Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 36 of 211
Found at i:10538790 original size:17 final size:17
Alignment explanation
Indices: 10538768--10538825 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
10538758 TTTTAATAGC
10538768 TTAATATTTAATTTAAT
1 TTAATATTTAATTTAAT
10538785 TTAATATTT-ATCTTAA-
1 TTAATATTTAAT-TTAAT
* *
10538801 -TAGTATTTTA-TTAAT
1 TTAATATTTAATTTAAT
10538816 TTAATATTTA
1 TTAATATTTA
10538826 CCTTGTAGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
16 10 0.29
17 13 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTAATATTTAATTTAAT
Found at i:10541251 original size:87 final size:86
Alignment explanation
Indices: 10541106--10541266 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 86
10541096 AACATGCATA
* * *
10541106 AGGTTGAGTTCTTACCCTTAATGAATTCATATCCCAAGTTTTAGATGGTCTTATTGAAAT-GAAC
1 AGGTTGAGTTATTACCCTTAATGAATTCATATCCCAAGTTTTAGATGGTCCTAGTGAAATAG-AC
10541170 TTGATGAATTTACCGACCTGTG
65 TTGATGAATTTACCGACCTGTG
* * * * *
10541192 AGGTTGAGTTTATTACTCTTAATGAGTTCGTATCCCAAAG-TTTGGGTGGTCCTAGTGAAATAGA
1 AGGTTGAG-TTATTACCCTTAATGAATTCATATCCC-AAGTTTTAGATGGTCCTAGTGAAATAGA
10541256 CTTGATGAATT
64 CTTGATGAATT
10541267 CATCGATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
86 8 0.12
87 52 0.81
88 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTATTACCCTTAATGAATTCATATCCCAAGTTTTAGATGGTCCTAGTGAAATAGACT
TGATGAATTTACCGACCTGTG
Found at i:10549930 original size:36 final size:36
Alignment explanation
Indices: 10549889--10549962 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
10549879 TCAAATGTTC
*
10549889 TTTTAGTACCTGAAATAGACCAAAACTTGCTTGGTG
1 TTTTAGTACCTGAAATAGACCAAAACTTGCTTAGTG
*** *
10549925 TTTTAGTGTTTGAAATAGACCAAAACTTTCTTAGTG
1 TTTTAGTACCTGAAATAGACCAAAACTTGCTTAGTG
10549961 TT
1 TT
10549963 GGCTAACTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (36 bp):
TTTTAGTACCTGAAATAGACCAAAACTTGCTTAGTG
Found at i:10556254 original size:12 final size:12
Alignment explanation
Indices: 10556237--10556261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10556227 ATTATTCTGC
10556237 AAAAATAAAATA
1 AAAAATAAAATA
10556249 AAAAATAAAATA
1 AAAAATAAAATA
10556261 A
1 A
10556262 GCTTGAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:10557188 original size:14 final size:14
Alignment explanation
Indices: 10557169--10557202 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
10557159 AAAGGCCAGT
10557169 AGAATCCTGATTGG
1 AGAATCCTGATTGG
10557183 AGAATCCTGATTGG
1 AGAATCCTGATTGG
10557197 AGAATC
1 AGAATC
10557203 TTAGTAGCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (14 bp):
AGAATCCTGATTGG
Found at i:10570260 original size:23 final size:24
Alignment explanation
Indices: 10570234--10570281 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10570224 GACCACCTCA
*
10570234 AATTGCC-ATTCATTTTTTTAATC
1 AATTGCCTATTCAATTTTTTAATC
* *
10570257 AATTTCCTCTTCAATTTTTTAATC
1 AATTGCCTATTCAATTTTTTAATC
10570281 A
1 A
10570282 GTAAAGTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (24 bp):
AATTGCCTATTCAATTTTTTAATC
Found at i:10573910 original size:59 final size:59
Alignment explanation
Indices: 10573845--10573965 Score: 199
Period size: 59 Copynumber: 2.1 Consensus size: 59
10573835 TTATCTATTC
*
10573845 ATAATATGAAACACAA-TAGGCACTTAATTATGTCCCAATCTCAAACAAGTTTAATTTAA
1 ATAATATGAAACA-AATTAGGCACTAAATTATGTCCCAATCTCAAACAAGTTTAATTTAA
* *
10573904 ATAATATGAAACAAATTAGGCCCTAAATTATGTCCCAATCTTAAACAAGTTTAATTTAA
1 ATAATATGAAACAAATTAGGCACTAAATTATGTCCCAATCTCAAACAAGTTTAATTTAA
10573963 ATA
1 ATA
10573966 TTAAATTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 2 0.03
59 56 0.97
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (59 bp):
ATAATATGAAACAAATTAGGCACTAAATTATGTCCCAATCTCAAACAAGTTTAATTTAA
Found at i:10573994 original size:13 final size:13
Alignment explanation
Indices: 10573953--10573985 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10573943 CTTAAACAAG
10573953 TTTAATTTAAATA
1 TTTAATTTAAATA
*
10573966 TTAAATTTAAATA
1 TTTAATTTAAATA
10573979 TTTAATT
1 TTTAATT
10573986 CAAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAATTTAAATA
Found at i:10577379 original size:16 final size:15
Alignment explanation
Indices: 10577358--10577387 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10577348 ACATAATGGT
10577358 CACATATATCACATTA
1 CACATATAT-ACATTA
10577374 CACATATATACATT
1 CACATATATACATT
10577388 TTAAGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (15 bp):
CACATATATACATTA
Found at i:10583058 original size:19 final size:19
Alignment explanation
Indices: 10583020--10583061 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10583010 TGCAAGCAAC
**
10583020 AAGCTTAACCGAATTCTCT
1 AAGCTTAACCGAATGATCT
*
10583039 AAGCTTAATCGAATGATCT
1 AAGCTTAACCGAATGATCT
10583058 AAGC
1 AAGC
10583062 CTTTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (19 bp):
AAGCTTAACCGAATGATCT
Found at i:10589466 original size:22 final size:21
Alignment explanation
Indices: 10589440--10589490 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
10589430 GCTTTTATTT
*
10589440 AAAACATGCGATTTAATGGCTA
1 AAAACATG-GATTTAAAGGCTA
* *
10589462 AAAACTTGGTTTTAAAGGCTA
1 AAAACATGGATTTAAAGGCTA
10589483 AATAACAT
1 AA-AACAT
10589491 TTAAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AAAACATGGATTTAAAGGCTA
Found at i:10590751 original size:12 final size:11
Alignment explanation
Indices: 10590717--10590752 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
10590707 AAGCTGAAGG
10590717 GAAAAAAAACA
1 GAAAAAAAACA
10590728 -AAAAAAAACA
1 GAAAAAAAACA
10590738 GAAAAAAAAGCA
1 GAAAAAAAA-CA
10590750 GAA
1 GAA
10590753 GGGAAGGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 8 0.35
12 5 0.22
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (11 bp):
GAAAAAAAACA
Found at i:10594481 original size:23 final size:24
Alignment explanation
Indices: 10594455--10594507 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
10594445 GCATGATTAG
10594455 TAATTAGTTAAGTTAATTAAA-TA
1 TAATTAGTTAAGTTAATTAAACTA
*
10594478 TAATTAGTTAAGTTAATTAAACTT
1 TAATTAGTTAAGTTAATTAAACTA
10594502 TAATTA
1 TAATTA
10594508 ACCATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
TAATTAGTTAAGTTAATTAAACTA
Found at i:10608545 original size:24 final size:24
Alignment explanation
Indices: 10608488--10608545 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
10608478 AGTCGACTGT
*
10608488 ATGAGGAAGAAAAGAATCAGCAAG
1 ATGAGGAAGAAAAGAATCAGCAAA
** *
10608512 ACAAGG-AGAAAGAGAATGA-CAAA
1 ATGAGGAAGAAA-AGAATCAGCAAA
10608535 ATGAGGAAGAA
1 ATGAGGAAGAA
10608546 GATTCGACCG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.57, C:0.07, G:0.29, T:0.07
Consensus pattern (24 bp):
ATGAGGAAGAAAAGAATCAGCAAA
Found at i:10617260 original size:15 final size:14
Alignment explanation
Indices: 10617236--10617265 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10617226 GGTATTAAAG
10617236 TCAGTTTGCAAAAC
1 TCAGTTTGCAAAAC
10617250 TCAGCTTTGCAAAAC
1 TCAG-TTTGCAAAAC
10617265 T
1 T
10617266 AATTTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (14 bp):
TCAGTTTGCAAAAC
Found at i:10617374 original size:25 final size:25
Alignment explanation
Indices: 10617346--10617394 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10617336 TTGTTTTTGA
* *
10617346 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
10617371 TAGTGTATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
10617395 ATAGACTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:10622869 original size:24 final size:24
Alignment explanation
Indices: 10622842--10622890 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10622832 TGCAAGGCCA
*
10622842 TGTGGTCGCCCGTGCGGTAAGCCG
1 TGTGGTCGCCCGTGCGATAAGCCG
* * *
10622866 TGTGGTCTCCTGTGCGATAGGCCG
1 TGTGGTCGCCCGTGCGATAAGCCG
10622890 T
1 T
10622891 ATGGCTGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.08, C:0.27, G:0.39, T:0.27
Consensus pattern (24 bp):
TGTGGTCGCCCGTGCGATAAGCCG
Found at i:10624767 original size:155 final size:154
Alignment explanation
Indices: 10624473--10624785 Score: 459
Period size: 155 Copynumber: 2.0 Consensus size: 154
10624463 GAGAGAGCCT
*** *
10624473 AATTTGACGTATCAAATTACGGTAGATCATATACACAATTATGCAGTTCGTCACAAGTATTAGAA
1 AATTTGACGTATCAAATTACAACAAATCATATACACAATTATGCAGTTCGTCACAAGTATTAGAA
** *
10624538 TATTAAACAATCAATTATTTAATTATTCTAATTGACAAGGCAAATATTCTAAGTTATTAAATATC
66 TATTAAACAATCAATTATTTAATTATTCTAATTGACAAAACAAATATTCTAAGTTATTAAATAGC
*
10624603 TGTCAAATATTTAACAAACCGGAAC
131 TGTCAAATATCTAAC-AACCGGAAC
* * *
10624628 AATTTGACGTATCAAATTATAACAAATCGTATACACAATTATGTAGTTCGTCACAAGTATTAGAA
1 AATTTGACGTATCAAATTACAACAAATCATATACACAATTATGCAGTTCGTCACAAGTATTAGAA
* *
10624693 TATTAAACAATTACA-TATTTAATTATTCTGATTGACAAAACAAATATTCTAAGTTATTAAAT-G
66 TATTAAACAATCA-ATTATTTAATTATTCTAATTGACAAAACAAATATTCTAAGTTATTAAATAG
*
10624756 CTAGTCGAATATCTAACAACCGGAAC
130 CT-GTCAAATATCTAACAACCGGAAC
10624782 AATT
1 AATT
10624786 GTAATTCAAA
Statistics
Matches: 142, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
154 15 0.11
155 126 0.89
156 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (154 bp):
AATTTGACGTATCAAATTACAACAAATCATATACACAATTATGCAGTTCGTCACAAGTATTAGAA
TATTAAACAATCAATTATTTAATTATTCTAATTGACAAAACAAATATTCTAAGTTATTAAATAGC
TGTCAAATATCTAACAACCGGAAC
Found at i:10625973 original size:23 final size:23
Alignment explanation
Indices: 10625947--10625996 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10625937 TTAGTAATAA
*
10625947 ATTTT-ATAGTATAATATATGAAT
1 ATTTTGATAATATAA-ATATGAAT
10625970 ATTTTGATAATATAAATATGAAT
1 ATTTTGATAATATAAATATGAAT
10625993 ATTT
1 ATTT
10625997 GTTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (23 bp):
ATTTTGATAATATAAATATGAAT
Found at i:10626213 original size:158 final size:158
Alignment explanation
Indices: 10626038--10626509 Score: 714
Period size: 158 Copynumber: 3.0 Consensus size: 158
10626028 TCTAACTCCA
*
10626038 ATGTGCAACAATTCACTCTCACATATGTAATATATGTAA-GTCAAATTAAGTTTTAATTAAGGAA
1 ATGTGCAACAATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAA-GAA
10626102 TTTTTTATTATTAAGATTATATAAGATATTAATTATTATAAAATATGATCTTATTATAAAATAAA
65 TTTTTTATTATTAAGATTATATAAGATATTAATTATTATAAAATATGATCTTATTATAAAATAAA
*
10626167 TTTCGGTTGCCGCAACGAAATACTTCTAT
130 TTTCGGTTGCCGCAATGAAATACTTCTAT
*
10626196 ATGTGCAACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGAAT
1 ATGTGCAACAATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGAAT
* * *
10626261 TTTTTATTATTAACATTATATACGATATTATTTATTATAAAATATGATCTTATTATAAAATAAAT
66 TTTTTATTATTAAGATTATATAAGATATTAATTATTATAAAATATGATCTTATTATAAAATAAAT
* * ** *
10626326 TCCAGTTATCGCTATGAAATACTTCTAT
131 TTCGGTTGCCGCAATGAAATACTTCTAT
** * * *
10626354 ATGTGCTGCAATCTACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAA-TAG
1 ATGTGCAACAATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGAAT
* * *
10626418 TTTTTATTATTAAGTTTATATAATATATTAATTATTATAAAATATGATCTTATTATGAAATAAAT
66 TTTTTATTATTAAGATTATATAAGATATTAATTATTATAAAATATGATCTTATTATAAAATAAAT
* ** *
10626483 TTCGATTGCTACATTGAAATACTTCTA
131 TTCGGTTGCCGCAATGAAATACTTCTA
10626510 CAATATCTTA
Statistics
Matches: 281, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
157 78 0.28
158 182 0.65
159 21 0.07
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (158 bp):
ATGTGCAACAATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTAAGAAT
TTTTTATTATTAAGATTATATAAGATATTAATTATTATAAAATATGATCTTATTATAAAATAAAT
TTCGGTTGCCGCAATGAAATACTTCTAT
Found at i:10626680 original size:45 final size:45
Alignment explanation
Indices: 10626627--10626716 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
10626617 TTTAAAAAAA
10626627 AAATAATTTTCCGTAATAGTAATGTAACGCCCCGAATAATTTATC
1 AAATAATTTTCCGTAATAGTAATGTAACGCCCCGAATAATTTATC
10626672 AAATAATTTTCCGTAATAGTAATGTAACGCCCCGAATAATTTATC
1 AAATAATTTTCCGTAATAGTAATGTAACGCCCCGAATAATTTATC
10626717 TCTATTTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (45 bp):
AAATAATTTTCCGTAATAGTAATGTAACGCCCCGAATAATTTATC
Found at i:10628238 original size:13 final size:13
Alignment explanation
Indices: 10628222--10628271 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
10628212 GGGGGTAGGA
10628222 TTCTGTATATTTG
1 TTCTGTATATTTG
*
10628235 TTCTGCATATTTG
1 TTCTGTATATTTG
* *
10628248 TATCTGTATATGTA
1 T-TCTGTATATTTG
10628262 TT-TGTATATT
1 TTCTGTATATT
10628272 AAAGGATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 7 0.23
13 14 0.45
14 10 0.32
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (13 bp):
TTCTGTATATTTG
Found at i:10640400 original size:19 final size:19
Alignment explanation
Indices: 10640335--10640398 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
10640325 ATTATTAAAC
10640335 ATATTTATAATTATATATTTTA
1 ATATTTATAA-TA-A-ATTTTA
10640357 ATGA--TATAATAAATTTTA
1 AT-ATTTATAATAAATTTTA
10640375 ATATTTATAATAAATTTTA
1 ATATTTATAATAAATTTTA
10640394 A-ATTT
1 ATATTT
10640399 TAAATAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.03
18 12 0.31
19 16 0.41
20 2 0.05
21 5 0.13
22 2 0.05
23 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATTTATAATAAATTTTA
Found at i:10640416 original size:17 final size:19
Alignment explanation
Indices: 10640361--10640416 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
10640351 ATTTTAATGA
* *
10640361 TATAATAAATTTTAATATT
1 TATAATAAATCTTAATTTT
* *
10640380 TATAATAAATTTTAAATTT
1 TATAATAAATCTTAATTTT
10640399 TA-AAT-AATCTTAATTTT
1 TATAATAAATCTTAATTTT
10640416 T
1 T
10640417 TTTAAATATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 11 0.33
18 3 0.09
19 19 0.58
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATAAATCTTAATTTT
Found at i:10640612 original size:17 final size:18
Alignment explanation
Indices: 10640586--10640625 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10640576 ATTAAGAATA
* *
10640586 TATAATATATTAT-TTAT
1 TATAAAATATGATCTTAT
10640603 TATAAAATATGATCTTAT
1 TATAAAATATGATCTTAT
10640621 TATAA
1 TATAA
10640626 CATAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TATAAAATATGATCTTAT
Found at i:10644553 original size:14 final size:16
Alignment explanation
Indices: 10644521--10644555 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10644511 AATATGTATT
10644521 TATAATGCAAAAATAA
1 TATAATGCAAAAATAA
10644537 TATAATG-AAAAAT-A
1 TATAATGCAAAAATAA
10644551 TATAA
1 TATAA
10644556 ACGTGCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
TATAATGCAAAAATAA
Found at i:10645376 original size:18 final size:17
Alignment explanation
Indices: 10645353--10645395 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
10645343 ATAATTATAT
10645353 ATTTTAATGA-TATAATAA
1 ATTTTAAT-ATTATAAT-A
10645371 ATTTTAATATTTATAATA
1 ATTTTAATA-TTATAATA
10645389 ATTTTAA
1 ATTTTAA
10645396 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATATTATAATA
Found at i:10645387 original size:19 final size:17
Alignment explanation
Indices: 10645363--10645417 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
10645353 ATTTTAATGA
10645363 TATAATAAATTTTAATATT
1 TATAAT-AATTTTAA-ATT
10645382 TATAATAATTTTAAATT
1 TATAATAATTTTAAATT
*
10645399 T-TAAATAATCTTAACATT
1 TAT-AATAATTTTAA-ATT
10645417 T
1 T
10645418 TCTTATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 1 0.03
17 14 0.42
18 12 0.36
19 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATAATTTTAAATT
Found at i:10645405 original size:17 final size:18
Alignment explanation
Indices: 10645363--10645418 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
10645353 ATTTTAATGA
10645363 TATAATAAATTTT-AATATT
1 TATAAT-AATTTTAAAT-TT
10645382 TATAATAATTTTAAATTT
1 TATAATAATTTTAAATTT
*
10645400 TA-AATAATCTTAACATTT
1 TATAATAATTTTAA-ATTT
10645418 T
1 T
10645419 CTTATAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 10 0.29
18 15 0.44
19 9 0.26
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
TATAATAATTTTAAATTT
Found at i:10645533 original size:23 final size:23
Alignment explanation
Indices: 10645477--10645526 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10645467 TTAGTATTAA
*
10645477 ATTTTA-TAGTATAAAATATGAAT
1 ATTTTACTAATAT-AAATATGAAT
*
10645500 ATTTTACTAATATAAATATGAGT
1 ATTTTACTAATATAAATATGAAT
10645523 ATTT
1 ATTT
10645527 GTTTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
ATTTTACTAATATAAATATGAAT
Found at i:10645676 original size:17 final size:18
Alignment explanation
Indices: 10645650--10645689 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10645640 ATTAAGAATA
* *
10645650 TATAATATATTAT-TTAT
1 TATAAAATATGATCTTAT
10645667 TATAAAATATGATCTTAT
1 TATAAAATATGATCTTAT
10645685 TATAA
1 TATAA
10645690 CATAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TATAAAATATGATCTTAT
Found at i:10645792 original size:157 final size:158
Alignment explanation
Indices: 10645564--10646041 Score: 698
Period size: 157 Copynumber: 3.0 Consensus size: 158
10645554 CTTTTCTAAC
* *
10645564 TCTA-ATGTGCTACTATCCACTCCCACATATGTAGTATATGT-AGGTCAAATTAAGTTTTAATTA
1 TCTATATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTA
* * *
10645627 AGATTTTTTTATTATTAAGAATATATAATATATTATTTATTATAAAATATGATCTTATTATAACA
66 AGATTTTTTTATTATTAAGATTATATAAGATATTATTTATTATAAAATATGATCTTATTATAAAA
*
10645692 TAAATTTTGGTTGTCACAATGAAATACT
131 TAAATTTTGGTTGTCGCAATGAAATACT
* *** *
10645720 TCTATATGTGCTACTATCCACTCTCACATATGTAATGTATGTAACACCAAATTAAGTTTTAAATA
1 TCTATATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTA
* *
10645785 AGA-TTTTTTATTATTAAGATTATATAAGATAATGA-TTACTATAAAATATGATCTTATTATAAA
66 AGATTTTTTTATTATTAAGATTATATAAGAT-ATTATTTATTATAAAATATGATCTTATTATAAA
*
10645848 ATAAATTTCGGTTGTCGCAATGAAATACT
130 ATAAATTTTGGTTGTCGCAATGAAATACT
* * *
10645877 TCTATATGTTCTACTATCCACTCTTACATATGTAATATATGTAAGGTCAAATTAAGCTTTAATTA
1 TCTATATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTA
* *
10645942 ATATTTTTATTATTATTAAGTTTATATAAGATATTAATTT-TTATAAAATATGATCTTATTATAA
66 AGATTTTT-TTATTATTAAGATTATATAAGATATT-ATTTATTATAAAATATGATCTTATTATAA
*
10646006 AATAAA-TTTGGATTGTCGCAATGAAATTCT
129 AATAAATTTTGG-TTGTCGCAATGAAATACT
10646036 TCTATA
1 TCTATA
10646042 ACATTTTATA
Statistics
Matches: 286, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
156 4 0.01
157 171 0.60
158 34 0.12
159 75 0.26
160 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (158 bp):
TCTATATGTGCTACTATCCACTCTCACATATGTAATATATGTAAGGTCAAATTAAGTTTTAATTA
AGATTTTTTTATTATTAAGATTATATAAGATATTATTTATTATAAAATATGATCTTATTATAAAA
TAAATTTTGGTTGTCGCAATGAAATACT
Found at i:10645992 original size:17 final size:18
Alignment explanation
Indices: 10645955--10645992 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10645945 TTTTTATTAT
*
10645955 TATTAAGTTTATATAAGA
1 TATTAAGTTTATATAAAA
*
10645973 TATTAA-TTTTTATAAAA
1 TATTAAGTTTATATAAAA
10645990 TAT
1 TAT
10645993 GATCTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TATTAAGTTTATATAAAA
Found at i:10648393 original size:34 final size:33
Alignment explanation
Indices: 10648350--10648428 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
10648340 AATGATTGGG
*
10648350 CTTGAGCCCATCACAATACTAGTAATCAGTAGGGC
1 CTTG-GCCCATCACAATAATAGT-ATCAGTAGGGC
* ** *
10648385 CTTTGCCCAATTTCAGTAATAGTATCAGTAGGGC
1 CTTGGCCC-ATCACAATAATAGTATCAGTAGGGC
10648419 CTTGGCCCAT
1 CTTGGCCCAT
10648429 AACAGTAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
33 2 0.05
34 22 0.59
35 13 0.35
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (33 bp):
CTTGGCCCATCACAATAATAGTATCAGTAGGGC
Found at i:10648445 original size:34 final size:34
Alignment explanation
Indices: 10648374--10648445 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
10648364 AATACTAGTA
* ** *
10648374 ATCAGTAGGGCCTTTGCCCAATTTCAGTAATAGT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAACAGT
10648408 ATCAGTAGGGCCTTGGCCC-ATAACAGTAACAGAT
1 ATCAGTAGGGCCTTGGCCCAATAACAGTAACAG-T
10648442 ATCA
1 ATCA
10648446 TTCATGTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (34 bp):
ATCAGTAGGGCCTTGGCCCAATAACAGTAACAGT
Found at i:10648928 original size:27 final size:26
Alignment explanation
Indices: 10648898--10649349 Score: 431
Period size: 27 Copynumber: 16.8 Consensus size: 26
10648888 TAATCTCCTA
*
10648898 GGGGTATAATAGTCATTTTACCCTATG
1 GGGGTAT-TTAGTCATTTTACCCTATG
* * *
10648925 GGGGTATTTCGGTCATTTTATCATAT-
1 GGGGTATTT-AGTCATTTTACCCTATG
*
10648951 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTA-TTTAGTCATTTTACCCTATG
* * *
10648978 GGAGTATTTCAATCATTTTATCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
* * *
10649005 AGGGTAATTAGGTCATTTTACCCTATA
1 GGGGTATTTA-GTCATTTTACCCTATG
10649032 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
* *
10649059 AGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTAG-TCATTTTACCCTATG
*
10649086 GGGGTATTTAGTTCATTTTACCCTATA
1 GGGGTATTTAG-TCATTTTACCCTATG
*
10649113 GGGGTATTTCAGTCATTTTACCCTATA
1 GGGGTATTT-AGTCATTTTACCCTATG
* * * *
10649140 GGGGTATTTTGGTTA-TTTATCTTATG
1 GGGGTA-TTTAGTCATTTTACCCTATG
*
10649166 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTA-TTTAGTCATTTTACCCTATG
* * *
10649193 AGGGTATTTCAGTTATTTTACTCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
10649220 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
* * * *
10649247 GGCGTATTTCGGTCATTTTACCTTATT
1 GGGGTATTT-AGTCATTTTACCCTATG
* *
10649274 GGGGTATTTCGATCATTTTATCCTATG
1 GGGGTATTTAG-TCATTTTACCCTATG
* * *
10649301 AGGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
* *
10649328 AGGGTATTTTGGTCATTTTACC
1 GGGGTA-TTTAGTCATTTTACC
10649350 TATTTTGGGG
Statistics
Matches: 357, Mismatches: 54, Indels: 28
0.81 0.12 0.06
Matches are distributed among these distances:
26 52 0.15
27 295 0.83
28 10 0.03
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
GGGGTATTTAGTCATTTTACCCTATG
Found at i:10649066 original size:81 final size:80
Alignment explanation
Indices: 10648909--10649349 Score: 539
Period size: 81 Copynumber: 5.5 Consensus size: 80
10648899 GGGTATAATA
* * * **
10648909 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTATCATATGGGGTATTTTGGTCATTTTACCC
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCC
*
10648974 TATG-GGAGTATTTCA
66 TATGAGG-GTATTTCG
* * * *
10648989 ATCATTTTATCCTATGAGGGTAATTAGGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACC
10649054 CTATGAGGGTATTTCG
65 CTATGAGGGTATTTCG
* *
10649070 ATCATTTTACCCTATGGGGGTATTTAGTTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACC
*
10649135 CTAT-AGGGGTATTTTG
65 CTATGA-GGGTATTTCG
* * * * * *
10649151 GTTA-TTTATCTTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCAGTTATTTTACT
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATG-GGGTATTTCAGTCATTTTACC
* *
10649215 CTATGGGGGTATTTCA
65 CTATGAGGGTATTTCG
* * * *
10649231 GTCATTTTACCCTATGGGCGTATTTCGGTCATTTTACCTTATTGGGGTATTTC-GATCATTTTAT
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTA-TGGGGTATTTCAG-TCATTTTAC
10649295 CCTATGAGGGTATTTCG
64 CCTATGAGGGTATTTCG
* * *
10649312 GTTATTTTACCCTATGAGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACC
10649350 TATTTTGGGG
Statistics
Matches: 312, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.00
80 104 0.33
81 203 0.65
82 4 0.01
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACCCTATGGGGTATTTCAGTCATTTTACCC
TATGAGGGTATTTCG
Found at i:10659829 original size:19 final size:19
Alignment explanation
Indices: 10659802--10659843 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10659792 TCATCATTGC
*
10659802 ATCAGAAGCTAAAGCTAGT
1 ATCAAAAGCTAAAGCTAGT
10659821 ATCAAAAGCTAAAGCTAGT
1 ATCAAAAGCTAAAGCTAGT
10659840 ATCA
1 ATCA
10659844 GAAGGTCGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (19 bp):
ATCAAAAGCTAAAGCTAGT
Found at i:10665506 original size:50 final size:50
Alignment explanation
Indices: 10665452--10665555 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
10665442 ATTGCCTCAA
* * *
10665452 CGTTGCAATGGAAAAGATTGAAGCCACAACGACGAATCTTATTTTCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTGG
* * ** *
10665502 CGTTGTAGCGGAGTAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTGG
10665552 CGTT
1 CGTT
10665556 AAGGCTTGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (50 bp):
CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAATCTTATCTCCCTGG
Found at i:10665929 original size:267 final size:267
Alignment explanation
Indices: 10665449--10666002 Score: 840
Period size: 267 Copynumber: 2.1 Consensus size: 267
10665439 CTTATTGCCT
* ** *
10665449 CAACGTTGCAATGGAAAAGATTGAAGCCACAACGACGAATCTTATTTTCCTGGCGTTGTAGCGGA
1 CAACATTGCAATTTAAAAGAATGAAGCCACAACGACGAATCTTATTTTCCTGGCGTTGTAGCGGA
* * * *
10665514 GTAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGTTGAACTGG
66 GCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAATGG
10665579 AACAGATTAAAGCTGTGGGAAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAAATTGAAACC
131 AACAGATTAAAGCTGTGGGAAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAAATTGAAACC
* * * * * **
10665644 ACGGCGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTATGACGAG-GAATCT
196 ACGACAGTGAATCTTACTCCCCTAGCGGTGTAGTCGAACAGATTAAAGCTACAACG-GCGAATCT
10665708 TGTTTCCC
260 TGTTTCCC
* *
10665716 CAACATTGCAATTTAAAAGAATGAAGCCGCAACGACGAATCTTATTTTCCTGGTGTTGTAGCGGA
1 CAACATTGCAATTTAAAAGAATGAAGCCACAACGACGAATCTTATTTTCCTGGCGTTGTAGCGGA
* *
10665781 GCAGATTGAAGCCACAACGGTGAATCTTATCTCTCTGGCATTAAGGCTTGGATTAGCTGAAATGG
66 GCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAATGG
* * * *
10665846 AGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTGAAACC
131 AACAGATTAAAGCTGTGGGAAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAAATTGAAACC
* * *
10665911 ATGACAGTGAATCTTACTCCCCTAGCGGTGTAGTCGAACATATTAAAGCTACAATGGCGAATCTT
196 ACGACAGTGAATCTTACTCCCCTAGCGGTGTAGTCGAACAGATTAAAGCTACAACGGCGAATCTT
10665976 GTTTCCC
261 GTTTCCC
* *
10665983 TAACATTGCAATTTGAAAGA
1 CAACATTGCAATTTAAAAGA
10666003 GTAAAGATGG
Statistics
Matches: 258, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
266 1 0.00
267 257 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (267 bp):
CAACATTGCAATTTAAAAGAATGAAGCCACAACGACGAATCTTATTTTCCTGGCGTTGTAGCGGA
GCAGATTGAAGCCACAACGGCGAATCTTATCTCCCTGGCATTAAGGCTTGGATTAGCTGAAATGG
AACAGATTAAAGCTGTGGGAAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAAATTGAAACC
ACGACAGTGAATCTTACTCCCCTAGCGGTGTAGTCGAACAGATTAAAGCTACAACGGCGAATCTT
GTTTCCC
Found at i:10666073 original size:44 final size:43
Alignment explanation
Indices: 10666015--10666441 Score: 236
Period size: 44 Copynumber: 9.9 Consensus size: 43
10666005 AAAGATGGCA
*
10666015 AATCTTATCTCCCTGAAGTGGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * ** *** *
10666059 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * *
10666102 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * *
10666143 AGTCTTATGTCCCTGAAGTTGCAGTGGAGTAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * *
10666186 AAGTCTTATC-CCTCTGAAGTTGCAGTGG-GTTAGACTGAAGATGGC--G
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGA-TTAA-A--GCAAT
* *
10666232 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * ** *
10666276 AATCCTATCTCTCTGAAGTTGCA-AAGAGCAGA-T--CGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * * *
10666314 CAGGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGC
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
10666360 AAGTCTTATATCCCTG-AGATTACAGTGGAGCAGATTAAAGCCAAT
1 AA-TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAG-CAAT
* *
10666405 AATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
10666442 GTGGAGTAGA
Statistics
Matches: 283, Mismatches: 69, Indels: 62
0.68 0.17 0.15
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 39 0.14
41 15 0.05
42 5 0.02
43 20 0.07
44 132 0.47
45 58 0.20
46 8 0.03
47 1 0.00
49 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:10666169 original size:84 final size:82
Alignment explanation
Indices: 10666064--10666344 Score: 251
Period size: 84 Copynumber: 3.3 Consensus size: 82
10666054 CCAATAATCC
* * * *
10666064 TATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATTACAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAACA-ATCTTATCTCTCTGAAGTTGCAGAG
10666129 AGCAGATCGCATCTAGTCT
65 AGCAGATCGCATC-AGTCT
* * * *
10666148 TATGTCCCTGAAGTTGCAGTGGAGTAGACT-AAGTAAGCAAGTCTTATCCCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAA-CAA-TCTTATCTCTCTGAAGTTGCAGA
* * * *
10666212 GGGTTAGA-CTGAAGATGGCGAATCT
64 GAG-CAGATC-G--CAT--C-AGTCT
* * * * * * *
10666237 TATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGCCAATAATCCTATCTCTCTGAAGTTGCAAAG
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG-TAACAATCTTATCTCTCTGAAGTTGCAGAG
10666302 AGCAGATCGCATCAGGTCT
65 AGCAGATCGCATCA-GTCT
*
10666321 AATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
10666345 CAGACTCAAG
Statistics
Matches: 155, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
83 6 0.04
84 78 0.50
85 4 0.03
86 2 0.01
87 2 0.01
88 4 0.03
89 52 0.34
90 5 0.03
91 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (82 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGTAACAATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCAGTCT
Found at i:10666423 original size:173 final size:172
Alignment explanation
Indices: 10666012--10666441 Score: 480
Period size: 173 Copynumber: 2.5 Consensus size: 172
10666002 AGTAAAGATG
* **
10666012 GCAAATCTTATCTCC-CTGAAGTGGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAA
1 GCAAGTCTTATC-CCTCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAA
* ** ** * * *
10666076 GTTGTAGTGGAGTGGATTAAAATTACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
65 GTTGCAGTGGAGCAGATTAAAACCACAAATCCTATCTCTCTGAAGTTGCAAAGAGCAGATCGCAT
* * * *
10666141 CTAGTCTTATGTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAA
130 CTAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAA
* * * * * *
10666184 GCAAGTCTTATCCCTCTGAAGTTGCAGTGG-GTTAGACTGAAGATGGC--GAATCTTATCTCCCT
1 GCAAGTCTTATCCCTCTGAAGTTACAGTGGAG-CAGA-TTAA-A-GCCAATAATCCTATCTCCCT
* * *
10666246 GAAGTTACAGTGGAGCAAATTAAAGCCA-ATAATCCTATCTCTCTGAAGTTGCAAAGAGCAGATC
62 GAAGTTGCAGTGGAGCAGATTAAAACCACA-AATCCTATCTCTCTGAAGTTGCAAAGAGCAGATC
10666310 GCATC-AGGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAA
126 GCATCTA-GTCTAATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAA
* *
10666358 GCAAGTCTTATATCC-CTG-AGATTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCTCTGA
1 GCAAGTCTTAT-CCCTCTGAAG-TTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGA
10666421 AGTTGCAGTGGAGCAGATTAA
64 AGTTGCAGTGGAGCAGATTAA
10666442 GTGGAGTAGA
Statistics
Matches: 213, Mismatches: 32, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
171 5 0.02
172 31 0.15
173 141 0.66
174 31 0.15
175 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (172 bp):
GCAAGTCTTATCCCTCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAACCACAAATCCTATCTCTCTGAAGTTGCAAAGAGCAGATCGCATC
TAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAA
Found at i:10667105 original size:17 final size:16
Alignment explanation
Indices: 10667073--10667122 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
10667063 AAGGTTGCTA
*
10667073 TTTGTTTTGTTTCTTT
1 TTTGTTTTGATTCTTT
10667089 TTTGTTGTTGATTCTTT
1 TTTGTT-TTGATTCTTT
* *
10667106 TTTATTTTCATT-TTT
1 TTTGTTTTGATTCTTT
10667121 TT
1 TT
10667123 CTTGTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.17
16 11 0.37
17 14 0.47
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.78
Consensus pattern (16 bp):
TTTGTTTTGATTCTTT
Found at i:10676593 original size:18 final size:19
Alignment explanation
Indices: 10676570--10676608 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10676560 AACTTATCCT
*
10676570 TAAATTAATTT-TTTTATA
1 TAAATTAATTTGTTGTATA
*
10676588 TAAATTTATTTGTTGTATA
1 TAAATTAATTTGTTGTATA
10676607 TA
1 TA
10676609 TTTTTCACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TAAATTAATTTGTTGTATA
Found at i:10677091 original size:33 final size:31
Alignment explanation
Indices: 10677044--10677127 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 31
10677034 CCCTAAGTGA
** *
10677044 TTTGAGTTCAAGGTTTAGGATTCATGG-TTTGAG
1 TTTGAGTTTGAGGTTTAGG-TT--TGGATTTAAG
10677077 TTTGAGTTTGAGGTTTATGGTTTGGATTTAAG
1 TTTGAGTTTGAGGTTTA-GGTTTGGATTTAAG
* *
10677109 TTTAAGTTTGGGGTTTAGG
1 TTTGAGTTTGAGGTTTAGG
10677128 GTTAGTGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 5 0.11
32 20 0.45
33 17 0.39
34 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.46
Consensus pattern (31 bp):
TTTGAGTTTGAGGTTTAGGTTTGGATTTAAG
Found at i:10677487 original size:20 final size:19
Alignment explanation
Indices: 10677462--10677514 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
10677452 TGAGGTTTAA
*
10677462 GATTTAAGGTTTAGTGTTTG
1 GATTTAAGGTTTAGT-TTGG
*
10677482 GATTT-ATGTTTAAGTTTGG
1 GATTTAAGGTTT-AGTTTGG
*
10677501 GGTTTAAGGTTTAG
1 GATTTAAGGTTTAG
10677515 GGTCAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (19 bp):
GATTTAAGGTTTAGTTTGG
Found at i:10680048 original size:20 final size:20
Alignment explanation
Indices: 10680021--10680063 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10680011 CTTTCTTGTG
10680021 GCTTTTTTGT-TC-TTTAGTT
1 GCTTTTTT-TATCTTTTAGTT
10680040 GCTTTTTTTATCTTTTAGTT
1 GCTTTTTTTATCTTTTAGTT
10680060 GCTT
1 GCTT
10680064 CTGCTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.45
20 11 0.50
ACGTcount: A:0.07, C:0.12, G:0.14, T:0.67
Consensus pattern (20 bp):
GCTTTTTTTATCTTTTAGTT
Found at i:10689713 original size:13 final size:14
Alignment explanation
Indices: 10689683--10689713 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10689673 GAGCACGCAT
10689683 AAAACATAACTTTA
1 AAAACATAACTTTA
*
10689697 AAAACATAACTTGA
1 AAAACATAACTTTA
10689711 AAA
1 AAA
10689714 TAGAGTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAACATAACTTTA
Found at i:10690170 original size:19 final size:19
Alignment explanation
Indices: 10690128--10690170 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
10690118 TCTTACTATT
* *
10690128 CTTAGGATACCCTACTTGA
1 CTTAGGAAACCCTACTCGA
*
10690147 CTTAGGAAACCCTAGTCGA
1 CTTAGGAAACCCTACTCGA
*
10690166 TTTAG
1 CTTAG
10690171 AAGAAGGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (19 bp):
CTTAGGAAACCCTACTCGA
Found at i:10690281 original size:27 final size:27
Alignment explanation
Indices: 10690251--10690325 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
10690241 ATTCTGGGGT
10690251 TCGCCAAACCAACTGGTGAACCCCAAC
1 TCGCCAAACCAACTGGTGAACCCCAAC
* **
10690278 TCGCCAAACCAATTGGTGAACCTTAAC
1 TCGCCAAACCAACTGGTGAACCCCAAC
10690305 TCGCCAAACCAACTGGTGAAC
1 TCGCCAAACCAACTGGTGAAC
10690326 ACAACTAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.35, G:0.16, T:0.16
Consensus pattern (27 bp):
TCGCCAAACCAACTGGTGAACCCCAAC
Found at i:10695525 original size:21 final size:21
Alignment explanation
Indices: 10695484--10695523 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10695474 TTTGTTTCTT
10695484 TTAATTAATGCTTTAATTTTA
1 TTAATTAATGCTTTAATTTTA
*
10695505 TTAATTTAT-CTTTAATTTT
1 TTAATTAATGCTTTAATTTT
10695524 TAACAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATTAATGCTTTAATTTTA
Found at i:10702825 original size:100 final size:100
Alignment explanation
Indices: 10702652--10702856 Score: 410
Period size: 100 Copynumber: 2.0 Consensus size: 100
10702642 AACAATTAAA
10702652 ATTTTTCCTCACCAATAAGAATACTAAATAGCCAAATAAATAAATGCACAAATTAACTTTTTCGG
1 ATTTTTCCTCACCAATAAGAATACTAAATAGCCAAATAAATAAATGCACAAATTAACTTTTTCGG
10702717 TATTTTGTATTGTATGTTCGAGATTTATAGTTATC
66 TATTTTGTATTGTATGTTCGAGATTTATAGTTATC
10702752 ATTTTTCCTCACCAATAAGAATACTAAATAGCCAAATAAATAAATGCACAAATTAACTTTTTCGG
1 ATTTTTCCTCACCAATAAGAATACTAAATAGCCAAATAAATAAATGCACAAATTAACTTTTTCGG
10702817 TATTTTGTATTGTATGTTCGAGATTTATAGTTATC
66 TATTTTGTATTGTATGTTCGAGATTTATAGTTATC
10702852 ATTTT
1 ATTTT
10702857 CAATAATATT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (100 bp):
ATTTTTCCTCACCAATAAGAATACTAAATAGCCAAATAAATAAATGCACAAATTAACTTTTTCGG
TATTTTGTATTGTATGTTCGAGATTTATAGTTATC
Found at i:10703976 original size:16 final size:18
Alignment explanation
Indices: 10703950--10703986 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10703940 AAAATCAACC
*
10703950 TTTTTATCTTTCTTTC-T
1 TTTTTATCTTTATTTCAT
10703967 TTTTTA-CTTTATTTCAT
1 TTTTTATCTTTATTTCAT
10703984 TTT
1 TTT
10703987 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATCTTTATTTCAT
Found at i:10704028 original size:19 final size:19
Alignment explanation
Indices: 10704005--10704047 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10703995 TTCTTATTTT
* *
10704005 TTTTTCTTATTCTTTCGTTC
1 TTTTTCTT-TTCATTCATTC
10704025 TTTTTCTTTTCATTCATTC
1 TTTTTCTTTTCATTCATTC
10704044 TTTT
1 TTTT
10704048 CTCCCTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTCTTTTCATTCATTC
Found at i:10707179 original size:45 final size:43
Alignment explanation
Indices: 10707128--10707227 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 43
10707118 AGTCATGTTT
* * *
10707128 TTACTCATTTACATCATGACACCGTAGCATCTTTTAGCTATGGTC
1 TTACTCATTT--ATCATGACACCATAGCATCTCTCAGCTATGGTC
*
10707173 TTACTCATCCTTATCATGACGCCATAGCATCTCTCAGCTATGGTC
1 TTACTCAT--TTATCATGACACCATAGCATCTCTCAGCTATGGTC
10707218 TTACTCATTT
1 TTACTCATTT
10707228 TCAGCGTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.04
45 45 0.92
47 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (43 bp):
TTACTCATTTATCATGACACCATAGCATCTCTCAGCTATGGTC
Found at i:10709833 original size:43 final size:44
Alignment explanation
Indices: 10709712--10709838 Score: 193
Period size: 45 Copynumber: 2.9 Consensus size: 44
10709702 TATCTGCAAA
* * *
10709712 ATTGGTGGTTTATCCACAACCTACATGGTAACCTGTCTGTGAAT
1 ATTGGTGGTTTATCCACAACCTACATGGTAGCTTGTTTGTGAAT
* *
10709756 ATTGGTGGCTTCATCCACAACCTACATGGCAGCTTGTTTGTGAAT
1 ATTGGTGG-TTTATCCACAACCTACATGGTAGCTTGTTTGTGAAT
10709801 -TTGGTGGTTTATCCACAACCTACATGGTAGCTTGTTTG
1 ATTGGTGGTTTATCCACAACCTACATGGTAGCTTGTTTG
10709839 CAAATAGTGG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 29 0.39
44 15 0.20
45 31 0.41
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (44 bp):
ATTGGTGGTTTATCCACAACCTACATGGTAGCTTGTTTGTGAAT
Found at i:10709850 original size:88 final size:88
Alignment explanation
Indices: 10709672--10709854 Score: 240
Period size: 88 Copynumber: 2.1 Consensus size: 88
10709662 GGAAGAATTT
* * *
10709672 GTGGCTTCGTCCATAACCTATATGGCAGCTTATCTGCAAAATTGGTGGTTTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGCAGCTTATCTGCAAAATTGGTGGTTTATCCACAACCTACA
** *
10709737 TGGTAACCTGTCTGTGAATATTG
66 TGGTAACCTGTCTGCAAATAGTG
* * ** *
10709760 GTGGCTTCATCCACAACCTACATGGCAGCTTGTTTGTGAATTTGGTGGTTTATCCACAACCTACA
1 GTGGCTTCATCCACAACCTACATGGCAGCTTATCTGCAAAATTGGTGGTTTATCCACAACCTACA
* * *
10709825 TGGTAGCTTGTTTGCAAATAGTG
66 TGGTAACCTGTCTGCAAATAGTG
10709848 GTGGCTT
1 GTGGCTT
10709855 TGAGCATATA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (88 bp):
GTGGCTTCATCCACAACCTACATGGCAGCTTATCTGCAAAATTGGTGGTTTATCCACAACCTACA
TGGTAACCTGTCTGCAAATAGTG
Found at i:10713765 original size:30 final size:30
Alignment explanation
Indices: 10713729--10713789 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
10713719 AAGATCAAGA
10713729 TAAGTTTGATTTACTTTATGACTCTAATTT
1 TAAGTTTGATTTACTTTATGACTCTAATTT
10713759 TAAGTTTGATTTACTTTATGACTCTAATTT
1 TAAGTTTGATTTACTTTATGACTCTAATTT
10713789 T
1 T
10713790 TACTAGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (30 bp):
TAAGTTTGATTTACTTTATGACTCTAATTT
Found at i:10713971 original size:20 final size:20
Alignment explanation
Indices: 10713943--10713981 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10713933 CTATATAAAA
10713943 TTTCATCTCT-TTATTTTTAC
1 TTTCATCTCTATT-TTTTTAC
*
10713963 TTTCTTCTCTATTTTTTTA
1 TTTCATCTCTATTTTTTTA
10713982 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTCATCTCTATTTTTTTAC
Found at i:10714002 original size:25 final size:26
Alignment explanation
Indices: 10713952--10714005 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
10713942 ATTTCATCTC
*
10713952 TTTATTTTTACTTTCTTCTCTATTTT
1 TTTATTTTTACTTTCTTATCTATTTT
*
10713978 TTTATTTTTTA-TTT-TTATCTCTTTT
1 TTTA-TTTTTACTTTCTTATCTATTTT
10714003 TTT
1 TTT
10714006 TCTATAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 7 0.28
27 6 0.24
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTATTTTTACTTTCTTATCTATTTT
Found at i:10714947 original size:21 final size:20
Alignment explanation
Indices: 10714910--10714948 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10714900 AATATAAATC
* *
10714910 TATTTATTAAATGTTATTTT
1 TATTTATAAAATATTATTTT
10714930 TATTTAATAAAATATTATT
1 TATTT-ATAAAATATTATT
10714949 AATAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTTATAAAATATTATTTT
Found at i:10718043 original size:28 final size:28
Alignment explanation
Indices: 10717988--10718056 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
10717978 AATACAATTC
* * * *
10717988 TTTATTATTA-TTTTTTTCTTTTTTTCT
1 TTTATTCTTACTTTTTTTCCTTCTCTCT
10718015 TTTATTCTTACTTTTTTTCCTTCTCTCT
1 TTTATTCTTACTTTTTTTCCTTCTCTCT
10718043 TTTATTTCTT-CTTT
1 TTTA-TTCTTACTTT
10718057 CTTCTTTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 9 0.25
28 22 0.61
29 5 0.14
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTATTCTTACTTTTTTTCCTTCTCTCT
Found at i:10718860 original size:6 final size:6
Alignment explanation
Indices: 10718845--10718888 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
10718835 AAAATAAAGA
* *
10718845 AAATAG AAATAT AAATAT AAATAA AAATAT AAATA- AAATA- AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
10718889 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
AAATAT
Found at i:10718866 original size:12 final size:11
Alignment explanation
Indices: 10718838--10718888 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
10718828 ATGCAAGAAA
*
10718838 ATAAAGAAAAT
1 ATAAATAAAAT
*
10718849 AGAAATATAAAT
1 ATAAATA-AAAT
10718861 ATAAATAAAAAT
1 ATAAAT-AAAAT
10718873 ATAAATAAAAT
1 ATAAATAAAAT
10718884 A-AAAT
1 ATAAAT
10718889 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 4 0.11
11 11 0.31
12 19 0.54
13 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:10718872 original size:18 final size:17
Alignment explanation
Indices: 10718838--10718887 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
10718828 ATGCAAGAAA
* *
10718838 ATAAAGAAAATAGAAAT
1 ATAAATAAAATAAAAAT
10718855 ATAAATATAAATAAAAAT
1 ATAAATA-AAATAAAAAT
10718873 ATAAATAAAATAAAA
1 ATAAATAAAATAAAA
10718888 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
ATAAATAAAATAAAAAT
Found at i:10734952 original size:69 final size:69
Alignment explanation
Indices: 10734700--10734948 Score: 309
Period size: 69 Copynumber: 3.6 Consensus size: 69
10734690 TTTACAGTTA
* * * ** **
10734700 GAGCTTTACTCTCGTTAACTATGTTGGAGGTCGCGGTTCTTCACCTAAGAACAATGATTTTACAA
1 GAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGCGGCTCTTCACCTGTGAACCTTGATTTTACAA
10734765 CTGG
66 CTGG
* * *
10734769 AAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTGCGGCTCTTCACCTGTGAACCTTGATTTTACAA
1 GAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGCGGCTCTTCACCTGTGAACCTTGATTTTACAA
*
10734834 CTAG
66 CTGG
* * * * *
10734838 GAGCTTTGCTCTTGCTAACTATGTTGGAGGTTGCGGCTCTTCGCCTGTGAACCTTGATTTTATAG
1 GAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGCGGCTCTTCACCTGTGAACCTTGATTTTACAA
10734903 CTGG
66 CTGG
* * * * *
10734907 GAGCTTTCCTCTCACTAACTATATTGGAGGTCACGGATCTTC
1 GAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGCGGCTCTTC
10734949 GCCTATTTTA
Statistics
Matches: 155, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 155 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (69 bp):
GAGCTTTGCTCTCGCTAACTATGTTGGAGGTCGCGGCTCTTCACCTGTGAACCTTGATTTTACAA
CTGG
Found at i:10735007 original size:59 final size:59
Alignment explanation
Indices: 10734894--10735012 Score: 132
Period size: 59 Copynumber: 2.0 Consensus size: 59
10734884 GTGAACCTTG
* * * *
10734894 ATTTTATAGCTGGGAGCTTTCCTCTCACTAACTATATTGGAGGTCACGGATCTTCGCCT
1 ATTTTACAGCTGAGAGCTTTCCTCTCACTAACTATATTGGAGGTCACGAATCTTCACCT
* * ** * *
10734953 ATTTTACAGCTGAGAGTTTTTCTCTTGCTAACTATGTTGGAGGTCGC-AACTCTTCACCT
1 ATTTTACAGCTGAGAGCTTTCCTCTCACTAACTATATTGGAGGTCACGAA-TCTTCACCT
10735012 A
1 A
10735013 CGAATCTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 48 0.98
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (59 bp):
ATTTTACAGCTGAGAGCTTTCCTCTCACTAACTATATTGGAGGTCACGAATCTTCACCT
Found at i:10735058 original size:69 final size:69
Alignment explanation
Indices: 10734953--10735165 Score: 237
Period size: 69 Copynumber: 3.1 Consensus size: 69
10734943 ATCTTCGCCT
* * * * * * *
10734953 ATTTTACAGCTGAGAGTTTTTCTCTTGCTAACTATGTTGGAGGTCGCAACTCTTCACCTACGAAT
1 ATTTTATAGCTGGGAGCTTTACTCTAGCTAGCTATGTTGGAGGTCGCAACTCTTCACCTACGAAC
*
10735018 CTTA
66 CTTG
** * * * * * * * *
10735022 ATTTTATAGCTGGGAGCTTTGTTTTCGCTAGCTATGTTGGAAGTCGTAGCTATTCACCTGCTAAC
1 ATTTTATAGCTGGGAGCTTTACTCTAGCTAGCTATGTTGGAGGTCGCAACTCTTCACCTACGAAC
10735087 CTTG
66 CTTG
* * *
10735091 ATTTTATAGCTGGGAGCTTTACTCTAGTTAGCTATGTTGGAGGTCGCGATTCTTCACCTACGAAC
1 ATTTTATAGCTGGGAGCTTTACTCTAGCTAGCTATGTTGGAGGTCGCAACTCTTCACCTACGAAC
10735156 CTTG
66 CTTG
10735160 ATTTTA
1 ATTTTA
10735166 CAAATGATAG
Statistics
Matches: 115, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
69 115 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (69 bp):
ATTTTATAGCTGGGAGCTTTACTCTAGCTAGCTATGTTGGAGGTCGCAACTCTTCACCTACGAAC
CTTG
Found at i:10747733 original size:18 final size:17
Alignment explanation
Indices: 10747705--10747741 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
10747695 TTAAGTGAGA
*
10747705 AACTAAAAACAGAGTTT
1 AACTAAAAACAAAGTTT
10747722 AACTAGAAAACAAAGTTT
1 AACTA-AAAACAAAGTTT
10747740 AA
1 AA
10747742 ATGGTAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (17 bp):
AACTAAAAACAAAGTTT
Found at i:10750497 original size:3 final size:3
Alignment explanation
Indices: 10750491--10750525 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10750481 AAATAGCCGC
10750491 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10750526 ATTCATGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10751042 original size:29 final size:31
Alignment explanation
Indices: 10751002--10751063 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
10750992 AAATTTGAAA
*
10751002 TTTAGTTATTTTAC-TTTTA-TTTTTAAAAT
1 TTTAGTTATTTTACTTTTTAGATTTTAAAAT
*
10751031 TTTAGTTTTTTTACTTTTTAGATTTTAAAAT
1 TTTAGTTATTTTACTTTTTAGATTTTAAAAT
10751062 TT
1 TT
10751064 AAGTCCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
30 5 0.17
31 11 0.38
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (31 bp):
TTTAGTTATTTTACTTTTTAGATTTTAAAAT
Found at i:10752721 original size:3 final size:3
Alignment explanation
Indices: 10752713--10752751 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10752703 GTGGGTTTAG
*
10752713 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10752752 GCAAATGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10758578 original size:31 final size:30
Alignment explanation
Indices: 10758542--10758601 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
10758532 CTTCAGTTTG
10758542 GCTAATTGCTTCACTGAATGTTGAAGAATAT
1 GCTAATTGCTTCACTGAATGTTGAA-AATAT
* *
10758573 GCTAATTGCTTCATTGAATTTTGAAAATA
1 GCTAATTGCTTCACTGAATGTTGAAAATA
10758602 ATCTTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (30 bp):
GCTAATTGCTTCACTGAATGTTGAAAATAT
Found at i:10765684 original size:20 final size:20
Alignment explanation
Indices: 10765645--10765684 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10765635 GTTTTTAAAA
*
10765645 TATAAAAATAATTGACATTT
1 TATAAAAATAATTGAAATTT
10765665 TATAAAAATAAATT-AAATTT
1 TATAAAAAT-AATTGAAATTT
10765685 ATTCAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
TATAAAAATAATTGAAATTT
Found at i:10766870 original size:11 final size:11
Alignment explanation
Indices: 10766854--10766885 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10766844 AGGTATAGGT
10766854 AGGTATGGGAA
1 AGGTATGGGAA
*
10766865 AGGTATGGGCA
1 AGGTATGGGAA
10766876 AGGTATGGGA
1 AGGTATGGGA
10766886 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:10770952 original size:18 final size:18
Alignment explanation
Indices: 10770929--10771020 Score: 148
Period size: 18 Copynumber: 5.1 Consensus size: 18
10770919 CCAACTACTA
*
10770929 TATACGTGAACAGTACCG
1 TATACGTGAATAGTACCG
*
10770947 TATACGTAAATAGTACCG
1 TATACGTGAATAGTACCG
*
10770965 TATACGTGAATAGTACCA
1 TATACGTGAATAGTACCG
*
10770983 TATACGTGAATAGTGCCG
1 TATACGTGAATAGTACCG
10771001 TATACGTGAATAGTACCG
1 TATACGTGAATAGTACCG
10771019 TA
1 TA
10771021 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (18 bp):
TATACGTGAATAGTACCG
Found at i:10771580 original size:11 final size:11
Alignment explanation
Indices: 10771553--10771595 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
10771543 TGACCTTTCC
10771553 AAGGTATGGG-
1 AAGGTATGGGA
*
10771563 TAGGTATGGGA
1 AAGGTATGGGA
*
10771574 AAGGTATGGGC
1 AAGGTATGGGA
10771585 AAGGTATGGGA
1 AAGGTATGGGA
10771596 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:10771592 original size:22 final size:21
Alignment explanation
Indices: 10771553--10771595 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10771543 TGACCTTTCC
*
10771553 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
10771574 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
10771596 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:10773895 original size:31 final size:31
Alignment explanation
Indices: 10773857--10773935 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
10773847 GATTATTTAT
*
10773857 CAAAATGG-TACGTTTGATAC-AAATGAATTAC
1 CAAAATGGAT-CGTTTGATACAAAAT-AAATAC
*
10773888 CAAAATGGATCGTTTGCTACAAAAATAAATAC
1 CAAAATGGATCGTTTGATAC-AAAATAAATAC
*
10773920 CAAAATGGATTGTTTG
1 CAAAATGGATCGTTTG
10773936 CTTGAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 17 0.40
32 21 0.50
33 4 0.10
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (31 bp):
CAAAATGGATCGTTTGATACAAAATAAATAC
Found at i:10780835 original size:33 final size:33
Alignment explanation
Indices: 10780789--10780860 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
10780779 AGCTAATGTA
* * *
10780789 TTCCAATGTATCTAATTTATATTACAAAGTTTG
1 TTCCAATGAATCTAATTTAAATTACAAAGTTGG
10780822 TTCCAATGAATCTAATTTAAATTACAAAGTTGG
1 TTCCAATGAATCTAATTTAAATTACAAAGTTGG
10780855 TTCCAA
1 TTCCAA
10780861 ATTTGTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (33 bp):
TTCCAATGAATCTAATTTAAATTACAAAGTTGG
Found at i:10780881 original size:44 final size:44
Alignment explanation
Indices: 10780826--10780927 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
10780816 AGTTTGTTCC
*
10780826 AATGAATCTAATTTAAATTACAAAGTTGGTTCCAAATTTGTTAA
1 AATGAATCTAATTTAAATTACAAAGTTGGTTCCAAATTTGGTAA
* * **
10780870 AATGAATCTAATTTAAATTACATAGTTGGTTCCAAGTTTGGTGC
1 AATGAATCTAATTTAAATTACAAAGTTGGTTCCAAATTTGGTAA
10780914 AATGAATCTAATTT
1 AATGAATCTAATTT
10780928 CTGCATGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (44 bp):
AATGAATCTAATTTAAATTACAAAGTTGGTTCCAAATTTGGTAA
Found at i:10783725 original size:174 final size:172
Alignment explanation
Indices: 10783415--10783726 Score: 446
Period size: 174 Copynumber: 1.8 Consensus size: 172
10783405 ATATCTTATA
* *
10783415 AATTCCAACTCAATGGTCTCATCTTTTACCTACATAAACAACAAAAAAATTATGTTAAAATAATA
1 AATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAACAAAAAAATTATGTTAAAACAATA
* * * * *
10783480 GAAACTATCAAAATAAAATAAACCTAATTGGACTATATGTTGTTATGTGCATCTAATAATAAACA
66 GAAACTATCAAAACAAAATAAACCTAATGGGACTATATGTTGTAATGTGAATCTAATAAAAAACA
10783545 AAAAAAAAGGCTCATTAAAAAATATAACAGAAACATCTCATC
131 AAAAAAAAGGCTCATTAAAAAATATAACAGAAACATCTCATC
* * * *
10783587 AATTCCAATTCAATGGTCTCATTTTTTACCTATATAAAAAAAATAAAAAAATTATGTTAAAACAA
1 AATTCCAACTCAATGGTCTCATCTTTTACCTACAT--AAAAAACAAAAAAATTATGTTAAAACAA
* * ** *
10783652 TATAAATTATCTCAACAAAATAAACCTAATGGGACTA-ATGTTGTAATTTGAATCTAATAAAAAA
64 TAGAAACTATCAAAACAAAATAAACCTAATGGGACTATATGTTGTAATGTGAATCTAATAAAAAA
10783716 CATAAAAAAAA
129 CA-AAAAAAAA
10783727 CATAAGAAGT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
172 32 0.26
173 25 0.21
174 64 0.53
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (172 bp):
AATTCCAACTCAATGGTCTCATCTTTTACCTACATAAAAAACAAAAAAATTATGTTAAAACAATA
GAAACTATCAAAACAAAATAAACCTAATGGGACTATATGTTGTAATGTGAATCTAATAAAAAACA
AAAAAAAAGGCTCATTAAAAAATATAACAGAAACATCTCATC
Found at i:10786897 original size:14 final size:14
Alignment explanation
Indices: 10786861--10786899 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10786851 GCTTAATAAA
10786861 TTATGACATATGCT
1 TTATGACATATGCT
* * *
10786875 TAATAACATATGGT
1 TTATGACATATGCT
10786889 TTATGACATAT
1 TTATGACATAT
10786900 AAACTAATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (14 bp):
TTATGACATATGCT
Found at i:10787180 original size:20 final size:21
Alignment explanation
Indices: 10787143--10787192 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
10787133 ATATAATAAT
10787143 AATTATATTAAGAATTTTATTA
1 AATTATA-TAAGAATTTTATTA
10787165 AATTATATAA-AATTTTATTA
1 AATTATATAAGAATTTTATTA
*
10787185 ACTTATAT
1 AATTATAT
10787193 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 17 0.63
21 3 0.11
22 7 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTATATAAGAATTTTATTA
Found at i:10787417 original size:44 final size:45
Alignment explanation
Indices: 10787363--10787455 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
10787353 ATTACAACAT
* *
10787363 CATTCTATTCAACCAAACACA-AGAA-TACTATTACAACTCTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTATTACAACTCCATTC
* *
10787407 CATTCCATTCAACCAAACAATTGAATTACTATTACAGCTCCATTC
1 CATTCCATTCAACCAAACAATAGAATTACTATTACAACTCCATTC
10787452 CATT
1 CATT
10787456 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 21 0.49
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (45 bp):
CATTCCATTCAACCAAACAATAGAATTACTATTACAACTCCATTC
Found at i:10787458 original size:16 final size:16
Alignment explanation
Indices: 10787437--10787472 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
10787427 TTGAATTACT
10787437 ATTACAGCTCCATTCC
1 ATTACAGCTCCATTCC
*
10787453 ATTACAGCTCTATTCC
1 ATTACAGCTCCATTCC
10787469 ATTA
1 ATTA
10787473 TAGTGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCCATTCC
Found at i:10791590 original size:16 final size:16
Alignment explanation
Indices: 10791569--10791603 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10791559 TTGAATTACT
10791569 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
10791585 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
10791601 ATT
1 ATT
10791604 TCAGCGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10791934 original size:83 final size:83
Alignment explanation
Indices: 10791802--10791971 Score: 313
Period size: 83 Copynumber: 2.0 Consensus size: 83
10791792 ATTGGGGGAC
*
10791802 CATTATAAGGTCCCCAAAAACCCATTTTCACGAGACCCTTAAGGGTCTCGTCCTATCTCATAGAC
1 CATTATAAGGTCCCCAAAAACCCATTTTCACGAGACCCTTAAGGGTCTCGTCCTATCTCACAGAC
*
10791867 GCAGTAGAGCAGGGGGCT
66 GCAGTAGAGCAGGAGGCT
10791885 CATTATAAGGTCCCCAAAAACCCATTTTCACGAGACCCTTAAGGGTCTCGTCCTATCTCACAGAC
1 CATTATAAGGTCCCCAAAAACCCATTTTCACGAGACCCTTAAGGGTCTCGTCCTATCTCACAGAC
*
10791950 GTAGTAGAGCAGGAGGCT
66 GCAGTAGAGCAGGAGGCT
10791968 CATT
1 CATT
10791972 CCATCCCATC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (83 bp):
CATTATAAGGTCCCCAAAAACCCATTTTCACGAGACCCTTAAGGGTCTCGTCCTATCTCACAGAC
GCAGTAGAGCAGGAGGCT
Found at i:10798581 original size:50 final size:50
Alignment explanation
Indices: 10798519--10798711 Score: 233
Period size: 50 Copynumber: 3.7 Consensus size: 50
10798509 GATAATAACA
* *
10798519 TGCCAAAGCCATGTCCCAGACATGGTCTTATAGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACTTCTCATCTCGG
* * * *
10798569 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACTTCTCATCTCGG
* * *
10798619 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CT-TC-TCATC-T-CGG
* *
10798674 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
10798712 TCTCTTTACC
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
50 79 0.65
51 1 0.01
52 2 0.02
53 3 0.02
54 1 0.01
55 2 0.02
56 34 0.28
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACTTCTCATCTCGG
Found at i:10798705 original size:106 final size:100
Alignment explanation
Indices: 10798526--10798716 Score: 274
Period size: 106 Copynumber: 1.9 Consensus size: 100
10798516 ACATGCCAAA
* *
10798526 GCCATGTCCCAGACATGGTCTTATAGGGGACTTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACTTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
10798591 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
66 TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
* *
10798626 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATGCCATGTCC
1 GCCATGTCCCAGACATGGTCTTACAGGGGA-CT-TC-TCATC-T-AGG-TGCCAACGCCATGTCC
* *
10798691 TAGACATGGTCTTACATGGGATCTCT
60 CAGACATGGTCTTACATGGGACCTCT
10798717 TTACCCAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
100 29 0.37
101 2 0.03
102 2 0.03
103 4 0.05
104 1 0.01
105 2 0.03
106 39 0.49
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACTTCTCATCTAGGTGCCAACGCCATGTCCCAGACA
TGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:10798832 original size:13 final size:13
Alignment explanation
Indices: 10798811--10798842 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10798801 GCTTGGATCA
*
10798811 TCATCAAATAAAT
1 TCATAAAATAAAT
10798824 TCATAAAATAAAT
1 TCATAAAATAAAT
10798837 TCATAA
1 TCATAA
10798843 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:10799089 original size:30 final size:30
Alignment explanation
Indices: 10799054--10799111 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10799044 CCTCGACTCT
*
10799054 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
10799084 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
10799112 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:10800253 original size:40 final size:40
Alignment explanation
Indices: 10800188--10800288 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
10800178 TGACTCAGAA
* *
10800188 CACCGGCATGAAGCCTGCTAGACATTAAGTCT-ATAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGA-AAAATT
*
10800228 CACCAGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATT
10800268 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
10800289 GCACAGAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGAAAAATT
Found at i:10803297 original size:33 final size:33
Alignment explanation
Indices: 10803250--10803316 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10803240 TTTATGTTCT
*
10803250 CTTGTAGTTTCGTTTGACACTTAGTCAAATTGG
1 CTTGTAGTTCCGTTTGACACTTAGTCAAATTGG
10803283 CTTGTAGTTCCGTTTGACACTTAGTCAAATTGG
1 CTTGTAGTTCCGTTTGACACTTAGTCAAATTGG
10803316 C
1 C
10803317 CTCAAATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (33 bp):
CTTGTAGTTCCGTTTGACACTTAGTCAAATTGG
Found at i:10807703 original size:14 final size:14
Alignment explanation
Indices: 10807684--10807710 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10807674 GAAAGTATCA
10807684 CTTGATACGAGAGG
1 CTTGATACGAGAGG
10807698 CTTGATACGAGAG
1 CTTGATACGAGAG
10807711 ACAATAGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (14 bp):
CTTGATACGAGAGG
Found at i:10808616 original size:20 final size:20
Alignment explanation
Indices: 10808579--10808616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10808569 TATGGATGAA
**
10808579 TTACTGTTGATATGTATAGG
1 TTACTGTTGATACATATAGG
10808599 TTACTGTTGATACATATA
1 TTACTGTTGATACATATA
10808617 AATTTCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (20 bp):
TTACTGTTGATACATATAGG
Found at i:10809492 original size:13 final size:13
Alignment explanation
Indices: 10809474--10809498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10809464 ATATGTTTGG
10809474 ATATGAAATTGAT
1 ATATGAAATTGAT
10809487 ATATGAAATTGA
1 ATATGAAATTGA
10809499 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:10811243 original size:62 final size:59
Alignment explanation
Indices: 10811171--10811287 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
10811161 AGTGATTGTC
* * *
10811171 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAACATTCTATTATTTTAATAACAT
1 TTAATATTAAATTTAATCTAATATTTAT-TT-TA-ATAAACATTATATTAATTTAATAACAT
* *
10811233 TTAATGTTAAATTTAATCTAATATTTATTTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATTTTAATAAACATTATATTAATTTAATA
10811288 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 2 0.04
62 26 0.52
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATTTTAATAAACATTATATTAATTTAATAACAT
Found at i:10815977 original size:22 final size:22
Alignment explanation
Indices: 10815952--10815995 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10815942 ATTATTACTA
10815952 TTATAAC-TATTTATATATATCT
1 TTATAACTTA-TTATATATATCT
*
10815974 TTATATCTTATTATATATATCT
1 TTATAACTTATTATATATATCT
10815996 ACGTATCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATAACTTATTATATATATCT
Found at i:10816002 original size:22 final size:22
Alignment explanation
Indices: 10815962--10816003 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10815952 TTATAACTAT
**
10815962 TTATATATATCTTTATATCTTA
1 TTATATATATCTACATATCTTA
*
10815984 TTATATATATCTACGTATCT
1 TTATATATATCTACATATCT
10816004 CTTTATAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATATATATCTACATATCTTA
Found at i:10816009 original size:22 final size:21
Alignment explanation
Indices: 10815961--10816010 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
10815951 ATTATAACTA
**
10815961 TTTATATATATCTTTATATCT
1 TTTATATATATCTACATATCT
*
10815982 TATTATATATATCTACGTATCT
1 T-TTATATATATCTACATATCT
10816004 CTTTATA
1 -TTTATA
10816011 AACACATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATATATATCTACATATCT
Found at i:10816176 original size:30 final size:30
Alignment explanation
Indices: 10816119--10816174 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10816109 TTTTTTATAT
*
10816119 ATATACATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
10816149 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
10816175 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:10820966 original size:12 final size:12
Alignment explanation
Indices: 10820945--10820981 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10820935 GTTCAGATTC
10820945 AAAAAA-AGAAA
1 AAAAAAGAGAAA
10820956 AAAAAAGAGAAA
1 AAAAAAGAGAAA
10820968 AGAAAAAGA-AAA
1 A-AAAAAGAGAAA
10820980 AA
1 AA
10820982 GGAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.29
12 10 0.42
13 7 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:10820973 original size:13 final size:13
Alignment explanation
Indices: 10820945--10820988 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10820935 GTTCAGATTC
*
10820945 AAAAAAAGAAAA-
1 AAAAAGAGAAAAG
10820957 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
10820970 AAAAAGAAAAAAG
1 AAAAAGAGAAAAG
*
10820983 GAAAAG
1 AAAAAG
10820989 GAGAGGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:10821128 original size:42 final size:42
Alignment explanation
Indices: 10821064--10821175 Score: 161
Period size: 42 Copynumber: 2.6 Consensus size: 42
10821054 AAAAGGGCGA
* * *
10821064 CTCAAATTTTGGATCAAATTGGGGCATGAGGCGATCATAGCGG
1 CTCAAATTTT-GATCAAATTGGGGCATGAGGCAATCAAAGCAG
* *
10821107 CTCAAATTTTGATCAGATTGGGGCATGAGGTAATCAAAGCAG
1 CTCAAATTTTGATCAAATTGGGGCATGAGGCAATCAAAGCAG
*
10821149 CTCAAATTTTGATCAAACTGGGGCATG
1 CTCAAATTTTGATCAAATTGGGGCATG
10821176 TGGTGATCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 52 0.84
43 10 0.16
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (42 bp):
CTCAAATTTTGATCAAATTGGGGCATGAGGCAATCAAAGCAG
Found at i:10822978 original size:44 final size:44
Alignment explanation
Indices: 10822913--10823075 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 44
10822903 CAGATCATAT
* * * * *
10822913 CAAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGAT-A
* * *
10822957 CAAACCTTATC-CCCATGAAGTTGCAATGGGGCAAGTTGAAGGTA
1 CAAACCTTATCTCCC-TGAAGTTGCAGTGGAGCAAGTTGAAGATA
** *
10823001 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATA-TTAAAGATA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATA
* ** * *
10823045 GCAAATCGCATTTCTCTGAAGTTGCAGTGGA
1 -CAAACCTTATCTCCCTGAAGTTGCAGTGGA
10823076 ACGGATTAAA
Statistics
Matches: 95, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
43 2 0.02
44 63 0.66
45 30 0.32
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATA
Found at i:10823296 original size:106 final size:106
Alignment explanation
Indices: 10823111--10823323 Score: 349
Period size: 106 Copynumber: 2.0 Consensus size: 106
10823101 CTCGTCTCTC
* *
10823111 TGAAGTTGCAGTAGAGCAGATCATATCAAACTTTGTCTCTCTGAAGTTGCAGTAGAGCAGGTTGA
1 TGAAGTTGCAATAGAGCAGATCATATCAAACTTTGTCTCTCTGAAGTTACAGTAGAGCAGGTTGA
10823176 AATAACAAACCTTAT-CCCCATGAAGTTGCAA-TGGGGCAAGT
66 AATAACAAACCTTATACCCC-TGAAGTTG-AAGTGGGGCAAGT
10823217 TGAAGTTGCAATAGAGCAGATCATATCAAACTTTGTCTCTCTGAAGTTACAGTAGAGCAGGTTGA
1 TGAAGTTGCAATAGAGCAGATCATATCAAACTTTGTCTCTCTGAAGTTACAGTAGAGCAGGTTGA
* * *
10823282 AGTCACTAACCTTATACCCCTGAAGTTGAAGTGGGGCAAGT
66 AATAACAAACCTTATACCCCTGAAGTTGAAGTGGGGCAAGT
10823323 T
1 T
10823324 AAAATATAAG
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
105 2 0.02
106 94 0.94
107 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (106 bp):
TGAAGTTGCAATAGAGCAGATCATATCAAACTTTGTCTCTCTGAAGTTACAGTAGAGCAGGTTGA
AATAACAAACCTTATACCCCTGAAGTTGAAGTGGGGCAAGT
Found at i:10823399 original size:44 final size:43
Alignment explanation
Indices: 10823257--10823404 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 43
10823247 CTTTGTCTCT
* * * *
10823257 CTGAAGTTACAGTAGAGCAGGTTGAAG-TCACTAA-CCTTATACCC
1 CTGAAGTTGCAGTGGAGCAGGTTGAAGAT-AC-AAGTCTTAT-TCC
* * * * *
10823301 CTGAAGTTGAAGTGGGGCAAGTT-AAAATATAAGTCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTAT-TCC
10823344 CTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCC
1 CTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCC
*
10823387 CTTGAAGATGCAGTGGAG
1 C-TGAAGTTGCAGTGGAG
10823405 TAGACAGAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 2 0.02
43 34 0.40
44 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCC
Found at i:10823680 original size:207 final size:208
Alignment explanation
Indices: 10823341--10823734 Score: 630
Period size: 207 Copynumber: 1.9 Consensus size: 208
10823331 AAGTCTTATC
10823341 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCCCTTGAAGATGCAGTGGAGT
1 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCCCTTGAAGATGCAGTGGAGT
* * *
10823406 AGACAGAAAACAACAAGTCGTATCTCCCTAAAGTTGTAGTAGAGCAGATAGCAGATAGCGGTTCT
66 AGACAGAAAACAACAAGTCGTATCTCCCTAAAGTTGTAGTAGAGCAGACAGCAGATAACGATTCT
* * *
10823471 TATCATGTCGAATCTTATTTCCTTGAAGTTGTAGCAGAATAGGTTGAAGCATGGAGCAGATCGGC
131 TATCATGTCAAATCTTATTTCCCTGAAGTTGCAGCAGAATAGGTTGAAGCATGGAGCAGATCGGC
10823536 TACGAATCCTATT
196 TACGAATCCTATT
* * *
10823549 TCCCTGAAGTTTCAGT-GAGTAGGTTGAAGGTACAAGTCTTATTTCCC-TGAAGATGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTA-TTCCCTTGAAGATGCAGTGGAG
* * * * * *
10823612 TAGACTGAAAACAACAAGTCGTGTCTCCCTAAAGTTGTAGTGGAGCGGACAGTAGATAATGATTC
65 TAGACAGAAAACAACAAGTCGTATCTCCCTAAAGTTGTAGTAGAGCAGACAGCAGATAACGATTC
10823677 TTATCATGTCAAATCTTATTTCCCTGAAGTTGCAGCAGAATAGGTTGAAGCATGGAGC
130 TTATCATGTCAAATCTTATTTCCCTGAAGTTGCAGCAGAATAGGTTGAAGCATGGAGC
10823735 GGATTAAAGT
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
207 150 0.88
208 20 0.12
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (208 bp):
TCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATTCCCTTGAAGATGCAGTGGAGT
AGACAGAAAACAACAAGTCGTATCTCCCTAAAGTTGTAGTAGAGCAGACAGCAGATAACGATTCT
TATCATGTCAAATCTTATTTCCCTGAAGTTGCAGCAGAATAGGTTGAAGCATGGAGCAGATCGGC
TACGAATCCTATT
Found at i:10824175 original size:18 final size:18
Alignment explanation
Indices: 10824148--10824182 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10824138 ACTAAGCCTA
10824148 CCCAAATACAACCCAAAC
1 CCCAAATACAACCCAAAC
*
10824166 CCCAATTACAACCCAAA
1 CCCAAATACAACCCAAA
10824183 TCGAAACCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.43, G:0.00, T:0.09
Consensus pattern (18 bp):
CCCAAATACAACCCAAAC
Found at i:10825434 original size:22 final size:22
Alignment explanation
Indices: 10825419--10825474 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
10825409 TTATAACTAT
10825419 TTATGTATATCTTTATATCTTA
1 TTATGTATATCTTTATATCTTA
*
10825441 TTATGTATATATTTATATCTTA
1 TTATGTATATCTTTATATCTTA
*
10825463 TTATATATATCT
1 TTATGTATATCT
10825475 ACGTATCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TTATGTATATCTTTATATCTTA
Found at i:10825650 original size:30 final size:30
Alignment explanation
Indices: 10825593--10825648 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10825583 TTATATATAT
*
10825593 ATATACATACTAACATTGTTTTATTTTACG
1 ATATACATACTAACATTCTTTTATTTTACG
* *
10825623 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTAACATTCTTTTATTTT
10825649 TATGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (30 bp):
ATATACATACTAACATTCTTTTATTTTACG
Found at i:10837356 original size:15 final size:15
Alignment explanation
Indices: 10837336--10837389 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
10837326 ATACTAAAAA
10837336 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
10837351 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
10837368 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
10837385 ATATT
1 ATATT
10837390 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:10837442 original size:16 final size:16
Alignment explanation
Indices: 10837421--10837463 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 16
10837411 ATATATGAAG
10837421 AATATTATTTAAAATT
1 AATATTATTTAAAATT
10837437 AATATT-TTTAAAATT
1 AATATTATTTAAAATT
10837452 --TATTA-TTAAAAT
1 AATATTATTTAAAAT
10837464 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTATTTAAAATT
Found at i:10837607 original size:17 final size:17
Alignment explanation
Indices: 10837587--10837631 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10837577 TTTTATTCAT
*
10837587 ATAAAATATTTTTAAAA
1 ATAAAATATTATTAAAA
* *
10837604 ATAAAAAATTATTAATA
1 ATAAAATATTATTAAAA
*
10837621 ATATAATATTA
1 ATAAAATATTA
10837632 AGCTTAACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAAATATTATTAAAA
Found at i:10837930 original size:21 final size:21
Alignment explanation
Indices: 10837901--10837942 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10837891 ATTTAAAATT
*
10837901 ATTATTAATTATT-TCATTTAA
1 ATTAATAATTATTCT-ATTTAA
10837922 ATTAATAATTATTCTATTTAA
1 ATTAATAATTATTCTATTTAA
10837943 TTTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAATAATTATTCTATTTAA
Found at i:10841976 original size:23 final size:23
Alignment explanation
Indices: 10841950--10842048 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
10841940 ATAAGTGCAA
10841950 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10841973 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10841996 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
10842019 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10842042 CACTGAT
1 CACTGAT
10842049 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10842300 original size:18 final size:17
Alignment explanation
Indices: 10842274--10842312 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
10842264 ATTTTCCTTC
10842274 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
10842291 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
10842309 CACA
1 CACA
10842313 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:10844184 original size:14 final size:14
Alignment explanation
Indices: 10844165--10844191 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10844155 GAAAGTATCA
10844165 CTTGATACGAGAGG
1 CTTGATACGAGAGG
10844179 CTTGATACGAGAG
1 CTTGATACGAGAG
10844192 ACAGTAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (14 bp):
CTTGATACGAGAGG
Done.