Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 37 of 199
Found at i:10503207 original size:46 final size:46
Alignment explanation
Indices: 10503156--10503303 Score: 133
Period size: 46 Copynumber: 3.2 Consensus size: 46
10503146 ATTATTCTGA
* *
10503156 AAATAATAATACGTGATAAATTCAAAAT-AATATAATATGATAAATTT
1 AAATAATAATA-ATGATAAATTCAAAATAAATAT-ACATGATAAATTT
* * *
10503203 -AATAATATTAATGATAAATTTAAGATAAATATACATGATAAATTT
1 AAATAATAATAATGATAAATTCAAAATAAATATACATGATAAATTT
** * * * *
10503248 AAATAATGTTAATGATGAATTTAAAAT-AATAATA-TTGATAAATTAC
1 AAATAATAATAATGATAAATTCAAAATAAAT-ATACATGATAAATT-T
10503294 AAATAATAAT
1 AAATAATAAT
10503304 GCATTATAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
45 37 0.44
46 48 0.56
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (46 bp):
AAATAATAATAATGATAAATTCAAAATAAATATACATGATAAATTT
Found at i:10503218 original size:45 final size:45
Alignment explanation
Indices: 10503169--10503301 Score: 162
Period size: 45 Copynumber: 2.9 Consensus size: 45
10503159 TAATAATACG
*
10503169 TGATAAATTCAAAATAATATAATATGATAAATTT-AATAATATTAA
1 TGATAAATTTAAAATAA-ATAATATGATAAATTTAAATAATATTAA
* * *
10503214 TGATAAATTTAAGATAAATATACATGATAAATTTAAATAATGTTAA
1 TGATAAATTTAAAATAAATA-ATATGATAAATTTAAATAATATTAA
* *
10503260 TGATGAATTTAAAAT-AATAATATTGATAAATTACAAATAATA
1 TGATAAATTTAAAATAAATAATA-TGATAAATT-TAAATAATA
10503302 ATGCATTATA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 5 0.07
45 40 0.53
46 30 0.40
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (45 bp):
TGATAAATTTAAAATAAATAATATGATAAATTTAAATAATATTAA
Found at i:10503297 original size:23 final size:21
Alignment explanation
Indices: 10503156--10503304 Score: 97
Period size: 23 Copynumber: 6.7 Consensus size: 21
10503146 ATTATTCTGA
*
10503156 AAATAATAATACGTGATAAATT
1 AAATAATAATA-ATGATAAATT
10503178 CAAAATAAT-ATAATATGATAAATT
1 --AAATAATAAT-A-ATGATAAATT
* *
10503202 TAATAATATTAATGATAAATTT
1 AAATAATAATAATGATAAA-TT
10503224 AAGATAA-ATATACATGATAAATTT
1 AA-ATAATA-ATA-ATGATAAA-TT
** *
10503248 AAATAATGTTAATGATGAATTT
1 AAATAATAATAATGAT-AAATT
*
10503270 AAAATAATAATATTGATAAATT
1 -AAATAATAATAATGATAAATT
*
10503292 ACA-AATAATAATG
1 AAATAATAATAATG
10503305 CATTATAAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.09
21 10 0.10
22 22 0.22
23 30 0.30
24 30 0.30
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (21 bp):
AAATAATAATAATGATAAATT
Found at i:10504649 original size:7 final size:8
Alignment explanation
Indices: 10504630--10504660 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
10504620 TATGAGTTTA
10504630 AAAAAATC
1 AAAAAATC
10504638 AAAAAATC
1 AAAAAATC
10504646 AAAAAAATC
1 -AAAAAATC
10504655 AAAAAA
1 AAAAAA
10504661 ATGAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATC
Found at i:10504667 original size:8 final size:9
Alignment explanation
Indices: 10504629--10504667 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
10504619 CTATGAGTTT
10504629 AAAAAAATC
1 AAAAAAATC
10504638 -AAAAAATC
1 AAAAAAATC
10504646 AAAAAAATC
1 AAAAAAATC
*
10504655 AAAAAAATG
1 AAAAAAATC
10504664 AAAA
1 AAAA
10504668 TGAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:10504700 original size:5 final size:5
Alignment explanation
Indices: 10504687--10504733 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
10504677 AAATGATGGA
*
10504687 AAAAT AAAAG AAAAGG AAAAAG AAAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA-G -AAAAG -AAAAG AAAAG AAAAG AAAAG AAAA
10504734 AGGAGAGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 27 0.69
6 8 0.21
7 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:10504711 original size:23 final size:21
Alignment explanation
Indices: 10504685--10504735 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
10504675 AAAAATGATG
*
10504685 GAAAAATAAAAGAAAAGGAAAAA
1 GAAAAAGAAAAGAAAA-G-AAAA
10504708 GAAAAAGAAAAGAAAAGAAAA
1 GAAAAAGAAAAGAAAAGAAAA
10504729 GAAAAAG
1 GAAAAAG
10504736 GAGAGGGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.41
22 1 0.04
23 15 0.56
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
GAAAAAGAAAAGAAAAGAAAA
Found at i:10504734 original size:6 final size:6
Alignment explanation
Indices: 10504692--10504735 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
10504682 ATGGAAAAAT
*
10504692 AAAAGA AAAGGA AAAAGA AAAAG- AAAAG- AAAAG- AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
10504736 GAGAGGGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:10504735 original size:11 final size:11
Alignment explanation
Indices: 10504685--10504735 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
10504675 AAAAATGATG
*
10504685 GAAAAATAAAA
1 GAAAAAGAAAA
*
10504696 GAAAAGGAAAAA
1 GAAAAAG-AAAA
10504708 GAAAAAGAAAA
1 GAAAAAGAAAA
10504719 G-AAAAGAAAA
1 GAAAAAGAAAA
10504729 GAAAAAG
1 GAAAAAG
10504736 GAGAGGGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 10 0.29
11 15 0.43
12 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:10507035 original size:44 final size:43
Alignment explanation
Indices: 10506967--10507843 Score: 187
Period size: 44 Copynumber: 20.1 Consensus size: 43
10506957 CAGATTGGTG
*
10506967 AAACCACAAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTA
1 AAACCAC-AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * * *
10507011 AAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TC
1 AAACCACA-ATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
** * * * * * ** *
10507054 GCATC-CAGTCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGA
1 AAACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGA-TTA
* *
10507097 ATAAAC-CAATCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGA
1 A-AACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATT-A
* *
10507141 AGATAGCA-AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTGA
1 A-A-ACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATT-A
* *** * * * ** *
10507186 AGATGGCGAATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTG
1 AAACCAC-AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * ** * *
10507230 AAGCCAATAATCTTATCTCCCTGAAGTTGTAGTGGCGCAGATTA
1 AAACC-ACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * * * * ** *
10507274 AAACTACAGATCTTATCTCACTGAAGATGCAG-AGAGTAGA-TC
1 AAACCACA-ATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
** * * * * * * *
10507316 GCATC-CAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTA
1 AAACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
*** * * * * *
10507358 AAGATGGCGAATCTTATCTCCCTGAAGTTACAGCGGAGCAGTTTG
1 AA-ACCAC-AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * * * *
10507403 AAGCCAATAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTA
1 AAACC-ACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
*** ** * * * * *
10507447 AAGTGATGGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTG
1 AAACCA-CAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * * * * * *
10507491 AAGCCAATAATCCTATCCTCTCTGAAGTTGCAGTGGAGCAGACTA
1 AAACC-ACAATCTTAT-CTCCCTAAAGTTACAGTGGAGCGGATTA
*** ** * * * * * *
10507536 AAGTGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TC
1 AAACCA-CAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
** * ** * * * **
10507579 GCATCA-GGTCTTATCTTCCTGAAGTTACAGTGGAGCAGACCA
1 AAACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * *
10507621 AATA-AACCAATCTGATCTCCCTGAAGTTACAGTGGAGCAGATTA
1 AA-ACCA-CAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
* * * * * *
10507665 AAACCAAAAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTA
1 AAACC-ACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
*** * * * * *** *
10507709 AAGTTACAAGTCTTATTTCTCTAAAGTTGCAGCGGAATAGACTGA
1 AAACCACAA-TCTTATCTCCCTAAAGTTACAGTGGAGCGGA-TTA
* * *
10507754 ATAA--ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
1 A-AACCAC-AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATT-A
* * * * *
10507798 AGAAAC-CAATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTA
1 A-AACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
10507841 AAA
1 AAA
10507844 TGATGGATCT
Statistics
Matches: 624, Mismatches: 175, Indels: 70
0.72 0.20 0.08
Matches are distributed among these distances:
40 18 0.03
41 61 0.10
42 8 0.01
43 27 0.04
44 372 0.60
45 137 0.22
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
AAACCACAATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTA
Found at i:10507159 original size:45 final size:45
Alignment explanation
Indices: 10507062--10507257 Score: 191
Period size: 45 Copynumber: 4.4 Consensus size: 45
10507052 TCGCATCCAG
* * * * * * * *
10507062 TCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAATA-AACCAA
1 TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAA
10507106 TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAA
* * * *
10507151 TCCTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAGATGGCGAA
1 TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAA
* * * * **
10507196 TCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCCA--ATAA
1 TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCA-AA
*
10507240 TCTTATCTCCCTGAAGTT
1 TCTTATCTCCCTAAAGTT
10507258 GTAGTGGCGC
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 52 0.41
45 76 0.59
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAA
Found at i:10507305 original size:88 final size:87
Alignment explanation
Indices: 10506975--10507828 Score: 502
Period size: 88 Copynumber: 9.8 Consensus size: 87
10506965 TGAAACCACA
* * * * ** * *
10506975 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATGAC-GATCTTATCTCCCTGAAGTTG
** * * *
10507040 CAGTAGAGCAGATCGCATCC---
65 CAGCGGAGCAGATTGAAGCCAAT
* * * * * *
10507060 AGTCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAATAA--ACCAATCTTATCTCCCTAAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AATGA-CGATCTTATCTCCCTGAAGT
* * ** **
10507123 TACAGTGGAGTGGATTGAAGATAGCA-
63 TGCAGCGGAGCAGATTGAAGCCA--AT
* * * * * *
10507149 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAGATGGCGAATCTTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAATGACG-ATCTTATCTCCCTGAAGTT
*
10507214 GCAGCGGAGTAGATTGAAGCCAAT
64 GCAGCGGAGCAGATTGAAGCCAAT
* * * * * *
10507238 AATCTTATCTCCCTGAAGTTGTAGTGGCGCAGATTAAAACT-ACAGATCTTATCTCACTGAAGAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAA-TGAC-GATCTTATCTCCCTGAAGTT
* * * * *
10507302 GCAG-AGAGTAGATCGCATCC---
64 GCAGCGGAGCAGATTGAAGCCAAT
* * * * * *
10507322 AGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCGAATCTTATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA-ATGACG-ATCTTATCTCCCTGAAGTT
* *
10507387 ACAGCGGAGCAGTTTGAAGCCAAT
64 GCAGCGGAGCAGATTGAAGCCAAT
* * * * *
10507411 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTGATGGATCTTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATGA-CGATCTTATCTCCCTGAAGTTG
10507476 CAGCGGAGCAGATTGAAGCCAAT
65 CAGCGGAGCAGATTGAAGCCAAT
* * * *
10507499 AATCCTATCCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGTGATGGATCTTATCTCTCTGAAGTT
1 AATCCTAT-CTCCCTGAAGTTGCAGTGGAGCAGACTAAAATGA-CGATCTTATCTCCCTGAAGTT
** * * *
10507564 GCAGTAGAGCAGATCGCA-TC-A-
64 GCAGCGGAGCAGATTGAAGCCAAT
** * * * * * * *
10507585 GGTCTTATCTTCCTGAAGTTACAGTGGAGCAGAC-CAAATAAACCAATCTGATCTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAT-GA-CGATCTTATCTCCCTGAAGTT
* * * * *
10507649 ACAGTGGAGCAGATTAAAACCAAA
64 GCAGCGGAGCAGATTGAAGCCAAT
* ** * * * * * * *
10507673 AATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAGTTACAAGTCTTATTTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATGACGA-TCTTATCTCCCTGAAGTTG
** * **
10507738 CAGCGGAATAGACTGAA-TAAACT
65 CAGCGGAGCAGATTGAAGCCAA-T
* * * *
10507761 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA--ACCAATCCTATCTCCCTGAAGT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AATGA-CGATCTTATCTCCCTGAAGT
10507824 TGCAG
63 TGCAG
10507829 TGGAACGGAT
Statistics
Matches: 596, Mismatches: 141, Indels: 61
0.75 0.18 0.08
Matches are distributed among these distances:
84 37 0.06
85 134 0.22
86 19 0.03
87 21 0.04
88 181 0.30
89 168 0.28
90 36 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (87 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATGACGATCTTATCTCCCTGAAGTTGC
AGCGGAGCAGATTGAAGCCAAT
Found at i:10507518 original size:262 final size:260
Alignment explanation
Indices: 10506975--10507829 Score: 988
Period size: 262 Copynumber: 3.3 Consensus size: 260
10506965 TGAAACCACA
* * * * *
10506975 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAGATCTTATCTCTCTGAAGTTG
* * *
10507040 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAATTTGCAGTGGAGTAGACTGAATAAACCA
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACCA
* ** ** * * *
10507105 ATCTTATCTCCCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAATCCTATCTCCCTAAAGTTA
131 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA--AAATCCTATCTCTCTGAAGTTG
* * *
10507170 CAGTGGAGCGGATTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCC
194 CAGTGGAGCGGATTAAAG-TGACGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCC
10507235 AAT
258 AAT
* * * * *
10507238 AATCTTATCTCCCTGAAGTTGTAGTGGCGCAGATTAAAACTACAGATCTTATCTCACTGAAGATG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAGATCTTATCTCTCTGAAGTTG
* * * * * ** *
10507303 CAG-AGAGTAGATCGCATCCAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCG
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATA-AACC
* *
10507367 AATCTTATCTCCCTGAAGTTACAGCGGAGCAGTTTGAAGCCAATAATCCTATCTCTCTGAAGTTG
130 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAA-AATCCTATCTCTCTGAAGTTG
* *
10507432 CAGTGGAGCGGATTAAAGTGATGGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCA
194 CAGTGGAGCGGATTAAAGTGACGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCA
10507497 AT
259 AT
* * * **
10507499 AATCCTATCCTCTCTGAAGTTGCAGTGGAGCAGACT-AAAGTGATGGATCTTATCTCTCTGAAGT
1 AATCCTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAACT-ACAGATCTTATCTCTCTGAAGT
* * *
10507563 TGCAGTAGAGCAGATCGCAT-CAGGTCTTATCTTCCTGAAGTTACAGTGGAGCAGACCAAATAAA
64 TGCAGTAGAGCAGATCGCATCCA-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAA
* * *
10507627 CCAATCTGATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAAAATCCTATCTCTCTGAAGT
128 CCAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCC-AAAATCCTATCTCTCTGAAGT
* * * * * ** *
10507692 TGCAGTGGAGTGGATTAAAGTTAC-AAGTCTTATTTCTCTAAAGTTGCAGCGGAATAGACTGAA-
192 TGCAGTGGAGCGGATTAAAGTGACGAA-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAG
**
10507755 TAAACT
256 CCAA-T
* * *
10507761 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA--ACCA-ATCCTATCTCCCTGAAG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACTA-CAGATCTTATCTCTCTGAAG
10507823 TTGCAGT
63 TTGCAGT
10507830 GGAACGGATT
Statistics
Matches: 498, Mismatches: 81, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
261 108 0.22
262 246 0.49
263 142 0.29
264 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (260 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACCA
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAAAATCCTATCTCTCTGAAGTTGCA
GTGGAGCGGATTAAAGTGACGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAAT
Found at i:10507858 original size:44 final size:44
Alignment explanation
Indices: 10507149--10507871 Score: 291
Period size: 44 Copynumber: 16.5 Consensus size: 44
10507139 GAAGATAGCA
* * * * * * **
10507149 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAGATGGCG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAATGATG
* * * ****
10507194 AATCTTATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAGCCAAT-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAATGATG
* * * *
10507238 AATCTTATCTCCCTGAAGTTGTAGTGGCGCAGATTAAAACT-A-C
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAA-TGATG
* * * * *** *
10507281 AGATCTTATCTCACTGAAGATGCAG-AGAGTAGA-TCGCATCCA-G
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAT-GATG
* * * * * **
10507324 --TCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATG
* * * * ****
10507367 AATCTTATCTCCCTGAAGTTACAGCGGAGCAGTTTGAAGCCAAT-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAATGATG
* * *
10507411 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTGATG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * * ****
10507455 GATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAAT-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAATGATG
* * *
10507499 AATCCTATCCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGTGATG
1 AATCTTAT-CTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * *** *
10507544 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-G
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * ** * **
10507586 -GTCTTATCT-TCCTGAAGTTACAGTGGAGCAGA-CCAAATAAACC
1 AATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAAT-GATG
* * * ** **
10507629 AATCTGATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCAAA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* ** * * *
10507673 AATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAGTTA-C
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
* * * ** *
10507716 AAGTCTTATTTCTCTAAAGTTGCAGCGGAATAGACTGAATAA--ACT-
1 AA-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAA-AATGA-TG
* **
10507761 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA--ACC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AATGATG
* * * *
10507805 AATCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAATGATG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
*
10507849 GATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCTCTGAAGTTGCA
10507872 ATAGAGTAGA
Statistics
Matches: 506, Mismatches: 141, Indels: 63
0.71 0.20 0.09
Matches are distributed among these distances:
40 19 0.04
41 36 0.07
42 7 0.01
43 25 0.05
44 315 0.62
45 101 0.20
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATGATG
Found at i:10509391 original size:23 final size:24
Alignment explanation
Indices: 10509330--10509380 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
10509320 TTTATTTAAT
*
10509330 TTTAAA-TCTAATATTATTTTGGTG
1 TTTAAACT-TAATATTATTTTAGTG
10509354 TTTAAACTTAATATTATTTTAGT-
1 TTTAAACTTAATATTATTTTAGTG
10509377 TTTA
1 TTTA
10509381 TTATTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 20 0.80
25 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTAAACTTAATATTATTTTAGTG
Found at i:10509496 original size:45 final size:45
Alignment explanation
Indices: 10509435--10509566 Score: 160
Period size: 45 Copynumber: 2.9 Consensus size: 45
10509425 AGCATGCATT
* *
10509435 ATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCATTAAC
1 ATTATTT-AAATTTATCAATATTATTATTTTAAATTTATCATTAAC
* * *
10509481 ATTATTTAAATTTATC-ATGTATATTTATCTTAAATTTATCATTAAT
1 ATTATTTAAATTTATCAATAT-TA-TTATTTTAAATTTATCATTAAC
*
10509527 ATT-TTTAAATTTATCATATATTATTATTTTGAATTTATCA
1 ATTATTTAAATTTATCA-ATATTATTATTTTAAATTTATCA
10509567 CGTATTATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
44 3 0.04
45 37 0.50
46 31 0.42
47 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (45 bp):
ATTATTTAAATTTATCAATATTATTATTTTAAATTTATCATTAAC
Found at i:10509508 original size:13 final size:12
Alignment explanation
Indices: 10509464--10509530 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 12
10509454 TATTATTATT
*
10509464 TTAAATTCATCA
1 TTAAATTTATCA
10509476 TTAACA-TTAT--
1 TTAA-ATTTATCA
10509486 TTAAATTTATCA
1 TTAAATTTATCA
*
10509498 TGTATATTTATC-
1 T-TAAATTTATCA
10509510 TTAAATTTATCA
1 TTAAATTTATCA
10509522 TTAATATTT
1 TTAA-ATTT
10509531 TTAAATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
9 1 0.02
10 8 0.18
11 9 0.20
12 13 0.29
13 14 0.31
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.52
Consensus pattern (12 bp):
TTAAATTTATCA
Found at i:10509604 original size:70 final size:69
Alignment explanation
Indices: 10509461--10509634 Score: 194
Period size: 70 Copynumber: 2.5 Consensus size: 69
10509451 CAATATTATT
* ** * *
10509461 ATTTTAAATTCATCAT-TAACATTA-TTTAAATTTATCATGTATATTTATCTTAAATTTATCATT
1 ATTTTAAATTTATCATATATTATTATTTTAAATTTATCACGTATATTTATCTTAAATTTATCATC
*
10509524 AATA
66 AAAA
* * *
10509528 TTTTTAAATTTATCATATATTATTATTTTGAATTTATCACGTAT-TATTATTTTTAGAA-TTATC
1 ATTTTAAATTTATCATATATTATTATTTTAAATTTATCACGTATAT-TTA-TCTTA-AATTTATC
10509591 ATCAAAA
63 ATCAAAA
* *
10509598 ATTTTAAATTTATTATATATTATTATTTCAAATTTAT
1 ATTTTAAATTTATCATATATTATTATTTTAAATTTAT
10509635 TATATATTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
67 14 0.16
68 7 0.08
69 19 0.21
70 47 0.53
71 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (69 bp):
ATTTTAAATTTATCATATATTATTATTTTAAATTTATCACGTATATTTATCTTAAATTTATCATC
AAAA
Found at i:10509635 original size:24 final size:24
Alignment explanation
Indices: 10509408--10509656 Score: 173
Period size: 24 Copynumber: 10.7 Consensus size: 24
10509398 TTTATTGTAC
* * * **
10509408 ATTATTATCTTAGATTTAGCATGC
1 ATTATTATTTTAAATTTATCATAT
10509432 ATTATTATTTGT-AATTTATCA-AT
1 ATTATTATTT-TAAATTTATCATAT
*
10509455 ATTATTATTTTAAATTCATCAT-T
1 ATTATTATTTTAAATTTATCATAT
** *
10509478 AACATTA-TTTAAATTTATCATGT
1 ATTATTATTTTAAATTTATCATAT
*
10509501 A-TATTTATCTTAAATTTATCAT-T
1 ATTA-TTATTTTAAATTTATCATAT
*
10509524 AATA-T-TTTTAAATTTATCATAT
1 ATTATTATTTTAAATTTATCATAT
* **
10509546 ATTATTATTTTGAATTTATCACGT
1 ATTATTATTTTAAATTTATCATAT
10509570 ATTATTATTTTTAGAA-TTATCATCA-
1 ATTATTA-TTTTA-AATTTATCAT-AT
* *
10509595 A--A-AATTTTAAATTTATTATAT
1 ATTATTATTTTAAATTTATCATAT
* *
10509616 ATTATTATTTCAAATTTATTATAT
1 ATTATTATTTTAAATTTATCATAT
* *
10509640 ATTGTTTATTGTAAATT
1 ATT-ATTATTTTAAATT
10509657 ACCCTATTCA
Statistics
Matches: 180, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.02
21 26 0.14
22 21 0.12
23 34 0.19
24 72 0.40
25 22 0.12
26 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTATTATTTTAAATTTATCATAT
Found at i:10509753 original size:2 final size:2
Alignment explanation
Indices: 10509746--10509770 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10509736 AAATTTCATC
10509746 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10509771 CATTTATTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10509935 original size:13 final size:14
Alignment explanation
Indices: 10509916--10509948 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
10509906 TTTACATGTA
10509916 ATTTTAAATGATTT
1 ATTTTAAATGATTT
10509930 -TTTT-AATGATTT
1 ATTTTAAATGATTT
10509942 ATTTTAA
1 ATTTTAA
10509949 TTTGTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.47
13 8 0.47
14 1 0.06
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
ATTTTAAATGATTT
Found at i:10509949 original size:13 final size:13
Alignment explanation
Indices: 10509916--10509949 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10509906 TTTACATGTA
10509916 ATTTTAAATGATTT
1 ATTTT-AATGATTT
10509930 -TTTTAATGATTT
1 ATTTTAATGATTT
10509942 ATTTTAAT
1 ATTTTAAT
10509950 TTGTTTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
ATTTTAATGATTT
Found at i:10509951 original size:22 final size:22
Alignment explanation
Indices: 10509926--10509968 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10509916 ATTTTAAATG
*
10509926 ATTTTTTTAATG-ATTTATTTTA
1 ATTTGTTTAATGTA-TTATTTTA
*
10509948 ATTTGTTTCATGTATTATTTT
1 ATTTGTTTAATGTATTATTTT
10509969 GAGTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
ATTTGTTTAATGTATTATTTTA
Found at i:10512854 original size:16 final size:16
Alignment explanation
Indices: 10512833--10512876 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10512823 ATGTGCAGAC
10512833 CCATGTTATATGCGAA
1 CCATGTTATATGCGAA
* *
10512849 CCATGTTGTATGTGAA
1 CCATGTTATATGCGAA
*
10512865 CCTGTGTTATAT
1 CC-ATGTTATAT
10512877 ACTAACCCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (16 bp):
CCATGTTATATGCGAA
Found at i:10512944 original size:17 final size:17
Alignment explanation
Indices: 10512922--10512993 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
10512912 AACCATTTGT
*
10512922 GAACCCATAATATGTGC
1 GAACCCATAATATATGC
** * *
10512939 GAACCCATACCATGTGA
1 GAACCCATAATATATGC
** *
10512956 GAACCCATGTTGTATGC
1 GAACCCATAATATATGC
*
10512973 GAACCCATGATATATGC
1 GAACCCATAATATATGC
10512990 GAAC
1 GAAC
10512994 TTATGTTATA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (17 bp):
GAACCCATAATATATGC
Found at i:10513003 original size:17 final size:17
Alignment explanation
Indices: 10512956--10513005 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
10512946 TACCATGTGA
*
10512956 GAACCCATGTTGTATGC
1 GAACCCATGTTATATGC
*
10512973 GAACCCATGATATATGC
1 GAACCCATGTTATATGC
**
10512990 GAACTTATGTTATATG
1 GAACCCATGTTATATG
10513006 TGATCTACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (17 bp):
GAACCCATGTTATATGC
Found at i:10513132 original size:19 final size:18
Alignment explanation
Indices: 10513108--10513149 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
10513098 TGAACTGTGT
*
10513108 TATATTATGCGAGCTCTAC
1 TATATT-TGCGAGCCCTAC
*
10513127 TATA-TTGCGAGCCCTAT
1 TATATTTGCGAGCCCTAC
10513144 TATATT
1 TATATT
10513150 GTGTACTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 14 0.70
18 2 0.10
19 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (18 bp):
TATATTTGCGAGCCCTAC
Found at i:10513137 original size:17 final size:17
Alignment explanation
Indices: 10513115--10513150 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10513105 TGTTATATTA
*
10513115 TGCGAGCTCTACTATAT
1 TGCGAGCCCTACTATAT
*
10513132 TGCGAGCCCTATTATAT
1 TGCGAGCCCTACTATAT
10513149 TG
1 TG
10513151 TGTACTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (17 bp):
TGCGAGCCCTACTATAT
Found at i:10514372 original size:18 final size:18
Alignment explanation
Indices: 10514349--10514389 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
10514339 TCAAGTCCAA
10514349 TTGGGTAGATGCTTTGCC
1 TTGGGTAGATGCTTTGCC
*
10514367 TTGGGTAGATGCTTTGTC
1 TTGGGTAGATGCTTTGCC
10514385 TTGGG
1 TTGGG
10514390 CATCGAAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.37, T:0.41
Consensus pattern (18 bp):
TTGGGTAGATGCTTTGCC
Found at i:10518081 original size:25 final size:25
Alignment explanation
Indices: 10518037--10518110 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
10518027 TTCAGCTTTT
** * *
10518037 ATGAGCTTCCCGACACTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCAC
* *
10518062 TTGAGCTTCCCGTTATTCAGTTCAC
1 ATGAGCTTCCCGTTATTCAGCTCAC
* * *
10518087 ATGAGCTTCTCATTATTCAACTCA
1 ATGAGCTTCCCGTTATTCAGCTCA
10518111 GAGGATCTTA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCAC
Found at i:10521352 original size:18 final size:16
Alignment explanation
Indices: 10521313--10521343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10521303 TTAACTCAAC
10521313 GAACCCATAAATTTGT
1 GAACCCATAAATTTGT
*
10521329 GAACCCATATATTTG
1 GAACCCATAAATTTG
10521344 CATGAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
GAACCCATAAATTTGT
Found at i:10524349 original size:23 final size:23
Alignment explanation
Indices: 10524298--10524342 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10524288 GTGTTATTGA
10524298 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
10524321 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
10524343 ATTAGTGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:10525836 original size:13 final size:13
Alignment explanation
Indices: 10525797--10525837 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10525787 ATATTTGCAA
10525797 CATATTTCACATT
1 CATATTTCACATT
10525810 C-TATTTTCA-ATT
1 CATA-TTTCACATT
*
10525822 CATATTTCACTTT
1 CATATTTCACATT
10525835 CAT
1 CAT
10525838 TTCTCATACC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (13 bp):
CATATTTCACATT
Found at i:10526035 original size:37 final size:38
Alignment explanation
Indices: 10525953--10526088 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 38
10525943 ACCAGTTTGG
* **
10525953 CACCCAGTGCCTCATCGAA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAACTAAACCGAAG---TAAATTGA
* *
10525993 CACCCAGTGTCTCATC-AGCTAAACTGAAGTAAATTGA
1 CACCCAGTGTCTCATCGAACTAAACCGAAGTAAATTGA
* * *
10526030 CACCCAGTGCCTCATCGAATTAATCCGAAGTAAATAATTGA
1 CACCCAGTGTCTCATCGAACTAAACCGAAGT--A-AATTGA
*
10526071 CACACAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
10526089 CTCGAAGTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 23 0.29
38 10 0.13
39 1 0.01
40 23 0.29
41 22 0.28
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (38 bp):
CACCCAGTGTCTCATCGAACTAAACCGAAGTAAATTGA
Found at i:10526079 original size:41 final size:39
Alignment explanation
Indices: 10525953--10526088 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 39
10525943 ACCAGTTTGG
*
10525953 CACCCAGTGCCTCATCGAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAAT-AATTGA
* * * *
10525993 CACCCAGTGTCTCATC-AGCTAAACTGAAGT-A-AATTGA
1 CACCCAGTGCCTCATCGA-ATAATCCGAAGTAATAATTGA
10526030 CACCCAGTGCCTCATCGAATTAATCCGAAGTAAATAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGT-AATAATTGA
* *
10526071 CACACAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
10526089 CTCGAAGTCA
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
37 21 0.27
38 10 0.13
39 2 0.03
40 24 0.30
41 22 0.28
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAATAATTGA
Found at i:10526925 original size:10 final size:10
Alignment explanation
Indices: 10526902--10526967 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
10526892 TAGTTTTTCC
10526902 TTTCTTTC-T
1 TTTCTTTCTT
10526911 TTTCTTTCTT
1 TTTCTTTCTT
*
10526921 TTTCTTTCTA
1 TTTCTTTCTT
10526931 TTTCGTTTAACCTT
1 TTTC-TTT---CTT
*
10526945 CTATCTTTCTT
1 -TTTCTTTCTT
*
10526956 TTTGTTTCTT
1 TTTCTTTCTT
10526966 TT
1 TT
10526968 ATTTATTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
9 8 0.17
10 24 0.52
11 6 0.13
14 5 0.11
15 3 0.07
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:10526993 original size:12 final size:14
Alignment explanation
Indices: 10526965--10527015 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
10526955 TTTTGTTTCT
*
10526965 TTTATTTAT-TATA
1 TTTACTTATATATA
10526978 TTTACTT-TAT-TA
1 TTTACTTATATATA
10526990 TTTA-TTATATATA
1 TTTACTTATATATA
*
10527003 TTTACTTAAATAT
1 TTTACTTATATAT
10527016 TAAGTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 10 0.31
13 13 0.41
14 7 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTACTTATATATA
Found at i:10527016 original size:25 final size:25
Alignment explanation
Indices: 10526965--10527016 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10526955 TTTTGTTTCT
* *
10526965 TTTATTTATTATATTTACTTTATTA
1 TTTATTTATTATATTTACTTAAATA
10526990 TTTA-TTATATATATTTACTTAAATA
1 TTTATTTAT-TATATTTACTTAAATA
10527015 TT
1 TT
10527017 AAGTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTTATTATATTTACTTAAATA
Found at i:10532904 original size:30 final size:30
Alignment explanation
Indices: 10532868--10532931 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
10532858 AATTTAAGGG
10532868 ACATAATTTCCTAAGTGGGGGAGAGTTGTA
1 ACATAATTTCCTAAGTGGGGGAGAGTTGTA
10532898 ACATAATTTCCTAAGTGGGGGAGAGTTGTA
1 ACATAATTTCCTAAGTGGGGGAGAGTTGTA
10532928 ACAT
1 ACAT
10532932 CTCGCCCGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (30 bp):
ACATAATTTCCTAAGTGGGGGAGAGTTGTA
Found at i:10535664 original size:16 final size:16
Alignment explanation
Indices: 10535645--10535683 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10535635 ATTTTAATAA
10535645 ATTAAAACAAATTGTT
1 ATTAAAACAAATTGTT
**
10535661 ATTAAAATTAATTGTT
1 ATTAAAACAAATTGTT
*
10535677 AGTAAAA
1 ATTAAAA
10535684 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTAAAACAAATTGTT
Found at i:10535684 original size:16 final size:16
Alignment explanation
Indices: 10535654--10535686 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10535644 AATTAAAACA
*
10535654 AATTGTTATTAAAATT
1 AATTGTTAGTAAAATT
10535670 AATTGTTAGTAAAATT
1 AATTGTTAGTAAAATT
10535686 A
1 A
10535687 TCAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AATTGTTAGTAAAATT
Found at i:10535754 original size:66 final size:67
Alignment explanation
Indices: 10535675--10535817 Score: 243
Period size: 68 Copynumber: 2.1 Consensus size: 67
10535665 AAATTAATTG
*
10535675 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTATAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTATAACAAAATCTAACATTT
10535739 GA
66 GA
* *
10535741 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTATAACAAAATCTAACATT
10535806 TGA
65 TGA
10535809 TTAGTAAAA
1 TTAGTAAAA
10535818 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 26 0.37
68 45 0.63
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTATAACAAAATCTAACATTT
GA
Found at i:10535771 original size:9 final size:9
Alignment explanation
Indices: 10535759--10535786 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10535749 TTTATCAAAT
10535759 TATTAATTG
1 TATTAATTG
10535768 TATTAATTG
1 TATTAATTG
10535777 TATTAATTG
1 TATTAATTG
10535786 T
1 T
10535787 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:10535922 original size:21 final size:23
Alignment explanation
Indices: 10535881--10535925 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10535871 GTAAATAAAC
10535881 TTAAAATAAAAAACTATTATATT
1 TTAAAATAAAAAACTATTATATT
10535904 TTAAAATAAAAAA-TA-TATATT
1 TTAAAATAAAAAACTATTATATT
10535925 T
1 T
10535926 AATATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TTAAAATAAAAAACTATTATATT
Found at i:10537073 original size:18 final size:19
Alignment explanation
Indices: 10537050--10537087 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10537040 CTAAATAATG
10537050 AATTAA-AATAAAAAATAA
1 AATTAATAATAAAAAATAA
**
10537068 AATTAATTTTAAAAAATAA
1 AATTAATAATAAAAAATAA
10537087 A
1 A
10537088 GCAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTAATAATAAAAAATAA
Found at i:10537262 original size:2 final size:2
Alignment explanation
Indices: 10537255--10537284 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10537245 CTTCAACTTA
10537255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10537285 TAACCTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10542099 original size:29 final size:29
Alignment explanation
Indices: 10542065--10542129 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
10542055 ATAATTTACA
*
10542065 AAAATTAAATC-AAATCAAAATTTATGTAT
1 AAAATTAAA-CAAAATCAAAATTTATATAT
* *
10542094 AAAATTACACAAAATTAAAATTTATATAT
1 AAAATTAAACAAAATCAAAATTTATATAT
*
10542123 ACAATTA
1 AAAATTA
10542130 TATATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTAAACAAAATCAAAATTTATATAT
Found at i:10547849 original size:77 final size:78
Alignment explanation
Indices: 10547730--10547909 Score: 319
Period size: 77 Copynumber: 2.3 Consensus size: 78
10547720 CAACCCCTCG
*
10547730 GGGGAATCAGCACATAGCAACCCC-CTTTTTATTTCAAAGATATGGTGGATATCGCACTTAGCAC
1 GGGGAATCAGCACATAGCAACCCCTCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCAC
10547794 CACCAATG-AATC
66 CACCAATGAAATC
*
10547806 GGGGAATCAGCACATAGCAACCCCTCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCAT
1 GGGGAATCAGCACATAGCAACCCCTCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCAC
10547871 CACCAATGAAATC
66 CACCAATGAAATC
*
10547884 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACATAGCAACCCCTC
10547910 GGGGGAATCA
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
76 24 0.24
77 46 0.46
78 29 0.29
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (78 bp):
GGGGAATCAGCACATAGCAACCCCTCTTTTCATTTCAAAGATATGGTGGATATCGCACTTAGCAC
CACCAATGAAATC
Found at i:10550783 original size:19 final size:20
Alignment explanation
Indices: 10550746--10550783 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10550736 TGTGAAAAGA
*
10550746 TTAAAACATTCTTGAAAATT
1 TTAAAACATTCCTGAAAATT
*
10550766 TTAAAA-ATTCCTGCAAAT
1 TTAAAACATTCCTGAAAAT
10550784 ATTGCCTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
TTAAAACATTCCTGAAAATT
Found at i:10551901 original size:3 final size:3
Alignment explanation
Indices: 10551893--10551925 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10551883 AAAAACAAAA
10551893 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10551926 TGAAAAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10556070 original size:18 final size:18
Alignment explanation
Indices: 10556047--10556088 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10556037 CACCACTCCT
*
10556047 CCACCTTCAACTT-CGCCA
1 CCACCTACAACTTCCG-CA
10556065 CCACCTACAACTTCCGCA
1 CCACCTACAACTTCCGCA
10556083 CCACCT
1 CCACCT
10556089 CCTTCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.24, C:0.52, G:0.05, T:0.19
Consensus pattern (18 bp):
CCACCTACAACTTCCGCA
Found at i:10560149 original size:22 final size:22
Alignment explanation
Indices: 10560096--10560152 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
10560086 ATCTAAACAA
*
10560096 CCTAAAACCATAATAACAAAAC
1 CCTAAAACCTTAATAACAAAAC
*
10560118 CCTAAAACCTTAATTAA-TAAAC
1 CCTAAAACCTTAA-TAACAAAAC
10560140 CCTAAAACCTTAA
1 CCTAAAACCTTAA
10560153 ATTTTATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAAACCTTAATAACAAAAC
Found at i:10560688 original size:18 final size:18
Alignment explanation
Indices: 10560661--10560707 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
10560651 AAATTTATAA
*
10560661 TTTT-TATATTATGTTAT
1 TTTTATATATTATGTAAT
10560678 TTTTATATATTATGTAAT
1 TTTTATATATTATGTAAT
*
10560696 TTATAATATATT
1 TT-TTATATATT
10560708 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
19 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATATATTATGTAAT
Found at i:10568105 original size:3 final size:3
Alignment explanation
Indices: 10568097--10568152 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
10568087 CAATATAAAT
* * * * *
10568097 ATA ATA ATA GTA GTA GTA ATA ATA ATA ATA ATA TTA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10568145 GTA ATA AT
1 ATA ATA AT
10568153 GAAGCTCAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10571962 original size:6 final size:6
Alignment explanation
Indices: 10571942--10571979 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
10571932 CATAGAAACA
*
10571942 TGCA-T TGCATA TGCATT TGCATT TGCATT TGCATT TGC
1 TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT TGC
10571980 GTACCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (6 bp):
TGCATT
Found at i:10572497 original size:31 final size:29
Alignment explanation
Indices: 10572454--10572521 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
10572444 TTTTATAAAT
* *
10572454 AATTAATATTTAT-TAATTAAAAATATTTAC
1 AATTTATATTTATAT-ATT-AAAATATTAAC
10572484 AATTTATATTTTATATATTAAAATATTAAC
1 AATTTATA-TTTATATATTAAAATATTAAC
*
10572514 AAGTTATA
1 AATTTATA
10572522 ATAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 24 0.73
31 8 0.24
32 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
AATTTATATTTATATATTAAAATATTAAC
Found at i:10572700 original size:13 final size:13
Alignment explanation
Indices: 10572684--10572722 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
10572674 TAAACCAAAT
10572684 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
10572697 TTTTCAAAATCAC
1 TTTTCAAAAGCAC
*
10572710 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
10572723 AAAAGTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:10574291 original size:13 final size:13
Alignment explanation
Indices: 10574260--10574284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10574250 CTGCTAATCT
10574260 AAGTTTAAAAAGA
1 AAGTTTAAAAAGA
10574273 AAGTTTAAAAAG
1 AAGTTTAAAAAG
10574285 GATGTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
AAGTTTAAAAAGA
Found at i:10577011 original size:9 final size:9
Alignment explanation
Indices: 10576997--10577033 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10576987 TATAGTTTAA
10576997 TATTCGAAT
1 TATTCGAAT
10577006 TATTCGAAT
1 TATTCGAAT
*
10577015 TATTCGAGT
1 TATTCGAAT
10577024 TATTCGAAT
1 TATTCGAAT
10577033 T
1 T
10577034 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10577105 original size:9 final size:9
Alignment explanation
Indices: 10577088--10577118 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10577078 TCAAGTTGAT
10577088 TCGAATAAC
1 TCGAATAAC
*
10577097 TCGATTAAC
1 TCGAATAAC
10577106 TCGAATAAC
1 TCGAATAAC
10577115 TCGA
1 TCGA
10577119 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10578082 original size:56 final size:50
Alignment explanation
Indices: 10577996--10578243 Score: 232
Period size: 50 Copynumber: 4.9 Consensus size: 50
10577986 CATTTGGGTA
* * * *
10577996 AAGAGATCTCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAAGTTAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG-AG--AT
10578052 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * *
10578102 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
10578152 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
* * *
10578203 AACA--TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10578244 TGTTATTATC
Statistics
Matches: 165, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
49 33 0.20
50 83 0.50
51 2 0.01
52 5 0.03
53 1 0.01
55 1 0.01
56 40 0.24
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:10587609 original size:11 final size:11
Alignment explanation
Indices: 10587593--10587619 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10587583 AATAAAAATA
10587593 AAAAAATAAAC
1 AAAAAATAAAC
10587604 AAAAAATAAAC
1 AAAAAATAAAC
10587615 AAAAA
1 AAAAA
10587620 GGAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAATAAAC
Found at i:10590236 original size:17 final size:17
Alignment explanation
Indices: 10590210--10590242 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10590200 GTATTGATTT
*
10590210 TGACATCTCTATGTCAA
1 TGACAACTCTATGTCAA
10590227 TGACAACTCTATGTCA
1 TGACAACTCTATGTCA
10590243 TCAATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
TGACAACTCTATGTCAA
Found at i:10595231 original size:66 final size:65
Alignment explanation
Indices: 10595151--10595276 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 65
10595141 TTATTGCATT
* ** *
10595151 AATGTCCTGCATGAGTTAA-TCCAAGATTACGTCCAGAATTATCGCTGCACTTGACAGCTGCCCG
1 AATGTCCTACATGAGTTAATTCC-AGATTACGTCCAGAATTATCGCCACACCTGACAGCTGCCCG
10595215 C
65 C
* *
10595216 AATGTCGCTACATGAGTTAATTCCAGATTGCGTCCAGAATTGTCGCCACACCTGACAGCTG
1 AATGTC-CTACATGAGTTAATTCCAGATTACGTCCAGAATTATCGCCACACCTGACAGCTG
10595277 TCCGGAAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
65 6 0.11
66 44 0.83
67 3 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (65 bp):
AATGTCCTACATGAGTTAATTCCAGATTACGTCCAGAATTATCGCCACACCTGACAGCTGCCCGC
Found at i:10596906 original size:27 final size:26
Alignment explanation
Indices: 10596876--10596985 Score: 103
Period size: 27 Copynumber: 4.1 Consensus size: 26
10596866 AGGCATTCCC
* *
10596876 TTCATAGATCGTCATGAAGGCTTCCTT
1 TTCATAGATCGCCA-AAAGGCTTCCTT
* * *
10596903 TTCATAAATAGCCACAAAGGTTTCCTT
1 TTCATAGATCGCCA-AAAGGCTTCCTT
* * *
10596930 TCCATAGATTGCCAAAAGGACTTTCTT
1 TTCATAGATCGCCAAAAGG-CTTCCTT
*
10596957 TTCATAGATCGCTACAAAGGCTTCCTT
1 TTCATAGATCGCCA-AAAGGCTTCCTT
10596984 TT
1 TT
10596986 TCTAGCGTGT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
26 5 0.08
27 56 0.85
28 5 0.08
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
TTCATAGATCGCCAAAAGGCTTCCTT
Found at i:10598181 original size:29 final size:29
Alignment explanation
Indices: 10598139--10598196 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10598129 AGATGAACTG
10598139 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
10598168 GGCGTACAACACCTTTGGCAATAATCCCT
1 GGCGTACAACACCTTTGGCAATAATCCCT
10598197 TACTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
GGCGTACAACACCTTTGGCAATAATCCCT
Found at i:10604915 original size:21 final size:21
Alignment explanation
Indices: 10604886--10604929 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
10604876 AGTCATATGT
*
10604886 AACAGTCGATTTAAACATATA
1 AACAATCGATTTAAACATATA
10604907 AACAATCGATTTAAACATATA
1 AACAATCGATTTAAACATATA
10604928 AA
1 AA
10604930 AAATGTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (21 bp):
AACAATCGATTTAAACATATA
Found at i:10607496 original size:12 final size:11
Alignment explanation
Indices: 10607473--10607535 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
10607463 CTATAACATC
*
10607473 CATTTAATTTT
1 CATTTCATTTT
10607484 CATTTCCATTTT
1 CATTT-CATTTT
* *
10607496 CATATCATTCT
1 CATTTCATTTT
*
10607507 CATTTTCATTCT
1 CA-TTTCATTTT
*
10607519 CATTTCAATTT
1 CATTTCATTTT
10607530 CATTTC
1 CATTTC
10607536 CGCAGTTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
11 25 0.57
12 19 0.43
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (11 bp):
CATTTCATTTT
Found at i:10607503 original size:17 final size:18
Alignment explanation
Indices: 10607483--10607533 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
10607473 CATTTAATTT
10607483 TCATTTCCATTTTCA-TA
1 TCATTTCCATTTTCATTA
*
10607500 TCA-TTCTCATTTTCATTC
1 TCATTTC-CATTTTCATTA
*
10607518 TCATTT-CAATTTCATT
1 TCATTTCCATTTTCATT
10607534 TCCGCAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 20 0.69
18 4 0.14
19 2 0.07
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTTCCATTTTCATTA
Found at i:10607516 original size:23 final size:23
Alignment explanation
Indices: 10607481--10607536 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
10607471 TCCATTTAAT
*
10607481 TTTCATTTCCATTTTCATATC-A
1 TTTCATTTCCATTCTCATATCAA
* *
10607503 TTCTCATTTTCATTCTCATTTCAA
1 TT-TCATTTCCATTCTCATATCAA
10607527 TTTCATTTCC
1 TTTCATTTCC
10607537 GCAGTTGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTCATTTCCATTCTCATATCAA
Found at i:10610863 original size:25 final size:25
Alignment explanation
Indices: 10610826--10610892 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
10610816 GACACACCAC
*
10610826 AGCTCGTATGAGCTTACCGATTTAT
1 AGCTCGTATGAGCATACCGATTTAT
*
10610851 AGCTCGTGA-GAGCATACTGATTTAT
1 AGCTCGT-ATGAGCATACCGATTTAT
10610876 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
10610893 ATGTATAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTTAT
Found at i:10613222 original size:24 final size:23
Alignment explanation
Indices: 10613178--10613222 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10613168 CAATTATATC
*
10613178 ATCTTGATTAAATCTTATTTAAA
1 ATCTTGATTAAACCTTATTTAAA
10613201 ATCTTGCATTAGAACCTT-TTTA
1 ATCTTG-ATTA-AACCTTATTTA
10613223 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 8 0.42
25 5 0.26
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (23 bp):
ATCTTGATTAAACCTTATTTAAA
Found at i:10626942 original size:12 final size:12
Alignment explanation
Indices: 10626925--10626954 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10626915 TATGTCAGGT
10626925 CGTGTACTAGGC
1 CGTGTACTAGGC
*
10626937 CGTGTACTAGGT
1 CGTGTACTAGGC
10626949 CGTGTA
1 CGTGTA
10626955 ACTCATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (12 bp):
CGTGTACTAGGC
Found at i:10629094 original size:23 final size:23
Alignment explanation
Indices: 10629068--10629131 Score: 87
Period size: 21 Copynumber: 2.8 Consensus size: 23
10629058 TCTTAGTAAT
*
10629068 GCCTTTATGGCGTATTCTATTTG
1 GCCTTTGTGGCGTATTCTATTTG
*
10629091 GCCTTTGTGGC--ATTCTATTTT
1 GCCTTTGTGGCGTATTCTATTTG
10629112 GCCTTTGTGGCGTACTTCTA
1 GCCTTTGTGGCGTA-TTCTA
10629132 CTAAAGCTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 20 0.56
23 11 0.31
24 5 0.14
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (23 bp):
GCCTTTGTGGCGTATTCTATTTG
Found at i:10634293 original size:45 final size:41
Alignment explanation
Indices: 10634234--10634343 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
10634224 TTTGGTTCGC
* *
10634234 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
10634276 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
10634319 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
10634344 TGATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:10634510 original size:18 final size:17
Alignment explanation
Indices: 10634489--10634523 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10634479 TTATTATTAG
*
10634489 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10634507 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10634524 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10634914 original size:14 final size:15
Alignment explanation
Indices: 10634865--10634916 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10634855 NNAAAATATA
10634865 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
10634880 TATTAAATATATTAT
1 AATTAAATATATTAT
10634895 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
10634908 AATTTAATA
1 AATTAAATA
10634917 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10638424 original size:13 final size:14
Alignment explanation
Indices: 10638393--10638434 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
10638383 ATGTGAAGAA
10638393 TATTATTTAAAATTAT
1 TATT-TTTAAAA-TAT
10638409 TATTTTTAAAAT-T
1 TATTTTTAAAATAT
*
10638422 TATTCTTAAAATA
1 TATTTTTAAAATA
10638435 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:10638561 original size:16 final size:17
Alignment explanation
Indices: 10638524--10638565 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
10638514 ATATGTATGT
10638524 TTAATAATA-TTTATAA
1 TTAATAATATTTTATAA
10638540 TT-ATAATATTTTAT-A
1 TTAATAATATTTTATAA
10638555 TTAATAA-ATTT
1 TTAATAATATTT
10638566 AAATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAATATTTTATAA
Found at i:10644740 original size:10 final size:10
Alignment explanation
Indices: 10644722--10644759 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
10644712 AGGGTCATAG
10644722 TATTTAATTA
1 TATTTAATTA
*
10644732 TAATTAATTA
1 TATTTAATTA
10644742 TTATTTAATTA
1 -TATTTAATTA
10644753 TATTTAA
1 TATTTAA
10644760 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTAATTA
Found at i:10645476 original size:26 final size:26
Alignment explanation
Indices: 10645447--10645499 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
10645437 GGATTATTAC
10645447 AATGCTTCATCAGAGTCTCTATTTAT
1 AATGCTTCATCAGAGTCTCTATTTAT
*
10645473 AATGCTTTATCAGAGTCTCTATTTAT
1 AATGCTTCATCAGAGTCTCTATTTAT
10645499 A
1 A
10645500 GGCATAAGAA
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:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (26 bp):
AATGCTTCATCAGAGTCTCTATTTAT
Found at i:10649409 original size:34 final size:32
Alignment explanation
Indices: 10649362--10649462 Score: 117
Period size: 34 Copynumber: 3.3 Consensus size: 32
10649352 ATTCATAACA
*
10649362 AAAATTATT-TTTTTGAAAATATAAAATTATT
1 AAAATTATTATTTTTTAAAATATAAAATTATT
10649393 AAAATTATTATATTTTTTAAAATATAAAATTATT
1 AAAATTA-T-TATTTTTTAAAATATAAAATTATT
*
10649427 ---A-TATT-TTTTTT-AAATATAAAATTTTT
1 AAAATTATTATTTTTTAAAATATAAAATTATT
10649453 AAAATTATTA
1 AAAATTATTA
10649463 AATAATTTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
26 14 0.23
27 6 0.10
28 1 0.02
29 2 0.03
30 6 0.10
31 8 0.13
32 1 0.02
33 1 0.02
34 21 0.35
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
AAAATTATTATTTTTTAAAATATAAAATTATT
Found at i:10649631 original size:15 final size:15
Alignment explanation
Indices: 10649594--10649635 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
10649584 TCGAAGTTAA
*
10649594 AAACCTGAGTTTTTG
1 AAACCTGTGTTTTTG
10649609 AAACCTGTGTTTTTG
1 AAACCTGTGTTTTTG
10649624 AAACCTGT-TTTT
1 AAACCTGTGTTTT
10649636 AAAAACCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (15 bp):
AAACCTGTGTTTTTG
Found at i:10651141 original size:9 final size:9
Alignment explanation
Indices: 10651127--10651163 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10651117 TATAATTTGA
10651127 TATTCGAAT
1 TATTCGAAT
10651136 TATTCGAAT
1 TATTCGAAT
*
10651145 TATTCGAGT
1 TATTCGAAT
10651154 TATTCGAAT
1 TATTCGAAT
10651163 T
1 T
10651164 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10651504 original size:43 final size:44
Alignment explanation
Indices: 10651427--10651510 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
10651417 GGGACTTGGG
* *
10651427 GGAGGAGGAGGATGAACAATGGAAAGAAACAATGGATATGACTT
1 GGAGGAGGAGGACGAACAATGGAAAGAAACAATGGAGATGACTT
* *
10651471 GGAGGAGGAGGACGAA-GATGGAAAGAAATAATGGAGATGA
1 GGAGGAGGAGGACGAACAATGGAAAGAAACAATGGAGATGA
10651511 TGATGATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 21 0.58
44 15 0.42
ACGTcount: A:0.44, C:0.05, G:0.38, T:0.13
Consensus pattern (44 bp):
GGAGGAGGAGGACGAACAATGGAAAGAAACAATGGAGATGACTT
Found at i:10662297 original size:27 final size:26
Alignment explanation
Indices: 10662230--10662304 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
10662220 GGCTCGGCCC
* * * *
10662230 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAAT
10662256 ATTTTAAAAATAAAAAATAAAAAAAT
1 ATTTTAAAAATAAAAAATAAAAAAAT
**
10662282 ATTTTAAATTTAAAAAATAAAAA
1 ATTTTAAAAATAAAAAATAAAAA
10662305 TAAAGTGGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATAAAAAAAT
Found at i:10680066 original size:33 final size:33
Alignment explanation
Indices: 10680040--10680178 Score: 199
Period size: 33 Copynumber: 4.2 Consensus size: 33
10680030 ATCCCTCCAG
*
10680040 CACACCAATGCTCAGAAGAGCTAATCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
10680073 CACACCAATGCTTATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* * *
10680106 CACACTAGTGCTCATAAGAGCTAATCCAACCAT
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
* *
10680139 CACA-CAGTGCTCATAAGAGCTAGTCCAACCAA
1 CACACCAATGCTCATAAGAGCTAATCCAACCAA
10680171 CACACCAA
1 CACACCAA
10680179 ACAGAGAGTA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
32 29 0.31
33 66 0.69
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.17
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAATCCAACCAA
Found at i:10680118 original size:66 final size:65
Alignment explanation
Indices: 10680048--10680175 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 65
10680038 AGCACACCAA
* *
10680048 TGCTCAGAAGAGCTAATCCAACCAACACACCAATGCTTATAAGAGCTAATCCAACCATCACACTA
1 TGCTCAGAAGAGCTAATCCAACCAACACA-CAATGCTCATAAGAGCTAATCCAACCAACACACTA
10680113 G
65 G
* * * *
10680114 TGCTCATAAGAGCTAATCCAACCATCACACAGTGCTCATAAGAGCTAGTCCAACCAACACAC
1 TGCTCAGAAGAGCTAATCCAACCAACACACAATGCTCATAAGAGCTAATCCAACCAACACAC
10680176 CAAACAGAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 29 0.52
66 27 0.48
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.18
Consensus pattern (65 bp):
TGCTCAGAAGAGCTAATCCAACCAACACACAATGCTCATAAGAGCTAATCCAACCAACACACTAG
Found at i:10694331 original size:49 final size:50
Alignment explanation
Indices: 10694212--10694401 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 50
10694202 GATGAGATCT
* * * *
10694212 CATGTAAGACCATGTTTGGAACATGACATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
*
10694268 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * **
10694318 C-CGTAAGACCATGTCTGGGACATGGCATAGGCATCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* *
10694367 CATGTAAGACCATATCTGGGATATGGCATTGGCAC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCAC
10694402 TACAAGAAAC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 42 0.36
50 40 0.34
53 3 0.03
55 1 0.01
56 30 0.26
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:10694434 original size:49 final size:50
Alignment explanation
Indices: 10694265--10694439 Score: 176
Period size: 49 Copynumber: 3.5 Consensus size: 50
10694255 TTATGAGAGG
* * * * * **
10694265 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATAGGCATCGACAAGAGAAC
* * *
10694315 TCCC-CGTAAGACCATGTCTGGGACATGGCATAGGCATCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATAGGCATCGACAAGAGAAC
* * * *
10694364 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-CTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATAGGCATCGACAAGAGAAC
* *
10694412 ATTCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
10694440 AACTTTGGCA
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.03
49 70 0.67
50 32 0.30
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATAGGCATCGACAAGAGAAC
Found at i:10705909 original size:21 final size:20
Alignment explanation
Indices: 10705885--10705928 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10705875 AAAGGGGGCG
10705885 CACGTGCGCAGAGGCTCGGCA
1 CACG-GCGCAGAGGCTCGGCA
*
10705906 CAC-GCGCGGAGGCTCGGCA
1 CACGGCGCAGAGGCTCGGCA
10705925 CACG
1 CACG
10705929 CAGAGGGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 18 0.86
21 3 0.14
ACGTcount: A:0.18, C:0.36, G:0.39, T:0.07
Consensus pattern (20 bp):
CACGGCGCAGAGGCTCGGCA
Found at i:10705912 original size:19 final size:19
Alignment explanation
Indices: 10705890--10705929 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10705880 GGGCGCACGT
10705890 GCGCAGAGGCTCGGCACAC
1 GCGCAGAGGCTCGGCACAC
*
10705909 GCGCGGAGGCTCGGCACAC
1 GCGCAGAGGCTCGGCACAC
10705928 GC
1 GC
10705930 AGAGGGCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.38, G:0.40, T:0.05
Consensus pattern (19 bp):
GCGCAGAGGCTCGGCACAC
Found at i:10714323 original size:50 final size:49
Alignment explanation
Indices: 10714268--10714461 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 49
10714258 CATTGAGATT
* * *
10714268 ATGAGAGATCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
* ** * * *
10714318 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCATCGAT
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
* * *
10714368 ATGAGAGCTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTAC
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AC
* * * *
10714417 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10714462 TGTTATTATC
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.33
50 79 0.66
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGAC
Found at i:10719103 original size:45 final size:45
Alignment explanation
Indices: 10719039--10719139 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
10719029 TTAGGTTGGA
* * *
10719039 TTTGGTATGCTGGTGTTGATTTTTGCTTATTGTTTTAAGGTCGAT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
* * *
10719084 TTTGGTATGTTGATATTGATTTTTGCTTATTATTTTAAGGTTGGT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
*
10719129 TTTTGTATGCT
1 TTTGGTATGCT
10719140 AAAATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.15, C:0.05, G:0.24, T:0.56
Consensus pattern (45 bp):
TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
Found at i:10719151 original size:45 final size:45
Alignment explanation
Indices: 10719054--10719152 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
10719044 TATGCTGGTG
* * * *
10719054 TTGATTTTTGCTTATTGTTTTAAGGTCGATTTTGGTATGTTGATA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
* * *
10719099 TTGATTTTTGCTTATTATTTTAAGGTTGGTTTTTGTATGCTAAAA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
*
10719144 TTTATTTTT
1 TTGATTTTT
10719153 AGAAATTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.19, C:0.04, G:0.18, T:0.59
Consensus pattern (45 bp):
TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
Found at i:10721196 original size:50 final size:52
Alignment explanation
Indices: 10721133--10721277 Score: 215
Period size: 50 Copynumber: 2.8 Consensus size: 52
10721123 AGTGAAAGTG
*
10721133 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA
* * *
10721184 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA
* *
10721234 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
10721278 AACATCATTG
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
49 6 0.07
50 39 0.47
51 38 0.46
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA
Found at i:10721272 original size:26 final size:26
Alignment explanation
Indices: 10721191--10721272 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
10721181 GATAGGTCGC
10721191 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
10721217 ACGTGTA-T-CGAATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
10721242 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
10721268 ATGTG
1 ATGTG
10721273 AACCGAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:10721365 original size:45 final size:45
Alignment explanation
Indices: 10721274--10721368 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
10721264 TACTATGTGA
* * *
10721274 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGTTAAATCC
*
10721319 ACCGAACATTATTGATTAATAAAGTGGTTGCTATGT-TCTAAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGT-TAAATCC
10721364 ACCGA
1 ACCGA
10721369 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGTTAAATCC
Found at i:10738632 original size:17 final size:18
Alignment explanation
Indices: 10738610--10738646 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10738600 ATGAAGTGTA
10738610 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
10738627 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
10738645 AA
1 AA
10738647 AATAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:10740644 original size:132 final size:132
Alignment explanation
Indices: 10740279--10740627 Score: 488
Period size: 132 Copynumber: 2.6 Consensus size: 132
10740269 TTCCCTACTA
* * * * *
10740279 TCTTGGGAAGATAATATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATTTAC
1 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAG-ATCTAC
* * * *
10740344 AATCTT-TGACCTATTCAACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
65 AATCTTCTAACCTATTCCACTACTACTTAGGGAGATAGAACTAATGACTTAAATCTGCTTCTCCA
10740408 CTG
130 CTG
*
10740411 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGATTCTAC
1 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-TCTAC
* *
10740476 AATCTTC-AACCTACTCCACTACTACTTAGGGAGATAGAACTAATGACTTAAATCTGCTTCTCCG
65 AATCTTCTAACCTATTCCACTACTACTTAGGGAGATAGAACTAATGACTTAAATCTGCTTCTCCA
*
10740540 TTG
130 CTG
* * * *
10740543 TCTTGGGAAGATAAGATTCACTATCTTCGATCTGCTCCGCTGCTGCTTAGGAAGACAAGATCTAC
1 TCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAC-AGATCTAC
*
10740608 AAT-TTCTAATCTATTCCACT
65 AATCTTCTAACCTATTCCACT
10740628 GCTGGCCAGG
Statistics
Matches: 193, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
131 4 0.02
132 186 0.96
133 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
TCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGATCTACA
ATCTTCTAACCTATTCCACTACTACTTAGGGAGATAGAACTAATGACTTAAATCTGCTTCTCCAC
TG
Found at i:10740714 original size:88 final size:88
Alignment explanation
Indices: 10740654--10742321 Score: 2505
Period size: 88 Copynumber: 19.0 Consensus size: 88
10740644 GGATTTGTAA
* *
10740654 CTTCGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10740719 ACCGAG-GAAGGCAAGGTTTGTGT
66 ACCGAGAG-AGGCAAGGTTTGTGT
* * * **
10740742 CTTCGATCTGCTTCGTTGTCAATGCAGGAAGGTAAGATTTGTTGTCTTCAACCAGCTCTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
10740807 ATCGAGTGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
10740830 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
10740895 ACCGAGAGAGGCGACGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
10740918 CTTCGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCGGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
10740983 ACTGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * **
10741006 CTTCGATCTACTTCGCTATCAATGCAGGAAGGCAATATCTGTTGTCTTCAACTGGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741071 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
10741094 CTTCGATCTACTTCGCTATCAATGCAGGAAGGCAACATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741159 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* *
10741182 CTTCGATCTGCTTCGCTGCCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741247 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * * *
10741270 CTTCAATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTTTTGCCTTCAACCAACTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741335 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * * * *
10741358 CTTCAATCTGCTTTGCTGTCAAGGCAGGAAGGGAAGATCTGTTATTTTCAACCAGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741423 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
10741446 CTTCAATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741511 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
10741534 CTTCGATCTACTTCACTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
10741599 ATCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * ***
10741622 CTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTTTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
10741687 ACCGAG-GAAGGTAAGGTTTGTGT
66 ACCGAGAG-AGGCAAGGTTTGTGT
** * * *
10741710 CTTCGATCTGCTTCATTGTCAATGCAGGAAGGAAAGATCTGTTGCCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741775 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * *
10741798 CTTCAATCTGCTTTGCTGTCAAGGCAGGAAGGTAAGATCTGTTATCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741863 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * * * *
10741886 CTTCAATCTACTTTGCTGTTAATGTAGGAAGGCAATATCTGTTGTCTTCAACTAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10741951 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * *
10741974 CTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
10742039 ATCGAGAGAGGCAAGGCTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* *
10742062 CTTCGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
10742127 ACCGAGAGAGGCAAGGTTTGTAT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * **
10742150 CTTCAATCTGCTTCGCTGTCAAGGCAGGAACGCAAGATCTGTTGTCTTCAACCAGCTCTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
10742215 ACCGAGAGAGGCAATGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
10742238 CTTCGATCTGCTTCGCTGTCGATGCAGGAAGGAAAGATCTGTTGTCTTCAA-CAACTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
10742302 ACCGAGAGAGGCAAGGTTTG
66 ACCGAGAGAGGCAAGGTTTG
10742322 GGCTTGTAAC
Statistics
Matches: 1443, Mismatches: 134, Indels: 7
0.91 0.08 0.00
Matches are distributed among these distances:
87 30 0.02
88 1411 0.98
89 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
ACCGAGAGAGGCAAGGTTTGTGT
Found at i:10751868 original size:16 final size:16
Alignment explanation
Indices: 10751828--10751868 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10751818 CGTTTGGTTT
10751828 ATTGTAATGGAATAAA
1 ATTGTAATGGAATAAA
** *
10751844 GCTGCAATGGAATAAA
1 ATTGTAATGGAATAAA
10751860 ATTGTAATG
1 ATTGTAATG
10751869 AAATTGAGCT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (16 bp):
ATTGTAATGGAATAAA
Found at i:10751879 original size:32 final size:32
Alignment explanation
Indices: 10751828--10751889 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
10751818 CGTTTGGTTT
* *
10751828 ATTGTAATGGAATAAAGCTGCAATGGAATAAA
1 ATTGTAATGAAATAAAGCTGCAATAGAATAAA
** *
10751860 ATTGTAATGAAATTGAGCTGTAATAGAATA
1 ATTGTAATGAAATAAAGCTGCAATAGAATA
10751890 GACCTGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (32 bp):
ATTGTAATGAAATAAAGCTGCAATAGAATAAA
Found at i:10752223 original size:5 final size:5
Alignment explanation
Indices: 10752213--10752248 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
10752203 TGAGCATTCG
10752213 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
10752249 AATTTTCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:10753237 original size:61 final size:61
Alignment explanation
Indices: 10753171--10753318 Score: 160
Period size: 58 Copynumber: 2.4 Consensus size: 61
10753161 TTTTAATAGG
** *
10753171 ATTATTATTAAATATAATTTAATAAAAGCAATAATACATAATTTAATCCTATT-TTAATAAT
1 ATTATTATTAAATATAATTTAATAAAA-CAATAATACATAATTTAATAATATTCTTAATAAA
* * * * *
10753232 TTTATTACTAAATATAATTT-A-ACAATAATAATATATAATTTAATAATATTCTTAATAAA
1 ATTATTATTAAATATAATTTAATAAAACAATAATACATAATTTAATAATATTCTTAATAAA
*
10753291 ATAATTATTAAAGTATGAA-TTAATAAAA
1 ATTATTATTAAA-TAT-AATTTAATAAAA
10753319 ATAATATTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
58 21 0.30
59 19 0.27
60 6 0.09
61 21 0.30
62 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (61 bp):
ATTATTATTAAATATAATTTAATAAAACAATAATACATAATTTAATAATATTCTTAATAAA
Found at i:10758003 original size:2 final size:2
Alignment explanation
Indices: 10757998--10758023 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10757988 CTATTATTCG
10757998 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10758024 ACTTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10771091 original size:9 final size:9
Alignment explanation
Indices: 10771073--10771118 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
10771063 AATAATAATT
*
10771073 AAAATTTTA
1 AAAATATTA
10771082 AAAATATTA
1 AAAATATTA
10771091 AAAAT-TTA
1 AAAATATTA
10771099 AAAATA--A
1 AAAATATTA
*
10771106 AAAAAATTA
1 AAAATATTA
10771115 AAAA
1 AAAA
10771119 AAAAGTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 6 0.19
8 8 0.25
9 18 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATATTA
Found at i:10771092 original size:17 final size:17
Alignment explanation
Indices: 10771070--10771118 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
10771060 AGTAATAATA
*
10771070 ATTAAAATTTTAAAAAT
1 ATTAAAAATTTAAAAAT
10771087 ATTAAAAATTTAAAAAT
1 ATTAAAAATTTAAAAAT
* *
10771104 A-AAAAAAATTAAAAA
1 ATTAAAAATTTAAAAA
10771119 AAAAGTGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAAATTTAAAAAT
Found at i:10771102 original size:8 final size:8
Alignment explanation
Indices: 10771071--10771118 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
10771061 GTAATAATAA
*
10771071 TTAAAATT
1 TTAAAAAT
10771079 TTAAAAAT
1 TTAAAAAT
10771087 ATTAAAAAT
1 -TTAAAAAT
10771096 TTAAAAAT
1 TTAAAAAT
** *
10771104 AAAAAAAA
1 TTAAAAAT
10771112 TTAAAAA
1 TTAAAAA
10771119 AAAAGTGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
TTAAAAAT
Found at i:10787838 original size:19 final size:19
Alignment explanation
Indices: 10787814--10787851 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10787804 TGCAAATGAA
10787814 TCATTTCTCATTTT-ATTTT
1 TCATTTCT-ATTTTCATTTT
10787833 TCATTTCTATTTTCATTTT
1 TCATTTCTATTTTCATTTT
10787852 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (19 bp):
TCATTTCTATTTTCATTTT
Found at i:10790293 original size:27 final size:27
Alignment explanation
Indices: 10790263--10790316 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
10790253 TACATGACCA
10790263 TTCTTTAGCATATTTTCATGTTAACTC
1 TTCTTTAGCATATTTTCATGTTAACTC
10790290 TTCTTTAGCATATTTTCATGTTAACTC
1 TTCTTTAGCATATTTTCATGTTAACTC
10790317 CATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (27 bp):
TTCTTTAGCATATTTTCATGTTAACTC
Found at i:10791759 original size:21 final size:21
Alignment explanation
Indices: 10791729--10791775 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10791719 AATTAAAACT
*
10791729 TTTAAAAAATTGCAAGAGA-A
1 TTTAAAAAATTGCAAAAGAGA
*
10791749 TTTACAAAAATTTCAAAAGAGA
1 TTTA-AAAAATTGCAAAAGAGA
10791771 TTTAA
1 TTTAA
10791776 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (21 bp):
TTTAAAAAATTGCAAAAGAGA
Found at i:10792408 original size:6 final size:6
Alignment explanation
Indices: 10792397--10792447 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
10792387 ACAACAATGA
*
10792397 CTCACT CTCACT CTCACT CTCACT CTCACT CTCACT CGCACT CTCACT
1 CTCACT CTCACT CTCACT CTCACT CTCACT CTCACT CTCACT CTCACT
10792445 CTC
1 CTC
10792448 TTACATGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.51, G:0.02, T:0.31
Consensus pattern (6 bp):
CTCACT
Found at i:10793709 original size:7 final size:7
Alignment explanation
Indices: 10793697--10793721 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10793687 CCTATACTCT
10793697 TTTAAAA
1 TTTAAAA
10793704 TTTAAAA
1 TTTAAAA
10793711 TTTAAAA
1 TTTAAAA
10793718 TTTA
1 TTTA
10793722 GTCTCCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:10793967 original size:17 final size:17
Alignment explanation
Indices: 10793945--10793994 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
10793935 TTTTTTCCAA
10793945 TAAAAATTCTAAAATTT
1 TAAAAATTCTAAAATTT
* *
10793962 TAAAAA-TATATAATTT
1 TAAAAATTCTAAAATTT
10793978 TGAAAAATTC-AAAATTT
1 T-AAAAATTCTAAAATTT
10793995 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAAATTCTAAAATTT
Found at i:10795323 original size:12 final size:12
Alignment explanation
Indices: 10795306--10795358 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
10795296 ATGGTTGCCC
*
10795306 TCATCATTGTCA
1 TCATCATTATCA
10795318 TCATCATTATCA
1 TCATCATTATCA
* * *
10795330 TTATCATCAACA
1 TCATCATTATCA
*
10795342 TCATCGTTATCA
1 TCATCATTATCA
10795354 TCATC
1 TCATC
10795359 TTCTACTTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:10795331 original size:18 final size:18
Alignment explanation
Indices: 10795306--10795358 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
10795296 ATGGTTGCCC
*
10795306 TCATCATTGTCATCATCA
1 TCATCATTATCATCATCA
* *
10795324 TTATCATTATCATCAACA
1 TCATCATTATCATCATCA
*
10795342 TCATCGTTATCATCATC
1 TCATCATTATCATCATC
10795359 TTCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:10797163 original size:6 final size:6
Alignment explanation
Indices: 10797152--10797178 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10797142 AATTTAGCCT
10797152 TTGGCA TTGGCA TTGGCA TTGGCA TTG
1 TTGGCA TTGGCA TTGGCA TTGGCA TTG
10797179 CTCAAAGGTG
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:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (6 bp):
TTGGCA
Found at i:10804075 original size:22 final size:22
Alignment explanation
Indices: 10804045--10804096 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
10804035 AGGTGTTAAA
*
10804045 ACAACGAAAGAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
*
10804067 ACAATGAAAAAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
10804089 ACAACGAA
1 ACAACGAA
10804097 CCCAAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (22 bp):
ACAACGAAAAAGTTGTCTGAGT
Found at i:10806198 original size:23 final size:25
Alignment explanation
Indices: 10806172--10806218 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10806162 TTTAAAATTT
*
10806172 AAAA-TTATTAAA-AACTTATAAAC
1 AAAATTTATAAAATAACTTATAAAC
*
10806195 AAAATTTATAAAATAAGTTATAAA
1 AAAATTTATAAAATAACTTATAAA
10806219 ATTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATTTATAAAATAACTTATAAAC
Done.