Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 154 of 230
Found at i:45448140 original size:12 final size:12
Alignment explanation
Indices: 45448123--45448147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45448113 AGTAATTTCG
45448123 GGTCGGTTAACC
1 GGTCGGTTAACC
45448135 GGTCGGTTAACC
1 GGTCGGTTAACC
45448147 G
1 G
45448148 AATGAACACC
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:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:45466120 original size:13 final size:13
Alignment explanation
Indices: 45466099--45466128 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45466089 CTACATGGGT
*
45466099 CACATGGCTGAGA
1 CACAAGGCTGAGA
45466112 CACAAGGCTGAGA
1 CACAAGGCTGAGA
45466125 CACA
1 CACA
45466129 CGCCTGTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.27, T:0.10
Consensus pattern (13 bp):
CACAAGGCTGAGA
Found at i:45469163 original size:27 final size:26
Alignment explanation
Indices: 45469133--45469307 Score: 113
Period size: 27 Copynumber: 6.5 Consensus size: 26
45469123 GTACGTTGTC
*
45469133 AAGGCATTCCATTTAGAATTTGCCACG
1 AAGGCATTCC-TTTAGAATTTGCCACA
* * * *
45469160 AAGGCTTTCCCTTCAGAGTCTGCCACA
1 AAGGCATT-CCTTTAGAATTTGCCACA
* * *
45469187 AAGGCATTCCTTTCGTATATTGCTACA
1 AAGGCATTCCTTTAGAAT-TTGCCACA
* *
45469214 AAGGCATTCCTTTCA-TATATTGCCAAA
1 AAGGCATTCCTTT-AGAAT-TTGCCACA
* **
45469241 AAGGCATT-GTTTCCATATATTGCCACA
1 AAGGCATTCCTTTAGA-AT-TTGCCACA
* *
45469268 AAGGCATTCCTTCCATATATTT-CCACA
1 AAGGCATTCCTT-TAGA-ATTTGCCACA
45469295 AAGGCATTCCTTT
1 AAGGCATTCCTTT
45469308 CATAACATGT
Statistics
Matches: 117, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
26 9 0.08
27 98 0.84
28 6 0.05
29 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (26 bp):
AAGGCATTCCTTTAGAATTTGCCACA
Found at i:45469218 original size:54 final size:54
Alignment explanation
Indices: 45469133--45469308 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
45469123 GTACGTTGTC
* * * * * *
45469133 AAGGCATTCCATTTAGAAT-TTGCCACGAAGGCTTTCCCTTCAGAGT-CTGCCACA
1 AAGGCATTCC-TTTCGTATATTGCCACAAAGGCATTCCCTTCATA-TATTGCCACA
* * *
45469187 AAGGCATTCCTTTCGTATATTGCTACAAAGGCATTCCTTTCATATATTGCCAAA
1 AAGGCATTCCTTTCGTATATTGCCACAAAGGCATTCCCTTCATATATTGCCACA
* * *
45469241 AAGGCATT-GTTTCCATATATTGCCACAAAGGCATT-CCTTCCATATATTTCCACA
1 AAGGCATTCCTTT-CGTATATTGCCACAAAGGCATTCCCTT-CATATATTGCCACA
45469295 AAGGCATTCCTTTC
1 AAGGCATTCCTTTC
45469309 ATAACATGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
53 13 0.13
54 85 0.84
55 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (54 bp):
AAGGCATTCCTTTCGTATATTGCCACAAAGGCATTCCCTTCATATATTGCCACA
Found at i:45469311 original size:27 final size:27
Alignment explanation
Indices: 45469180--45469311 Score: 194
Period size: 27 Copynumber: 4.9 Consensus size: 27
45469170 CTTCAGAGTC
*
45469180 TGCCACAAAGGCATTCCTTTCGTATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
*
45469207 TGCTACAAAGGCATTCCTTTCATATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
* *
45469234 TGCCAAAAAGGCATT-GTTTCCATATAT
1 TGCCACAAAGGCATTCCTTT-CATATAT
*
45469261 TGCCACAAAGGCATTCCTTCCATATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
*
45469288 TTCCACAAAGGCATTCCTTTCATA
1 TGCCACAAAGGCATTCCTTTCATA
45469312 ACATGTTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 88 0.95
28 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (27 bp):
TGCCACAAAGGCATTCCTTTCATATAT
Found at i:45471732 original size:24 final size:24
Alignment explanation
Indices: 45471700--45471747 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45471690 TACTCAAGTA
45471700 GACGCTAGCCCAATGAACTTAAAT
1 GACGCTAGCCCAATGAACTTAAAT
45471724 GACGCTAGCCCAATGAACTTAAAT
1 GACGCTAGCCCAATGAACTTAAAT
45471748 CAGGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
GACGCTAGCCCAATGAACTTAAAT
Found at i:45474052 original size:27 final size:27
Alignment explanation
Indices: 45474014--45474249 Score: 248
Period size: 27 Copynumber: 8.7 Consensus size: 27
45474004 ACAGTCCGTA
* *
45474014 AAAAAGGAATTCCTTTAATATATTGCC
1 AAAAAGGCATTCCTTTCATATATTGCC
*
45474041 AAAAAGGCATTCCTTTCATATATTTCC
1 AAAAAGGCATTCCTTTCATATATTGCC
* *
45474068 ACAAAAGTC-TTCC-TTCTATATATTTCC
1 A-AAAAGGCATTCCTTTC-ATATATTGCC
* * *
45474095 ATAAAA-GAATTCCTTTCATGTATTGTC
1 A-AAAAGGCATTCCTTTCATATATTGCC
* * *
45474122 ATAAAGGCATTCCTTCCATATATTGTC
1 AAAAAGGCATTCCTTTCATATATTGCC
*
45474149 ACAAAGGCATTCCTTTCATATATTG-C
1 AAAAAGGCATTCCTTTCATATATTGCC
*
45474175 AACAAAGGCATTCATTTCATATATTGCC
1 AA-AAAGGCATTCCTTTCATATATTGCC
*
45474203 ATAAAGGCATTCC-TTCTATATATTGCC
1 AAAAAGGCATTCCTTTC-ATATATTGCC
* *
45474230 ACATAGGCATTCCTTTCATA
1 AAAAAGGCATTCCTTTCATA
45474250 GCGTGTTCAC
Statistics
Matches: 178, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
26 11 0.06
27 153 0.86
28 14 0.08
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (27 bp):
AAAAAGGCATTCCTTTCATATATTGCC
Found at i:45492521 original size:47 final size:47
Alignment explanation
Indices: 45492470--45493027 Score: 920
Period size: 47 Copynumber: 11.7 Consensus size: 47
45492460 TTAGGATTCT
* *
45492470 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
45492517 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45492566 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45492615 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45492664 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
45492711 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
45492758 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
45492805 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45492852 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45492899 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
45492946 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
45492993 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45493028 TCCCGAAGGG
Statistics
Matches: 490, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 345 0.70
49 144 0.29
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:45495563 original size:22 final size:22
Alignment explanation
Indices: 45495511--45495587 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
45495501 CAAATAAATC
45495511 ATTTCTCT-AATATT-CTCTCTAA
1 ATTTCTCTCAAT-TTCCTCTC-AA
45495533 GA-TTCTCTCAATTTCCTCTC-A
1 -ATTTCTCTCAATTTCCTCTCAA
*
45495554 ATTTGCTCTCAATTTCCTTTCAA
1 ATTT-CTCTCAATTTCCTCTCAA
45495577 ATTTCTCTCAA
1 ATTTCTCTCAA
45495588 ATCCCTATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 30 0.62
23 14 0.29
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTCTCAA
Found at i:45495589 original size:11 final size:11
Alignment explanation
Indices: 45495537--45495587 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
45495527 CTCTAAGATT
45495537 CTCTCAATTTC
1 CTCTCAATTTC
*
45495548 CTCTCAATTTG
1 CTCTCAATTTC
45495559 CTCTCAATTTC
1 CTCTCAATTTC
*
45495570 CTTTCAAATTT-
1 CTCTC-AATTTC
45495581 CTCTCAA
1 CTCTCAA
45495588 ATCCCTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 2 0.06
11 28 0.80
12 5 0.14
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:45496049 original size:7 final size:7
Alignment explanation
Indices: 45496037--45496062 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45496027 TAGTCGATTG
45496037 GTATTTA
1 GTATTTA
45496044 GTATTTA
1 GTATTTA
45496051 GTATTTA
1 GTATTTA
45496058 GTATT
1 GTATT
45496063 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:45496735 original size:18 final size:18
Alignment explanation
Indices: 45496712--45496754 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45496702 TGCCAGGTGC
* *
45496712 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
45496730 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
45496748 GTTTCCT
1 GTATCCT
45496755 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45499128 original size:126 final size:126
Alignment explanation
Indices: 45498903--45499326 Score: 695
Period size: 126 Copynumber: 3.4 Consensus size: 126
45498893 ACATGAGAGC
* * *
45498903 TTTTTTCAGGAGTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGC
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
* *
45498968 CAAAGCATCATACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTTGAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* *
45499029 TTTTTTCAGGAGATACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
* * *
45499094 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTACTCAGAAACGTCTACTCAAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
*
45499155 TTTTTTCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
** *
45499220 CAAAATATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * *
45499281 TTTTCTCAGGAGCCACTGTACCAAAAGCGCGTCCACGTGGGAGCTT
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
45499327 CTTTAAATTA
Statistics
Matches: 276, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 276 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
Found at i:45499564 original size:94 final size:100
Alignment explanation
Indices: 45499363--45499598 Score: 286
Period size: 94 Copynumber: 2.4 Consensus size: 100
45499353 AGTAACCCTA
45499363 AACCCTAAACCCTAATTTATTTAAGTTTTTACTTAAAAACTCTAAACTCTAAACACTAAACCCTA
1 AACCCTAAACCCTAATTTATTTAA-TTTTTACTTAAAAACTCT--A-TCTAAACACTAAACCCTA
*
45499428 AACTAATTTATTATAAATTTGTAATTAATTTACTCAAGT
62 AACTAATTTATTATAAATTTGTAATTAAATTACTCAAGT
* * * **
45499467 AACCCTAAACCTTAATTTATTTAATTTTTCCTTAAAAA-TCT-T-T-AACTCTAAACCCTAATTT
1 AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAACTCTATCTAAACACTAAACCCTAAACT
* * *
45499528 AATTT-TTA-AATTTTTTAATTAAATTATTCAAGT
66 AATTTATTATAAATTTGTAATTAAATTACTCAAGT
* * *
45499561 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAA
45499599 ATAATAAACA
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
94 55 0.46
95 3 0.03
96 20 0.17
97 1 0.01
98 1 0.01
102 3 0.03
103 13 0.11
104 23 0.19
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (100 bp):
AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAACTCTATCTAAACACTAAACCCTAAACT
AATTTATTATAAATTTGTAATTAAATTACTCAAGT
Found at i:45499596 original size:46 final size:46
Alignment explanation
Indices: 45499452--45499596 Score: 125
Period size: 51 Copynumber: 3.1 Consensus size: 46
45499442 AAATTTGTAA
* * * * *
45499452 TTAATTTACTCAAGTAACCCTAAACCTTAATTTATTTAATTTTTCC
1 TTAAATTAATCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
** * *
45499498 TTAAA--AATC-TTTAACTCTAAACCCTAATTTAATTTTTAAATTTTTTAA
1 TTAAATTAATCAAGTAACCCTAAACCCTAATTTAA---TT-AATTTTTT-C
* *
45499546 TTAAATTATTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTC
1 TTAAATTAATCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
45499592 TTAAA
1 TTAAA
45499597 AAATAATAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
43 18 0.24
44 3 0.04
46 11 0.14
47 14 0.18
48 7 0.09
50 3 0.04
51 20 0.26
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.46
Consensus pattern (46 bp):
TTAAATTAATCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
Found at i:45499619 original size:94 final size:92
Alignment explanation
Indices: 45499427--45499670 Score: 228
Period size: 94 Copynumber: 2.6 Consensus size: 92
45499417 ACTAAACCCT
* * * * *
45499427 AAACTAATTT-A-TTATAAATTTGTAATTAATTTACTCAAGTAACCCTAAACCTTAATTTATTTA
1 AAACTAATTTAATTTTTAAATTTATAATTAATTTATTCAAGTAACCCTAAACCCTAATTTAATTA
** * *
45499490 ATTTTTCCTTAAAAATCTTTAACTCTA
66 ATTTTTCCTTAAAAATAATAAACTCGA
* * *
45499517 AACCCTAATTTAATTTTTAAATTTTTTAATTAAATTATTCAAGTAACCCTAAACCCTAATTTAAT
1 AA-ACTAATTTAATTTTTAAA-TTTATAATTAATTTATTCAAGTAACCCTAAACCCTAATTTAAT
* *
45499582 TGATTTTTTCTTAAAAAATAATAAACAT-GA
64 TAATTTTTCCTT-AAAAATAATAAAC-TCGA
** * *
45499612 AAACTAATCCAATTTTGAAAAATTTATAATTAATTTATTTGAA--AACCCTAAACCCTAAT
1 AAACTAATTTAATTTT--TAAATTTATAATTAATTTA-TTCAAGTAACCCTAAACCCTAAT
45499671 CCCTTATTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
90 2 0.02
91 7 0.06
92 1 0.01
93 6 0.05
94 75 0.60
95 26 0.21
96 8 0.06
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (92 bp):
AAACTAATTTAATTTTTAAATTTATAATTAATTTATTCAAGTAACCCTAAACCCTAATTTAATTA
ATTTTTCCTTAAAAATAATAAACTCGA
Found at i:45513367 original size:20 final size:20
Alignment explanation
Indices: 45513321--45513367 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
45513311 CAAATAGATA
45513321 TAATATTTTAATTTGTTAGGT
1 TAATATTTT-ATTTGTTAGGT
* *
45513342 TTATATTTT-TTATGTTATGT
1 TAATATTTTATT-TGTTAGGT
45513362 TAATAT
1 TAATAT
45513368 CTAATATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 12 0.55
21 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (20 bp):
TAATATTTTATTTGTTAGGT
Found at i:45513484 original size:21 final size:21
Alignment explanation
Indices: 45513460--45513505 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45513450 TACAAATGTG
*
45513460 TTAATATCTA-ATTAAAGATAT
1 TTAATAGCTATATTAAA-ATAT
*
45513481 TTAATAGCTATATTTAAATAT
1 TTAATAGCTATATTAAAATAT
45513502 TTAA
1 TTAA
45513506 AATATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAATAGCTATATTAAAATAT
Found at i:45513967 original size:22 final size:23
Alignment explanation
Indices: 45513942--45513986 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45513932 TCCTTAGATA
45513942 TTAATT-TTTTAAGTAATAATTT
1 TTAATTGTTTTAAGTAATAATTT
**
45513964 TTAATTGTTTTATTTAATAATTT
1 TTAATTGTTTTAAGTAATAATTT
45513987 CATATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTAATTGTTTTAAGTAATAATTT
Found at i:45519478 original size:216 final size:220
Alignment explanation
Indices: 45519036--45519479 Score: 700
Period size: 227 Copynumber: 2.0 Consensus size: 220
45519026 CTTAGGACAA
* ** *
45519036 TAACATGATGTTGCAACTTCAACAGGTGAATGTCATGACCACGAGGATAGACAACTCAAATTTTG
1 TAACATGATGTTGCAACTTCAACAGGTGAATGCCACAACCACAAGGATAGACAACTCAAATTTTG
*
45519101 CATAAATTTTTACAAGGTTACCAAGCACTTATTTCATTTGGTCTAAAGTAACTCAAAAACAAATT
66 CATAAATTTTTACAAGGTTACCAAACACTTATTTCATTTGGTCTAAAGTAACTCAAAAACAAATT
*
45519166 TCATCGCATTTAATGCATTAAGCACAAACAAACAAACAAAAAAAAACCATCTTGGGCATATCTAA
131 TCATCGCATTTAATGCATTAAG-----AC-AAC-AACAAAAAAAAACCATATTGGGCATATCTAA
*
45519231 ACGCCTATAAATGCATGATCTCATGTACATAT
189 ACACCTATAAATGCATGATCTCATGTACATAT
45519263 TAACATGATGTTGCAACTTCAACAGGTGAATGCCACAACCACAAGGATAGACAACTCAAATTTTG
1 TAACATGATGTTGCAACTTCAACAGGTGAATGCCACAACCACAAGGATAGACAACTCAAATTTTG
* *
45519328 CATAATTTTTTACAAGGTTACCAAACACTTATTTCATTTGGTCTAAAGTAACTCAAAAACACATT
66 CATAAATTTTTACAAGGTTACCAAACACTTATTTCATTTGGTCTAAAGTAACTCAAAAACAAATT
45519393 TCATCGCA-TTATATGCATTAAG-C-AC-AC-AAAAAAAACCATATTGGGCATATCTAAACACCT
131 TCATCGCATTTA-ATGCATTAAGACAACAACAAAAAAAAACCATATTGGGCATATCTAAACACCT
45519453 ATAAATGCATGATCTCATGTACATAT
195 ATAAATGCATGATCTCATGTACATAT
45519479 T
1 T
45519480 CTATCTAGAT
Statistics
Matches: 207, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
216 58 0.28
217 2 0.01
219 2 0.01
221 1 0.00
226 3 0.01
227 141 0.68
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (220 bp):
TAACATGATGTTGCAACTTCAACAGGTGAATGCCACAACCACAAGGATAGACAACTCAAATTTTG
CATAAATTTTTACAAGGTTACCAAACACTTATTTCATTTGGTCTAAAGTAACTCAAAAACAAATT
TCATCGCATTTAATGCATTAAGACAACAACAAAAAAAAACCATATTGGGCATATCTAAACACCTA
TAAATGCATGATCTCATGTACATAT
Found at i:45520059 original size:13 final size:13
Alignment explanation
Indices: 45520018--45520061 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
45520008 TGTCAAATAA
45520018 AAATAATTAAGA-
1 AAATAATTAAGAT
* *
45520030 AAGTAATTAAAAT
1 AAATAATTAAGAT
*
45520043 AAATAACTAAGAT
1 AAATAATTAAGAT
45520056 AAATAA
1 AAATAA
45520062 AATAGAACAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (13 bp):
AAATAATTAAGAT
Found at i:45523262 original size:67 final size:68
Alignment explanation
Indices: 45523171--45523306 Score: 204
Period size: 67 Copynumber: 2.0 Consensus size: 68
45523161 ACAACATGCC
*
45523171 AACAACAATTTAAGCACTCCAATACCTCATCCT-ACCTTAAATCAATACTTTATTACTATAAGCT
1 AACAACAATTTAAGCACTCCAATACCTCAT-CTAACCTTAAATCAATAATTTATTACTATAAGCT
45523235 AATT
65 AATT
* * * *
45523239 AACATCAATTTAA-CACTCTAATACTTCATGTAACCTTAAATCAATAATTTATTACTATAAGCTA
1 AACAACAATTTAAGCACTCCAATACCTCATCTAACCTTAAATCAATAATTTATTACTATAAGCTA
45523303 ATT
66 ATT
45523306 A
1 A
45523307 CCTATTGTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
66 1 0.02
67 49 0.79
68 12 0.19
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (68 bp):
AACAACAATTTAAGCACTCCAATACCTCATCTAACCTTAAATCAATAATTTATTACTATAAGCTA
ATT
Found at i:45537080 original size:29 final size:27
Alignment explanation
Indices: 45537048--45537115 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 27
45537038 GAAATCAATT
*
45537048 TTAAAAAATATAATAAAATGAAAAATTAA
1 TTAAAAAATAT-A-AAAATGAAAAATAAA
* *
45537077 TT-AAACA-ATAAAAATTAAAAATAAA
1 TTAAAAAATATAAAAATGAAAAATAAA
*
45537102 TTAAAAAATCTAAA
1 TTAAAAAATATAAA
45537116 CAAAACACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 15 0.47
26 5 0.16
27 6 0.19
28 4 0.12
29 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (27 bp):
TTAAAAAATATAAAAATGAAAAATAAA
Found at i:45542396 original size:50 final size:50
Alignment explanation
Indices: 45542272--45542518 Score: 221
Period size: 50 Copynumber: 4.8 Consensus size: 50
45542262 TATAATAACA
* * ** * * *
45542272 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAT-CGG
* * **
45542321 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * * * *
45542371 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * *
45542421 TGCCAACGCCATGTCCCAAACATGGTCTTACAT-AGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCAT-A--TC---GG
*
45542477 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
45542519 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 80 0.50
53 1 0.01
56 38 0.24
57 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:45542464 original size:100 final size:102
Alignment explanation
Indices: 45542271--45542508 Score: 259
Period size: 99 Copynumber: 2.3 Consensus size: 102
45542261 TTATAATAAC
* * ** * * * *
45542271 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATC
* * **
45542336 CCAGATATGGTCTTACATGAGAGTTCTCAT-A-TC-G
66 CCAAACATGGTCTTACATGAGACCTCTCATAACTCAG
* * * *
45542370 GTGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTA-CTGCCAACGCCATAT
45542435 CCCAAACATGGTCTTACAT-AGGACCTCTCATAATCTCAATG
65 CCCAAACATGGTCTTACATGA-GACCTCTCATAA-CTC-A-G
45542476 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
45542509 TGAGATCTCT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
99 41 0.36
100 37 0.33
101 1 0.01
103 2 0.02
106 32 0.28
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (102 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTACTGCCAACGCCATATC
CCAAACATGGTCTTACATGAGACCTCTCATAACTCAG
Found at i:45544524 original size:25 final size:25
Alignment explanation
Indices: 45544496--45544548 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
45544486 AGTTGCCTGA
* *
45544496 AAAGCCTATGTGGTGTATTATTTGG
1 AAAGCCTACGTGGAGTATTATTTGG
45544521 AAAGCCTACGTGGAGTATTATTTGG
1 AAAGCCTACGTGGAGTATTATTTGG
45544546 AAA
1 AAA
45544549 ACCTTAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (25 bp):
AAAGCCTACGTGGAGTATTATTTGG
Found at i:45544558 original size:25 final size:25
Alignment explanation
Indices: 45544494--45544552 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
45544484 TGAGTTGCCT
* *
45544494 GAAAAGCCTATGTGGTGTATTATTTG
1 GAAAA-CCTACGTGGAGTATTATTTG
*
45544520 GAAAGCCTACGTGGAGTATTATTTG
1 GAAAACCTACGTGGAGTATTATTTG
45544545 GAAAACCT
1 GAAAACCT
45544553 TAGTGGCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (25 bp):
GAAAACCTACGTGGAGTATTATTTG
Found at i:45554706 original size:40 final size:41
Alignment explanation
Indices: 45554571--45554756 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
45554561 TACTCGAATG
*
45554571 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
45554612 ATATCCGGGCTAAGTCCCGAAGG-ATTTTGTGTTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAAGCGACT
* *
45554653 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
45554693 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
45554733 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45554757 CTTGTGCGAG
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 62 0.48
41 64 0.50
42 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:45556248 original size:45 final size:45
Alignment explanation
Indices: 45556199--45556374 Score: 205
Period size: 45 Copynumber: 3.9 Consensus size: 45
45556189 ATGCTTTCAT
*
45556199 ATGATGCCATAACATCTTTTAGCTATGGTCTTACTCATTTTAATC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
* * * * **
45556244 ATGATGCCGTATCTTCCTTCAATTATGGTCTTACTCATTTT-ATC
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
*
45556288 ATGACATG--ATAACATCTTTCAGCTATGGTCTTACTCATTTTTATC
1 ATG--ATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
* * * *
45556333 GTGAGGCCATAGCATCTTTTAGCTATGGTCTTACTCATTTTA
1 ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTA
45556375 CGTGTATAGC
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
43 2 0.02
44 33 0.31
45 70 0.65
46 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAGCTATGGTCTTACTCATTTTAATC
Found at i:45556320 original size:89 final size:89
Alignment explanation
Indices: 45556207--45556374 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
45556197 ATATGATGCC
* * * * * *
45556207 ATAACATCTTTTAGCTATGGTCTTACTCATTTTAATCATGATGCCGTATCTTCCTTCAATTATGG
1 ATAACATCTTTCAGCTATGGTCTTACTCATTTTAATCATGAGGCCATAGCATCCTTCAACTATGG
45556272 TCTTACTCATTTTATCATGACATG
66 TCTTACTCATTTTATCATGACATG
* * * * *
45556296 ATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCGTGAGGCCATAGCATCTTTTAGCTATGG
1 ATAACATCTTTCAGCTATGGTCTTACTCATTTTAATCATGAGGCCATAGCATCCTTCAACTATGG
45556361 TCTTACTCATTTTA
66 TCTTACTCATTTTA
45556375 CGTGTATAGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (89 bp):
ATAACATCTTTCAGCTATGGTCTTACTCATTTTAATCATGAGGCCATAGCATCCTTCAACTATGG
TCTTACTCATTTTATCATGACATG
Found at i:45559235 original size:13 final size:13
Alignment explanation
Indices: 45559217--45559245 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45559207 CATTGAGTAT
45559217 CAATGTCAATGGA
1 CAATGTCAATGGA
45559230 CAATGTCAATGGA
1 CAATGTCAATGGA
45559243 CAA
1 CAA
45559246 AAATTAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (13 bp):
CAATGTCAATGGA
Found at i:45564829 original size:6 final size:7
Alignment explanation
Indices: 45564814--45564838 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45564804 CATTAATTAA
45564814 TTTTATT
1 TTTTATT
45564821 TTTTATT
1 TTTTATT
45564828 TTTTATT
1 TTTTATT
45564835 TTTT
1 TTTT
45564839 TCATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:45574461 original size:27 final size:28
Alignment explanation
Indices: 45574414--45574467 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
45574404 CGAAATTCAT
*
45574414 ACTTTAATTATAAAATAATT-AATTTTC
1 ACTTAAATTATAAAATAATTAAATTTTC
*
45574441 ACTTAAATTATCAACAT-ATTAAATTTT
1 ACTTAAATTAT-AAAATAATTAAATTTT
45574468 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (28 bp):
ACTTAAATTATAAAATAATTAAATTTTC
Found at i:45580835 original size:20 final size:20
Alignment explanation
Indices: 45580812--45580853 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
45580802 CCGATAACTA
*
45580812 CCGTTCACCATCGATCACTG
1 CCGTTCACCATCAATCACTG
*
45580832 CCGTTCACCGTCAATCACTG
1 CCGTTCACCATCAATCACTG
45580852 CC
1 CC
45580854 AATCACCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.43, G:0.14, T:0.24
Consensus pattern (20 bp):
CCGTTCACCATCAATCACTG
Found at i:45580868 original size:20 final size:20
Alignment explanation
Indices: 45580816--45580860 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
45580806 TAACTACCGT
* **
45580816 TCACCATCGATCACTGCCGT
1 TCACCGTCGATCACTGCCAA
*
45580836 TCACCGTCAATCACTGCCAA
1 TCACCGTCGATCACTGCCAA
45580856 TCACC
1 TCACC
45580861 TCCGATCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.42, G:0.11, T:0.22
Consensus pattern (20 bp):
TCACCGTCGATCACTGCCAA
Found at i:45582971 original size:88 final size:89
Alignment explanation
Indices: 45582701--45583012 Score: 443
Period size: 89 Copynumber: 3.5 Consensus size: 89
45582691 TCGGAAAATT
* * * *
45582701 AATAATACGCAAC-AAATTAAATTTACAGATACAAGAAAATACAAACATTCTAGAATATTAATAC
1 AATAATACG-GACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATAC
45582765 A-TGAAAATATAAAATTCAAACAACA
65 ACT-AAAATATAAAATTCAAACAACA
** * *
45582790 AATAATAC-GAGCTAAATTAAATTTACAGACCCAAAAAAATACAACCATTTTAAAAAATTAATAC
1 AATAATACGGA-CTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATAC
*
45582854 ACGAAAATATAAAATTCAAACAACA
65 ACTAAAATATAAAATTCAAACAACA
45582879 AATAATACGGACTAAATTAAATTTACAGATA-AAAAAAATACAAACATTCTAAAAAATTAATACA
1 AATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
*
45582943 CTAAAATATAAAATTCGAACAACA
66 CTAAAATATAAAATTCAAACAACA
* **
45582967 AATAATACAGACTAAATTTGATTTACAGATACAAAAATAATACAAA
1 AATAATACGGACTAAATTAAATTTACAGATACAAAAA-AATACAAA
45583013 AATTTTGAAT
Statistics
Matches: 199, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
87 1 0.01
88 82 0.41
89 106 0.53
90 10 0.05
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (89 bp):
AATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAAAAATTAATACA
CTAAAATATAAAATTCAAACAACA
Found at i:45584263 original size:10 final size:10
Alignment explanation
Indices: 45584250--45584424 Score: 99
Period size: 10 Copynumber: 17.3 Consensus size: 10
45584240 GAGAAGAAAG
45584250 AAAGAAAGAA
1 AAAGAAAGAA
45584260 AAAGAAAGAA
1 AAAGAAAGAA
*
45584270 AAGGAAATG-A
1 AAAGAAA-GAA
* * * *
45584280 GAGGAGAG-G
1 AAAGAAAGAA
45584289 AAAGAAAGAA
1 AAAGAAAGAA
*
45584299 AAAGAAGGAA
1 AAAGAAAGAA
* *
45584309 AGA-AAAGGA
1 AAAGAAAGAA
*
45584318 AAGGAGAAGAAA
1 AAAGA-AAG-AA
45584330 AAAGAAAGAA
1 AAAGAAAGAA
*
45584340 AAAGAAGGAA
1 AAAGAAAGAA
* *
45584350 AGA-AAAGGA
1 AAAGAAAGAA
*
45584359 AATGAGAAGAAA
1 AAAGA-AAG-AA
45584371 AAAGAAAGAA
1 AAAGAAAGAA
45584381 AGAAG-AAGAA
1 A-AAGAAAGAA
* *
45584391 GAAGAAGAGGA
1 AAAGAA-AGAA
* *
45584402 AAGGAAGGAA
1 AAAGAAAGAA
45584412 AAAGAAAGAA
1 AAAGAAAGAA
45584422 AAA
1 AAA
45584425 AAGGTGATTT
Statistics
Matches: 122, Mismatches: 32, Indels: 22
0.69 0.18 0.12
Matches are distributed among these distances:
9 19 0.16
10 70 0.57
11 23 0.19
12 10 0.08
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:45584335 original size:31 final size:29
Alignment explanation
Indices: 45584234--45584388 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 29
45584224 AGAAGGAGAG
45584234 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAA
1 GGAAAGGA-AAG-AA-AAAGAAAGAAAAAG-AA
* *
45584267 GAAAAGGAAATGAGAGGAGAGGAAAGAAAGAA-AA
1 GGAAAGGAAA-GA-A--A-AAGAAAGAAA-AAGAA
* * * *
45584301 AG-AAGGAAAGAAAAGGAAAGGAGAAGAA
1 GGAAAGGAAAGAAAAAGAAAGAAAAAGAA
* *
45584329 --AAAAGAAAGAAAAAGAAGGAAAGAA-AA
1 GGAAAGGAAAGAAAAAGAAAGAAA-AAGAA
*
45584356 GGAAATGAGAAGAAAAAAGAAAGAAAGAAGAA
1 GGAAAGGA-AAG-AAAAAGAAAGAAA-AAGAA
45584388 G
1 G
45584389 AAGAAGAAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 27
0.71 0.10 0.20
Matches are distributed among these distances:
27 20 0.21
28 12 0.12
29 6 0.06
30 3 0.03
31 16 0.17
32 8 0.08
33 16 0.17
34 4 0.04
35 9 0.09
36 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (29 bp):
GGAAAGGAAAGAAAAAGAAAGAAAAAGAA
Found at i:45584343 original size:41 final size:41
Alignment explanation
Indices: 45584234--45584428 Score: 233
Period size: 41 Copynumber: 4.8 Consensus size: 41
45584224 AGAAGGAGAG
45584234 GGAAAGGAGAAGAAAGAAAGAAAG--AAA-AA-GAAAGAAAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAA
* **
45584272 GGAAATGAGAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAA-G-GAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
45584315 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
* * *
45584356 GGAAATGAGAAGAAAAAAGAAAGAAAGAAGAAGAAGAAGAAGA
1 GGAAAGGAGAAGAAAAAAGAAAGAAA-AAGAAGGA-AAGAAAA
*
45584399 GGAAA-G-GAAGGAAAAAGAAAGAAAAA-AAGG
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGG
45584429 TGATTTCTTT
Statistics
Matches: 138, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
38 5 0.04
39 12 0.09
40 8 0.06
41 77 0.56
42 11 0.08
43 25 0.18
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (41 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAA
Found at i:45584377 original size:7 final size:8
Alignment explanation
Indices: 45584243--45584427 Score: 81
Period size: 8 Copynumber: 22.9 Consensus size: 8
45584233 GGGAAAGGAG
45584243 AAGAAAGA
1 AAGAAAGA
45584251 AAGAAAG-
1 AAGAAAGA
45584258 AA-AAAGA
1 AAGAAAGA
45584265 AAGAAAAGGA
1 AAG-AAA-GA
*
45584275 AATGAGAGGA
1 AA-GA-AAGA
*
45584285 GAGGAAAGA
1 -AAGAAAGA
45584294 AAG-AA-A
1 AAGAAAGA
*
45584300 AAGAAGGA
1 AAGAAAGA
45584308 AAGAAAAGGA
1 AAG-AAA-GA
45584318 AAGGAGAAGA
1 AA-GA-AAGA
45584328 AA-AAAGA
1 AAGAAAGA
45584335 AAG-AA-A
1 AAGAAAGA
*
45584341 AAGAAGGA
1 AAGAAAGA
45584349 AAGAAAAGGA
1 AAG-AAA-GA
45584359 AATGAGAAGA
1 AA-GA-AAGA
45584369 AA-AAAGA
1 AAGAAAGA
45584376 AAGAAAG-
1 AAGAAAGA
45584383 AAG-AAG-
1 AAGAAAGA
45584389 AAG-AAGA
1 AAGAAAGA
*
45584396 AGAGGAAAGG
1 A-A-GAAAGA
*
45584406 AAGGAA-A
1 AAGAAAGA
45584413 AAGAAAGA
1 AAGAAAGA
*
45584421 AAAAAAG
1 AAGAAAG
45584428 GTGATTTCTT
Statistics
Matches: 138, Mismatches: 13, Indels: 52
0.68 0.06 0.26
Matches are distributed among these distances:
6 21 0.15
7 31 0.22
8 34 0.25
9 12 0.09
10 31 0.22
11 9 0.07
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (8 bp):
AAGAAAGA
Found at i:45584396 original size:84 final size:82
Alignment explanation
Indices: 45584234--45584428 Score: 258
Period size: 82 Copynumber: 2.4 Consensus size: 82
45584224 AGAAGGAGAG
**
45584234 GGAAAGGAGAAGAAAGAAAGAAAG--AAAAA-GAAAGAAAAGGAAATGAGAGGAGAGGAAAGAAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAAAGGAAAGAAAAGGAAATGAGA-GAGAAAAAAGAAA
*
45584296 GAAAAAGAAGGAAAGAAAA
64 GAAAAAGAAGAAAAGAAAA
45584315 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGAGA-AGAAAAAAGAAAG
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAA-AAGGAAAGAAAAGGAAATGAGAGAGAAAAAAGAAAG
*
45584379 AAAGAAGAAGAAGAAGAAGA
65 AAA-AAGAAGAA-AAGAAAA
*
45584399 GGAAA-G-GAAGGAAAAAGAAAGAAAAAAAGG
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAAAGG
45584429 TGATTTCTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
80 8 0.08
81 19 0.18
82 36 0.35
83 10 0.10
84 30 0.29
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (82 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAAAAGGAAAGAAAAGGAAATGAGAGAGAAAAAAGAAAGA
AAAAGAAGAAAAGAAAA
Found at i:45584997 original size:13 final size:13
Alignment explanation
Indices: 45584960--45584997 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
45584950 AAATGTACTG
*
45584960 AAATAATATA-AA
1 AAATAATATATTA
45584972 ATAATAATATATTA
1 A-AATAATATATTA
45584986 AAATAATATATT
1 AAATAATATATT
45584998 TTTATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 20 0.87
14 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAATATATTA
Found at i:45585128 original size:156 final size:152
Alignment explanation
Indices: 45584755--45585225 Score: 497
Period size: 156 Copynumber: 3.0 Consensus size: 152
45584745 AAAAATGGTA
*
45584755 TATTTAAAAAACACACTAAATTAATAAATTTCAAATATAATGTACTGAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
* * * *
45584820 AAATTAGAAAATATGATATTTT-TT-AAAGTAATAAAATGCAAAGAAAAAAATACGAACAAAGGG
65 AAATTAAAAAATAT-AT-TTTTATTGAAAGTAATAAAATTC-AGGAAAATAATACGAACAAAGGG
* *
45584883 CCGAAGTAAGAGTTTTTTACTAAATT
127 ACGAAGTAAGAGTTTTTTACAAAATT
* * * *
45584909 T-TTTAAAAATTCAGA-AATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAA
1 TATTTAAAAA--CACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAA
*
45584972 ATAATAATATATTAAAATAATATATTTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGC
59 ATAATAA-A-ATTAAAA-AATATATTTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAAC
* *
45585037 AAAGGGTAGGAA-TAAGGGGTTTTTTTA-AAAATT
121 AAAGGG-ACGAAGTAA-GAG-TTTTTTACAAAATT
45585070 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * * *
45585135 AATTAGAAAATATGATATTTTTATTGAAAGTAATAAAATTC-GAGAAAATAGTAGGAATAAATGG
66 AATTA-AAAA-AT-ATATTTTTATTGAAAGTAATAAAATTCAG-GAAAATAATACGAACAAAGGG
* * * * *
45585199 CCAAAATAAGGGTTTTTTACTAAATT
127 ACGAAGTAAGAGTTTTTTACAAAATT
45585225 T
1 T
45585226 TTTTTGAACT
Statistics
Matches: 267, Mismatches: 27, Indels: 45
0.79 0.08 0.13
Matches are distributed among these distances:
152 5 0.02
153 4 0.01
154 23 0.09
155 18 0.07
156 83 0.31
157 4 0.01
158 36 0.13
159 5 0.02
160 43 0.16
161 31 0.12
162 15 0.06
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (152 bp):
TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
AATTAAAAAATATATTTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAACAAAGGGACGA
AGTAAGAGTTTTTTACAAAATT
Found at i:45586892 original size:12 final size:12
Alignment explanation
Indices: 45586875--45586900 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45586865 TCCCGAGCTG
45586875 GAGCCCCAGCCA
1 GAGCCCCAGCCA
45586887 GAGCCCCAGCCA
1 GAGCCCCAGCCA
45586899 GA
1 GA
45586901 TCCCGAACAA
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:0.27, C:0.46, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGCCCCAGCCA
Found at i:45589065 original size:10 final size:10
Alignment explanation
Indices: 45589037--45589073 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
45589027 AAATATCTTT
45589037 TTTTTCTCTTC
1 TTTTTCTC-TC
*
45589048 TCTTTCTCTC
1 TTTTTCTCTC
45589058 TTTTTCTCTC
1 TTTTTCTCTC
45589068 TTTTTC
1 TTTTTC
45589074 CGGTAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:45589194 original size:27 final size:27
Alignment explanation
Indices: 45589156--45589220 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
45589146 ATAACACGAG
**
45589156 TGGTGCCGCCTCTGGGA-AAGGCACCTT
1 TGGTGCCGCCTCTGCCACAA-GCACCTT
45589183 TGGTGCCGCCTCTGCCACAAGCACCTT
1 TGGTGCCGCCTCTGCCACAAGCACCTT
45589210 TGGTGCCGCCT
1 TGGTGCCGCCT
45589221 GTGGCATCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACAAGCACCTT
Found at i:45589393 original size:14 final size:14
Alignment explanation
Indices: 45589357--45589394 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
45589347 TAATTTTTTA
45589357 TTTTGGGATTAATT
1 TTTTGGGATTAATT
*
45589371 TTTT--TATTAATT
1 TTTTGGGATTAATT
45589383 TTTTGGGATTAA
1 TTTTGGGATTAA
45589395 ATGAGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.61
Consensus pattern (14 bp):
TTTTGGGATTAATT
Found at i:45589623 original size:20 final size:18
Alignment explanation
Indices: 45589590--45589628 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
45589580 ATTTAATCCA
*
45589590 TTGAATCTAGATAAGGTT
1 TTGAATCTAGATAAAGTT
45589608 TTGACATCTCAGATAAAGTT
1 TTGA-ATCT-AGATAAAGTT
45589628 T
1 T
45589629 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (18 bp):
TTGAATCTAGATAAAGTT
Found at i:45589658 original size:6 final size:6
Alignment explanation
Indices: 45589647--45589691 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
45589637 ATAAATAATT
* *
45589647 ATTTTA ATTTTA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
45589692 GTTTAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCA
Found at i:45591113 original size:18 final size:19
Alignment explanation
Indices: 45591092--45591135 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
45591082 TTAAAATATT
45591092 AAAATATTAAATTTT-AGA
1 AAAATATTAAATTTTAAGA
*
45591110 AAAATATTAAATTTTAATA
1 AAAATATTAAATTTTAAGA
45591129 AAAATAT
1 AAAATAT
45591136 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATATTAAATTTTAAGA
Found at i:45591121 original size:7 final size:8
Alignment explanation
Indices: 45591076--45591102 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
45591066 AAATTAGAAA
45591076 AAAATATT
1 AAAATATT
45591084 AAAATATT
1 AAAATATT
45591092 AAAATATT
1 AAAATATT
45591100 AAA
1 AAA
45591103 TTTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATATT
Found at i:45591144 original size:18 final size:18
Alignment explanation
Indices: 45591063--45591144 Score: 51
Period size: 19 Copynumber: 4.6 Consensus size: 18
45591053 CTTATTTTAT
*
45591063 TAAAAATTAGAAAAAAATA
1 TAAAAATTA-ATAAAAATA
* *
45591082 TTAAAA-T-ATTAAAATA
1 TAAAAATTAATAAAAATA
* * * *
45591098 TTAAATTTTAGAAAAATA
1 TAAAAATTAATAAAAATA
**
45591116 TTAAATTTTAATAAAAATA
1 -TAAAAATTAATAAAAATA
45591135 TAAAAATTAA
1 TAAAAATTAA
45591145 AATTTATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
16 12 0.25
17 1 0.02
18 16 0.33
19 19 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTAATAAAAATA
Found at i:45591515 original size:32 final size:32
Alignment explanation
Indices: 45591472--45591560 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
45591462 AATATATTTA
*
45591472 TTTTTTT-AATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAAATTTTAAAATAATTTTAAAATAC
****
45591503 TTTTTTTAAATTTTTTTTTAATTTTAAAATAC
1 TTTTTTTAAATTTTAAAATAATTTTAAAATAC
*
45591535 TTTTTTTAATTTTTAAAATAAATTTT
1 TTTTTTTAAATTTTAAAAT-AATTTT
45591561 TAGTATTTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
31 7 0.15
32 33 0.72
33 6 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (32 bp):
TTTTTTTAAATTTTAAAATAATTTTAAAATAC
Found at i:45591538 original size:20 final size:21
Alignment explanation
Indices: 45591515--45591554 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45591505 TTTTTAAATT
45591515 TTTTTTTAA-TTTTAAAATAC
1 TTTTTTTAATTTTTAAAATAC
45591535 TTTTTTTAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAATA
45591555 AATTTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAC
Found at i:45591560 original size:20 final size:20
Alignment explanation
Indices: 45591517--45591562 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
45591507 TTTAAATTTT
**
45591517 TTTTTAATTTTAAAATACTT
1 TTTTTAATTTTAAAATACAA
45591537 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATACAA
45591557 TTTTTA
1 TTTTTA
45591563 GTATTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTAATTTTAAAATACAA
Found at i:45591560 original size:21 final size:20
Alignment explanation
Indices: 45591516--45591561 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
45591506 TTTTAAATTT
**
45591516 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
45591536 TTTTTTAATTTTTAAAATAAA
1 TTTTTTAA-TTTTAAAATAAA
45591557 TTTTT
1 TTTTT
45591562 AGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:45593559 original size:34 final size:34
Alignment explanation
Indices: 45593521--45593589 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
45593511 AATTATAAAG
45593521 ATATATTTGATCATGGTATTTTAATTACTGTCTA
1 ATATATTTGATCATGGTATTTTAATTACTGTCTA
*
45593555 ATATATTTGATCATGGTATTTTGATTACTGTCTA
1 ATATATTTGATCATGGTATTTTAATTACTGTCTA
45593589 A
1 A
45593590 AGTTTGTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (34 bp):
ATATATTTGATCATGGTATTTTAATTACTGTCTA
Found at i:45595659 original size:29 final size:28
Alignment explanation
Indices: 45595627--45595694 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 28
45595617 TCATATAAAA
45595627 ATATTTAATATTAAGAATT-TTATTAAATT
1 ATATTT-ATATTAAGAATTATT-TTAAATT
*
45595656 ATATTTA-A-TAATAATTATTTTAAATT
1 ATATTTATATTAAGAATTATTTTAAATT
45595682 ATATTTTATATTA
1 ATA-TTTATATTA
45595695 TTATATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 17 0.50
27 7 0.21
28 2 0.06
29 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
ATATTTATATTAAGAATTATTTTAAATT
Found at i:45595770 original size:61 final size:61
Alignment explanation
Indices: 45595694--45595890 Score: 224
Period size: 61 Copynumber: 3.3 Consensus size: 61
45595684 ATTTTATATT
45595694 ATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* ** * * * * * *
45595755 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATTATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
* *
45595814 ATTATATATTATGATTTTAGTAAATTCATATAAGAATACTTAATATTAAGAATTTTATTAA
1 ATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
45595875 ATTATATATTTTTATT
1 ATTATATATTATTATT
45595891 AAATTATATT
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
58 6 0.06
59 32 0.30
60 14 0.13
61 47 0.44
62 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (61 bp):
ATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:45595777 original size:120 final size:120
Alignment explanation
Indices: 45595644--45595919 Score: 516
Period size: 120 Copynumber: 2.3 Consensus size: 120
45595634 ATATTAAGAA
* *
45595644 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATTAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
*
45595709 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATACTTAATATTAAGAATTTTATTAAATTATATAT
45595764 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
45595829 TTTAGTAAATTCATATAAGAATACTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAGAATACTTAATATTAAGAATTTTATTAAATTATATAT
*
45595884 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAA
45595920 ATATGATTAA
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 152 1.00
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAATACTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:45596146 original size:45 final size:44
Alignment explanation
Indices: 45596057--45596154 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
45596047 ATTACAACAT
* **
45596057 CATTCCATTCAACCAAACACAAGAATACTATTACATTTCTATTC
1 CATTCCAGTCAACCAAACACAAGAATACTATTACACCTCTATTC
* *
45596101 CATTCCAGTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTC
1 CATTCCAGTCAACCAAACACA-AGAA-TACTATTACACCTCTATTC
*
45596146 CATTACAGT
1 CATTCCAGT
45596155 TCTATTCCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCCAGTCAACCAAACACAAGAATACTATTACACCTCTATTC
Found at i:45596158 original size:16 final size:16
Alignment explanation
Indices: 45596139--45596170 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45596129 CTATTACGCC
45596139 TCTATTCCATTACAGT
1 TCTATTCCATTACAGT
45596155 TCTATTCCATTACAGT
1 TCTATTCCATTACAGT
45596171 GAACCAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
TCTATTCCATTACAGT
Found at i:45602344 original size:16 final size:16
Alignment explanation
Indices: 45602323--45602354 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45602313 TTTTTTAGGG
45602323 TTTTTCAAATTTTTAT
1 TTTTTCAAATTTTTAT
45602339 TTTTTCAAATTTTTAT
1 TTTTTCAAATTTTTAT
45602355 GATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCAAATTTTTAT
Found at i:45603520 original size:56 final size:55
Alignment explanation
Indices: 45603434--45603541 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 55
45603424 GTATCCATTG
45603434 GATGATAAATCATCACTTTTAATTTGAATAGTGC-CTATGAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTC-ATGAATAATT-AATTTGTAA
45603490 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
45603542 CAATCTATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
55 6 0.12
56 44 0.86
57 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:45605212 original size:477 final size:477
Alignment explanation
Indices: 45604318--45605275 Score: 1790
Period size: 477 Copynumber: 2.0 Consensus size: 477
45604308 CCACAACTTT
45604318 ATATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTC
1 ATATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTC
45604383 AGCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTC
66 AGCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTC
45604448 CAATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCC
131 CAATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCC
*
45604513 GAGTAACCTTCTAGTACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAG
196 GAGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAG
* *
45604578 ATAGCCAAAAATTCTACAAATGCCTTTCCAAAGATTGGTACAAGGACAATTTGTAAATCTCGCTA
261 ATAGCCAAAAATTCTACAAATGCCTTTCCAAAGATCGGTACAAGGACAATTTGTAAATCTCGCCA
* *
45604643 ATTTGCACACAGCAAATGCGATATTAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATT
326 ATTTGCACACAACAAATGCGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATT
*
45604708 ACGCTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATC
391 ACACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATC
*
45604773 GTATGGAGTGTTCGAATCCTTG
456 GTATGGAGTGTTCAAATCCTTG
*
45604795 ATATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTT
1 ATATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTC
45604860 AGCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTC
66 AGCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTC
45604925 CAATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCC
131 CAATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCC
45604990 GAGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAG
196 GAGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAG
*
45605055 ATAGCCAAAAATTCTACAAATGCCTTTCCAATGATCGGTACAAGGACAATTTGTAAATCTCGCCA
261 ATAGCCAAAAATTCTACAAATGCCTTTCCAAAGATCGGTACAAGGACAATTTGTAAATCTCGCCA
* *
45605120 ATTTGCACACAACAAATGCGATATCAGGTTTAGTACAATGCATTGCATACATTAGACTTCCGATT
326 ATTTGCACACAACAAATGCGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATT
* * *
45605185 GCACTGGCGTACTCAAGTTGCGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATT
391 ACACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATC
45605250 GTATGGAGTGTTCAAATCCTTG
456 GTATGGAGTGTTCAAATCCTTG
45605272 ATAT
1 ATAT
45605276 TCAAGTGTTT
Statistics
Matches: 467, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
477 467 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (477 bp):
ATATCTAACAAGAGATCTCTTAGCCATTCCGCTTCCTTGCCAGTAGCTGCTAAGGCTATAAATTC
AGCCTCCATAGTTGAATGTGATATGCATGTTTGTTTCTTGGAGGCCCAACTAATGACTCCACCTC
CAATTGTAAAAATTCATCCCGATGTGAACTTATTGTCACTTAGACTTGTAATCCAACTTGCATCC
GAGTAACCTTCTAGAACTGCGGGATAATCACTATAGAATAATCCAAAATTATTTATTTTCTTAAG
ATAGCCAAAAATTCTACAAATGCCTTTCCAAAGATCGGTACAAGGACAATTTGTAAATCTCGCCA
ATTTGCACACAACAAATGCGATATCAGGTCTAGTACAACGCATTGCATACATTAGACTTCCGATT
ACACTGGCGTACTCAAGTTACGATATAGCCCTGCCATTATTCTCACTTAACTTGAAGTTCGAATC
GTATGGAGTGTTCAAATCCTTG
Found at i:45610213 original size:121 final size:121
Alignment explanation
Indices: 45609995--45610235 Score: 464
Period size: 121 Copynumber: 2.0 Consensus size: 121
45609985 TATGATATCC
45609995 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
1 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
45610060 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
66 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
*
45610116 TTGATTCCTTTGAGTTAAATTTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
1 TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
*
45610181 GTCTTCTTAATGATTAATATAATCACTGTCAACAAATGATTGTGATAAATTACTC
66 GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTC
45610236 TGTTCAAGAA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (121 bp):
TTGATTCCTTTGAGTTAAATCTGTTCACTCAATACAATCCTATTTTATCTCATTATCACCATTGT
GTCTTCTTAATGATTAATATAATCACTATCAACAAATGATTGTGATAAATTACTCG
Found at i:45616946 original size:68 final size:68
Alignment explanation
Indices: 45616836--45617014 Score: 234
Period size: 68 Copynumber: 2.6 Consensus size: 68
45616826 GTTACACTAA
* * * *
45616836 CTATGATCTTAGACATTATAAAC-CTATGTTTAATGTCTTGGCGAACTCCATATGTTGCCATAAC
1 CTATGGTCTTAAACATTATGAACTC-ATGTTTAATGTCCTGGCGAACTCCATATGTTGCCATAAC
45616900 CTAG
65 CTAG
* *
45616904 CTATGGTCTTACACATTATGAACTCATGTTTAATGTCCTGGCGAACTCCATATGTTGCCATAGCC
1 CTATGGTCTTAAACATTATGAACTCATGTTTAATGTCCTGGCGAACTCCATATGTTGCCATAACC
*
45616969 TGG
66 TAG
* ** * *
45616972 CTTTGGTCTTAAACATTATGGGCTAATGTTTAAGGTCCTGGCG
1 CTATGGTCTTAAACATTATGAACTCATGTTTAATGTCCTGGCG
45617015 GACTTTCGAT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
68 97 0.99
69 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (68 bp):
CTATGGTCTTAAACATTATGAACTCATGTTTAATGTCCTGGCGAACTCCATATGTTGCCATAACC
TAG
Found at i:45627815 original size:14 final size:14
Alignment explanation
Indices: 45627796--45627826 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45627786 CAAACATTAG
45627796 GTTCCATCAGGTTT
1 GTTCCATCAGGTTT
45627810 GTTCCATCAGGTTT
1 GTTCCATCAGGTTT
45627824 GTT
1 GTT
45627827 ACAACCTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (14 bp):
GTTCCATCAGGTTT
Found at i:45630579 original size:20 final size:20
Alignment explanation
Indices: 45630546--45630583 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45630536 TAACATGTCA
45630546 AAAATAAATCAAAATTTATG
1 AAAATAAATCAAAATTTATG
* *
45630566 AAAATTAATTAAAATTTA
1 AAAATAAATCAAAATTTA
45630584 ATAGGTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAAATCAAAATTTATG
Found at i:45631930 original size:68 final size:69
Alignment explanation
Indices: 45631853--45631988 Score: 166
Period size: 68 Copynumber: 2.0 Consensus size: 69
45631843 TTTAATAATT
* ** * *
45631853 TTAAAATTAAATTAAATTTAATACTTATCTTAATAG-TTTTTTATTAACTTAATATCAAAGTGAT
1 TTAAAATTAAATTAAATCTAATACTTATCTTAATAGATGCTATATTAACTTAATATCAAAGTAAT
45631917 TTTC
66 TTTC
* * * * * *
45631921 TTAATATTAAATTTAATCTAATATTTATCTTGATAGATGCTATATTAATTTAATATTAAAGTAAT
1 TTAAAATTAAATTAAATCTAATACTTATCTTAATAGATGCTATATTAACTTAATATCAAAGTAAT
45631986 TTT
66 TTT
45631989 ATTTAATCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
68 31 0.55
69 25 0.45
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (69 bp):
TTAAAATTAAATTAAATCTAATACTTATCTTAATAGATGCTATATTAACTTAATATCAAAGTAAT
TTTC
Found at i:45635960 original size:51 final size:51
Alignment explanation
Indices: 45635874--45635983 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 51
45635864 TAGACTCCTT
45635874 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
1 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
* * * ** * *
45635925 CAACTTTATGGTGATTTTCCTTGATGTTATGACTTTTGTAGCATATTTTTG
1 CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
45635976 CAACCTTA
1 CAACCTTA
45635984 ACACTTGATG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (51 bp):
CAACCTTACGGTGATTGTCCTTGATGTTACAACTTTTGTAGCATATTGTCG
Found at i:45641391 original size:20 final size:20
Alignment explanation
Indices: 45641366--45641407 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45641356 TAAAGACAGT
* * *
45641366 TGTCTTTATTTAGTGTATCC
1 TGTCTTAATCTAGTATATCC
45641386 TGTCTTAATCTAGTATATCC
1 TGTCTTAATCTAGTATATCC
45641406 TG
1 TG
45641408 CCAATTGCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (20 bp):
TGTCTTAATCTAGTATATCC
Found at i:45646548 original size:49 final size:48
Alignment explanation
Indices: 45646388--45646587 Score: 190
Period size: 49 Copynumber: 4.2 Consensus size: 48
45646378 GCGTATCAAT
* *
45646388 AATCTGTTATGACACAAGGGTGGCACAGACTGTGTGCAGGCCACCGAT
1 AATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG
* * * * * *
45646436 ATTCTGTTCTG--ACAAGGGTGGCACGGACTGCGTACAGGCCACCAAT
1 AATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG
* * * * *
45646482 AA-CTTTTTAAGATACAAAGGGTGGCACGGACTATGTGCAGGCCATCGAG
1 AATC-TGTTATGACAC-AAGGGTGGCACGGACTGTGTGCAGGCCACCGAG
* * * * *
45646531 AATCTGTTATTACACAAAGGTGGTACGAACTGTGTGCAGGCCACTGAG
1 AATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG
45646579 AAATCTGTT
1 -AATCTGTT
45646588 TTTATTCCGA
Statistics
Matches: 120, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 36 0.30
48 38 0.32
49 44 0.37
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
AATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGAG
Found at i:45649323 original size:7 final size:7
Alignment explanation
Indices: 45649313--45649356 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
45649303 TGAGAGATGA
*
45649313 GAGGGTT
1 GAGGGAT
45649320 GAGGGAT
1 GAGGGAT
45649327 GAGGGAT
1 GAGGGAT
*
45649334 AAGGGAT
1 GAGGGAT
**
45649341 GATTGAT
1 GAGGGAT
45649348 GAGGGAT
1 GAGGGAT
45649355 GA
1 GA
45649357 TTGAAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (7 bp):
GAGGGAT
Found at i:45660179 original size:22 final size:22
Alignment explanation
Indices: 45660153--45660487 Score: 205
Period size: 22 Copynumber: 15.0 Consensus size: 22
45660143 TAGATTAGAA
*
45660153 TTTGTATGAATATTTTAAATTT
1 TTTGTATGAATATTGTAAATTT
*
45660175 TTTGTATGAATATTAT-AATTT
1 TTTGTATGAATATTGTAAATTT
45660196 TTT-TATGAATATTGT-AA--T
1 TTTGTATGAATATTGTAAATTT
* *
45660214 GTTGTATGAATATTGT-ATTTAT
1 TTTGTATGAATATTGTAAATT-T
* *
45660236 TTTATAGTTAA-ATTTGT--ATTT
1 TTTGTA-TGAATA-TTGTAAATTT
* * * * *
45660257 ATAGTTTTGGAT-TAGT-AATTT
1 TTTG-TATGAATATTGTAAATTT
45660278 TTTGTATGAATATTGT-AA--T
1 TTTGTATGAATATTGTAAATTT
*
45660297 TTTGTATGAATATTATAAATTT
1 TTTGTATGAATATTGTAAATTT
45660319 TTTGTATGAATATTGTAATATTATAGT
1 TTTGTATGAATATTGTAA-A-T-T--T
* **
45660346 TTTGTATGAATATTGCATTTTT
1 TTTGTATGAATATTGTAAATTT
*
45660368 TTTGTATGAATATTGTAATTTTGTAAT
1 TTTGTATGAATATTGTAA--AT-T--T
* * *
45660395 TTTATATGAATATTATATATTT
1 TTTGTATGAATATTGTAAATTT
45660417 TTTGTATGAATATTGTAATATTATAAT
1 TTTGTATGAATATTGTAA-A-T-T--T
* *
45660444 TTTGTATGAATATTGCAATTTT
1 TTTGTATGAATATTGTAAATTT
45660466 TTTGTATGAATATTGT-AATTT
1 TTTGTATGAATATTGTAAATTT
45660487 T
1 T
45660488 GTAATTTTGT
Statistics
Matches: 247, Mismatches: 38, Indels: 57
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.01
19 29 0.12
20 23 0.09
21 28 0.11
22 91 0.37
23 9 0.04
24 7 0.03
25 6 0.02
27 51 0.21
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.56
Consensus pattern (22 bp):
TTTGTATGAATATTGTAAATTT
Found at i:45660223 original size:19 final size:20
Alignment explanation
Indices: 45660154--45660337 Score: 97
Period size: 20 Copynumber: 8.9 Consensus size: 20
45660144 AGATTAGAAT
* *
45660154 TTGTATGAATATTTTAAATTTT
1 TTGTATGAATATTGT-AA-TTG
* *
45660176 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAATTG
*
45660196 TTTTATGAATATTGTAA-TG
1 TTGTATGAATATTGTAATTG
* *
45660215 TTGTATGAATATTGTATTTA
1 TTGTATGAATATTGTAATTG
* * *
45660235 TTTTATAGTTAA-ATTTGTATTTA
1 TTGTAT-G--AATA-TTGTAATTG
* * * * *
45660258 TAGTTTTGGAT-TAGTAATTTT
1 TTG-TATGAATATTGTAA-TTG
45660279 TTGTATGAATATTGTAATT-
1 TTGTATGAATATTGTAATTG
* *
45660298 TTGTATGAATATTATAAATTTT
1 TTGTATGAATATTGT-AA-TTG
45660320 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
45660338 ATTATAGTTT
Statistics
Matches: 129, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
19 30 0.23
20 38 0.29
21 17 0.13
22 29 0.22
23 13 0.10
24 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTGTATGAATATTGTAATTG
Found at i:45660302 original size:49 final size:47
Alignment explanation
Indices: 45660248--45660503 Score: 192
Period size: 49 Copynumber: 5.4 Consensus size: 47
45660238 TATAGTTAAA
* * *
45660248 TTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGTAAT
1 TTTGTATTT-TAG-TATGAATTAGCAATTTTTTGTATGAATATTGTAAT
* **
45660297 TTTGTA---T-GAAT--ATTATAAATTTTTTGTATGAATATTGTAAT
1 TTTGTATTTTAGTATGAATTAGCAATTTTTTGTATGAATATTGTAAT
* * * *
45660338 ATTATAGTTTT-GTATGAATATTGCATTTTTTTTGTATGAATATTGTAAT
1 TTTGTA-TTTTAGTATGAAT-TAGCA-ATTTTTTGTATGAATATTGTAAT
*
45660387 TTTGTAATTTTA-TATGAATATTA-TATATTTTTTGTATGAATATTGTAAT
1 TTTGT-ATTTTAGTATG-A-ATTAGCA-ATTTTTTGTATGAATATTGTAAT
* * *
45660436 ATTATAATTTT-GTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 TTTGT-ATTTTAGTATGAAT-TAGCAA-TTTTTTGTATGAATATTGTAAT
45660485 TTTGTAATTTT-GTATGAAT
1 TTTGT-ATTTTAGTATGAAT
45660504 ATTGTAATGT
Statistics
Matches: 169, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
41 32 0.19
43 1 0.01
44 1 0.01
45 5 0.03
47 4 0.02
48 5 0.03
49 116 0.69
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.55
Consensus pattern (47 bp):
TTTGTATTTTAGTATGAATTAGCAATTTTTTGTATGAATATTGTAAT
Found at i:45660354 original size:27 final size:27
Alignment explanation
Indices: 45660318--45660511 Score: 202
Period size: 27 Copynumber: 7.7 Consensus size: 27
45660308 ATTATAAATT
*
45660318 TTTTGTATGAATATTGTAATATTATAG
1 TTTTGTATGAATATTGTAATATTATAA
*
45660345 TTTTGTATGAATATTG-CAT-TT-T--
1 TTTTGTATGAATATTGTAATATTATAA
* *
45660367 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
45660394 TTTTATATGAATA-T-T-ATA-TAT-T
1 TTTTGTATGAATATTGTAATATTATAA
45660416 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
*
45660443 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAA
* *
45660465 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
45660492 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
45660512 GTGGGGATAT
Statistics
Matches: 141, Mismatches: 11, Indels: 30
0.77 0.06 0.16
Matches are distributed among these distances:
22 44 0.31
23 6 0.04
24 9 0.06
25 11 0.08
26 7 0.05
27 64 0.45
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:45660403 original size:98 final size:98
Alignment explanation
Indices: 45660290--45660506 Score: 398
Period size: 98 Copynumber: 2.2 Consensus size: 98
45660280 TGTATGAATA
*
45660290 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
*
45660355 ATATTGCATTTTTTTTGTATGAATATTGTAATT
66 ATATTGCAATTTTTTTGTATGAATATTGTAATT
* *
45660388 TTGTAATTTTATATGAATATTATATATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
45660453 ATATTGCAATTTTTTTGTATGAATATTGTAATT
66 ATATTGCAATTTTTTTGTATGAATATTGTAATT
45660486 TTGTAATTTTGTATGAATATT
1 TTGTAATTTTGTATGAATATT
45660507 GTAATGTGGG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (98 bp):
TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
ATATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:45660504 original size:49 final size:49
Alignment explanation
Indices: 45660286--45660564 Score: 327
Period size: 49 Copynumber: 5.7 Consensus size: 49
45660276 TTTTTGTATG
** *
45660286 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * *
45660335 AATATTATAGTTTTGTATGAATATTGCATTTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
45660384 AATTTTGTAATTTTATATGAATATT--ATATATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCA-AT-TTTTTTGTATGAATATTGT
*
45660433 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * * ** *
45660482 AATTTTGTAATTTTGTATGAATATTGTAA--TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
45660527 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGCAATTTTTTT
45660565 ATAATTAATT
Statistics
Matches: 196, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
45 16 0.08
47 25 0.13
48 1 0.01
49 151 0.77
50 2 0.01
51 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:45660752 original size:38 final size:38
Alignment explanation
Indices: 45660707--45660780 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
45660697 CATATAAAGT
45660707 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
45660745 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
45660781 GGGTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:45660932 original size:15 final size:15
Alignment explanation
Indices: 45660891--45660932 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45660881 GTTAACTCAT
*
45660891 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
45660906 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
45660922 TTAAATTTTAT
1 TTAAATTTTAT
45660933 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:45662568 original size:6 final size:6
Alignment explanation
Indices: 45662557--45662581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45662547 GCATCATGCA
45662557 CCAGAG CCAGAG CCAGAG CCAGAG C
1 CCAGAG CCAGAG CCAGAG CCAGAG C
45662582 GAGTGGCAGA
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:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:45665941 original size:22 final size:22
Alignment explanation
Indices: 45665913--45665968 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
45665903 AAATACCTAA
*
45665913 TTCTTTTCTTTTGCTTCCTTCC
1 TTCTTTTCTTCTGCTTCCTTCC
*
45665935 TTCTTTTCTTCTGCTTCCTTCT
1 TTCTTTTCTTCTGCTTCCTTCC
45665957 TTCTTTTCTTCT
1 TTCTTTTCTTCT
45665969 TTCTTCTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (22 bp):
TTCTTTTCTTCTGCTTCCTTCC
Found at i:45666067 original size:27 final size:27
Alignment explanation
Indices: 45666029--45666129 Score: 184
Period size: 27 Copynumber: 3.7 Consensus size: 27
45666019 AGAAAAATCA
45666029 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
45666056 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
45666083 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
45666110 CATTGGCGCCTTCCAGATAG
1 CATTGGCGCCTCCCAGATAG
45666130 ACGCCAATAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.23, C:0.39, G:0.22, T:0.17
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:45666204 original size:20 final size:21
Alignment explanation
Indices: 45666179--45666217 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45666169 GGAAAAGTAT
45666179 AAAATTA-TATTTTATTCAAA
1 AAAATTATTATTTTATTCAAA
45666199 AAAATTATTATTTTATTCA
1 AAAATTATTATTTTATTCA
45666218 TTGGCGCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTATTATTTTATTCAAA
Found at i:45670576 original size:808 final size:807
Alignment explanation
Indices: 45666327--45673311 Score: 12301
Period size: 807 Copynumber: 8.7 Consensus size: 807
45666317 TAAAAAACCC
45666327 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* * *
45666392 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAATCTAAAACCTATGCAGATAACAGAGGCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* * *
45666457 TAGGGTTGTTATGTAACCTACAATTTAATCTGGTTAGGATATAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* * *
45666522 TATGCATCTATTAGCCGAAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTTAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
*
45666587 ATAAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
* *
45666652 ATGAATCAAATAAATATTGTTTAATAAAAATAAACCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
*
45666717 TGTAAACAAAAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
45666782 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
45666847 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
* *
45666912 ATGTAAATTATCCTAATATGCAAACTATATGAATGAAGTAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
45666977 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
* *
45667042 TGCTTACTAATATTCGGAAAAATATTTTATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
45667107 TAGGTCCTTTCGGAATCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
45667134 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
45667199 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAGTCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* *
45667264 TAGGGTTGTTATGCAACCTACAATTTAATCTGGTTAGGATCTAAATTAAGCATGCACATTTCAAC
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* * *
45667329 TATGCATCCATTAGCTGTAGTCTGGTTAGGATCACTCAGCTAATTCTGGTGCATTTCAATCCCGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
45667394 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
45667459 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
45667524 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* * *
45667589 ACCCAATTCAGAGTGACTGTCAGCCAAGACTCTAATTGATGAGGCTCATTCGCTTCTTTGCCTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
45667654 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAATTATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
45667719 ATGTAAATTATCCTAATAT---G---A-ATG---G-AATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
45667773 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
45667838 TGCTTAATAATATTC-GAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
45667902 TAGGTCCTTTCGGAATCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
45667929 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
45667994 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAGTCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
*
45668059 TAGGGTTGTTATGCAACCTACAATTTAATCTGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
* *
45668124 TATGCATCTATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAGTTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
*
45668189 ATGAACAAAATACATACTTGGTTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
45668254 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
45668319 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
45668384 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCATTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
45668449 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
* *
45668514 ATGTAAATTATCGTAATATGCAGACTAATATGAATGGAATAGATTTTAGCAAAATTTAACACAAT
586 ATGTAAATTATCCTAATATGCAGACT-ATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
45668579 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
650 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
* *
45668644 ATCCTCAATAATATTCGG-AAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
715 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
45668708 TTAGGTCCTTTCGGAATCCTTTACTTAG
780 TTAGGTCCTTTCGGAATCCTTTACTTAG
*
45668736 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGGCGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* *
45668801 ACGTGTTAGGTTTGAAGCAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGGCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* ** *
45668866 TAGGGTTGTTATGTAACCTACAATTTAATCTAGTTAGGATCTAAATTAAGCATGCGCATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
45668931 TATGCATCTATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
* *
45668996 ATGAACAAAATACATACTTGGTTTTAGTTGAAAACATGATCGATTGAGGCGCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
* *
45669061 ATGAATCAAATAAATATTGTTTAATGAAAATAATCCTAGCTTAAATAAATTTAAGTTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
45669126 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* * *
45669191 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAATTGATGAGACTCATTCGCTTCATTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
45669256 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTTAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
45669321 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
*
45669386 TGCAACAATTATAACATAAATAAACTAAGAGAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
45669451 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
*
45669516 TAGGTCCTTTCGGAGTCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
* * *
45669543 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTGAAGTAATAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
45669608 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* * *
45669673 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGAATCTAAATCAAGCATGCGCATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
45669738 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGGTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
45669803 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
*
45669868 ATGAATCAAATAAATATTGTTTAACCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
*
45669933 TGTAAACAAGAACAAAGAACACATAGTAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
45669998 ACCCAATTCAGAGTGGCTGTTAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
45670063 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
45670128 ATGTAAATTATCCTAATATGCAGACTAATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
586 ATGTAAATTATCCTAATATGCAGACT-ATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
* * *
45670193 TTGCAACAACTATAACATAAATAAACTAAGACAATTATAATAATTAAACTTAATTTATTATCATC
650 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
45670258 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
715 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
45670323 TTAGGTCCTTTCGGAATCCTTTACTTAG
780 TTAGGTCCTTTCGGAATCCTTTACTTAG
* * *
45670351 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTTAGGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* * * *
45670416 ACGTGTTAGGTTTGAAACAATGTAATCACACAAATCAAAAAACTATACAGATAACAGAGCCTGAT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
45670481 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
45670546 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTGAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
* *
45670611 ATGAACAAAATGCATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCGCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
45670676 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
45670741 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
45670806 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCCTTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
*
45670871 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTTAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
*
45670936 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAACATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
* *
45671001 TGCAACAATTATAACATAAATAAACTCAGACAATTATATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
*
45671066 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTAGATCTTTCATGAGTTTGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
*
45671131 TAGGTCCTTTCGGAGTCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
* * *
45671158 TGAATATGCATTTTACTGATCCTTATTTACTAAGGTTTTCTTAGCATTCGTGTGACGTAACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
45671223 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
* * *
45671288 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGAATCTAAATCAAGCATGCGCATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
45671353 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGGTAATTCAGGTGCATTTCAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
45671418 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
*
45671483 ATGAATCAAATAAATATTGTTTAACCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
* * *
45671548 TGTAAAGAAGAACAAAGAATACATAGTAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
*
45671613 ACCCAATTCAGAGTGGCTGTCACCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
45671678 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
45671743 ATGTAAATTATCCTAATATGCAGACTAATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
586 ATGTAAATTATCCTAATATGCAGACT-ATATGAATGAAATAGATTTTAGCAAAATTTAACACAAT
* *
45671808 TTGCAACAATTATAACATAAATAAACTAAGACAATTATAATAATTAAACTTAATTTATTATCATC
650 TTGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATC
* *
45671873 ATGCTTAATAAAATTCGGAAAAATATTTCATGGCAACTCGATATTTCATGAGTTTGGAAACCAAA
715 ATGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAA
45671938 TTAGGTCCTTTCGGAATCCTTTACTTAG
780 TTAGGTCCTTTCGGAATCCTTTACTTAG
* * * *
45671966 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTTAGGTAATAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
* * * *
45672031 ACGTGTTAGGTTTGAAACAATGTAATCACACAAATCAAAAAACTATACAGATAACAGAGCCTGAT
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
45672096 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
131 TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
*
45672161 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTGAATCACGT
196 TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
* *
45672226 ATGAACAAAATGCATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCGCAAACATTATAAGC
261 ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
45672291 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
326 ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
45672356 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
391 TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
* * *
45672421 ACCCAATTCAGAGTGGCTATC-CCCAAGACTCTAACTGATAAGGCTCATTCGCTTCTTTGCGTTG
456 ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
* *
45672485 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCAGACCAAATATGCAAACTAGATTCAATGATCCGTA
521 CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
45672550 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
586 ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
45672615 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
651 TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
** *
45672680 TGCTTAATAATATTCAAAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTCGGAAACCAAAT
716 TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
45672745 TAGGTCCTTTCGGAATCCTTTACTTAG
781 TAGGTCCTTTCGGAATCCTTTACTTAG
* * * *
45672772 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCATGTTAGGTTACAGGG
1 TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
*
45672837 ACGTGTTAGGTTTGAAACAATTTAATCTCACAAATCTAAAAACTATGCAGATAACAGAGCC-GAG
66 ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTG-G
* * *
45672901 -TAGGGTTGTTATACAACCTACAATTTAATCGAGTTAGGATCTAAATTGAGCATGCACATTTCAA
130 TTAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAA
* * ** **
45672965 TTATGCGTCCATTAGCCGTTGTCAAG-T--G--CA-T-TTC-AATTCAGGTGCATTTCAATCACG
195 TTATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACG
** * * * * * * *
45673022 TATGAATGAAATACAGACTTGATTTTAATCGAAAACATGATCGATTGAGACACAAAAATTACAAG
260 TATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAG
* * **
45673087 CATGAATCAAATAAATATTATTTAATCAAAATAATTATCCTAGCTGAAATAGTTTTAAGCTATCA
325 CATGAATCAAATAAATATTGTTTAATCAAAAT-A--ATCCTAGCTTAAATAAATTTAAGCTATCA
* * *
45673152 TTGTTGTAAACAAGAACAAAGAACACATATCAAACATCTTTAAATTAAACTAAAGAAAAGAAATA
387 TTGTTGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGA
* * * * *
45673217 TTAAACCCAATTCAGAGTGGCTGTCACCCAAGACTCTGACGGATGAGGCTCCTTCACTTCTTTGC
452 TTAAACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGC
*
45673282 GTTGCTCC-TTTGCTGATGGTTCTCCAAGGT
517 GTTGCTCCTTTTGCTGATAGTTCTCCAAGGT
45673312 AGTTGACCAA
Statistics
Matches: 5938, Mismatches: 219, Indels: 49
0.96 0.04 0.01
Matches are distributed among these distances:
795 667 0.11
796 107 0.02
797 109 0.02
798 3 0.00
799 1 0.00
800 138 0.02
801 43 0.01
802 2 0.00
803 3 0.00
804 1 0.00
805 84 0.01
806 427 0.07
807 2927 0.49
808 1426 0.24
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (807 bp):
TAAATACGCATTTTACTGATCCTTATTTACTAAGGGTTTCTTAGCATTCGTGTGACGTAACAGGG
ACGTGTTAGGTTTGAAACAATTTAATCACACAAATCTAAAAACTATGCAGATAACAGAGCCTGGT
TAGGGTTGTTATGCAACCTACAATTTAATCGGGTTAGGATCTAAATTAAGCATGCACATTTCAAT
TATGCATCCATTAGCCGTAGTCTGGTTAGGATCACTCAGCTAATTCAGGTGCATTTCAATCACGT
ATGAACAAAATACATACTTGATTTTAGTTGAAAACATGATCGATTGAGGCTCAAACATTATAAGC
ATGAATCAAATAAATATTGTTTAATCAAAATAATCCTAGCTTAAATAAATTTAAGCTATCATTGT
TGTAAACAAGAACAAAGAACACATAGCAAACATCTTTAAATTAAATTAAAGAAAAGAAAGATTAA
ACCCAATTCAGAGTGGCTGTCAGCCAAGACTCTAACTGATGAGGCTCATTCGCTTCTTTGCGTTG
CTCCTTTTGCTGATAGTTCTCCAAGGTGGCGGACCAAATATGCAAACTAGATTCAATGATCCCTA
ATGTAAATTATCCTAATATGCAGACTATATGAATGAAATAGATTTTAGCAAAATTTAACACAATT
TGCAACAATTATAACATAAATAAACTAAGACAATTACATTAATTAAACTTAATTTATTATCATCA
TGCTTAATAATATTCGGAAAAATATTTCATGGCAACTCGATCTTTCATGAGTTTGGAAACCAAAT
TAGGTCCTTTCGGAATCCTTTACTTAG
Found at i:45675856 original size:47 final size:47
Alignment explanation
Indices: 45675804--45676115 Score: 471
Period size: 47 Copynumber: 6.6 Consensus size: 47
45675794 GATAATTGTG
* *
45675804 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45675851 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45675898 ATGTGAAAGAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45675947 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45675996 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
45676043 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45676090 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45676116 TCCCGAAGGG
Statistics
Matches: 243, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 150 0.62
48 4 0.02
49 89 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45675929 original size:96 final size:96
Alignment explanation
Indices: 45675812--45676115 Score: 481
Period size: 96 Copynumber: 3.2 Consensus size: 96
45675802 TGATGTGAAT
45675812 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45675877 GCCGAATGGCCAATGTGATGAATGTGAAAGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGA
45675908 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA
* *
45675973 AGGCCTAATGGCCGATGTGATGAATGTG-AA-A
64 AGGCCGAATGGCCAATGTGATGAATGTGAAAGA
* * *
45676004 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * *
45676069 GCCGAGTGGCCAACGTGATGGATGTGAAAGT
66 GCCGAATGGCCAATGTGATGAATGTGAAAGA
45676100 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
45676116 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
94 44 0.23
95 3 0.02
96 104 0.54
97 2 0.01
98 39 0.20
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGA
Found at i:45678293 original size:38 final size:38
Alignment explanation
Indices: 45678229--45678303 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
45678219 AATCCGAGTT
*
45678229 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
45678267 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
45678304 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:45678416 original size:40 final size:40
Alignment explanation
Indices: 45678357--45678757 Score: 617
Period size: 40 Copynumber: 10.1 Consensus size: 40
45678347 AGGTCTCGAC
45678357 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
45678396 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
45678436 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
45678476 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
45678516 GATGTA-CTCGGGCTAAGTCCCGAAAAGCATTCATGCTAGT
1 GATGTATC-CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
45678556 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
45678596 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
45678636 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
45678676 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
45678716 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
45678756 GA
1 GA
45678758 CGTGTATTCG
Statistics
Matches: 332, Mismatches: 27, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
39 5 0.02
40 326 0.98
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:45682228 original size:49 final size:47
Alignment explanation
Indices: 45682168--45682526 Score: 538
Period size: 47 Copynumber: 7.6 Consensus size: 47
45682158 GATAATTGTG
* * *
45682168 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45682215 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45682262 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
45682311 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45682360 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
45682407 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
45682454 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
45682501 ATGTGAAAGTGTGTAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
45682527 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 194 0.67
49 94 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:45692696 original size:12 final size:11
Alignment explanation
Indices: 45692668--45692695 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
45692658 ATGTTATTTT
45692668 AAAAAATTGAA
1 AAAAAATTGAA
45692679 AAAAAATTGAA
1 AAAAAATTGAA
45692690 AAAAAA
1 AAAAAA
45692696 AAGATCCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAAAATTGAA
Found at i:45694490 original size:24 final size:24
Alignment explanation
Indices: 45694475--45694526 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45694465 AATCAAAGTC
45694475 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
45694499 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
45694523 AAAT
1 AAAT
45694527 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:45706377 original size:24 final size:24
Alignment explanation
Indices: 45706350--45706407 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
45706340 AAGTCTAATT
45706350 CTAATCAAA-ATCAAATATATTATG
1 CTAAT-AAATATCAAATATATTATG
* * *
45706374 CTAATAAATGTTAAATATATTATA
1 CTAATAAATATCAAATATATTATG
*
45706398 CTCATAAATA
1 CTAATAAATA
45706408 CTAAATCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (24 bp):
CTAATAAATATCAAATATATTATG
Found at i:45706412 original size:24 final size:24
Alignment explanation
Indices: 45706362--45706413 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
45706352 AATCAAAATC
* **
45706362 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
45706386 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
45706410 AAAT
1 AAAT
45706414 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:45707139 original size:18 final size:20
Alignment explanation
Indices: 45707090--45707140 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
45707080 TATGTCAACC
*
45707090 TAAATAAATATTATATCAAAT
1 TAAATAAATATGATAT-AAAT
45707111 TATAATGAAATATGATAT-AA-
1 TA-AAT-AAATATGATATAAAT
45707131 TAAATAAATA
1 TAAATAAATA
45707141 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.19
19 3 0.11
20 2 0.07
21 4 0.15
22 3 0.11
23 10 0.37
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAATAAATATGATATAAAT
Found at i:45710204 original size:79 final size:81
Alignment explanation
Indices: 45710068--45710252 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
45710058 TTGAATGATG
*
45710068 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
45710132 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
45710147 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
45710209 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
45710227 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45710253 AACAAGTAGC
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:45710266 original size:40 final size:40
Alignment explanation
Indices: 45710069--45710252 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
45710059 TGAATGATGT
* * * *
45710069 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
45710109 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
45710149 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45710187 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45710228 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45710253 AACAAGTAGC
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:45710274 original size:79 final size:78
Alignment explanation
Indices: 45710069--45710285 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
45710059 TGAATGATGT
* *
45710069 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
45710132 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
* *
45710149 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
45710212 GTGCGAGTTACT-ATAA
63 GTGCGAGATACTAAT-A
* ** *
45710228 CCGGGCTATGTCCCGAAGGCATTTGAACAAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTT-AAGTCCGAAGG
45710286 TACGTGATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.57
80 47 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:45717694 original size:42 final size:42
Alignment explanation
Indices: 45717610--45717693 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
45717600 GTAGGGTAAA
* * * * *
45717610 TCCAACAACCCAAGTTTTTCTTCTCCTTTTTTAAATTCTTTT
1 TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
45717652 TCCAACAACCCAAGATTATATTCTCC-TCTTCAAATTCTTTT
1 TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
45717693 T
1 T
45717694 TGTAGGATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (42 bp):
TCCAACAACCCAAGATTATATTCTCCTTCTTCAAATTCTTTT
Found at i:45719240 original size:20 final size:19
Alignment explanation
Indices: 45719196--45719240 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
45719186 AAACTGTGAA
*
45719196 AAATTCAAAATTAAGGGGT
1 AAATTCAAAATTAAGGGCT
*
45719215 AGAATTGAAAATTAAGGAGCT
1 A-AATTCAAAATTAAGG-GCT
45719236 AAATT
1 AAATT
45719241 TAGCTTAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (19 bp):
AAATTCAAAATTAAGGGCT
Found at i:45723047 original size:27 final size:28
Alignment explanation
Indices: 45722963--45723060 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
45722953 CATGAGATTG
* * * *
45722963 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
45722992 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
45723020 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
45723047 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45723061 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:45723071 original size:27 final size:27
Alignment explanation
Indices: 45722991--45723073 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
45722981 TAAATTGTAC
* *
45722991 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
45723019 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
45723046 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
45723073 A
1 A
45723074 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
Found at i:45723074 original size:29 final size:27
Alignment explanation
Indices: 45722963--45723074 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
45722953 CATGAGATTG
** * *
45722963 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
45722992 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
45723020 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
45723047 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
45723075 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:45725227 original size:17 final size:19
Alignment explanation
Indices: 45725196--45725234 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
45725186 GAAATATTTA
*
45725196 TTTTGATGTTTTTAT-TAT
1 TTTTGATGTTATTATATAT
45725214 TTTTGATG-TATTATATAT
1 TTTTGATGTTATTATATAT
45725232 TTT
1 TTT
45725235 CAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTGATGTTATTATATAT
Found at i:45734789 original size:21 final size:21
Alignment explanation
Indices: 45734765--45734804 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45734755 TTGTGGCTGC
45734765 ATCTGA-TTCTGGTGTGGATTT
1 ATCTGACTT-TGGTGTGGATTT
*
45734786 ATCTGACTTTGTTGTGGAT
1 ATCTGACTTTGGTGTGGAT
45734805 GCATTTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.15, C:0.10, G:0.28, T:0.47
Consensus pattern (21 bp):
ATCTGACTTTGGTGTGGATTT
Found at i:45735419 original size:25 final size:25
Alignment explanation
Indices: 45735391--45735440 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45735381 TTTGTGTTTC
45735391 CTGTTAAACGCCATACATAGGACAA
1 CTGTTAAACGCCATACATAGGACAA
* * *
45735416 CTGTTGAACGCCATGCATGGGACAA
1 CTGTTAAACGCCATACATAGGACAA
45735441 TATCGAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (25 bp):
CTGTTAAACGCCATACATAGGACAA
Found at i:45745220 original size:2 final size:2
Alignment explanation
Indices: 45745213--45745269 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
45745203 ATCCCATCCT
45745213 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
45745255 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
45745270 ATGTATGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:45746911 original size:13 final size:13
Alignment explanation
Indices: 45746893--45746917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45746883 TTCACAATAA
45746893 TTTAATTTTTTAT
1 TTTAATTTTTTAT
45746906 TTTAATTTTTTA
1 TTTAATTTTTTA
45746918 AATTTTAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTAATTTTTTAT
Found at i:45747411 original size:11 final size:10
Alignment explanation
Indices: 45747380--45747410 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
45747370 CTTTAGATCC
45747380 ATTTATTTTT
1 ATTTATTTTT
45747390 ATTTCATTTTT
1 ATTT-ATTTTT
45747401 ATTTATTTTT
1 ATTTATTTTT
45747411 TTCCCTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:45747430 original size:18 final size:19
Alignment explanation
Indices: 45747403--45747438 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45747393 TCATTTTTAT
45747403 TTATT-TTTTTCCCTTTCC
1 TTATTCTTTTTCCCTTTCC
45747421 TTATTCTTTTTCCCTTTC
1 TTATTCTTTTTCCCTTTC
45747439 TTTCTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTCTTTTTCCCTTTCC
Found at i:45758203 original size:12 final size:12
Alignment explanation
Indices: 45758186--45758218 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45758176 TAAAAATAAT
45758186 AATGAAATAAAA
1 AATGAAATAAAA
45758198 AATGAAATAAAA
1 AATGAAATAAAA
*
45758210 AATAAAATA
1 AATGAAATA
45758219 TGATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
AATGAAATAAAA
Found at i:45763806 original size:17 final size:18
Alignment explanation
Indices: 45763764--45763808 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
45763754 TCTAAAAAAA
45763764 ATTTACCATTTCACATCTC
1 ATTT-CCATTTCACATCTC
*
45763783 ATTTCCATTTCACGTC-C
1 ATTTCCATTTCACATCTC
*
45763800 TTTTCCATT
1 ATTTCCATT
45763809 CTAATATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTCCATTTCACATCTC
Found at i:45769720 original size:14 final size:15
Alignment explanation
Indices: 45769701--45769729 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45769691 GCATAATCCG
45769701 TTCAATC-ATATGAA
1 TTCAATCAATATGAA
45769715 TTCAATCAATATGAA
1 TTCAATCAATATGAA
45769730 GCCACGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (15 bp):
TTCAATCAATATGAA
Found at i:45770992 original size:14 final size:16
Alignment explanation
Indices: 45770960--45770998 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
45770950 TAAATAATTA
45770960 TATTATTTATCATATAT
1 TATTATTTA-CATATAT
45770977 TATTATTTA-ATA-AT
1 TATTATTTACATATAT
45770991 TATTATTT
1 TATTATTT
45770999 TGGTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
17 9 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTACATATAT
Found at i:45771412 original size:10 final size:10
Alignment explanation
Indices: 45771397--45771466 Score: 57
Period size: 10 Copynumber: 7.8 Consensus size: 10
45771387 TAAAAAATTC
45771397 TAATTTTTAA
1 TAATTTTTAA
45771407 TAATTTTTAA
1 TAATTTTTAA
45771417 T--TTTTT-A
1 TAATTTTTAA
*
45771424 T-ATTTTTAT
1 TAATTTTTAA
**
45771433 TAAAATTTAA
1 TAATTTTTAA
45771443 TAATTTTT--
1 TAATTTTTAA
45771451 T-ATTTTT-A
1 TAATTTTTAA
45771459 TAATTTTT
1 TAATTTTT
45771467 TCTAATATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 8 0.16
8 12 0.24
9 7 0.14
10 22 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:45771430 original size:45 final size:46
Alignment explanation
Indices: 45771373--45771467 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 46
45771363 TTTTACAAAA
*
45771373 TTTTATGATTTTTATAAAAAATT-CTAATTTTTAATAATTTT-TAATT
1 TTTTATGATTTTTATAAAAAATTAATAATTTTT--TAATTTTATAATT
* * *
45771419 TTTTAT-ATTTTTATTAAAATTTAATAATTTTTTATTTTTATAATT
1 TTTTATGATTTTTATAAAAAATTAATAATTTTTTAATTTTATAATT
45771464 TTTT
1 TTTT
45771468 CTAATATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
44 6 0.14
45 23 0.53
46 14 0.33
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (46 bp):
TTTTATGATTTTTATAAAAAATTAATAATTTTTTAATTTTATAATT
Found at i:45771480 original size:36 final size:36
Alignment explanation
Indices: 45771394--45771481 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
45771384 TTATAAAAAA
*
45771394 TTCTAATTTTTAATAATTTTTAATTTTTTATATTTT
1 TTCTAATATTTAATAATTTTTAATTTTTTATATTTT
* *
45771430 TAT-TAAAATTTAATAATTTTTTA-TTTTTATAATTTT
1 T-TCTAATATTTAATAATTTTTAATTTTTTAT-ATTTT
*
45771466 TTCTAATATATAATAA
1 TTCTAATATTTAATAA
45771482 GAGCAGGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 8 0.18
36 35 0.80
37 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (36 bp):
TTCTAATATTTAATAATTTTTAATTTTTTATATTTT
Found at i:45774554 original size:17 final size:16
Alignment explanation
Indices: 45774520--45774549 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45774510 TCAGTCGTTG
45774520 AAATGAAAAAAAATGC
1 AAATGAAAAAAAATGC
45774536 AAAT-AAAAAAAATG
1 AAATGAAAAAAAATG
45774550 TGCAAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
AAATGAAAAAAAATGC
Done.