Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 119 of 185
Found at i:37307443 original size:13 final size:13
Alignment explanation
Indices: 37307404--37307457 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
37307394 AGTTTGACAA
37307404 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
37307417 TGAC-GTAGAAAAG
1 TG-CTTTTGAAAAG
*
37307430 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
37307443 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
37307456 TG
1 TG
37307458 TGGTTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 1 0.03
13 31 0.94
14 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.33
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:37313641 original size:23 final size:23
Alignment explanation
Indices: 37313606--37313651 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37313596 ATTAGTGGTT
**
37313606 ACATCATGAATGACGTGGGAAAA
1 ACATCATGAATGACAAGGGAAAA
37313629 ACATCATCG-ATGACAAGGGAAAA
1 ACATCAT-GAATGACAAGGGAAAA
37313652 GATTTGACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (23 bp):
ACATCATGAATGACAAGGGAAAA
Found at i:37313963 original size:28 final size:28
Alignment explanation
Indices: 37313905--37313963 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
37313895 ACATGAACCG
* *
37313905 ATTATTTAACTAGTAAATGAAGTATAAA
1 ATTATTTAACTAATAAATCAAGTATAAA
37313933 ATTATTTAACTACATAAA-CAA-TATAATA
1 ATTATTTAACTA-ATAAATCAAGTATAA-A
37313961 ATT
1 ATT
37313964 TTGACTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 18 0.67
29 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (28 bp):
ATTATTTAACTAATAAATCAAGTATAAA
Found at i:37314033 original size:21 final size:21
Alignment explanation
Indices: 37314007--37314048 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37313997 AAACAACGTA
*
37314007 GTTTTGCCTTTTAACTTAATG
1 GTTTTGACTTTTAACTTAATG
37314028 GTTTTGACTTTTAACTTAATG
1 GTTTTGACTTTTAACTTAATG
37314049 AGTAAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.52
Consensus pattern (21 bp):
GTTTTGACTTTTAACTTAATG
Found at i:37314045 original size:67 final size:67
Alignment explanation
Indices: 37313962--37314155 Score: 307
Period size: 67 Copynumber: 2.9 Consensus size: 67
37313952 AATATAATAA
37313962 TTTTGACTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAACTTAAT
1 TTTTGACTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAACTTAAT
37314027 GG
66 GG
37314029 TTTTGACTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAACTTAAT
1 TTTTGACTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAACTTAAT
37314094 GG
66 GG
** *** *
37314096 TTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAATGGCATAGTTTTGCCTTTT
1 TTTTGACTTTTAAC-TT-AATGA-GTAAACATTTATCAAAACAACGTAGTTTTGCCTTTT
37314156 CTTATTCGGA
Statistics
Matches: 118, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
67 81 0.69
68 2 0.02
69 3 0.03
70 32 0.27
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (67 bp):
TTTTGACTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAACTTAAT
GG
Found at i:37315810 original size:15 final size:14
Alignment explanation
Indices: 37315790--37315839 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
37315780 TCATAAATTG
37315790 TAAAATATTTATTA
1 TAAAATATTTATTA
*
37315804 TTAAAATA-TTAATA
1 -TAAAATATTTATTA
37315818 T-AAATATTT-TTAA
1 TAAAATATTTATT-A
37315831 TAAAATATT
1 TAAAATATT
37315840 AAGAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 12 0.40
15 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATATTTATTA
Found at i:37315838 original size:14 final size:14
Alignment explanation
Indices: 37315790--37315839 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
37315780 TCATAAATTG
*
37315790 TAAAATATTTATTAT
1 TAAAATATTT-TTAA
37315805 TAAAATA---TTAA
1 TAAAATATTTTTAA
37315816 TATAAATATTTTTAA
1 TA-AAATATTTTTAA
37315831 TAAAATATT
1 TAAAATATT
37315840 AAGAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
14 7 0.23
15 13 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATATTTTTAA
Found at i:37315851 original size:26 final size:26
Alignment explanation
Indices: 37315791--37315853 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
37315781 CATAAATTGT
* *
37315791 AAAATATTTATTATTAAAATATTAAT
1 AAAATATTTATTAATAAAATATTAAG
37315817 ATAAATATTT-TTAATAAAATATTAAG
1 A-AAATATTTATTAATAAAATATTAAG
37315843 AAAATTATTTA
1 AAAA-TATTTA
37315854 AAATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 3 0.09
26 21 0.66
27 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAATATTTATTAATAAAATATTAAG
Found at i:37322288 original size:18 final size:18
Alignment explanation
Indices: 37322260--37322308 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
37322250 GGGTGGCTTA
* *
37322260 TGGACGATGGTTGGTCTG
1 TGGATGATGGTTGGCCTG
*
37322278 TGGATGGTGGTTGGCCTG
1 TGGATGATGGTTGGCCTG
37322296 TGGATGATGGTTG
1 TGGATGATGGTTG
37322309 TGGAGGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.10, C:0.08, G:0.47, T:0.35
Consensus pattern (18 bp):
TGGATGATGGTTGGCCTG
Found at i:37328292 original size:56 final size:51
Alignment explanation
Indices: 37328218--37328504 Score: 232
Period size: 49 Copynumber: 5.6 Consensus size: 51
37328208 ATGAGATCCT
37328218 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---GAGA-TATGAGAGGTCCC
*
37328274 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG--ATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATATGAGAGGTCCC
** * * * **
37328324 CCGTAAGACCATGTTTGGGACATGGCATGGGCAC-CGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATATGAGAGGTCCC
* * * * **
37328374 ATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACA-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AGATATGAGAGGTCCC
* * * * * **
37328423 ATGTAAGACCATATCTGGGATATGACATTGGCA-GTACA-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AGATATGAGAGGTCCC
* *
37328472 ATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
37328505 TGTTATTATT
Statistics
Matches: 200, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.00
49 84 0.42
50 78 0.39
51 1 0.00
53 3 0.01
56 33 0.17
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (51 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATATGAGAGGTCCC
Found at i:37328376 original size:100 final size:103
Alignment explanation
Indices: 37328220--37328406 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 103
37328210 GAGATCCTAT
* **
37328220 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* *
37328285 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
63 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
* *
37328326 GTAAGACCATGTTTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
*
37328388 CTGGGATATGGCATTGGCA
66 CTGGGACATGGCATTGGCA
37328407 GTACAAGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 41 0.56
101 2 0.03
105 1 0.01
106 29 0.40
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (103 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:37330708 original size:24 final size:24
Alignment explanation
Indices: 37330670--37330715 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
37330660 CTAAACTATG
37330670 AGTAAGTTTTCATTTTTCTAATGA
1 AGTAAGTTTTCATTTTTCTAATGA
37330694 AGTAA-TTTTCTATTTTTCTAAT
1 AGTAAGTTTTC-ATTTTTCTAAT
37330716 TTTAATGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (24 bp):
AGTAAGTTTTCATTTTTCTAATGA
Found at i:37330880 original size:214 final size:213
Alignment explanation
Indices: 37330475--37330899 Score: 601
Period size: 214 Copynumber: 2.0 Consensus size: 213
37330465 AAAAAATGTA
* *
37330475 TAATGAAGTAGTTTTCTTATTTTCTAATTTTAATCGCGGACTCATGGTAATTTTTTTGTTTTTTT
1 TAATGAAGTAATTTTCTTATTTTCTAATTTTAATCGCGGACCCATGGTAATTTTTTTGTTTTTTT
** * *
37330540 TTCTTTTTGGGTAAAAAGGTAGATATTAAAGTTTTTTTTCACAGAACTAATAATGAATTAATTAA
66 TAATTTTTGGGTAAAAAAGTAGATATTAAAGTTTTTTTTCACACAACTAATAATGAATTAATTAA
* * * *
37330605 CATTTTATATATAAAAAAAGCAATTAAACAAAATGGTAAATTACACCATTGATTTCTAAACTATG
131 CATTTTATATAAAAAAAAAGCAATTAAACAAAAGGGTAAATTACACCATTAATTACTAAACTATG
* *
37330670 AGTAAGTTTTCATTTTTC
196 AGCAAGTTTTAATTTTTC
*
37330688 TAATGAAGTAATTTTC-TATTTTTCTAATTTTAAT-GACGGACCCATGGTTTTATTTTTTT-TTT
1 TAATGAAGTAATTTTCTTA-TTTTCTAATTTTAATCG-CGGACCCATGG--TAATTTTTTTGTTT
37330750 TTTTTAATTTTTGGGTAAAAAAAGTAGATATTAAAGTTTTTTTTACACACAACTAATAATGAATT
62 TTTTTAATTTTTGGGT-AAAAAAGTAGATATTAAAGTTTTTTTT-CACACAACTAATAATGAATT
* * *
37330815 AGTTAACATTTTATA-AAAAAAACAAGCCATT-AA-AAAAGGGTAAATTAGACCATTAATTACTA
125 AATTAACATTTTATATAAAAAAA-AAGCAATTAAACAAAAGGGTAAATTACACCATTAATTACTA
37330877 AACTATGAGCAAGTTTTAATTTT
189 AACTATGAGCAAGTTTTAATTTT
37330900 GGTCACTTAA
Statistics
Matches: 189, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
212 3 0.02
213 40 0.21
214 63 0.33
215 43 0.23
216 40 0.21
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (213 bp):
TAATGAAGTAATTTTCTTATTTTCTAATTTTAATCGCGGACCCATGGTAATTTTTTTGTTTTTTT
TAATTTTTGGGTAAAAAAGTAGATATTAAAGTTTTTTTTCACACAACTAATAATGAATTAATTAA
CATTTTATATAAAAAAAAAGCAATTAAACAAAAGGGTAAATTACACCATTAATTACTAAACTATG
AGCAAGTTTTAATTTTTC
Found at i:37331385 original size:16 final size:16
Alignment explanation
Indices: 37331366--37331408 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
37331356 GGTTTCCATC
37331366 TTTTCTATTTCTTCTCT
1 TTTTCT-TTTCTTCTCT
* *
37331383 TTTTCTTTTCTTTTCC
1 TTTTCTTTTCTTCTCT
*
37331399 TATTCTTTTC
1 TTTTCTTTTC
37331409 ATCATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCTTTTCTTCTCT
Found at i:37332317 original size:38 final size:38
Alignment explanation
Indices: 37332275--37332402 Score: 184
Period size: 38 Copynumber: 3.4 Consensus size: 38
37332265 ATTACCAAAC
* **
37332275 ACATGTTAAGCATGCCTACTACTACTATTGAACCCAAT
1 ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
** *
37332313 ACATGTTAAGCATATCTACTGTTACTATTGAACTGAAT
1 ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
* *
37332351 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAA
1 ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
37332389 ACATGTTAAGCATG
1 ACATGTTAAGCATG
37332403 TTAATTGTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (38 bp):
ACATGTTAAGCATGCCTACTGCTACTATTGAACTGAAT
Found at i:37336215 original size:13 final size:13
Alignment explanation
Indices: 37336197--37336223 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37336187 TTAATTTATA
37336197 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37336210 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37336223 T
1 T
37336224 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37337427 original size:42 final size:42
Alignment explanation
Indices: 37337303--37337427 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 42
37337293 TTCTGAAATG
* ** *
37337303 TGATATCATGTAAGACCACGTCTGGGAC-GTTGGCATCG-ATT
1 TGATTTCATGTAAGACCTTGTCTGGGACAG-TGGCATCGTATA
* * *
37337344 TGAGATTTGCGTGTACGA-CTATGTCTGGGACA-TCGGTATCGTATA
1 T--GATTT-CATGTAAGACCT-TGTCTGGGACAGT-GGCATCGTATA
37337389 TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGT
1 TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGT
37337428 TATTTAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
41 1 0.02
42 25 0.38
43 14 0.22
44 22 0.34
45 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCGTATA
Found at i:37344148 original size:13 final size:13
Alignment explanation
Indices: 37344130--37344156 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37344120 TTAATTTATA
37344130 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37344143 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37344156 T
1 T
37344157 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37345388 original size:84 final size:85
Alignment explanation
Indices: 37345237--37345392 Score: 212
Period size: 84 Copynumber: 1.8 Consensus size: 85
37345227 TTCTGAAATG
* * *
37345237 TGATATCGTGTAAGACCACTTCTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGT
1 TGATATCGTGTAAGACCACTTCTAGGACGTTGGCATCGATTTGAGA-TTACATGTAAGACCAAGT
37345302 CTGGGACATCGGTATCGTATA
65 CTGGGACATCGGTATCGTATA
*
37345323 TGATTTCGTGTAAGACC-CTTCTAGGACAG-TGGCATCGTTATTTGA-A-TACATGTAAGACCAA
1 TGATATCGTGTAAGACCACTTCTAGGAC-GTTGGCATCG--ATTTGAGATTACATGTAAGACCAA
37345384 GTCTGGGAC
63 GTCTGGGAC
37345393 GTTGGCATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
84 22 0.35
85 17 0.27
86 18 0.29
87 6 0.10
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (85 bp):
TGATATCGTGTAAGACCACTTCTAGGACGTTGGCATCGATTTGAGATTACATGTAAGACCAAGTC
TGGGACATCGGTATCGTATA
Found at i:37356935 original size:13 final size:14
Alignment explanation
Indices: 37356917--37356946 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37356907 TAATTGGTTA
37356917 TAATTAAG-TTAAT
1 TAATTAAGTTTAAT
37356930 TAATTAAGTTTAAT
1 TAATTAAGTTTAAT
37356944 TAA
1 TAA
37356947 AACTAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
TAATTAAGTTTAAT
Found at i:37357997 original size:19 final size:19
Alignment explanation
Indices: 37357975--37358022 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
37357965 CACTTCGTGA
37357975 GCCAGTATGCGCTTTGTGC
1 GCCAGTATGCGCTTTGTGC
* *
37357994 GCCAGGATGCGCTTTGTGT
1 GCCAGTATGCGCTTTGTGC
37358013 GCCAGTATGC
1 GCCAGTATGC
37358023 ACTTACGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.29
Consensus pattern (19 bp):
GCCAGTATGCGCTTTGTGC
Found at i:37359254 original size:12 final size:12
Alignment explanation
Indices: 37359237--37359270 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37359227 CAAAAATTGA
**
37359237 ATATATATTCAT
1 ATATATATAAAT
37359249 ATATATATAAAT
1 ATATATATAAAT
37359261 ATATATATAA
1 ATATATATAA
37359271 GATAACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:37360849 original size:10 final size:11
Alignment explanation
Indices: 37360822--37360936 Score: 52
Period size: 10 Copynumber: 10.9 Consensus size: 11
37360812 TTTTAAAATC
37360822 ATAAATTTTTT
1 ATAAATTTTTT
37360833 ATAAATTTTTT
1 ATAAATTTTTT
*
37360844 A-GAATTTTTT
1 ATAAATTTTTT
*
37360854 AAAAATATAAATTTT
1 ATAAAT-T---TTTT
*
37360869 -GAAA-TTTTT
1 ATAAATTTTTT
*
37360878 ATAAATATTTT
1 ATAAATTTTTT
37360889 A-AAA--TTTT
1 ATAAATTTTTT
*
37360897 A-AAATTATTT
1 ATAAATTTTTT
*
37360907 -TGAA-TTTTT
1 ATAAATTTTTT
*
37360916 AAAAATTATTTT
1 ATAAATT-TTTT
37360928 AT-AATTTTT
1 ATAAATTTTT
37360937 GTTGAGAGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
8 8 0.10
9 8 0.10
10 25 0.31
11 25 0.31
12 7 0.09
14 3 0.04
15 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (11 bp):
ATAAATTTTTT
Found at i:37360874 original size:25 final size:28
Alignment explanation
Indices: 37360832--37360882 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
37360822 ATAAATTTTT
*
37360832 TATAAATTTTTTAGAATTTTT-TAAAAA
1 TATAAATTTTTGAGAATTTTTATAAAAA
37360859 TATAAA-TTTTGA-AATTTTTATAAA
1 TATAAATTTTTGAGAATTTTTATAAA
37360883 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 9 0.41
27 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TATAAATTTTTGAGAATTTTTATAAAAA
Found at i:37360893 original size:20 final size:20
Alignment explanation
Indices: 37360823--37360936 Score: 79
Period size: 19 Copynumber: 5.5 Consensus size: 20
37360813 TTTAAAATCA
* * *
37360823 TAAATTTTTTATAAATTTTT
1 TAAAATTTTTAAAAATATTT
*
37360843 TAGAATTTTTTAAAAATATAAATTT
1 TA-AAATTTTT-AAAA-AT--ATTT
* *
37360868 TGAAATTTTTATAAATATTT
1 TAAAATTTTTAAAAATATTT
*
37360888 TAAAA-TTTTAAAATTATTT
1 TAAAATTTTTAAAAATATTT
*
37360907 T-GAATTTTTAAAAATTATTT
1 TAAAATTTTTAAAAA-TATTT
*
37360927 TATAATTTTT
1 TAAAATTTTT
37360937 GTTGAGAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.03
19 21 0.28
20 16 0.21
21 15 0.20
22 5 0.07
23 5 0.07
24 7 0.09
25 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TAAAATTTTTAAAAATATTT
Found at i:37360922 original size:28 final size:28
Alignment explanation
Indices: 37360862--37360919 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
37360852 TTAAAAATAT
*
37360862 AAATTTTGAAATTTTTATAAATATTTTA
1 AAATTTTAAAATTTTTATAAATATTTTA
*
37360890 AAATTTTAAAATTATTT-TGAAT-TTTTA
1 AAATTTTAAAATT-TTTATAAATATTTTA
37360917 AAA
1 AAA
37360920 ATTATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 8 0.30
28 16 0.59
29 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
AAATTTTAAAATTTTTATAAATATTTTA
Found at i:37362473 original size:27 final size:27
Alignment explanation
Indices: 37362414--37362473 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
37362404 TCTGGTAGGT
*
37362414 GCGACTAGTGGAGCCTATCTGACAGGC
1 GCGACTAGTGGAGCCTATCTGACAAGC
**
37362441 AAGACTAGTGGAGCCTATCTGACAAGC
1 GCGACTAGTGGAGCCTATCTGACAAGC
37362468 GCGACT
1 GCGACT
37362474 GATGCTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.18
Consensus pattern (27 bp):
GCGACTAGTGGAGCCTATCTGACAAGC
Found at i:37365688 original size:71 final size:74
Alignment explanation
Indices: 37365567--37365780 Score: 281
Period size: 71 Copynumber: 2.9 Consensus size: 74
37365557 AAAGTTTATT
* * * * * **
37365567 TATTTAAATTGAAAAAAAACCCATAAAATTGATAACTGAAATAGCGAAAAAGTCATTACATAAAT
1 TATTTAAATTGCAAAGAAA--CATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAAT
*
37365632 ACAAAGTTTAC
64 ACAAAGTTAAC
37365643 TATTTAAATTGC-AA-AAA-ATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAATAC
1 TATTTAAATTGCAAAGAAACATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAATAC
37365705 AAAGTTAAC
66 AAAGTTAAC
*
37365714 TATTTAAATTGCAAAAGAAACCCATAAAATTGATAAATAAAATGGAAAAAAATTCATTACATAAA
1 TATTTAAATTGC-AAAGAAA--CATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAA
37365779 TA
63 TA
37365781 TGAAATTATT
Statistics
Matches: 124, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
71 60 0.48
73 2 0.02
74 6 0.05
75 2 0.02
76 11 0.09
77 43 0.35
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (74 bp):
TATTTAAATTGCAAAGAAACATAAAATTGATAAATAAAATGGAAAAAAAGTCATTACATAAATAC
AAAGTTAAC
Found at i:37368448 original size:103 final size:102
Alignment explanation
Indices: 37368056--37368415 Score: 568
Period size: 103 Copynumber: 3.5 Consensus size: 102
37368046 TTACATTATA
* * *
37368056 TAAAAATTACATTA--AAAAAATCACAAAACAC-TAAACTAAATACTAACAATTGATATAACCTA
1 TAAAAAATACATTACTAAAAAATCACAAAACACAT-AACTAAACACTAACAATTTATATAACCTA
37368118 ATCATAAATTACTAACAAAATAACTATAAAATTGTTTT
65 ATCATAAATTACTAACAAAATAACTATAAAATTGTTTT
* *
37368156 AAAAAAATACATTACTAAAAAATTACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
1 TAAAAAATACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
37368221 TCATAAATTACTAACAAAATAACTATAAAATTGTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATTGTTTT
*
37368258 TAAAAAAATACATTACTAAAAAATTACAAAACACATAACTAAACACTAACAATTTATATAACCTA
1 T-AAAAAATACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTA
37368323 ATCATAAATTACTAACAAAATAACTATAAATTATT-TTTT
65 ATCATAAATTACTAACAAAATAACTATAAA--ATTGTTTT
* *
37368362 TAAAAATTACATTACTAAAAAATCACAAAAC-CCTATACTAAACACTAACAATTT
1 TAAAAAATACATTACTAAAAAATCACAAAACACATA-ACTAAACACTAACAATTT
37368416 GTAACCAAAT
Statistics
Matches: 244, Mismatches: 9, Indels: 11
0.92 0.03 0.04
Matches are distributed among these distances:
100 12 0.05
102 84 0.34
103 140 0.57
104 5 0.02
105 3 0.01
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (102 bp):
TAAAAAATACATTACTAAAAAATCACAAAACACATAACTAAACACTAACAATTTATATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATTGTTTT
Found at i:37368719 original size:60 final size:60
Alignment explanation
Indices: 37368643--37368761 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
37368633 ATACTAAACT
*
37368643 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
37368703 AAACATAATAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
37368762 TAAAAAACAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:37368941 original size:3 final size:3
Alignment explanation
Indices: 37368935--37368969 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
37368925 TTTTTTTTCT
37368935 TTC TTC TTC TTC TTC TTC TTC TTC TT- TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
37368970 CTTTTCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:37368957 original size:22 final size:23
Alignment explanation
Indices: 37368938--37368995 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 23
37368928 TTTTTCTTTC
37368938 TTCTTCTTCTTCTTCTTCT-TC-T
1 TTCTTCTTCTTCTT-TTCTCTCAT
*
37368960 TTTTTCTTC-TCTTTTCTCTCAT
1 TTCTTCTTCTTCTTTTCTCTCAT
37368982 TTCTTTCTCTCTTC
1 TTC-TTCT-TCTTC
37368996 CGGTGGGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 11 0.38
23 4 0.14
24 2 0.07
25 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (23 bp):
TTCTTCTTCTTCTTTTCTCTCAT
Found at i:37369192 original size:27 final size:27
Alignment explanation
Indices: 37369154--37369214 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
37369144 GCAGGCAGTG
37369154 GCGCCTACCTGTCAGGCGCGACTAGTT
1 GCGCCTACCTGTCAGGCGCGACTAGTT
37369181 GCGCCTACCTGTCAGGCGCGACTAGTT
1 GCGCCTACCTGTCAGGCGCGACTAGTT
37369208 GCGCCTA
1 GCGCCTA
37369215 TCGACAGGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.34, G:0.30, T:0.21
Consensus pattern (27 bp):
GCGCCTACCTGTCAGGCGCGACTAGTT
Found at i:37369619 original size:32 final size:31
Alignment explanation
Indices: 37369581--37369661 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
37369571 GGAGTGGTAA
* *
37369581 ATATTTAAAATTTATAAAGTTTTAAAGTTAAT
1 ATATTTAAAAATTATAAAATTTT-AAGTTAAT
* *
37369613 ATATTTAAAAATGATAAAATTTTAATTTAAT
1 ATATTTAAAAATTATAAAATTTTAAGTTAAT
37369644 AT-TTTAAAAAATTATAAA
1 ATATTT-AAAAATTATAAA
37369662 TAGATAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.07
31 20 0.47
32 20 0.47
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (31 bp):
ATATTTAAAAATTATAAAATTTTAAGTTAAT
Found at i:37369655 original size:31 final size:32
Alignment explanation
Indices: 37369581--37369653 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
37369571 GGAGTGGTAA
* * *
37369581 ATATTTAAAATTTATAAAGTTTTAAAGTTAAT
1 ATATTTAAAAATGATAAAATTTTAAAGTTAAT
*
37369613 ATATTTAAAAATGATAAAATTTT-AATTTAAT
1 ATATTTAAAAATGATAAAATTTTAAAGTTAAT
37369644 AT-TTTAAAAA
1 ATATTTAAAAA
37369654 ATTATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 8 0.22
31 9 0.24
32 20 0.54
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (32 bp):
ATATTTAAAAATGATAAAATTTTAAAGTTAAT
Found at i:37378228 original size:11 final size:11
Alignment explanation
Indices: 37378208--37378245 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
37378198 TTAAAATTAA
37378208 AAAAAGTATTTT
1 AAAAA-TATTTT
37378220 AAAAATATTTT
1 AAAAATATTTT
37378231 AAAAATATTTT
1 AAAAATATTTT
37378242 AAAA
1 AAAA
37378246 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:37378268 original size:39 final size:38
Alignment explanation
Indices: 37378220--37378296 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 38
37378210 AAAGTATTTT
37378220 AAAAATATTTTAAAAATATTTTAAAATAAAAAAATAAA
1 AAAAATATTTTAAAAATATTTTAAAATAAAAAAATAAA
*
37378258 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAAA
1 AAAAA-TATTTTAAAAATATTTTAAAATAAAAAAATAAA
37378297 TACATTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 5 0.14
39 32 0.86
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (38 bp):
AAAAATATTTTAAAAATATTTTAAAATAAAAAAATAAA
Found at i:37381353 original size:17 final size:18
Alignment explanation
Indices: 37381331--37381369 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
37381321 CTTTAGATTT
*
37381331 TTTTTTAAAAATTAT-AA
1 TTTTTTAAAAAATATAAA
37381348 TTTTTTAAAAAATATAAA
1 TTTTTTAAAAAATATAAA
37381366 TTTT
1 TTTT
37381370 GGAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAAAAAATATAAA
Found at i:37381412 original size:21 final size:21
Alignment explanation
Indices: 37381386--37381431 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
37381376 TTTATAAATA
37381386 TTTGAAAATTTAAAAAATTAT
1 TTTGAAAATTTAAAAAATTAT
* **
37381407 TTTG-AATTTTTGAAAATTAT
1 TTTGAAAATTTAAAAAATTAT
37381427 TTTGA
1 TTTGA
37381432 TTTTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (21 bp):
TTTGAAAATTTAAAAAATTAT
Found at i:37385689 original size:86 final size:83
Alignment explanation
Indices: 37385536--37385696 Score: 198
Period size: 83 Copynumber: 1.9 Consensus size: 83
37385526 GCACTTCAAA
* * * *
37385536 TTTCAATTTAGTCATTTTATAAATAAAAAAATATAAAATTATATATGGTAAACTTGCACTTTGGC
1 TTTCAATTCAGTCATCTTATAAATAAAAAAATATAAAATTATATATGGTAAAATTGCACTTTAGC
*
37385601 CCCCTTAAAATGAAAAGT
66 CCCCCTAAAATGAAAAGT
* * * *
37385619 TTTCAATTCAGTCCTCTTATAAGTAAAGAAAT-TATAAATTAATATATAGAGTAAAATTTCACTT
1 TTTCAATTCAGTCATCTTATAAATAAAAAAATATA-AAATT-ATATAT-G-GTAAAATTGCACTT
37385683 TAGCCCCCCTAAAA
62 TAGCCCCCCTAAAA
37385697 ATAAAAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
82 2 0.03
83 32 0.49
84 6 0.09
85 1 0.02
86 24 0.37
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (83 bp):
TTTCAATTCAGTCATCTTATAAATAAAAAAATATAAAATTATATATGGTAAAATTGCACTTTAGC
CCCCCTAAAATGAAAAGT
Found at i:37387585 original size:27 final size:27
Alignment explanation
Indices: 37387555--37387732 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
37387545 ATATTGAGCC
* *
37387555 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37387582 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37387609 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
37387637 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37387664 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
37387691 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37387718 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
37387733 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37387694 original size:82 final size:81
Alignment explanation
Indices: 37387576--37387731 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37387566 TGCTATATAA
* * *
37387576 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
37387641 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37387658 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
37387722 CACTTAGTGC
65 CACTTAGTGC
37387732 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:37403770 original size:39 final size:40
Alignment explanation
Indices: 37403605--37403829 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
37403595 GCTACTCGTT
* *
37403605 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
37403645 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
37403685 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
37403725 CCAATGCCTTTGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
37403764 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37403805 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37403830 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 116 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37411142 original size:27 final size:27
Alignment explanation
Indices: 37411112--37411287 Score: 138
Period size: 27 Copynumber: 6.5 Consensus size: 27
37411102 ATTGAGTCCG
* * *
37411112 CACACTCAGTGCTATATAATCAACTCA
1 CACACTTAGTGCTACATAATCAAATCA
* *
37411139 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAAATCA
* * *
37411166 CACACTTAGTGCTACATAGTCAAACCCG
1 CACACTTAGTGCTACATAATCAAA-TCA
** ** * *
37411194 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAAATCA
* ** *
37411221 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAAATCA
* * *
37411248 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAATCAAATCA
37411275 CACACTTAGTGCT
1 CACACTTAGTGCT
37411288 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAAATCA
Found at i:37419152 original size:27 final size:27
Alignment explanation
Indices: 37419122--37419299 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37419112 ATATTGAGTC
* * * *
37419122 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37419149 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37419176 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37419204 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37419231 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37419258 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37419285 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37419300 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37419261 original size:82 final size:81
Alignment explanation
Indices: 37419143--37419298 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37419133 TGCTATATAA
* *
37419143 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37419208 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37419225 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37419289 CACTTAGTGC
65 CACTTAGTGC
37419299 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37443859 original size:20 final size:22
Alignment explanation
Indices: 37443795--37443859 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
37443785 TGGAACAATG
* *
37443795 AAAATGTTTATA-ATAATTTTAA
1 AAAATGTATATATAT-ACTTTAA
*
37443817 AAAATGTATATATATACTATAA
1 AAAATGTATATATATACTTTAA
* *
37443839 AAGATG-A-ATATATGCTTTAA
1 AAAATGTATATATATACTTTAA
37443859 A
1 A
37443860 TTATAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 21 0.58
23 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (22 bp):
AAAATGTATATATATACTTTAA
Found at i:37446080 original size:89 final size:89
Alignment explanation
Indices: 37446003--37446658 Score: 859
Period size: 89 Copynumber: 7.5 Consensus size: 89
37445993 CAGGACCTGC
* ** * * *
37446003 TATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
* **
37446068 CCAGTATGGGAAGACAAGATCTAC
66 CCAGTATGGGAAGGCAAGATCTGG
* * * *
37446092 T-T-TTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGTTTTCTTCGATTTGCTTCGCC
1 TATCTTT-GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
*
37446155 ACCAGTATGGGAAGGCAAGATCTGT
65 ACCAGTATGGGAAGGCAAGATCTGG
* * * * *
37446180 TATCTTTGATCTACTTCACGGCGGTACATGAAGACAAGACCTGCTTTCTTTGATCTGTTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
* *
37446245 CCAGTATGGGAAGACAAGATCTGT
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
37446269 TATTTTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCA
1 TA-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCC
37446334 ACCAGTATGGGAAGGCAAGATCTGG
65 ACCAGTATGGGAAGGCAAGATCTGG
* * * * **
37446359 TATCTCTGATCTACTTCATGCCAGTACAAGAAGACAAGATCTGCTTTCTTCGATCTACTTTACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
*
37446424 CCAGTATGGGAAGGCAAGATTTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
37446448 TATCTTTGATCTACTTTACGCCAGTACATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
37446513 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* * *
37446537 TATCTCTGATCTACTTCACACCAGTACATGAAGACAAGA-------TC-T-G-TCTGCTTCACCA
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
37446592 CCAGTATGGGAAGGCAAGATCTGG
66 CCAGTATGGGAAGGCAAGATCTGG
* *
37446616 TATCTCTGATCTACTTCACACCAGTACATGAAGACAAGATCTG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
37446659 TTATCTTTCA
Statistics
Matches: 508, Mismatches: 51, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
79 74 0.15
80 1 0.00
81 1 0.00
82 2 0.00
87 3 0.01
88 75 0.15
89 268 0.53
90 84 0.17
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (89 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCA
CCAGTATGGGAAGGCAAGATCTGG
Found at i:37446081 original size:45 final size:45
Alignment explanation
Indices: 37446005--37446578 Score: 313
Period size: 45 Copynumber: 12.9 Consensus size: 45
37445995 GGACCTGCTA
* * *** *
37446005 TCTTTGATCTACTTCA-CGCCAGTACATGAAGATAAGATCTATTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* *
37446049 TCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * *** * *
37446094 T-TTCGATCTACTTCA-CGCCAATACATGAAGATAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * * * * *
37446137 TCTTCGATTTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* ** * *** * **
37446182 TCTTTGATCTACTTCA-CGGCGGTACATGAAGACAAGACCTGCTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* ** * *
37446226 TCTTTGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATT-T
* * * *** **
37446272 TTTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * * * * ** *
37446316 TCTTTGATCTGCTTCGCAACCAGTATGGGAAGGCAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
** *** **
37446361 TC-TCTGATCTACTTCA-TGCCAGTACAAGAAGACAAGATCTGCTT
1 TCTTC-GATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * * ** *
37446405 TCTTCGATCTACTTTACCACCAGTATGGGAAGGCAAGATTTGGTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * * *** *
37446450 TCTTTGATCTACTTTA-CGCCAGTACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
* * * * ** *
37446494 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
***
37446539 TC-TCTGATCTACTTCA-CACCAGTACATGAAGACAAGATCT
1 TCTTC-GATCTACTTCACCACCAGTATGGGAAGACAAGATCT
37446579 GTCTGCTTCA
Statistics
Matches: 397, Mismatches: 122, Indels: 22
0.73 0.23 0.04
Matches are distributed among these distances:
43 21 0.05
44 169 0.43
45 194 0.49
46 13 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTATTT
Found at i:37446579 original size:44 final size:44
Alignment explanation
Indices: 37445986--37446666 Score: 468
Period size: 44 Copynumber: 15.5 Consensus size: 44
37445976 CTACTGATAT
* * *
37445986 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* * ** * * * *
37446030 ATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAGTAC
* * * *
37446075 GGGAAGACAAGATCTACT-T-TTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTT-GATCTACTTCACACCAGTAC
* * * * * * * * *
37446118 ATGAAGATAAGATCTGTTTTCTTCGATTTGCTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTC-ACACCAGTAC
* * * ** *
37446163 GGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGGCGGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* * * ** * *
37446207 ATGAAGACAAGACCTGCTTTCTTTGATCTGTTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTC-ACACCAGTAC
* * * *
37446252 GGGAAGACAAGATCTGTTATTTTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTGCTA-TCTTTGATCTACTTCACACCAGTAC
* * * * *
37446297 ATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCAACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC-ACCAGTAC
* * * * **
37446342 GGGAAGGCAAGATCTGGTATCTCTGATCTACTTCATGCCAGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* * * * *
37446386 AAGAAGACAAGATCTGCTTTCTTCGATCTACTTTACCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAGTAC
* * * * * *
37446431 GGGAAGGCAAGATTTGGTATCTTTGATCTACTTTACGCCAGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* * * * * *
37446475 ATGAAGACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTC-ACACCAGTAC
* * * *
37446520 GGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACACCAGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* *
37446564 ATGAAGACAAGATCTG---TC--TG-----CTTCACCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CACCAGTAC
* * * *
37446599 GGGAAGGCAAGATCTGGTATCTCTGATCTACTTCACACCAGTAC
1 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
* *
37446643 ATGAAGACAAGATCTGTTATCTTT
1 AGGAAGACAAGATCTGCTATCTTT
37446667 CAACCTGCTC
Statistics
Matches: 472, Mismatches: 144, Indels: 42
0.72 0.22 0.06
Matches are distributed among these distances:
34 5 0.01
35 21 0.04
38 2 0.00
39 2 0.00
40 2 0.00
41 2 0.00
43 21 0.04
44 204 0.43
45 201 0.43
46 12 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACACCAGTAC
Found at i:37447934 original size:13 final size:14
Alignment explanation
Indices: 37447916--37447964 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
37447906 CCTTAGCCTC
37447916 TCCATTTT-ACTTT
1 TCCATTTTCACTTT
*
37447929 TCCATTTTTCAGTTT
1 TCCA-TTTTCACTTT
37447944 T-CATTTTCACTTT
1 TCCATTTTCACTTT
*
37447957 TTCATTTT
1 TCCATTTT
37447965 TCATCTCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 14 0.45
14 12 0.39
15 5 0.16
ACGTcount: A:0.14, C:0.20, G:0.02, T:0.63
Consensus pattern (14 bp):
TCCATTTTCACTTT
Found at i:37447944 original size:7 final size:7
Alignment explanation
Indices: 37447926--37447968 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
37447916 TCCATTTTAC
*
37447926 TTTTCCA
1 TTTTTCA
37447933 TTTTTCA
1 TTTTTCA
*
37447940 GTTTTCA
1 TTTTTCA
37447947 -TTTTCA
1 TTTTTCA
37447953 CTTTTTCA
1 -TTTTTCA
37447961 TTTTTCA
1 TTTTTCA
37447968 T
1 T
37447969 CTCATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTTTCA
Found at i:37447948 original size:14 final size:15
Alignment explanation
Indices: 37447926--37447967 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37447916 TCCATTTTAC
37447926 TTTTCCATTTTTCA-G
1 TTTT-CATTTTTCACG
*
37447941 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACG
37447955 TTTTCATTTTTCA
1 TTTTCATTTTTCA
37447968 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 10 0.42
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTTCACG
Found at i:37448919 original size:20 final size:20
Alignment explanation
Indices: 37448894--37448934 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
37448884 GGTTTAGCAG
37448894 AAAAAATCCAAAAGAATGAA
1 AAAAAATCCAAAAGAATGAA
**
37448914 AAAAAATCGTAAAGAATGAA
1 AAAAAATCCAAAAGAATGAA
37448934 A
1 A
37448935 GAACATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAAAATCCAAAAGAATGAA
Found at i:37456618 original size:14 final size:15
Alignment explanation
Indices: 37456579--37456615 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
37456569 AATCATATTA
*
37456579 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37456594 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
37456608 A-TATAATT
1 ATTATAATT
37456616 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:37456715 original size:18 final size:17
Alignment explanation
Indices: 37456694--37456728 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37456684 TTATTATTAA
*
37456694 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37456712 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37456729 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37456757 original size:104 final size:104
Alignment explanation
Indices: 37456577--37456766 Score: 335
Period size: 104 Copynumber: 1.8 Consensus size: 104
37456567 TTAATCATAT
*
37456577 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
* *
37456642 CTTATATGAATTTACTCAAATGTAAAATATAATTTAACA
66 CTCATATGAATTTACTAAAATGTAAAATATAATTTAACA
* *
37456681 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
1 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
37456746 CTCATATGAATTTACTAAAAT
66 CTCATATGAATTTACTAAAAT
37456767 CATAATATAT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (104 bp):
TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATT
CTCATATGAATTTACTAAAATGTAAAATATAATTTAACA
Found at i:37456800 original size:104 final size:104
Alignment explanation
Indices: 37456581--37456805 Score: 287
Period size: 104 Copynumber: 2.2 Consensus size: 104
37456571 TCATATTAAT
* * *
37456581 TATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAATATTCTTA
1 TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTCA
* * * *
37456646 TATGAATTTACTCAAATGTAAAATATAATTTAACATAAT
66 TATGAATTTACTAAAATGCAAAATATAATATAACATAAA
* * *
37456685 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTCA
1 TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTCA
* *
37456750 TATGAATTTACTAAAAT-CATAATAT-ATGATAATATATAA
66 TATGAATTTACTAAAATGCAAAATATAAT-ATAACATA-AA
37456789 T-TTACTAAAATA-ATTAT
1 TATTA-TAAAATATATTAT
37456806 CACTAATAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
102 2 0.02
103 19 0.18
104 85 0.80
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (104 bp):
TATTATAAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAAAATTCTCA
TATGAATTTACTAAAATGCAAAATATAATATAACATAAA
Found at i:37457030 original size:91 final size:91
Alignment explanation
Indices: 37456809--37457055 Score: 417
Period size: 89 Copynumber: 2.7 Consensus size: 91
37456799 TAATTATCAC
* *
37456809 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
37456874 AATATATAATTTCATAAAATTCGTGA
66 AATATATAATTTCATAAAATTCGTGA
*
37456900 T--TAAATTTTCTTGTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
37456963 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCGTGA
* *
37456989 TAATAAATTTTCTTATATGAATATATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
37457054 AA
66 AA
37457056 AATGTTCTTA
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
89 84 0.58
91 61 0.42
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCGTGA
Found at i:37457051 original size:17 final size:15
Alignment explanation
Indices: 37457020--37457058 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
37457010 TATATACAAT
37457020 TTAAAATAATTAATA
1 TTAAAATAATTAATA
37457035 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
37457052 ATAAAAT
1 TTAAAAT
37457059 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:37467854 original size:120 final size:120
Alignment explanation
Indices: 37467728--37468017 Score: 476
Period size: 120 Copynumber: 2.4 Consensus size: 120
37467718 AATTATTTTA
* *
37467728 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* * *
37467792 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAG
* *
37467848 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
37467912 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAG
*
37467968 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
37468018 GTTTAAATAT
Statistics
Matches: 158, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 148 0.94
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAG
Found at i:37467910 original size:15 final size:14
Alignment explanation
Indices: 37467858--37467913 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
37467848 AATTTTATTA
37467858 AATTATA-TATTTT
1 AATTATATTATTTT
*
37467871 AATTATAATATATTT
1 AATTATATTAT-TTT
*
37467886 AATAATTATTATTTT
1 AATTA-TATTATTTT
37467901 AATT-TA-TATTTT
1 AATTATATTATTTT
37467913 A
1 A
37467914 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:37467986 original size:61 final size:61
Alignment explanation
Indices: 37467801--37467988 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 61
37467791 TTATAGTATC
* *
37467801 ATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAGAATTTTATTAAATT
* * * * * ** * *
37467862 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATTTTAATTTATATTTTA-CAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATAA-AGA-ATTTTATTA-AAT
*
37467920 C
61 T
37467921 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAGAATTTTATTAAATT
37467982 ATATATT
1 ATATATT
37467989 TTAATTAAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
57 14 0.15
58 8 0.09
59 16 0.17
60 8 0.09
61 23 0.25
62 8 0.09
63 16 0.17
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATAAAGAATTTTATTAAATT
Found at i:37467997 original size:18 final size:17
Alignment explanation
Indices: 37467969--37468003 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37467959 ATTATAAAGA
*
37467969 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37467986 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37468004 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37468003 original size:16 final size:16
Alignment explanation
Indices: 37467956--37468005 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
37467946 TATAAGAATA
*
37467956 TTAATTATAAAGA-ATT
1 TTAATTA-AAATATATT
37467972 TT-ATTAAATTATATATT
1 TTAATTAAA--ATATATT
37467989 TTAATTAAAATATATT
1 TTAATTAAAATATATT
37468005 T
1 T
37468006 AATAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.07
15 4 0.14
16 12 0.41
17 5 0.17
18 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTAATTAAAATATATT
Found at i:37468118 original size:147 final size:149
Alignment explanation
Indices: 37467957--37468231 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
37467947 ATAAGAATAT
*
37467957 TAATTATAAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATAAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
37468022 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
37468085 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
*
37468104 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATAAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
37468169 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
37468232 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (149 bp):
TAATTATAAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:37468144 original size:18 final size:17
Alignment explanation
Indices: 37468116--37468150 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37468106 ATTATTAAGA
*
37468116 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37468133 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37468151 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37468368 original size:44 final size:45
Alignment explanation
Indices: 37468312--37468406 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
37468302 TTACACCTCT
* * * *
37468312 ATTATATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
37468356 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
37468401 ATTACA
1 ATTACA
37468407 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 17 0.40
45 26 0.60
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:37468406 original size:16 final size:16
Alignment explanation
Indices: 37468387--37468438 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
37468377 GATTTGCTAT
* * *
37468387 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
37468403 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37468419 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37468435 TACA
1 TACA
37468439 GCAAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37474353 original size:38 final size:38
Alignment explanation
Indices: 37474311--37474387 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
37474301 AGTTAGGTTT
37474311 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
1 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
*
37474349 TGGGGTGACATTGCTTGATATGGTCACGGGTTGAAGTC
1 TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
37474387 T
1 T
37474388 AAGTAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.31
Consensus pattern (38 bp):
TGGGGTGACATTGCTTGATATGGTCACGGGTCGAAGTC
Found at i:37476252 original size:7 final size:7
Alignment explanation
Indices: 37476201--37476264 Score: 51
Period size: 7 Copynumber: 8.6 Consensus size: 7
37476191 AGTTAAAAAA
37476201 TATATAT
1 TATATAT
37476208 TA-ATAT
1 TATATAT
37476214 TATAATAT
1 TAT-ATAT
*
37476222 TATATCT
1 TATATAT
37476229 TA-ATTAT
1 TATA-TAT
37476236 TAAGTATAT
1 T-A-TATAT
37476245 ATATTATAT
1 -TA-TATAT
37476254 TATATAT
1 TATATAT
37476261 TATA
1 TATA
37476265 ATAAGTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 7 0.15
7 19 0.40
8 10 0.21
9 9 0.19
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:37476261 original size:25 final size:27
Alignment explanation
Indices: 37476201--37476262 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
37476191 AGTTAAAAAA
37476201 TATATATTAATATTATAATATTATATC
1 TATATATTAATATTATAATATTATATC
37476228 T-TAATTATTAAGTA-TAT-ATATTATAT-
1 TAT-A-TATTAA-TATTATAATATTATATC
37476254 TATATATTA
1 TATATATTA
37476263 TAATAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
25 5 0.16
26 3 0.10
27 12 0.39
28 9 0.29
29 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TATATATTAATATTATAATATTATATC
Found at i:37476277 original size:30 final size:32
Alignment explanation
Indices: 37476209--37476277 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
37476199 AATATATATT
* *
37476209 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
37476242 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
37476272 AATATA
1 AATATA
37476278 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:37476960 original size:24 final size:24
Alignment explanation
Indices: 37476933--37476979 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
37476923 ATTGAAATGG
37476933 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
37476957 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
37476980 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:37477257 original size:40 final size:40
Alignment explanation
Indices: 37477137--37477274 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
37477127 ACTTCGAGTC
* * *
37477137 GATGAGACATTGGGTGTCAATTTACTACTTC-AGATTAAT-T
1 GATGAGACACTGGATGTCAATTTATTACTTCGA-ATT-ATCT
* * * ** *
37477177 CGATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAGCT
1 -GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
37477215 GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
1 GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
* * *
37477255 GATGAGGCATTAGATGTCAA
1 GATGAGACACTGGATGTCAA
37477275 ACTGGTGTGT
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
37 18 0.24
38 9 0.12
39 2 0.03
40 30 0.39
41 17 0.22
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (40 bp):
GATGAGACACTGGATGTCAATTTATTACTTCGAATTATCT
Found at i:37479512 original size:28 final size:26
Alignment explanation
Indices: 37479479--37479533 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 26
37479469 ATTGTTTGTG
37479479 TATTAAT-TTTATTTATTTATACTATAAT
1 TATTAATATTTATTT-TTTAT--TATAAT
37479507 TATTAATATTTATTTTTTATTATAAT
1 TATTAATATTTATTTTTTATTATAAT
37479533 T
1 T
37479534 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.27
28 12 0.46
29 7 0.27
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTAATATTTATTTTTTATTATAAT
Found at i:37483278 original size:21 final size:21
Alignment explanation
Indices: 37483252--37483293 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37483242 ACGGGATAGG
*
37483252 TGACGTGACCCGTTAACTAGC
1 TGACGTGACCAGTTAACTAGC
37483273 TGACGTGACCAGTTAACTAGC
1 TGACGTGACCAGTTAACTAGC
37483294 CACGTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
TGACGTGACCAGTTAACTAGC
Found at i:37486215 original size:21 final size:21
Alignment explanation
Indices: 37486191--37486232 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37486181 TTGGGTGGAC
*
37486191 CAGCTCTTTTGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCTGTT
37486212 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCTGTT
37486233 GGTGTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (21 bp):
CAGCTCTTATGAGCTTCTGTT
Found at i:37488428 original size:32 final size:32
Alignment explanation
Indices: 37488370--37488449 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
37488360 TGTCAATCAT
* **
37488370 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAAAATCCAACAAATTTAAAACATAATAAA
* * *
37488402 TT-AAACATCTAACAAATTTAAGACATAATAAT
1 TTCAAA-ATCCAACAAATTTAAAACATAATAAA
37488434 TTCAAAATCCAACAAA
1 TTCAAAATCCAACAAA
37488450 CTAATTGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 2 0.05
32 34 0.87
33 3 0.08
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAAAATCCAACAAATTTAAAACATAATAAA
Found at i:37488625 original size:45 final size:45
Alignment explanation
Indices: 37488558--37488650 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
37488548 CTAATATTTC
* *
37488558 TAGCCATATAATCAGTCTACATAGTTTGTGCAATTTCCTCTCTTT
1 TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
* *
37488603 TAGCCATATAATCAGTCCACATAGTTTGTGTAATTTTCTCTCTCT
1 TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
37488648 TAG
1 TAG
37488651 TAGACCATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (45 bp):
TAGCCATATAATCAGTCCACATAGTTTGTGCAATTTCCTCTCTCT
Found at i:37489947 original size:21 final size:21
Alignment explanation
Indices: 37489922--37489965 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
37489912 CACACAAAAA
*
37489922 ATTACAAATTAAT-ATGCAATT
1 ATTACAAATCAATGA-GCAATT
37489943 ATTACAAATCAATGAGCAATT
1 ATTACAAATCAATGAGCAATT
37489964 AT
1 AT
37489966 AAGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (21 bp):
ATTACAAATCAATGAGCAATT
Found at i:37491376 original size:28 final size:28
Alignment explanation
Indices: 37491315--37491368 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
37491305 GGACAGAGAG
*
37491315 GAAGGAGAATGACTGCTATGAAGAGAAT
1 GAAGGAGAACGACTGCTATGAAGAGAAT
*
37491343 GAAGGAGAACGACTGCTATGATGAGA
1 GAAGGAGAACGACTGCTATGAAGAGA
37491369 GTGGAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.33, T:0.17
Consensus pattern (28 bp):
GAAGGAGAACGACTGCTATGAAGAGAAT
Found at i:37517062 original size:39 final size:39
Alignment explanation
Indices: 37517019--37517098 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
37517009 TGTGTTAGTC
37517019 AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
1 AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
37517058 AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
1 AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
37517097 AA
1 AA
37517099 TCGGGTTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (39 bp):
AAATTATTTGAGTCAATTCGAATAAGTAATTCGAGTTTG
Found at i:37517223 original size:20 final size:20
Alignment explanation
Indices: 37517191--37517273 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
37517181 AACAAAAATA
*
37517191 AAAAAATT-CAAATAATTTT
1 AAAAAATTAAAAATAATTTT
* **
37517210 AAAAAATTCAAAATGTTTTT
1 AAAAAATTAAAAATAATTTT
*
37517230 CAAAAATTAAAAATAATTTT
1 AAAAAATTAAAAATAATTTT
*
37517250 -TAAAATTAAAAAT-ATTTAT
1 AAAAAATTAAAAATAATTT-T
37517269 AAAAA
1 AAAAA
37517274 TTCCAACATT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 4 0.08
19 21 0.40
20 27 0.52
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAAATTAAAAATAATTTT
Found at i:37517235 original size:39 final size:37
Alignment explanation
Indices: 37517192--37517276 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 37
37517182 ACAAAAATAA
* * *
37517192 AAAAATTCAAATAATTTTAAAAAATTCAAAATGTTTTT
1 AAAAATTCAAATAATTTT-AAAAATTAAAAATATTTAT
* *
37517230 CAAAAATTAAAAATAATTTTTAAAATTAAAAATATTTAT
1 -AAAAATT-CAAATAATTTTAAAAATTAAAAATATTTAT
37517269 AAAAATTC
1 AAAAATTC
37517277 CAACATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.18
39 22 0.56
40 10 0.26
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (37 bp):
AAAAATTCAAATAATTTTAAAAATTAAAAATATTTAT
Found at i:37518270 original size:27 final size:28
Alignment explanation
Indices: 37518236--37518304 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
37518226 GGAGGGGTTG
* *
37518236 CCACAGGCGGCACCAG-TGGTGCCAGTG
1 CCACAGGCGGCACCAGATGGTGCCACTA
* * *
37518263 GCAGAGGCGACACC-GATGGTGCCACTA
1 CCACAGGCGGCACCAGATGGTGCCACTA
37518290 CCACAGGCGGCACCA
1 CCACAGGCGGCACCA
37518305 CTCCGCTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.23, C:0.35, G:0.33, T:0.09
Consensus pattern (28 bp):
CCACAGGCGGCACCAGATGGTGCCACTA
Found at i:37518385 original size:34 final size:33
Alignment explanation
Indices: 37518346--37518490 Score: 118
Period size: 34 Copynumber: 4.2 Consensus size: 33
37518336 GTGGGTGGAG
*
37518346 AAGAAAAGGAGAGG-GAAAGGAGAAGAAAGAAAGA
1 AAGAAAAGGAAAGGAG-AAGGAGAA-AAAGAAAGA
* *
37518380 AAGAAAAGGAAAGGAGAAGAAAGAAAAGGAAAGA
1 AAGAAAAGGAAAGGAGAAG-GAGAAAAAGAAAGA
* *
37518414 AATAAAAAGGAAAGGAGAAGAAAGAAAAAGAAAG-
1 AA-GAAAAGGAAAGGAGAAG-GAGAAAAAGAAAGA
*
37518448 GAGAAGAA-GAAGAGG-GAAGGAAGGAAAAAGAAAGA
1 AAGAA-AAGGAA-AGGAGAAGG-A-GAAAAAGAAAGA
*
37518483 AAAAAAAG
1 AAGAAAAG
37518491 AAGGTAAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
33 10 0.11
34 45 0.49
35 37 0.40
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (33 bp):
AAGAAAAGGAAAGGAGAAGGAGAAAAAGAAAGA
Found at i:37518401 original size:20 final size:20
Alignment explanation
Indices: 37518376--37518468 Score: 108
Period size: 20 Copynumber: 5.0 Consensus size: 20
37518366 AGAAGAAAGA
37518376 AAGAAAGAAAAGGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
37518396 AAGAAAGAAAAGG-AA--AG
1 AAGAAAGAAAAGGAAAGGAG
*
37518413 AA-ATA-AAAAGGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
*
37518431 AAGAAAGAAAAAGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
* *
37518451 AAG-AAGAAGAGGGAAGGA
1 AAGAAAGAAAAGGAAAGGA
37518469 AGGAAAAAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.10
16 4 0.06
17 4 0.06
18 4 0.06
19 16 0.26
20 28 0.45
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (20 bp):
AAGAAAGAAAAGGAAAGGAG
Found at i:37518421 original size:15 final size:14
Alignment explanation
Indices: 37518361--37518490 Score: 58
Period size: 15 Copynumber: 9.3 Consensus size: 14
37518351 AAGGAGAGGG
*
37518361 AAAGGAGAAG-AAAG
1 AAAGGA-AAGAAAAA
*
37518375 AAA-GAAAGAAAAGG
1 AAAGGAAAGAAAA-A
*
37518389 AAAGGAGAAGAAAGA
1 AAAGGA-AAGAAAAA
37518404 AAAGGAAAGAAATAA
1 AAAGGAAAGAAA-AA
*
37518419 AAAGGAAAG---GA
1 AAAGGAAAGAAAAA
*
37518430 GAA-GAAAGAAAAA
1 AAAGGAAAGAAAAA
*
37518443 GAAAGGAGAAGAAGAA
1 -AAAGGA-AAGAAAAA
* * * *
37518459 GAGGGAAGGAAGGAA
1 AAAGGAAAGAA-AAA
37518474 AAA-GAAAGAAAAA
1 AAAGGAAAGAAAAA
37518487 AAAG
1 AAAG
37518491 AAGGTAAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
10 5 0.06
11 3 0.03
12 3 0.03
13 11 0.12
14 25 0.28
15 28 0.32
16 13 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (14 bp):
AAAGGAAAGAAAAA
Found at i:37518426 original size:25 final size:24
Alignment explanation
Indices: 37518398--37518460 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
37518388 GAAAGGAGAA
37518398 GAAAGAAAAGGAAAGAAATAA-AAAG
1 GAAAGAAAA-GAAAGAAA-AAGAAAG
*
37518423 GAAAGGAGAAGAAAGAAAAAGAAAG
1 GAAA-GAAAAGAAAGAAAAAGAAAG
37518448 GAGAAGAAGAAGA
1 GA-AAGAA-AAGA
37518461 GGGAAGGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 2 0.06
25 20 0.62
26 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (24 bp):
GAAAGAAAAGAAAGAAAAAGAAAG
Found at i:37518429 original size:35 final size:34
Alignment explanation
Indices: 37518366--37518490 Score: 146
Period size: 34 Copynumber: 3.6 Consensus size: 34
37518356 GAGGGAAAGG
*
37518366 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAAGAA
1 AGAA-AAAGAAAGAAAAAAAAGGAAAGGAGAAGAA
*
37518401 AGAAAAGGAAAGAAATAAAAAGGAAAGGAGAAGAA
1 AGAAAAAGAAAGAAA-AAAAAGGAAAGGAGAAGAA
* * *
37518436 AGAAAAAGAAAGGAGAAGAA-GAAGAGG-GAAGGAA
1 AGAAAAAGAAAGAAAAAAAAGGAA-AGGAGAA-GAA
*
37518470 GGAAAAAGAAAGAAAAAAAAG
1 AGAAAAAGAAAGAAAAAAAAG
37518491 AAGGTAAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
33 6 0.08
34 36 0.47
35 34 0.45
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (34 bp):
AGAAAAAGAAAGAAAAAAAAGGAAAGGAGAAGAA
Found at i:37518476 original size:55 final size:54
Alignment explanation
Indices: 37518368--37518481 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 54
37518358 GGGAAAGGAG
* *
37518368 AAGAAA-GA-AAGAAAGAAAAGGAAAGGAGAAGAAAGAAAAGGAAAGAAATAAA
1 AAGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAAGGAAAGAAAGAAA
* * *
37518420 AAGGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAG-AAGAAGAGGGAAGGAAGGAAA
1 AA-GAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAA-AAGGAAAGAAAGAAA
37518475 AAGAAAG
1 AAGAAAG
37518482 AAAAAAAAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
52 2 0.04
53 4 0.08
54 12 0.23
55 35 0.66
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (54 bp):
AAGAAAGGAGAAGAAAGAAAAAGAAAGGAGAAGAAAGAAAAGGAAAGAAAGAAA
Found at i:37518490 original size:9 final size:10
Alignment explanation
Indices: 37518375--37518492 Score: 60
Period size: 10 Copynumber: 11.0 Consensus size: 10
37518365 GAGAAGAAAG
37518375 AAAGAAAGAA
1 AAAGAAAGAA
* *
37518385 AAGGAAAGGA
1 AAAGAAAGAA
*
37518395 GAAGAAAGAA
1 AAAGAAAGAA
*
37518405 AAGGAAAGAA
1 AAAGAAAGAA
37518415 ATAA-AAAGGAAA
1 A-AAGAAA-G-AA
37518427 GGAGAAGAAAGAA
1 --A-AAGAAAGAA
37518440 AAAGAAAGGAGA
1 AAAGAAA-GA-A
**
37518452 AGAAGAAGAGGG
1 A-AAGAA-AGAA
* *
37518464 AAGGAAGGAA
1 AAAGAAAGAA
37518474 AAAGAAAGAA
1 AAAGAAAGAA
37518484 AAA-AAAGAA
1 AAAGAAAGAA
37518493 GGTAAATTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
9 6 0.07
10 45 0.56
11 9 0.11
12 5 0.06
13 8 0.10
14 5 0.06
15 3 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:37519330 original size:26 final size:25
Alignment explanation
Indices: 37519298--37519354 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
37519288 AGAATTAATT
*
37519298 AATAAATTTCAAAC-ATAATATACTAA
1 AATAAA-TT-AAACAATAAAATACTAA
37519324 AATAAATTAAACTAATAAAATACTAA
1 AATAAATTAAAC-AATAAAATACTAA
37519350 AATAA
1 AATAA
37519355 TATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 2 0.07
26 22 0.79
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAAATTAAACAATAAAATACTAA
Found at i:37519508 original size:26 final size:25
Alignment explanation
Indices: 37519460--37519511 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
37519450 AATTTATTTA
** *
37519460 AATTTAAAATATAATGTACTAAAAT
1 AATTTAAAATATAAAATAATAAAAT
37519485 AATTTAAAATAATAAAATAATAAAAT
1 AATTTAAAAT-ATAAAATAATAAAAT
37519511 A
1 A
37519512 GTATGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AATTTAAAATATAAAATAATAAAAT
Found at i:37519674 original size:153 final size:154
Alignment explanation
Indices: 37518826--37519897 Score: 1195
Period size: 153 Copynumber: 7.0 Consensus size: 154
37518816 TTGTATATTT
* *
37518826 AAAAAACACACTAAATTAATAAAGTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
1 AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-T
* * * *
37518891 A-GAAAAT-ATGATA-TTTTCTAAAGTAATAAAATGCAGAGAAAAAAATACGAACAAATGGTCGA
65 ACGAAAATAAT-ATATTTTTTTAAAGTAATAAAATTC-GAGAAAAAAATACGAACAAAGGGCCGA
* *
37518953 AGTAAGGGTTTTTTACTAA--ATTTAA
128 AATAAGGGTTTTTTACTAATTTTTTAA
* * * *
37518978 AAAAAA-AGAATTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATA
1 AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATA
* * *
37519042 CGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGAAAAAAATATGAGCAAAGGGCCGAA
66 CGAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAA
* * * **
37519107 ATAAGGGTTTTTT-TTAAATTTATCT
129 ATAAGGGTTTTTTACTAATTTTTTAA
* * *
37519132 AAAAAACACACTAAATTAATAAATTTAAAACATAATGTACTGAAATAATGTAAAATAATAAAATA
1 AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATA
* * * * *
37519197 AGAAAATAGTATACTTTTTTAAAGTAATAAAATTCGATAAAAAAATACGAACAAATGGCCGAAAT
66 CGAAAATAATATATTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAAAT
*
37519262 AAGGGTTTTTTACTAA--ATTT--
131 AAGGGTTTTTTACTAATTTTTTAA
* * * *
37519282 AAAAAA-AGAATTAATTAATAAATTTCAAACATAATATACTAAAATAAAT-TAAACTAATAAAAT
1 AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAAT-AATGTAAAATAATAAAAT
* * *
37519345 ACTAAAATAATATATTTTTATTGAAAGTAATAAAATTTGAGAAAAAAATACGACCAAAGGGCCGA
65 ACGAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
* **
37519410 AATAAGGATTTTTTAAAAAATTTATTTAA
128 AATAAGGGTTTTTT-ACTAATTT-TTTAA
* * * * *
37519439 AAAACAC-G-CTAAATTTATTTAAATTTAAAATATAATGTACTAAAATAATTTAAAATAATAAAA
1 AAAAAACAGACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
** * * *
37519502 TAATAAAATAGTAT-GTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGAA
64 TACGAAAATAATATATTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAA
*
37519566 ATAAGGGCTTTTTACTAATTTTTTAA
129 ATAAGGGTTTTTTACTAATTTTTTAA
* * **
37519592 AAAAAACAGACTTAATTAATACATTTCAAACATAATGTACTAAAATAAAATAAAATAATAAAATA
1 AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATA
* * * *
37519657 CGAAAATAATATATTTTTATTGAAAGTAATAAAAATCG-G-TAAAAATACACAAGCAAAGGGGCG
66 CGAAAATAATATATTTTT-TT-AAAGTAATAAAATTCGAGAAAAAAATAC-GAA-CAAAGGGCCG
* *
37519720 AAATAAGAGTTTTTTTA-AAATTTATTT-A
127 AAATAAG-GGTTTTTTACTAATTT-TTTAA
*
37519748 AAAAAAC--ACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 AAAAAACAGACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
* * * *
37519811 TTA-GAAAATAGTATA-TTTTTCAAAGTAATAAAATTCG-GGAAAAAATACGAATAAAGGGCCGA
64 -TACGAAAATAATATATTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGA
37519873 AATAAGGGTTTTTTACTAATTTTTT
128 AATAAGGGTTTTTTACTAATTTTTT
37519898 TTGAAGTTGC
Statistics
Matches: 776, Mismatches: 108, Indels: 73
0.81 0.11 0.08
Matches are distributed among these distances:
149 61 0.08
150 13 0.02
151 121 0.16
152 40 0.05
153 166 0.21
154 63 0.08
155 136 0.18
156 100 0.13
157 28 0.04
158 48 0.06
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (154 bp):
AAAAAACAGACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATA
CGAAAATAATATATTTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCGAAAT
AAGGGTTTTTTACTAATTTTTTAA
Found at i:37525008 original size:41 final size:39
Alignment explanation
Indices: 37524931--37525141 Score: 141
Period size: 39 Copynumber: 5.4 Consensus size: 39
37524921 ACTAGCACAA
*
37524931 TAACAATAATAA-TA-GTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATTAGGTTT-TACTAAAAATAATACTAAC
37524969 TAACAATAATAATTAGGGTTTTACTAAAAAT-A-A-TAAC
1 TAACAATAATAATTA-GGTTTTACTAAAAATAATACTAAC
* * *** * *
37525006 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATTAGGT-TTTACTAAAAATAATACTAAC
***
37525045 TAA-AATAATAATTAGGGTTTTTACTAATCCTAATAACTAACC
1 TAACAATAATAATTA-GG-TTTTACTAAAAATAAT-ACTAA-C
* * * *
37525087 ATAATAATAAT-ATTAGTTTTTTACTAACAATAATACTAAG
1 -TAACAATAATAATTAG-GTTTTACTAAAAATAATACTAAC
*
37525127 TAACAATAATTATTA
1 TAACAATAATAATTA
37525142 ATAACTAAAC
Statistics
Matches: 135, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
35 2 0.01
36 11 0.08
37 15 0.11
38 20 0.15
39 22 0.16
40 22 0.16
41 15 0.11
42 15 0.11
43 7 0.05
44 6 0.04
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (39 bp):
TAACAATAATAATTAGGTTTTACTAAAAATAATACTAAC
Found at i:37525048 original size:23 final size:23
Alignment explanation
Indices: 37525003--37525049 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
37524993 TAAAAATAAT
*
37525003 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
37525026 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
37525049 A
1 A
37525050 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:37525250 original size:22 final size:21
Alignment explanation
Indices: 37525225--37525269 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
37525215 AACTAACAAT
* *
37525225 AATAATTAAACTAACAACAAAA
1 AATAATAAAAATAA-AACAAAA
*
37525247 AATAATAAAAATAATACAAAA
1 AATAATAAAAATAAAACAAAA
37525268 AA
1 AA
37525270 ACATAATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (21 bp):
AATAATAAAAATAAAACAAAA
Found at i:37525270 original size:24 final size:26
Alignment explanation
Indices: 37525238--37525287 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
37525228 AATTAAACTA
*
37525238 ACAACAAAAAATAATAA-AA-ATAAT
1 ACAAAAAAAAATAATAACAAGATAAT
*
37525262 ACAAAAAAACATAATAACAAGATAAT
1 ACAAAAAAAAATAATAACAAGATAAT
37525288 CCATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (26 bp):
ACAAAAAAAAATAATAACAAGATAAT
Found at i:37525898 original size:31 final size:31
Alignment explanation
Indices: 37525863--37525922 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
37525853 ATTTAGTCCA
*
37525863 TATTTTTCA-ATTTTATAATTCTTAATCTTTG
1 TATTTTTCAGATTTTAAAATT-TTAATCTTTG
*
37525894 TATTTTTCAGATTTTAAAATTTTAGTCTT
1 TATTTTTCAGATTTTAAAATTTTAATCTT
37525923 GACACAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (31 bp):
TATTTTTCAGATTTTAAAATTTTAATCTTTG
Found at i:37526480 original size:17 final size:18
Alignment explanation
Indices: 37526454--37526487 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37526444 AATTAATTAA
*
37526454 TTTTATAAAATTTAAAAT
1 TTTTATAAAAATTAAAAT
37526472 TTTTA-AAAAATTAAAA
1 TTTTATAAAAATTAAAA
37526488 AAAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTATAAAAATTAAAAT
Found at i:37526488 original size:18 final size:18
Alignment explanation
Indices: 37526454--37526488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37526444 AATTAATTAA
* *
37526454 TTTTATAAAATTTAAAAT
1 TTTTAAAAAATTAAAAAT
37526472 TTTTAAAAAATTAAAAA
1 TTTTAAAAAATTAAAAA
37526489 AAATTAAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTTAAAAAATTAAAAAT
Found at i:37526567 original size:29 final size:29
Alignment explanation
Indices: 37526485--37526568 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
37526475 TAAAAAATTA
*
37526485 AAAAAAAT-TAAAAGTATA-ATATATATTTT
1 AAAAAAATATAAAA-TATATATTTA-ATTTT
*
37526514 -AAAAAATATAAAAATATATTTTTTAATTTT
1 AAAAAAATAT-AAAATATA-TATTTAATTTT
37526544 AAAAAAATATAAAATATATATTTAA
1 AAAAAAATATAAAATATATATTTAA
37526569 AAAATAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 7 0.15
29 11 0.23
30 17 0.36
31 12 0.26
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAAAAATATAAAATATATATTTAATTTT
Found at i:37527182 original size:23 final size:24
Alignment explanation
Indices: 37527144--37527191 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
37527134 TTCTTGATTG
* *
37527144 AATTAAAACAATTATATAAAAATA
1 AATTAAAACAAATATAGAAAAATA
*
37527168 AATT-AAACAAATATAGAAATATA
1 AATTAAAACAAATATAGAAAAATA
37527191 A
1 A
37527192 TCTTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (24 bp):
AATTAAAACAAATATAGAAAAATA
Found at i:37530417 original size:21 final size:21
Alignment explanation
Indices: 37530391--37530432 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37530381 ATTAATATAA
37530391 TAATAC-TTGATTATATTATTT
1 TAATACTTTGATTA-ATTATTT
*
37530412 TAATACTTTTATTAATTATTT
1 TAATACTTTGATTAATTATTT
37530433 ATGACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATACTTTGATTAATTATTT
Found at i:37532006 original size:21 final size:21
Alignment explanation
Indices: 37531982--37532024 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37531972 TTTGAAAAGT
*
37531982 ACTAAGTCTCGTTTGAACCTA
1 ACTAAGTCCCGTTTGAACCTA
37532003 ACTAAGTCCCGTTTGAACCTA
1 ACTAAGTCCCGTTTGAACCTA
37532024 A
1 A
37532025 GAAATTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (21 bp):
ACTAAGTCCCGTTTGAACCTA
Found at i:37532167 original size:25 final size:25
Alignment explanation
Indices: 37532105--37532167 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
37532095 GACACACCAC
* *
37532105 AGCTCGCAAGAGCATCCCATTATTT
1 AGCTCGAAAGAGCATCCCATTATAT
** *
37532130 AGCTCTTATGAGCATCCCATTATAT
1 AGCTCGAAAGAGCATCCCATTATAT
*
37532155 GGCTCGAAAGAGC
1 AGCTCGAAAGAGC
37532168 TTCCTGATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
AGCTCGAAAGAGCATCCCATTATAT
Found at i:37534068 original size:42 final size:42
Alignment explanation
Indices: 37534015--37534128 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
37534005 TGATAAATAG
*
37534015 AAACCCGTAAGGGTTGAACAAAAGCTCATAAGAGCTGAAAGA
1 AAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAAGA
* * * * * * *
37534057 AAATCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTTAACGG
1 AAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAAGA
* *
37534099 AAACCCATTAGAGTTGAACGAAAA-CTCATA
1 AAACCCATAAGGGTTGAAC-AAAAGCTCATA
37534129 TGAGTTAAAC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 54 0.95
43 3 0.05
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
AAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAAGA
Found at i:37534144 original size:21 final size:21
Alignment explanation
Indices: 37534069--37534164 Score: 56
Period size: 21 Copynumber: 4.6 Consensus size: 21
37534059 ATCCATAAGG
* * *
37534069 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAACTCATATGA
* *
37534090 GCTT-AACGGAAACCCAT-TAGA
1 G-TTAAACAGAAACTCATAT-GA
*
37534111 GTTGAAC-GAAAACTCATATGA
1 GTTAAACAG-AAACTCATATGA
*
37534132 GTTAAACAGAAACTCGTGATG-
1 GTTAAACAGAAACTCAT-ATGA
*
37534153 GCTAAACAGAAA
1 GTTAAACAGAAA
37534165 GTAAACACTA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
20 3 0.05
21 49 0.83
22 7 0.12
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.19
Consensus pattern (21 bp):
GTTAAACAGAAACTCATATGA
Found at i:37543146 original size:15 final size:16
Alignment explanation
Indices: 37543117--37543146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37543107 CAAACATGCT
37543117 TTAACACATTATCAAA
1 TTAACACATTATCAAA
37543133 TTAACACA-TATCAA
1 TTAACACATTATCAA
37543147 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:37544331 original size:27 final size:27
Alignment explanation
Indices: 37544273--37544342 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
37544263 GTGTATGTAC
*
37544273 GCTCACACGAGCTATGAAAATGGGCCT
1 GCTCACACGAGCTATGAAAATGGGCAT
* * * * *
37544300 ACTCACATGAGCTGTGAATATGGGTAT
1 GCTCACACGAGCTATGAAAATGGGCAT
*
37544327 GCTCACACGTGCTATG
1 GCTCACACGAGCTATG
37544343 GGTTGAAACG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (27 bp):
GCTCACACGAGCTATGAAAATGGGCAT
Found at i:37545339 original size:20 final size:21
Alignment explanation
Indices: 37545314--37545352 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37545304 GAGATGATAT
*
37545314 CTTTTACTTTAA-TTATTTAC
1 CTTTTAATTTAATTTATTTAC
37545334 CTTTTAATTTAATTTATTT
1 CTTTTAATTTAATTTATTT
37545353 TTAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (21 bp):
CTTTTAATTTAATTTATTTAC
Found at i:37545360 original size:15 final size:16
Alignment explanation
Indices: 37545321--37545361 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
37545311 TATCTTTTAC
37545321 TTTAATT-ATTTACCT
1 TTTAATTAATTTACCT
*
37545336 TTTAATTTAATTTA-TT
1 TTTAA-TTAATTTACCT
37545352 TTTAATTAAT
1 TTTAATTAAT
37545362 AAAACATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 8 0.35
17 5 0.22
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATTAATTTACCT
Found at i:37548783 original size:101 final size:102
Alignment explanation
Indices: 37548667--37548850 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
37548657 AAAGTGATGG
* *
37548667 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACATGTGTAG
37548729 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
* *
37548768 TCACGTGTGTAGTACTATGTACAGGCTCCTACGTGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
*
37548833 CTATGTGTAGGCTACTAT
66 CTATGTGCAGGCTACTAT
37548851 GTGAACCGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
Found at i:37548828 original size:51 final size:51
Alignment explanation
Indices: 37548659--37548849 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 51
37548649 TGAAAGTGAA
* *
37548659 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGA-AT
* *** *
37548709 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
* * * * *
37548760 AGCT--TCGATCACGTGTGTAGTACTATGTACAGGCTCCTACGTGTATCGAAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGAAT
*
37548811 AGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
37548850 TGTGAACCGG
Statistics
Matches: 111, Mismatches: 23, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 68 0.61
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGAAT
Found at i:37548927 original size:46 final size:43
Alignment explanation
Indices: 37548855--37548953 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
37548845 TACTATGTGA
*
37548855 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
37548898 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
37548944 ACCGTGTATC
1 ACCG-GTATC
37548954 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:37549123 original size:37 final size:38
Alignment explanation
Indices: 37549054--37549126 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
37549044 ATGTATGGAA
* **
37549054 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
37549092 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
37549127 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:37551862 original size:16 final size:16
Alignment explanation
Indices: 37551841--37551872 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37551831 GTTTTGTTGC
*
37551841 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37551857 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
37551873 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37552176 original size:51 final size:50
Alignment explanation
Indices: 37552100--37552240 Score: 203
Period size: 50 Copynumber: 2.8 Consensus size: 50
37552090 CCAGTTCACA
* *
37552100 TAGTAGCCTGCACGTAGTAATACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT-TCCGATACACG
* * *
37552151 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTTCCGATACACG
*
37552201 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTT
37552241 AACTTTCACA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
49 4 0.05
50 42 0.52
51 31 0.38
52 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTTCCGATACACG
Done.