Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 105 of 199
Found at i:35233411 original size:19 final size:19
Alignment explanation
Indices: 35233387--35233470 Score: 152
Period size: 19 Copynumber: 4.5 Consensus size: 19
35233377 CCCCTTCTCT
35233387 TTTTTTTTTGTTTCTCTTC
1 TTTTTTTTTGTTTCTCTTC
35233406 -TTTTTTTTGTTTCTCTTC
1 TTTTTTTTTGTTTCTCTTC
*
35233424 TTTTTTTTTGTTTCTTTTC
1 TTTTTTTTTGTTTCTCTTC
35233443 TTTTTTTTTGTTTCTCTTC
1 TTTTTTTTTGTTTCTCTTC
35233462 TTTTTTTTT
1 TTTTTTTTT
35233471 TGGTCCGATT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
18 18 0.29
19 44 0.71
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTGTTTCTCTTC
Found at i:35235196 original size:22 final size:21
Alignment explanation
Indices: 35235168--35235243 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
35235158 GATTATTGTT
35235168 ATTATTATTAAATTTTAATAA
1 ATTATTATTAAATTTTAATAA
* *
35235189 GATTATTATTAAA-TATAATTA
1 -ATTATTATTAAATTTTAATAA
* * *
35235210 ATT-TAATTATATTTTAACATA
1 ATTATTATTAAATTTTAATA-A
35235231 ATTATTATTAAAT
1 ATTATTATTAAAT
35235244 ATAATTTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 6 0.14
20 7 0.17
21 10 0.24
22 19 0.45
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
ATTATTATTAAATTTTAATAA
Found at i:35235209 original size:16 final size:16
Alignment explanation
Indices: 35235190--35235249 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 16
35235180 TTTTAATAAG
35235190 ATTATTATTAAATATA
1 ATTATTATTAAATATA
*
35235206 ATTA--ATTTAAT-T-
1 ATTATTATTAAATATA
*
35235218 A-TATT-TT-AACATA
1 ATTATTATTAAATATA
35235231 ATTATTATTAAATATA
1 ATTATTATTAAATATA
35235247 ATT
1 ATT
35235250 TAATAACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
11 4 0.12
12 4 0.12
13 2 0.06
14 10 0.29
15 2 0.06
16 12 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTATTAAATATA
Found at i:35235235 original size:41 final size:38
Alignment explanation
Indices: 35235190--35235292 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 38
35235180 TTTTAATAAG
* *
35235190 ATTATTATTAAATATAATTAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTAA-TTAA-CAT-TCTTAACATA
*
35235231 ATTATTATTAAATATAATTTAA-TAACATTCTTAATATA
1 ATTATTATTAAATATAA-TTAATTAACATTCTTAACATA
35235269 ATTATTATTAAAATATGAATTAAT
1 ATTATTATT-AAATAT-AATTAAT
35235293 AAAAATTATA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 17 0.31
39 12 0.22
40 5 0.09
41 17 0.31
42 4 0.07
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTATTATTAAATATAATTAATTAACATTCTTAACATA
Found at i:35235270 original size:38 final size:39
Alignment explanation
Indices: 35235182--35235294 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 39
35235172 TTATTAAATT
* *
35235182 TTAATA-AGATTATTATTAAATATAATTAATTTAATTATATT
1 TTAATATA-ATTATTATTAAATATAATTAA--TAATCATATC
*
35235223 TTAACATAATTATTATTAAATATAATTTAATAA-CAT-TC
1 TTAATATAATTATTATTAAATATAA-TTAATAATCATATC
35235261 TTAATATAATTATTATTAAAATATGAATTAATAA
1 TTAATATAATTATTATT-AAATAT-AATTAATAA
35235295 AAATTATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
38 17 0.27
39 15 0.23
40 5 0.08
41 22 0.34
42 5 0.08
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (39 bp):
TTAATATAATTATTATTAAATATAATTAATAATCATATC
Found at i:35235311 original size:41 final size:38
Alignment explanation
Indices: 35235190--35235325 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 38
35235180 TTTTAATAAG
**
35235190 ATTATTATTAAATATAATTAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTAATAAAATTATA---TAACATA
* * *
35235231 ATTATTATTAAATATAATTTAATAACATTCT-TAATATA
1 ATTATTATTAAATATAA-TTAATAAAATTATATAACATA
35235269 ATTATTATTAAAATATGAATTAATAAAAATTATAATAA-ATA
1 ATTATTATT-AAATAT-AATTAAT-AAAATTAT-ATAACATA
*
35235310 A-TATTA-TAAAAATAAT
1 ATTATTATTAAATATAAT
35235326 ATATAATCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
37 3 0.04
38 20 0.25
39 12 0.15
40 13 0.16
41 21 0.26
42 12 0.15
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (38 bp):
ATTATTATTAAATATAATTAATAAAATTATATAACATA
Found at i:35238122 original size:26 final size:27
Alignment explanation
Indices: 35238093--35238147 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
35238083 CTTTAACATG
*
35238093 ATTTTTGGT-TGTTTA-ATTAAAGGTTA
1 ATTTTTGGTAT-TTTATAATAAAGGTTA
35238119 A-TTTTGGTATTTTATAATAAAGGTTA
1 ATTTTTGGTATTTTATAATAAAGGTTA
35238145 ATT
1 ATT
35238148 AATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTTTTGGTATTTTATAATAAAGGTTA
Found at i:35239098 original size:23 final size:25
Alignment explanation
Indices: 35239043--35239128 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 25
35239033 ACACAGCTTG
*
35239043 TATGAGCTTACCGATATATCAGCTC-T
1 TATGAGCTTACCG-T-TATCAGCTCGA
35239069 TATGAGCTTACCGTT-TCAGCTCGA
1 TATGAGCTTACCGTTATCAGCTCGA
*
35239093 TA-GAGCTTGCCGTTCATCAGCTCGGA
1 TATGAGCTTACCGTT-ATCAGCTC-GA
35239119 -ATGAGCTTAC
1 TATGAGCTTAC
35239129 TGATCATGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 18 0.35
24 3 0.06
25 9 0.17
26 22 0.42
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
TATGAGCTTACCGTTATCAGCTCGA
Found at i:35239328 original size:20 final size:20
Alignment explanation
Indices: 35239290--35239328 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35239280 TATGGATGGA
* * *
35239290 TTACTGTTGATATGTATAAG
1 TTACTATTGATAAGGATAAG
35239310 TTACTATTGATAAGGATAA
1 TTACTATTGATAAGGATAA
35239329 ATTTCTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
TTACTATTGATAAGGATAAG
Found at i:35245476 original size:22 final size:22
Alignment explanation
Indices: 35245441--35245553 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
35245431 CTCTGATATG
* *
35245441 TAGCACGTCAGTGCTCTCTGTT
1 TAGCACATCTGTGCTCTCTGTT
35245463 TAGCACATCTGTGCTCTCTGATT
1 TAGCACATCTGTGCTCTCTG-TT
* *
35245486 GCTAGCACGTCAGTGCTCTCTGTT
1 --TAGCACATCTGTGCTCTCTGTT
* *
35245510 TAGCACATATGTGCTCTCTGTA
1 TAGCACATCTGTGCTCTCTGTT
* * *
35245532 TAGCACTTCTATACTCTCTGTT
1 TAGCACATCTGTGCTCTCTGTT
35245554 CATTAGTGCA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 53 0.71
23 2 0.03
24 2 0.03
25 18 0.24
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (22 bp):
TAGCACATCTGTGCTCTCTGTT
Found at i:35245497 original size:47 final size:47
Alignment explanation
Indices: 35245428--35245529 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
35245418 ACTCTAGCGC
*
35245428 GCTCTCTGATATGTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGATATGTAGCACGTCAGTGCTCTCTGTTTAGCACATATGT
35245475 GCTCTCTGAT-TGCTAGCACGTCAGTGCTCTCTGTTTAGCACATATGT
1 GCTCTCTGATATG-TAGCACGTCAGTGCTCTCTGTTTAGCACATATGT
35245522 GCTCTCTG
1 GCTCTCTG
35245530 TATAGCACTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
46 2 0.04
47 51 0.96
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (47 bp):
GCTCTCTGATATGTAGCACGTCAGTGCTCTCTGTTTAGCACATATGT
Found at i:35245501 original size:25 final size:24
Alignment explanation
Indices: 35245428--35245529 Score: 115
Period size: 22 Copynumber: 4.3 Consensus size: 24
35245418 ACTCTAGCGC
35245428 GCTCTCTGATATGTAGCACGTCAGT
1 GCTCTCTGAT-TGTAGCACGTCAGT
* *
35245453 GCTCTCTG-TT-TAGCACATCTGT
1 GCTCTCTGATTGTAGCACGTCAGT
35245475 GCTCTCTGATTGCTAGCACGTCAGT
1 GCTCTCTGATTG-TAGCACGTCAGT
*
35245500 GCTCTCTG-TT-TAGCACAT-ATGT
1 GCTCTCTGATTGTAGCACGTCA-GT
35245522 GCTCTCTG
1 GCTCTCTG
35245530 TATAGCACTT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
23 3 0.04
24 3 0.04
25 26 0.38
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (24 bp):
GCTCTCTGATTGTAGCACGTCAGT
Found at i:35246872 original size:159 final size:161
Alignment explanation
Indices: 35246572--35246890 Score: 480
Period size: 159 Copynumber: 2.0 Consensus size: 161
35246562 CACTATCAAT
* * *
35246572 AAACACAAAAATAAATTTTATACAGTTTGTCAAGAGTTAATAACAACAAAGTGAATAGAAGGAGA
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAA-GAGA
*
35246637 CCAAACAAAACCCGTTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
65 CCAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
*
35246702 GAAAAATAAAATAAAAAAGCATACATTGAAGG
130 GAAAAAGAAAATAAAAAAGCATACATTGAAGG
*
35246734 AAACACAAAAATAAATCTTATACAGTTTGTCAATAGTTAAGAACAACAAAGTAAATAG-A-AGAC
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
* * *** *
35246797 CAAACAAAACTCATTTTTAGATGGAGACCAAAGCCATTTACCTCTCACGGGGAAAGTAGAAAAGG
66 CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
* * *
35246862 GAAAAGAAAATAGAAAAGCATACCTTGAA
131 AAAAAGAAAATAAAAAAGCATACATTGAA
35246891 AGAACAAAGA
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
159 87 0.61
161 1 0.01
162 54 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (161 bp):
AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
AAAAAGAAAATAAAAAAGCATACATTGAAGG
Found at i:35250049 original size:10 final size:11
Alignment explanation
Indices: 35250022--35250048 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35250012 CTATAATTTA
35250022 ATTTTTATTGG
1 ATTTTTATTGG
35250033 ATTTTTATTGG
1 ATTTTTATTGG
35250044 ATTTT
1 ATTTT
35250049 AGTTTCACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (11 bp):
ATTTTTATTGG
Found at i:35250319 original size:13 final size:13
Alignment explanation
Indices: 35250301--35250328 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35250291 GTATGATGTT
35250301 AACAAATCATTTC
1 AACAAATCATTTC
35250314 AACAAATCATTTC
1 AACAAATCATTTC
35250327 AA
1 AA
35250329 AAAAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AACAAATCATTTC
Found at i:35250367 original size:83 final size:82
Alignment explanation
Indices: 35250228--35250431 Score: 318
Period size: 83 Copynumber: 2.5 Consensus size: 82
35250218 GGTATACATC
35250228 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
* *
35250293 ATGATGTTAACAAATCA
66 AAGATGTTAACAAACCA
* * **
35250310 TTTCAACAAATCATTTCAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAG
1 TTTCAACAAATCATTTC-AAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAG
*
35250375 TAAGATGTTAACTAACCA
65 TAAGATGTTAACAAACCA
* *
35250393 TTTTAACGAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
35250432 ACCATCTCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 39 0.35
83 73 0.65
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.28
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
AAGATGTTAACAAACCA
Found at i:35250974 original size:157 final size:155
Alignment explanation
Indices: 35250509--35250962 Score: 526
Period size: 157 Copynumber: 2.9 Consensus size: 155
35250499 ATGCCATCCT
* * * * *
35250509 TTTTTGGCTTCTAGTTTTCATACTCGTACCAGATTGAGAAC-AAAAATCAGAACCCCAAATTAGA
1 TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAATCAGAA-CCCAAATTAGA
* * * * *
35250573 TTTAAATAATTTGGAATTGATTAA-AAAAAGTGTTTACAATATACTTGTGATCCAGATGTGTTAG
65 TTTAAATATTTTGGAATTGA-CAATAAAAAGT-TTTACGATATACCTGTGATCCAGTTGTGTTAG
* **
35250637 GTTGAATGCATGGTGTTCTGTTGTTCTT
128 GTTGAATGCATGGTGTTATGTTGTTCAG
* *
35250665 TTTTTGGCTTCTAGTTCGT-GTACTCATACCAAACTAAGACCAAAAAAATCAGAAACCCAAATTA
1 TTTTTGGCTTCTAGTTC-TCGTACTCGTACCAGACTAAGACC-AAAAAATCAG-AACCCAAATTA
* * * *
35250729 GATTAAAATATTTTTGAATTGACATTAAAATAGTTTATACG--ATACCTGTGATCCAGTTGTATT
63 GATTTAAATATTTTGGAATTGACAATAAAA-AGTTT-TACGATATACCTGTGATCCAGTTGTGTT
35250792 AGGTTGAATGCATGGTGTTATGTTGTT-AG
126 AGGTTGAATGCATGGTGTTATGTTGTTCAG
* * *
35250821 TTTTTGGGTTCTAATTCTCGTACTCGTACTAGACTAAGACCAAAAAATTCAGAACCCAAATTAGA
1 TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAA-TCAGAACCCAAATTAGA
* * *
35250886 TTTTAATATTTTGGAATTGACAATGAAAAAGTATTTACGATATACCTGTGTTCCTA-TTTTGTTA
65 TTTAAATATTTTGGAATTGACAAT-AAAAAGT-TTTACGATATACCTGTGATCC-AGTTGTGTTA
35250950 GGTTGAATGCATG
127 GGTTGAATGCATG
35250963 ATATTTTGTT
Statistics
Matches: 253, Mismatches: 31, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
155 47 0.19
156 76 0.30
157 78 0.31
158 44 0.17
159 8 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (155 bp):
TTTTTGGCTTCTAGTTCTCGTACTCGTACCAGACTAAGACCAAAAAATCAGAACCCAAATTAGAT
TTAAATATTTTGGAATTGACAATAAAAAGTTTTACGATATACCTGTGATCCAGTTGTGTTAGGTT
GAATGCATGGTGTTATGTTGTTCAG
Found at i:35253261 original size:51 final size:49
Alignment explanation
Indices: 35253203--35253317 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 49
35253193 CCTAAACCTT
35253203 CAACAACCTCACCACCCTCTCCCTCACCCTCACCCTCACCACATTTACTAC
1 CAACAACCTCACCA-CCTC-CCCTCACCCTCACCCTCACCACATTTACTAC
*
35253254 CAACAACCTCACCA----CCCTCACCCTCACCCTCACTACATTTACTAC
1 CAACAACCTCACCACCTCCCCTCACCCTCACCCTCACCACATTTACTAC
35253299 CAACAACCTCACCATCCTC
1 CAACAACCTCACCA-CCTC
35253318 GCCACCTTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
45 44 0.76
51 14 0.24
ACGTcount: A:0.28, C:0.53, G:0.00, T:0.19
Consensus pattern (49 bp):
CAACAACCTCACCACCTCCCCTCACCCTCACCCTCACCACATTTACTAC
Found at i:35253263 original size:24 final size:24
Alignment explanation
Indices: 35253236--35253312 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
35253226 TCACCCTCAC
35253236 CCTCACCACATTTACTACCAACAA
1 CCTCACCACATTTACTACCAACAA
** ** *
35253260 CCTCACCAC-CCT-C-ACCCTCAC
1 CCTCACCACATTTACTACCAACAA
*
35253281 CCTCACTACATTTACTACCAACAA
1 CCTCACCACATTTACTACCAACAA
35253305 CCTCACCA
1 CCTCACCA
35253313 TCCTCGCCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 2 0.05
24 21 0.55
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.19
Consensus pattern (24 bp):
CCTCACCACATTTACTACCAACAA
Found at i:35253274 original size:45 final size:45
Alignment explanation
Indices: 35253223--35253317 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
35253213 ACCACCCTCT
35253223 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
1 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
*
35253268 CCCTCACCCTCACCCTCACTACATTTACTACCAACAACCTCACCA
1 CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
*
35253313 TCCTC
1 CCCTC
35253318 GCCACCTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.53, G:0.00, T:0.20
Consensus pattern (45 bp):
CCCTCACCCTCACCCTCACCACATTTACTACCAACAACCTCACCA
Found at i:35255769 original size:10 final size:9
Alignment explanation
Indices: 35255739--35255775 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
35255729 CTGGCCAGTG
35255739 TTTAACTTGT
1 TTTAA-TTGT
*
35255749 TTTAATTTT
1 TTTAATTGT
35255758 TTTAATTGT
1 TTTAATTGT
35255767 TTTAATTGT
1 TTTAATTGT
35255776 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:35258892 original size:47 final size:48
Alignment explanation
Indices: 35258822--35259003 Score: 330
Period size: 48 Copynumber: 3.8 Consensus size: 48
35258812 TAAAAATTAC
35258822 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
***
35258870 ATCAATAATT-AAATAAGGACTTTAATATTTTATTGCTATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
35258917 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
35258965 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
35259004 ATCACGAAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 44 0.35
48 83 0.65
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:35258924 original size:95 final size:96
Alignment explanation
Indices: 35258822--35258999 Score: 349
Period size: 95 Copynumber: 1.9 Consensus size: 96
35258812 TAAAAATTAC
35258822 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATT-AAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
35258886 GGACTTTAATATTTTATTGCTATAAGGACTA
66 GGACTTTAATATTTTATTGCTATAAGGACTA
35258917 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
35258982 GGACTTTAATATTTTATT
66 GGACTTTAATATTTTATT
35259000 AAAAATCACG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 58 0.71
96 24 0.29
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (96 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATAATTAAAATAA
GGACTTTAATATTTTATTGCTATAAGGACTA
Found at i:35262386 original size:92 final size:91
Alignment explanation
Indices: 35262224--35262430 Score: 265
Period size: 92 Copynumber: 2.3 Consensus size: 91
35262214 GATTTTAGTG
* * * *
35262224 AATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTATAT
1 AATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
* * *
35262289 TTAAT-ATTAATTATTTTAAATTGTATA
65 GTAATAATT-ATTATTTTAAATTATACA
*
35262316 AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTATA
1 AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTATA
35262380 TGTAATAATTATTATTTTAAATTATACA
64 TGTAATAATTATTATTTTAAATTATACA
* * *
35262408 AATTCATAAAATATAATTTATTA
1 AATTCATATAAGAAAATTTATTA
35262431 GTTATAATTA
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.29
92 68 0.67
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATATG
TAATAATTATTATTTTAAATTATACA
Found at i:35262393 original size:24 final size:25
Alignment explanation
Indices: 35262358--35262405 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35262348 TTATGAAATT
35262358 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
35262382 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
35262406 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:35262585 original size:61 final size:61
Alignment explanation
Indices: 35262520--35262708 Score: 203
Period size: 61 Copynumber: 3.1 Consensus size: 61
35262510 TATAGTATCA
35262520 TATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * * * * * *
35262581 TATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTA
1 TATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AA
35262639 T
61 T
*
35262640 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
35262701 TATATATT
1 TATATATT
35262709 TTAATTATAA
Statistics
Matches: 98, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.18
60 16 0.16
61 26 0.27
62 8 0.08
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
TATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:35262608 original size:15 final size:15
Alignment explanation
Indices: 35262573--35262624 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35262563 TTAAGAATTT
*
35262573 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35262587 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35262601 TATTTAATAATAAT-
1 TATTTAATTATAATA
35262615 TATGTTAATT
1 TAT-TTAATT
35262625 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35262684 original size:120 final size:121
Alignment explanation
Indices: 35262446--35262745 Score: 491
Period size: 120 Copynumber: 2.5 Consensus size: 121
35262436 AATTATTTTA
* * * *
35262446 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
35262510 TATAGTATCATATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCA-ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35262568 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-T
35262631 TTATAGTATC-ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35262688 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
35262746 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 4, Indels: 10
0.92 0.02 0.05
Matches are distributed among these distances:
120 98 0.58
121 8 0.05
122 61 0.36
123 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ATAGTATCAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35262723 original size:16 final size:16
Alignment explanation
Indices: 35262702--35262743 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35262692 TTATTAAATT
*
35262702 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35262718 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35262733 AT-TATGTTTAA
1 ATATAT-TTTAA
35262744 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35262728 original size:15 final size:15
Alignment explanation
Indices: 35262693--35262734 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35262683 TTAAGAATTT
*
35262693 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35262707 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35262721 TATTTAATAATAAT
1 TATTTAATTATAAT
35262735 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35262854 original size:153 final size:156
Alignment explanation
Indices: 35262677--35262989 Score: 515
Period size: 153 Copynumber: 2.0 Consensus size: 156
35262667 ATAAGAATAT
* * *
35262677 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* * *
35262742 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
*
35262807 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
35262830 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
35262895 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
35262960 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
35262987 TAA
1 TAA
35262990 GGGTATTCTA
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 123 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:35263133 original size:16 final size:16
Alignment explanation
Indices: 35263112--35263147 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
35263102 GATTTGCTAT
35263112 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35263128 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35263144 TACA
1 TACA
35263148 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35270252 original size:10 final size:10
Alignment explanation
Indices: 35270222--35270286 Score: 67
Period size: 10 Copynumber: 6.4 Consensus size: 10
35270212 TCAATTTCAT
35270222 TTTTTTTAAA
1 TTTTTTTAAA
** *
35270232 TAATTTCAAA
1 TTTTTTTAAA
35270242 TTTTTTTAAA
1 TTTTTTTAAA
35270252 TTTTTTTAAAA
1 TTTTTTT-AAA
**
35270263 TAATTTTAAA
1 TTTTTTTAAA
*
35270273 TTTTTTTATA
1 TTTTTTTAAA
35270283 TTTT
1 TTTT
35270287 CATCAATGGC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
10 35 0.81
11 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:35270258 original size:31 final size:31
Alignment explanation
Indices: 35270220--35270286 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
35270210 CCTCAATTTC
*
35270220 ATTTTTTTTAAATAATTTCAAATTTTTTTAA
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAA
* *
35270251 ATTTTTTTAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTTAAAATAATTTCAAATTTTTTTAA
35270282 ATTTT
1 ATTTT
35270287 CATCAATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTCAAATTTTTTTAA
Found at i:35270263 original size:21 final size:21
Alignment explanation
Indices: 35270222--35270280 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
35270212 TCAATTTCAT
** *
35270222 TTTTTTTAAA-TAATTTCAAA
1 TTTTTTTAAATTTTTTTAAAA
35270242 TTTTTTTAAATTTTTTTAAAA
1 TTTTTTTAAATTTTTTTAAAA
**
35270263 TAATTTTAAATTTTTTTA
1 TTTTTTTAAATTTTTTTA
35270281 TATTTTCATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTTAAATTTTTTTAAAA
Found at i:35272649 original size:29 final size:29
Alignment explanation
Indices: 35272614--35273251 Score: 882
Period size: 29 Copynumber: 22.3 Consensus size: 29
35272604 TTTATTTCAT
*
35272614 ACCCTAACCTTAACCTGATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35272643 ATCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
** *
35272671 ACCCTAAATTTAATCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35272700 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* * *
35272729 CCCCTAACCATAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35272758 ATCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
35272787 A-CC--A---TAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35272810 ACCC-AACCTTAGCCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35272838 ACCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35272866 ACCCTAAACTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
** *
35272895 ACTGTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35272924 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35272953 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
35272982 ACCCTAACCTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35273011 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35273040 ACTCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35273069 ACCCTAACCTTAGCCTATTTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
35273097 ACCCTAACCTTAACCTAATTTAATCAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* * *
35273126 ACCCTAATCTTAACCTAATTCATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35273155 ACCCTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35273184 ACCCTAACCCTAACCTAATTTAATTAGAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
35273213 ACCCTAACCCTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
35273242 ACCCTAACCT
1 ACCCTAACCT
35273252 AATTTATTTG
Statistics
Matches: 541, Mismatches: 59, Indels: 18
0.88 0.10 0.03
Matches are distributed among these distances:
23 20 0.04
24 2 0.00
25 1 0.00
26 1 0.00
28 97 0.18
29 420 0.78
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (29 bp):
ACCCTAACCTTAACCTAATTTAATTAAAA
Found at i:35272750 original size:115 final size:116
Alignment explanation
Indices: 35272601--35273248 Score: 886
Period size: 115 Copynumber: 5.7 Consensus size: 116
35272591 ATAAAAATCG
* * * *
35272601 TAATTTATTT-CATACCCTAACCTTAACCTGATTTAATTAAAAATCCTAACCCTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
* * *
35272665 ATT-AAAACCCTAAATTTAATCTAATTTAATTAAAAACCCTAACCTTAACC
66 ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * * *
35272715 TAATTTATTTAAAACCCCTAACCATAACCTAATTTATTTAAAAATCCTAACCCTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
* *
35272780 ATTAAAAA-CC---A--TAACCTAATTTAATTAAAAACCC-AACCTTAGCC
66 ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * *
35272824 TAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATT-AAAACCCTAAACTTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
** * *
35272888 ATTAAAAACTGTAACCTTAACCTAATTTATTTAAAAACCCTAACATTAACC
66 ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * *
35272939 TAATTTAATTAAAAACCCTAACCTTAACCTAATTTATTTAAAAACCCTAACCTTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
* * *
35273004 ATTAAAAACCCTAACCTTAACCTAATTTATTTAAAAACTCTAACCCTAACC
66 ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* * * *
35273055 TAATTTAATTAAAAACCCTAACCTTAGCCTATTTTAATT-AAAACCCTAACCTTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
* * * *
35273119 ATCAAAAACCCTAATCTTAACCTAATTCATTTAAAAACCCTAACCCTAACC
66 ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
* *
35273170 TAATTTATTTAAAAACCCTAACCCTAACCTAATTTAATTAGAAACCCTAACCCTAACCTAATTTA
1 TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
*
35273235 TTTAAAAACCCTAA
66 ATTAAAAACCCTAA
35273249 CCTAATTTAT
Statistics
Matches: 479, Mismatches: 44, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
108 30 0.06
109 45 0.09
110 22 0.05
112 1 0.00
114 32 0.07
115 204 0.43
116 145 0.30
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.33
Consensus pattern (116 bp):
TAATTTATTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
ATTAAAAACCCTAAACTTAACCTAATTTATTTAAAAACCCTAACCTTAACC
Found at i:35276667 original size:124 final size:124
Alignment explanation
Indices: 35276447--35276726 Score: 483
Period size: 124 Copynumber: 2.3 Consensus size: 124
35276437 CCACGAGAGT
*
35276447 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
* *
35276512 AAATCGCGTCCACGAGGGCACGATTTGACAATTTCTTCTCAATTAGCATCCAT-GAGGGC
66 AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCC-TCGAGGGC
35276571 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
* *
35276636 AAATCGCATCCACGATGGCATGATTTCACAATTTCTTCTCAATTAGCATCCTCGAGGGC
66 AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCTCGAGGGC
35276695 GCGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
35276727 CTCAAAATAA
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
123 1 0.01
124 147 0.99
125 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCA
AAATCGCATCCACGAGGGCACGATTTCACAATTTCTTCTCAATTAGCATCCTCGAGGGC
Found at i:35279406 original size:18 final size:17
Alignment explanation
Indices: 35279360--35279411 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 17
35279350 CAGTTTAATT
35279360 CAATTC-TTAATCTAAA
1 CAATTCATTAATCTAAA
35279376 CAATT-ATT--T-TAAA
1 CAATTCATTAATCTAAA
35279389 CAATTCATTAATACTAAA
1 CAATTCATTAAT-CTAAA
*
35279407 AAATT
1 CAATT
35279412 TTGTGTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
16 8 0.28
18 8 0.28
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (17 bp):
CAATTCATTAATCTAAA
Found at i:35283369 original size:44 final size:44
Alignment explanation
Indices: 35283286--35283369 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
35283276 CCAAACATTT
*
35283286 ATATAGAATTACAATGTAATTACATTCTATCATCAAAACACGAC
1 ATATAGAATTACAATGTAATTACATTCTATCAACAAAACACGAC
** * *
35283330 ATATAGAATTATGATGTAATTACATTCTATTAACCAAACA
1 ATATAGAATTACAATGTAATTACATTCTATCAACAAAACA
35283370 TAAAACTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (44 bp):
ATATAGAATTACAATGTAATTACATTCTATCAACAAAACACGAC
Found at i:35283752 original size:21 final size:20
Alignment explanation
Indices: 35283728--35283771 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
35283718 ATTTATCTCC
* *
35283728 AATCCTAATGAATATAAAGAA
1 AATCATAATAAATA-AAAGAA
*
35283749 AATCATAATAAATAAAATAA
1 AATCATAATAAATAAAAGAA
35283769 AAT
1 AAT
35283772 ATACTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
AATCATAATAAATAAAAGAA
Found at i:35294359 original size:19 final size:20
Alignment explanation
Indices: 35294337--35294376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35294327 AATTTTATTG
35294337 AAAA-TATATTTTTTTAACT
1 AAAACTATATTTTTTTAACT
*
35294356 AAAACTTATTTTTTTTTAACT
1 AAAAC-TATATTTTTTTAACT
35294377 TGGATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAACTATATTTTTTTAACT
Found at i:35302560 original size:27 final size:27
Alignment explanation
Indices: 35302529--35302580 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
35302519 TATGGTTTCT
*
35302529 TTTCTTGTTTTAATCTTCCTTTCTCGC
1 TTTCTTGTTTCAATCTTCCTTTCTCGC
35302556 TTTCTTGTTTCAATCTTCCTTTCTC
1 TTTCTTGTTTCAATCTTCCTTTCTC
35302581 TCCTTGTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.08, C:0.27, G:0.06, T:0.60
Consensus pattern (27 bp):
TTTCTTGTTTCAATCTTCCTTTCTCGC
Found at i:35304923 original size:26 final size:26
Alignment explanation
Indices: 35304850--35304923 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
35304840 ATCAAATTTT
*
35304850 TTAAAAGCACTTTTCAAAAACACTTC
1 TTAAAAGCACTTTTCAAAAGCACTTC
* * *
35304876 TCAAAAGCACTTTTCCACAGCACTTC
1 TTAAAAGCACTTTTCAAAAGCACTTC
*
35304902 TTAAAAGCAATTTTCAAAAGCA
1 TTAAAAGCACTTTTCAAAAGCA
35304924 ATGAAGAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (26 bp):
TTAAAAGCACTTTTCAAAAGCACTTC
Found at i:35304925 original size:13 final size:13
Alignment explanation
Indices: 35304847--35304923 Score: 84
Period size: 13 Copynumber: 5.9 Consensus size: 13
35304837 ATAATCAAAT
*
35304847 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
35304860 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
*
35304873 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
35304886 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
35304899 TTCTT-AAAAGCAA
1 TT-TTCAAAAGCAC
35304912 TTTTCAAAAGCA
1 TTTTCAAAAGCA
35304924 ATGAAGAACT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
12 2 0.04
13 48 0.92
14 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:35306186 original size:30 final size:30
Alignment explanation
Indices: 35306152--35306214 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
35306142 ACTTAACAAG
35306152 CAAATG-CTTTTAAAATAATAACAAAATTAA
1 CAAATGTC-TTTAAAATAATAACAAAATTAA
35306182 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
35306212 CAA
1 CAA
35306215 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:35307085 original size:6 final size:6
Alignment explanation
Indices: 35307074--35307098 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35307064 AGGTTGGTTT
35307074 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
35307099 CAGACTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:35310406 original size:21 final size:21
Alignment explanation
Indices: 35310371--35310422 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
35310361 AATACAACTA
*
35310371 ATATTTTA-ATTTTAAAACAT
1 ATATTTTATTTTTTAAAACAT
* *
35310391 ATATTTTATTTTTTAAGATAT
1 ATATTTTATTTTTTAAAACAT
35310412 A-ATTTTATTTT
1 ATATTTTATTTT
35310423 ATTTTACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATTTTATTTTTTAAAACAT
Found at i:35317579 original size:9 final size:9
Alignment explanation
Indices: 35317565--35317605 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
35317555 TTTGGTTAAA
35317565 AATTACCCG
1 AATTACCCG
35317574 AATTACCCG
1 AATTACCCG
35317583 AATTACCCG
1 AATTACCCG
35317592 AATTACCCG
1 AATTACCCG
35317601 AATTA
1 AATTA
35317606 AATCACTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:35317652 original size:37 final size:37
Alignment explanation
Indices: 35317610--35317767 Score: 214
Period size: 37 Copynumber: 4.3 Consensus size: 37
35317600 GAATTAAATC
* * *
35317610 ACTACATAATTAAAAGCATTACATAAATCTTTAAATT
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
* * * *
35317647 GCTACATAATTAAAAATATTACATAATTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35317684 ACTACATAATTAAAAACATTACATAAGTC-TTGAATT
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35317720 AACTACATAATTAAAAACATTACATAAGTC-TTGAATT
1 -ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
35317757 AAC-ACATAATT
1 -ACTACATAATT
35317768 GACATGTAAG
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
36 14 0.13
37 96 0.87
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATT
Found at i:35317708 original size:17 final size:17
Alignment explanation
Indices: 35317649--35317746 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 17
35317639 TTTAAATTGC
*
35317649 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
35317666 TACATAATTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
35317686 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
*
35317703 TACATAAGTCTTGAATTAAC--
1 TACATAA---TT-AA-AAACAT
35317723 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
35317740 TACATAA
1 TACATAA
35317747 GTCTTGAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
15 3 0.05
16 2 0.03
17 29 0.48
20 21 0.35
21 2 0.03
22 3 0.05
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:35321401 original size:16 final size:16
Alignment explanation
Indices: 35321362--35321398 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
35321352 AAAGGGTCAA
*
35321362 ATTTCACCGTTAACCG
1 ATTTAACCGTTAACCG
35321378 ATTTAACCGTTAACCG
1 ATTTAACCGTTAACCG
35321394 -TTTAA
1 ATTTAA
35321399 ACCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (16 bp):
ATTTAACCGTTAACCG
Found at i:35322440 original size:37 final size:37
Alignment explanation
Indices: 35322399--35322511 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 37
35322389 AGTACACAAG
* *
35322399 TAATCCAACCGATAACATGCCAAGTGCTCCGAAGAGC
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
** * * * *
35322436 TAATCCAATTGATAACACGCTAAATGCTACAAAGAGC
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
* * * * *
35322473 TAATGCAACAGATAACAGGTCATGTGCTCTGAAGAGC
1 TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
35322510 TA
1 TA
35322512 TACATCCGCC
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (37 bp):
TAATCCAACAGATAACACGCCAAGTGCTCCGAAGAGC
Found at i:35325076 original size:21 final size:21
Alignment explanation
Indices: 35325025--35325084 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
35325015 AAGTTTTTCG
*
35325025 AAATTAAATATTTT-ATACACT
1 AAATTAAAAATTTTAATA-ACT
*
35325046 AAATTGAAAATTTTAATAACT
1 AAATTAAAAATTTTAATAACT
* *
35325067 AAATCAAAAA-GTTAATAA
1 AAATTAAAAATTTTAATAA
35325085 TTAGATTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATTAAAAATTTTAATAACT
Found at i:35325317 original size:12 final size:12
Alignment explanation
Indices: 35325300--35325324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35325290 TTCCTAAGAA
35325300 TAGGGTTTTTAT
1 TAGGGTTTTTAT
35325312 TAGGGTTTTTAT
1 TAGGGTTTTTAT
35325324 T
1 T
35325325 TTAAGAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TAGGGTTTTTAT
Found at i:35330836 original size:18 final size:18
Alignment explanation
Indices: 35330795--35330838 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
35330785 TGGCCAAGTA
*
35330795 CAGTGGTGGTCTATAGTG
1 CAGTGGTGGTCCATAGTG
*
35330813 CGGTGGTGGTCCATAGTG
1 CAGTGGTGGTCCATAGTG
*
35330831 TAGTGGTG
1 CAGTGGTG
35330839 CTTATGAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.11, G:0.43, T:0.32
Consensus pattern (18 bp):
CAGTGGTGGTCCATAGTG
Found at i:35342096 original size:21 final size:21
Alignment explanation
Indices: 35342057--35342113 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
35342047 TACATATTAT
* *
35342057 CACTGTTCATTG-TTTGACTC
1 CACTGTTCATGGACTTGACTC
35342077 CACTGTTCATGGACTTGACTC
1 CACTGTTCATGGACTTGACTC
35342098 CACTGTTCATAGGACT
1 CACTGTTCAT-GGACT
35342114 AACATTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.33
21 17 0.52
22 5 0.15
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (21 bp):
CACTGTTCATGGACTTGACTC
Found at i:35343087 original size:24 final size:24
Alignment explanation
Indices: 35343052--35343110 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
35343042 TTTTACTATT
* *
35343052 TTAAATATAAAATATTTATTTCTAAA
1 TTAAATA-AAAAAATTAATTT-TAAA
35343078 -T-AATAAAAAAATTAATTTTAAA
1 TTAAATAAAAAAATTAATTTTAAA
35343100 TTAAATAAAAA
1 TTAAATAAAAA
35343111 TTGTATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 12 0.41
25 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAATAAAAAAATTAATTTTAAA
Found at i:35343111 original size:22 final size:23
Alignment explanation
Indices: 35343055--35343112 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
35343045 TACTATTTTA
*
35343055 AATATAAAATATTTATTTCTAAAT
1 AATATAAAA-ATTAATTTCTAAAT
*
35343079 AATAAAAAAATTAATTT-TAAATT
1 AATATAAAAATTAATTTCTAAA-T
35343102 AA-ATAAAAATT
1 AATATAAAAATT
35343113 GTATTCTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 10 0.33
24 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATAAAAATTAATTTCTAAAT
Found at i:35343122 original size:23 final size:22
Alignment explanation
Indices: 35343058--35343122 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
35343048 TATTTTAAAT
35343058 ATAAAATATTTATTTCTAAA-TAA
1 ATAAAA-ATTTA-TTCTAAATTAA
* * *
35343081 TAAAAAAATTAATTTTAAATTAA
1 -ATAAAAATTTATTCTAAATTAA
35343104 ATAAAAATTGTATTCTAAA
1 ATAAAAATT-TATTCTAAA
35343123 AATTGTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 14 0.42
23 14 0.42
24 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATTTATTCTAAATTAA
Found at i:35344752 original size:81 final size:82
Alignment explanation
Indices: 35344633--35344793 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 82
35344623 AAAATGCTAA
* *
35344633 CTGTCGAAACTATTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCGACTTAAAAAAAAAAATGAA
1 CTGTCGAAACCATTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCAACTTAAAAAAAAAAATGAA
35344698 AGTTGGGAGTCGCCAAT
66 AGTTGGGAGTCGCCAAT
35344715 CTGTCGAAACCATTTTTTTTT-AAAACAAAAAATTTTAGGTTGTCAACTTAAAAAAAAAAATGAA
1 CTGTCGAAACCATTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCAACTTAAAAAAAAAAATGAA
35344779 AGTTGGGAGTCGCCA
66 AGTTGGGAGTCGCCA
35344794 CCAATCTTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 57 0.74
82 20 0.26
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (82 bp):
CTGTCGAAACCATTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCAACTTAAAAAAAAAAATGAA
AGTTGGGAGTCGCCAAT
Found at i:35345276 original size:98 final size:98
Alignment explanation
Indices: 35345107--35345301 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
35345097 ATACAATAAA
* *
35345107 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
35345172 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
35345205 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
35345270 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
35345302 CATGATTTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:35346371 original size:19 final size:19
Alignment explanation
Indices: 35346347--35346437 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
35346337 AATCATATAT
35346347 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
35346366 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
35346385 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
*
35346404 TCTAGGATTGCAT-TCATA
1 TCTAAGATTGCATATCATA
35346422 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35346438 CTCAAAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
18 17 0.27
19 46 0.73
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35346908 original size:132 final size:132
Alignment explanation
Indices: 35346666--35347453 Score: 1233
Period size: 132 Copynumber: 6.0 Consensus size: 132
35346656 CTGTAACTGC
* * * *
35346666 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGAATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGG
* * * *
35346729 CTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
35346794 GCTT
129 GCTT
** * *
35346798 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* * *
35346863 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35346928 TT
131 TT
35346930 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
35346995 TCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35347060 TT
131 TT
* *
35347062 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* *
35347127 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTATCAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA-C--
35347192 TGC--
128 TGCTT
* ** ** * *
35347195 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* *
35347260 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35347325 TT
131 TT
35347327 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
35347392 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCGACTAC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
35347454 AAACGAGGAA
Statistics
Matches: 600, Mismatches: 49, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
130 3 0.00
132 475 0.79
133 119 0.20
135 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:35347329 original size:265 final size:263
Alignment explanation
Indices: 35346683--35347453 Score: 1247
Period size: 265 Copynumber: 2.9 Consensus size: 263
35346673 TAAGACTTAC
* * * * *
35346683 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
*
35346748 AACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
* * *
35346813 GAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACT
131 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * * * *
35346878 GTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
196 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC-TAGGAAGACAAGAT
35346943 CTGA
260 CTGA
*
35346947 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
* *
35347012 AACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
*
35347077 GAAATCTTCAATCTATTCCACTGTTGCCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
131 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
* * *
35347142 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTATCAATGC-AGGAAGGCAAG
196 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA-C--TGCTAGGAAGACAAG
*
35347206 ATCTGC
258 ATCTGA
* *
35347212 TATCTTTAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
* *
35347277 AACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
*
35347342 GAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
131 GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
*
35347407 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCGACTAC
196 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
35347454 AAACGAGGAA
Statistics
Matches: 471, Mismatches: 33, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
264 224 0.48
265 244 0.52
267 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (263 bp):
AATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT
GAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTAGGAAGACAAGATC
TGA
Found at i:35347375 original size:44 final size:44
Alignment explanation
Indices: 35346772--35347375 Score: 204
Period size: 44 Copynumber: 13.7 Consensus size: 44
35346762 AAAATCCACC
* ** *
35346772 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTGAA
* * * * *
35346816 ATCTTCAATCTATTCCACTATTGCCTAGGGA-AGTAGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGA-TAAAATCTGA-A
* * * * * * *
35346859 AGCTTCAATGTACTCCACT-GTAACCACAGGGAGGTAAAATCCGCA
1 ATCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTGAA
* ** *
35346904 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTGAA
* * *
35346948 ATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGA-TA-AAAT-CTGAA
* * * * * * **
35346992 -GCTTCAATGTACTCCACTA-TAACCACATGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTGAA
* * ** *
35347036 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTGAA
* ** * *
35347080 ATCTTCAATCTATTCCACTGTTGCCCAAGGA-AGTAGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGA-TA-AAAT-CTGAA
* * * * * **
35347124 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTGAA
* * * * * ** * **
35347168 ATCTTCGATCTGCTTCGCTATCAATG--CAGGAAGGCAAGATCTGCT
1 ATCTTCAATCTACTCCACTA-C--TGCCCAGGGAGATAAAATCTGAA
* * * * *
35347213 ATCTTTAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATA-AAAT-CTGAA
* * * * **
35347257 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCC
1 ATCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTGAA
* ** *
35347301 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTGAA
* *
35347345 ATCTTCAATCTATTCCACTGCTGCCCAGGGA
1 ATCTTCAATCTACTCCACTACTGCCCAGGGA
35347376 AGTAGAATTA
Statistics
Matches: 393, Mismatches: 126, Indels: 82
0.65 0.21 0.14
Matches are distributed among these distances:
42 14 0.04
43 81 0.21
44 189 0.48
45 96 0.24
46 12 0.03
49 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTGAA
Found at i:35347398 original size:397 final size:395
Alignment explanation
Indices: 35346666--35347453 Score: 1231
Period size: 397 Copynumber: 2.0 Consensus size: 395
35346656 CTGTAACTGC
* *
35346666 AGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTACTGACT
1 AGGGAGATAAGACTGACAATCTTCAACCTATTCCACTGCTGACCAGGAAGATAGAATTACTGACT
*
35346731 TCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
* * * * *
35346796 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAG
131 -TAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAATAGAATTACTAG
* *
35346861 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACT
195 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACT
35346926 GCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
260 GCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
35346991 GGCTTCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
325 GGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTA
35347056 CTGCTT
390 CTGCTT
* * * *
35347062 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAAGGAAG-TAGAATTACTGG
1 AGGGAGATAAGA-CTGACAATCTTCAACCTATTCCACTGCTGACC-AGGAAGATAGAATTACTGA
* * * * *
35347125 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTATC
64 CTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTA-C
* ** * *
35347190 AATGC-AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAATAGAATTA
128 --TGCTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAATAGAATTA
* * * *
35347254 CTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCAC
191 CTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCAC
35347319 TACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
256 TACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
*
35347384 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCG
321 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
35347449 ACTAC
386 ACTAC
35347454 AAACGAGGAA
Statistics
Matches: 357, Mismatches: 30, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
396 104 0.29
397 250 0.70
399 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (395 bp):
AGGGAGATAAGACTGACAATCTTCAACCTATTCCACTGCTGACCAGGAAGATAGAATTACTGACT
TCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
TAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAATAGAATTACTAGC
TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTACTCCACTACTG
CTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
TGCTT
Found at i:35348687 original size:7 final size:7
Alignment explanation
Indices: 35348675--35348739 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
35348665 CTCTCTATTT
35348675 TTTTTTC
1 TTTTTTC
35348682 TTTTTTC
1 TTTTTTC
35348689 TTTTTTC
1 TTTTTTC
35348696 TTTCACTTTC
1 TTT---TTTC
*
35348706 ATTTTTTG
1 -TTTTTTC
*
35348714 TTTTTTA
1 TTTTTTC
35348721 TTTTTT-
1 TTTTTTC
35348727 TTTGTTT-
1 TTT-TTTC
35348734 TTTTTT
1 TTTTTT
35348740 TGAATCTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
6 6 0.12
7 35 0.69
8 3 0.06
10 4 0.08
11 3 0.06
ACGTcount: A:0.05, C:0.09, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:35351991 original size:81 final size:85
Alignment explanation
Indices: 35351860--35352036 Score: 308
Period size: 83 Copynumber: 2.1 Consensus size: 85
35351850 ATTCCCCAGT
*
35351860 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTTGAAAACTAAAAATTTTAGGTTGTCGACTT-
1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCGACTTA
35351924 AAAAAA-AAAATGAAAGTTG
66 AAAAAAGAAAATGAAAGTTG
35351943 GGAGTCGCCAAGCTGTCGAAACCA-TTTTTTTTTT-AAAACAAAAAATTTTAGGTTGTCGACTTA
1 GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCGACTT-
35352006 AAAAAAAGAAAATGAAAGTTG
65 AAAAAAAGAAAATGAAAGTTG
35352027 GGAGTCGCCA
1 GGAGTCGCCA
35352037 CCAATCTTTT
Statistics
Matches: 90, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
81 27 0.30
82 10 0.11
83 30 0.33
84 23 0.26
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (85 bp):
GGAGTCGCCAAGCTGTCGAAACCATTTTTTTTTTTGAAAACAAAAAATTTTAGGTTGTCGACTTA
AAAAAAGAAAATGAAAGTTG
Found at i:35352519 original size:98 final size:98
Alignment explanation
Indices: 35352350--35352544 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
35352340 ATACAATAAA
*
35352350 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
35352415 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* * *
35352448 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
35352513 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
35352545 CATGATTTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:35353620 original size:19 final size:19
Alignment explanation
Indices: 35353596--35353687 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
35353586 AATCATATAT
35353596 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
35353615 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
35353634 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
35353653 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35353672 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35353688 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35353643 original size:38 final size:38
Alignment explanation
Indices: 35353573--35353687 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
35353563 AAATTAAATC
*
35353573 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
35353615 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
35353653 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
35353688 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:35357389 original size:70 final size:70
Alignment explanation
Indices: 35357296--35357834 Score: 543
Period size: 70 Copynumber: 7.7 Consensus size: 70
35357286 TGAATAAGTT
* * *
35357296 AGCCTTTGCA-TATCAGTTGGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGACGCGATATTGAA
1 AGCCTTTGGATTA-CAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
35357360 TCAACG
65 TCAACG
* * * * * * **
35357366 AGTCTTTGGATTACAGCTAGGAGC-TTGATCTCACACTGGCTATTTTGGAGGTCGCGATATTGAA
1 AGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
*
35357430 TCAACA
65 TCAACG
* * * * * * *
35357436 AGCATTTGGATTACAATTGAGAGCTTTGGCTCGCGCTAACTGTTTTGGAGGTTGCGATATTAAAT
1 AGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAAT
*
35357501 CAGCG
66 CAACG
** * * *
35357506 AGCCTTTGGATTACAACTGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGCCGTGATATTGAAT
1 AGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAAT
*
35357571 CAGCG
66 CAACG
* * * *** * * *
35357576 AGCCTTTGCA-TATTAGTTGGGAGCTTTAGCTTATGCTTATTATTTTGAAGGTTGCGATATTGAA
1 AGCCTTTGGATTA-CAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
*
35357640 TCAGCG
65 TCAACG
* * *
35357646 AGCCTTTGGATTACAGTTGGGAGC-TTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATATTGAA
1 AGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAA
35357710 TCAACG
65 TCAACG
* * * * *
35357716 AGCCTTTAGATTACAGTCGGAAGCTTTGGCTCGCG-TTGACTATTTTAGAGGTTGCGATATTGAA
1 AGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTT-ACTATTTTGGAGGTCGCGATATTGAA
*
35357780 TTAGA-G
65 TCA-ACG
* *
35357786 AGCCTTTGGATTACAGTTGGGAGC-TTGAGCTCACGCTGACTATTTTGGA
1 AGCCTTTGGATTACAGTTGGGAGCTTTG-GCTCGCGCTTACTATTTTGGA
35357835 AGGACATGTT
Statistics
Matches: 382, Mismatches: 76, Indels: 22
0.80 0.16 0.05
Matches are distributed among these distances:
69 12 0.03
70 358 0.94
71 12 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (70 bp):
AGCCTTTGGATTACAGTTGGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTCGCGATATTGAAT
CAACG
Found at i:35357516 original size:140 final size:139
Alignment explanation
Indices: 35357296--35357834 Score: 609
Period size: 140 Copynumber: 3.8 Consensus size: 139
35357286 TGAATAAGTT
* * **
35357296 AGCCTTTGCA-TATCAGTTGGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGACGCGATATTGAA
1 AGCCTTTGGATTA-CAGTT-GGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTTGCGATATTGAA
* * * * * * *
35357360 TCAACGAGTCTTTGGATTACAGCTAGGAGCTTGATCTCACACTGGCTATTTTGGAGGTCGCGATA
64 TCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGATA
*
35357425 TTGAATCAACA
129 TTGAATCAACG
* * * * *
35357436 AGCATTTGGATTACAATTGAGAGCTTTGGCTCGCGCTAACTGTTTTGGAGGTTGCGATATTAAAT
1 AGCCTTTGGATTACAGTTG-GAGCTTTGGCTCGCGCTTACTATTTTGGAGGTTGCGATATTGAAT
* * * *
35357501 CAGCGAGCCTTTGGATTACAACTGGGAGCTTTG-GCTCGCGCTAACTATTTTGGAGGCCGTGATA
65 CAGCGAGCCTTTGGATTACAGCTGGGAGC-TTGAGCTCACGCTGACTATTTTGGAGGCCGCGATA
*
35357565 TTGAATCAGCG
129 TTGAATCAACG
* * * *** * *
35357576 AGCCTTTGCA-TATTAGTTGGGAGCTTTAGCTTATGCTTATTATTTTGAAGGTTGCGATATTGAA
1 AGCCTTTGGATTA-CAGTT-GGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTTGCGATATTGAA
* * * * *
35357640 TCAGCGAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATA
64 TCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGATA
35357705 TTGAATCAACG
129 TTGAATCAACG
* * *
35357716 AGCCTTTAGATTACAGTCGGAAGCTTTGGCTCGCG-TTGACTATTTTAGAGGTTGCGATATTGAA
1 AGCCTTTGGATTACAGTTGG-AGCTTTGGCTCGCGCTT-ACTATTTTGGAGGTTGCGATATTGAA
* * *
35357780 TTAGAGAGCCTTTGGATTACAGTTGGGAGCTTGAGCTCACGCTGACTATTTTGGA
64 TCAGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGA
35357835 AGGACATGTT
Statistics
Matches: 331, Mismatches: 59, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
139 10 0.03
140 313 0.95
141 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (139 bp):
AGCCTTTGGATTACAGTTGGAGCTTTGGCTCGCGCTTACTATTTTGGAGGTTGCGATATTGAATC
AGCGAGCCTTTGGATTACAGCTGGGAGCTTGAGCTCACGCTGACTATTTTGGAGGCCGCGATATT
GAATCAACG
Found at i:35357635 original size:210 final size:209
Alignment explanation
Indices: 35357313--35357837 Score: 613
Period size: 210 Copynumber: 2.5 Consensus size: 209
35357303 GCATATCAGT
* * * *
35357313 TGGGAGCTTTGGCTCGTGCTTACTATTTTGGAGGACGCGATATTGAATCAACGAGTCTTTGGATT
1 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGGATT
* * * * *
35357378 ACAGCTAGGAGCTTGATCTCACACTGGCTATTTTGGAGGTCGCGATATTGAATCAACAAGCATTT
66 ACAGTTGGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
** *
35357443 GGATTACAATTGAGAGCTTTG-GCTCGCGCTAACTGTTTTGGAGGTTGCGATATTAAATCAGCGA
131 GGATTACAATTGAGAGC-TTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGA
*
35357507 GCCTTTGGATTACAAC
195 GCCTTTAGATTAC-AC
* * *
35357523 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGCCGTGATATTGAATCAGCGAGCCTTTGCA-T
1 TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGGATT
* * * ** * * * * * *
35357587 ATTAGTTGGGAGCTTTAGCTTATGCTTATTATTTTGAAGGTTGCGATATTGAATCAGCGAGCCTT
66 A-CAGTTGGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATT
* * * * *
35357652 TGGATTACAGTTGGGAGCTTGAGCTCGCGCTTATTGTTTTGGAGGCCGCGATATTGAATCAACGA
130 TGGATTACAATTGAGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGA
*
35357717 GCCTTTAGATTACAG
195 GCCTTTAGATTACAC
* * * * ** * *
35357732 TCGGAAGCTTTGGCTCGCGTTGACTATTTTAGAGGTTGCGATATTGAATTAGAGAGCCTTTGGAT
1 T-GGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGGAT
*
35357797 TACAGTTGGGAGCTTGAGCTCACGCTGACTATTTTGGAAGG
65 TACAGTTGGGAGCTTGAGCTCACACTGACTATTTT-GAAGG
35357838 ACATGTTGTA
Statistics
Matches: 261, Mismatches: 49, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
209 7 0.03
210 247 0.95
211 7 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (209 bp):
TGGGAGCTTTGGCTCGCGCTAACTATTTTGGAGGACGCGATATTGAATCAGCGAGCCTTTGGATT
ACAGTTGGGAGCTTGAGCTCACACTGACTATTTTGAAGGTCGCGATATTGAATCAACAAGCATTT
GGATTACAATTGAGAGCTTGAGCTCGCGCTAACTGTTTTGGAGGCCGCGATATTAAATCAACGAG
CCTTTAGATTACAC
Found at i:35364278 original size:9 final size:9
Alignment explanation
Indices: 35364264--35364288 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35364254 CTAAAAAGTT
35364264 AGAGAATTG
1 AGAGAATTG
35364273 AGAGAATTG
1 AGAGAATTG
35364282 AGAGAAT
1 AGAGAAT
35364289 GAAACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (9 bp):
AGAGAATTG
Found at i:35381904 original size:188 final size:189
Alignment explanation
Indices: 35381556--35381966 Score: 664
Period size: 188 Copynumber: 2.2 Consensus size: 189
35381546 GCAGCAACCT
* *
35381556 TCACAATTCTATCTCAATGCCTAATCATATAATGCAAGTTCAAGAATCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
* *
35381621 GGTTCATGCAATCTCCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
66 AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
35381686 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
131 AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* * *
35381745 TCACAATTATACCTCAATGCCTAATCAGATGATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
1 TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
**
35381810 AGTTCATGCAATCACCC-TTATGAG-TGGTATTTTGATATGTCTCAAGTTAGATTCTCAACATTG
66 AGTTCATGCAATCACCCTTTA-GAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTG
* * * *
35381873 CAATCGTTCCCCTATCCCCATACTAAGGCCTCCTTTACACGAAATATTGCAAGTTCAACA
130 CAATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
* *
35381933 TCACAATTCTATCTCAATGCCTAACCAAATAATG
1 TCACAATTCTATCTCAATGCCTAATCAGATAATG
35381967 TGCTTAGTTG
Statistics
Matches: 203, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
188 125 0.62
189 78 0.38
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (189 bp):
TCACAATTCTATCTCAATGCCTAATCAGATAATGCAAGTTCAAGAACCTAGAGCTTAATTCAGTC
AGTTCATGCAATCACCCTTTAGAGATGGTATTTTGATACATCTCAAGTTAGATTCTCAACATTGC
AATCCTTCCCCTATCCCCATACTAAGGCCTCCTATACACAAAATAATGCAAGTTCAACA
Found at i:35383729 original size:11 final size:11
Alignment explanation
Indices: 35383713--35383738 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35383703 TATTTTTTAA
35383713 TTTTAAAATAT
1 TTTTAAAATAT
35383724 TTTTAAAATAT
1 TTTTAAAATAT
35383735 TTTT
1 TTTT
35383739 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:35385317 original size:17 final size:17
Alignment explanation
Indices: 35385295--35385327 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35385285 GTAATACGGA
35385295 TAGGCCAAACTCCAATT
1 TAGGCCAAACTCCAATT
35385312 TAGGCCAAACTCCAAT
1 TAGGCCAAACTCCAAT
35385328 ATGGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (17 bp):
TAGGCCAAACTCCAATT
Found at i:35393030 original size:13 final size:13
Alignment explanation
Indices: 35393014--35393105 Score: 116
Period size: 13 Copynumber: 7.1 Consensus size: 13
35393004 TTTAAACCAA
35393014 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35393027 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
35393040 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
35393053 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
35393066 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
35393079 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
35393092 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
35393105 A
1 A
35393106 TTGCCAAACT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.12
13 51 0.76
14 8 0.12
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:35393058 original size:39 final size:39
Alignment explanation
Indices: 35393014--35393105 Score: 184
Period size: 39 Copynumber: 2.4 Consensus size: 39
35393004 TTTAAACCAA
35393014 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
1 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
35393053 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
1 ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
35393092 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
35393106 TTGCCAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (39 bp):
ACTTTTCAAAAGCACTTTTCAAAAGTACTTTTCCACAAC
Found at i:35400061 original size:19 final size:19
Alignment explanation
Indices: 35400018--35400075 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
35400008 CACCAATTTT
*
35400018 GTTAATTATGATTAAAGTT-A
1 GTTAATTATAATT-AA-TTAA
35400038 GTTAATTATAATTAATTAA
1 GTTAATTATAATTAATTAA
35400057 GTTAATTA-AGATTAATTAA
1 GTTAATTATA-ATTAATTAA
35400076 TTATTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 3 0.09
19 20 0.57
20 12 0.34
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (19 bp):
GTTAATTATAATTAATTAA
Found at i:35402912 original size:25 final size:25
Alignment explanation
Indices: 35402884--35402931 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35402874 ACAATTAAAG
* * *
35402884 TGTCTGAACTAAGAGCAATTTAATT
1 TGTCTAAACCAAGACCAATTTAATT
35402909 TGTCTAAACCAAGACCAATTTAA
1 TGTCTAAACCAAGACCAATTTAA
35402932 ATCACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (25 bp):
TGTCTAAACCAAGACCAATTTAATT
Found at i:35413627 original size:458 final size:459
Alignment explanation
Indices: 35412769--35413688 Score: 1653
Period size: 458 Copynumber: 2.0 Consensus size: 459
35412759 ACATGAGTGT
35412769 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
1 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
* * *
35412834 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCGCACGATTTGTTCCGATCAATTGTA
66 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
*
35412899 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGGTAGG
131 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
35412964 CTGCCATCTGTAGGATTCCAATATGTATATATGTTCTGTTTAGAGCATATATATACTATCTGTAT
196 CTGCCATCTGTAGGATTCCAATATGTATATATGTTCTGTTTAGAGCATATATATACTATCTGTAT
35413029 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
261 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
* *
35413094 GCACATGTGGAGGAAGTGATCTATAAAGCGGCACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
326 GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
*
35413159 TAATCTGTAATGTGTCGGATCGACACTATATGGTGTGTAAAAATGGGTGGATGTTTTGAACCCCA
391 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAAATGGGTGGATGTTTTGAACCCCA
35413224 TATG
456 TATG
* *
35413228 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGGGCTTGTAGGCCCACAC
1 GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
35413293 GGGCATGTTGG-CCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
66 GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
*
35413357 GGCCTACCGTAGGGTCGGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
131 GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
* * *
35413422 CTGCCATCTGTAGGATTCCAATATGTATATCTGTTTTGTTTAGAGCATATATATGCTATCTGTAT
196 CTGCCATCTGTAGGATTCCAATATGTATATATGTTCTGTTTAGAGCATATATATACTATCTGTAT
* *
35413487 ATGAGCATGTTATGCATGATATTACTGTATCTGTTATTTCTATATTTGTTATTGGGGTGGGTTTT
261 ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
*
35413552 GCACATGTGGAGAAAGTGATCTATACAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
326 GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
*** *
35413617 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAGGGATGGGTGGATGTTTTTAACCCCA
391 TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAAATGGGTGGATGTTTTGAACCCCA
35413682 TATG
456 TATG
35413686 GTG
1 GTG
35413689 TGTTGGGATG
Statistics
Matches: 441, Mismatches: 20, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
458 367 0.83
459 74 0.17
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (459 bp):
GTGGGTTTTGGGCCAGGCCGTGTGGGACATACGGGGAAGGCCAATTTGAGCGTGTAGGCCCACAC
GGGCATGTTGGCCCATAATTCTAAAATTTTCCCTAAGGTCACACAATTTGTTCCGATCAACTGTA
GGCCTACCGTAGGGTCAGTAAGGGCAAACCAAGCCCTGAGTTATGTGATTTGATATTCTGATAGG
CTGCCATCTGTAGGATTCCAATATGTATATATGTTCTGTTTAGAGCATATATATACTATCTGTAT
ATGAGCATGTTATGCATGATATGACTGTATCTGTTATTTCTATATTTGTGATTGGGGTGGGTTTT
GCACATGTGGAGAAAGTGATCTATAAAGCGACACTTCGCCTATATTCTGGCAGCTTGACTGCAAA
TAATCTGTAATGTGTCGCATCGACACTATATGGTGTGTAAAAATGGGTGGATGTTTTGAACCCCA
TATG
Found at i:35415736 original size:7 final size:7
Alignment explanation
Indices: 35415721--35415753 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
35415711 TTTTTTTAGG
35415721 AAAAAGA
1 AAAAAGA
*
35415728 AAAATGA
1 AAAAAGA
35415735 AAAAAGA
1 AAAAAGA
35415742 AAAAAGA
1 AAAAAGA
35415749 AAAAA
1 AAAAA
35415754 ATTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:35417803 original size:18 final size:18
Alignment explanation
Indices: 35417780--35417827 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
35417770 GCACATCTCT
* *
35417780 GAGCTCACCCAAAGATGC
1 GAGCTCACCAAAAAATGC
35417798 GAGCTCACCAAAAAATGC
1 GAGCTCACCAAAAAATGC
* *
35417816 AAGCTCAACAAA
1 GAGCTCACCAAA
35417828 GCTGTGGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (18 bp):
GAGCTCACCAAAAAATGC
Found at i:35417873 original size:34 final size:35
Alignment explanation
Indices: 35417779--35417878 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 35
35417769 CGCACATCTC
* *
35417779 TGAGCTCACCCAAAGATGCGAGCTCACCAAAAAATG
1 TGAGCTCA-CCAAAGCTGCGAGCTCACCAAAAAACG
** * * *
35417815 CAAGCTCAACAAAGCTGTGGGCTCA-CAAAAAACG
1 TGAGCTCACCAAAGCTGCGAGCTCACCAAAAAACG
* *
35417849 TGAGCTCACCAAATCTGCGAGCTCATCAAA
1 TGAGCTCACCAAAGCTGCGAGCTCACCAAA
35417879 GTTGCAAAGT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
34 27 0.54
35 17 0.34
36 6 0.12
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (35 bp):
TGAGCTCACCAAAGCTGCGAGCTCACCAAAAAACG
Found at i:35423494 original size:206 final size:205
Alignment explanation
Indices: 35423209--35423640 Score: 579
Period size: 206 Copynumber: 2.1 Consensus size: 205
35423199 GGCGGTTGTA
35423209 GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAAACG
1 GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAAACG
*
35423274 AAATGCAACGTTTCGTCTT-A-AT-C-TGA-CGGCGCTTACCCGAAAACGCCGCTATATATCAGC
66 AAACGCAACGTTTCGTCTTGACATCCGTGAGCGGCGCTTACCCGAAAACGCCGCTATATATCAGC
*
35423334 TTGTAGTGGAAGCGCCACAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAAAGGCG
131 TTGTAGT-G--GCG---CAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAAAGGCA
*
35423399 TTAGTGACGCTTACCT
190 TTAGCGACGCTTACCT
* * * *
35423415 GAAAACGCCGCTATATCCCTCAATTAGCGGCGCTTAACTAAAAAATGCCGAAAAATTTTAAACCG
1 GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAAACG
*
35423480 AAACG-AAGCGTTTCGTCTTGAGCTATAGCGCCGTTAGCGGCGCTTACCCGAAAACGCCGCTATA
66 AAACGCAA-CGTTTCGTCTTGA-C-AT----CCGTGAGCGGCGCTTACCCGAAAACGCCGCTATA
* * *
35423544 TATTAGCTTTTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGC
124 TATCAGCTTGTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAAAGGC
* **
35423609 ATTAGCGGCGCTTATTT
189 ATTAGCGACGCTTACCT
35423626 GAAAACGCCGCTATA
1 GAAAACGCCGCTATA
35423641 GAGCAACTTT
Statistics
Matches: 200, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
205 2 0.01
206 76 0.38
207 1 0.00
210 2 0.01
211 73 0.37
214 3 0.01
215 1 0.00
216 3 0.01
217 39 0.19
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (205 bp):
GAAAACGCCGCTATATCCCGCAATTAGCGGCGCTTAACTAAAAAACGCCAAAAAATTTTAAAACG
AAACGCAACGTTTCGTCTTGACATCCGTGAGCGGCGCTTACCCGAAAACGCCGCTATATATCAGC
TTGTAGTGGCGCAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAAAGGCATTAGCG
ACGCTTACCT
Found at i:35424148 original size:22 final size:21
Alignment explanation
Indices: 35424082--35424156 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
35424072 TTTGGCCAGT
35424082 TTTAGGGTTTAGA-GTTTATGA
1 TTTAGGGTTTA-ATGTTTATGA
* * *
35424103 TTT-GGTGATGT--TGTTTGTGG
1 TTTAGG-G-TTTAATGTTTATGA
35424123 TTTACGGGTTTAATGTTTATGA
1 TTTA-GGGTTTAATGTTTATGA
35424145 TTTAGGGTTTAA
1 TTTAGGGTTTAA
35424157 GATTTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 15 0.37
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.51
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTATGA
Found at i:35424292 original size:21 final size:20
Alignment explanation
Indices: 35424237--35424297 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
35424227 TAATTGACGG
* *
35424237 GTTTAGGGTTTAAAGTTTAT
1 GTTTGGGGTTTAAGGTTTAT
*
35424257 GATTTGGAGTTTAAGGTTTAT
1 G-TTTGGGGTTTAAGGTTTAT
*
35424278 AGTTTGGGGTTTAAGATTTA
1 -GTTTGGGGTTTAAGGTTTA
35424298 CGGTTAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.48
Consensus pattern (20 bp):
GTTTGGGGTTTAAGGTTTAT
Found at i:35424446 original size:15 final size:15
Alignment explanation
Indices: 35424426--35424455 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35424416 GATATTTTAG
*
35424426 AATATAAATGTAAAT
1 AATATAAATATAAAT
35424441 AATATAAATATAAAT
1 AATATAAATATAAAT
35424456 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:35424689 original size:21 final size:20
Alignment explanation
Indices: 35424649--35424686 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35424639 AATATATTGA
*
35424649 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
35424669 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
35424687 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:35425207 original size:19 final size:19
Alignment explanation
Indices: 35425185--35425229 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
35425175 TTGTCATCTC
*
35425185 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* * *
35425204 CCCCTAATCTCTAATAGTT
1 CCCCAAATCCCTAAAAGTT
35425223 CCCCAAA
1 CCCCAAA
35425230 CCCGACGTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:35431195 original size:43 final size:42
Alignment explanation
Indices: 35431075--35431272 Score: 173
Period size: 43 Copynumber: 4.6 Consensus size: 42
35431065 TTATTACGGC
* * *
35431075 AAAGAACATGACCTTTAGCGGCGCTTGCAGAAAAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTAG-ATAAGCGCCGCT
* * * * * * *
35431118 AAA-AGTCAAGATCTATAGCAGCGATTGTGGGATAAGCGCCGCT
1 AAAGA-ACATGACCTTTAGCGGCGTTTGT-AGATAAGCGCCGCT
* *
35431161 AAAGAACATGACCTTTAGCGGCATTTTTTAGATAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGC-GTTTGTAGATAAGCGCCGCT
* * * *
35431204 AAAGAACATTACTTTTAGTGGCGTTTGTGGAATAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTAG-ATAAGCGCCGCT
***
35431247 AAAGGTTATGACCTTTAGCGGCGTTT
1 AAAGAACATGACCTTTAGCGGCGTTT
35431273 ATTTTTATAA
Statistics
Matches: 120, Mismatches: 30, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.05
43 109 0.91
44 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (42 bp):
AAAGAACATGACCTTTAGCGGCGTTTGTAGATAAGCGCCGCT
Found at i:35434548 original size:17 final size:16
Alignment explanation
Indices: 35434526--35434586 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
35434516 ATGTGCGAGG
*
35434526 TCACCAAAGATGCTAGC
1 TCACCAAAG-TGCAAGC
*
35434543 TCACCAAATCTGCAAGC
1 TCACCAAA-GTGCAAGC
* *
35434560 TCATCAAATGTGCGAGC
1 TCACCAAA-GTGCAAGC
35434577 TCACCAAAGT
1 TCACCAAAGT
35434587 TGTAAGTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 2 0.05
17 35 0.95
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (16 bp):
TCACCAAAGTGCAAGC
Found at i:35436537 original size:57 final size:60
Alignment explanation
Indices: 35436444--35436591 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 60
35436434 ACCCTAATTC
* * * *
35436444 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGGTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATA
*
35436502 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGATATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGAGAGGGATATATC--GATA
35436563 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
35436592 ACCGTCAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 43 0.55
60 1 0.01
61 1 0.01
62 21 0.27
63 6 0.08
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGAGAGGGATATATCGATA
Found at i:35441848 original size:21 final size:22
Alignment explanation
Indices: 35441818--35441859 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35441808 CACTTCACAA
*
35441818 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
35441840 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
35441860 AAAGTCCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:35443951 original size:42 final size:42
Alignment explanation
Indices: 35443888--35444014 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
35443878 GTGTTATCAA
* * * *
35443888 ATAT-CGATGCCACTATCCCAGACAGGGTCCTACACGAAATC
1 ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
* * *
35443929 ATATACGATGCCAATGTTCCAGACATGGTCTTACACGTAATC
1 ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
* * * *
35443971 -TCTAATTGATGCTAATGTCCCAGACAAGGTCTTACACGATATC
1 ATAT-A-CGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
35444014 A
1 A
35444015 CATCTCGGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 6 0.09
42 32 0.46
43 31 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAGACAAGGTCTTACACGAAATC
Found at i:35449449 original size:20 final size:20
Alignment explanation
Indices: 35449393--35449451 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
35449383 TTTTATTAAG
*
35449393 TCGTAAGAAAATTATAAAAAA
1 TCGTAAAAAAATTAT-AAAAA
** *
35449414 T-GTAATGAAA-TATAAAAT
1 TCGTAAAAAAATTATAAAAA
35449432 TCGTAAAAAAATTATAAAAA
1 TCGTAAAAAAATTATAAAAA
35449452 GTTATCGTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 14 0.47
21 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (20 bp):
TCGTAAAAAAATTATAAAAA
Found at i:35449663 original size:20 final size:20
Alignment explanation
Indices: 35449640--35449752 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
35449630 TTTTGATGCA
*
35449640 TTTTATAATTTTTTTATGAT
1 TTTTATAATTTTTTTAAGAT
** *
35449660 TTTTATAA-AATTTTAAAAT
1 TTTTATAATTTTTTTAAGAT
*
35449679 ATTTTATAATTTTTTTACGAT
1 -TTTTATAATTTTTTTAAGAT
* * *
35449700 TTTAAT-ATTTTTTAAATAT
1 TTTTATAATTTTTTTAAGAT
* * *
35449719 TTTTTTATTTTTTATTAA-AA
1 TTTTATAATTTTT-TTAAGAT
*
35449739 TTTAATAATTTTTT
1 TTTTATAATTTTTT
35449753 AAACTTTTAT
Statistics
Matches: 69, Mismatches: 20, Indels: 9
0.70 0.20 0.09
Matches are distributed among these distances:
19 22 0.32
20 37 0.54
21 10 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTTTTAAGAT
Found at i:35449701 original size:29 final size:29
Alignment explanation
Indices: 35449651--35449725 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
35449641 TTTATAATTT
* *
35449651 TTTTATGATTTTTATAAAATTTTAAAATA
1 TTTTATAATTTTTTTAAAATTTTAAAATA
** * *
35449680 TTTTATAATTTTTTTACGATTTTAATATT
1 TTTTATAATTTTTTTAAAATTTTAAAATA
*
35449709 TTTTAAATATTTTTTTA
1 TTTTATA-ATTTTTTTA
35449726 TTTTTTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 29 0.76
30 9 0.24
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTTATAATTTTTTTAAAATTTTAAAATA
Found at i:35449717 original size:11 final size:10
Alignment explanation
Indices: 35449639--35449780 Score: 50
Period size: 10 Copynumber: 14.7 Consensus size: 10
35449629 TTTTTGATGC
*
35449639 ATTTTATAAT
1 ATTTTTTAAT
35449649 -TTTTTT-AT
1 ATTTTTTAAT
*
35449657 GATTTTTATAAA
1 -ATTTTT-TAAT
**
35449669 ATTTTAAAAT
1 ATTTTTTAAT
*
35449679 ATTTTATAAT
1 ATTTTTTAAT
**
35449689 -TTTTTTACG
1 ATTTTTTAAT
35449698 A--TTTTAAT
1 ATTTTTTAAT
35449706 ATTTTTTAAAT
1 ATTTTTT-AAT
35449717 ATTTTTT--T
1 ATTTTTTAAT
*
35449725 ATTTTTTATT
1 ATTTTTTAAT
***
35449735 AAAATTTAAT
1 ATTTTTTAAT
35449745 AATTTTTTAA-
1 -ATTTTTTAAT
* *
35449755 A-CTTTTATT
1 ATTTTTTAAT
* *
35449764 GTTTTTTTAT
1 ATTTTTTAAT
35449774 ATTTTTT
1 ATTTTTT
35449781 TGTCACATGT
Statistics
Matches: 94, Mismatches: 25, Indels: 26
0.65 0.17 0.18
Matches are distributed among these distances:
8 21 0.22
9 12 0.13
10 38 0.40
11 22 0.23
12 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:35449720 original size:19 final size:20
Alignment explanation
Indices: 35449639--35449755 Score: 66
Period size: 19 Copynumber: 6.0 Consensus size: 20
35449629 TTTTTGATGC
*
35449639 ATTTT-ATAATTTTTT-TAT
1 ATTTTAATAATTTTTTAAAT
* * *
35449657 GATTTTTATAAAATTTTAAAAT
1 -ATTTTAAT-AATTTTTTAAAT
* **
35449679 ATTTT-ATAATTTTTTTACG
1 ATTTTAATAATTTTTTAAAT
35449698 ATTTTAAT-ATTTTTTAAAT
1 ATTTTAATAATTTTTTAAAT
* *
35449717 ATTTT-TTTATTTTTTATTAA-
1 ATTTTAATAATTTTTTA--AAT
*
35449737 AATTTAATAATTTTTTAAA
1 ATTTTAATAATTTTTTAAA
35449756 CTTTTATTGT
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 40 0.53
20 10 0.13
21 22 0.29
22 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTAATAATTTTTTAAAT
Found at i:35450037 original size:85 final size:85
Alignment explanation
Indices: 35449948--35450123 Score: 225
Period size: 85 Copynumber: 2.1 Consensus size: 85
35449938 AGGAGCTTAA
* * * *
35449948 TTTTTTTTTTAAA-TTT-ATGGCCTTTTTAATTCATTTTAAAAGTTCAAGTACCCAATTGAGTGC
1 TTTTTTTTTTAAAGTTTGAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGT--
*
35450011 AAAAAAAAAAGG-CTTAATTGC
64 AAAAAAAAAAGGACTTAATTAC
* * *
35450032 -TTTTTTTTTAAAGTTTGAGGGGCTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGTAT
1 TTTTTTTTTTAAAGTTTGAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTAA
35450096 AAAAAAAAGGAACTTAATTAC
66 AAAAAAAAGG-ACTTAATTAC
35450117 TTTTTTT
1 TTTTTTT
35450124 GAAAAGTTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
83 23 0.29
84 3 0.04
85 47 0.59
86 6 0.08
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (85 bp):
TTTTTTTTTTAAAGTTTGAGGGCCTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTAA
AAAAAAAAGGACTTAATTAC
Found at i:35450130 original size:85 final size:84
Alignment explanation
Indices: 35449969--35450135 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 84
35449959 AATTTATGGC
* * * *
35449969 CTTTTTAATTCATTTTAAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAGGCTTAATTGCTT
1 CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGT-CAAAAAAAAAAGGCTTAATTACTT
**
35450034 TTTTTTTAAAGTTTGAGGGG
65 TTTTTGAAAAGTTTGAGGGG
* *
35450054 CTTTTTTATGCATTTTAAAAATTCAAGTACCCAATTAAGT-ATAAAAAAAAGGAACTTAATTACT
1 CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTCAAAAAAAAAAGG--CTTAATTACT
35450118 TTTTTTGAAAAGTTTGAG
64 TTTTTTGAAAAGTTTGAG
35450136 AGCTTTTAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
83 11 0.15
85 61 0.85
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (84 bp):
CTTTTTAATGCATTTTAAAAATTCAAGTACCCAATTAAGTCAAAAAAAAAAGGCTTAATTACTTT
TTTTGAAAAGTTTGAGGGG
Found at i:35459613 original size:19 final size:19
Alignment explanation
Indices: 35459589--35459629 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35459579 GTAAATTTTC
*
35459589 TTTTTTT-TTTCTTCTGAT
1 TTTTTTTATTTCTTATGAT
*
35459607 TTTTTTTATTTGTTATGAT
1 TTTTTTTATTTCTTATGAT
35459626 TTTT
1 TTTT
35459630 ATTAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTTTTATTTCTTATGAT
Found at i:35459628 original size:16 final size:16
Alignment explanation
Indices: 35459609--35459642 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35459599 CTTCTGATTT
**
35459609 TTTTTATTTGTTATGA
1 TTTTTATTAATTATGA
35459625 TTTTTATTAATTATGA
1 TTTTTATTAATTATGA
35459641 TT
1 TT
35459643 AATTTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTTTATTAATTATGA
Found at i:35460683 original size:29 final size:28
Alignment explanation
Indices: 35460651--35460719 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
35460641 GAGAGAGCTG
*
35460651 ATTTTAAATTTGAAAAATAGAAGGACTCA
1 ATTTTAAATTT-AAAAATAGAAGGACTAA
** * * *
35460680 ATTTCTAAAAATAAAAGTATAGGGACTAA
1 ATTT-TAAATTTAAAAATAGAAGGACTAA
35460709 ATTTTAAATTT
1 ATTTTAAATTT
35460720 CTAAAAAGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 5 0.16
29 21 0.68
30 5 0.16
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (28 bp):
ATTTTAAATTTAAAAATAGAAGGACTAA
Found at i:35461083 original size:24 final size:24
Alignment explanation
Indices: 35461049--35461094 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
35461039 TAAATGAAAT
* *
35461049 ATAAATTTTAAATATTTTTAAACC
1 ATAAATATTAAATATTTATAAACC
*
35461073 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
35461095 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACC
Found at i:35461150 original size:14 final size:14
Alignment explanation
Indices: 35461133--35461187 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 14
35461123 AAATATAACT
*
35461133 ATTAAATATTTATA
1 ATTAAATATTTTTA
35461147 ATT-AATATTTTTA
1 ATTAAATATTTTTA
**
35461160 AAAAAATATTTTTA
1 ATTAAATATTTTTA
*
35461174 ATT-AATAATTTTA
1 ATTAAATATTTTTA
35461187 A
1 A
35461188 CACATTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 20 0.59
14 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTAAATATTTTTA
Found at i:35461166 original size:27 final size:27
Alignment explanation
Indices: 35461136--35461187 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
35461126 TATAACTATT
*
35461136 AAATATTTATAATTAATATTTTTAAAA
1 AAATATTTATAATTAATAATTTTAAAA
*
35461163 AAATATTTTTAATTAATAATTTTAA
1 AAATATTTATAATTAATAATTTTAA
35461188 CACATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATATTTATAATTAATAATTTTAAAA
Found at i:35469022 original size:30 final size:30
Alignment explanation
Indices: 35468986--35469050 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
35468976 TCGTCAAGAA
* *
35468986 ATTTAAAATTTTATTTGTTT-TAGTTTGTTT
1 ATTTAAAATTATATGTGTTTATA-TTTGTTT
*
35469016 ATTTAAAATTATGTGTGTTTATATTTGTTT
1 ATTTAAAATTATATGTGTTTATATTTGTTT
35469046 ATTTA
1 ATTTA
35469051 CGGTACACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (30 bp):
ATTTAAAATTATATGTGTTTATATTTGTTT
Found at i:35469286 original size:23 final size:23
Alignment explanation
Indices: 35469256--35469305 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
35469246 ACTTATCAAA
*
35469256 TTCTCTGTCTTTTGACACGCTTT
1 TTCTCTGTCTTTTGACACGATTT
35469279 TTCTCTGTCTTTTGACACGATTT
1 TTCTCTGTCTTTTGACACGATTT
35469302 TTCT
1 TTCT
35469306 TCTAGACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.10, C:0.24, G:0.12, T:0.54
Consensus pattern (23 bp):
TTCTCTGTCTTTTGACACGATTT
Found at i:35470392 original size:15 final size:15
Alignment explanation
Indices: 35470372--35470405 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
35470362 AGGAAGCGAG
35470372 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
35470387 TAGTCCAATAACGCA
1 TAGTCCAATAACGCA
35470402 TAGT
1 TAGT
35470406 GATGGACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (15 bp):
TAGTCCAATAACGCA
Found at i:35477341 original size:14 final size:14
Alignment explanation
Indices: 35477322--35477356 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35477312 TTAAAAATAA
35477322 ACATTTTAATAAAT
1 ACATTTTAATAAAT
*
35477336 ACATTTTATTAAAT
1 ACATTTTAATAAAT
*
35477350 AAATTTT
1 ACATTTT
35477357 TAAATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ACATTTTAATAAAT
Found at i:35486086 original size:57 final size:56
Alignment explanation
Indices: 35485976--35486088 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
35485966 TTTAGGTCAT
* *
35485976 TTTCATTGTGGAGGAAACCACATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
1 TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
* * *
35486032 TTTCATTTTGGAGAAAACCATAATT-ATTTCCAAAT-ATTTTCTATTTCTCTATTTTCA
1 TTTCATTGTGGAGAAAACCA-AATTCATTTCCAAATGA--TTCAATTTCTCCATTTTCA
35486089 CCATTTCTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
55 1 0.02
56 28 0.57
57 20 0.41
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (56 bp):
TTTCATTGTGGAGAAAACCAAATTCATTTCCAAATGATTCAATTTCTCCATTTTCA
Found at i:35486105 original size:10 final size:10
Alignment explanation
Indices: 35486090--35486114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35486080 CTATTTTCAC
35486090 CATTTCTGTT
1 CATTTCTGTT
35486100 CATTTCTGTT
1 CATTTCTGTT
35486110 CATTT
1 CATTT
35486115 GATTCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.60
Consensus pattern (10 bp):
CATTTCTGTT
Found at i:35496149 original size:41 final size:41
Alignment explanation
Indices: 35496091--35496426 Score: 388
Period size: 41 Copynumber: 8.2 Consensus size: 41
35496081 TGAGCTTTTG
* *
35496091 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
** *
35496132 GGGCTTTAGCATTGTTTTTGGGGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * *
35496173 GGTCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * *
35496214 GGGATTTAGC-GATGTTTCTGTGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCAG-CGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * *
35496255 GGGCTTTAGCGGCATTTTTGGGAAAGTGCCGCTAATGCTTA
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
** * *
35496296 GGATTTTAGC-GACATTTTTGGGAAAGCGCCGCTAATGCTCC
1 GGGCTTTAGCAG-CGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * *
35496337 TGGCTTTAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCG
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* **
35496378 GGGCTTTAGCAGCGTTTGTGATAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
*
35496419 GGGATTTA
1 GGGCTTTA
35496427 AAATAATTTA
Statistics
Matches: 248, Mismatches: 43, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 2 0.01
41 244 0.98
42 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:35496619 original size:14 final size:14
Alignment explanation
Indices: 35496600--35496648 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
35496590 TATCACTAGA
*
35496600 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
35496614 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
35496628 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
35496642 GTTTAGG
1 GTTTAGG
35496649 TGTTACCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:35497085 original size:22 final size:21
Alignment explanation
Indices: 35497060--35497113 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
35497050 ATATCCAAAT
35497060 TTTAAGGTTTAGGGATTATGTG
1 TTTAAGGTTTAGGGATTATG-G
* * *
35497082 TTTAGGGATTATGGATTATGG
1 TTTAAGGTTTAGGGATTATGG
*
35497103 TTTATGGTTTA
1 TTTAAGGTTTA
35497114 AGGTTTGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTAGGGATTATGG
Done.