Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 40 of 320
Found at i:11338626 original size:45 final size:45
Alignment explanation
Indices: 11338467--11338740 Score: 232
Period size: 45 Copynumber: 6.1 Consensus size: 45
11338457 AGAAGGCGAT
* * * **
11338467 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACGGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * *
11338512 ACCTATTTTCTTCGATCTACTCCCTGTCTAATACAGAGACGCCGA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
11338557 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
11338601 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
11338646 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* *
11338691 ATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCTAA
1 ATCTGTTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
11338738 ATC
1 ATC
11338741 ATCTTGGATC
Statistics
Matches: 176, Mismatches: 44, Indels: 16
0.75 0.19 0.07
Matches are distributed among these distances:
43 5 0.03
44 42 0.24
45 101 0.57
47 18 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:11338810 original size:78 final size:78
Alignment explanation
Indices: 11338680--11338973 Score: 380
Period size: 78 Copynumber: 3.8 Consensus size: 78
11338670 ATGTAAACAC
* * * ** *
11338680 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGAGATGCCAAATCATCT
*
11338745 TGGATCTGTTTCA
66 TGGATCTGCTTCA
* *
11338758 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTACTCCCCGTCTAATATGGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGAGATGCCAAATCATC
11338822 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * **
11338836 ATGAAGGTTAGATCTGCTGTGTCTTCGATCTGCT-CCCGTCTAATA-CAATGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGA-GATGCCAAATCATC
11338899 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
11338913 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCTCCGT-TGAATATGGAGATGCAAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCT-AATATGGAGATGCCAAATC
11338974 TGTTTCTTCG
Statistics
Matches: 190, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
76 1 0.01
77 73 0.38
78 113 0.59
79 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11338963 original size:155 final size:156
Alignment explanation
Indices: 11338680--11338973 Score: 434
Period size: 155 Copynumber: 1.9 Consensus size: 156
11338670 ATGTAAACAC
* *
11338680 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
* * *
11338745 TGGATCTGTTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTACTCCCCGTCTAATATGGAGA
66 TGGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGAGA
*
11338810 TGCCAAATCATCTTGGATCTGCTTCA
131 TGCAAAATCATCTTGGATCTGCTTCA
* * *
11338836 ATGAAGGTTAGATCTGCTGTGTCTTCGATCTGCT-CCCGTCTAATACA-ATGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGA-GATGCCAAATCATC
* *
11338899 TTGGATCTGCTTCAATGAAGGT-CAGATCTGCTGTGTCTTCGATCTACTCTCCGT-TGAATATGG
65 TTGGATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTACTCCCCGTCT-AATATGG
11338962 AGATGCAAAATC
128 AGATGCAAAATC
11338974 TGTTTCTTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
154 4 0.03
155 89 0.72
156 31 0.25
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (156 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCGTCTAATATGGAGA
TGCAAAATCATCTTGGATCTGCTTCA
Found at i:11339264 original size:78 final size:78
Alignment explanation
Indices: 11339135--11339899 Score: 530
Period size: 78 Copynumber: 9.8 Consensus size: 78
11339125 GAAAACATCC
* *
11339135 GAAGGTTAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
11339200 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * *
11339213 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATTATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
11339278 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * *
11339291 GAAGGTCAGATCTGTTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
11339356 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * * ** *
11339369 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC---ATC
* * **
11339434 TTAGATTTG-TTCTCT
63 TTGGATCTGCTTCAAT
* * * * * * * *
11339449 GACA-GTACAGAGAT-TCCAAATCATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAA
1 GA-AGGT-C--AGATCTGC-TAT-GTCTTCGATCTGCTCCCCGTC-TAATACA-GAG-ATGCCAA
* *
11339509 ATCTTCTAT--ATCT--TCCAA-
57 ATCATCT-TGGATCTGCTTCAAT
*** * * * * * *** * * * * ***
11339527 -ATCTTCTATATCTTCGATCTGC-TC-CT-TG-TAAACG-CAAGGATGCCAAATCAT-CTTGGAT
1 GAAGGTC-AGATCTGCTATGT-CTTCGATCTGCTCCCCGTCTA--AT-ACAGA-GATGC-CAAAT
* * * ***
11339585 C-TAATTCGATGTG-AAAACAT
59 CAT-CTTGGATCTGCTTCA-AT
*
11339605 CCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 --GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11339670 TTGATCTGCTTCAAT
64 TGGATCTGCTTCAAT
** * * * *
11339685 GAAGGTCAGATCTATTGTGTCTTCGATCTGCTCTCCTTCTAATACAGAGATACCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
11339750 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * * *
11339763 GAAGGTCAGATCTGCTGTATCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
11339828 GATCTACTTCAAT
66 GATCTGCTTCAAT
* * *
11339841 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGT-TGAATA-TGAAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT-AATACAG-AGATGCCAAATC
11339900 TGTTTCTTCG
Statistics
Matches: 534, Mismatches: 111, Indels: 84
0.73 0.15 0.12
Matches are distributed among these distances:
71 2 0.00
72 4 0.01
73 5 0.01
74 7 0.01
75 11 0.02
76 4 0.01
77 4 0.01
78 386 0.72
79 3 0.01
80 36 0.07
81 24 0.04
82 9 0.02
83 16 0.03
84 23 0.04
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAAT
Found at i:11339419 original size:156 final size:155
Alignment explanation
Indices: 11339135--11339899 Score: 658
Period size: 156 Copynumber: 4.9 Consensus size: 155
11339125 GAAAACATCC
* *
11339135 GAAGGTTAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * *
11339200 GATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCTTCTAATACAGAGATG
66 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CTCTTCGAATACGGAGATG
*
11339265 CCAAATTATCTTGGATCTGCTTCAAT
130 CCAAATCATCTTGGATCTGCTTCAAT
* * *
11339291 GAAGGTCAGATCTGTTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
11339356 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATG
66 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCT-TCGAATACGGAGATG
* * * **
11339421 CCAAATCTGTTTCTTAGATTTG-TTCTCT
130 CCAAATC---ATCTTGGATCTGCTTCAAT
* * * * * * * *
11339449 GACA-GTACAGAGAT-TCCAAATCATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAA
1 GA-AGGT-C--AGATCTGC-TAT-GTCTTCGATCTGCTCCCCGTC-TAATACA-GAG-ATGCCAA
* * * *
11339509 ATCTTC-T--ATAT-CTTCCA--AA--TC---T-T-CTATATCTTCGATCTGCTC-CTT-GTAA-
57 ATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTTCG-AAT
* * *
11339558 ACGCAAGGATGCCAAATCATCTTGGATCTAATTCGATGTGAAAACAT
121 ACG-GA-GATGCCAAATCATCTTGGATC----T-GCT-T---CA-AT
*
11339605 CCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 --GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* ** * * *
11339670 TTGATCTGCTTCAATGAAGGTCAGATCTATTGTGTCTTCGATCTGCTCTCCTTCTAATACAGAGA
64 TGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCT-CTTCGAATACGGAGA
*
11339735 TACCAAATCATCTTGGATCTGCTTCAAT
128 TGCCAAATCATCTTGGATCTGCTTCAAT
* * * *
11339763 GAAGGTCAGATCTGCTGTATCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * *
11339828 GATCTACTTCAATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTT-GAATATGAAGAT
66 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCT-C-TTCGAATACGGAGAT
11339892 GCCAAATC
129 GCCAAATC
11339900 TGTTTCTTCG
Statistics
Matches: 481, Mismatches: 76, Indels: 104
0.73 0.11 0.16
Matches are distributed among these distances:
145 7 0.01
146 3 0.01
147 4 0.01
148 13 0.03
149 19 0.04
150 2 0.00
151 2 0.00
152 1 0.00
154 25 0.05
155 17 0.04
156 249 0.52
157 6 0.01
158 24 0.05
159 15 0.03
160 7 0.01
161 13 0.03
162 25 0.05
163 2 0.00
164 1 0.00
165 1 0.00
166 1 0.00
167 16 0.03
168 20 0.04
169 6 0.01
170 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (155 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTTCGAATACGGAGATGC
CAAATCATCTTGGATCTGCTTCAAT
Found at i:11339470 original size:454 final size:453
Alignment explanation
Indices: 11338651--11340119 Score: 2246
Period size: 472 Copynumber: 3.2 Consensus size: 453
11338641 GCCAAATCTG
* * *
11338651 TCATCTTGGATCTGCTTCGATGT-AAACACAT--GAAGGTCAGATCTGTTATGTCTTCGATCTGC
1 TCATCTTGGATCTACTTCGATGTGAAA-ACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGC
* * * *
11338713 TCCCCATCTAATACAGAGATGCTAAATCATCTTGGATCTGTTTCAATGAAGGTCCA-ATCTGTTA
65 TCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCTGTTG
* * * **
11338777 TGTCTTTGATCTACTCCCCGTCTAATATGGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
129 TGTCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
*
11338842 GTTAGATCTGCTGTGTCTTCGATCTGCT-CCCGTCTAATACAATGATGCCAAATCATCTTGGATC
194 GTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAA-GATGCCAAATCATCTTGGATC
* * *
11338906 TGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCTCCGTTGAATATGGAGATGCAAA
258 TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAA
11338971 ATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGC
323 ATCTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGC
* *
11339036 GTAAACACGTGAAAGCCAAATTTGCTATGTGTTCGATCTGCTCCTTGTAAACGTAAGGATGCCAA
388 GTAAACACGTGAAAGCCAAATTTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAA
11339101 A
453 A
* *
11339102 TCATCTTGGATCTACTTCGTTGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTTGATCTGCT
1 TCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCT
*
11339167 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTG
66 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTG
*
11339232 TCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATTATCTTGGATCTGCTTCAATGAAGGT
131 TCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
* *
11339297 CAGATCTGTTGTGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
196 CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACA-AGATGCCAAATCATCTTGGATCTG
* *
11339362 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAAT
260 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAAT
* *
11339427 CTGTTTCTTAGATTTGTTCTCTGACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGT
325 CTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
* *
11339492 AAACACGTGAAAGCCAAATCTTCTATATCTTCCAAATCTTCTATATCTTCGATCTGCTCCTTGTA
390 AAACACGTGAAAGCC--A------A-A---T-----T-TGCTATGTCTTCGATCTGCTCCTTGTA
11339557 AACGCAAGGATGCCAAA
437 AACGCAAGGATGCCAAA
*
11339574 TCATCTTGGATCTAATTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCT
1 TCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCT
* *
11339639 CCCCGTCTAATACAGAGATGCCAAATCATCTTTGATCTGCTTCAATGAAGGTCAGATCTATTGTG
66 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTG
* *
11339704 TCTTCGATCTGCTCTCCTTCTAATACAGAGATACCAAATCATCTTGGATCTGCTTCAATGAAGGT
131 TCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
* * *
11339769 CAGATCTGCTGTATCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTA
196 CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATAC-AAGATGCCAAATCATCTTGGATCTG
* *
11339834 CTTCAATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTTGAATATGAAGATGCCAAAT
260 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAAT
* *
11339899 CTGTTTCTTCGATTTGTTCTCTGACAGTATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCAT
325 CTGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
* *
11339964 AAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTAAACACAAGGATGCCAAA
390 AAACACGTGAAAGCCAAATTTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAA
* *
11340028 TCATCTTGGATCTACTTCGATGTGAAAACATCTGAAGGTTAGATCTGCTATGTCTTCGATATGCT
1 TCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCT
* * **
11340093 CTCCGTCGAATATGGAGATGCCAAATC
66 CCCCGTCTAATACAGAGATGCCAAATC
11340120 TGTTTCTTTG
Statistics
Matches: 930, Mismatches: 63, Indels: 47
0.89 0.06 0.05
Matches are distributed among these distances:
451 25 0.03
452 5 0.01
453 168 0.18
454 300 0.32
455 1 0.00
456 1 0.00
460 1 0.00
462 1 0.00
463 2 0.00
464 1 0.00
466 1 0.00
470 1 0.00
471 1 0.00
472 421 0.45
473 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (453 bp):
TCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCT
CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTG
TCTTCGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAAGATGCCAAATCATCTTGGATCTGC
TTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAATC
TGTTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTA
AACACGTGAAAGCCAAATTTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAA
Found at i:11339528 original size:18 final size:18
Alignment explanation
Indices: 11339505--11339541 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11339495 CACGTGAAAG
11339505 CCAAATCTTCTATATCTT
1 CCAAATCTTCTATATCTT
11339523 CCAAATCTTCTATATCTT
1 CCAAATCTTCTATATCTT
11339541 C
1 C
11339542 GATCTGCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (18 bp):
CCAAATCTTCTATATCTT
Found at i:11343262 original size:15 final size:15
Alignment explanation
Indices: 11343242--11343271 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11343232 CTCAATTGGT
11343242 GAATATCTCATCTCA
1 GAATATCTCATCTCA
11343257 GAATATCTCATCTCA
1 GAATATCTCATCTCA
11343272 CACTCTGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
GAATATCTCATCTCA
Found at i:11348538 original size:23 final size:22
Alignment explanation
Indices: 11348495--11348552 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11348485 AAAAGGTATC
* *
11348495 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11348516 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11348539 TGCATATCATATCT
1 TACAAATCATATCT
11348553 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11348546 original size:17 final size:17
Alignment explanation
Indices: 11348524--11348582 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
11348514 ATTACAAAAT
11348524 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
11348541 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
* *
11348560 TATAAT-ATCTAAGATTG
1 CAT-ATCTTCTAAGATTG
11348577 CATATC
1 CATATC
11348583 ATTGAAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.06
17 18 0.51
18 1 0.03
19 12 0.34
20 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:11348555 original size:19 final size:19
Alignment explanation
Indices: 11348531--11348584 Score: 85
Period size: 17 Copynumber: 2.9 Consensus size: 19
11348521 AATCATATCT
11348531 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11348550 TCTAAGATTG--TATAATA
1 TCTAAGATTGCATATCATA
11348567 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11348585 TGAAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11351580 original size:47 final size:47
Alignment explanation
Indices: 11351514--11352345 Score: 1441
Period size: 47 Copynumber: 17.4 Consensus size: 47
11351504 TATCACAGTT
* * * *
11351514 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
11351561 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351608 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
11351657 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
11351706 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351753 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351800 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
11351849 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
11351898 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
11351945 AGACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351992 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11352039 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
11352088 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
11352137 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11352184 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11352231 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11352278 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
11352327 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
11352346 GTAACAAAAT
Statistics
Matches: 762, Mismatches: 14, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
47 454 0.60
48 2 0.00
49 306 0.40
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:11351849 original size:192 final size:190
Alignment explanation
Indices: 11351514--11352345 Score: 1481
Period size: 192 Copynumber: 4.3 Consensus size: 190
11351504 TATCACAGTT
* * * * *
11351514 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
11351578 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
65 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
11351643 CTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
130 CTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
11351706 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
11351771 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
11351836 TTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATAC
131 TTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
11351898 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAGACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
11351963 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
11352028 TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
131 TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
11352088 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTCATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTC
11352153 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
64 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
11352218 CCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
129 CCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
11352278 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTC
11352343 ATC
64 ATC
11352346 GTAACAAAAT
Statistics
Matches: 624, Mismatches: 13, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
190 165 0.26
192 457 0.73
193 2 0.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (190 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
TTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:11351868 original size:27 final size:27
Alignment explanation
Indices: 11351838--11351920 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
11351828 ATTCGGCCTT
11351838 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
11351865 ATCACAT-TGGC---CA--TTCGGCCT-C
1 ATCACATAT-ACATACACTTTC-ACATTC
11351887 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
11351914 ATCACAT
1 ATCACAT
11351921 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 12 0.29
23 3 0.07
24 2 0.05
25 2 0.05
26 3 0.07
27 19 0.46
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:11351939 original size:22 final size:22
Alignment explanation
Indices: 11351914--11351989 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
11351904 TTTCACATTC
11351914 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * * *
11351936 ATCACATACAGACACTTTC-ACATT
1 ATCACAT--TGGC-CATTCGGCCTT
11351960 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
11351983 ATCACAT
1 ATCACAT
11351990 ACATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:11351958 original size:239 final size:239
Alignment explanation
Indices: 11351514--11352345 Score: 1544
Period size: 239 Copynumber: 3.5 Consensus size: 239
11351504 TATCACAGTT
* * * * *
11351514 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
11351578 TCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACATTGGCCATTCG
65 TCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCG
*
11351641 GCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
130 GCCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
11351706 ATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
193 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351753 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
11351818 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
*
11351883 CCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAGA
131 CCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATA
11351948 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
196 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11351992 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
11352057 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
11352122 CCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATA
131 CCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATA
11352187 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
196 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
11352231 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
11352296 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATC
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATC
11352346 GTAACAAAAT
Statistics
Matches: 581, Mismatches: 9, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
239 484 0.83
240 2 0.00
241 95 0.16
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (239 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTCATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATA
CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:11352107 original size:27 final size:27
Alignment explanation
Indices: 11352077--11352159 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
11352067 ATTCGGCCTT
11352077 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
11352104 ATCACAT-TGGC---CA--TTCGGCCT-C
1 ATCACATAT-ACATACACTTTC-ACATTC
11352126 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
11352153 ATCACAT
1 ATCACAT
11352160 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 12 0.29
23 3 0.07
24 2 0.05
25 2 0.05
26 3 0.07
27 19 0.46
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:11358088 original size:30 final size:31
Alignment explanation
Indices: 11358052--11358120 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
11358042 TATCGTATCT
11358052 TGGGTTTCTT-TATCCTGGATCTT-TTTATTC
1 TGGGTTTCTTCTATCCTGGAT-TTCTTTATTC
*
11358082 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCCTGGATTTCTTTATTC
*
11358112 -GGTTTTCTT
1 TGGGTTTCTT
11358121 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.59
Consensus pattern (31 bp):
TGGGTTTCTTCTATCCTGGATTTCTTTATTC
Found at i:11360572 original size:46 final size:46
Alignment explanation
Indices: 11360519--11360686 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 46
11360509 TATTTGGGCA
*
11360519 TCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
11360565 TCCGAACTCGTTAAGTTGAGTCCGAGCTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
11360610 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
11360658 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTC
11360687 GGTTATGGGC
Statistics
Matches: 98, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 52 0.53
47 26 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11360675 original size:93 final size:93
Alignment explanation
Indices: 11360515--11360683 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
11360505 GGGATATTTG
* *
11360515 GGCATCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTAAG
11360580 TTGAGTCCGAGCTCGTGAGATGTAACTA
66 TTGAGTCCGAGCTCGTGAGATGTAACTA
* *
11360608 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CTCGTTAA
11360672 GTTGAGTCCGAG
65 GTTGAGTCCGAG
11360684 TTCGGTTATG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTAAG
TTGAGTCCGAGCTCGTGAGATGTAACTA
Found at i:11367929 original size:29 final size:30
Alignment explanation
Indices: 11367882--11367949 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
11367872 TGGCCCAAGA
* *
11367882 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAGGGACTAATAGT
* *
11367912 GTAAATATGAAAAGTTGATGGACTAATAGT
1 GTAAATATCAAAAGTTGAGGGACTAATAGT
*
11367942 GCAAATAT
1 GTAAATAT
11367950 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAGGGACTAATAGT
Found at i:11368226 original size:8 final size:8
Alignment explanation
Indices: 11368203--11368227 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11368193 TTTAATAATA
11368203 TATTTTAT
1 TATTTTAT
11368211 TATTTTAT
1 TATTTTAT
11368219 TATTTTAT
1 TATTTTAT
11368227 T
1 T
11368228 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:11371012 original size:33 final size:33
Alignment explanation
Indices: 11370957--11371112 Score: 97
Period size: 33 Copynumber: 4.7 Consensus size: 33
11370947 AATTGACGGA
* *
11370957 TAAGACCATGGCT-GAGCCATGGCAATATATGTG
1 TAAGACCATAGCTAG-GCTATGGCAATATATGTG
* *
11370990 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTAGGCTATGGCAAT-AT-ATGTG
* * * ** *
11371023 TAAGACCATATCTGGGATATGGCACCACGA-GTG
1 TAAGACCATAGCTAGGCTATGGCAATA-TATGTG
* * * *
11371056 TAAGACCATGGCTAGGCCATGGCAATACACGTG
1 TAAGACCATAGCTAGGCTATGGCAATATATGTG
*
11371089 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
11371113 TCATACCAGA
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
32 7 0.08
33 81 0.88
34 4 0.04
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCAATATATGTG
Found at i:11371236 original size:45 final size:44
Alignment explanation
Indices: 11371122--11371237 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 44
11371112 ATCATACCAG
11371122 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAGGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATC-GGATTC
* * * *
11371167 AGACGAATAAGACCATAGCCGAAAGACGCTATGGCATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCG-GATTC
* * *
11371212 AAATGTGTAAGACCATGGTTGAAAGA
1 AAATGAGTAAGACCATAGCTGAAAGA
11371238 TACCATGGCA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (44 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCGGATTC
Found at i:11371402 original size:93 final size:92
Alignment explanation
Indices: 11371219--11371398 Score: 263
Period size: 93 Copynumber: 2.0 Consensus size: 92
11371209 TTCAAATGTG
* * * **
11371219 TAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAATAAGACCATGGTTGAAAGA
*
11371284 TACCATGACAACGTGACATGAAATGAA
66 TACCATGACAACCTGACATGAAATGAA
* *
11371311 TAAGACCATGGTTGAAAGATAGCATGGCAACATGACGGGGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-GAGGAAATGAATAAGACCATGGTTGAAAG
*
11371376 ATACCATGGCAACCTGACA-GAAA
65 ATACCATGACAACCTGACATGAAA
11371399 ATGAGTAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 37 0.47
93 41 0.53
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGAGAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGACAACCTGACATGAAATGAA
Found at i:11371418 original size:93 final size:92
Alignment explanation
Indices: 11371219--11371421 Score: 246
Period size: 93 Copynumber: 2.2 Consensus size: 92
11371209 TTCAAATGTG
* * * * **
11371219 TAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGATACCATGGCAACATGAGAGGAAATGAATAAGACCATGGTTGAAAGA
*
11371284 TACCATGACAACGTGACATGAAATGAA
66 TACCATGACAACCTGACATGAAATGAA
* * *
11371311 TAAGACCATGGTTGAAAGATAGCATGGCAACATGACGGGGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATAGTTGAAAGATACCATGGCAACATGA-GAGGAAATGAATAAGACCATGGTTGAAAG
* *
11371376 ATACCATGGCAACCTGACA-GAAAATGAG
65 ATACCATGACAACCTGACATG-AAATGAA
***
11371404 TAATTTCATAGTTGAAAG
1 TAAGACCATAGTTGAAAG
11371422 GCACTATGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 34 0.36
93 61 0.64
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (92 bp):
TAAGACCATAGTTGAAAGATACCATGGCAACATGAGAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGACAACCTGACATGAAATGAA
Found at i:11371421 original size:46 final size:46
Alignment explanation
Indices: 11371219--11371398 Score: 254
Period size: 46 Copynumber: 3.9 Consensus size: 46
11371209 TTCAAATGTG
* * **
11371219 TAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
11371265 TAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* **
11371311 TAAGACCATGGTTGAAAGATAGCATGGCAACATGACGGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-ATGAAATGAA
*
11371358 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
11371399 ATGAGTAATT
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
45 4 0.03
46 73 0.61
47 42 0.35
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:11371939 original size:24 final size:23
Alignment explanation
Indices: 11371908--11371954 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
11371898 ATTACATGAT
*
11371908 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
11371931 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
11371955 ATCCGTGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:11375299 original size:37 final size:37
Alignment explanation
Indices: 11375256--11375329 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11375246 TTGTATGAGA
11375256 ATAACGGCTGGAAATAAGGATTAAATTGGAAGAATTT
1 ATAACGGCTGGAAATAAGGATTAAATTGGAAGAATTT
11375293 ATAACGGCTGGAAATAAGGATTAAATTGGAAGAATTT
1 ATAACGGCTGGAAATAAGGATTAAATTGGAAGAATTT
11375330 TATTTTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (37 bp):
ATAACGGCTGGAAATAAGGATTAAATTGGAAGAATTT
Found at i:11378173 original size:15 final size:15
Alignment explanation
Indices: 11378149--11378182 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11378139 AATTTTAATA
11378149 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
11378163 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
11378179 ATTT
1 ATTT
11378183 GTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:11378261 original size:5 final size:5
Alignment explanation
Indices: 11378243--11378357 Score: 66
Period size: 5 Copynumber: 24.0 Consensus size: 5
11378233 TATTTTCAAG
*
11378243 TATAT T-TA- TATAT TATAT TATTT TATAT T-T-T TATAT TATTAT ATATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT -TATAT
* * * * * *
11378291 TATAT TATCT TATGT TTTAA TATA- CAT-T ATATAT TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT
* *
11378340 TTTAT CATA- TAT-T TATAT
1 TATAT TATAT TATAT TATAT
11378358 CTTATTACAT
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
3 3 0.04
4 13 0.16
5 58 0.70
6 7 0.08
7 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:11378270 original size:10 final size:10
Alignment explanation
Indices: 11378207--11378340 Score: 58
Period size: 10 Copynumber: 13.8 Consensus size: 10
11378197 CATATAAAAA
11378207 TTTAT-TTAT
1 TTTATATTAT
11378216 TTGTATATTAT
1 TT-TATATTAT
*
11378227 TTT-TGTTAT
1 TTTATATTAT
*
11378236 TTTCA-AGTAT
1 TTT-ATATTAT
11378246 ATTTATA-TA-
1 -TTTATATTAT
11378255 -TTATATTAT
1 TTTATATTAT
11378264 TTTATA-T-T
1 TTTATATTAT
11378272 TTTATATTAT
1 TTTATATTAT
11378282 TATATATATTAT
1 T-T-TATATTAT
* *
11378294 ATTATCTTAT
1 TTTATATTAT
11378304 GTTT-TA--A-
1 -TTTATATTAT
* *
11378311 TATACATTAT
1 TTTATATTAT
11378321 ATATTATATTAT
1 -T-TTATATTAT
11378333 TTTATATT
1 TTTATATT
11378341 TTATCATATA
Statistics
Matches: 94, Mismatches: 11, Indels: 39
0.65 0.08 0.27
Matches are distributed among these distances:
6 2 0.02
7 6 0.06
8 10 0.11
9 13 0.14
10 32 0.34
11 16 0.17
12 15 0.16
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Found at i:11378521 original size:19 final size:19
Alignment explanation
Indices: 11378478--11378532 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 19
11378468 ATTTTATTCT
* *
11378478 TTTATATTTTATATGT-TA
1 TTTATATTATATATATATA
*
11378496 CTT-TATTATATATATATA
1 TTTATATTATATATATATA
11378514 TTTATATTAT-TA-ATATA
1 TTTATATTATATATATATA
11378531 TT
1 TT
11378533 ATTACACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 17 0.55
18 8 0.26
19 6 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATATTATATATATATA
Found at i:11378587 original size:22 final size:23
Alignment explanation
Indices: 11378561--11378611 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
11378551 TTATAAATTA
* *
11378561 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
11378582 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
11378606 TTATTA
1 TTATTA
11378612 TAAAATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:11382390 original size:20 final size:20
Alignment explanation
Indices: 11382365--11382405 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11382355 AAGAGAGAGT
11382365 AAGAGAAAGGAAATCTGGAA
1 AAGAGAAAGGAAATCTGGAA
11382385 AAGAGAAAGGAAATCTGGAA
1 AAGAGAAAGGAAATCTGGAA
11382405 A
1 A
11382406 CAACACATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.29, T:0.10
Consensus pattern (20 bp):
AAGAGAAAGGAAATCTGGAA
Found at i:11390635 original size:44 final size:44
Alignment explanation
Indices: 11390587--11390845 Score: 358
Period size: 44 Copynumber: 5.9 Consensus size: 44
11390577 CGTTTACAAG
* *
11390587 GAGCATATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
11390631 GAGCAGATCGAGGATAGCAGATTTGGTGTCTCTATATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
11390675 GAGCAGATCGCAGATAGTAGATTTGGCGTCTCTGTATTGTCA-A
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
11390718 TGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTTAGA
1 -GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * * *
11390763 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCCGTACTGTCCGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
11390807 GAGCAGATTGAAGATAGCGGATTTGACGTCTCTGTATTG
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
11390846 ATAAGGAACA
Statistics
Matches: 189, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 1 0.01
44 187 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
Found at i:11390875 original size:88 final size:88
Alignment explanation
Indices: 11390593--11390883 Score: 221
Period size: 88 Copynumber: 3.3 Consensus size: 88
11390583 CAAGGAGCAT
* * * * * * * *
11390593 ATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA-GAGCAGATCGAGGATAGCAGATTTGG
1 ATCGAAGAAAACAAATTTGGCGTCTCCGTACTGTCA-ATGAGCAGATCGAAGATAGCAGATTTGA
* * * * *
11390657 TGTCTCTATATTGTCAGAGAGCAG
65 CGTCTCTGTATTGTAAGAGAACAA
* * ** * * * **
11390681 ATCGCAGATAGTAGATTTGGCGTCTCTGTATTGTCAATGAGCAGATCGAAGATAGCAGATTTGGT
1 ATCGAAGAAAACAAATTTGGCGTCTCCGTACTGTCAATGAGCAGATCGAAGATAGCAGATTTGAC
* * *
11390746 GTCTCTGTATTGTTAGAGAGCAG
66 GTCTCTGTATTGTAAGAGAACAA
* * * * * * *
11390769 ATTGAAGATAGCAGATTTGGCGTCTCCGTACTGTCCGA-GAGCAGATTGAAGATAGCGGATTTGA
1 ATCGAAGAAAACAAATTTGGCGTCTCCGTACTGT-CAATGAGCAGATCGAAGATAGCAGATTTGA
11390833 CGTCTCTGTATTGATAAG-GAACAAA
65 CGTCTCTGTATTG-TAAGAGAAC-AA
*
11390858 ATCGAA-AAAACAAATTTGGCATCTCC
1 ATCGAAGAAAACAAATTTGGCGTCTCC
11390884 ATATTCGACA
Statistics
Matches: 175, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
87 1 0.01
88 163 0.93
89 11 0.06
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (88 bp):
ATCGAAGAAAACAAATTTGGCGTCTCCGTACTGTCAATGAGCAGATCGAAGATAGCAGATTTGAC
GTCTCTGTATTGTAAGAGAACAA
Found at i:11390875 original size:132 final size:132
Alignment explanation
Indices: 11390583--11390909 Score: 325
Period size: 132 Copynumber: 2.5 Consensus size: 132
11390573 CTTGCGTTTA
* * * * * ** *
11390583 CAAGGAGCATATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAGGATAG
1 CAAGGAACAAATCGAAGAAAACAAATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * * * *
11390648 CAGATTTGGTGTCTCTATATTGTCAGAGAGCAGATCGCAGATAGTAGATTTGGCGTCTCTGTATT
66 CAGATTTGGCGTCTCCATACTGTCAGAGAGCAGATCGAAGATAGCAGATTTGACGTCTCTGTATT
11390713 GT
131 GT
* * * * * * * *
11390715 CAATGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTTAGAGAGCAGATTGAAGATAG
1 CAAGGAACAAATCGAAGAAAACAAATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
11390780 CAGATTTGGCGTCTCCGTACTGTCCGAGAGCAGATTGAAGATAGCGGATTTGACGTCTCTGTATT
66 CAGATTTGGCGTCTCCATACTGTCAGAGAGCAGATCGAAGATAGCAGATTTGACGTCTCTGTATT
11390845 GAT
131 G-T
** ** * *
11390848 -AAGGAACAAAATCGAA-AAAACAAATTTGGCATCTCCATATTCGACAGAGAGCAGATCAAAGA
1 CAAGGAAC-AAATCGAAGAAAACAAATTTGGTGTCTCTGTATT-GTCAGAGAGCAGATCGAAGA
11390910 CATAGTAGAT
Statistics
Matches: 161, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
132 137 0.85
133 24 0.15
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (132 bp):
CAAGGAACAAATCGAAGAAAACAAATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
CAGATTTGGCGTCTCCATACTGTCAGAGAGCAGATCGAAGATAGCAGATTTGACGTCTCTGTATT
GT
Found at i:11391067 original size:45 final size:45
Alignment explanation
Indices: 11390960--11391111 Score: 175
Period size: 44 Copynumber: 3.4 Consensus size: 45
11390950 GATCCAAGAT
* *
11390960 GATTTGGCATCTT-CGTATTCGACGAGGAGTAAATCCAAGAAG-TA
1 GATTTGGCAT-TTCCGTATTCGACGAGGAGCAAATCCAAGAAGACA
** * * *
11391004 GATTTGGCATCCCCGTATTCGACGGGGAGCAGATCCAAGATGACA
1 GATTTGGCATTTCCGTATTCGACGAGGAGCAAATCCAAGAAGACA
* *
11391049 GATTTGGCATTTCCGTATTCGACGAGGAACAAAACCAAGAAGAC-
1 GATTTGGCATTTCCGTATTCGACGAGGAGCAAATCCAAGAAGACA
* *
11391093 GATTTGGCATATCTGTATT
1 GATTTGGCATTTCCGTATT
11391112 TGACAGAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
44 52 0.58
45 38 0.42
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
GATTTGGCATTTCCGTATTCGACGAGGAGCAAATCCAAGAAGACA
Found at i:11391347 original size:17 final size:17
Alignment explanation
Indices: 11391325--11391357 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11391315 CAAAAATTAA
*
11391325 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
11391342 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
11391358 AGTCCATTTA
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:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:11392413 original size:30 final size:29
Alignment explanation
Indices: 11392370--11392430 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
11392360 TTTCCAATTT
* *
11392370 CATTTTATTTTATTAT-AATTTGGCCCTAA
1 CATTTTACTTTATT-TCAATTTAGCCCTAA
*
11392399 CATTTTGACTTTATTTCAATTTAGTCCTAA
1 CATTTT-ACTTTATTTCAATTTAGCCCTAA
11392429 CA
1 CA
11392431 GCTCCTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (29 bp):
CATTTTACTTTATTTCAATTTAGCCCTAA
Found at i:11392614 original size:15 final size:15
Alignment explanation
Indices: 11392590--11392623 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11392580 AATTTTAATC
11392590 ATTTTTTTAAAT-TT
1 ATTTTTTTAAATATT
11392604 ATTTATTTTAAATATT
1 ATTT-TTTTAAATATT
11392620 ATTT
1 ATTT
11392624 GTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTAAATATT
Found at i:11392701 original size:5 final size:5
Alignment explanation
Indices: 11392683--11392797 Score: 66
Period size: 5 Copynumber: 24.0 Consensus size: 5
11392673 TATTTTCAAG
*
11392683 TATAT T-TA- TATAT TATAT TATTT TATAT T-T-T TATAT TATTAT ATATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT -TATAT
* * * * * *
11392731 TATAT TATCT TATGT TTTAA TATA- CAT-T ATATAT TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT
* *
11392780 TTTAT CATA- TAT-T TATAT
1 TATAT TATAT TATAT TATAT
11392798 CTTATTACAT
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
3 3 0.04
4 13 0.16
5 58 0.70
6 7 0.08
7 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:11392947 original size:17 final size:17
Alignment explanation
Indices: 11392918--11392970 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
11392908 ATTTTATTCT
* *
11392918 TTTATATTTTATATGTTA
1 TTTATATTATATAT-ATA
11392936 TTT-TATTATATATATA
1 TTTATATTATATATATA
11392952 TTTATATTAT-TAATATA
1 TTTATATTATAT-ATATA
11392969 TT
1 TT
11392971 ATTACACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 22 0.71
18 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTATATATATA
Found at i:11392955 original size:27 final size:27
Alignment explanation
Indices: 11392906--11392958 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11392896 TATCATTACA
* *
11392906 TTATTTTATTCTTTTATATTTTATATG
1 TTATTTTATTATTATATATTTTATATG
11392933 TTATTTTATTA-TATATATATTTATAT
1 TTATTTTATTATTATATAT-TTTATAT
11392959 TATTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTATTTTATTATTATATATTTTATATG
Found at i:11392968 original size:11 final size:10
Alignment explanation
Indices: 11392920--11392974 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
11392910 TTTATTCTTT
11392920 TATATT-TTA
1 TATATTATTA
*
11392929 TATGTTATT-
1 TATATTATTA
11392938 T-TATTA-TA
1 TATATTATTA
11392946 TATA-TATT-
1 TATATTATTA
11392954 TATATTATTAA
1 TATATTATT-A
11392965 TATATTATTA
1 TATATTATTA
11392975 CACTATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.03
8 11 0.30
9 13 0.35
10 3 0.08
11 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATTATTA
Found at i:11393025 original size:22 final size:23
Alignment explanation
Indices: 11392999--11393049 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
11392989 TTATAAATTA
* *
11392999 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
11393020 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
11393044 TTATTA
1 TTATTA
11393050 TAAAATTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:11399102 original size:21 final size:21
Alignment explanation
Indices: 11399056--11399102 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
11399046 CGGCTTTTAT
*
11399056 TTAAAATATACAATTTAATGG
1 TTAAAATATACAATTTAAAGG
* *
11399077 CTAAAATCT-CAATTTTAAAGG
1 TTAAAATATACAA-TTTAAAGG
11399098 TTAAA
1 TTAAA
11399103 TAACATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
TTAAAATATACAATTTAAAGG
Found at i:11402010 original size:17 final size:17
Alignment explanation
Indices: 11401988--11402020 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11401978 TTAGAAGAAT
11401988 AAAAATAAATAAATAAC
1 AAAAATAAATAAATAAC
11402005 AAAAATAAATAAATAA
1 AAAAATAAATAAATAA
11402021 AGAGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAATAAATAAC
Found at i:11405927 original size:24 final size:24
Alignment explanation
Indices: 11405895--11405941 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11405885 ACACCTTCAT
*
11405895 ATACATATACACATGAACACATAC
1 ATACATATACACATAAACACATAC
*
11405919 ATACTTATACACATAAACACATA
1 ATACATATACACATAAACACATA
11405942 TACACAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (24 bp):
ATACATATACACATAAACACATAC
Found at i:11405940 original size:8 final size:8
Alignment explanation
Indices: 11405897--11405947 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
11405887 ACCTTCATAT
11405897 ACATATAC
1 ACATATAC
11405905 ACATGA-AC
1 ACAT-ATAC
* *
11405913 ACATACAT
1 ACATATAC
*
11405921 ACTTATAC
1 ACATATAC
*
11405929 ACATAAAC
1 ACATATAC
11405937 ACATATAC
1 ACATATAC
11405945 ACA
1 ACA
11405948 AACCTTCCAC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
7 1 0.03
8 32 0.94
9 1 0.03
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.22
Consensus pattern (8 bp):
ACATATAC
Found at i:11407423 original size:18 final size:18
Alignment explanation
Indices: 11407402--11407446 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
11407392 TAAGCCCCCT
11407402 AAAAAAACCTAACCCCAA
1 AAAAAAACCTAACCCCAA
*
11407420 AAAAAAACCTAACCCCCA
1 AAAAAAACCTAACCCCAA
11407438 AAAAAAACC
1 AAAAAAACC
11407447 AAGAAACCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.62, C:0.33, G:0.00, T:0.04
Consensus pattern (18 bp):
AAAAAAACCTAACCCCAA
Found at i:11409471 original size:12 final size:12
Alignment explanation
Indices: 11409454--11409485 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11409444 ATTCATTTGA
*
11409454 CATTCATGCATT
1 CATTCATACATT
11409466 CATTCATACATT
1 CATTCATACATT
11409478 CATTCATA
1 CATTCATA
11409486 TATTGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (12 bp):
CATTCATACATT
Found at i:11418020 original size:138 final size:138
Alignment explanation
Indices: 11417749--11417999 Score: 357
Period size: 138 Copynumber: 1.8 Consensus size: 138
11417739 GTTCTATTTC
* * * * *
11417749 AAAATTCAATTCATATTGCGAGAGGTGGGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGAATTGTCAATTTC
*** * *
11417814 TCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCGCTGAGGTA
66 TCGTATGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGACACGCTGAGGTA
11417879 TTTTAAAA
131 TTTTAAAA
11417887 AAAAATCAACTCATATTGCGAGAGG-GGAGTTGAGCCTCAGGACACGCTGAGGGAATT-TCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGG-GTTGAGCCTCAGGACACGCTGA-GGAATTGTCAATT
*
11417950 TCT-GT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCA
64 TCTCGTATGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCA
11418000 GGTCACACGT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
136 40 0.40
137 4 0.04
138 52 0.51
139 5 0.05
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (138 bp):
AAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGAATTGTCAATTTC
TCGTATGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAAGACACGCTGAGGTA
TTTTAAAA
Found at i:11418159 original size:74 final size:76
Alignment explanation
Indices: 11418052--11418195 Score: 220
Period size: 74 Copynumber: 1.9 Consensus size: 76
11418042 CTGCCTTTCA
* *
11418052 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
11418116 TTTCTGTTGTC
66 TTTCTGTTGTC
* * *
11418127 AAAAAAAAT-AACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCA
11418191 ATTTC
65 ATTTC
11418196 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 31 0.50
75 9 0.15
76 22 0.35
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (76 bp):
AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAA
TTTCTGTTGTC
Found at i:11418161 original size:168 final size:168
Alignment explanation
Indices: 11417883--11418526 Score: 863
Period size: 168 Copynumber: 3.8 Consensus size: 168
11417873 GAGGTATTTT
* **
11417883 AAAAAAAAATCAACTCATATTGCGAGAGGGGAGTTGAGCCTCAGG-ACACGCTGAGGGAATTTCA
1 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCACACGCTGAGCTAATTTCA
* * *
11417947 ATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTC
65 ATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCC
*
11418011 GAGGTATTTTCAATTTTCGTTTTTCAAATTTCTGCCTTTC
130 GAGGTATTTTCAATTTCCGTTTTTC-AATTTCTGCCTTTC
*
11418051 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCA
1 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCACACGCTGAGCTAATTTCA
* * *
11418115 ATTTCTGT-TGTCAAAAAAAAT-AACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGC
65 ATTTCTGTCTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGC
11418178 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
129 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
* * * * * * *
11418218 AAAAAAAAAATCGACTCATATTGTGAGAGGTAAGTTAAGCCTTGGCTCACGCGCTGAGCTATTTT
1 -AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACACGCTGAGCTAATTT
* *
11418283 CAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GATCACACG
63 CAATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACG
*
11418347 CCGAGGTATTTTCAATTTCCGTTTTTTAATTTCTGCCTTTC
128 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
** * * * *
11418388 -AAAAAAAATTGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACACGCTGAGCTAATTTC
* * * *
11418452 AATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
64 AATTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGC
*
11418516 TGAGGTATTTT
129 CGAGGTATTTT
11418527 TTTTCAATTT
Statistics
Matches: 441, Mismatches: 27, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
167 54 0.12
168 268 0.61
169 8 0.02
170 80 0.18
171 31 0.07
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (168 bp):
AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCACACGCTGAGCTAATTTCAA
TTTCTGTCTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCG
AGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
Found at i:11418336 original size:77 final size:77
Alignment explanation
Indices: 11418199--11418365 Score: 210
Period size: 77 Copynumber: 2.1 Consensus size: 77
11418189 CAATTTCCGT
* * * *
11418199 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGTGAGAGGTAAGTTAAGCCTTGGC
1 TTTTCAATTTCTGCCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCC-TCGA
* *
11418264 TCACGCGCTGAGCTA
63 TCACACGCCGAGCTA
* * *
11418279 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGATCA
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCGATCA
*
11418343 CACGCCGAGGTA
66 CACGCCGAGCTA
11418355 TTTTCAATTTC
1 TTTTCAATTTC
11418366 CGTTTTTTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 25 0.32
77 34 0.44
80 18 0.23
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (77 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTAAGCCTCGATCA
CACGCCGAGCTA
Found at i:11418392 original size:90 final size:92
Alignment explanation
Indices: 11418279--11418467 Score: 256
Period size: 91 Copynumber: 2.1 Consensus size: 92
11418269 CGCTGAGCTA
* *
11418279 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGATC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCGATC
*
11418342 ACACGCCGAGGTATTTTCAATTTCCGT
66 ACACGCCGAGCTATTTTCAATTTCCGT
* ** * *
11418369 TTTTTAATTTCTGCCTTTCAAAAAAAATTGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCGATC
* * *
11418434 ACGCGCTGAGCTATTTTCAATTTCTGT
66 ACACGCCGAGCTATTTTCAATTTCCGT
*
11418461 CTTTCAA
1 TTTTCAA
11418468 AAAATCAACT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 17 0.20
91 35 0.42
92 32 0.38
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (92 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTCGATC
ACACGCCGAGCTATTTTCAATTTCCGT
Found at i:11418591 original size:79 final size:77
Alignment explanation
Indices: 11418390--11418740 Score: 254
Period size: 76 Copynumber: 4.4 Consensus size: 77
11418380 TGCCTTTCAA
** * * * *
11418390 AAAAAATTGACTCATATTACGAGAGGTGAGTTGAGCCTTG-GCTCACGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGATCACACACTGAGCTATTTTCAA
* *
11418454 TTTCTGTCTTTC
66 TTTATATCTTTC
* *
11418466 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGATCACACACTGAGCTA----TTT
*
11418530 TCAATTTATATTTTTC
62 TCAATTTATATCTTTC
* *
11418546 -AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAG-TCACATA-TCGAGGC-ATTTTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGATCACACACT-GA-GCTATTTTC
**
11418607 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTT--A--TATCTTTC
* * ** *
11418633 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGATCACACACTGAGCTATTTTCAA
* *
11418694 TTTCTGTCTTTC
66 TTTATATCTTTC
*
11418706 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
11418741 ACCTCAAGAC
Statistics
Matches: 222, Mismatches: 28, Indels: 51
0.74 0.09 0.17
Matches are distributed among these distances:
73 5 0.02
75 40 0.18
76 45 0.20
77 5 0.02
78 1 0.00
79 42 0.19
80 22 0.10
83 5 0.02
84 1 0.00
85 12 0.05
86 3 0.01
87 41 0.18
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (77 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGATCACACACTGAGCTATTTTCAA
TTTATATCTTTC
Found at i:11418780 original size:73 final size:74
Alignment explanation
Indices: 11418633--11418773 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 74
11418623 GTTAAGTTTC
* *
11418633 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTGAGGTATTTTCAATTTC
11418698 TGTCTTTCAA
65 TGTCTTTCAA
* * * *
11418708 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ACGCTGCGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
11418772 GT
66 GT
11418774 TCTTCAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 21 0.35
75 39 0.65
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:11418888 original size:15 final size:14
Alignment explanation
Indices: 11418852--11418884 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
11418842 CGCTGAGGTA
11418852 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
11418866 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
11418880 TTTTC
1 TTTTC
11418885 CAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:11418901 original size:92 final size:90
Alignment explanation
Indices: 11418687--11419229 Score: 438
Period size: 87 Copynumber: 6.0 Consensus size: 90
11418677 CGTTGAGGTA
* * * * * *
11418687 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACC-T--CAAG
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCCAC
* * * *
11418749 ACGCTGCGGTGTTTTCCATTTCTGT
66 ACGCTGAGGTATTTTCAAATTCTGT
* * * * * * *
11418774 TCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTAACTT
1 TTTTCAATTTATGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGC-C
11418839 ACACGCTGAGGTATTTTCAAATTCTGT
64 ACACGCTGAGGTATTTTCAAATTCTGT
* * *
11418866 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAG-G
1 TTTTC-AATTTATGTTTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCC
*
11418929 ACACGCTGAGGTATTTTC-AATT-TTT
64 ACACGCTGAGGTATTTTCAAATTCTGT
* * *
11418954 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGCCA
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTA-GCCA
* * * *
11419019 CACACCGAGGTATTTTCAATTGATGTTTTTT
65 CACGCTGAGGTATTTTCAA---A--TTCTGT
* * * * * *
11419050 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTC
1 TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--AGCC
**
11419112 ACA-TATCGAGGTATTTTCATAA-TCTGT
64 ACACGCT-GAGGTATTTTCA-AATTCTGT
* * *
11419139 TTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGC-C
* *
11419199 AC-CTGCTGAGCTATTTTCAATTTCTGT
64 ACAC-GCTGAGGTATTTTCAAATTCTGT
11419226 TTTT
1 TTTT
11419230 AATGTCTAGT
Statistics
Matches: 379, Mismatches: 50, Indels: 54
0.78 0.10 0.11
Matches are distributed among these distances:
86 3 0.01
87 116 0.31
88 57 0.15
89 29 0.08
90 24 0.06
91 1 0.00
92 70 0.18
93 9 0.02
94 49 0.13
95 3 0.01
96 18 0.05
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (90 bp):
TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCCAC
ACGCTGAGGTATTTTCAAATTCTGT
Found at i:11419048 original size:179 final size:179
Alignment explanation
Indices: 11418687--11419099 Score: 441
Period size: 179 Copynumber: 2.3 Consensus size: 179
11418677 CGTTGAGGTA
* * *
11418687 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACG
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACG
* * * * * *
11418752 CTGCGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGA
66 CTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATACTGCGA
* * * * * *
11418817 GTGGTGAGTTGAGCCTTAACTTACACGCTGAGGTATTTTCAAATTCTGT
131 GAGGTGAGTTGAGCCTCAACTCACACACCGAGGTATTTTCAAATTATGT
* *
11418866 TTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTCTGTCTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--A
*
11418930 CACGCTGAGGTATTTTCAATTT-T-TTTTTCAATTTATGT-TTGTC-AAAAAAATCAACTCATAC
62 CACGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTT-TCAAAAAAAATCAACTCATAC
*
11418991 TGCGAGAGGTGAGTTGAGCCTCAGGC-CACACACCGAGGTATTTTC-AATTGATGTTTTTT
126 TGCGAGAGGTGAGTTGAGCCTCA-ACTCACACACCGAGGTATTTTCAAATT-ATG-----T
* * *
11419050 TTTTTAATTTATG-CTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTT
1 TTTTCAATTTCTGTCTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
11419100 GAGCTTCGGG
Statistics
Matches: 198, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
178 4 0.02
179 68 0.34
180 60 0.30
181 31 0.16
182 19 0.10
183 9 0.05
184 7 0.04
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (179 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACG
CTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATACTGCGA
GAGGTGAGTTGAGCCTCAACTCACACACCGAGGTATTTTCAAATTATGT
Found at i:11419091 original size:94 final size:95
Alignment explanation
Indices: 11418865--11419130 Score: 277
Period size: 94 Copynumber: 2.9 Consensus size: 95
11418855 TCAAATTCTG
* * * *
11418865 TTTTTCAAATTT-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG
1 TTTTTC-AATTTATGTTTGT-C-AAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGG
* *
11418929 --ACACGCTGAGGTATTTTC-A---A---TTTT
63 CCACACACCGAGGTATTTTCAATTGATGTTTTT
*
11418953 TTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGCC
1 TTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGCC
11419018 ACACACCGAGGTATTTTCAATTGATGTTTTT
65 ACACACCGAGGTATTTTCAATTGATGTTTTT
* * * * *
11419049 TTTTTTAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTC
1 TTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGCC
* *
11419112 ACATATCGAGGTATTTTCA
65 ACACACCGAGGTATTTTCA
11419131 TAATCTGTTT
Statistics
Matches: 154, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
87 47 0.31
88 12 0.08
89 16 0.10
90 1 0.01
93 1 0.01
94 55 0.36
96 18 0.12
97 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (95 bp):
TTTTTCAATTTATGTTTGTCAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGCCA
CACACCGAGGTATTTTCAATTGATGTTTTT
Found at i:11423482 original size:15 final size:15
Alignment explanation
Indices: 11423432--11423516 Score: 82
Period size: 15 Copynumber: 5.7 Consensus size: 15
11423422 AAGGATAACC
* *
11423432 AGAAAACCAAGATAG
1 AGAAATCCAAGATAA
*
11423447 AGAAA-CCCAGAATAA
1 AGAAATCCAAG-ATAA
*
11423462 AGAAATCCAACATAA
1 AGAAATCCAAGATAA
* *
11423477 AGAAATCCTAGATAG
1 AGAAATCCAAGATAA
* *
11423492 ATAAGTCCAAGATAA
1 AGAAATCCAAGATAA
11423507 AGAAATCCAA
1 AGAAATCCAA
11423517 ATTACAATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 4 0.07
15 48 0.87
16 3 0.05
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.13
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:11426860 original size:9 final size:9
Alignment explanation
Indices: 11426846--11426875 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
11426836 TGGACAATCA
11426846 TTTTTAATT
1 TTTTTAATT
11426855 TTTTTAATT
1 TTTTTAATT
11426864 TTTTTAATT
1 TTTTTAATT
11426873 TTT
1 TTT
11426876 ACCTACTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTAATT
Found at i:11427909 original size:72 final size:71
Alignment explanation
Indices: 11427833--11428047 Score: 220
Period size: 72 Copynumber: 3.0 Consensus size: 71
11427823 TAATTATGTG
* *
11427833 TTTTCAAAAAGGTTAATTAAGTTCAATTTATTAAGTTTTGATATTAAGCGAAACCGTTTATTTAG
1 TTTTCAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATTTA-
11427898 TTATACA
65 TTATACA
* * ** * * * * *
11427905 TTTTC-ATAAGCTTAATTTAGTTTGATTTATTGAA-ATTTGATATTAAGTAAAAACGTTTGTTCA
1 TTTTCAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGATATTAAGTGAAACCGTTTATT-T
11427968 ATTATGA-A
64 ATTAT-ACA
* * * * *
11427976 TTTTTAAAAATGTTAATTTAGTTCAATTTATTGAGTTTTGATATTAAGTGGAACCATTTATTCTA
1 TTTTCAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATT-TA
11428041 TTATACA
65 TTATACA
11428048 AAGTAAAACC
Statistics
Matches: 112, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
71 54 0.48
72 58 0.52
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (71 bp):
TTTTCAAAAAGGTTAATTTAGTTCAATTTATTAAGTTTTGATATTAAGTGAAACCGTTTATTTAT
TATACA
Found at i:11428069 original size:99 final size:99
Alignment explanation
Indices: 11427949--11428143 Score: 282
Period size: 99 Copynumber: 2.0 Consensus size: 99
11427939 ATTTGATATT
* * * * *
11427949 AAGTAAAAACGTTTGTTCAATTATGAATTTTTAAAAATGTTAATTTAGTTCAATTTATTGAGTTT
1 AAGTAAAAACGCTTGTTCAATTATGAATTTTTAAAAAAGATAATTTAGTCCAATTTATTGAATTT
* * *
11428014 TGATATTAAGTGGAACCATTTATTCTATTATACA
66 TGATATTAACTAGAACCATTTATTCAATTATACA
* **
11428048 AAGTAAAACCGCTTGTTCAATTATGCGTTTTTAAAAAAGATAATTTAGTCCAATTTATTGAATTT
1 AAGTAAAAACGCTTGTTCAATTATGAATTTTTAAAAAAGATAATTTAGTCCAATTTATTGAATTT
*
11428113 TGATATTAACTAGAACCGTTTATTCAATTAT
66 TGATATTAACTAGAACCATTTATTCAATTAT
11428144 GTGTTTTTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (99 bp):
AAGTAAAAACGCTTGTTCAATTATGAATTTTTAAAAAAGATAATTTAGTCCAATTTATTGAATTT
TGATATTAACTAGAACCATTTATTCAATTATACA
Found at i:11428252 original size:72 final size:72
Alignment explanation
Indices: 11428048--11428281 Score: 220
Period size: 72 Copynumber: 3.2 Consensus size: 72
11428038 CTATTATACA
* * ** * * * *
11428048 AAGTAAAACCGCTTGTTCAATTATGCGTTTTTAAAAAAGA-TAATTTAGTCCAATTTATTGAATT
1 AAGTAAAACCGTTTATTCAATTATATGTTTTT-AAAAAGACTAAATTAATTCAATTTATTGAGTT
11428112 TTGATATT
65 TTGATATT
* * * * ** * *
11428120 AACTAGAACCGTTTATTCAATTATGTGTTTTTAAAAAGGCTACTTTAGTTCAATTCATTGAGTTT
1 AAGTAAAACCGTTTATTCAATTATATGTTTTTAAAAAGACTAAATTAATTCAATTTATTGAGTTT
11428185 TGATATT
66 TGATATT
* * * * **
11428192 AAGTAAAACGGTTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTT
1 AAGTAAAACCGTTTATTCAA-TTATATGTTTTTAAAAAGACTAAATTAATTCAATTTATTGAGTT
11428256 TTGATATT
65 TTGATATT
* *
11428264 AAGTAAAATCATTTATTC
1 AAGTAAAACCGTTTATTC
11428282 GGTAAAATGT
Statistics
Matches: 133, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
71 6 0.05
72 121 0.91
73 6 0.05
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (72 bp):
AAGTAAAACCGTTTATTCAATTATATGTTTTTAAAAAGACTAAATTAATTCAATTTATTGAGTTT
TGATATT
Found at i:11437345 original size:22 final size:22
Alignment explanation
Indices: 11437317--11437359 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11437307 CATAACATTA
11437317 ATATGTTTATATATCGATTCAG
1 ATATGTTTATATATCGATTCAG
11437339 ATATGTTTATATATCGATTCA
1 ATATGTTTATATATCGATTCA
11437360 TTAACATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
ATATGTTTATATATCGATTCAG
Found at i:11439776 original size:10 final size:10
Alignment explanation
Indices: 11439717--11439996 Score: 76
Period size: 10 Copynumber: 28.8 Consensus size: 10
11439707 AATCATAACA
11439717 ATAAAAATATT
1 ATAAAAA-ATT
*
11439728 -TAAAAAATC
1 ATAAAAAATT
*
11439737 AT--AAATTT
1 ATAAAAAATT
* *
11439745 TTAAAAAAAT
1 ATAAAAAATT
*
11439755 AGAAAAAA-T
1 ATAAAAAATT
11439764 ATAAAAAATT
1 ATAAAAAATT
11439774 AT-AAAAATT
1 ATAAAAAATT
*
11439783 AT--TAAA-T
1 ATAAAAAATT
*
11439790 ATTAAAAA-T
1 ATAAAAAATT
*
11439799 AT-GAAAATT
1 ATAAAAAATT
*
11439808 GAT-ATAAATT
1 -ATAAAAAATT
11439818 -T-AAAAATT
1 ATAAAAAATT
*
11439826 ATAAAAAA-A
1 ATAAAAAATT
*
11439835 ATATACAAATT
1 ATA-AAAAATT
11439846 ATTAAAAAATT
1 A-TAAAAAATT
* *
11439857 -TAATAATTT
1 ATAAAAAATT
*
11439866 ATAAAACAA-A
1 ATAAAA-AATT
11439876 ATAATAAAATT
1 ATAA-AAAATT
11439887 AATAAAACATATT
1 -ATAAAA-A-ATT
**
11439900 -TAAAATTTT
1 ATAAAAAATT
***
11439909 ATAAAAGCGT
1 ATAAAAAATT
* *
11439919 ATTAAAATTCT
1 ATAAAAAAT-T
*
11439930 ATAAAAAATC
1 ATAAAAAATT
* *
11439940 ATACACAATT
1 ATAAAAAATT
*
11439950 ATAAAAAAAT
1 ATAAAAAATT
*
11439960 AT-TAAAATT
1 ATAAAAAATT
* *
11439969 AATATAAACTT
1 -ATAAAAAATT
11439980 AT-AAAAATT
1 ATAAAAAATT
11439989 ATAAAAAA
1 ATAAAAAA
11439997 AATCATAAAA
Statistics
Matches: 196, Mismatches: 48, Indels: 51
0.66 0.16 0.17
Matches are distributed among these distances:
7 3 0.02
8 19 0.10
9 51 0.26
10 82 0.42
11 31 0.16
12 7 0.04
13 3 0.02
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:11439789 original size:26 final size:28
Alignment explanation
Indices: 11439760--11439832 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 28
11439750 AAAATAGAAA
*
11439760 AAATATAAAAAATTATAAAAATT-AT-T
1 AAATATTAAAAATTATAAAAATTGATAT
*
11439786 AAATATTAAAAA-TATGAAAATTGATAT
1 AAATATTAAAAATTATAAAAATTGATAT
11439813 AAAT-TTAAAAATTATAAAAA
1 AAATATTAAAAATTATAAAAA
11439833 AAATATACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.22
26 20 0.49
27 12 0.29
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (28 bp):
AAATATTAAAAATTATAAAAATTGATAT
Found at i:11439838 original size:26 final size:27
Alignment explanation
Indices: 11439760--11439853 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 27
11439750 AAAATAGAAA
* *
11439760 AAATATAAAAAATTATAAAAATTAT-T
1 AAATATTAAAAATTATAAAAATAATAT
* *
11439786 AAATATTAAAAA-TATGAAAATTGATAT
1 AAATATTAAAAATTAT-AAAAATAATAT
*
11439813 AAAT-TTAAAAATTATAAAAAAAATAT
1 AAATATTAAAAATTATAAAAATAATAT
11439839 ACAAATTATTAAAAA
1 --AAA-TATTAAAAA
11439854 ATTTAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
25 3 0.05
26 33 0.60
27 8 0.15
28 3 0.05
29 1 0.02
30 7 0.13
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (27 bp):
AAATATTAAAAATTATAAAAATAATAT
Found at i:11439901 original size:82 final size:82
Alignment explanation
Indices: 11439815--11439999 Score: 186
Period size: 82 Copynumber: 2.3 Consensus size: 82
11439805 ATTGATATAA
* *
11439815 ATTTAAAAATTATAAAAAAAATA-TACAAATTAT-TAAAAAAT-TTA-ATAATTTATAAAACAAA
1 ATTTAAAAATTATAAAAAAAATATTA-AAATTATATAAAAAATCATACACAA-TTAT-AAA-AAA
11439876 ATAATAAAATTAATA-AAACAT
62 ATAATAAAATTAATATAAAC-T
* *** *
11439897 ATTT-AAAATTTTATAAAAGCGTATTAAAATTCTATAAAAAATCATACACAATTATAAAAAAATA
1 ATTTAAAAATTATA-AAAAAAATATTAAAATTATATAAAAAATCATACACAATTATAAAAAAATA
*
11439961 TTAAAATTAATATAAACT
65 ATAAAATTAATATAAACT
*
11439979 -TATAAAAATTATAAAAAAAAT
1 ATTTAAAAATTATAAAAAAAAT
11440000 CATAAAAACT
Statistics
Matches: 83, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
81 15 0.18
82 42 0.51
83 17 0.20
84 6 0.07
85 3 0.04
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (82 bp):
ATTTAAAAATTATAAAAAAAATATTAAAATTATATAAAAAATCATACACAATTATAAAAAAATAA
TAAAATTAATATAAACT
Found at i:11439914 original size:21 final size:20
Alignment explanation
Indices: 11439815--11439935 Score: 70
Period size: 21 Copynumber: 5.8 Consensus size: 20
11439805 ATTGATATAA
* * *
11439815 ATTTAAAAATTATAAAAAAA
1 ATTTAAAATTTATAAAACAT
*
11439835 ATATACAAA-TTATTAAAA-A-
1 ATTTA-AAATTTA-TAAAACAT
*
11439854 ATTTAATAATTTATAAAACAAA
1 ATTTAA-AATTTATAAAAC-AT
* *
11439876 ATAATAAAATTAATAAAACAT
1 AT-TTAAAATTTATAAAACAT
*
11439897 ATTTAAAATTTTATAAAAGCGT
1 ATTTAAAA-TTTATAAAA-CAT
11439919 A-TTAAAATTCTATAAAA
1 ATTTAAAATT-TATAAAA
11439936 AATCATACAC
Statistics
Matches: 82, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.01
19 11 0.13
20 18 0.22
21 33 0.40
22 16 0.20
23 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATTTAAAATTTATAAAACAT
Found at i:11439997 original size:41 final size:41
Alignment explanation
Indices: 11439747--11439998 Score: 164
Period size: 41 Copynumber: 6.1 Consensus size: 41
11439737 ATAAATTTTT
** *
11439747 AAAAAAATAGAAAAAAT-ATAAAAAATTATAAAAATTATTAA
1 AAAAAAATATTAAAATTAATAAAAAATTATAAAAATTA-TAA
* * *
11439788 ATATTAAAAATATGAAAATTGAT-ATAAATT-TAAAAATTAT-A
1 A-A--AAAAATATTAAAATTAATAAAAAATTATAAAAATTATAA
* *
11439829 AAAAAAATA-TACAAATTATTAAAAAATT-TAATAATTTATAA
1 AAAAAAATATTA-AAATTAATAAAAAATTATAA-AAATTATAA
* * * *
11439870 AACAAAATAATAAAATTAATAAAACATATT-T-AAAATTTTAT
1 AAAAAAATATTAAAATTAATAAAA-A-ATTATAAAAATTATAA
*** * * *
11439911 AAAAGCGTATTAAAATTCTATAAAAAATCATACACAATTAT--
1 AAAAAAATATTAAAATT-AATAAAAAATTATA-AAAATTATAA
* *
11439952 AAAAAAATATTAAAATTAATATAAACTTATAAAAATTATAA
1 AAAAAAATATTAAAATTAATAAAAAATTATAAAAATTATAA
11439993 AAAAAA
1 AAAAAA
11439999 TCATAAAAAC
Statistics
Matches: 163, Mismatches: 31, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 16 0.10
40 19 0.12
41 63 0.39
42 12 0.07
43 19 0.12
44 18 0.11
45 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (41 bp):
AAAAAAATATTAAAATTAATAAAAAATTATAAAAATTATAA
Found at i:11439997 original size:61 final size:59
Alignment explanation
Indices: 11439820--11440006 Score: 166
Period size: 61 Copynumber: 3.1 Consensus size: 59
11439810 TATAAATTTA
* * * *
11439820 AAAATTATAAAAAAA-ATATACAAATTATTAAAAAATT-TAATAATTTATAAAACAAAATAAT
1 AAAATTATAAAAAAATAT-TA-AAATTATTATAAACTTATAA-AAATTATAAAA-AAAATCAT
* * * * *
11439881 AAAATTA-ATAAAACATATTTAAAATT-TTATAAAAGCGTATTAAAATTCTATAAAAAATCAT
1 AAAATTATA-AAAAAATA-TTAAAATTATTAT-AAA-CTTATAAAAATTATAAAAAAAATCAT
*
11439942 ACACAATTATAAAAAAATATTAAAATTAATATAAACTTATAAAAATTATAAAAAAAATCAT
1 A-A-AATTATAAAAAAATATTAAAATTATTATAAACTTATAAAAATTATAAAAAAAATCAT
11440003 AAAA
1 AAAA
11440007 ACTTGAACTG
Statistics
Matches: 101, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
59 2 0.02
60 5 0.05
61 51 0.50
62 24 0.24
63 18 0.18
64 1 0.01
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (59 bp):
AAAATTATAAAAAAATATTAAAATTATTATAAACTTATAAAAATTATAAAAAAAATCAT
Found at i:11440553 original size:11 final size:11
Alignment explanation
Indices: 11440512--11440555 Score: 51
Period size: 9 Copynumber: 4.4 Consensus size: 11
11440502 TTTTTTTATA
11440512 TTTTTAA-AA-
1 TTTTTAATAAT
11440521 TTTTTAA-AA-
1 TTTTTAATAAT
11440530 TTTTTAATAAT
1 TTTTTAATAAT
*
11440541 TTTTTAATCAT
1 TTTTTAATAAT
11440552 TTTT
1 TTTT
11440556 ATGAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 16 0.50
10 2 0.06
11 14 0.44
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:11440556 original size:10 final size:9
Alignment explanation
Indices: 11440511--11440544 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
11440501 ATTTTTTTAT
11440511 ATTTTTAAA
1 ATTTTTAAA
11440520 ATTTTTAAA
1 ATTTTTAAA
11440529 ATTTTTAATA
1 ATTTTTAA-A
11440539 ATTTTT
1 ATTTTT
11440545 TAATCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:11450000 original size:31 final size:31
Alignment explanation
Indices: 11449965--11450028 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11449955 AGAGAAAGCA
11449965 TTTCAGCTTGTCCCTTTTCCTCTTGGGTTTC
1 TTTCAGCTTGTCCCTTTTCCTCTTGGGTTTC
11449996 TTTCAGCTTGTCCCTTTTCCTCTTGGGTTTC
1 TTTCAGCTTGTCCCTTTTCCTCTTGGGTTTC
11450027 TT
1 TT
11450029 CTTCCCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.03, C:0.28, G:0.16, T:0.53
Consensus pattern (31 bp):
TTTCAGCTTGTCCCTTTTCCTCTTGGGTTTC
Found at i:11451870 original size:7 final size:7
Alignment explanation
Indices: 11451858--11451882 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11451848 TTATCATGAC
11451858 ACAAGGT
1 ACAAGGT
11451865 ACAAGGT
1 ACAAGGT
11451872 ACAAGGT
1 ACAAGGT
11451879 ACAA
1 ACAA
11451883 TTAGTTGCAA
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:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (7 bp):
ACAAGGT
Found at i:11454353 original size:21 final size:22
Alignment explanation
Indices: 11454329--11454369 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11454319 TCTGTAAGTA
*
11454329 TTCATGTTCAAATA-TATTTGT
1 TTCATGTTAAAATACTATTTGT
*
11454350 TTCATTTTAAAATACTATTT
1 TTCATGTTAAAATACTATTT
11454370 TCTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (22 bp):
TTCATGTTAAAATACTATTTGT
Found at i:11458013 original size:21 final size:21
Alignment explanation
Indices: 11457988--11458028 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11457978 GACGAGATTA
11457988 AAAAACAAAAAAAATGAAATG
1 AAAAACAAAAAAAATGAAATG
* **
11458009 AAAAATAAAAATGATGAAAT
1 AAAAACAAAAAAAATGAAAT
11458029 TGGTAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAAACAAAAAAAATGAAATG
Found at i:11458950 original size:5 final size:5
Alignment explanation
Indices: 11458889--11458936 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
11458879 TGAACCTTGC
*
11458889 CTTTAA CTTTA TTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CT
1 CTTT-A CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CT
11458937 ATAATTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 36 0.90
6 4 0.10
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTA
Found at i:11459397 original size:15 final size:15
Alignment explanation
Indices: 11459373--11459402 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11459363 CTCCGACTTT
11459373 TTGGTCTTAAGAATG
1 TTGGTCTTAAGAATG
*
11459388 TTGGTTTTAAGAATG
1 TTGGTCTTAAGAATG
11459403 ATTGATTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTCTTAAGAATG
Found at i:11463730 original size:16 final size:17
Alignment explanation
Indices: 11463711--11463745 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11463701 TTTTTTTATT
11463711 TTTTAAAGTTTTAA-AA
1 TTTTAAAGTTTTAAGAA
*
11463727 TTTTAAATTTTTAAGAA
1 TTTTAAAGTTTTAAGAA
11463744 TT
1 TT
11463746 AAGACTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTTAAAGTTTTAAGAA
Found at i:11463820 original size:60 final size:60
Alignment explanation
Indices: 11463734--11463850 Score: 150
Period size: 60 Copynumber: 1.9 Consensus size: 60
11463724 AAATTTTAAA
11463734 TTTTTAAGAATTAAGACTAATGTGATAGAA-CGTGTAAAGT-TGAGAGCTAAATTTGTTGAC
1 TTTTTAAGAATTAAGACTAATGTGATAGAATC-TGTAAA-TATGAGAGCTAAATTTGTTGAC
* * **
11463794 TTTTTTAGATTTAAGACTAAAT-TGATAGAATCTGTAAATATTTGAGCTAAATTTGTT
1 TTTTTAAGAATTAAGACT-AATGTGATAGAATCTGTAAATATGAGAGCTAAATTTGTT
11463851 CTTATGCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 1 0.02
60 45 0.90
61 4 0.08
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (60 bp):
TTTTTAAGAATTAAGACTAATGTGATAGAATCTGTAAATATGAGAGCTAAATTTGTTGAC
Found at i:11464068 original size:17 final size:19
Alignment explanation
Indices: 11464032--11464068 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
11464022 ATAATCATAG
11464032 ATCTATTAAAGTTATAATT
1 ATCTATTAAAGTTATAATT
*
11464051 ATCT-TTAAA-TTTTAATT
1 ATCTATTAAAGTTATAATT
11464068 A
1 A
11464069 CCAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
ATCTATTAAAGTTATAATT
Found at i:11464440 original size:69 final size:69
Alignment explanation
Indices: 11464329--11464468 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
11464319 TCTAAAACAC
*
11464329 TAATGAAGTTTTCTCCCAATAACGCGTTGCCAATTGTAAAGGAGATGGTCAAGGATTTTAACGCG
1 TAATGAAGTTTTCTCCCAACAACGCGTTGCCAATTGTAAAGGAGATGGTCAAGGATTTTAACGCG
11464394 GGCA
66 GGCA
* *
11464398 TAATGAAGTTTTCTCTCAACAACGCGTTGCCAATTGTAAAGGAGATGGTCAGGGATTTTAACGCG
1 TAATGAAGTTTTCTCCCAACAACGCGTTGCCAATTGTAAAGGAGATGGTCAAGGATTTTAACGCG
11464463 GGCA
66 GGCA
11464467 TA
1 TA
11464469 GGTTCGATAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (69 bp):
TAATGAAGTTTTCTCCCAACAACGCGTTGCCAATTGTAAAGGAGATGGTCAAGGATTTTAACGCG
GGCA
Found at i:11465318 original size:6 final size:6
Alignment explanation
Indices: 11465300--11465336 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
11465290 AACTGAAGAT
*
11465300 TCTCTA TCCCTA TCTCTA TCTCTA TCTCTA TCTCTA T
1 TCTCTA TCTCTA TCTCTA TCTCTA TCTCTA TCTCTA T
11465337 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (6 bp):
TCTCTA
Found at i:11469991 original size:30 final size:30
Alignment explanation
Indices: 11469955--11470099 Score: 245
Period size: 30 Copynumber: 4.8 Consensus size: 30
11469945 ACTTTTCTCA
11469955 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
11469985 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
11470015 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
11470045 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
11470075 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
11470100 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 109 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:11470222 original size:27 final size:28
Alignment explanation
Indices: 11470184--11470237 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
11470174 GTATATGAGA
11470184 GAGGAGGGGA-TTTTTTGGAGAGTTTTG
1 GAGGAGGGGATTTTTTTGGAGAGTTTTG
11470211 GAGG-GGGAGATTTTTTTGGAGAGTTTT
1 GAGGAGGG-GATTTTTTTGGAGAGTTTT
11470238 TGGGAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 3 0.12
27 6 0.24
28 16 0.64
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.39
Consensus pattern (28 bp):
GAGGAGGGGATTTTTTTGGAGAGTTTTG
Found at i:11470648 original size:23 final size:23
Alignment explanation
Indices: 11470611--11470742 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
11470601 TTTTTTTTGT
11470611 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
11470634 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
11470656 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
* * *
11470679 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* *
11470706 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
11470731 TATTATTTATAT
1 TATTATATATAT
11470743 ATATATATAT
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.19
23 19 0.23
24 4 0.05
25 30 0.37
26 1 0.01
27 8 0.10
28 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:11470715 original size:27 final size:27
Alignment explanation
Indices: 11470685--11470799 Score: 81
Period size: 27 Copynumber: 4.1 Consensus size: 27
11470675 TTTATATTAC
11470685 GTATATATATATTTTATACTATTTTAT
1 GTATATATATATTTTATACTATTTTAT
* * *
11470712 GTATATATCTTTAATATTATATTATTTATAT
1 GTATATA--TAT-ATTTTATACTATTT-TAT
* * *
11470743 ATATATATATATTTTTTAC-ATGTTAT
1 GTATATATATATTTTATACTATTTTAT
* * * *
11470769 CTTATGTATATATCTTA-ACTATATTAT
1 -GTATATATATATTTTATACTATTTTAT
11470796 GTAT
1 GTAT
11470800 GTATTTTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
26 8 0.12
27 28 0.42
28 6 0.09
29 4 0.06
30 12 0.18
31 9 0.13
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (27 bp):
GTATATATATATTTTATACTATTTTAT
Found at i:11470716 original size:25 final size:25
Alignment explanation
Indices: 11470688--11470746 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
11470678 ATATTACGTA
* *
11470688 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
11470713 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
11470738 TATATATAT
1 TATATATAT
11470747 ATATATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:11470796 original size:22 final size:24
Alignment explanation
Indices: 11470770--11470828 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
11470760 ACATGTTATC
11470770 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
11470792 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
11470817 TTATGTACATAT
1 TTATGTATATAT
11470829 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:11470818 original size:25 final size:25
Alignment explanation
Indices: 11470786--11470834 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
11470776 ATATATCTTA
**
11470786 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
11470811 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
11470835 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:11470839 original size:20 final size:20
Alignment explanation
Indices: 11470814--11470869 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
11470804 TTTTAACACT
11470814 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
11470834 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
11470853 TTATATATGTACATATT
1 ATAT-TATGTACATATT
11470870 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:11471009 original size:16 final size:14
Alignment explanation
Indices: 11470990--11471023 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
11470980 TATTATTCTA
11470990 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
11471005 GATATTTTATATTTT
1 -ATATTTTATATTTT
11471020 ATAT
1 ATAT
11471024 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:11471018 original size:7 final size:8
Alignment explanation
Indices: 11470990--11471023 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
11470980 TATTATTCTA
11470990 ATATTTTG
1 ATATTTTG
11470998 ATATTTTG
1 ATATTTTG
11471006 ATATTTT-
1 ATATTTTG
11471013 ATATTTT-
1 ATATTTTG
11471020 ATAT
1 ATAT
11471024 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:11471025 original size:16 final size:15
Alignment explanation
Indices: 11470990--11471030 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
11470980 TATTATTCTA
11470990 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
11471006 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
11471022 ATATTTTAT
1 ATATTTTAT
11471031 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:11479484 original size:68 final size:68
Alignment explanation
Indices: 11479337--11479502 Score: 194
Period size: 68 Copynumber: 2.4 Consensus size: 68
11479327 CTTTCCAAGG
* **
11479337 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAACCTCAAGACACGCCGAGGTATTTTTAATTTT
11479401 TTTC
65 TTTC
* * *
11479405 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC-GGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCCGAGGTATTTTTAATTT-T
11479469 GTTT-
65 -TTTC
* ** *
11479473 TAAATTGACTCATATTGCGAGAGGTGAGTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTT
11479503 AAGCCTTTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
67 20 0.24
68 60 0.71
69 5 0.06
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTC
Found at i:11480092 original size:73 final size:71
Alignment explanation
Indices: 11479508--11480126 Score: 413
Period size: 70 Copynumber: 8.7 Consensus size: 71
11479498 GAGTTAAGCC
* ** * *
11479508 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGG-ACACGC
1 TTTTCAATTTCTG-TTTTCAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCGGTACACGC
11479571 TGAGGTA
65 TGAGGTA
* * ** *
11479578 ATTTCGATTTCTGTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGC
1 TTTTCAATTTCTGTTTTCAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGTACACGC
11479641 TGAGGTA
65 TGAGGTA
* *
11479648 ATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTCAGG-AC
1 TTTTCAATTTCTGTT-TT-CAAAAAA--AACTCATATTGCGAGAGATGAGTTGAGCCTC-GGTAC
11479711 ACG-TGA-GTA
61 ACGCTGAGGTA
**
11479720 TTTT-AATTT-TGTTTTCAAAATCAACTCATA-TGCGAGAG-TGAGTTGAGCCTCGG--CACGC-
1 TTTTCAATTTCTGTTTTCAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCGGTACACGCT
11479778 GA-GTA
66 GAGGTA
* * *
11479783 -TTT--ATTT-TTTTTTCATATAATATCTTTAATTTTTTTCTCATATTGC-AGAGGTGAGTTGAG
1 TTTTCAATTTCTGTTTTCA-A-AA-A-----AA------ACTCATATTGCGAGAGATGAGTTGAG
*
11479843 CCTC---AC-C-ATGA-GTA
52 CCTCGGTACACGCTGAGGTA
* ** *
11479857 --TT-AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGATGAG-TGAGCCTCGG-ACACGCT
1 TTTTCAATTTCTGTTTTCAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCGGTACACGCT
11479917 GAGGTA
66 GAGGTA
* * ** * *
11479923 ATTTCAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-ATGACACG
1 TTTTCAATTTCTGTTTTCAAAA-AAAACTCATATTGCGAGAGATGAGTTGAGCCTCGGT-ACACG
*
11479987 TTGAGGTA
64 CTGAGGTA
* *
11479995 TTTTCAATTTCTGTTTTCAAAAAAAAAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
1 TTTTCAATTTCTGTTTTC--AAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCGG-T-ACA
*
11480060 TGCTGAGGTA
62 CGCTGAGGTA
* *
11480070 TTTTCAATTTCTGTTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTG-TTTT--CAAAAAA--AACTCATATTGCGAGAGATGAGTTGAGC
11480127 TTCAAATTAC
Statistics
Matches: 458, Mismatches: 41, Indels: 92
0.77 0.07 0.16
Matches are distributed among these distances:
61 29 0.06
62 12 0.03
63 13 0.03
64 3 0.01
65 24 0.05
66 11 0.02
67 1 0.00
68 6 0.01
69 54 0.12
70 62 0.14
71 21 0.05
72 34 0.07
73 39 0.09
74 36 0.08
75 60 0.13
76 26 0.06
78 27 0.06
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTCTGTTTTCAAAAAAAACTCATATTGCGAGAGATGAGTTGAGCCTCGGTACACGCT
GAGGTA
Found at i:11480148 original size:78 final size:75
Alignment explanation
Indices: 11479872--11480151 Score: 279
Period size: 78 Copynumber: 3.8 Consensus size: 75
11479862 TTTTGTTTTC
* * ** * *
11479872 AAAATCAACTCATATTGCTAGAGATGAG-TGAGCCTC-GGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATTACACACTGAGGTATTTTCAATTTCT
* *
11479935 ATTTT---CA
66 GTTTTAAAAA
* ** * **
11479942 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATTACACACTGAGGTATTTTCAATTTCT
*
11480007 GTTTTCAAAA
66 GTTTTAAAAA
* *
11480017 AAAA--AACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTT-CACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ATTACACA--CTGAGGTATTTTCAATT
11480079 TCTGTTTTTAAAAA
63 TCTG-TTTTAAAAA
* *
11480093 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAATTACACACTGTGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--ATTACACACTGAGGTATTTT
11480152 TTTCAACTCA
Statistics
Matches: 175, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
70 25 0.14
71 8 0.05
72 28 0.16
73 31 0.18
74 1 0.01
75 24 0.14
76 12 0.07
78 40 0.23
79 2 0.01
80 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATTACACACTGAGGTATTTTCAATTTCT
GTTTTAAAAA
Found at i:11480275 original size:74 final size:74
Alignment explanation
Indices: 11480154--11480491 Score: 396
Period size: 72 Copynumber: 4.5 Consensus size: 74
11480144 GGTATTTTTT
* *
11480154 TCAACTCATATTGCTAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
11480219 TT-AAAAAAA
65 TTAAAAAAAA
** *
11480228 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
* *
11480293 T--CAAAAT
66 TAAAAAAAA
* ** * * *
11480300 TCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
11480365 TCAAAAAAAAAA
66 T---AAAAAAAA
* * *
11480377 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
11480441 TTTTTAAAAAAAAAAA
63 -TTTT---AAAAAAAA
*
11480457 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
11480492 ATTACACACT
Statistics
Matches: 232, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
72 65 0.28
73 2 0.01
74 59 0.25
76 1 0.00
77 35 0.15
79 24 0.10
80 45 0.19
81 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (74 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TAAAAAAAA
Found at i:11480313 original size:354 final size:354
Alignment explanation
Indices: 11479819--11480604 Score: 1262
Period size: 360 Copynumber: 2.2 Consensus size: 354
11479809 TAATTTTTTT
* *
11479819 CTCATATTGC-AGAGGTGAGTTGAGCCTC---AC-C-ATGA-GT-A-TT-AATTTTTGTTT-T-C
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTAA
* *
11479872 AAAATCAACTCATATTGCTAGAGATGAGTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTAT
66 AAAATCAACTCATATTGCGAGAAATGAGTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTAT
*
11479937 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGGTATTTTCAA
131 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
11480002 TTTCTGTTTTC-AAAAAAAA-AACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
196 TTTCTGTTTTCAAAAAAAAACAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
11480065 AGGTATTTTCAATTTCTGTTTTT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
261 AGGTATTTTCAATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
11480129 CAAATTACACACTGTGGTATTTTTTTCAA
326 CAAATTACACACTGTGGTATTTTTTTCAA
* * *
11480158 CTCATATTGCTAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTG-T-
*
11480222 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTT
64 AAAAAATCAACTCATATTGCGAGAAATGAG-TGAGCCTC-GGACACGCTGAGGTAATTTCAATTT
* *
11480287 CTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
127 CTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
11480352 TCAATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCAC
192 TCAATTTCTGTTTTC-AAAAAAAAA-CAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCAC
11480417 ATGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
255 ATGCTGAGGTATTTTCAATTTCTGTTTTT-AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
11480482 TGAGCTTCAGATTACACACTGTGGTATTTTTTTCAA
319 TGAGCTTCAAATTACACACTGTGGTATTTTTTTCAA
* *
11480518 TTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTAA
*
11480583 AGAATCAACTCATATTGCGAGA
66 AAAATCAACTCATATTGCGAGA
11480605 GGTGGGTTGA
Statistics
Matches: 407, Mismatches: 17, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
339 10 0.02
340 17 0.04
343 2 0.00
344 1 0.00
345 3 0.01
346 2 0.00
347 1 0.00
348 4 0.01
349 7 0.02
350 1 0.00
352 26 0.06
353 8 0.02
354 101 0.25
356 8 0.02
358 67 0.16
359 22 0.05
360 124 0.30
361 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (354 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTTGTAA
AAAATCAACTCATATTGCGAGAAATGAGTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTAT
TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTGTTTTCAAAAAAAAACAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
AGGTATTTTCAATTTCTGTTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
CAAATTACACACTGTGGTATTTTTTTCAA
Found at i:11480726 original size:72 final size:73
Alignment explanation
Indices: 11480645--11480786 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
11480635 TCAAAATCAG
* * * *
11480645 CTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGTTTT
1 CTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
11480709 AATTTCAA
66 AATTTCAA
* *
11480717 CTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
11480782 AATTT
66 AATTT
11480787 ATGTTTCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 53 0.84
73 10 0.16
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (73 bp):
CTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTGTTTT
AATTTCAA
Found at i:11480899 original size:71 final size:72
Alignment explanation
Indices: 11480782--11481006 Score: 254
Period size: 73 Copynumber: 3.1 Consensus size: 72
11480772 TCGTTTTTTT
** * *
11480782 AATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAG
1 AATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAG
11480846 GTAATTTC
65 GTAATTTC
* **
11480854 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAG
** *
11480919 GTGGTTTT
65 GTAATTTC
* * * **
11480927 AATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGACACGCTG
*
11480992 AGGTATTTTC
63 AGGTAATTTC
11481002 AATTT
1 AATTT
11481007 CTGGTTTTCA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
71 40 0.31
72 7 0.06
73 58 0.46
74 1 0.01
75 20 0.16
76 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (72 bp):
AATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGG
TAATTTC
Found at i:11480943 original size:73 final size:71
Alignment explanation
Indices: 11480778--11480977 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
11480768 ATTTTCGTTT
** * *
11480778 TTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
11480843 GAGGTAA
65 GAGGTAA
* * **
11480850 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
11480915 TGAGGTGG
64 TGAGGTAA
* * *
11480923 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
11480978 TGGCTCACAC
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 40 0.37
72 10 0.09
73 59 0.54
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:11481016 original size:14 final size:14
Alignment explanation
Indices: 11480997--11481031 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11480987 CGCTGAGGTA
11480997 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
11481011 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
11481025 TTTTCAA
1 TTTTCAA
11481032 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:11481060 original size:162 final size:162
Alignment explanation
Indices: 11480850--11481347 Score: 617
Period size: 162 Copynumber: 3.0 Consensus size: 162
11480840 GCTGAGGTAA
* *
11480850 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * * * *
11480915 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTG
66 TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
11480980 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
* * * *
11481012 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* ** * *
11481077 TGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCG
66 TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
* *
11481142 GCTCACATGCTGAGGTCTTTTCAATTTCT-GT
131 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
** *
11481173 TCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGA
1 T-TTCAATTTCTGTT--T--ATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* ** *
11481238 CACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
61 CACGCTGAGGTAATTTCAA-TT-T-ATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTT
* *
11481303 GAGCCTCAGG---ACACGCTGAGGTATTTTTAAATTTCTGTT
123 GAGCCT-AGGCTCACACGCTGAGGTA-TTTTCAATTTCTGGT
11481342 TTTCAA
1 TTTCAA
11481348 AAAAAGCCAA
Statistics
Matches: 289, Mismatches: 36, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
161 3 0.01
162 155 0.54
164 1 0.00
166 57 0.20
167 13 0.04
168 17 0.06
169 41 0.14
170 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (162 bp):
TTTCAATTTCTGTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTATGTTAATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
GCTCACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:11481103 original size:235 final size:232
Alignment explanation
Indices: 11480637--11481168 Score: 630
Period size: 235 Copynumber: 2.3 Consensus size: 232
11480627 CTACTTTTTC
* * * * *
11480637 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
** * *
11480702 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
66 GTGTTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
* * *
11480767 AATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
131 AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGC
* *
11480832 CTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
196 CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
11480869 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTA
* * *
11480933 TGT-TCATCAAAAATT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGG
65 TGTGT--T-AAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGG---ACACGCTGAGG
* *** * *
11480995 TATTTTCAA-TTTC-TGGTTTTCAATTTCTGTTT-TTCAAAAATCGACTCATATTACGAGAGGTG
124 TATTTTCAATTTTCGT-GTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTG
*
11481057 AGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
188 AGTTGAGCCTC--AACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
* * * *
11481104 AAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
11481168 T
63 T
11481169 CTGTTCTTCA
Statistics
Matches: 257, Mismatches: 29, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
231 1 0.00
232 58 0.23
233 68 0.26
234 24 0.09
235 86 0.33
236 4 0.02
237 16 0.06
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (232 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
GTGTTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGC
CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:11481131 original size:73 final size:74
Alignment explanation
Indices: 11481012--11481173 Score: 227
Period size: 73 Copynumber: 2.2 Consensus size: 74
11481002 AATTTCTGGT
* * *
11481012 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTCGG-GACACG
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCCACACG
11481076 CTGAGGTAA
66 CTGAGGTAA
* ** *
11481085 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGC-CACAC
**
11481150 GCTGAGGTCT
65 GCTGAGGTAA
11481160 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
11481174 CTTCAATTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 53 0.68
75 25 0.32
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (74 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCCACACG
CTGAGGTAA
Found at i:11481180 original size:14 final size:14
Alignment explanation
Indices: 11481161--11481188 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11481151 CTGAGGTCTT
11481161 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
11481175 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
11481189 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:11481302 original size:76 final size:77
Alignment explanation
Indices: 11481175--11481382 Score: 301
Period size: 77 Copynumber: 2.7 Consensus size: 77
11481165 ATTTCTGTTC
* *
11481175 TTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACA
1 TTCAATTTCTGTT-GTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
11481240 CGCTGAGGTA-AT
65 CGCTGAGGTATAT
11481252 TTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
11481317 GCTGAGGTATTT
66 GCTGAGGTATAT
* * * ** * **
11481329 TTAAATTTCTGTTTTTCAAAAAAAGCCAATTCATATTGCGAGAAATGAGTTGAG
1 TTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
11481383 TTCAGGATCA
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 59 0.50
77 60 0.50
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (77 bp):
TTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATAT
Found at i:11481336 original size:77 final size:76
Alignment explanation
Indices: 11481178--11481382 Score: 293
Period size: 76 Copynumber: 2.7 Consensus size: 76
11481168 TCTGTTCTTC
* *
11481178 AATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 AATTTCTGTT-GTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
11481243 TGAGGTAATTTC
65 TGAGGTAATTTA
11481255 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
11481320 GAGGTATTTTTA
66 GAGGTA-ATTTA
* * ** * **
11481332 AATTTCTGTTTTTCAAAAAAAGCCAATTCATATTGCGAGAAATGAGTTGAG
1 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
11481383 TTCAGGATCA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
76 59 0.51
77 57 0.49
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (76 bp):
AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTA
Found at i:11482058 original size:30 final size:30
Alignment explanation
Indices: 11482022--11482193 Score: 278
Period size: 29 Copynumber: 5.8 Consensus size: 30
11482012 ACTTTTCTCA
*
11482022 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
11482052 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
11482082 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
11482111 ACTAGCCACACC-TTTCCACCACCAACTTC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
11482140 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
11482169 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
11482194 CTTGTACCTA
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
28 1 0.01
29 78 0.60
30 52 0.40
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:11482155 original size:58 final size:58
Alignment explanation
Indices: 11482022--11482193 Score: 308
Period size: 58 Copynumber: 2.9 Consensus size: 58
11482012 ACTTTTCTCA
11482022 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCCACTAGCCACACC-TTTCCACCACCAACTCC
*
11482082 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTTC
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
11482140 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTT-TCCACCACCA
11482194 CTTGTACCTA
Statistics
Matches: 110, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
58 59 0.54
59 41 0.37
60 10 0.09
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (58 bp):
ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
Found at i:11482727 original size:22 final size:22
Alignment explanation
Indices: 11482696--11482817 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 22
11482686 TCTTTTTTGT
*
11482696 TATTATTATATTTCTTAATATTA
1 TATTAGTATATTT-TTAATATTA
* *
11482719 TATTA-TATATATTCTT-TTAATA
1 TATTAGTATAT-TT-TTAATATTA
*
11482741 TATTAGGTATATTTTAAAT-TTA
1 TATTA-GTATATTTTTAATATTA
* *
11482763 TATTACGTATATATATTTTATACTA
1 TATTA-GTATAT-T-TTTAATATTA
*
11482788 TTTTATGTATATATCTTTAATATTA
1 TATTA-GTATAT-T-TTTAATATTA
11482813 TATTA
1 TATTA
11482818 TTTATATATA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 28 0.36
23 14 0.18
24 9 0.12
25 26 0.34
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTAGTATATTTTTAATATTA
Found at i:11482818 original size:25 final size:25
Alignment explanation
Indices: 11482702--11482916 Score: 128
Period size: 25 Copynumber: 8.7 Consensus size: 25
11482692 TTGTTATTAT
11482702 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATATTATATTATGTA
* *
11482726 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATATTATATTATGTA
* *
11482748 TATATTTTAAAT-TTATATTACGTA
1 TATATTTTTAATATTATATTATGTA
* *
11482772 TATATATTTT-ATACTATTTTATGTA
1 TATAT-TTTTAATATTATATTATGTA
* *
11482797 TATATCTTTAATATTATATTATTTATATA
1 TATATTTTTAATA-T-TA-TA-TTATGTA
* *
11482826 TATATATTTTACATGTTATCTTATGTA
1 TATAT-TTTTA-ATATTATATTATGTA
* *
11482853 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
* * *
11482875 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
*
11482900 CATATTTTTAATATTAT
1 TATATTTTTAATATTAT
11482917 CACGTATTTT
Statistics
Matches: 146, Mismatches: 27, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
21 2 0.01
22 35 0.24
23 6 0.04
24 19 0.13
25 50 0.34
27 12 0.08
28 2 0.01
29 13 0.09
30 5 0.03
31 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATGTA
Done.