATGTCTGGCACATTGGCATAT-TAAT-CGATTACG
*
99354048 TGTAAGACCATGTCTGGGACATTGGCATCATTAATCGATTACG
1 TGTAAGACCATGTCTGGCACATTGGCAT-ATTAATCGATTACG
*
99354091 TGTAAGACCCTGTCTG
1 TGTAAGACCATGTCTG
99354107 AGACAGTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
43 49 0.92
44 3 0.06
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGCACATTGGCATATTAATCGATTACG
Found at i:99356263 original size:11 final size:11
Alignment explanation
Indices: 99356227--99356282 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
99356217 CATGGTATGT
99356227 ATGATATGCAC
1 ATGATATGCAC
* *
99356238 ATGACATG--T
1 ATGATATGCAC
99356247 ATGATATGCAC
1 ATGATATGCAC
*
99356258 ATGATATG--T
1 ATGATATGCAC
99356267 ATGATATGCAC
1 ATGATATGCAC
99356278 ATGAT
1 ATGAT
99356283 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99356282 original size:20 final size:20
Alignment explanation
Indices: 99356216--99356282 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
99356206 ATTTTGATAA
*
99356216 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99356236 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
99356256 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99356276 ACATGAT
1 ACATGAT
99356283 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:99356397 original size:23 final size:24
Alignment explanation
Indices: 99356331--99356450 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 24
99356321 GGAGGAAGTG
*
99356331 TAAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
99356355 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
99356380 TAAAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
99356403 TAAAAGGGCTT-TTCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
99356426 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
99356451 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.01
23 36 0.42
24 18 0.21
25 30 0.35
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:99356678 original size:30 final size:31
Alignment explanation
Indices: 99356644--99356707 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
99356634 CGTTTACAGT
99356644 AAAA-GCTTCGGCCCAATAATATGAAATATG
1 AAAAGGCTTCGGCCCAATAATATGAAATATG
* ** *
99356674 AAAAGGCTTCGGCCCAGTGTTATGAAATGTG
1 AAAAGGCTTCGGCCCAATAATATGAAATATG
99356705 AAA
1 AAA
99356708 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAATAATATGAAATATG
Found at i:99364145 original size:24 final size:25
Alignment explanation
Indices: 99364100--99364147 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
99364090 CCTTATAATA
* *
99364100 TAAAAATGACCATTTTGCCCCTAGG
1 TAAAAATGACCATTATGACCCTAGG
*
99364125 TAAAAATGACTATTAT-ACCCTAG
1 TAAAAATGACCATTATGACCCTAG
99364148 AGTTTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (25 bp):
TAAAAATGACCATTATGACCCTAGG
Found at i:99364232 original size:11 final size:11
Alignment explanation
Indices: 99364196--99364251 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
99364186 CATGGTATGT
99364196 ATGATATGCAC
1 ATGATATGCAC
* *
99364207 ATGACATG--T
1 ATGATATGCAC
99364216 ATGATATGCAC
1 ATGATATGCAC
*
99364227 ATGATATG--T
1 ATGATATGCAC
99364236 ATGATATGCAC
1 ATGATATGCAC
99364247 ATGAT
1 ATGAT
99364252 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99364251 original size:20 final size:20
Alignment explanation
Indices: 99364185--99364251 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
99364175 ATTTTGATAA
*
99364185 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99364205 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
99364225 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99364245 ACATGAT
1 ACATGAT
99364252 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:99364369 original size:23 final size:24
Alignment explanation
Indices: 99364300--99364419 Score: 147
Period size: 23 Copynumber: 5.0 Consensus size: 24
99364290 GGAGGAAGTG
* *
99364300 TAAAAGGGTTTATGCCGCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
99364324 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
99364349 TAAAAGGGCTTATG-CCGAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
99364372 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
99364395 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
99364420 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
22 2 0.02
23 34 0.40
24 19 0.23
25 29 0.35
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:99364398 original size:46 final size:49
Alignment explanation
Indices: 99364300--99364405 Score: 164
Period size: 46 Copynumber: 2.2 Consensus size: 49
99364290 GGAGGAAGTG
*
99364300 TAAAAGGGTTTATGCCGCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCGCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
*
99364349 TAAAAGGGCTTATGCCG-AGTTATTA-AAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCGCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
99364395 TAAAAGAGGCT
1 TAAAAG-GGCT
99364406 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
46 18 0.33
47 13 0.24
48 7 0.13
49 16 0.30
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCGCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
Found at i:99364651 original size:31 final size:31
Alignment explanation
Indices: 99364613--99364676 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
99364603 CGTTTACAGT
*
99364613 AAAGGCTTTAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
99364644 AAAGGCTTCGGCCCAGTGTTATGAAATCTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
99364675 AA
1 AA
99364677 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:99368058 original size:43 final size:43
Alignment explanation
Indices: 99367930--99368089 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 43
99367920 ATATGTGTTA
*
99367930 TCATGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TTGTGATT
1 TCATGTAAGACCATGTCTGGGATAG-TGGCATCGATATT-TGATT
* * *
99367973 TACGTGTAAGACCATGTCTGGGATATTGGCATC-ATATATGATT
1 T-CATGTAAGACCATGTCTGGGATAGTGGCATCGATATTTGATT
* *
99368016 TCATGTAAGACCCTGTTTGGGATAGTGGCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGATAGTGGCATCGATATTTGATT
* *
99368059 AT-ATGTAAGACCATGTCTGGGACATTGGCAT
1 -TCATGTAAGACCATGTCTGGGATAGTGGCAT
99368090 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 27 0.27
43 43 0.43
44 29 0.29
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGATAGTGGCATCGATATTTGATT
Found at i:99373194 original size:66 final size:66
Alignment explanation
Indices: 99373083--99373210 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
99373073 TGCTCAACTT
* * * * *
99373083 AAAGTGGAGGCAGCATCAAGAGAAGCAAAGGCTCAAAGAAAATATGATGAACTCCAGCTACAATT
1 AAAGCGGAGGCAGCAGCAAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAACTACAATT
99373148 G
66 G
* * *
99373149 AAAGCGGAGGCAGCAGCGAGGGAAGCAGAGGCA-ACAAGAAAATATGACGAACTCCAACTACA
1 AAAGCGGAGGCAGCAGCAAGAGAAGCAAAGGCACA-AAGAAAATATGACGAACTCCAACTACA
99373211 GCTTTAAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.44, C:0.19, G:0.27, T:0.11
Consensus pattern (66 bp):
AAAGCGGAGGCAGCAGCAAGAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAACTACAATT
G
Found at i:99375528 original size:40 final size:40
Alignment explanation
Indices: 99375391--99375526 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
99375381 GACAAATCGA
* *
99375391 CTATTTATGGCACTCAATGTGCGATTCGACATAGCTTCGG
1 CTATATATGGCACTTAATGTGCGATTCGACATAGCTTCGG
*
99375431 CTATATATGGCACTTAATGTGCGATTCAACATAGCTTCGG
1 CTATATATGGCACTTAATGTGCGATTCGACATAGCTTCGG
* * * *
99375471 CTATATATGGCACTTAGTGTGCGATTTGAGATAGTTTCGG
1 CTATATATGGCACTTAATGTGCGATTCGACATAGCTTCGG
* *
99375511 CTATGTACGGCACTTA
1 CTATATATGGCACTTA
99375527 GTATGCGAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (40 bp):
CTATATATGGCACTTAATGTGCGATTCGACATAGCTTCGG
Found at i:99387520 original size:48 final size:48
Alignment explanation
Indices: 99387438--99387531 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
99387428 TTTCTTGGCT
* *
99387438 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
99387486 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
99387532 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:99390028 original size:48 final size:48
Alignment explanation
Indices: 99389946--99390039 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
99389936 TTTCTTGGCT
* *
99389946 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
99389994 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
99390040 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:99405698 original size:6 final size:6
Alignment explanation
Indices: 99405687--99405711 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99405677 AAACAAGTGT
99405687 ATGATA ATGATA ATGATA ATGATA A
1 ATGATA ATGATA ATGATA ATGATA A
99405712 ACAGATTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATGATA
Found at i:99410571 original size:13 final size:14
Alignment explanation
Indices: 99410539--99410569 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99410529 TTAATGTCTC
99410539 AAAATTAAAGTTTA
1 AAAATTAAAGTTTA
*
99410553 AAAATTAAATTTTA
1 AAAATTAAAGTTTA
99410567 AAA
1 AAA
99410570 TTTGAGGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AAAATTAAAGTTTA
Found at i:99411525 original size:19 final size:19
Alignment explanation
Indices: 99411501--99411566 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 19
99411491 TCATATGAAC
99411501 AAATAATTTAAAATTTATA
1 AAATAATTTAAAATTTATA
** *
99411520 AAATAAAATAAAATATA-A
1 AAATAATTTAAAATTTATA
*
99411538 AAAT-A-TAAAAATTTCAT-
1 AAATAATTTAAAATTT-ATA
99411555 AAA-AATTTAAAA
1 AAATAATTTAAAA
99411567 AGGAATAGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
16 6 0.17
17 6 0.17
18 10 0.28
19 14 0.39
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAATTTAAAATTTATA
Found at i:99418649 original size:5 final size:5
Alignment explanation
Indices: 99418587--99418662 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
99418577 AAGAATAAAT
* * *
99418587 AAAAG -AAAG AAAA- ACAAG AAAAAG AAACAC AAAAG AAATG AAATAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAA-AG
99418633 -AAAG AAAGAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AA-AAG AAAAG AAAAG AAAAG AAAA
99418663 AGGAGAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.16
5 33 0.58
6 12 0.21
7 3 0.05
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:99418658 original size:22 final size:22
Alignment explanation
Indices: 99418587--99418661 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
99418577 AAGAATAAAT
*
99418587 AAAAGAAAGAAAAACAAGAAAAAG
1 AAAAGAAAGAAGAA-AAG-AAAAG
* *
99418611 AAACA-CAA-AAGAAATGAAATAG
1 AAA-AGAAAGAAGAAAAGAAA-AG
99418633 -AAAGAAAGAAGAAAAGAAAAG
1 AAAAGAAAGAAGAAAAGAAAAG
99418654 AAAAGAAA
1 AAAAGAAA
99418662 AAGGAGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
20 1 0.02
21 9 0.22
22 21 0.51
23 4 0.10
24 5 0.12
25 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (22 bp):
AAAAGAAAGAAGAAAAGAAAAG
Found at i:99419883 original size:96 final size:96
Alignment explanation
Indices: 99419769--99419971 Score: 372
Period size: 96 Copynumber: 2.1 Consensus size: 96
99419759 ATGAGAAAGT
*
99419769 GATA-TTATAAGATGAAATGAGAAATATAATTTGAGCTATGAGATTGAAGGCATAAAACCTAGGC
1 GATATTTATATGATGAAATGAGAAATATAATTTGAGCTATGAGATTGAAGGCATAAAACCTAGGC
99419833 TAATGAATTATTCATATTTGAATGTGAATTG
66 TAATGAATTATTCATATTTGAATGTGAATTG
*
99419864 GATATTTATATGATGAAATGAGAAATATAATTTGAGCTATGAGATTGAAGGTATAAAACCTAGGC
1 GATATTTATATGATGAAATGAGAAATATAATTTGAGCTATGAGATTGAAGGCATAAAACCTAGGC
99419929 TAATGAATTATTCATATTTGAATGTGAATTG
66 TAATGAATTATTCATATTTGAATGTGAATTG
*
99419960 GGTATTTATATG
1 GATATTTATATG
99419972 TGATTGAGAG
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 4 0.04
96 100 0.96
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.35
Consensus pattern (96 bp):
GATATTTATATGATGAAATGAGAAATATAATTTGAGCTATGAGATTGAAGGCATAAAACCTAGGC
TAATGAATTATTCATATTTGAATGTGAATTG
Found at i:99423079 original size:14 final size:13
Alignment explanation
Indices: 99423054--99423086 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
99423044 CATACAAATT
99423054 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
99423067 AGAAAGAAAAAGAA
1 AGAAAG-AAAAGAA
99423081 AGAAAG
1 AGAAAG
99423087 GGAGAAAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:99425665 original size:13 final size:13
Alignment explanation
Indices: 99425649--99425695 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
99425639 TCAAAAACTA
*
99425649 TTTTTAAAAATTG
1 TTTTAAAAAATTG
99425662 TTTTAAAAAATTG
1 TTTTAAAAAATTG
*
99425675 TTTTAAAAAAATG
1 TTTTAAAAAATTG
*
99425688 TTTCAAAA
1 TTTTAAAA
99425696 CTTTTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTAAAAAATTG
Found at i:99426657 original size:29 final size:27
Alignment explanation
Indices: 99426599--99426671 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 27
99426589 AAGACGGTTT
*
99426599 TTAAA-TTTAAAAATTATAATTATCTC
1 TTAAATTTTAAAAATTATAATTATCTA
*
99426625 TTAAATTTTAAAATAGTTATTATTATCTA
1 TTAAATTTTAAAA-A-TTATAATTATCTA
* *
99426654 TTAATTTTTAATAATTAT
1 TTAAATTTTAAAAATTAT
99426672 TATAATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 11 0.28
28 2 0.05
29 22 0.55
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (27 bp):
TTAAATTTTAAAAATTATAATTATCTA
Found at i:99426738 original size:36 final size:36
Alignment explanation
Indices: 99426660--99426738 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
99426650 TCTATTAATT
* *
99426660 TTTAATAATTATTATAATAATAAATTTCATGTAAAA
1 TTTAATAATTATTATAATAAGAAATTTCATATAAAA
** * *
99426696 GATAATAA-TATTTTAATAAGAAATTTCCTATCAAAA
1 TTTAATAATTATTATAATAAGAAATTTCATAT-AAAA
99426732 TTTAATA
1 TTTAATA
99426739 GGAAAATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (36 bp):
TTTAATAATTATTATAATAAGAAATTTCATATAAAA
Found at i:99431481 original size:60 final size:60
Alignment explanation
Indices: 99431383--99431502 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
99431373 ACAATAGACC
*
99431383 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGTTTGGAGAGCTTATCAACCTCGAATTT
1 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
99431443 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
1 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
99431503 TATATAGGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (60 bp):
ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
Found at i:99432730 original size:27 final size:27
Alignment explanation
Indices: 99432699--99432757 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
99432689 GAAAGGATAG
99432699 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAGTTATAAAATATTTT
99432726 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAGTTATAAAATATTTT
99432753 TTTAA
1 TTTAA
99432758 GTTATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (27 bp):
TTTAATTAGAAAGTTATAAAATATTTT
Found at i:99432772 original size:27 final size:27
Alignment explanation
Indices: 99432699--99432772 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
99432689 GAAAGGATAG
**
99432699 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAAATATAAAATATTTT
**
99432726 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAAATATAAAATATTTT
*
99432753 TTTAAGTTATAAAAAT-TAAA
1 TTTAA-TTAGAAAAATATAAA
99432773 TGGCATGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 36 0.84
28 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
TTTAATTAGAAAAATATAAAATATTTT
Found at i:99441830 original size:25 final size:25
Alignment explanation
Indices: 99441796--99441844 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
99441786 TTTGTTTCAA
* *
99441796 ACTGAAACTATTATAGGTAGTAAAT
1 ACTGAAACTACTATAGGTAATAAAT
* *
99441821 ACTGAGACTACTGTAGGTAATAAA
1 ACTGAAACTACTATAGGTAATAAA
99441845 CTATATTGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (25 bp):
ACTGAAACTACTATAGGTAATAAAT
Found at i:99449592 original size:23 final size:23
Alignment explanation
Indices: 99449565--99449609 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
99449555 AAACTTAAAT
*
99449565 TTAAAATCTAAAAAATAAAAAAA
1 TTAAAATCTAAAAAACAAAAAAA
* *
99449588 TTAAATTCTTAAAAACAAAAAA
1 TTAAAATCTAAAAAACAAAAAA
99449610 TATAAGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
TTAAAATCTAAAAAACAAAAAAA
Found at i:99449610 original size:30 final size:31
Alignment explanation
Indices: 99449565--99449625 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
99449555 AAACTTAAAT
*
99449565 TTAAAATCTAAAAAATAAAAAAATTAAATTC
1 TTAAAAACTAAAAAATAAAAAAATTAAATTC
* *
99449596 TTAAAAAC-AAAAAATATAAGAATTAAATTC
1 TTAAAAACTAAAAAATAAAAAAATTAAATTC
99449626 CAAAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (31 bp):
TTAAAAACTAAAAAATAAAAAAATTAAATTC
Found at i:99450138 original size:4 final size:4
Alignment explanation
Indices: 99450129--99450155 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
99450119 CAACTCAGGA
99450129 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
99450156 ACGACGAAGA
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:99459905 original size:32 final size:32
Alignment explanation
Indices: 99459868--99459931 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
99459858 CAAAATTAAA
99459868 TTATATGAACTATTCGAGAGGAACTAAAATTC
1 TTATATGAACTATTCGAGAGGAACTAAAATTC
99459900 TTATATGAACTATTCGAGAGGAACTAAAATTC
1 TTATATGAACTATTCGAGAGGAACTAAAATTC
99459932 CTCTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
TTATATGAACTATTCGAGAGGAACTAAAATTC
Found at i:99466640 original size:45 final size:43
Alignment explanation
Indices: 99466576--99466660 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 43
99466566 ATACGTAAGC
*
99466576 ATTTATATCCAAGCTCTTTTCTTTTACATTGGGGTTGTTGATAGT
1 ATTTATATCCAAGCTCTTTT-TTTT-CATTGGGATTGTTGATAGT
*
99466621 ATTTATATCGAAGCTCTTTTTTTTCATTGGGATTGTTGAT
1 ATTTATATCCAAGCTCTTTTTTTTCATTGGGATTGTTGAT
99466661 TGCATGAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 15 0.39
44 4 0.11
45 19 0.50
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.51
Consensus pattern (43 bp):
ATTTATATCCAAGCTCTTTTTTTTCATTGGGATTGTTGATAGT
Found at i:99467503 original size:16 final size:16
Alignment explanation
Indices: 99467478--99467534 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
99467468 CTATTGTCAA
*
99467478 TTTGGGTTTATGATTT
1 TTTGGATTTATGATTT
* **
99467494 TTTGGATTTAGGGAGAT
1 TTTGGATTTA-TGATTT
*
99467511 TTAGG-TTTATGATTT
1 TTTGGATTTATGATTT
99467526 TTTGGATTT
1 TTTGGATTT
99467535 TTTTGTTGAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (16 bp):
TTTGGATTTATGATTT
Found at i:99469761 original size:46 final size:46
Alignment explanation
Indices: 99469694--99469915 Score: 220
Period size: 46 Copynumber: 4.8 Consensus size: 46
99469684 TGTAACCCGC
* * * * *
99469694 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
99469740 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* * * * *
99469790 -C-TCA-CGAACTTGGATTCAACTCAACGAG-TCCGAACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-CGGACATTCACAT
* * *
99469833 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
99469879 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
99469916 TGCTCAACCA
Statistics
Matches: 148, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 2 0.01
45 2 0.01
46 103 0.70
47 25 0.17
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:99471982 original size:47 final size:46
Alignment explanation
Indices: 99471914--99472005 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 46
99471904 ATTCATTTCC
*
99471914 AAATGATTCCATTTCTCCATTTC-AGAGAAAACAATAATAATTCCTA
1 AAATGATTCCATTTCTACATTTCGA-AGAAAACAATAATAATTCCTA
* * * * *
99471960 AAATGTTTCCCATTTTTACATTTCGAAGGAAACAATAGTCATTCCT
1 AAATGATT-CCATTTCTACATTTCGAAGAAAACAATAATAATTCCT
99472006 GAATATTCCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 7 0.18
47 30 0.79
48 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (46 bp):
AAATGATTCCATTTCTACATTTCGAAGAAAACAATAATAATTCCTA
Found at i:99474767 original size:20 final size:20
Alignment explanation
Indices: 99474716--99474769 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
99474706 CTTTATTCTA
* * * *
99474716 CCATCACATGCCAGTGTTTC
1 CCATCACATGCTAATGGTGC
*
99474736 CCATCACTTGCTAATGGTGC
1 CCATCACATGCTAATGGTGC
99474756 CCATCACATGCTAA
1 CCATCACATGCTAA
99474770 CTTTCCTCTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (20 bp):
CCATCACATGCTAATGGTGC
Found at i:99476426 original size:19 final size:20
Alignment explanation
Indices: 99476398--99476438 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
99476388 GATCATGTCA
99476398 ATGCACA-TTTCATAAAACG
1 ATGCACATTTTCATAAAACG
* *
99476417 ATGCAGATTTTTATAAAACG
1 ATGCACATTTTCATAAAACG
99476437 AT
1 AT
99476439 CTTACCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGCACATTTTCATAAAACG
Found at i:99476640 original size:47 final size:47
Alignment explanation
Indices: 99476528--99476632 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
99476518 TCACAGTAAT
*
99476528 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCTACCAAAATC
1 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
* * *
99476575 GTAGATATACTGTCAATAATCAAAATTGTGGAGAAGCCACCAAAATC
1 GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
99476622 GCAGATAAACT
1 GCAGATAAACT
99476633 ACCAATAACT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (47 bp):
GCAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATC
Found at i:99481946 original size:18 final size:18
Alignment explanation
Indices: 99481919--99481964 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
99481909 ACGGGTCGTA
*
99481919 TGGG-CCACACAAGTGTT
1 TGGGCCCACACAAGTGTG
*
99481936 TGGGCCCACACAGGTGTG
1 TGGGCCCACACAAGTGTG
99481954 TGGGCCCACAC
1 TGGGCCCACAC
99481965 GGGTGAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (18 bp):
TGGGCCCACACAAGTGTG
Found at i:99481969 original size:18 final size:18
Alignment explanation
Indices: 99481916--99481969 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
99481906 CAAACGGGTC
*
99481916 GTATGGG-CCACACAAGT
1 GTATGGGCCCACACAGGT
*
99481933 GTTTGGGCCCACACAGGT
1 GTATGGGCCCACACAGGT
* *
99481951 GTGTGGGCCCACACGGGT
1 GTATGGGCCCACACAGGT
99481969 G
1 G
99481970 AATCACACGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.19, C:0.26, G:0.37, T:0.19
Consensus pattern (18 bp):
GTATGGGCCCACACAGGT
Found at i:99482615 original size:21 final size:20
Alignment explanation
Indices: 99482579--99482620 Score: 50
Period size: 19 Copynumber: 2.0 Consensus size: 20
99482569 TAAATGAAAT
99482579 AAAAGAAATAAAGAAA-AGA
1 AAAAGAAATAAAGAAACAGA
*
99482598 AAAAGAGAATGAAGGAAACAGA
1 AAAAGA-AAT-AAAGAAACAGA
99482620 A
1 A
99482621 TGTTTAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.32
20 3 0.16
21 6 0.32
22 4 0.21
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (20 bp):
AAAAGAAATAAAGAAACAGA
Found at i:99493306 original size:21 final size:17
Alignment explanation
Indices: 99493261--99493304 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
99493251 TTTCCTTTTA
99493261 TTCCTTTCTTCATTCTT
1 TTCCTTTCTTCATTCTT
99493278 TTCCTTTCTTCATTCTT
1 TTCCTTTCTTCATTCTT
99493295 TTCCTTTCTT
1 TTCCTTTCTT
99493305 TCATGTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCCTTTCTTCATTCTT
Found at i:99495941 original size:35 final size:35
Alignment explanation
Indices: 99495858--99495948 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
99495848 AAAAATGCAT
99495858 AATAAAAAAAGTAAAATAAAAGATATAAATCCAGAA
1 AATAAAAAAA-TAAAATAAAAGATATAAATCCAGAA
** * * **
99495894 AATAAACTAAT-AAATATATATATATAAATTTAGAA
1 AATAAAAAAATAAAATA-AAAGATATAAATCCAGAA
99495929 AATAAAAAAATAAAATAAAA
1 AATAAAAAAATAAAATAAAA
99495949 ATAGGGATTG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
34 5 0.11
35 26 0.59
36 13 0.30
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.23
Consensus pattern (35 bp):
AATAAAAAAATAAAATAAAAGATATAAATCCAGAA
Found at i:99499182 original size:14 final size:15
Alignment explanation
Indices: 99499167--99499203 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
99499157 TAACAATTAA
99499167 ATTAGAAATAAAAAAT
1 ATTA-AAATAAAAAAT
99499183 ATTAAAAT-AAAAAT
1 ATTAAAATAAAAAAT
99499197 A-TAAAAT
1 ATTAAAAT
99499204 GACTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 7 0.33
15 4 0.19
16 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Done.