Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 44 of 253
Found at i:11507565 original size:64 final size:63
Alignment explanation
Indices: 11507447--11507627 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
11507437 GCAAACAAAC
*
11507447 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
11507508 T
63 T
11507509 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
11507573 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
11507628 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:11515738 original size:21 final size:20
Alignment explanation
Indices: 11515714--11515763 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
11515704 TGCTAATAAT
11515714 AATATAAATAAATACAAAAAA
1 AATATAAATAAA-ACAAAAAA
* **
11515735 AATATACAATATAACAAAACC
1 AATATA-AATAAAACAAAAAA
11515756 AATATAAA
1 AATATAAA
11515764 GTTACCTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AATATAAATAAAACAAAAAA
Found at i:11516855 original size:23 final size:23
Alignment explanation
Indices: 11516824--11516874 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
11516814 TAGATTTGAG
* *
11516824 AAGAGAAAAAAA-AGAAAATACAA
1 AAGAAAAAAAAATAAAAAAT-CAA
11516847 AAGAAAAAAAAATAAAAAATCAA
1 AAGAAAAAAAAATAAAAAATCAA
11516870 AAGAA
1 AAGAA
11516875 CCAAGAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (23 bp):
AAGAAAAAAAAATAAAAAATCAA
Found at i:11516865 original size:17 final size:18
Alignment explanation
Indices: 11516832--11516865 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11516822 AGAAGAGAAA
*
11516832 AAAAAGAAAATACAAAAG
1 AAAAAGAAAATAAAAAAG
11516850 AAAAA-AAAATAAAAAA
1 AAAAAGAAAATAAAAAA
11516866 TCAAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.03, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAATAAAAAAG
Found at i:11517636 original size:44 final size:44
Alignment explanation
Indices: 11517564--11517688 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
11517554 CCATGCTGAA
* * * * * * *
11517564 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTTCT
1 ATCTTCGATTTG-TTCCCTATAAACACAGGAATGCCAAATCTGCT
*
11517609 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCT
1 ATCTTCGATTTGTTCCCTATAAACACAGGAATGCCAAATCTGCT
* * * * *
11517653 AT-TTCCAACTTGTTCCCTATAAGCTCAGGGATGCCA
1 ATCTT-CGATTTGTTCCCTATAAACACAGGAATGCCA
11517689 TGCTGATCTC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
43 2 0.03
44 54 0.81
45 11 0.16
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTTCGATTTGTTCCCTATAAACACAGGAATGCCAAATCTGCT
Found at i:11518136 original size:205 final size:205
Alignment explanation
Indices: 11517771--11518481 Score: 1065
Period size: 205 Copynumber: 3.5 Consensus size: 205
11517761 GGGAACATCC
* * * *
11517771 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT-G
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11517835 ATCTTGCTTCAGTATAAACATCTGAAGATC-AGGTCTGCTATGTATCTGCTCTCCATTGAAA-TG
66 ATC-TGCTTCAGTATAAACATCTGAAG-GCGAGATCTGCTATGTGTCTGCTCTCCA-TCAAAGTG
* * * * *
11517898 GAGATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGACGACAAATCATCTTAGATTTGTTTC
128 AAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTC
* *
11517963 AACGTAAACACGT
193 ATCGTAATCACGT
* *
11517976 GAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATTCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11518041 ATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTTCATCAAAGTGAAG
66 ATCTGCTTCAGTATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* *
11518106 ATGCCAAACTTCGATTCGTTATCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
11518171 GTAATCACGT
196 GTAATCACGT
*
11518181 GAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
11518246 ATCTGCTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAGT-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
11518310 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
*
11518375 CGTAATCATGT
195 CGTAATCACGT
* *
11518386 GAAAGTCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
11518451 A-CTGTTTCAGTAT-AACATCTGAAGGCCAGAT
66 ATCTGCTTCAGTATAAACATCTGAAGGCGAGAT
11518482 TTGTTATGCT
Statistics
Matches: 459, Mismatches: 42, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
203 16 0.03
204 14 0.03
205 424 0.92
206 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAATCACGT
Found at i:11526536 original size:15 final size:14
Alignment explanation
Indices: 11526494--11526543 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11526484 ATAACTTTGA
*
11526494 ATGCAAATGATGTG
1 ATGCAAATGATGAG
11526508 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
11526523 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
11526537 ATGCAAA
1 ATGCAAA
11526544 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:11529860 original size:27 final size:26
Alignment explanation
Indices: 11529789--11529944 Score: 95
Period size: 26 Copynumber: 6.0 Consensus size: 26
11529779 TAAAAAGGTC
*
11529789 TAAAATAAATAATATATATAAT-A-T
1 TAAAATAAAAAATATATATAATAATT
* * * *
11529813 TAAAGTGAATAATATACATAATAATT
1 TAAAATAAAAAATATATATAATAATT
*
11529839 TAAAATACAAAAATGTATATAA-AAGTT
1 TAAAATA-AAAAATATATATAATAA-TT
* * *
11529866 TCAAAATAAACAATATGTATAATAGTT
1 T-AAAATAAAAAATATATATAATAATT
* * * * *
11529893 TAAAAGAAATAACATATGTAA-AATA
1 TAAAATAAAAAATATATATAATAATT
* *
11529918 AAATAATATAAAATATATGATAATAAT
1 TAA-AATAAAAAATATAT-ATAATAAT
11529945 AATGGTAATA
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
24 19 0.19
25 5 0.05
26 33 0.34
27 31 0.32
28 10 0.10
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAAATAAAAAATATATATAATAATT
Found at i:11529980 original size:20 final size:20
Alignment explanation
Indices: 11529957--11530005 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
11529947 TGGTAATAAT
11529957 AATATAAATAAATACAAAA-A
1 AATATAAATAAA-ACAAAACA
* *
11529977 AATATACAATATAACAAAACC
1 AATATA-AATAAAACAAAACA
11529998 AATATAAA
1 AATATAAA
11530006 GTTACCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AATATAAATAAAACAAAACA
Found at i:11531093 original size:16 final size:17
Alignment explanation
Indices: 11531064--11531110 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
11531054 TCGAGAAGAG
11531064 AAAAAAAAATAAAATAC
1 AAAAAAAAATAAAATAC
*
11531081 AAAAGAAAA-AAAATA-
1 AAAAAAAAATAAAATAC
*
11531096 AATAAAAAATCAAAA
1 AAAAAAAAAT-AAAA
11531111 GAACCAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 12 0.48
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAAAAAAATAAAATAC
Found at i:11531098 original size:20 final size:20
Alignment explanation
Indices: 11531065--11531103 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11531055 CGAGAAGAGA
11531065 AAAAAAAATAAAATACAAAAG
1 AAAAAAAATAAAATA-AAAAG
11531086 AAAAAAAAT-AAATAAAAA
1 AAAAAAAATAAAATAAAAA
11531104 ATCAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (20 bp):
AAAAAAAATAAAATAAAAAG
Found at i:11531103 original size:26 final size:24
Alignment explanation
Indices: 11531059--11531113 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
11531049 CAAATTCGAG
*
11531059 AAGAGAAAAAAAAAT-AAAATACAA
1 AAGAAAAAAAAAAATAAAAAT-CAA
11531083 AAGAAAAAAAATAAATAAAAAATCAA
1 AAGAAAAAAAA-AAAT-AAAAATCAA
11531109 AAGAA
1 AAGAA
11531114 CCAAGAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 10 0.37
25 4 0.15
26 8 0.30
27 5 0.19
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (24 bp):
AAGAAAAAAAAAAATAAAAATCAA
Found at i:11531110 original size:20 final size:21
Alignment explanation
Indices: 11531065--11531104 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11531055 CGAGAAGAGA
*
11531065 AAAAAAAATAAAATACAAAAG
1 AAAAAAAATAAAATAAAAAAG
11531086 AAAAAAAAT-AAATAAAAAA
1 AAAAAAAATAAAATAAAAAA
11531105 TCAAAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAAAAATAAAATAAAAAAG
Found at i:11531110 original size:21 final size:21
Alignment explanation
Indices: 11531065--11531110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11531055 CGAGAAGAGA
* *
11531065 AAAAAAAATAAAATACAAAAG
1 AAAAAAAATAAAATAAAAAAC
11531086 AAAAAAAAT-AAATAAAAAATC
1 AAAAAAAATAAAATAAAAAA-C
11531107 AAAA
1 AAAA
11531111 GAACCAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAAAAATAAAATAAAAAAC
Found at i:11531766 original size:13 final size:13
Alignment explanation
Indices: 11531748--11531772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11531738 GAGTTTTGAG
11531748 TTCTTCGATCTGC
1 TTCTTCGATCTGC
11531761 TTCTTCGATCTG
1 TTCTTCGATCTG
11531773 TTCACAGAGA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:11532369 original size:205 final size:204
Alignment explanation
Indices: 11532002--11532708 Score: 1044
Period size: 205 Copynumber: 3.5 Consensus size: 204
11531992 AGGAACATCC
* * * * *
11532002 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11532067 ATCTTGTTTCAGTATAAACATCTGAA-GATCAGGTCTGCTATGTATCTGCTCTCCATTGAAA-TG
66 ATC-TGCTTCAGTATAAACATCTGAAGGA--AGATCTGCTATGTGTCTGCTCTCCA-TCAAAGTG
* * *
11532130 AAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTC
127 AAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTC
* *
11532195 AACGTAAACACGT
192 ATCGTAATCACGT
* *
11532208 GAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATTCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11532273 ATCCGCTTCAGCATAAACATCCGAAGGAGAGATCTGCTATGTGTCTGCTCTTCATCAAAGTGAAG
66 ATCTGCTTCAGTATAAACATCTGAAGGA-AGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* * *
11532338 ATGCCAAACTTTGATTCGTTCTCTAACAATACAGAGACGGCAAATCATCTTAGATTTGCTTCATC
130 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
11532403 GTAATCACGT
195 GTAATCACGT
* * *
11532413 GAAAGCCAAATCAGCTCTGTCTTCAATTTGTTCCTTGCAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
11532478 ATCTGCTTCAGTGA-AATCATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAGT-ATAAACATCTGAAGG-AAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
11532542 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
129 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
*
11532607 CGTAATCATGT
194 CGTAATCACGT
* *
11532618 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCATTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
11532683 ATCTGTTTCAGTAT-AACATCTGAAGG
66 ATCTGCTTCAGTATAAACATCTGAAGG
11532709 CCAGATTTGT
Statistics
Matches: 451, Mismatches: 45, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
204 16 0.04
205 370 0.82
206 65 0.14
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (204 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
TGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
TAATCACGT
Found at i:11536847 original size:21 final size:21
Alignment explanation
Indices: 11536817--11536860 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11536807 TTTTCTAAAG
* *
11536817 GTATGTATTGGATTGAATTGA
1 GTATGAATTGGATTAAATTGA
*
11536838 GTATGAATTGTATTAAATTGA
1 GTATGAATTGGATTAAATTGA
11536859 GT
1 GT
11536861 TAAATTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (21 bp):
GTATGAATTGGATTAAATTGA
Found at i:11537235 original size:25 final size:25
Alignment explanation
Indices: 11537207--11537480 Score: 144
Period size: 25 Copynumber: 11.1 Consensus size: 25
11537197 TCTCGATAAT
11537207 TGGCTCTCATGAGCTTCCCGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
* *
11537232 TGGCTCTCACGAGCTTCCTGATTA-A
1 TGGCTCTCATGAGCTTCCCG-TTATA
* * *
11537257 TGGCT-TCTTGAGATTTCCGTT-TA
1 TGGCTCTCATGAGCTTCCCGTTATA
* *
11537280 TGGCTCGT-ATGAGCTTCTCGATA-A
1 TGGCTC-TCATGAGCTTCCCGTTATA
* **
11537304 TTGGCTCTCCA-GAGCTTTCCAATA-A
1 -TGGCTCT-CATGAGCTTCCCGTTATA
* *
11537329 TTGGCTCTCCA-GAGCTTTCCGATA-A
1 -TGGCTCT-CATGAGCTTCCCGTTATA
**
11537354 TTGGCTCTCATGAGCTTCTTGATTA-A
1 -TGGCTCTCATGAGCTTCCCG-TTATA
*
11537380 TGGCTCTCCA-GAGC-TCCTCGATAT-
1 TGGCTCT-CATGAGCTTCC-CGTTATA
*
11537404 TGGCTCGCATGAGCTTCCCGTT-TA
1 TGGCTCTCATGAGCTTCCCGTTATA
* * * **
11537428 TGACTTTTATGAGCTTCTAGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
* * *
11537453 TGGCTCACTTGAGCTTCCTGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
11537478 TGG
1 TGG
11537481 TTCGAAAGAG
Statistics
Matches: 194, Mismatches: 38, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
23 11 0.06
24 55 0.28
25 119 0.61
26 9 0.05
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCCGTTATA
Found at i:11537344 original size:50 final size:50
Alignment explanation
Indices: 11537196--11537420 Score: 177
Period size: 50 Copynumber: 4.6 Consensus size: 50
11537186 TCTTTCGAGT
**
11537196 TTCTCGATAATTGGCTCTCATGAGCTTC-CCGTTATATGGCTCT-CACGAGC
1 TTCTCGATAATTGGCTCTCATGAGCTTCTCCAATA-ATGGCTCTCCA-GAGC
* * ** *
11537246 TTC-CTGATTAA-TGGCT-TCTTGAGATT-TCCGTTTATGGCTCGT--ATGAGC
1 TTCTC-GA-TAATTGGCTCTCATGAGCTTCTCCAATAATGGCTC-TCCA-GAGC
11537294 TTCTCGATAATTGGCTCTCCA-GAGCTT-TCCAATAATTGGCTCTCCAGAGC
1 TTCTCGATAATTGGCTCT-CATGAGCTTCTCCAATAA-TGGCTCTCCAGAGC
** *
11537344 TT-TCCGATAATTGGCTCTCATGAGCTTCTTGATTAATGGCTCTCCAGAGC
1 TTCT-CGATAATTGGCTCTCATGAGCTTCTCCAATAATGGCTCTCCAGAGC
* *
11537394 TCCTCGAT-ATTGGCTCGCATGAGCTTC
1 TTCTCGATAATTGGCTCTCATGAGCTTC
11537421 CCGTTTATGA
Statistics
Matches: 146, Mismatches: 14, Indels: 31
0.76 0.07 0.16
Matches are distributed among these distances:
47 3 0.02
48 22 0.15
49 49 0.34
50 62 0.42
51 10 0.07
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (50 bp):
TTCTCGATAATTGGCTCTCATGAGCTTCTCCAATAATGGCTCTCCAGAGC
Found at i:11538928 original size:39 final size:39
Alignment explanation
Indices: 11538885--11539101 Score: 326
Period size: 39 Copynumber: 5.5 Consensus size: 39
11538875 CTTCGGAACT
* * ** * * *
11538885 TTAAGCCCGGATATATTTCCAGCACGTAACTTGCGAACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
*
11538924 TTAAGTCTGGATTATAATTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGA-TATAATTCCAGCATATAGCCTGCGGACC
*
11538964 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
*
11539003 TTAAGTCCGGATATAATTCCAGTATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
*
11539042 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
11539081 TTAAGTCCGGATATAATTCCA
1 TTAAGTCCGGATATAATTCCA
11539102 AATATCATGC
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 130 0.80
40 32 0.20
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
Found at i:11539582 original size:15 final size:14
Alignment explanation
Indices: 11539540--11539589 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11539530 ATAACTTTGA
*
11539540 ATGCAAATGATGTG
1 ATGCAAATGATGAG
11539554 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
11539569 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
11539583 ATGCAAA
1 ATGCAAA
11539590 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:11542904 original size:27 final size:26
Alignment explanation
Indices: 11542833--11542988 Score: 95
Period size: 26 Copynumber: 6.0 Consensus size: 26
11542823 TAAAAAGGTC
*
11542833 TAAAATAAATAATATATATAAT-A-T
1 TAAAATAAAAAATATATATAATAATT
* * * *
11542857 TAAAGTGAATAATATACATAATAATT
1 TAAAATAAAAAATATATATAATAATT
*
11542883 TAAAATACAAAAATGTATATAA-AAGTT
1 TAAAATA-AAAAATATATATAATAA-TT
* * *
11542910 TCAAAATAAACAATATGTATAATAGTT
1 T-AAAATAAAAAATATATATAATAATT
* * * * *
11542937 TAAAAGAAATAACATATGTAA-AATA
1 TAAAATAAAAAATATATATAATAATT
* *
11542962 AAATAATATAAAATATATGATAATAAT
1 TAA-AATAAAAAATATAT-ATAATAAT
11542989 AATGGTAATA
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
24 19 0.19
25 5 0.05
26 33 0.34
27 31 0.32
28 10 0.10
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAAATAAAAAATATATATAATAATT
Found at i:11543024 original size:20 final size:20
Alignment explanation
Indices: 11543001--11543049 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
11542991 TGGTAATAAT
11543001 AATATAAATAAATACAAAA-A
1 AATATAAATAAA-ACAAAACA
* *
11543021 AATATACAATATAACAAAACC
1 AATATA-AATAAAACAAAACA
11543042 AATATAAA
1 AATATAAA
11543050 GTTACCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AATATAAATAAAACAAAACA
Found at i:11544810 original size:13 final size:13
Alignment explanation
Indices: 11544792--11544816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11544782 GAGTTTTGAG
11544792 TTCTTCGATCTGC
1 TTCTTCGATCTGC
11544805 TTCTTCGATCTG
1 TTCTTCGATCTG
11544817 TTCACAGAGA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:11545412 original size:205 final size:204
Alignment explanation
Indices: 11545046--11545752 Score: 1044
Period size: 205 Copynumber: 3.5 Consensus size: 204
11545036 AGGAACATCC
* * * * *
11545046 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11545111 ATCTTGTTTCAGTATAAACATCTGAA-GATCAGGTCTGCTATGTATCTGCTCTCCATTGAAA-TG
66 ATC-TGCTTCAGTATAAACATCTGAAGGA--AGATCTGCTATGTGTCTGCTCTCCA-TCAAAGTG
* * * *
11545174 GAGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTC
127 AAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTC
* *
11545239 AACGTAAACACGT
192 ATCGTAATCACGT
* *
11545252 GAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATTCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
11545317 ATCCGCTTCAGCATAAACATCCGAAGGAGAGATCTGCTATGTGTCTGCTCTTCATCAAAGTGAAG
66 ATCTGCTTCAGTATAAACATCTGAAGGA-AGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* *
11545382 ATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGGCAAATCATCTTAGATTTGCTTCATC
130 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
11545447 GTAATCACGT
195 GTAATCACGT
* * *
11545457 GAAAGCCAAATCAGCTCTGTCTTCAATTTGTTCCTTGCAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
11545522 ATCTGCTTCAGTGA-AATCATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAGT-ATAAACATCTGAAGG-AAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
11545586 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
129 GATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
*
11545651 CGTAATCATGT
194 CGTAATCACGT
* *
11545662 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCATTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
11545727 ATCTGTTTCAGTAT-AACATCTGAAGG
66 ATCTGCTTCAGTATAAACATCTGAAGG
11545753 CCAGATTTGT
Statistics
Matches: 452, Mismatches: 44, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
204 16 0.04
205 371 0.82
206 65 0.14
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (204 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
TGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
TAATCACGT
Found at i:11546263 original size:20 final size:20
Alignment explanation
Indices: 11546238--11546309 Score: 54
Period size: 23 Copynumber: 3.3 Consensus size: 20
11546228 AAAATAGAGT
11546238 TTGGTTATGGTTTGTTATAG
1 TTGGTTATGGTTTGTTATAG
** * *
11546258 TTGGTTGATATAATTTCTTGATGTG
1 TTGG-T--TATGGTTTGTT-AT-AG
11546283 CTTGGTTATGGTTTGTTATAG
1 -TTGGTTATGGTTTGTTATAG
11546304 TTGGTT
1 TTGGTT
11546310 GATATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 10 0.26
21 2 0.05
22 2 0.05
23 16 0.42
24 2 0.05
25 2 0.05
26 4 0.11
ACGTcount: A:0.15, C:0.03, G:0.28, T:0.54
Consensus pattern (20 bp):
TTGGTTATGGTTTGTTATAG
Found at i:11546291 original size:46 final size:46
Alignment explanation
Indices: 11546238--11546329 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
11546228 AAAATAGAGT
11546238 TTGGTTATGGTTTGTTATAGTTGGTTGATATAATTTCTTGATGTGC
1 TTGGTTATGGTTTGTTATAGTTGGTTGATATAATTTCTTGATGTGC
11546284 TTGGTTATGGTTTGTTATAGTTGGTTGATATAATTTCTTGATGTGC
1 TTGGTTATGGTTTGTTATAGTTGGTTGATATAATTTCTTGATGTGC
11546330 CAATTACATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.52
Consensus pattern (46 bp):
TTGGTTATGGTTTGTTATAGTTGGTTGATATAATTTCTTGATGTGC
Found at i:11549939 original size:21 final size:21
Alignment explanation
Indices: 11549909--11549952 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11549899 TTTTCTAAAG
* *
11549909 GTATGTATTGGATTGAATTGA
1 GTATGAATTGGATTAAATTGA
*
11549930 GTATGAATTGTATTAAATTGA
1 GTATGAATTGGATTAAATTGA
11549951 GT
1 GT
11549953 TAAATTCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (21 bp):
GTATGAATTGGATTAAATTGA
Found at i:11550327 original size:25 final size:25
Alignment explanation
Indices: 11550299--11550572 Score: 144
Period size: 25 Copynumber: 11.1 Consensus size: 25
11550289 TCTCGATAAT
11550299 TGGCTCTCATGAGCTTCCCGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
* *
11550324 TGGCTCTCACGAGCTTCCTGATTA-A
1 TGGCTCTCATGAGCTTCCCG-TTATA
* * *
11550349 TGGCT-TCTTGAGATTTCCGTT-TA
1 TGGCTCTCATGAGCTTCCCGTTATA
* *
11550372 TGGCTCGT-ATGAGCTTCTCGATA-A
1 TGGCTC-TCATGAGCTTCCCGTTATA
* **
11550396 TTGGCTCTCCA-GAGCTTTCCAATA-A
1 -TGGCTCT-CATGAGCTTCCCGTTATA
* *
11550421 TTGGCTCTCCA-GAGCTTTCCGATA-A
1 -TGGCTCT-CATGAGCTTCCCGTTATA
**
11550446 TTGGCTCTCATGAGCTTCTTGATTA-A
1 -TGGCTCTCATGAGCTTCCCG-TTATA
*
11550472 TGGCTCTCCA-GAGC-TCCTCGATAT-
1 TGGCTCT-CATGAGCTTCC-CGTTATA
*
11550496 TGGCTCGCATGAGCTTCCCGTT-TA
1 TGGCTCTCATGAGCTTCCCGTTATA
* * * **
11550520 TGACTTTTATGAGCTTCTAGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
* * *
11550545 TGGCTCACTTGAGCTTCCTGTTATA
1 TGGCTCTCATGAGCTTCCCGTTATA
11550570 TGG
1 TGG
11550573 TTCGAAAGAG
Statistics
Matches: 194, Mismatches: 38, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
23 11 0.06
24 55 0.28
25 119 0.61
26 9 0.05
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCCGTTATA
Found at i:11550436 original size:50 final size:50
Alignment explanation
Indices: 11550288--11550512 Score: 177
Period size: 50 Copynumber: 4.6 Consensus size: 50
11550278 TCTTTCGAGT
**
11550288 TTCTCGATAATTGGCTCTCATGAGCTTC-CCGTTATATGGCTCT-CACGAGC
1 TTCTCGATAATTGGCTCTCATGAGCTTCTCCAATA-ATGGCTCTCCA-GAGC
* * ** *
11550338 TTC-CTGATTAA-TGGCT-TCTTGAGATT-TCCGTTTATGGCTCGT--ATGAGC
1 TTCTC-GA-TAATTGGCTCTCATGAGCTTCTCCAATAATGGCTC-TCCA-GAGC
11550386 TTCTCGATAATTGGCTCTCCA-GAGCTT-TCCAATAATTGGCTCTCCAGAGC
1 TTCTCGATAATTGGCTCT-CATGAGCTTCTCCAATAA-TGGCTCTCCAGAGC
** *
11550436 TT-TCCGATAATTGGCTCTCATGAGCTTCTTGATTAATGGCTCTCCAGAGC
1 TTCT-CGATAATTGGCTCTCATGAGCTTCTCCAATAATGGCTCTCCAGAGC
* *
11550486 TCCTCGAT-ATTGGCTCGCATGAGCTTC
1 TTCTCGATAATTGGCTCTCATGAGCTTC
11550513 CCGTTTATGA
Statistics
Matches: 146, Mismatches: 14, Indels: 31
0.76 0.07 0.16
Matches are distributed among these distances:
47 3 0.02
48 22 0.15
49 49 0.34
50 62 0.42
51 10 0.07
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (50 bp):
TTCTCGATAATTGGCTCTCATGAGCTTCTCCAATAATGGCTCTCCAGAGC
Found at i:11552037 original size:40 final size:39
Alignment explanation
Indices: 11551977--11552115 Score: 188
Period size: 39 Copynumber: 3.5 Consensus size: 39
11551967 CTTCGGAACT
* * ** * * *
11551977 TTAAGCCCGGATATATTTCCAGCACGTAACTTGCGAACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
*
11552016 TTAAGTCTGGATTATAATTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGA-TATAATTCCAGCATATAGCCTGCGGACC
*
11552056 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
11552095 TTAAGTCCGGATATAATTCCA
1 TTAAGTCCGGATATAATTCCA
11552116 AATATCATGC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 56 0.64
40 32 0.36
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACC
Found at i:11557082 original size:17 final size:18
Alignment explanation
Indices: 11557050--11557164 Score: 155
Period size: 17 Copynumber: 6.5 Consensus size: 18
11557040 AATCATATCT
*
11557050 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
11557069 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
* *
11557086 TCTAAAATTGCAATCATA
1 TCTAAGATTGCTATCATA
11557104 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
11557121 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
11557139 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
11557156 TCTAAGATT
1 TCTAAGATT
11557165 ACATATCATT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 46 0.53
18 30 0.35
19 10 0.12
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:11557086 original size:22 final size:19
Alignment explanation
Indices: 11557041--11557088 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
11557031 AGATTACAAA
11557041 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
11557060 -T-ATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
11557079 TATCATATCT
1 -ATCATATCT
11557089 AAAATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.21
18 2 0.08
19 10 0.42
21 2 0.08
22 5 0.21
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:11557129 original size:52 final size:53
Alignment explanation
Indices: 11557050--11557173 Score: 162
Period size: 52 Copynumber: 2.3 Consensus size: 53
11557040 AATCATATCT
*
11557050 TCTAAGATTGTATATCATATCTAAGATTG-TATCATATCTAAAATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAAATTG-AATCATA
* * *
11557104 TCTAAGATTG-TATCATATCTAAGATTGCAATCATATTTAAGATTGTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAAATTGAATCATA
*
11557156 TCTAAGATTACATATCAT
1 TCTAAGATT-GATATCAT
11557174 TGAAGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
52 32 0.52
53 14 0.23
54 16 0.26
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (53 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAAATTGAATCATA
Found at i:11557161 original size:35 final size:36
Alignment explanation
Indices: 11557050--11557173 Score: 198
Period size: 35 Copynumber: 3.5 Consensus size: 36
11557040 AATCATATCT
*
11557050 TCTAAGATTGTATATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
*
11557086 TCTAAAATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
*
11557121 TCTAAGATTGCA-ATCATATTTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
*
11557156 TCTAAGATTACATATCAT
1 TCTAAGATTGCATATCAT
11557174 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 67 0.82
36 15 0.18
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:11567655 original size:3 final size:3
Alignment explanation
Indices: 11567649--11567679 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11567639 TGCTGCCATG
11567649 GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
11567680 GGGCGGCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11567936 original size:11 final size:11
Alignment explanation
Indices: 11567920--11567949 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11567910 ATTATTGTTG
*
11567920 ATTTAATTGGA
1 ATTTAATTGAA
11567931 ATTTAATTGAA
1 ATTTAATTGAA
11567942 ATTTAATT
1 ATTTAATT
11567950 TTTAAATTTA
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:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
ATTTAATTGAA
Found at i:11568413 original size:3 final size:3
Alignment explanation
Indices: 11568401--11568433 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11568391 TCCTGCCACC
11568401 CTT C-T CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
11568434 CATGCCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:11568485 original size:27 final size:27
Alignment explanation
Indices: 11568446--11568509 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
11568436 TGCCAGCAGC
11568446 ACCCTCAACCGGTGCGGCCTATGGGGT
1 ACCCTCAACCGGTGCGGCCTATGGGGT
* *
11568473 ACCCTCCATCGGTGCGGCCTATGGGGT
1 ACCCTCAACCGGTGCGGCCTATGGGGT
11568500 ACCCTCAACC
1 ACCCTCAACC
11568510 TATATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.16, C:0.38, G:0.28, T:0.19
Consensus pattern (27 bp):
ACCCTCAACCGGTGCGGCCTATGGGGT
Found at i:11570082 original size:55 final size:55
Alignment explanation
Indices: 11569998--11570109 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
11569988 ACCTCTAAGA
11569998 CTTAGCTTACGATGTGGATGACATCTTGGACGAGTTCGCTTACCAACAGTTGCGT
1 CTTAGCTTACGATGTGGATGACATCTTGGACGAGTTCGCTTACCAACAGTTGCGT
11570053 CTTAGCTTACGATGTGGATGACATCTTGGACGAGTTCGCTTACCAACAGTTGCGT
1 CTTAGCTTACGATGTGGATGACATCTTGGACGAGTTCGCTTACCAACAGTTGCGT
11570108 CT
1 CT
11570110 CAAGCTCCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (55 bp):
CTTAGCTTACGATGTGGATGACATCTTGGACGAGTTCGCTTACCAACAGTTGCGT
Found at i:11577609 original size:18 final size:18
Alignment explanation
Indices: 11577556--11577609 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 18
11577546 TTTTTAGATT
11577556 TTTTTAAATTATATTAAA
1 TTTTTAAATTATATTAAA
11577574 TTTATATATAATTATATTAAAA
1 TTT-T-TA-AATTATATT-AAA
11577596 TTTTTAAA-TATATT
1 TTTTTAAATTATATT
11577610 TTTAACTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.28
19 3 0.09
20 4 0.12
21 10 0.31
22 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTAAATTATATTAAA
Found at i:11579988 original size:15 final size:15
Alignment explanation
Indices: 11579968--11580018 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
11579958 TTTATGGAAA
11579968 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
11579983 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
11579997 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
11580013 ATCAAA
1 ATCAAA
11580019 TATTAGAAAG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:11580005 original size:30 final size:30
Alignment explanation
Indices: 11579964--11580045 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
11579954 CATATTTATG
*
11579964 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
11579994 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
11580024 GAAAGTCAAAGAAATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
11580046 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:11590559 original size:14 final size:15
Alignment explanation
Indices: 11590535--11590563 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11590525 ATATTTAATT
11590535 TTCATATAATATAAA
1 TTCATATAATATAAA
11590550 TTCA-ATAATATAAA
1 TTCATATAATATAAA
11590564 AAATTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTCATATAATATAAA
Found at i:11592509 original size:16 final size:16
Alignment explanation
Indices: 11592488--11592539 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
11592478 TTTGGTTCGC
11592488 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11592504 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
11592520 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
11592536 TGTA
1 TGTA
11592540 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11592586 original size:45 final size:44
Alignment explanation
Indices: 11592520--11592614 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
11592510 GGATTAGAGG
* * *
11592520 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
11592565 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
11592609 TGTAAT
1 TGTAAT
11592615 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:11592797 original size:18 final size:17
Alignment explanation
Indices: 11592776--11592810 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11592766 TTATTATTTA
*
11592776 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11592794 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11592811 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:11592804 original size:28 final size:27
Alignment explanation
Indices: 11592734--11592806 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
11592724 TTTATTATCA
*
11592734 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
11592762 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
11592789 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
11592807 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:11592944 original size:18 final size:17
Alignment explanation
Indices: 11592923--11592957 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11592913 TTATTATTAA
*
11592923 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11592941 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11592958 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:11592969 original size:147 final size:149
Alignment explanation
Indices: 11592695--11592969 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
11592685 ATGATTATTG
*
11592695 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
11592760 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
11592825 AGAAATTTATTTTGGTAAA
131 AGAAATTTATTTTGGTAAA
*
11592844 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
11592907 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
11592970 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTATTTTGGTAAA
Found at i:11593003 original size:61 final size:61
Alignment explanation
Indices: 11592938--11593125 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
11592928 TTTTAATTAA
11592938 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
11592999 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
11593056 AA
60 AT
*
11593058 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
11593119 AATATAT
1 AATATAT
11593126 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:11593045 original size:120 final size:120
Alignment explanation
Indices: 11592901--11593198 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
11592891 ATTTAATCAT
*
11592901 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
11592966 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
11593023 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
11593087 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
11593142 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
11593199 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:11593062 original size:16 final size:16
Alignment explanation
Indices: 11593022--11593067 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
11593012 GTAAAATATA
11593022 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
11593037 TATT-AAATATATTAT
1 AATTAAAATATATAAT
11593052 AATTAAAATATATAAT
1 AATTAAAATATATAAT
11593068 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:11593209 original size:54 final size:54
Alignment explanation
Indices: 11593016--11593209 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
11593006 GATACTGTAA
* *
11593016 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
11593070 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
11593133 T
54 T
* *
11593134 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
11593190 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
11593210 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:11593935 original size:16 final size:16
Alignment explanation
Indices: 11593914--11593949 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11593904 TAAGAAATCA
11593914 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
11593930 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
11593946 CAGC
1 CAGC
11593950 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:11601773 original size:21 final size:21
Alignment explanation
Indices: 11601747--11601787 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11601737 CAGACGAGCA
* *
11601747 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11601768 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11601788 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11611075 original size:14 final size:14
Alignment explanation
Indices: 11611050--11611089 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
11611040 TAGTTATTTA
11611050 AAGTTTAATTAATT
1 AAGTTTAATTAATT
* *
11611064 AATTTTATTTAATT
1 AAGTTTAATTAATT
11611078 AAGTTTAATTAA
1 AAGTTTAATTAA
11611090 AAGTATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
AAGTTTAATTAATT
Found at i:11613256 original size:12 final size:12
Alignment explanation
Indices: 11613239--11613263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11613229 CATGTGGGTC
11613239 TTTTTGGCCAAT
1 TTTTTGGCCAAT
11613251 TTTTTGGCCAAT
1 TTTTTGGCCAAT
11613263 T
1 T
11613264 AAGGGCCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTTTGGCCAAT
Found at i:11613817 original size:5 final size:5
Alignment explanation
Indices: 11613807--11613882 Score: 55
Period size: 5 Copynumber: 15.2 Consensus size: 5
11613797 GGGGTAGAAC
* * * * * * *
11613807 ATGAT ATGAT ATGTT ATGCT GTGAT TTGAT ATGAC ATGAT ATAAT TTGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* *
11613857 -TCGAT ATGGT ATGAT ATGAT AAGAT A
1 AT-GAT ATGAT ATGAT ATGAT ATGAT A
11613883 CATTATACGA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
4 1 0.02
5 53 0.96
6 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:11615540 original size:35 final size:35
Alignment explanation
Indices: 11615501--11615569 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
11615491 ACTTGCCTCT
*
11615501 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATCCTGTCTGCCACCAGCACCAC
11615536 TCCCACTCTCCCATCCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATCCTGTCTGCCACCAGCACCA
11615570 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATCCTGTCTGCCACCAGCACCAC
Found at i:11616427 original size:3 final size:3
Alignment explanation
Indices: 11616412--11616449 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
11616402 GTTATTTTCA
*
11616412 TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
11616450 GTACATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11620753 original size:6 final size:7
Alignment explanation
Indices: 11620736--11620762 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11620726 CCAAAGATCG
11620736 AAAAATC
1 AAAAATC
11620743 AAAAATC
1 AAAAATC
11620750 AAAAATC
1 AAAAATC
11620757 AAAAAT
1 AAAAAT
11620763 TGGATCACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATC
Found at i:11625423 original size:15 final size:15
Alignment explanation
Indices: 11625403--11625442 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
11625393 AAGCCATCAA
11625403 ACGCCCGTGTCTATC
1 ACGCCCGTGTCTATC
11625418 ACGCCCGTGTCTATC
1 ACGCCCGTGTCTATC
*
11625433 GCGCCCGTGT
1 ACGCCCGTGT
11625443 GGCACGCGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.10, C:0.40, G:0.25, T:0.25
Consensus pattern (15 bp):
ACGCCCGTGTCTATC
Found at i:11637649 original size:18 final size:18
Alignment explanation
Indices: 11637617--11637654 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
11637607 TTGACAAAGT
11637617 AATAAATTAATAATATTA
1 AATAAATTAATAATATTA
11637635 AATAATATTAA-AATATTA
1 AATAA-ATTAATAATATTA
11637653 AA
1 AA
11637655 ATATCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATTAATAATATTA
Found at i:11637651 original size:8 final size:9
Alignment explanation
Indices: 11637616--11637663 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 9
11637606 TTTGACAAAG
11637616 TAATAA-AT
1 TAATAATAT
11637624 TAATAATAT
1 TAATAATAT
11637633 TAAATAATAT
1 T-AATAATAT
11637643 TAA-AATAT
1 TAATAATAT
11637651 TAA-AATAT
1 TAATAATAT
*
11637659 CAATA
1 TAATA
11637664 TAATTATAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 21 0.58
9 6 0.17
10 9 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAATAT
Found at i:11637958 original size:61 final size:61
Alignment explanation
Indices: 11637889--11638012 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
11637879 TAGAAAATAA
11637889 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
1 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
11637950 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
1 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
11638011 TA
1 TA
11638013 CTGGTTTGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (61 bp):
TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
Found at i:11637988 original size:30 final size:30
Alignment explanation
Indices: 11637893--11637988 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
11637883 AAATAATATA
11637893 AATGATTGAAGGAAATATAATTTATAAAAG
1 AATGATTGAAGGAAATATAATTTATAAAAG
* * *
11637923 AATGAAATTG--GGAGAAT-TAACTTAGATTATA-
1 AATG--ATTGAAGGA-AATATAA-TT-TATAAAAG
11637954 AATGATTGAAGGAAATATAATTTATAAAAG
1 AATGATTGAAGGAAATATAATTTATAAAAG
11637984 AATGA
1 AATGA
11637989 AATTGGGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
29 8 0.16
30 20 0.39
31 15 0.29
32 8 0.16
ACGTcount: A:0.51, C:0.01, G:0.18, T:0.30
Consensus pattern (30 bp):
AATGATTGAAGGAAATATAATTTATAAAAG
Found at i:11640291 original size:9 final size:10
Alignment explanation
Indices: 11640266--11640295 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11640256 AATTATTTTT
11640266 AATTTTAAAA
1 AATTTTAAAA
11640276 AATTTTAAAA
1 AATTTTAAAA
11640286 AA-TTTAAAA
1 AATTTTAAAA
11640295 A
1 A
11640296 TAAAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:11640979 original size:3 final size:3
Alignment explanation
Indices: 11640971--11640998 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11640961 AATTGCAAAA
11640971 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
11640999 TAACAGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11650797 original size:22 final size:24
Alignment explanation
Indices: 11650769--11650815 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11650759 ATTATTAAAA
*
11650769 TTAT-AAAAT-TATATTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
11650791 TTATAAAAATATATAGTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
11650815 T
1 T
11650816 ACTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 5 0.23
24 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATAAAAATATATAGTTTAATTT
Found at i:11650981 original size:13 final size:13
Alignment explanation
Indices: 11650963--11650989 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11650953 CTTTTCAAAG
11650963 AAATATGTGAAGC
1 AAATATGTGAAGC
11650976 AAATATGTGAAGC
1 AAATATGTGAAGC
11650989 A
1 A
11650990 TATTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (13 bp):
AAATATGTGAAGC
Found at i:11652602 original size:16 final size:17
Alignment explanation
Indices: 11652575--11652609 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11652565 AAAAAAAGAC
11652575 TATTTTTATTGGCAAAT
1 TATTTTTATTGGCAAAT
*
11652592 TATTTTT-TTGGTAAAT
1 TATTTTTATTGGCAAAT
11652608 TA
1 TA
11652610 AAAAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTTTTATTGGCAAAT
Found at i:11652873 original size:12 final size:12
Alignment explanation
Indices: 11652856--11652881 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11652846 ATATTTTTGT
11652856 AAAAAAAAAGAA
1 AAAAAAAAAGAA
11652868 AAAAAAAAAGAA
1 AAAAAAAAAGAA
11652880 AA
1 AA
11652882 CTAGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:11656116 original size:21 final size:21
Alignment explanation
Indices: 11656074--11656128 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
11656064 GTCTCCCGAA
*
11656074 CACACGGGCGTGTGTCATCTT
1 CACACGGGCGTGTGACATCTT
*
11656095 CACACGGGTGTGTGAC-TCCTT
1 CACACGGGCGTGTGACAT-CTT
**
11656116 CACATAGGCGTGT
1 CACACGGGCGTGT
11656129 AGACCCCCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.27
Consensus pattern (21 bp):
CACACGGGCGTGTGACATCTT
Found at i:11667473 original size:43 final size:43
Alignment explanation
Indices: 11667426--11667511 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
11667416 ATCAGTGCAA
* *
11667426 CAATTAAAGGAATGATATTTTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
11667469 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
11667512 GATGTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (43 bp):
CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
Found at i:11672064 original size:28 final size:28
Alignment explanation
Indices: 11672016--11672070 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
11672006 ATGACATTTT
11672016 TTTTATTTTATATGTTCAATTACTTTTAG
1 TTTTATTTTATATGTTCAATTA-TTTTAG
*
11672045 TTTTATTTATTTAT-TT-AATTATTTTA
1 TTTTATTT-TATATGTTCAATTATTTTA
11672071 TTAATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 5 0.21
29 10 0.42
30 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTTATTTTATATGTTCAATTATTTTAG
Found at i:11676850 original size:92 final size:92
Alignment explanation
Indices: 11676649--11676829 Score: 272
Period size: 92 Copynumber: 2.0 Consensus size: 92
11676639 TTGCGTATAT
* * * *
11676649 TTATTTGATCTAGCAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTGTACCG
1 TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
* *
11676714 TATGTACGTTAGCTATGCTACGTACCA
66 CATGTACGTTAGCTACGCTACGTACCA
* * * *
11676741 TTATCTGATCTGGCAGTTAAGCTACAAATTATCGGTATAGCGGTTTACTGTATTGCACTGTACCG
1 TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
11676806 CATGTACGTTAGCTACGCTACGTA
66 CATGTACGTTAGCTACGCTACGTA
11676830 TGTATATCTG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 79 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (92 bp):
TTATCTGATCTGGCAGTTAAGCTACAAATTACCGGTATAGCGGTTTACCGCATCGCACTGTACCG
CATGTACGTTAGCTACGCTACGTACCA
Found at i:11678300 original size:14 final size:14
Alignment explanation
Indices: 11678281--11678314 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11678271 TTGTTTCACT
11678281 GAAAATGACTTCTA
1 GAAAATGACTTCTA
* *
11678295 GAAAATGATTTCTG
1 GAAAATGACTTCTA
11678309 GAAAAT
1 GAAAAT
11678315 AATTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:11678956 original size:22 final size:22
Alignment explanation
Indices: 11678916--11678971 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11678906 AATAAAATTG
*
11678916 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11678936 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11678958 TATTAATAATTTAT
1 AAATAATAAATTAT
11678972 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:11681484 original size:18 final size:18
Alignment explanation
Indices: 11681461--11681502 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11681451 AGTCAGTCAA
*
11681461 CAGTAATAATCAGTTAAT
1 CAGTAATAACCAGTTAAT
* *
11681479 CAGTAATAACCATTTATT
1 CAGTAATAACCAGTTAAT
11681497 CAGTAA
1 CAGTAA
11681503 CAGTCGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (18 bp):
CAGTAATAACCAGTTAAT
Found at i:11681524 original size:18 final size:18
Alignment explanation
Indices: 11681489--11681537 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11681479 CAGTAATAAC
*
11681489 CATTTATTCAGTAACAGT
1 CATTTATTCAATAACAGT
* *
11681507 CGTTTATTCAATATCAGT
1 CATTTATTCAATAACAGT
*
11681525 CAATTATTCAATA
1 CATTTATTCAATA
11681538 GTAGGCAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (18 bp):
CATTTATTCAATAACAGT
Found at i:11681686 original size:12 final size:12
Alignment explanation
Indices: 11681667--11681713 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
11681657 TACACCGTGT
11681667 TAGTAACGGTAA
1 TAGTAACGGTAA
*
11681679 TGGTAACGGTAA
1 TAGTAACGGTAA
* *
11681691 CAGTAACAGTAA
1 TAGTAACGGTAA
11681703 TAGTAACGGTA
1 TAGTAACGGTA
11681714 CACAGAGCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (12 bp):
TAGTAACGGTAA
Found at i:11681702 original size:24 final size:25
Alignment explanation
Indices: 11681668--11681718 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
11681658 ACACCGTGTT
* *
11681668 AGTAACGGTAATGGTAACGGTA-AC
1 AGTAACAGTAATAGTAACGGTACAC
11681692 AGTAACAGTAATAGTAACGGTACAC
1 AGTAACAGTAATAGTAACGGTACAC
11681717 AG
1 AG
11681719 AGCACCTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (25 bp):
AGTAACAGTAATAGTAACGGTACAC
Found at i:11681783 original size:51 final size:53
Alignment explanation
Indices: 11681689--11681807 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 53
11681679 TGGTAACGGT
*
11681689 AACAGTAACAGTAATAGTAACGGTACACAGAGCACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTAACGGTA-ACAGAGCACCTCATCGGAACAAATCCGG
* * * * *
11681743 AATAGTAACAGTAACAGTAA-GGT-ACAGAGTACCTCTTCGGAACGAATTCGG
1 AACAGTAACAGTAACAGTAACGGTAACAGAGCACCTCATCGGAACAAATCCGG
*
11681794 AACAGTAATAGTAA
1 AACAGTAACAGTAA
11681808 GGCGGCACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 36 0.63
53 3 0.05
54 18 0.32
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTAACGGTAACAGAGCACCTCATCGGAACAAATCCGG
Found at i:11682713 original size:20 final size:21
Alignment explanation
Indices: 11682690--11682737 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
11682680 TATAATTATT
*
11682690 TAATTAATAAATATCT-TTTA
1 TAATTAATAAATATCTATTAA
11682710 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
11682731 TAATTAA
1 TAATTAA
11682738 ATACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:11689081 original size:40 final size:40
Alignment explanation
Indices: 11689026--11689247 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
11689016 TATTCGGATG
*
11689026 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11689066 ATATCCGGGCTAAGTCCCAAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
11689106 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11689146 ATATCCGGACTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11689186 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
11689226 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
11689248 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11690849 original size:18 final size:18
Alignment explanation
Indices: 11690811--11690866 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
11690801 AGCCAGTCAA
* *
11690811 CAGTAATAATCAGTTAAT
1 CAGTAATAATCATTTATT
*
11690829 CAGTAATAACCATTTATT
1 CAGTAATAATCATTTATT
* *
11690847 CAGTTATAGTCATTTATT
1 CAGTAATAATCATTTATT
11690865 CA
1 CA
11690867 ATATCAGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (18 bp):
CAGTAATAATCATTTATT
Found at i:11690875 original size:18 final size:17
Alignment explanation
Indices: 11690839--11690902 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
11690829 CAGTAATAAC
*
11690839 CATTTATTCAGTTATAGT
1 CATTTATTCA-ATATAGT
11690857 CATTTATTCAATATCAGT
1 CATTTATTCAATAT-AGT
* *
11690875 CAATTATTCAATAGTAGG
1 CATTTATTCAATA-TAGT
*
11690893 CAGTTATTCA
1 CATTTATTCA
11690903 GTACCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
17 3 0.08
18 36 0.90
19 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (17 bp):
CATTTATTCAATATAGT
Found at i:11691034 original size:6 final size:6
Alignment explanation
Indices: 11691017--11691047 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11691007 TACACCGTGT
*
11691017 CAGTAA CGGTAA CAGTAA CAGTAA CAGTAA C
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA C
11691048 GGTACATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (6 bp):
CAGTAA
Found at i:11691034 original size:12 final size:12
Alignment explanation
Indices: 11691017--11691051 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11691007 TACACCGTGT
11691017 CAGTAACGGTAA
1 CAGTAACGGTAA
*
11691029 CAGTAACAGTAA
1 CAGTAACGGTAA
11691041 CAGTAACGGTA
1 CAGTAACGGTA
11691052 CATAGGGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (12 bp):
CAGTAACGGTAA
Found at i:11691133 original size:51 final size:53
Alignment explanation
Indices: 11691027--11691145 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
11691017 CAGTAACGGT
* *
11691027 AACAGTAACAGTAACAGTAACGGTACATAGGGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAATAACGGTA-ATAGGGTACCTCATCAGAACAAATCCGG
* **
11691081 AACAGTAACAGTAACAATAA-GGT-AT-GGAGTACCTCTTCAGAATGAATCCGG
1 AACAGTAACAGTAACAATAACGGTAATAGG-GTACCTCATCAGAACAAATCCGG
11691132 AACAGTAACAGTAA
1 AACAGTAACAGTAA
11691146 GGCGACACTT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 35 0.59
53 3 0.05
54 19 0.32
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAATAACGGTAATAGGGTACCTCATCAGAACAAATCCGG
Found at i:11697516 original size:24 final size:24
Alignment explanation
Indices: 11697489--11697534 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
11697479 AGGTATCGTG
11697489 ACCTTAATTTTATAAATTGAGTAT
1 ACCTTAATTTTATAAATTGAGTAT
*
11697513 ACCTTGATTTTATAAATTGAGT
1 ACCTTAATTTTATAAATTGAGT
11697535 CATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (24 bp):
ACCTTAATTTTATAAATTGAGTAT
Found at i:11698784 original size:42 final size:41
Alignment explanation
Indices: 11698719--11698839 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 41
11698709 AGCTTCTGTT
* * ** *
11698719 AACTCATATGAGTTTCCGTTTAACCCTAATGGGTTTCAGTTC
1 AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTCA-TTC
* ** *
11698761 AACTCTTTTGAGCTT-TAATTTAACCTTTATGGGTTTTCATTC
1 AACTCATACGAGCTTCT-ATTTAACCCTTATGGG-TTTCATTC
* *
11698803 ATCTCATACGAGCTTCTATTCAACCCTTATGGGTTTC
1 AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTC
11698840 TGTTTAGCAG
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.06
42 53 0.84
43 6 0.10
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (41 bp):
AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTCATTC
Found at i:11699447 original size:12 final size:12
Alignment explanation
Indices: 11699416--11699449 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11699406 CCCTGTTTTC
*
11699416 ACACGGCTTGTG
1 ACACGGGTTGTG
11699428 ACACGGGTTGTG
1 ACACGGGTTGTG
*
11699440 ACATGGGTTG
1 ACACGGGTTG
11699450 AGTTGGTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (12 bp):
ACACGGGTTGTG
Found at i:11703382 original size:37 final size:37
Alignment explanation
Indices: 11703319--11703390 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
11703309 AGCTCAGACG
* *
11703319 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
*
11703356 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGGA
11703391 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGGACA
Found at i:11703598 original size:54 final size:49
Alignment explanation
Indices: 11703536--11703724 Score: 240
Period size: 48 Copynumber: 3.8 Consensus size: 49
11703526 GCACATCGCC
*
11703536 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-----TA
* * *
11703590 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCTA
* * *
11703638 TACATATTTCACATTATCCATTCGACTTTACCACATATACATTTCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
11703686 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
11703725 TGCATGTTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
48 79 0.65
53 1 0.01
54 41 0.34
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
Found at i:11703757 original size:47 final size:47
Alignment explanation
Indices: 11703694--11703887 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
11703684 CATACATATT
* * * *
11703694 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
11703741 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
11703788 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
11703835 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
11703882 TCACAT
1 TCACAT
11703888 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:11703814 original size:22 final size:22
Alignment explanation
Indices: 11703787--11703858 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
11703777 GCTCACATTC
11703787 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
11703809 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
11703833 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
11703856 ATC
1 ATC
11703859 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 7 0.18
25 11 0.29
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:11703837 original size:25 final size:25
Alignment explanation
Indices: 11703762--11703840 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
11703752 ATTCGGCCTT
* *
11703762 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
11703787 ATCACAT-T-GGCCA--TTCAGCCTT-
1 ATCACATATATG-CATGTTCA-CATTC
11703809 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
11703834 ATCACAT
1 ATCACAT
11703841 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 7 0.17
24 7 0.17
25 17 0.41
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:11706569 original size:20 final size:22
Alignment explanation
Indices: 11706525--11706575 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
11706515 AATAATTTGG
*
11706525 TTTATTATTTATTTTTGTTTGAT
1 TTTATTA-TTACTTTTGTTTGAT
11706548 TTTATTATTACTTTT-TTT-AT
1 TTTATTATTACTTTTGTTTGAT
*
11706568 TTTTTTAT
1 TTTATTAT
11706576 GGTTGTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 7 0.27
23 7 0.27
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTATTATTACTTTTGTTTGAT
Found at i:11706966 original size:16 final size:16
Alignment explanation
Indices: 11706945--11706977 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11706935 GATAATCTAT
11706945 AAAACATGGAAAGAAC
1 AAAACATGGAAAGAAC
11706961 AAAACATGGAAAGAAC
1 AAAACATGGAAAGAAC
11706977 A
1 A
11706978 CACAAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAACATGGAAAGAAC
Found at i:11707430 original size:43 final size:43
Alignment explanation
Indices: 11707265--11707434 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
11707255 CATAAGCTCT
* * * * *
11707265 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAA
* * * * ** *
11707306 TATCGATGCCATTGTCCTAGACAGGGTTTTACACAAAATCATAA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAA
*
11707350 TACGATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAA
* *
11707393 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACA
11707435 TCTCGATAAC
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 94 0.90
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACAA
Found at i:11714851 original size:16 final size:16
Alignment explanation
Indices: 11714832--11714862 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11714822 CTTCTTCACT
11714832 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
11714848 TACTTACTTACTTAA
1 TACTCACTTACTTAA
11714863 TCAAATTTAT
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:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:11714868 original size:20 final size:20
Alignment explanation
Indices: 11714829--11714868 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11714819 AAACTTCTTC
* *
11714829 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
11714849 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
11714869 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:11714979 original size:23 final size:24
Alignment explanation
Indices: 11714941--11714985 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
11714931 TTTGCTCTTC
*
11714941 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
11714965 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
11714986 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:11715181 original size:53 final size:54
Alignment explanation
Indices: 11715054--11715304 Score: 239
Period size: 55 Copynumber: 4.7 Consensus size: 54
11715044 ACACGGGTAC
* * * * *
11715054 CTTACCATTGCCATGACTTGTCATGGTGTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
11715103 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
11715156 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
11715211 CTTATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
11715264 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTAT
11715305 TCTTAAACCT
Statistics
Matches: 164, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 48 0.29
54 10 0.06
55 65 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:11715245 original size:108 final size:110
Alignment explanation
Indices: 11715101--11715301 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
11715091 ATCCTTTTGA
* *
11715101 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
11715164 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
* * * * *
11715209 AACTTATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
11715274 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
11715302 TATTCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
Found at i:11717613 original size:16 final size:16
Alignment explanation
Indices: 11717592--11717624 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11717582 GATAATCTAT
11717592 AAAACATGGAAAGAAC
1 AAAACATGGAAAGAAC
11717608 AAAACATGGAAAGAAC
1 AAAACATGGAAAGAAC
11717624 A
1 A
11717625 CACAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.18, T:0.06
Consensus pattern (16 bp):
AAAACATGGAAAGAAC
Found at i:11718026 original size:43 final size:43
Alignment explanation
Indices: 11717861--11718030 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
11717851 CATAAGCTCT
* * * *
11717861 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACAA
* * * * * ** *
11717902 TATCGATGACATTGTCCCAGACAGGGTCTTCCACAAAATCATAA
1 TA-CAATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACAA
*
11717946 TACGATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACAA
* *
11717989 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACA
11718031 TCTTGATAAC
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 94 0.90
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACAA
Found at i:11725300 original size:26 final size:26
Alignment explanation
Indices: 11725263--11725346 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11725253 TGATACAAAT
* *
11725263 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11725289 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11725315 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11725341 TGATAA
1 TGATAA
11725347 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11730788 original size:161 final size:164
Alignment explanation
Indices: 11730596--11731051 Score: 491
Period size: 161 Copynumber: 2.8 Consensus size: 164
11730586 AATTTACATA
* *
11730596 TTAA-AATAAATACAAAATAAGT-ATTTATAATAAAATACTGATTTAGGTATGGCAAAAAGTGTA
1 TTAATAATAAAGACAAAATAA-TCATTTATAATAAAATA-TGGTTTAGGTATGGCAAAAAGTGTA
* * * * *
11730659 TGATTTCAATAACCAAAGAAACATAAGCATTTATAAAACACGATGGAGTGTAAA-TTT-AG-GC-
64 TGATTCCGATAACCAAAGAAA-ATAAGTATTTATAAAACACGATGGAATATAAACTTTAAGAGCG
* *
11730720 ATCGCTAAAAG-GTATATAATTCGGAAACCATTTTAC
128 ATCGCTAAAAGAATATATAATTCGAAAACCATTTTAC
* *
11730756 TTAATAATAAAGACAAAATAATCATTTATAATAAAATATAGGTTTAAGTAT--AATAAAAGATGT
1 TTAATAATAAAGACAAAATAATCATTTATAATAAAATAT-GGTTTAGGTATGGCA-AAAAG-TGT
* *
11730819 ATGATTCCGATAACGAAAGTAAAATAAGTATTTATAAAACACGATGGAATATAAACTTTAAGTAT
63 ATGATTCCGATAACCAAAG-AAAATAAGTATTTATAAAACACGATGGAATATAAACTTTAAG-AG
* *
11730884 CGATCGTTAAAAGATATATATAATTCGAAAACCGTTTTAC
126 CGATCGCTAAAAGA-ATATATAATTCGAAAACCATTTTAC
* * * ** *
11730924 TTATTAA-AATAGAAACAAAATAAGCATTTATAATAAAATAGAGGTTTAGGTATGGCGGAAGGTG
1 TTAATAATAA-AG--ACAAAATAATCATTTATAATAAAATA-TGGTTTAGGTATGGCAAAAAGTG
* * *
11730988 TATGATTCCGATAACCAAAGAAAAATAAGTATTTATATAACACTCATAGAATATAAACTTTAAG
62 TATGATTCCGATAACCAAAG-AAAATAAGTATTTATAAAACAC-GATGGAATATAAACTTTAAG
11731052 TATCGTTAAG
Statistics
Matches: 248, Mismatches: 28, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
159 1 0.00
160 11 0.04
161 87 0.35
162 6 0.02
163 2 0.01
165 1 0.00
166 10 0.04
167 2 0.01
168 30 0.12
170 77 0.31
171 21 0.08
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (164 bp):
TTAATAATAAAGACAAAATAATCATTTATAATAAAATATGGTTTAGGTATGGCAAAAAGTGTATG
ATTCCGATAACCAAAGAAAATAAGTATTTATAAAACACGATGGAATATAAACTTTAAGAGCGATC
GCTAAAAGAATATATAATTCGAAAACCATTTTAC
Found at i:11730971 original size:170 final size:162
Alignment explanation
Indices: 11730562--11731581 Score: 576
Period size: 165 Copynumber: 6.3 Consensus size: 162
11730552 ACATGTATAG
* * * * *
11730562 TAAAAG-ATATATAATTTGAAAA-TTAATTTACATATTAAAATAAATACAAAATAAGTATTTATA
1 TAAAAGAATATATAATTCGAAAACCT--TTTACTTATTAAAATAAAGACAAAATAAGCATTTATA
* * * * * *
11730625 ATAAAATACTGATTTAGGTATGGCAAAAAGTGTATGATTTCAATAACCAAAGAAACATAAGCATT
64 ATAAAATACAGGTTTAGGTAT--AAAAAAGTGTATGATTCCGATAACCAAAGAAA-ATAAGTATT
* * * *
11730690 TATAAAACACGATGGAGTGTAAA-TTT-AGGCATCGC
126 TATAAAACACGATGGAATATAAACTTTAAGTCATCGT
* * * *
11730725 TAAAAG-GTATATAATTCGGAAACCATTTTACTTA--ATAATAAAGACAAAATAATCATTTATAA
1 TAAAAGAATATATAATTCGAAAACC-TTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
* * *
11730787 TAAAATATAGGTTTAAGTATAATAAAAGATGTATGATTCCGATAACGAAAGTAAAATAAGTATTT
65 TAAAATACAGGTTTAGGTATAA-AAAAG-TGTATGATTCCGATAACCAAAG-AAAATAAGTATTT
11730852 ATAAAACACGATGGAATATAAACTTTAAGTATCGATCGT
127 ATAAAACACGATGGAATATAAACTTTAAG--TC-ATCGT
11730891 TAAAAGATATATATAATTCGAAAACCGTTTTACTTATTAAAATAGAA-ACAAAATAAGCATTTAT
1 TAAAAGA-ATATATAATTCGAAAACC-TTTTACTTATTAAAATA-AAGACAAAATAAGCATTTAT
* *** *
11730955 AATAAAATAGAGGTTTAGGTATGGCGGAAGGTGTATGATTCCGATAACCAAAGAAAAATAAGTAT
63 AATAAAATACAGGTTTAGGTAT--AAAAAAGTGTATGATTCCGATAACCAAAG-AAAATAAGTAT
* * *
11731020 TTATATAACACTCATAGAATATAAACTTTAAGT-ATCGT
125 TTATAAAACAC-GATGGAATATAAACTTTAAGTCATCGT
* * *
11731058 TAAGAG-ATATCTAATTTGAAAACCTATTTACTTA-T----TAAA-AC-AAA-AA-CA---A-AA
1 TAAAAGAATATATAATTCGAAAACCT-TTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
* * ** * * *
11731109 T-ATATAGAGGTTTAGGTATAGTGAAGGTGTACGAATATTCCGATAACCAAAGAAAAATAAGCAT
65 TAAAATACAGGTTTAGGTATA-AAAAAGTGTATG---ATTCCGATAACCAAAG-AAAATAAGTAT
* *
11731173 TTATATAACATCCAT-G-----AAAC----A-T-ATCGT
125 TTATAAAACA-CGATGGAATATAAACTTTAAGTCATCGT
* ** * * * * *
11731200 TAAAAG-ATATATAATTCAAAAATTGTTTGTACTTATTAAAACAAAAATAAATTACGCATTTATA
1 TAAAAGAATATATAATTCGAAAA-CCTTT-TACTTATTAAAATAAAGACAAAATAAGCATTTATA
* * ** * * * * **
11731264 ATAAAATAGAGGTATAGGTATGGTGAAAGGCGTATGGTTCTGATAACCAAAGCAAAATAAACATT
64 ATAAAATACAGGTTTAGGTAT--AAAAAAGTGTATGATTCCGATAACCAAAG-AAAATAAGTATT
** * *
11731329 TATAGTACACAATGAAATATAAACTTTAAGT-ATCGT
126 TATAAAACACGATGGAATATAAACTTTAAGTCATCGT
* * * * *
11731365 TAAAAG-ATTTATAATTCGAAAACCATTTTACTTACTAAAACAAAAACAAAATAAGCATTTATAT
1 TAAAAGAATATATAATTCGAAAACC-TTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAA
* * * * * * ** *
11731429 TAAAATAGAGGTTTAGATATAGTAAAAG-GCATATGATTCGGATAATCGAAGCAAAATAAACAAT
65 TAAAATACAGGTTTAGGTATA-AAAAAGTG--TATGATTCCGATAACCAAAG-AAAATAAGTATT
* * ** *
11731493 TATATAACACTCATAAAATATAAACTTTAAG-CATAGT
126 TATAAAACAC-GATGGAATATAAACTTTAAGTCATCGT
* ** * * ** * *
11731530 TGAAAG-ATGGATAATTTGAAAACCAATTTAGGTATTAAAACAAAAACAAAAT
1 TAAAAGAATATATAATTCGAAAACC-TTTTACTTATTAAAATAAAGACAAAAT
11731582 GATTACTTTG
Statistics
Matches: 695, Mismatches: 103, Indels: 116
0.76 0.11 0.13
Matches are distributed among these distances:
142 26 0.04
143 8 0.01
144 1 0.00
147 4 0.01
148 3 0.00
149 1 0.00
150 12 0.02
151 18 0.03
152 6 0.01
153 41 0.06
154 4 0.01
155 33 0.05
156 5 0.01
157 18 0.03
158 11 0.02
159 5 0.01
160 11 0.02
161 88 0.13
162 7 0.01
163 32 0.05
164 88 0.13
165 121 0.17
166 10 0.01
167 10 0.01
168 25 0.04
169 1 0.00
170 83 0.12
171 23 0.03
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (162 bp):
TAAAAGAATATATAATTCGAAAACCTTTTACTTATTAAAATAAAGACAAAATAAGCATTTATAAT
AAAATACAGGTTTAGGTATAAAAAAGTGTATGATTCCGATAACCAAAGAAAATAAGTATTTATAA
AACACGATGGAATATAAACTTTAAGTCATCGT
Found at i:11731575 original size:165 final size:164
Alignment explanation
Indices: 11731233--11731581 Score: 439
Period size: 164 Copynumber: 2.1 Consensus size: 164
11731223 TGTTTGTACT
* * * * * * *
11731233 TATTAAAACAAAAATAAATTACGCATTTATAATAAAATAGAGGTATAGGTATGGTGAAAGGCGTA
1 TATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAGGTATAGATATAGTAAAAGGCATA
* * * * * *
11731298 TGGTTCTGATAACCAAAGCAAAATAAACATTTATAGTACACAATGAAATATAAACTTTAAGTATC
66 TGATTCGGATAACCAAAGCAAAATAAACAATTATAGTACACAATAAAATATAAACTTTAAGCATA
** * *
11731363 GTTAAAAGATTTATAATTCGAAAACCATTTTACT
131 GTTAAAAGATGGATAATTCGAAAACCAATTTACG
* * *
11731397 TACTAAAACAAAAACAAAATAAGCATTTATATTAAAATAGAGGTTTAGATATAGTAAAAGGCATA
1 TATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAGGTATAGATATAGTAAAAGGCATA
* * *
11731462 TGATTCGGATAATCGAAGCAAAATAAACAATTATA-TAACACTCATAAAATATAAACTTTAAGCA
66 TGATTCGGATAACCAAAGCAAAATAAACAATTATAGT-ACAC-AATAAAATATAAACTTTAAGCA
* * *
11731526 TAGTTGAAAGATGGATAATTTGAAAACCAATTTAGG
129 TAGTTAAAAGATGGATAATTCGAAAACCAATTTACG
11731562 TATTAAAACAAAAACAAAAT
1 TATTAAAACAAAAACAAAAT
11731582 GATTACTTTG
Statistics
Matches: 156, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
163 1 0.01
164 89 0.57
165 66 0.42
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (164 bp):
TATTAAAACAAAAACAAAATAAGCATTTATAATAAAATAGAGGTATAGATATAGTAAAAGGCATA
TGATTCGGATAACCAAAGCAAAATAAACAATTATAGTACACAATAAAATATAAACTTTAAGCATA
GTTAAAAGATGGATAATTCGAAAACCAATTTACG
Found at i:11739243 original size:29 final size:30
Alignment explanation
Indices: 11739181--11739243 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
11739171 TATTTACAAG
* * *
11739181 AATTGGATCAAATCAAAATTTTATGTATAA
1 AATTGCATAAAATCAAAAGTTTATGTATAA
*
11739211 AATTGCATAAAATC-AAAGTTTATGTATAT
1 AATTGCATAAAATCAAAAGTTTATGTATAA
11739240 AATT
1 AATT
11739244 TCACATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (30 bp):
AATTGCATAAAATCAAAAGTTTATGTATAA
Found at i:11740063 original size:22 final size:20
Alignment explanation
Indices: 11740029--11740070 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
11740019 TCATTGTTGA
*
11740029 GAAATTGATGAATTGAGCTT
1 GAAATTGATGAATTAAGCTT
11740049 GAAATTGATAGGAATTAAGCTT
1 GAAATTGAT--GAATTAAGCTT
11740071 AGATTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:11745014 original size:26 final size:26
Alignment explanation
Indices: 11744985--11745037 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11744975 TTTACAGTTT
11744985 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* * *
11745011 TACCCTTAGGGTTAAATTGACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
11745037 T
1 T
11745038 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:11750344 original size:26 final size:26
Alignment explanation
Indices: 11750314--11750421 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11750304 TGAAATTCCC
11750314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11750340 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11750366 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
11750392 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11750418 ATCA
1 ATCA
11750422 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11751905 original size:25 final size:25
Alignment explanation
Indices: 11751833--11751905 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
11751823 TCTGAGCTGA
*
11751833 ATAACGGGAAGCCCATGCAAGCTAT
1 ATAACGGGAAGCTCATGCAAGCTAT
* * *
11751858 ATAATGGGAAGCT-ACTCCGAGCTAT
1 ATAACGGGAAGCTCA-TGCAAGCTAT
*
11751883 ATAACGAGAAGCTCATGCAAGCT
1 ATAACGGGAAGCTCATGCAAGCT
11751906 GTGGTGTGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGCAAGCTAT
Found at i:11759586 original size:21 final size:22
Alignment explanation
Indices: 11759543--11759587 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
11759533 CACATTAATA
* *
11759543 CTCTTTGTTTAGCACATTTGTG
1 CTCTTTGTATAGCACACTTGTG
11759565 CTCTTTGTATAGCAC-CTTGTG
1 CTCTTTGTATAGCACACTTGTG
11759586 CT
1 CT
11759588 TTCTGTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (22 bp):
CTCTTTGTATAGCACACTTGTG
Found at i:11760113 original size:20 final size:20
Alignment explanation
Indices: 11760076--11760114 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11760066 AAACTCTATC
*
11760076 TATTTTGGTTTTACATGAAG
1 TATTTTGGTTCTACATGAAG
*
11760096 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTACATGAA
11760115 ATAAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (20 bp):
TATTTTGGTTCTACATGAAG
Done.