Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 109 of 325
Found at i:35144519 original size:143 final size:143
Alignment explanation
Indices: 35144345--35144753 Score: 646
Period size: 143 Copynumber: 2.9 Consensus size: 143
35144335 TATTTGAATA
35144345 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
35144410 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
*
35144475 ATGGCCGATGTGATG
129 ATAGCCGATGTGATG
* * * *
35144490 AATGTGAAAATGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
* *
35144555 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
35144618 ATAGCCGATGTGATG
129 ATAGCCGATGTGATG
35144633 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
35144698 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
35144754 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
141 50 0.21
142 1 0.00
143 132 0.55
145 59 0.24
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
AGCCGATGTGATG
Found at i:35151000 original size:21 final size:21
Alignment explanation
Indices: 35150974--35151024 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
35150964 GGCAGTAGTA
** *
35150974 AGGGAAGCAGAGGTGGCAGTG
1 AGGGAAGCAGAGGCAGCAGCG
*
35150995 AGGGAAGTAGAGGCAGCAGCG
1 AGGGAAGCAGAGGCAGCAGCG
35151016 AGGGAAGCA
1 AGGGAAGCA
35151025 AGGGAAGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.49, T:0.06
Consensus pattern (21 bp):
AGGGAAGCAGAGGCAGCAGCG
Found at i:35151408 original size:43 final size:43
Alignment explanation
Indices: 35151355--35151447 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
35151345 CACAAACGCT
* * * *
35151355 GCTAAAGAACAAT-AATTTTAGCGGCGCTTTTACCAAAAATACC
1 GCTAAAGAAC-ATGAACTTTAGCAGCGCTTCTACCAAAAACACC
* *
35151398 GCTATAGAACATGACCTTTAGCAGCGCTTCTACCAAAAACACC
1 GCTAAAGAACATGAACTTTAGCAGCGCTTCTACCAAAAACACC
35151441 GCTAAAG
1 GCTAAAG
35151448 GTCATGTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (43 bp):
GCTAAAGAACATGAACTTTAGCAGCGCTTCTACCAAAAACACC
Found at i:35151479 original size:43 final size:43
Alignment explanation
Indices: 35151432--35151547 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
35151422 CGCTTCTACC
* *
35151432 AAAAACACCGCTAAAGGTCATGTTCTATAGCGA-CGTTTGTGGA
1 AAAAACGCCGCTAAAGGTCACGTTCTATAGC-ATCGTTTGTGGA
* *
35151475 AAAAACGCCGCTAAAGGTCACGTTCTGTAGCATCGTTTGTTGA
1 AAAAACGCCGCTAAAGGTCACGTTCTATAGCATCGTTTGTGGA
*
35151518 AAAAACGCCACTAAAGGTCACGTTCTATAG
1 AAAAACGCCGCTAAAGGTCACGTTCTATAG
35151548 TGGGTGTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCACGTTCTATAGCATCGTTTGTGGA
Found at i:35155432 original size:33 final size:33
Alignment explanation
Indices: 35155395--35155514 Score: 134
Period size: 33 Copynumber: 3.6 Consensus size: 33
35155385 TCCCAAATGT
**
35155395 AATTCAATCAAATTGTTTCAAACAATTCCATGC
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
* *
35155428 AATTCAATTAGATCATTTCAAACAATTCCATGC
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
** * * *
35155461 AATTTTATTAGATCATTTCAAACAATTCCATGT
1 AATTCAATCAAATCATTTCAAACAATTCCATGC
*
35155494 AATTTAATCAAAAT-ATTTCAA
1 AATTCAATC-AAATCATTTCAA
35155515 GCCGCCTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
33 73 0.96
34 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (33 bp):
AATTCAATCAAATCATTTCAAACAATTCCATGC
Found at i:35179241 original size:21 final size:21
Alignment explanation
Indices: 35179215--35179256 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35179205 GTACTGAAAA
*
35179215 CCTGTCAGCCAATTACAATGT
1 CCTGTCAGCCAATTAAAATGT
*
35179236 CCTGTCAGCTAATTAAAATGT
1 CCTGTCAGCCAATTAAAATGT
35179257 TATTTGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (21 bp):
CCTGTCAGCCAATTAAAATGT
Found at i:35182458 original size:42 final size:42
Alignment explanation
Indices: 35182395--35182480 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
35182385 AACTACACAA
*
35182395 ACACACATACAGAGAACTTCCTACTTACACACAGCAAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
* * *
35182437 ACACACATACAGAGCATTTCCTACTAACACACAGCGAACTTT
1 ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
35182479 AC
1 AC
35182481 CTTTTTGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.31, G:0.08, T:0.21
Consensus pattern (42 bp):
ACACACATACAGAGAACTTCCTACTAACACACAGCAAACTTT
Found at i:35184067 original size:37 final size:37
Alignment explanation
Indices: 35184017--35184093 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
35184007 TCTCACTTCA
35184017 TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
1 TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
35184054 TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
1 TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
35184091 TAA
1 TAA
35184094 GTACAACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (37 bp):
TAATAGGATCTTTCGGTTACTAGAACATAAAATAAAC
Found at i:35187380 original size:79 final size:81
Alignment explanation
Indices: 35187244--35187428 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35187234 TTGAATGATG
*
35187244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35187308 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35187323 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35187385 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35187403 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35187429 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35187442 original size:40 final size:40
Alignment explanation
Indices: 35187245--35187428 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35187235 TGAATGATGT
* * * *
35187245 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35187285 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35187325 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35187363 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35187404 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35187429 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35187450 original size:79 final size:79
Alignment explanation
Indices: 35187297--35187461 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35187287 GGACTAAGAT
* **
35187297 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35187362 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35187376 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35187439 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35187455 CCGAAGG
1 CCGAAGG
35187462 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35195345 original size:79 final size:81
Alignment explanation
Indices: 35195209--35195393 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35195199 TTGAATGATG
*
35195209 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35195273 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35195288 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35195350 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35195368 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35195394 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35195407 original size:40 final size:40
Alignment explanation
Indices: 35195210--35195393 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35195200 TGAATGATGT
* * * *
35195210 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35195250 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35195290 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35195328 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35195369 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35195394 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35195415 original size:79 final size:79
Alignment explanation
Indices: 35195262--35195426 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35195252 GGACTAAGAT
* **
35195262 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35195327 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35195341 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35195404 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35195420 CCGAAGG
1 CCGAAGG
35195427 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35200959 original size:28 final size:27
Alignment explanation
Indices: 35200927--35200981 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
35200917 AAAAATAATT
*
35200927 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
35200955 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
35200982 TGAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:35206806 original size:11 final size:11
Alignment explanation
Indices: 35206792--35206821 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35206782 TTTATTCATT
35206792 TTTTAATTTTG
1 TTTTAATTTTG
35206803 TTTTAATTTTG
1 TTTTAATTTTG
*
35206814 TTTAAATT
1 TTTTAATT
35206822 ACAAAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (11 bp):
TTTTAATTTTG
Found at i:35207895 original size:16 final size:19
Alignment explanation
Indices: 35207874--35207911 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
35207864 TGAATGTTTC
35207874 TCATTTC-TTT-TTT-TAT
1 TCATTTCGTTTATTTCTAT
35207890 TCATTTCGTTTATTTCTAT
1 TCATTTCGTTTATTTCTAT
35207909 TCA
1 TCA
35207912 AACACGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 3 0.16
19 6 0.32
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.66
Consensus pattern (19 bp):
TCATTTCGTTTATTTCTAT
Found at i:35211459 original size:6 final size:6
Alignment explanation
Indices: 35211448--35211473 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35211438 AGCAGTAATG
35211448 GCTGAA GCTGAA GCTGAA GCTGAA GC
1 GCTGAA GCTGAA GCTGAA GCTGAA GC
35211474 AGCAATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.35, T:0.15
Consensus pattern (6 bp):
GCTGAA
Found at i:35216716 original size:69 final size:69
Alignment explanation
Indices: 35216605--35216743 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
35216595 CAAGACTATA
*
35216605 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
35216670 CCTG
66 CCTG
35216674 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
35216739 CCTG
66 CCTG
35216743 T
1 T
35216744 TTTTCCTATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:35219839 original size:45 final size:45
Alignment explanation
Indices: 35219755--35219841 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
35219745 AACCTTAATT
* * *
35219755 CTATTAACCCTCTAGTAGGGTATTTCTCCTAAAAGTCTTACTGTC
1 CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
* *
35219800 CTATTAACCTTCTAGT-GGAGTATTTATACTAGAACTCTTACT
1 CTATTAACCCTCTAGTAGG-GTATTTATACTAAAACTCTTACT
35219842 ATTAACAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (45 bp):
CTATTAACCCTCTAGTAGGGTATTTATACTAAAACTCTTACTGTC
Found at i:35227169 original size:9 final size:9
Alignment explanation
Indices: 35227155--35227180 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35227145 TTTTAATGTG
35227155 AAAATAAAA
1 AAAATAAAA
35227164 AAAATAAAA
1 AAAATAAAA
35227173 AAAATAAA
1 AAAATAAA
35227181 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:35231574 original size:5 final size:5
Alignment explanation
Indices: 35231564--35231611 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
35231554 CCAATTTGTG
35231564 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
35231612 GAACACACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35233337 original size:46 final size:45
Alignment explanation
Indices: 35233231--35233453 Score: 158
Period size: 46 Copynumber: 4.9 Consensus size: 45
35233221 ATAATGAATC
* * * * * * * *
35233231 ATAGTGCTTGGTTACCCATCAGGGTTAAACCTAAACGAATCGGATG
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * *
35233277 ATAATGCCTAGTCACCCATTAGGGTTGAACTTACACAAATCAGATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * * * *
35233323 ATAGTGAATGGTCACTCGTCAGGGTTGAACCTACACGAATAATATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAAT-AGATA
* * * * * * *
35233369 ATAATGCCTAGTCACTCGTTAGGGTTAAACCTACACGAATAGGATA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAATA-GATA
* * *
35233415 ATAGTGCTTGGTTACCCATTAAGGTTGAACCTACACAAA
1 ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAA
35233454 AAATAGCCTA
Statistics
Matches: 138, Mismatches: 38, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
45 1 0.01
46 137 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (45 bp):
ATAGTGCATGGTCACCCATTAGGGTTGAACCTACACAAATAGATA
Found at i:35233441 original size:92 final size:93
Alignment explanation
Indices: 35233196--35233450 Score: 280
Period size: 92 Copynumber: 2.8 Consensus size: 93
35233186 GCGTTTGGTT
* * * * *
35233196 ACTCGTTTGGGTTAAACCTATACGAATAATGAATCATAGTGCTTGGTTACCCATCAGGGTTAAAC
1 ACTCGTTAGGGTTAAACCTACACGAATAA-GGATAATAGTGCTTGGTTACCCATCAGGGTTGAAC
* ** *
35233261 CTAAACGAATCGGATGATAATGCCTAGTC
65 CTACACGAATAAGATAATAATGCCTAGTC
* * * * * * ** * * *
35233290 ACCCATTAGGGTTGAACTTACACAAATCA-GATAATAGTGAATGGTCACTCGTCAGGGTTGAACC
1 ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
*
35233354 TACACGAATAATATAATAATGCCTAGTC
66 TACACGAATAAGATAATAATGCCTAGTC
* *
35233382 ACTCGTTAGGGTTAAACCTACACGAAT-AGGATAATAGTGCTTGGTTACCCATTAAGGTTGAACC
1 ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
35233446 TACAC
66 TACAC
35233451 AAAAAATAGC
Statistics
Matches: 127, Mismatches: 33, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
91 1 0.01
92 105 0.83
94 21 0.17
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (93 bp):
ACTCGTTAGGGTTAAACCTACACGAATAAGGATAATAGTGCTTGGTTACCCATCAGGGTTGAACC
TACACGAATAAGATAATAATGCCTAGTC
Found at i:35237940 original size:46 final size:44
Alignment explanation
Indices: 35237886--35238062 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
35237876 AATTTTGGGC
35237886 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
35237930 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* * *
35237979 ATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GA
* *
35238024 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35238063 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 69 0.63
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:35238042 original size:93 final size:93
Alignment explanation
Indices: 35237883--35238054 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
35237873 AGGAATTTTG
* * ***
35237883 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
35237948 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
35237976 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
35238041 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35238055 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:35240712 original size:79 final size:82
Alignment explanation
Indices: 35240601--35240785 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
35240591 GCTACTCGTT
* *
35240601 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35240664 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35240681 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35240744 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35240761 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35240786 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35240785 original size:40 final size:40
Alignment explanation
Indices: 35240582--35240785 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35240572 CGGAATTTAA
** *
35240582 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35240622 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35240662 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35240701 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35240741 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35240781 CCGGA
1 CCGGA
35240786 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35246307 original size:27 final size:26
Alignment explanation
Indices: 35246259--35246310 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35246249 GCGAGGCTAC
*
35246259 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35246285 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35246311 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35249850 original size:55 final size:55
Alignment explanation
Indices: 35249784--35249889 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
35249774 CCCCTAGGGT
*
35249784 TAAGGTTGACCTGAATGCATGTTTGACT-TTACTATTTACTGCATGCCATGTCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTT-CTACATGCCATGTCTGA
35249839 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGT
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGT
35249890 TATTATTATT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
55 40 0.82
56 9 0.18
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (55 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTCTACATGCCATGTCTGA
Found at i:35253203 original size:28 final size:28
Alignment explanation
Indices: 35253171--35253226 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35253161 CTATACACAT
35253171 AACTAACCATTCATCATTTACAAGCCAA
1 AACTAACCATTCATCATTTACAAGCCAA
35253199 AACTAACCATTCATCATTTACAAGCCAA
1 AACTAACCATTCATCATTTACAAGCCAA
35253227 CTTAAATAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.25
Consensus pattern (28 bp):
AACTAACCATTCATCATTTACAAGCCAA
Found at i:35257093 original size:18 final size:17
Alignment explanation
Indices: 35257052--35257095 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
35257042 CATATATATC
35257052 AAAATTAT-AATATTAA
1 AAAATTATAAATATTAA
*
35257068 ATAA-TATAAATATTATA
1 AAAATTATAAATATTA-A
35257085 AAAATTATAAA
1 AAAATTATAAA
35257096 AAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 10 0.43
17 4 0.17
18 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATAAATATTAA
Found at i:35286314 original size:48 final size:46
Alignment explanation
Indices: 35286227--35286352 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 46
35286217 ATGTCCCGAG
* * *
35286227 GCCGATGCATGTCGCAGACATGTCTTACACTAGCACTCGT-CTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTAATCAA
* ** **
35286272 TGCCGATGCCATGTCTCAGACATGGTCTTACACTAATTCTCGTAATGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTCGTAATCAA
*
35286321 GCCGATGCGTGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
35286353 GCTCACACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 18 0.26
47 25 0.37
48 23 0.34
49 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTAATCAA
Found at i:35294386 original size:47 final size:47
Alignment explanation
Indices: 35294329--35294456 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
35294319 CTCAATCGAT
* *
35294329 AAGTATCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* * * * *
35294376 AAGTACCTATACCTTGGCCCGTAGCCAAATCAAGGCAACTTCTCTCT
1 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
* *
35294423 AAATACCTATACCATGGCCCT-TAACCAAATCAAG
1 AAGTACCTATACCATGG-CCTGTAGCCAAATCAAG
35294457 CTATTATTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
47 67 0.97
48 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCG
Found at i:35297033 original size:73 final size:73
Alignment explanation
Indices: 35296914--35297060 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
35296904 TGTGGTCGAT
* *
35296914 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAGGGCACATGCCTGTGCC
1 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAAGGCACATGCCCGTGCC
35296979 TGTGGCCG
66 TGTGGCCG
35296987 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAAGGCACATGCCCGTGCC
1 TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAAGGCACATGCCCGTGCC
35297052 TGTGGCCG
66 TGTGGCCG
35297060 T
1 T
35297061 GTCATCCACA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (73 bp):
TTAATTTTCATAATTTTTCATAAAATAGGTGCAGACTTCACACGCCCAAGGCACATGCCCGTGCC
TGTGGCCG
Found at i:35297579 original size:25 final size:25
Alignment explanation
Indices: 35297549--35297596 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
35297539 AATTAATTAT
* *
35297549 GACACATAACAAAATGGCCAAGTTC
1 GACACAAAACAAAATGACCAAGTTC
35297574 GACACAAAACAAAATGACCAAGT
1 GACACAAAACAAAATGACCAAGT
35297597 CCCTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (25 bp):
GACACAAAACAAAATGACCAAGTTC
Found at i:35298090 original size:42 final size:41
Alignment explanation
Indices: 35298044--35298197 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
35298034 TATCGTACCA
*
35298044 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATCTCATATCG
* *
35298086 ATGCCAATAGCCCA-ACTATGGTCTTACATGAAATCTCATATCA
1 ATGCC-ATATCCCAGA-TATGGTCTTACATG-AATCTCATATCG
* * * * *
35298129 ATGTCATATCCTAGATATGGTCTGACACGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAA-TCTCATATCG
*
35298171 ATCCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
35298198 CATAGTCTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 55 0.59
43 36 0.39
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATCTCATATCG
Found at i:35306646 original size:40 final size:39
Alignment explanation
Indices: 35306586--35306843 Score: 277
Period size: 40 Copynumber: 6.5 Consensus size: 39
35306576 CGGATGATAA
* * * *
35306586 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
35306626 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
35306666 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
35306706 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
35306746 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* * *
35306786 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
35306826 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35306844 TACTTGGCTT
Statistics
Matches: 192, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 15 0.08
40 177 0.92
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:35306799 original size:120 final size:120
Alignment explanation
Indices: 35306586--35306808 Score: 333
Period size: 120 Copynumber: 1.9 Consensus size: 120
35306576 CGGATGATAA
* * * *
35306586 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
*
35306651 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
* *
35306706 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCACGAG-TGACTAGT-TCCGGGATAAGTCCCGAAGGCATT
* *
35306769 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATT
35306809 CGAGCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
119 1 0.01
120 90 0.98
121 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
Found at i:35306828 original size:120 final size:120
Alignment explanation
Indices: 35306586--35306843 Score: 317
Period size: 120 Copynumber: 2.2 Consensus size: 120
35306576 CGGATGATAA
* * * *
35306586 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
* * * *
35306651 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTACAT
* *
35306706 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCACGAG-TGACTAGT-TCCGGGATAAGTCCCGAAGGCATT
* * * *
35306769 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTA-CTACAT
* *
35306826 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35306844 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
119 17 0.14
120 101 0.85
121 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCACGAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTACAT
Found at i:35315053 original size:40 final size:40
Alignment explanation
Indices: 35314775--35315072 Score: 332
Period size: 40 Copynumber: 7.5 Consensus size: 40
35314765 CGGATGATAA
* * * *
35314775 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * * *
35314815 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
35314855 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35314895 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35314935 CCGGGCTAAGTCCTGAAGGCATTTGTCCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35314975 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
35315015 CCGAGCTACGTCCCGAAGGCATTCGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35315055 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35315073 TACTTGGCTT
Statistics
Matches: 230, Mismatches: 27, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
39 13 0.06
40 217 0.94
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35325469 original size:42 final size:42
Alignment explanation
Indices: 35325358--35325513 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
35325348 TACCATACCA
* * *
35325358 ATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * * *
35325400 ACGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
35325443 ATGCCATATCCCAGGTATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
35325485 ATGCCATATCCCAGATATGCTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
35325514 TAGTTTTAGT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 63 0.65
43 34 0.35
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:35329404 original size:15 final size:16
Alignment explanation
Indices: 35329384--35329415 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35329374 TCAATACACC
35329384 GGCAC-AAGCCTACTA
1 GGCACAAAGCCTACTA
35329399 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
35329415 G
1 G
35329416 CACTAGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:35329440 original size:22 final size:22
Alignment explanation
Indices: 35329395--35329436 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35329385 GCACAAGCCT
35329395 ACTAGGCACAAAGCCTACTAGC
1 ACTAGGCACAAAGCCTACTAGC
*
35329417 ACTA-GCACAAAGCCTGCTAG
1 ACTAGGCACAAAGCCTACTAG
35329437 GCACAGAGCG
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:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (22 bp):
ACTAGGCACAAAGCCTACTAGC
Found at i:35338359 original size:27 final size:27
Alignment explanation
Indices: 35338301--35338373 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
35338291 GGATGTTACA
* * *
35338301 AATGTCCTATCGAACTATCCCGTGTTT
1 AATGTCCCATCGAACTATCCCATATTT
* *
35338328 AATGTCCCATCGGACTATCTCATATTT
1 AATGTCCCATCGAACTATCCCATATTT
* * *
35338355 TATGTCCCGTCAAACTATC
1 AATGTCCCATCGAACTATC
35338374 AAAGGATGCC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (27 bp):
AATGTCCCATCGAACTATCCCATATTT
Found at i:35339367 original size:67 final size:67
Alignment explanation
Indices: 35339258--35339393 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
35339248 GTCGGCCCAA
*
35339258 ATGTATACCACAACTCGGTGGATGTTGATTATGAGAATTTTTTTCATGGTTGGAATTTTGACTCA
1 ATGTATACCACAACTCGGTGGATGTTGATTATGAGAAATTTTTTCATGGTTGGAATTTTGACTCA
35339323 TC
66 TC
*
35339325 ATGTATGCCACAACTCGGTGGATGTTGATTATGAGAAATTTTTTCATGGTTGGAATTTTGACTCA
1 ATGTATACCACAACTCGGTGGATGTTGATTATGAGAAATTTTTTCATGGTTGGAATTTTGACTCA
35339390 TC
66 TC
35339392 AT
1 AT
35339394 TTTCTTATTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (67 bp):
ATGTATACCACAACTCGGTGGATGTTGATTATGAGAAATTTTTTCATGGTTGGAATTTTGACTCA
TC
Found at i:35341688 original size:38 final size:37
Alignment explanation
Indices: 35341646--35341718 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
35341636 GCGTTATTCG
* *
35341646 GGCTCTATGCCTAGCACGCTTTGTGCCGGTGATATTTA
1 GGCTCTATGCCTAGCACGCTTCGTGCCAGT-ATATTTA
* *
35341684 GGCTCTGTGCCTAGCAGGCTTCGTGCCAGTATATT
1 GGCTCTATGCCTAGCACGCTTCGTGCCAGTATATT
35341719 ATATTAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (37 bp):
GGCTCTATGCCTAGCACGCTTCGTGCCAGTATATTTA
Found at i:35344200 original size:3 final size:3
Alignment explanation
Indices: 35344192--35344229 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
35344182 TTCCAAAAAC
35344192 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35344230 CCATAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35348077 original size:16 final size:15
Alignment explanation
Indices: 35348054--35348086 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35348044 GAAATATTTT
*
35348054 AAATATA-AATGCTA
1 AAATATATAATACTA
35348068 AAATATATAATACTA
1 AAATATATAATACTA
35348083 AAAT
1 AAAT
35348087 TTACAACGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATATATAATACTA
Found at i:35348210 original size:17 final size:17
Alignment explanation
Indices: 35348188--35348244 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
35348178 TTTTATGAAT
35348188 AAAAGATTTATTAATTA
1 AAAAGATTTATTAATTA
** **
35348205 AAAAGATGAATTAAAAA
1 AAAAGATTTATTAATTA
*
35348222 ACAATATATTTATTAATTA
1 A-AA-AGATTTATTAATTA
35348241 AAAA
1 AAAA
35348245 TAAAAAAAGC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
17 15 0.52
18 4 0.14
19 10 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (17 bp):
AAAAGATTTATTAATTA
Found at i:35350077 original size:15 final size:17
Alignment explanation
Indices: 35350057--35350088 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35350047 TCATTTCATT
35350057 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
35350072 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
35350089 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:35351903 original size:29 final size:29
Alignment explanation
Indices: 35351861--35351918 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
35351851 TAAATAAATT
35351861 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
35351890 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
35351919 TCGGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:35355562 original size:21 final size:21
Alignment explanation
Indices: 35355538--35355578 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35355528 AGATTGATTA
* *
35355538 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
35355559 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
35355579 ATCAGTAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:35357412 original size:6 final size:6
Alignment explanation
Indices: 35357401--35357497 Score: 59
Period size: 5 Copynumber: 17.2 Consensus size: 6
35357391 GGGATCACTA
35357401 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* * * **
35357444 A-GAAT A-GAAT AGTAAT -CTAAT ACTCTAAT ACTAAT AAAAAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT -ACTAAT ACTAAT
35357492 A-TAAT A
1 ACTAAT A
35357498 GAAAGAAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
4 3 0.04
5 31 0.41
6 31 0.41
7 4 0.05
8 6 0.08
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:35357423 original size:20 final size:21
Alignment explanation
Indices: 35357397--35357442 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
35357387 AGCCGGGATC
35357397 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
35357418 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
35357438 ACTAA
1 ACTAA
35357443 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:35357436 original size:11 final size:11
Alignment explanation
Indices: 35357397--35357443 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
35357387 AGCCGGGATC
35357397 ACTAA-CTAAT
1 ACTAATCTAAT
35357407 ACTAATCTAAT
1 ACTAATCTAAT
35357418 -CTAA-CTAAT
1 ACTAATCTAAT
35357427 ACTAATCTAAT
1 ACTAATCTAAT
35357438 ACTAAT
1 ACTAAT
35357444 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:35374138 original size:21 final size:21
Alignment explanation
Indices: 35374099--35374138 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35374089 TTTATTTAAA
*
35374099 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
35374120 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
35374139 TGCTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:35374179 original size:21 final size:21
Alignment explanation
Indices: 35374146--35374186 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35374136 AATTGCTGAT
* *
35374146 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
35374167 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
35374187 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:35376390 original size:15 final size:15
Alignment explanation
Indices: 35376366--35376395 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35376356 CTCCGACTCT
35376366 TTGGTCTTAAGAATG
1 TTGGTCTTAAGAATG
*
35376381 TTGGTTTTAAGAATG
1 TTGGTCTTAAGAATG
35376396 AGTGATTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (15 bp):
TTGGTCTTAAGAATG
Found at i:35377115 original size:18 final size:18
Alignment explanation
Indices: 35377082--35377175 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
35377072 AAGGTTTTCT
35377082 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
35377097 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
35377115 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
35377133 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
35377151 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
35377169 TATTGAT
1 TATTGAT
35377176 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:35388202 original size:12 final size:12
Alignment explanation
Indices: 35388177--35388214 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
35388167 ACAAAACAAC
35388177 ATAAAAT-A-AG
1 ATAAAATAACAG
35388187 ATAAAATAACAG
1 ATAAAATAACAG
*
35388199 ATAAAATAACAT
1 ATAAAATAACAG
35388211 ATAA
1 ATAA
35388215 CATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
11 1 0.04
12 17 0.68
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (12 bp):
ATAAAATAACAG
Found at i:35395351 original size:30 final size:30
Alignment explanation
Indices: 35395329--35395417 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 30
35395319 ATTTTCTTTC
35395329 TATATTATT-ATATTATTAATA-TTATTTA
1 TATATTATTAATATTATTAATATTTATTTA
*
35395357 TATATTATTAAATATTATTAATA--TATTAA
1 TATATTATT-AATATTATTAATATTTATTTA
* * *
35395386 AATATTATTAATA-TATTAAAATTTATATA
1 TATATTATTAATATTATTAATATTTATTTA
35395415 TAT
1 TAT
35395418 TTAAATTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.14
28 13 0.25
29 19 0.37
30 12 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TATATTATTAATATTATTAATATTTATTTA
Found at i:35395357 original size:21 final size:20
Alignment explanation
Indices: 35395331--35395403 Score: 103
Period size: 19 Copynumber: 3.6 Consensus size: 20
35395321 TTTCTTTCTA
*
35395331 TATTATTATATTATTAATAT
1 TATTAATATATTATTAATAT
*
35395351 TATTTATATATTATTAAATAT
1 TATTAATATATTATT-AATAT
*
35395372 TATTAATATATTA-AAATAT
1 TATTAATATATTATTAATAT
35395391 TATTAATATATTA
1 TATTAATATATTA
35395404 AAATTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
19 18 0.38
20 13 0.27
21 17 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAATATATTATTAATAT
Found at i:35395394 original size:11 final size:10
Alignment explanation
Indices: 35395330--35395403 Score: 77
Period size: 10 Copynumber: 7.6 Consensus size: 10
35395320 TTTTCTTTCT
35395330 ATATTATT--
1 ATATTATTAA
35395338 ATATTATT-A
1 ATATTATTAA
*
35395347 ATATTATTTAT
1 ATATTA-TTAA
35395358 ATATTATTAA
1 ATATTATTAA
35395368 ATATTATT-A
1 ATATTATTAA
35395377 ATA-TATTAAA
1 ATATTATT-AA
35395387 ATATTATTAA
1 ATATTATTAA
35395397 TATATTA
1 -ATATTA
35395404 AAATTTATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
8 12 0.21
9 10 0.18
10 19 0.33
11 16 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTATTAA
Found at i:35395429 original size:17 final size:16
Alignment explanation
Indices: 35395352--35395430 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 16
35395342 TATTAATATT
35395352 ATTTATATATTATT-AA
1 ATTTATATA-TATTAAA
35395368 ATATTATTAATATATTAAA
1 AT-TTA-T-ATATATTAAA
35395387 ATATTATTAATATATTAAA
1 AT-TTA-T-ATATATTAAA
*
35395406 ATTTATATATATTTAA
1 ATTTATATATATTAAA
35395422 A-TTATATAT
1 ATTTATATAT
35395431 TGAAATGATA
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
15 8 0.14
16 12 0.21
17 4 0.07
18 8 0.14
19 26 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTATATATATTAAA
Found at i:35400940 original size:12 final size:12
Alignment explanation
Indices: 35400923--35400948 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35400913 CAGAGGCTAT
35400923 TAACAATATTTA
1 TAACAATATTTA
35400935 TAACAATATTTA
1 TAACAATATTTA
35400947 TA
1 TA
35400949 TTTATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:35402269 original size:21 final size:21
Alignment explanation
Indices: 35402229--35402267 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35402219 AAATCATGGA
35402229 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
*
35402250 TAAATCCAAGTGA-TCTTT
1 TAAATCCAAGCGACTCTTT
35402268 TCGTAGGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:35402611 original size:13 final size:13
Alignment explanation
Indices: 35402593--35402620 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35402583 GTTATTCATA
35402593 ATTAATATGAATT
1 ATTAATATGAATT
35402606 ATTAATATGAATT
1 ATTAATATGAATT
35402619 AT
1 AT
35402621 AGACTCGAAT
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:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:35402929 original size:17 final size:17
Alignment explanation
Indices: 35402907--35402945 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
35402897 CTGACTCCAT
*
35402907 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
35402924 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
35402941 TTTTA
1 TTTTA
35402946 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:35403233 original size:27 final size:28
Alignment explanation
Indices: 35403203--35403259 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
35403193 AAATGAATGG
*
35403203 AATAATTAGTTCTAGTTATTA-AATATA
1 AATAATTAGTTCTAGCTATTATAATATA
*
35403230 AATAATTAGTTCTAGCTATTATACTATA
1 AATAATTAGTTCTAGCTATTATAATATA
35403258 AA
1 AA
35403260 AATAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATAATTAGTTCTAGCTATTATAATATA
Found at i:35409396 original size:23 final size:23
Alignment explanation
Indices: 35409370--35409415 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35409360 GGGATATTAG
35409370 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
35409393 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
35409416 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:35417865 original size:17 final size:18
Alignment explanation
Indices: 35417824--35417866 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
35417814 TGTATTTACT
35417824 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
35417842 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
35417859 TATTATAT
1 TATTATAT
35417867 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:35417988 original size:11 final size:11
Alignment explanation
Indices: 35417964--35417997 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
35417954 GAATAGCAGG
35417964 GAAAGAAAGAAA
1 GAAA-AAAGAAA
*
35417976 GAAAAAGGAAA
1 GAAAAAAGAAA
35417987 GAAAAAAGAAA
1 GAAAAAAGAAA
35417998 AGGAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:35419874 original size:22 final size:22
Alignment explanation
Indices: 35419840--35419895 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
35419830 CGGGTTGATG
* *
35419840 ACACGGGCATGTCACATCAGCC
1 ACACCGGCATGTCACACCAGCC
*
35419862 ACACCGGCGTGTCACACCAGCC
1 ACACCGGCATGTCACACCAGCC
*
35419884 ACACGGGCATGT
1 ACACCGGCATGT
35419896 GGTACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (22 bp):
ACACCGGCATGTCACACCAGCC
Found at i:35435597 original size:39 final size:40
Alignment explanation
Indices: 35435392--35435609 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
35435382 ACCCAAGTAT
* * * *
35435392 CTTCGGGATTTAG-CCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * **
35435431 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
35435471 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
35435511 CTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTA---GCACAAATGC
*
35435553 CTTCGGGACTTAG-CCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
35435592 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
35435610 TATCATCCGA
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 43 0.27
40 79 0.50
41 4 0.03
42 32 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:35435597 original size:81 final size:78
Alignment explanation
Indices: 35435392--35435612 Score: 300
Period size: 81 Copynumber: 2.8 Consensus size: 78
35435382 ACCCAAGTAT
* * * * *
35435392 CTTCGGGATTTAGCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTC
**
35435457 ACTAGCATGAATGC
65 ACTAGCACAAATGC
*
35435471 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAG-C
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTC
35435535 AACTACTCGCACAAATGC
65 -ACTA---GCACAAATGC
*
35435553 CTTCGGGACTTAGCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTAT
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTAT
35435613 CATCCGAATA
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 21 0.17
80 39 0.31
81 45 0.35
82 21 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (78 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTCA
CTAGCACAAATGC
Found at i:35443526 original size:40 final size:40
Alignment explanation
Indices: 35443448--35443669 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
35443438 ACCCAAGTAT
* *
35443448 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
35443487 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35443527 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35443567 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
35443610 CTTCGGGACTTAGCCC-GATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35443649 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCCGGATAT
35443670 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 43 0.26
40 85 0.52
41 1 0.01
42 9 0.05
43 26 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35445631 original size:37 final size:37
Alignment explanation
Indices: 35445580--35445655 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
35445570 ATGGTCGATG
*
35445580 TTGTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCC--ATGAGATGTGGCTTATAATGAT
35445617 TTGTTGT-ATGTAGCCATGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCATGAGATGTGGCTTATAATGAT
35445654 TT
1 TT
35445656 TGACTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
35 3 0.09
36 4 0.11
37 28 0.80
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (37 bp):
TTGTTGTGATTAGCCATGAGATGTGGCTTATAATGAT
Found at i:35453589 original size:36 final size:37
Alignment explanation
Indices: 35453502--35453589 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 37
35453492 CGAATATTTT
* *
35453502 AAATTTTTATG-AAATTTTAATTAGTATTATGAAATA
1 AAATTTTTATGAAAATATTAATTAGTATTATGAAAGA
* **
35453538 AAATTATTA-GAAAAATATT-ATT-GTATGTATGTTAGA
1 AAATTTTTATG-AAAATATTAATTAGTAT-TATGAAAGA
35453574 AAATTTTTATGAAAAT
1 AAATTTTTATGAAAAT
35453590 TTTTATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
35 5 0.12
36 30 0.71
37 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.44
Consensus pattern (37 bp):
AAATTTTTATGAAAATATTAATTAGTATTATGAAAGA
Found at i:35456034 original size:20 final size:20
Alignment explanation
Indices: 35455991--35456038 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35455981 GCTGTTTTGT
35455991 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
35456011 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
35456030 TAT-GGCCAA
1 TATGGGCCAA
35456039 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:35456129 original size:60 final size:61
Alignment explanation
Indices: 35456027--35456165 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
35456017 CCAACTGTGT
* *
35456027 TAATAT-GGCCAAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTAAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTAATAC
* * * * * *
35456087 TAATATTGGCT-AGGCCCAATATACTCTGATAC-TGTAA-GGGGCTATGGCCTAGATTAATAT
1 TAATATGGGCTAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTAATAC
*
35456147 TGATATGGGCTAAGGCCCA
1 TAATATGGGCTAAGGCCCA
35456166 GTTAACACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 45 0.68
61 19 0.29
62 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (61 bp):
TAATATGGGCTAAGGCCCAATATATCTCAACTTGTAATAGGGCTACGGCCCAGATTAATAC
Found at i:35467301 original size:21 final size:21
Alignment explanation
Indices: 35467277--35467320 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35467267 AAAATCACTT
35467277 AACAA-AACTTGTAAATCTATC
1 AACAAGAACTTGT-AATCTATC
* *
35467298 AACAAGCATTTGTAATCTATC
1 AACAAGAACTTGTAATCTATC
35467319 AA
1 AA
35467321 GAAACTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (21 bp):
AACAAGAACTTGTAATCTATC
Found at i:35470941 original size:13 final size:12
Alignment explanation
Indices: 35470928--35470967 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
35470918 AGTAAATAAT
35470928 TTAATTGTTAAA
1 TTAATTGTTAAA
35470940 TTAATTTAGTTAAA
1 TTAA-TT-GTTAAA
35470954 TTAATTGATTAAA
1 TTAATTG-TTAAA
35470967 T
1 T
35470968 AAATAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 10 0.40
14 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TTAATTGTTAAA
Found at i:35475891 original size:46 final size:46
Alignment explanation
Indices: 35475833--35476008 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
35475823 TGTAACCCGC
* *
35475833 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
* *
35475879 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATACCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGG--A-C--GTTCGCAT
* * *
35475929 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
* **
35475972 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGA
35476009 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 62 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
Found at i:35475949 original size:93 final size:93
Alignment explanation
Indices: 35475840--35476009 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
35475830 CGCCCATAAG
* * *
35475840 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
35475905 ATGAGTTCGGATACCTAGTTACATCTCA
66 ACAAGTTCGGATACCTAGTTACATCTCA
*
35475933 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35475998 ACAAGTTCGGAT
66 ACAAGTTCGGAT
35476010 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATACCTAGTTACATCTCA
Found at i:35476027 original size:46 final size:45
Alignment explanation
Indices: 35475934--35476019 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
35475924 TACATCTCAC
* * *
35475934 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAACCATAAGT
*
35475980 GAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCAT
35476020 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCATAAGT
Found at i:35477576 original size:30 final size:30
Alignment explanation
Indices: 35477512--35477578 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
35477502 TGGGCTGTCG
* * **
35477512 GTGTGTCACACATGGCCTAGACACACGCTC
1 GTGTGTCACAAACGGCCTAGACACACGCAA
*
35477542 GTGTGTCACAAACGGCCTAGACACATGCAA
1 GTGTGTCACAAACGGCCTAGACACACGCAA
35477572 GTGTGTC
1 GTGTGTC
35477579 TTACCCGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (30 bp):
GTGTGTCACAAACGGCCTAGACACACGCAA
Found at i:35478347 original size:33 final size:33
Alignment explanation
Indices: 35478291--35478388 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 33
35478281 TTTCTAGTTG
* * * *
35478291 TACACTCAAGGTGCACATTCCTTTTTCAAGTGG
1 TACACACAAAGTGCACATACCTTTTTCAAGTGA
* * * * *
35478324 TACACACGAAGTGTACATACCTTTTCCAATTTA
1 TACACACAAAGTGCACATACCTTTTTCAAGTGA
*
35478357 TACACACAAAGTGCATATAACC-TTTTCAAGTG
1 TACACACAAAGTGCACAT-ACCTTTTTCAAGTG
35478389 TACTCATATT
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
33 46 0.94
34 3 0.06
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (33 bp):
TACACACAAAGTGCACATACCTTTTTCAAGTGA
Found at i:35478456 original size:33 final size:33
Alignment explanation
Indices: 35478408--35478579 Score: 165
Period size: 33 Copynumber: 5.3 Consensus size: 33
35478398 TGTGTACCTC
35478408 TCCTTTTCA-AGTGGTATACACAAAGTATACCAT
1 TCCTTTTCATA-TGGTATACACAAAGTATACCAT
*
35478441 TCCTTTTCATATGGTATACACAAAGTATACCTT
1 TCCTTTTCATATGGTATACACAAAGTATACCAT
* * *
35478474 TCCTTTTCATATGGTGTACAAAAAGTATACTA-
1 TCCTTTTCATATGGTATACACAAAGTATACCAT
* * * **
35478506 ACCTTTCCA-A-GTGTACACACAAAGTGCA-CAT
1 TCCTTTTCATATG-GTATACACAAAGTATACCAT
* * * *
35478537 AGCCTTTTCATGTGGTATACACAAGGTATACCTT
1 -TCCTTTTCATATGGTATACACAAAGTATACCAT
35478571 TCCTTTTCA
1 TCCTTTTCA
35478580 CATTCGATAG
Statistics
Matches: 110, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
30 2 0.02
31 12 0.11
32 14 0.13
33 78 0.71
34 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (33 bp):
TCCTTTTCATATGGTATACACAAAGTATACCAT
Found at i:35478617 original size:29 final size:29
Alignment explanation
Indices: 35478572--35478640 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
35478562 GTATACCTTT
*
35478572 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTAGATAGCCAAAGCTATC
*
35478601 CCTTTTCACATTAGATAGCCGAAGCTATC
1 CCTTTTCACATTAGATAGCCAAAGCTATC
*
35478630 CCTTTTTACAT
1 CCTTTTCACAT
35478641 GGTACACGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTAGATAGCCAAAGCTATC
Found at i:35483191 original size:25 final size:25
Alignment explanation
Indices: 35483163--35483247 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
35483153 CAGCTCTCTT
*
35483163 GAGCTTCCTGATATTCGGTTCGCAA
1 GAGCTTCCTGATATTCGGCTCGCAA
* * * *
35483188 GAGCTTTCC-AATATACGGCTCACAT
1 GAGC-TTCCTGATATTCGGCTCGCAA
* *
35483213 GAGCTTCCTGTTATAT-GGCTCGGAA
1 GAGCTTCCTGATAT-TCGGCTCGCAA
35483238 GAGCTTCCTG
1 GAGCTTCCTG
35483248 TTTACATGCT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 4 0.09
25 38 0.83
26 4 0.09
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGATATTCGGCTCGCAA
Found at i:35485951 original size:31 final size:31
Alignment explanation
Indices: 35485908--35485971 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
35485898 CCTTTTCATA
35485908 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
35485939 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
35485970 TT
1 TT
35485972 ACTGTAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:35486255 original size:47 final size:48
Alignment explanation
Indices: 35486179--35486307 Score: 197
Period size: 47 Copynumber: 2.7 Consensus size: 48
35486169 CTGGAGGCCT
* *
35486179 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
* *
35486228 AGCCC-TTTAATAACTGGGGTATAAGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
*
35486275 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
35486308 GCACTTCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 43 0.59
48 26 0.36
49 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATA
Found at i:35486308 original size:24 final size:24
Alignment explanation
Indices: 35486179--35486307 Score: 197
Period size: 24 Copynumber: 5.4 Consensus size: 24
35486169 CTGGAGGCCT
*
35486179 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
35486204 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
35486228 AGCCC-TTTAATAACTGGGGTATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
35486251 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
35486275 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
35486299 AGCCCTTTT
1 AGCCCTTTT
35486308 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
23 22 0.23
24 71 0.73
25 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:35486379 original size:9 final size:9
Alignment explanation
Indices: 35486365--35486421 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
35486355 ATCTCGTGTG
35486365 CATATCATA
1 CATATCATA
*
35486374 CATATCATGTG
1 CATATCA--TA
35486385 CATATCATA
1 CATATCATA
* *
35486394 CATGTCATGTG
1 CATATCA--TA
35486405 CATATCATA
1 CATATCATA
35486414 CATATCAT
1 CATATCAT
35486422 GTCTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35486386 original size:20 final size:20
Alignment explanation
Indices: 35486361--35486423 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
35486351 GACCATCTCG
35486361 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
35486381 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
35486401 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
35486421 TGT
1 TGT
35486424 CTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:35490262 original size:28 final size:28
Alignment explanation
Indices: 35490222--35490275 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
35490212 CACCTTAAGC
35490222 TTTTGAAGAAGATGACATTGATAAAAGA
1 TTTTGAAGAAGATGACATTGATAAAAGA
35490250 TTTTGAAGAAGATGACATTGATAAAA
1 TTTTGAAGAAGATGACATTGATAAAA
35490276 AAATCATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (28 bp):
TTTTGAAGAAGATGACATTGATAAAAGA
Found at i:35493001 original size:25 final size:24
Alignment explanation
Indices: 35492956--35493009 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
35492946 GTCATTAGGG
*
35492956 TTACCGATTCTAGCTCTTATGAGC
1 TTACCGATACTAGCTCTTATGAGC
35492980 TTACCGATACTCAGCT-TGTATGAGC
1 TTACCGATACT-AGCTCT-TATGAGC
35493005 TTACC
1 TTACC
35493010 ATTATTCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (24 bp):
TTACCGATACTAGCTCTTATGAGC
Found at i:35493031 original size:25 final size:25
Alignment explanation
Indices: 35493001--35493062 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
35492991 CAGCTTGTAT
35493001 GAGCTTACCATTATTCAACTCAGAG
1 GAGCTTACCATTATTCAACTCAGAG
* * *
35493026 GGGCTTACCGTTATTCAGCTCAGAG
1 GAGCTTACCATTATTCAACTCAGAG
35493051 GAGCTTACCATT
1 GAGCTTACCATT
35493063 TATAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCAGAG
Found at i:35497292 original size:46 final size:47
Alignment explanation
Indices: 35497238--35497367 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 47
35497228 CTACAAATAA
* *
35497238 TACCTTGATTTGGCTAC-GACCATGATATAGGTATTTT-GAGAGGAGC
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTATTTTGGA-AGAAGC
* * * *
35497284 TACCTTGATTTGGCTACAGGCCAT-AGTATAGGTACTCTGGAATAAGT
1 TACCTTGATTTGGCTACAGGCCATGA-TATAGGTATTTTGGAAGAAGC
* *
35497331 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTATTT
35497368 ATCGATTGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
46 18 0.26
47 50 0.71
48 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGATATAGGTATTTTGGAAGAAGC
Found at i:35503032 original size:29 final size:29
Alignment explanation
Indices: 35502927--35503032 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
35502917 TTCACATACC
* * * *
35502927 TGTATCTGGCCCACTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
** * *
35502955 TCCATATGGCCCATTAGACCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
35502984 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
35503013 TTTATATGGCCCATTGGGCC
1 TGTATATGGCCCATTAGGCC
35503033 TAGTCACATT
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 15 0.24
29 48 0.76
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:35506068 original size:49 final size:52
Alignment explanation
Indices: 35505951--35506138 Score: 172
Period size: 53 Copynumber: 3.6 Consensus size: 52
35505941 CGGTTTAAGA
* * ** *
35505951 ATACCATGTAAGACCATG-CGAAGCCATGGCAATTGGTAAGGTTTCTAAGGTAAGG
1 ATACCATGTAAGACCATGTC-AAGACATGGC-ATT-GTGA-GTTAATAAGGCAAGG
* *
35506006 ATATCATGCAAGACCATGTCAAGACATGGCA-T-TGA-TCT-ATAAGGCAAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGCATTGTGAGT-TAATAAGGC-AAGG
* * *
35506056 -TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTAATAAGGCAAGG
1 ATACCATGTAAGACCATGTCAAGACATGGCATT-GTGAGTTAATAAGGCAAGG
*
35506108 ATACCATGTAAGACCATGTCGAGACATGGCA
1 ATACCATGTAAGACCATGTCAAGACATGGCA
35506139 ATGGTAAGTT
Statistics
Matches: 109, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
49 31 0.28
50 6 0.06
51 2 0.02
52 8 0.07
53 35 0.32
54 1 0.01
55 25 0.23
56 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.22
Consensus pattern (52 bp):
ATACCATGTAAGACCATGTCAAGACATGGCATTGTGAGTTAATAAGGCAAGG
Found at i:35506168 original size:102 final size:103
Alignment explanation
Indices: 35505951--35506197 Score: 254
Period size: 102 Copynumber: 2.4 Consensus size: 103
35505941 CGGTTTAAGA
* ** * *
35505951 ATACCATGTAAGACCATGCGAAGCCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATATCATGCA
1 ATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCATGCA
*
35506016 AGACCATGTCAAGACATGGCATTGATCTATAAGGCAAAGG
66 AGACCATGTCAAGACATGGCA-T-ATCGATAAGGCAAAGG
* * * *
35506056 -TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTAATAAGGCAAGGATACCATGTA
1 ATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCATGCA
* * *
35506118 AGACCATGTCGAGACATGGCA-AT-GGTAAGTTTCAAAAGG
66 AGACCATGTCAAGACATGGCATATCGATAAG--GC-AAAGG
* * * *
35506157 ATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAGGT
1 ATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGT
35506198 ACCCGTGTAT
Statistics
Matches: 117, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
98 4 0.03
99 2 0.02
100 1 0.01
101 5 0.04
102 70 0.60
103 9 0.08
104 26 0.22
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (103 bp):
ATACCATGTAAGACCATGCCAAGCCATGGCAATTGGTAAGGTTAATAAGGCAAGGATACCATGCA
AGACCATGTCAAGACATGGCATATCGATAAGGCAAAGG
Found at i:35514837 original size:18 final size:18
Alignment explanation
Indices: 35514804--35514849 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
35514794 TTGTGGGCTT
35514804 TGTGGG-CCACACGAGCA
1 TGTGGGCCCACACGAGCA
*
35514821 TGTGGGCCCACATGAGCA
1 TGTGGGCCCACACGAGCA
35514839 TGTGGGCCCAC
1 TGTGGGCCCAC
35514850 TGGGCCGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.20, C:0.30, G:0.35, T:0.15
Consensus pattern (18 bp):
TGTGGGCCCACACGAGCA
Found at i:35516014 original size:25 final size:25
Alignment explanation
Indices: 35515953--35516014 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
35515943 CAGATTATAT
*
35515953 GAGCTTACTGTTATTCAACTCGGAG
1 GAGCTTACCGTTATTCAACTCGGAG
* * *
35515978 GGGCTTATCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTCAACTCGGAG
*
35516003 GAGTTTACCGTT
1 GAGCTTACCGTT
35516015 TATAACTCGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAACTCGGAG
Found at i:35519735 original size:17 final size:18
Alignment explanation
Indices: 35519713--35519746 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35519703 TCATAGCATG
35519713 AATGTGAAATAT-TTGGA
1 AATGTGAAATATATTGGA
*
35519730 AATGTGATATATATTGG
1 AATGTGAAATATATTGG
35519747 TGAGATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
AATGTGAAATATATTGGA
Found at i:35523003 original size:9 final size:9
Alignment explanation
Indices: 35522989--35523023 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
35522979 TTATCTAACT
35522989 AATTAATTA
1 AATTAATTA
35522998 AATTAATTA
1 AATTAATTA
*
35523007 AATTAACTA
1 AATTAATTA
35523016 AATTAATT
1 AATTAATT
35523024 TCTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
AATTAATTA
Found at i:35523891 original size:19 final size:19
Alignment explanation
Indices: 35523863--35523901 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35523853 AATAAACAAA
*
35523863 TAAAATCATTGAAATTTAC
1 TAAAACCATTGAAATTTAC
35523882 TAAAACCATTGAAATTTAC
1 TAAAACCATTGAAATTTAC
35523901 T
1 T
35523902 GTTGAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAACCATTGAAATTTAC
Found at i:35527631 original size:49 final size:50
Alignment explanation
Indices: 35527567--35527687 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 50
35527557 CTGGTACGCA
* ** *
35527567 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
* * *
35527616 TAGTAGCCTGCACTTAGTCCTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
35527666 TAGTAGCCTGCACTTAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
35527688 ACACGTGACC
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.48
50 33 0.52
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
Found at i:35527676 original size:50 final size:50
Alignment explanation
Indices: 35527567--35527698 Score: 178
Period size: 49 Copynumber: 2.7 Consensus size: 50
35527557 CTGGTACGCA
* * ** *
35527567 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
* *
35527616 TAGTAGCCTGCACTTAGTCCTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
*
35527666 TAGTAGCCTGCACTTAGTACTA-ACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
35527699 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 40 0.55
50 33 0.45
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
Found at i:35532761 original size:49 final size:49
Alignment explanation
Indices: 35532705--35532929 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
35532695 CTAGTACGCA
*
35532705 TAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
35532754 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
35532804 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
35532855 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
35532904 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
35532930 CGTGACCTCA
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 66 0.44
50 47 0.31
51 38 0.25
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:35532878 original size:101 final size:98
Alignment explanation
Indices: 35532705--35532936 Score: 304
Period size: 101 Copynumber: 2.3 Consensus size: 98
35532695 CTAGTACGCA
* * * * *
35532705 TAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
35532770 GTACTACACACGTGACCTAACCA-TCTGATACACG
66 GTACTACACACGCGACC-AACCATTC-GATACACG
* *
35532804 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
35532869 TAGTACTACACATGCGACCAATTATTCGGTACACG
64 TAGTACTACACACGCGACCAACCATTCGATACACG
*
35532904 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACC
35532937 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 29 0.25
100 43 0.37
101 44 0.38
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATTCGATACACG
Found at i:35535755 original size:43 final size:43
Alignment explanation
Indices: 35535700--35535870 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
35535690 AGCTCATATA
*
35535700 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
35535743 ATGCC-ACTGTCCCA-AGCAG-GGTCTTATACG-AATCAAATAT-G
1 ATGCCAAC-GTCCCAGA-C-GTGGTCTTACACGTAATCACATATCG
** * * *
35535784 ATGCTGATGTCCCAGACATGGTCTTACACATAAATCACA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCACATA-TCG
* *
35535828 AGGCCAACGTCCCAGACGTGATCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
35535871 GAATCTTATG
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
41 21 0.21
42 15 0.15
43 38 0.38
44 27 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:35539757 original size:20 final size:18
Alignment explanation
Indices: 35539723--35539777 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 18
35539713 CTTTGTGATA
* *
35539723 AAAAAAAGTACAGAAAAT
1 AAAAAAAGAAAAGAAAAT
35539741 AGAAAATAAGAAAAGAAAAT
1 A-AAAA-AAGAAAAGAAAAT
*
35539761 AAAAAAATAAAA-AAAAT
1 AAAAAAAGAAAAGAAAAT
35539778 CTTATGTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.16
18 7 0.22
19 8 0.25
20 12 0.38
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAAAAGAAAAGAAAAT
Found at i:35546678 original size:43 final size:43
Alignment explanation
Indices: 35546631--35546726 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 43
35546621 TACTCGTAAC
* * *
35546631 CACATATGGTTGCCAACATCCCAGACGTAGTCTTACATGAAAA
1 CACATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAA
* * *
35546674 CACATATATCGATGCCAACGTCCCAGATGTGGTCTTACACGAAAA
1 CAC--ATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAA
35546719 CACATATC
1 CACATATC
35546727 ATAATGCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 8 0.18
45 37 0.82
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
CACATATCGATGCCAACATCCCAGACGTAGTCTTACACGAAAA
Found at i:35549714 original size:47 final size:47
Alignment explanation
Indices: 35549600--35549769 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
35549590 GCCCCTAAGT
* * * *
35549600 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
35549646 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
35549693 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
35549738 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
35549770 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:35549769 original size:92 final size:93
Alignment explanation
Indices: 35549600--35549769 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
35549590 GCCCCTAAGT
* *
35549600 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35549665 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35549693 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35549757 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35549770 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35550222 original size:29 final size:29
Alignment explanation
Indices: 35550190--35550245 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35550180 ATTTAATACG
35550190 AACTTTGGAAAAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
* * *
35550219 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
35550246 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:35555005 original size:27 final size:28
Alignment explanation
Indices: 35554921--35555018 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
35554911 CATGAGATTT
* * * *
35554921 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35554950 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35554978 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35555005 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35555019 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35555029 original size:27 final size:27
Alignment explanation
Indices: 35554949--35555031 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
35554939 TAAATTGTAC
* *
35554949 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
35554977 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
35555004 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
35555031 A
1 A
35555032 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Done.