Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 134 of 316
Found at i:42847733 original size:19 final size:19
Alignment explanation
Indices: 42847709--42847745 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
42847699 TTTTAAAGTT
*
42847709 ATTTAGGTAGATAAATCTG
1 ATTTAGATAGATAAATCTG
42847728 ATTTAGATAGATAAATCT
1 ATTTAGATAGATAAATCT
42847746 CAGAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
ATTTAGATAGATAAATCTG
Found at i:42849940 original size:23 final size:24
Alignment explanation
Indices: 42849908--42849953 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
42849898 TTTTCATTAG
* *
42849908 TATATTTTCTTTTCTT-ATTTTCA
1 TATATATTCTTCTCTTCATTTTCA
42849931 TATATATTCTTCTCTTCATTTTC
1 TATATATTCTTCTCTTCATTTTC
42849954 GATAAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATATTCTTCTCTTCATTTTCA
Found at i:42852800 original size:42 final size:42
Alignment explanation
Indices: 42852712--42852805 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
42852702 TTTAGTTGGG
* *
42852712 AAAATAATTTCCTTATTCTAATAAACTACTAAAACATACAGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATACAAA
*
42852754 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATA-AAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATACAAA
42852795 TAAAAT-ATTCC
1 -AAAATAATTCC
42852806 TATAATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
41 7 0.15
42 41 0.85
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATACAAA
Found at i:42861547 original size:19 final size:19
Alignment explanation
Indices: 42861523--42861562 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
42861513 TTATTAAAAA
*
42861523 CTTAGTTAATTTATTTATT
1 CTTAGTTAATTTATTCATT
42861542 CTTAGTTAATTTATTCATT
1 CTTAGTTAATTTATTCATT
42861561 CT
1 CT
42861563 ACCAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (19 bp):
CTTAGTTAATTTATTCATT
Found at i:42862864 original size:29 final size:30
Alignment explanation
Indices: 42862821--42862877 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
42862811 TTTTATCGTT
42862821 AATTTTGTTATTATTTTAAAGGCATTTGTC
1 AATTTTGTTATTATTTTAAAGGCATTTGTC
*
42862851 AATTTT-TTATTATTTTAGAGGCATTTG
1 AATTTTGTTATTATTTTAAAGGCATTTG
42862878 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.54
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGGCATTTGTC
Found at i:42867511 original size:26 final size:26
Alignment explanation
Indices: 42867475--42867558 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
42867465 CATGAAATTC
*
42867475 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
42867501 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
42867527 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
42867553 TTATCA
1 TTATCA
42867559 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:42871115 original size:32 final size:32
Alignment explanation
Indices: 42871074--42871146 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
42871064 TGTTGTATAG
*
42871074 AGTTTAATTGAT-TTTATAAATTATTTTACAAT
1 AGTTTAATTGATATTTAT-AATTATTTTACAAA
*
42871106 AGTTTAATTGATATTTCTAATTATTTTACAAA
1 AGTTTAATTGATATTTATAATTATTTTACAAA
*
42871138 AATTTAATT
1 AGTTTAATT
42871147 ACTTTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.52
Consensus pattern (32 bp):
AGTTTAATTGATATTTATAATTATTTTACAAA
Found at i:42871190 original size:18 final size:18
Alignment explanation
Indices: 42871169--42871321 Score: 107
Period size: 19 Copynumber: 8.3 Consensus size: 18
42871159 TAAGTATTAG
*
42871169 AAAATATTAGAAAATTGTA
1 AAAATATTA-AAAATTATA
42871188 AAAATATTAAAAATTATA
1 AAAATATTAAAAATTATA
*
42871206 AAAATTATAAAAAATTATA
1 AAAA-TATTAAAAATTATA
*
42871225 GAAAA-ATATAAATATTATTA
1 -AAAATAT-TAAAAATTA-TA
* **
42871245 AATATATTAATGTATTAT-
1 AAAATATTAA-AAATTATA
*
42871263 AAAA-GTTAAAGAATTATA
1 AAAATATTAAA-AATTATA
* *
42871281 AAAA-GTTATAAATTATA
1 AAAATATTAAAAATTATA
* *
42871298 AAAAAAATAAAAATTATA
1 AAAATATTAAAAATTATA
42871316 TAAAAT
1 -AAAAT
42871322 TATCAAAATG
Statistics
Matches: 109, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
17 20 0.18
18 36 0.33
19 40 0.37
20 13 0.12
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATATTAAAAATTATA
Found at i:42871198 original size:9 final size:9
Alignment explanation
Indices: 42871163--42871254 Score: 55
Period size: 10 Copynumber: 9.7 Consensus size: 9
42871153 TTTATTTAAG
42871163 TATTAGAAAA
1 TATTA-AAAA
42871173 TATTAGAAAA
1 TATTA-AAAA
42871183 T-TGTAAAAA
1 TAT-TAAAAA
42871192 TATTAAAAA
1 TATTAAAAA
42871201 T-TATAAAAA
1 TAT-TAAAAA
*
42871210 TTATAAAAAA
1 -TATTAAAAA
*
42871220 TTATAGAAAAA
1 -TAT-TAAAAA
*
42871231 TA-TAAATAT
1 TATTAAA-AA
*
42871240 TATTAAATA
1 TATTAAAAA
42871249 TATTAA
1 TATTAA
42871255 TGTATTATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
8 4 0.06
9 28 0.41
10 30 0.44
11 6 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:42871320 original size:11 final size:10
Alignment explanation
Indices: 42871197--42871324 Score: 59
Period size: 9 Copynumber: 13.8 Consensus size: 10
42871187 AAAAATATTA
42871197 AAAATTATA-
1 AAAATTATAT
*
42871206 AAAATTATAA
1 AAAATTATAT
*
42871216 AAAATTATAG
1 AAAATTATAT
42871226 AAAA--ATAT
1 AAAATTATAT
42871234 AAATATTAT-T
1 AAA-ATTATAT
42871244 -AAA-TATAT
1 AAAATTATAT
*
42871252 -TAATGTATTAT
1 AAAAT-TA-TAT
42871263 AAAAGTTA-A-
1 AAAA-TTATAT
*
42871272 AGAATTATA-
1 AAAATTATAT
*
42871281 AAAAGT-TAT
1 AAAATTATAT
42871290 -AAATTATA-
1 AAAATTATAT
**
42871298 AAAAAAATA-
1 AAAATTATAT
42871307 AAAATTATAT
1 AAAATTATAT
42871317 AAAATTAT
1 AAAATTAT
42871325 CAAAATGGCG
Statistics
Matches: 92, Mismatches: 12, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
7 3 0.03
8 19 0.21
9 35 0.38
10 25 0.27
11 5 0.05
12 4 0.04
13 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
AAAATTATAT
Found at i:42873817 original size:11 final size:10
Alignment explanation
Indices: 42873789--42873814 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42873779 TAAATTCCAT
42873789 ATTTTTAATG
1 ATTTTTAATG
42873799 ATTTTTAATG
1 ATTTTTAATG
42873809 ATTTTT
1 ATTTTT
42873815 TAAACTCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:42874557 original size:46 final size:46
Alignment explanation
Indices: 42874490--42874659 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
42874480 TGTAACTCGC
*
42874490 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
* *
42874536 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * * *
42874582 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
42874629 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
42874660 TTCGGATGCC
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.60
47 28 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:42874612 original size:93 final size:93
Alignment explanation
Indices: 42874498--42874669 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
42874488 GCCCATAAGT
* *
42874498 GAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42874563 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
42874591 GAACTCGGACTCAACTTAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
42874656 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
42874670 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:42874684 original size:46 final size:46
Alignment explanation
Indices: 42874495--42874684 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 46
42874485 CTCGCCCATA
* * * * * *
42874495 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCTTTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCT
* * *
42874541 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * * *
42874590 --CGAACTCGGACTCAACTTAACGAGTTCAGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCCT
*
42874634 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
42874680 AGTGA
1 AGTGA
42874685 CATGTCACTT
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
44 11 0.10
45 3 0.03
46 62 0.57
47 27 0.25
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:42879728 original size:3 final size:3
Alignment explanation
Indices: 42879720--42879747 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42879710 TAGAAGGAAC
42879720 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
42879748 AAAATAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:42881735 original size:13 final size:13
Alignment explanation
Indices: 42881717--42881741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42881707 ATGTGTCTTT
42881717 TTTTTAAAATATA
1 TTTTTAAAATATA
42881730 TTTTTAAAATAT
1 TTTTTAAAATAT
42881742 TTTATTATAC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:42883615 original size:12 final size:14
Alignment explanation
Indices: 42883598--42883630 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
42883588 TTGAGGTACT
42883598 AAATTAA-GTA-AA
1 AAATTAAGGTATAA
42883610 AAATTAAGGTATAA
1 AAATTAAGGTATAA
42883624 AAATTAA
1 AAATTAA
42883631 ATTTGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 3 0.16
14 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (14 bp):
AAATTAAGGTATAA
Found at i:42883794 original size:163 final size:164
Alignment explanation
Indices: 42883576--42883886 Score: 457
Period size: 163 Copynumber: 1.9 Consensus size: 164
42883566 ACTAACTTTG
* * * *
42883576 CCAATATAAAAGTTGAGGTACTAAATTAAGTAAAAAATTAAGGTATAAAAATTAAATTTGAAATT
1 CCAATATAAAAGTTGAGGTACCAAATTAAGTAAAAAATTAAAGTATAAAAATTAAATCTAAAATT
* ** *
42883641 TAAGCATATTTTAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAACAAATA-TTT
66 TAAGCATATTATAAAGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAA-AAAAACTTT
*
42883705 GTTTTATTATTTGGACAAATATAAAAAAAGAATGT
130 GTTTCATTATTTGGACAAATATAAAAAAAGAATGT
* *
42883740 CCAA-ATAAAAGTTGTGGTACCAAATTATGTTAAAAAATTAAAGTAT-AAAATTAAATCTAAAAT
1 CCAATATAAAAGTTGAGGTACCAAATTAAG-TAAAAAATTAAAGTATAAAAATTAAATCTAAAAT
* *
42883803 TTGAGCATATTATAAAGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAAAGCTT
65 TTAAGCATATTATAAAGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAAA-CTT
42883868 TGTTTCATTATTTGGACAA
129 TGTTTCATTATTTGGACAA
42883887 GTTTCCTAAA
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
162 4 0.03
163 88 0.67
164 39 0.30
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (164 bp):
CCAATATAAAAGTTGAGGTACCAAATTAAGTAAAAAATTAAAGTATAAAAATTAAATCTAAAATT
TAAGCATATTATAAAGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAAACTTTG
TTTCATTATTTGGACAAATATAAAAAAAGAATGT
Found at i:42886318 original size:45 final size:45
Alignment explanation
Indices: 42886268--42886358 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
42886258 GTTGAAATGT
42886268 GAAATAAATAAAATTTTGGGCTACTAGAGACTCAAGTATAAATCA
1 GAAATAAATAAAATTTTGGGCTACTAGAGACTCAAGTATAAATCA
* * *
42886313 GAAATAAATAAAATTTTGGGCTGCTAGGGACTTAAGTATAAATCA
1 GAAATAAATAAAATTTTGGGCTACTAGAGACTCAAGTATAAATCA
42886358 G
1 G
42886359 CTAAGCATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (45 bp):
GAAATAAATAAAATTTTGGGCTACTAGAGACTCAAGTATAAATCA
Found at i:42888228 original size:43 final size:43
Alignment explanation
Indices: 42888131--42888217 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
42888121 ATGGTCTGTA
* * *
42888131 ACACGGGCATGTCTGATGGCCATGTGAGGCACACGGCCTGTTC
1 ACACAGGCGTGTCTAATGGCCATGTGAGGCACACGGCCTGTTC
* *
42888174 ACACAGGCGTGTCTAATGGCCATGTGAGGCACATGGTCTGTTC
1 ACACAGGCGTGTCTAATGGCCATGTGAGGCACACGGCCTGTTC
42888217 A
1 A
42888218 TATTGGCGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (43 bp):
ACACAGGCGTGTCTAATGGCCATGTGAGGCACACGGCCTGTTC
Found at i:42888726 original size:35 final size:35
Alignment explanation
Indices: 42888687--42889177 Score: 223
Period size: 35 Copynumber: 13.7 Consensus size: 35
42888677 ATGAATTAGC
* *
42888687 AGTGTTGTGGTGAGATATTAATTGAGTGAAGTATA
1 AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * *
42888722 AGTGTTGTGCTGGGATGTTAAATGAATGAAGAATGAAGTATC
1 AGTGTTGTGGTGAGATGTT-AAT---T---GAATGAAGTATA
* * *
42888764 GGTGTTGTGGT-AGGATATTAAATGAATGAA-T-TA
1 AGTGTTGTGGTGA-GATGTTAATTGAATGAAGTATA
* * * *
42888797 ACGGTGTTATGGTAAGATGTTAAATGAATGAAGTATT
1 A--GTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * * *
42888834 GGTGTTGTGG-CAGAATGTTAAATGAATGAAGAAGTATT
1 AGTGTTGTGGTGAG-ATGTTAATTGAAT---GAAGTATA
* ** * *
42888872 GGTGTTGTAAT-AGGATGTTAAATGAATGTAGTA-A
1 AGTGTTGTGGTGA-GATGTTAATTGAATGAAGTATA
* * * * *
42888906 CACTGTTGTGGCGGGATATTAATTGAATGAAGTATC
1 -AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* *
42888942 AGTGTTGTGGT-AGGATGCTACA-TGAATGTAGTA-A
1 AGTGTTGTGGTGA-GATGTTA-ATTGAATGAAGTATA
* * * * *
42888976 CGATGTTGTGGCGGGATATTAATTGAATGAAGTATC
1 AG-TGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * * * * *
42889012 GGTATAGTGGTGGGATGTTAAATGAATAAAGTAT-
1 AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * * * *
42889046 CGATGTTGTGGTGGGTTATTAATTGAATAAAGTA-A
1 AG-TGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * * *
42889081 TAGTGTTATGGTGGGATGTTAAATGAATGAAGTATC
1 -AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* * *
42889117 GGTGTTGTGGCGAGATGTTAATTGAAAGAAGTAT-
1 AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
* *
42889151 CGATGTTGTGGTGAAATGTTAATTGAA
1 AG-TGTTGTGGTGAGATGTTAATTGAA
42889178 AAAGGATTGG
Statistics
Matches: 348, Mismatches: 75, Indels: 66
0.71 0.15 0.13
Matches are distributed among these distances:
33 1 0.00
34 7 0.02
35 272 0.78
36 8 0.02
37 1 0.00
38 31 0.09
39 2 0.01
41 2 0.01
42 24 0.07
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (35 bp):
AGTGTTGTGGTGAGATGTTAATTGAATGAAGTATA
Found at i:42888746 original size:70 final size:70
Alignment explanation
Indices: 42888672--42889150 Score: 383
Period size: 70 Copynumber: 6.7 Consensus size: 70
42888662 GTCTATGGCT
* * * * * * *
42888672 AATGAATGAATTAGCAGTGTTGTGGTGAGATATTAATTGAGTGAAGTATAAGTGTTGTGCTGGGA
1 AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTATAAGTGTTGTGGTAGGA
42888737 TGTTAAA
66 TGTT--A
* * *
42888744 TGAATGAAGAATGAAGTATCGGTGTTGTGG-TAGGATATTAAATGAATGAA-T-TAACGGTGTTA
1 --AAT---GAATGAAGTATCGGTGTTGTGGCGA-GATATTAATTGAATGAAGTATAA--GTGTTG
*
42888806 TGGTAAGATGTTA
58 TGGTAGGATGTTA
* * * ** **
42888819 AATGAATGAAGTATTGGTGTTGTGGC-AGAATGTTAAATGAATGAAGAAGTATTGGTGTTGTAAT
1 AATGAATGAAGTATCGGTGTTGTGGCGAG-ATATTAATTGAAT---GAAGTATAAGTGTTGTGGT
42888883 AGGATGTTA
62 AGGATGTTA
* * ** * *
42888892 AATGAATGTAGTAACACTGTTGTGGCGGGATATTAATTGAATGAAGTATCAGTGTTGTGGTAGGA
1 AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTATAAGTGTTGTGGTAGGA
*
42888957 TGCTA
66 TGTTA
* * * * * ** * * *
42888962 CATGAATGTAGTAACGATGTTGTGGCGGGATATTAATTGAATGAAGTATCGGTATAGTGGTGGGA
1 AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTATAAGTGTTGTGGTAGGA
42889027 TGTTA
66 TGTTA
* * * * * * * *
42889032 AATGAATAAAGTATCGATGTTGTGGTGGGTTATTAATTGAATAAAGTA-ATAGTGTTATGGTGGG
1 AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTATA-AGTGTTGTGGTAGG
42889096 ATGTTA
65 ATGTTA
* *
42889102 AATGAATGAAGTATCGGTGTTGTGGCGAGATGTTAATTGAAAGAAGTAT
1 AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTAT
42889151 CGATGTTGTG
Statistics
Matches: 330, Mismatches: 59, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
69 1 0.00
70 216 0.65
73 53 0.16
74 5 0.02
75 5 0.02
76 2 0.01
77 48 0.15
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (70 bp):
AATGAATGAAGTATCGGTGTTGTGGCGAGATATTAATTGAATGAAGTATAAGTGTTGTGGTAGGA
TGTTA
Found at i:42888772 original size:42 final size:42
Alignment explanation
Indices: 42888713--42888793 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
42888703 ATTAATTGAG
* *
42888713 TGAAGTATAAGTGTTGTGCTGGGATGTTAAATGAATGAAGAA
1 TGAAGTATAAGTGTTGTGCTAGGATATTAAATGAATGAAGAA
** *
42888755 TGAAGTATCGGTGTTGTGGTAGGATATTAAATGAATGAA
1 TGAAGTATAAGTGTTGTGCTAGGATATTAAATGAATGAA
42888794 TTAACGGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.32
Consensus pattern (42 bp):
TGAAGTATAAGTGTTGTGCTAGGATATTAAATGAATGAAGAA
Found at i:42888871 original size:38 final size:39
Alignment explanation
Indices: 42888819--42888899 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 39
42888809 TAAGATGTTA
**
42888819 AATGAATGAAGTATTGGTGTTGTGGCAGAATGTTAAATG
1 AATGAATGAAGTATTGGTGTTGTAACAGAATGTTAAATG
* *
42888858 AATGAA-GAAGTATTGGTGTTGTAATAGGATGTTAAATG
1 AATGAATGAAGTATTGGTGTTGTAACAGAATGTTAAATG
42888896 AATG
1 AATG
42888900 TAGTAACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.36, C:0.01, G:0.30, T:0.33
Consensus pattern (39 bp):
AATGAATGAAGTATTGGTGTTGTAACAGAATGTTAAATG
Found at i:42888933 original size:108 final size:109
Alignment explanation
Indices: 42888672--42888969 Score: 312
Period size: 108 Copynumber: 2.7 Consensus size: 109
42888662 GTCTATGGCT
* * * * *
42888672 AATGAATGAATTAGCAGTGTTGTGGTGAGATATTAATTGAGTGAAGTATAAGTGTTGT-GCTGGG
1 AATGAATGAAGTAACACTGTTGTGGTGAGATATTAATTGAATGAAGTATAAGTGTTGTGGC-AGG
**
42888736 ATGTTAAATGAATGAAGAATGAAGTATCGGTGTTGTGGTAGGATATTA
65 ATGTTAAATGAAT---GAATGAAGTATCGGTGTTGTAATAGGATATTA
* ** * * * * ** *
42888784 AATGAATGAATTAACGGTGTTATGGTAAGATGTTAAATGAATGAAGTATTGGTGTTGTGGCAGAA
1 AATGAATGAAGTAACACTGTTGTGGTGAGATATTAATTGAATGAAGTATAAGTGTTGTGGCAGGA
* *
42888849 TGTTAAATGAATGAA-GAAGTATTGGTGTTGTAATAGGATGTTA
66 TGTTAAATGAATGAATGAAGTATCGGTGTTGTAATAGGATATTA
* * * * *
42888892 AATGAATGTAGTAACACTGTTGTGGCGGGATATTAATTGAATGAAGTATCAGTGTTGTGGTAGGA
1 AATGAATGAAGTAACACTGTTGTGGTGAGATATTAATTGAATGAAGTATAAGTGTTGTGGCAGGA
* *
42888957 TGCTACATGAATG
66 TGTTAAATGAATG
42888970 TAGTAACGAT
Statistics
Matches: 154, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
108 86 0.56
109 3 0.02
112 63 0.41
113 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.34
Consensus pattern (109 bp):
AATGAATGAAGTAACACTGTTGTGGTGAGATATTAATTGAATGAAGTATAAGTGTTGTGGCAGGA
TGTTAAATGAATGAATGAAGTATCGGTGTTGTAATAGGATATTA
Found at i:42889173 original size:105 final size:106
Alignment explanation
Indices: 42888765--42889181 Score: 330
Period size: 105 Copynumber: 4.0 Consensus size: 106
42888755 TGAAGTATCG
* * ** *
42888765 GTGTTGTGGTAGGATATTAAATGAATGAATTAACGGTGTTATGGTAAGATGTTAAATGAATGAAG
1 GTGTTGTGGTAGGATATTAAATGAATGAAGTAACGGTGTTGTGGCGAGATGTTAAATGAAAGAAG
* * * * * *
42888830 TATTGGTGTTGTGG-CAGAATGTTAAATGAATGAAGAAGTATTG
66 TATCGATGTTGTGGTGAGAATGTTAATTGAAT--A-AAGTAATA
** * * ** * * * *
42888873 GTGTTGTAATAGGATGTTAAATGAATGTAGTAACACTGTTGTGGCGGGATATTAATTGAATGAAG
1 GTGTTGTGGTAGGATATTAAATGAATGAAGTAACGGTGTTGTGGCGAGATGTTAAATGAAAGAAG
* * ** *
42888938 TATC-AGTGTTGTGGT-AGGATGCTACA-TGAATGTAGTAA-C
66 TATCGA-TGTTGTGGTGAGAATGTTA-ATTGAATAAAGTAATA
** * * * * * *
42888977 GATGTTGTGGCGGGATATTAATTGAATGAAGTATCGGTATAGTGGTGGGATGTTAAATGAATA-A
1 G-TGTTGTGGTAGGATATTAAATGAATGAAGTAACGGTGTTGTGGCGAGATGTTAAATGAA-AGA
** *
42889041 AGTATCGATGTTGTGGTG-GGTTATTAATTGAATAAAGTAATA
64 AGTATCGATGTTGTGGTGAGAATGTTAATTGAATAAAGTAATA
* * * * *
42889083 GTGTTATGGTGGGATGTTAAATGAATGAAGTATCGGTGTTGTGGCGAGATGTTAATTGAAAGAAG
1 GTGTTGTGGTAGGATATTAAATGAATGAAGTAACGGTGTTGTGGCGAGATGTTAAATGAAAGAAG
42889148 TATCGATGTTGTGGTGA-AATGTTAATTGAA-AAAG
66 TATCGATGTTGTGGTGAGAATGTTAATTGAATAAAG
42889182 GATTGGCGTT
Statistics
Matches: 243, Mismatches: 55, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
104 7 0.03
105 158 0.65
106 2 0.01
108 75 0.31
109 1 0.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (106 bp):
GTGTTGTGGTAGGATATTAAATGAATGAAGTAACGGTGTTGTGGCGAGATGTTAAATGAAAGAAG
TATCGATGTTGTGGTGAGAATGTTAATTGAATAAAGTAATA
Found at i:42889178 original size:35 final size:35
Alignment explanation
Indices: 42888756--42889178 Score: 237
Period size: 35 Copynumber: 12.0 Consensus size: 35
42888746 AATGAAGAAT
* * * * *
42888756 GAAGTATCGGTGTTGTGGTAGGATATTAAATGAAT
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
* * * * ** * *
42888791 GAATTAACGGTGTTATGGTAAGATGTTAAATGAAT
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
* * ** * *
42888826 GAAGTATTGGTGTTGTGGCAGAATGTTAAATGAATGAA
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTG-A--AA
* * ** * * *
42888864 GAAGTATTGGTGTTGTAATAGGATGTTAAATGAAT
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
* * * * *
42888899 GTAGTAAC-ACTGTTGTGGCGGGATATTAATTGAAT
1 GAAGTATCGA-TGTTGTGGTGGGATGTTAATTGAAA
* * *
42888934 GAAGTATC-AGTGTTGTGGTAGGATGCTACA-TGAAT
1 GAAGTATCGA-TGTTGTGGTGGGATGTTA-ATTGAAA
* * * * *
42888969 GTAGTAACGATGTTGTGGCGGGATATTAATTGAAT
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
* * * *
42889004 GAAGTATCGGTATAGTGGTGGGATGTTAAATGAATA
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAA-A
* *
42889040 -AAGTATCGATGTTGTGGTGGGTTATTAATTGAATA
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAA-A
* * * *
42889075 -AAGTAATAG-TGTTATGGTGGGATGTTAAATGAAT
1 GAAGT-ATCGATGTTGTGGTGGGATGTTAATTGAAA
* * *
42889109 GAAGTATCGGTGTTGTGGCGAGATGTTAATTGAAA
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
**
42889144 GAAGTATCGATGTTGTGGTGAAATGTTAATTGAAA
1 GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
42889179 AAGGATTGGC
Statistics
Matches: 306, Mismatches: 71, Indels: 22
0.77 0.18 0.06
Matches are distributed among these distances:
34 4 0.01
35 266 0.87
36 6 0.02
37 1 0.00
38 29 0.09
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (35 bp):
GAAGTATCGATGTTGTGGTGGGATGTTAATTGAAA
Found at i:42893575 original size:48 final size:49
Alignment explanation
Indices: 42893503--42893727 Score: 175
Period size: 48 Copynumber: 4.8 Consensus size: 49
42893493 CACCACGATT
* *
42893503 TATGAGATCCCA-TGTAAGAGCATGTCTGGGACATGGCATTGGCGTTGA
1 TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA
* *
42893551 TATGAGA-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA
1 TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA
* * * * * * * * * * * *
42893599 TACGTG-TGCTAGTATAAGACCATATATGGGATATGACATTAGCCTCGG
1 TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA
* ** *
42893647 TATGTGATTTCA-TGTAAGACCATATCTGGG--AT---A-TGGCGTTGA
1 TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA
**
42893689 TATGAGATTTC-GTGTAAGACCATGTCTGGGACATGGCAT
1 TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCAT
42893728 CGATATGAGA
Statistics
Matches: 138, Mismatches: 29, Indels: 20
0.74 0.16 0.11
Matches are distributed among these distances:
42 32 0.23
43 1 0.01
44 2 0.01
46 2 0.01
47 4 0.03
48 95 0.69
49 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (49 bp):
TATGAGATGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGTTGA
Found at i:42893711 original size:42 final size:42
Alignment explanation
Indices: 42893647--42893770 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 42
42893637 TTAGCCTCGG
* * * *
42893647 TATGTGATTTCATGTAAGACCATATCTGGGATATGGCGTTGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* *
42893689 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* *
42893731 TATGAGACTTCGTATAAGACCATATCTGGGATATGGCATC
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATC
42893771 AGTATGTAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:42895896 original size:43 final size:43
Alignment explanation
Indices: 42895848--42895956 Score: 193
Period size: 43 Copynumber: 2.5 Consensus size: 43
42895838 GCTAAGACAT
42895848 GGGCGTGTGTCTTGGCCGTGTGAGAGACACGGCCTACCCATAC
1 GGGCGTGTGTCTTGGCCGTGTGAGAGACACGGCCTACCCATAC
42895891 GGGCGTGTGTCTTGGCCGTGTGAGAGACACGGCCTACCCATAC
1 GGGCGTGTGTCTTGGCCGTGTGAGAGACACGGCCTACCCATAC
*
42895934 AGGCGTGTG-CTCTGGCCGTGTGA
1 GGGCGTGTGTCT-TGGCCGTGTGA
42895957 AGTCTGCCCC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 2 0.03
43 62 0.97
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.22
Consensus pattern (43 bp):
GGGCGTGTGTCTTGGCCGTGTGAGAGACACGGCCTACCCATAC
Found at i:42897965 original size:46 final size:46
Alignment explanation
Indices: 42897913--42898136 Score: 245
Period size: 46 Copynumber: 4.8 Consensus size: 46
42897903 GATATTTGGG
*
42897913 CATCCGAACTCGTTGATTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
*
42897959 CATCCGAACACGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
** * * * * * *
42898005 TGTCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACT--TATGGATGCGA-A
* *
42898052 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
*** * * *
42898098 TGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
42898137 GCGGGTTACA
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 112 0.76
47 33 0.22
48 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA
Found at i:42898082 original size:93 final size:93
Alignment explanation
Indices: 42897959--42898129 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
42897949 TGGATGCGAA
*
42897959 CATCCGAACACGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACACGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTT
42898024 GAGTCCAAGTTCGTGAAATGTAACTAGG
66 GAGTCCAAGTTCGTGAAATGTAACTAGG
* * * *
42898052 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAGTT
1 CATCCGAACACGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTT
*
42898117 GAGTCCGAGTTCG
66 GAGTCCAAGTTCG
42898130 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
CATCCGAACACGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTT
GAGTCCAAGTTCGTGAAATGTAACTAGG
Found at i:42903190 original size:46 final size:46
Alignment explanation
Indices: 42903138--42903361 Score: 247
Period size: 46 Copynumber: 4.8 Consensus size: 46
42903128 GATATTTGGG
* *
42903138 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
42903184 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * * * * * * *
42903230 TGTCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-A
*
42903277 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
42903323 C-GCCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42903362 GTGGGTTACA
Statistics
Matches: 148, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 5 0.03
46 107 0.72
47 35 0.24
48 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:42903306 original size:93 final size:93
Alignment explanation
Indices: 42903184--42903354 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42903174 TGGATGTGAA
* * *
42903184 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA-CTCGTTGAGT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCCAAGCTCGTTGAGT
42903248 TGAGTCCAAGTTCGTGAAATGTAACTAGG
65 TGAGTCCAAGTTCGTGAAATGTAACTAGG
*
42903277 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAGCTCGTTGAGTT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAGCTCGTTGAGTT
*
42903342 GAGTCCGAGTTCG
66 GAGTCCAAGTTCG
42903355 CTTATGGGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAGCTCGTTGAGTT
GAGTCCAAGTTCGTGAAATGTAACTAGG
Found at i:42904351 original size:145 final size:145
Alignment explanation
Indices: 42904088--42904379 Score: 548
Period size: 145 Copynumber: 2.0 Consensus size: 145
42904078 ATTAAAGAGT
42904088 TATGGAATCAAATCTTGATGAGTCTATTTTCATATGGAAGAAACGAAACAGGTAAATGAGTTATA
1 TATGGAATCAAATCTTGATGAGTCTATTTTCATATGGAAGAAACGAAACAGGTAAATGAGTTATA
42904153 TTTTATGAGATATTTAAGTTTTGGTGAAACAGGGTCAGAGCGATCTCTGAATCCCCTGTTCTGAC
66 TTTTATGAGATATTTAAGTTTTGGTGAAACAGGGTCAGAGCGATCTCTGAATCCCCTGTTCTGAC
42904218 TTTAAAAATTTATCA
131 TTTAAAAATTTATCA
* * *
42904233 TATGGAATCAAATCTTGATGAGTGTATTTTCATATGGAAGAAACGAGATAGGTAAATGAGTTATA
1 TATGGAATCAAATCTTGATGAGTCTATTTTCATATGGAAGAAACGAAACAGGTAAATGAGTTATA
*
42904298 TTTTATGAGATATTTAAGTTTTGGTGAAACAGGGTCAGAGCGATCTCTGAATCCCTTGTTCTGAC
66 TTTTATGAGATATTTAAGTTTTGGTGAAACAGGGTCAGAGCGATCTCTGAATCCCCTGTTCTGAC
42904363 TTTAAAAATTTATCA
131 TTTAAAAATTTATCA
42904378 TA
1 TA
42904380 AATTGTAAAA
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (145 bp):
TATGGAATCAAATCTTGATGAGTCTATTTTCATATGGAAGAAACGAAACAGGTAAATGAGTTATA
TTTTATGAGATATTTAAGTTTTGGTGAAACAGGGTCAGAGCGATCTCTGAATCCCCTGTTCTGAC
TTTAAAAATTTATCA
Found at i:42905709 original size:24 final size:24
Alignment explanation
Indices: 42905675--42905729 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
42905665 TCATGTACAA
42905675 ATATC-ATCATCCCATATTACCAT
1 ATATCAATCATCCCATATTACCAT
* * **
42905698 ATATCAATCATCTCATGTTTTCAT
1 ATATCAATCATCCCATATTACCAT
42905722 ATATCAAT
1 ATATCAAT
42905730 TGCATGTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATCAATCATCCCATATTACCAT
Found at i:42910221 original size:29 final size:28
Alignment explanation
Indices: 42910111--42910204 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
42910101 CTACGAGTGT
* * * *
42910111 GATTGGGCCTGGCGAGCCATAGGGAA-GT
1 GATTGGGCCTGACGGGCCATA-TGAATGA
*
42910139 GATTGGGCCTGACGGGCCATATGAATGT
1 GATTGGGCCTGACGGGCCATATGAATGA
* *
42910167 GATTGGGCCCGATGGGCCATATGAATGA
1 GATTGGGCCTGACGGGCCATATGAATGA
42910195 GATTGGGCCT
1 GATTGGGCCT
42910205 AAAGGGGCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 3 0.05
28 55 0.95
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.22
Consensus pattern (28 bp):
GATTGGGCCTGACGGGCCATATGAATGA
Found at i:42911490 original size:17 final size:18
Alignment explanation
Indices: 42911457--42911490 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42911447 TTCAAAGAAG
42911457 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
42911475 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
42911491 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:42913552 original size:11 final size:11
Alignment explanation
Indices: 42913536--42913570 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
42913526 TGTTCTTTAA
42913536 AATGATTTTTG
1 AATGATTTTTG
*
42913547 AATGATTTTTA
1 AATGATTTTTG
*
42913558 AATGAGTTTTG
1 AATGATTTTTG
42913569 AA
1 AA
42913571 AAGATCAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (11 bp):
AATGATTTTTG
Found at i:42916391 original size:40 final size:40
Alignment explanation
Indices: 42916201--42916384 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
42916191 TCGAATGATG
* * *
42916201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
42916241 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42916281 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-TAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42916319 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42916360 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42916385 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 13 0.10
39 45 0.35
40 59 0.46
41 11 0.09
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42916416 original size:78 final size:77
Alignment explanation
Indices: 42916201--42916416 Score: 215
Period size: 78 Copynumber: 2.7 Consensus size: 77
42916191 TCGAATGATG
** * * *
42916201 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAA-ATCCGAAGGCATT
*
42916265 TGTGCGAGTTACTAAT
62 TGTGCGAGTTACTAAA
** * *
42916281 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAAT-CCGAAGGCATTTG
42916345 TGCGAGTTACTATAA
64 TGCGAGTTACTA-AA
* *
42916360 T-CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATCTGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAATCCGAAGG
42916417 TACGTGATTC
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 50 0.43
79 42 0.36
80 24 0.21
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAATCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:42932982 original size:40 final size:39
Alignment explanation
Indices: 42932925--42933109 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 39
42932915 TCGAATGATG
* *
42932925 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
42932965 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
42933004 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
42933044 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
42933084 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42933110 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
39 36 0.28
40 86 0.66
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:42933061 original size:79 final size:81
Alignment explanation
Indices: 42932925--42933109 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 81
42932915 TCGAATGATG
*
42932925 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
42932989 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
42933004 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
42933066 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42933084 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42933110 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.64
80 33 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42933131 original size:79 final size:78
Alignment explanation
Indices: 42932926--42933142 Score: 246
Period size: 79 Copynumber: 2.7 Consensus size: 78
42932916 CGAATGATGT
* *
42932926 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
42932989 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
*
42933006 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
42933069 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
42933085 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
42933143 TACGTGATTC
Statistics
Matches: 119, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.57
80 48 0.40
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:42946924 original size:20 final size:20
Alignment explanation
Indices: 42946899--42946941 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
42946889 GTTTTAATTC
42946899 TAGAGTAAGAGCTTCGTCAA
1 TAGAGTAAGAGCTTCGTCAA
42946919 TAGAGTAAGAGCTTCGTCAA
1 TAGAGTAAGAGCTTCGTCAA
42946939 TAG
1 TAG
42946942 TTGGCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.26
Consensus pattern (20 bp):
TAGAGTAAGAGCTTCGTCAA
Found at i:42948336 original size:21 final size:20
Alignment explanation
Indices: 42948312--42948361 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
42948302 TGTTGTGGCA
42948312 GCATCTGATTCTGGTGTAGAT
1 GCATCTGATT-TGGTGTAGAT
* *
42948333 GCATCTGGATTTGTTGTGGAT
1 GCATCT-GATTTGGTGTAGAT
42948354 GCATCTGA
1 GCATCTGA
42948362 GTGTGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (20 bp):
GCATCTGATTTGGTGTAGAT
Found at i:42951230 original size:40 final size:40
Alignment explanation
Indices: 42951182--42951408 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
42951172 GCAAACACAT
* *
42951182 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42951222 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42951262 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42951302 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42951342 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42951382 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
42951409 ATCCAATGCT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42959951 original size:40 final size:40
Alignment explanation
Indices: 42959904--42960130 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
42959894 CCAAACACAT
* *
42959904 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42959944 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42959984 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42960024 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42960064 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42960104 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
42960131 ATCCAATGCT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42982828 original size:26 final size:26
Alignment explanation
Indices: 42982799--42982855 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
42982789 ATTTTTTTCA
* * *
42982799 AATTTTTTATTTTTGTAGGTAAATCT
1 AATTTTTTATTTTTATAGCTAAAACT
42982825 AATTTTTTATTTTTATAGCTAAAACT
1 AATTTTTTATTTTTATAGCTAAAACT
42982851 AATTT
1 AATTT
42982856 AACTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (26 bp):
AATTTTTTATTTTTATAGCTAAAACT
Found at i:42982880 original size:16 final size:15
Alignment explanation
Indices: 42982868--42982898 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
42982858 CTTTTATTTA
42982868 ATATTAATATTATATT
1 ATATTAAT-TTATATT
42982884 ATATTAATTTATATT
1 ATATTAATTTATATT
42982899 TTTAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTAATTTATATT
Found at i:42984840 original size:228 final size:228
Alignment explanation
Indices: 42984414--42985519 Score: 1107
Period size: 228 Copynumber: 4.9 Consensus size: 228
42984404 GATTCAATAG
* * * * * * * * *
42984414 ATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * *
42984479 CATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTA
66 CATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * * * * *
42984544 TCTTTGCTGGCAAA-CAACTTGAGGATGGCCGCACGC-TAGCCGACTACAACATTCAGAAA-GAA
131 TCTTTGCTGG-AAAGCAACTTGAAGATGGTCGGAC-CTTAGCCGATTACAATATCCA-AAAGGAG
* *
42984606 TCCACCCTTCACTTGGTTCTTCGACTTCGTGGCGGC
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * *
42984642 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * *
42984707 AATAGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGATCAGCAGAGGCTTA
66 CATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * *
42984772 TCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGATTACAATATCCAAAAAGAGTCC
131 TCTTTGCTGGAAAGCAACTTGAAGATGGTCGGACCTTAGCCGATTACAATATCCAAAAGGAGTCC
* * * * *
42984837 ACCCTCCACCTAGTACTTCGTCTTCGAGGTGGC
196 ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * *
42984870 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTGGAGAGTTCGGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
42984935 CATTGATAATGTGAAA-GCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAA-GATT
66 CATTGATAATGT-AAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * ** * *
42984998 GATTTTTGCTGGAAAACAACTTGAAGATGGAAGGACTCTT-GCCGATTATAATATCCAGAAGGAG
130 -ATCTTTGCTGGAAAGCAACTTGAAGATGGTCGGAC-CTTAGCCGATTACAATATCCAAAAGGAG
* * * * * *
42985062 TCTACTCTCCATTTGGTTCTCCGCCTTCGTGGTGGT
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * * * *
42985098 ATGCAGATCTTTGTAAAGACTCTTACCGGAAAGACCATCACTTTGGAGGTTGAAAGTTCCGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * *
42985163 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCCCCCAGACCAGCAAAGGCTC
66 CATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCTT
* * * * * * *
42985227 ATCTTTGCTGGCAAGCAGCTCGAAGATGGTAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
130 ATCTTTGCTGGAAAGCAACTTGAAGATGGTCGGACCTTAGCCGATTACAATATCCAAAAGGAGTC
* * * * * *
42985292 TACCCTTCACTTGGTGT-TGCGGCTGCGTGGTGGG
195 CACCCTCCACTTGGT-TCTTCGACTTCGTGGTGGC
* * * * *
42985326 ATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCT-TGGAGGTTGAAAGTTCAGACA
* * * *
42985390 CCATTGACAATGTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * * * *
42985455 ATATTTGCTGGCAAGCAACTTGAAGATGG-CAGGACATTGGCTGATTATAATATCCAAAAGGAGT
130 ATCTTTGCTGGAAAGCAACTTGAAGATGGTC-GGACCTTAGCCGATTACAATATCCAAAAGGAGT
42985519 C
194 C
42985520 TACTCTGCAT
Statistics
Matches: 738, Mismatches: 126, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
227 18 0.02
228 707 0.96
229 13 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
CATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
TCTTTGCTGGAAAGCAACTTGAAGATGGTCGGACCTTAGCCGATTACAATATCCAAAAGGAGTCC
ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
Found at i:42985278 original size:456 final size:455
Alignment explanation
Indices: 42984414--42985553 Score: 1282
Period size: 456 Copynumber: 2.5 Consensus size: 455
42984404 GATTCAATAG
* * * * *
42984414 ATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTGGAGAGTTCAGACAC
* * * * * * *
42984479 CATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTA
66 CATTGATAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCA-AAGATTA
* * * * * * * * * * * *
42984544 TCTTTGCTGGCAAACAACTTGAGGATGGCCGCACGCTAGCCGACTACAACATTCAGAAAGAATCC
130 TATTTGCTGGCAAACAACTTGAAGATGGCAGGACTCTAGCCGATTATAATATCCAGAAGGAGTCT
* * * * * * * *
42984609 ACCCTTCACTTGGTTCTTCGACTTCGTGGCGGCATGCAAATCTTTGTCAAGACTCTCACTGGAAA
195 ACTCTCCATTTGGTTCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAA
* * *
42984674 GACAATTACCTTGGAGGTTGAAAGCTCTGACACAATAGATAATGTAAAGGCAAAGATCCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCCGACACAATAGACAATGTAAAGGCAAAGATCCAAGACA
* * * * *
42984739 AGGAAGGGATCCCACCAGATCAGCAGAGGCTTATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGC
325 AGGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAGC
* * * * *
42984804 ACCTTAGCTGATTACAATATCCAAAAAGAGTCCACCCTCCACCTAGTACTT-CGTCTTCGAGGTG
390 ACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTAGT-CTTGCGGCTGCGAGGTG
42984868 GC
454 GC
* * * * *
42984870 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTGGAGAGTTCGGATAC
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTGGAGAGTTCAGACAC
* * * * * *
42984935 CATTGATAATGTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAAGATTGA
66 CATTGATAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATT-A
* * * *
42985000 TTTTTGCTGGAAAACAACTTGAAGATGGAAGGACTCTTGCCGATTATAATATCCAGAAGGAGTCT
130 TATTTGCTGGCAAACAACTTGAAGATGGCAGGACTCTAGCCGATTATAATATCCAGAAGGAGTCT
* * *
42985065 ACTCTCCATTTGGTTCTCCGCCTTCGTGGTGGTATGCAGATCTTTGTAAAGACTCTTACCGGAAA
195 ACTCTCCATTTGGTTCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAA
* * * * * * *
42985130 GACCATCACTTTGGAGGTTGAAAGTTCCGATACCATTGACAATGTGAAGGCAAAGATCCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCCGACACAATAGACAATGTAAAGGCAAAGATCCAAGACA
* *
42985195 AGG-AGGGTATCCCCCCAGACCAGCAAAGGCTCATCTTTGCTGGCAAGCAGCTCGAAGATGGTAG
325 AGGAAGGG-ATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAG
* * * * * * * * *
42985259 GACATTGGCCGACTACAATATCCAAAAGGAGTCTACCCTTCACTTGGTGTTGCGGCTGCGTGGTG
389 CACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTAGTCTTGCGGCTGCGAGGTG
*
42985324 GG
454 GC
* * * * * *
42985326 ATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCT-TAGAGGTGGAGAGTTCAGACA
* * * *
42985390 CCATTGACAATGTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGATAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAA-GATT
* * * *
42985455 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACAT-TGGCTGATTATAATATCCAAAAGGAGT
129 ATATTTGCTGGCAAACAACTTGAAGATGGCAGGAC-TCTAGCCGATTATAATATCCAGAAGGAGT
* * *
42985519 CTACTCTGCATCTT-GTCCTTCGCCTTCGCGGTGGT
193 CTACTCTCCAT-TTGGTTCTTCGCCTTCGTGGTGGT
42985554 TTCTAAGTAA
Statistics
Matches: 566, Mismatches: 111, Indels: 14
0.82 0.16 0.02
Matches are distributed among these distances:
455 12 0.02
456 549 0.97
457 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (455 bp):
ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTGGAGAGTTCAGACAC
CATTGATAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATTAT
ATTTGCTGGCAAACAACTTGAAGATGGCAGGACTCTAGCCGATTATAATATCCAGAAGGAGTCTA
CTCTCCATTTGGTTCTTCGCCTTCGTGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAAG
ACAATCACCTTGGAGGTTGAAAGCTCCGACACAATAGACAATGTAAAGGCAAAGATCCAAGACAA
GGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAGCA
CATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTAGTCTTGCGGCTGCGAGGTGGC
Found at i:42988483 original size:39 final size:39
Alignment explanation
Indices: 42988440--42988534 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 39
42988430 TTAAATTAAA
*
42988440 ATTAAGATAATTATTTTAATATTAAA-TTAATA-AAATAGT
1 ATTAAGATAATTATTTTAA-ATTAAATTTAATATAAAT-CT
*
42988479 ATTAAGATAAGTA--TTAAATTAAATTTAATATTAAATCT
1 ATTAAGATAATTATTTTAAATTAAATTTAATA-TAAATCT
*
42988517 ATTAAAATAATATATTTT
1 ATTAAGATAAT-TATTTT
42988535 TTAGAATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
36 6 0.13
37 10 0.22
38 10 0.22
39 18 0.39
41 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (39 bp):
ATTAAGATAATTATTTTAAATTAAATTTAATATAAATCT
Found at i:42992866 original size:30 final size:30
Alignment explanation
Indices: 42992830--42992890 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
42992820 TCAGATTGTT
42992830 TCTGAATGGGTTCCAATGGATGTTTTGGGC
1 TCTGAATGGGTTCCAATGGATGTTTTGGGC
42992860 TCTGAATGGGTTCCAATGGATGTTTTGGGC
1 TCTGAATGGGTTCCAATGGATGTTTTGGGC
42992890 T
1 T
42992891 TATTAGGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.33, T:0.38
Consensus pattern (30 bp):
TCTGAATGGGTTCCAATGGATGTTTTGGGC
Found at i:43005531 original size:15 final size:15
Alignment explanation
Indices: 43005511--43005543 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43005501 GGACTAAATA
43005511 CATTTCATTAGACAT
1 CATTTCATTAGACAT
*
43005526 CATTTCATTAGAGAT
1 CATTTCATTAGACAT
43005541 CAT
1 CAT
43005544 GTCTAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (15 bp):
CATTTCATTAGACAT
Found at i:43011437 original size:20 final size:20
Alignment explanation
Indices: 43011414--43011483 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
43011404 AAGTCAAGTT
43011414 AAAATGATTTTAACCAAGAC
1 AAAATGATTTTAACCAAGAC
* **
43011434 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGAC
* *
43011454 AAAATCATTTT-AGCACA-AC
1 AAAATGATTTTAACCA-AGAC
43011473 AAAATGATTTT
1 AAAATGATTTT
43011484 CAAACAAGTC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGAC
Found at i:43011452 original size:40 final size:40
Alignment explanation
Indices: 43011408--43011492 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
43011398 ATTTTAAAGT
* *
43011408 CAAGTTAAAATGATTTTAACCA-AGACAAAATGA-TTTCAAC
1 CAAGTTAAAATCATTTT-ACCACA-ACAAAATGATTTTCAAA
*
43011448 CAAGTTAAAATCATTTTAGCACAACAAAATGATTTTCAAA
1 CAAGTTAAAATCATTTTACCACAACAAAATGATTTTCAAA
43011488 CAAGT
1 CAAGT
43011493 CACAATTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 12 0.30
40 28 0.70
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.28
Consensus pattern (40 bp):
CAAGTTAAAATCATTTTACCACAACAAAATGATTTTCAAA
Found at i:43015599 original size:26 final size:26
Alignment explanation
Indices: 43015570--43015631 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
43015560 AAGAAACACC
* *
43015570 AAAAAATGAGCAAG-AAATTAAACCCT
1 AAAAAATGAG-AAGAAAACTAAACCAT
*
43015596 AAAATATGGAGAAGAAAACTAAACCAT
1 AAAAAAT-GAGAAGAAAACTAAACCAT
*
43015623 AAAAGATGA
1 AAAAAATGA
43015632 AGACAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAAAATGAGAAGAAAACTAAACCAT
Found at i:43029025 original size:21 final size:22
Alignment explanation
Indices: 43028999--43029040 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43028989 CACTTAACAC
*
43028999 AGGGGC-ACATGCTCGTGTGAA
1 AGGGGCAACATGCCCGTGTGAA
43029020 AGGGGCAACATGCCCGTGTGA
1 AGGGGCAACATGCCCGTGTGA
43029041 CCATTTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGAA
Found at i:43048263 original size:27 final size:27
Alignment explanation
Indices: 43048195--43048358 Score: 177
Period size: 27 Copynumber: 6.1 Consensus size: 27
43048185 AGGTAGTCCA
** * *
43048195 TTCAGAGTTTGCCACAAA-GATGATTAT
1 TTCAGAGTTCACCACAAAGGCT-ATTCT
* *
43048222 TTCAAAGTTCACCATAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* * ** *
43048249 TTTAGATTTTTCCATAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
*
43048276 TTCAGAGTTCACCGCAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
*
43048303 TTCAGAGTTCTCCACAAAGGCTATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
* *
43048330 TTTAGAGTTCACCACAAAGGATATTCT
1 TTCAGAGTTCACCACAAAGGCTATTCT
43048357 TT
1 TT
43048359 GTTATCGTGT
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 112 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
TTCAGAGTTCACCACAAAGGCTATTCT
Found at i:43048285 original size:54 final size:54
Alignment explanation
Indices: 43048195--43048358 Score: 197
Period size: 54 Copynumber: 3.0 Consensus size: 54
43048185 AGGTAGTCCA
* * * *
43048195 TTCAGAGTT-TGCCACAAA-GATGATTATTTCAAAGTTCACCATAAAGGCTATTCT
1 TTCAGAGTTCT-CCACAAAGGCT-ATTCTTTCAGAGTTCACCACAAAGGCTATTCT
* * * * *
43048249 TTTAGATTTTTCCATAAAGGCTATTCTTTCAGAGTTCACCGCAAAGGCTATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCT
* *
43048303 TTCAGAGTTCTCCACAAAGGCTATTCTTTTAGAGTTCACCACAAAGGATATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCT
43048357 TT
1 TT
43048359 GTTATCGTGT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 90 0.97
55 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (54 bp):
TTCAGAGTTCTCCACAAAGGCTATTCTTTCAGAGTTCACCACAAAGGCTATTCT
Found at i:43058958 original size:20 final size:20
Alignment explanation
Indices: 43058923--43058960 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43058913 TCGAGTTGGT
*
43058923 CACACGGGCATTTGCCCTTC
1 CACACGGGCATGTGCCCTTC
*
43058943 CACACGGGCGTGTGCCCT
1 CACACGGGCATGTGCCCT
43058961 ATTTTAAGGA
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:0.13, C:0.39, G:0.26, T:0.21
Consensus pattern (20 bp):
CACACGGGCATGTGCCCTTC
Found at i:43061736 original size:22 final size:23
Alignment explanation
Indices: 43061708--43061754 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
43061698 CACACATTAG
43061708 CTTTAGTGTATCTTA-G-TTTCTT
1 CTTTAGT-TATCTTAGGTTTTCTT
*
43061730 CTTTAGTTCTCTTAGGTTTTCTT
1 CTTTAGTTATCTTAGGTTTTCTT
43061753 CT
1 CT
43061755 CCAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 8 0.36
23 8 0.36
ACGTcount: A:0.11, C:0.17, G:0.13, T:0.60
Consensus pattern (23 bp):
CTTTAGTTATCTTAGGTTTTCTT
Found at i:43064719 original size:40 final size:40
Alignment explanation
Indices: 43064626--43065002 Score: 517
Period size: 40 Copynumber: 9.5 Consensus size: 40
43064616 AAGCCAAGTA
* * *
43064626 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43064664 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43064704 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43064744 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43064784 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
43064824 CCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43064864 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43064904 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
43064944 CCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43064984 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43065003 TTATCATCCA
Statistics
Matches: 305, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
38 12 0.04
39 17 0.06
40 276 0.90
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43064873 original size:120 final size:120
Alignment explanation
Indices: 43064626--43065002 Score: 589
Period size: 120 Copynumber: 3.2 Consensus size: 120
43064616 AAGCCAAGTA
* * * * *
43064626 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTA
* * * * * * * *
43064688 GTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 ATAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
43064744 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
43064809 TAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
66 TAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
* *
43064864 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
43064929 TAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
66 TAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
43064984 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43065003 TTATCATCCA
Statistics
Matches: 239, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
118 13 0.05
119 17 0.07
120 209 0.87
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
TAACTCACACAAATGCCTTCGGGACTTAGCCCGAATGTAATAACTGGCGCAAATG
Found at i:43069626 original size:40 final size:40
Alignment explanation
Indices: 43069549--43069763 Score: 305
Period size: 39 Copynumber: 5.5 Consensus size: 40
43069539 AAACCAAGTA
* *
43069549 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43069588 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43069628 CCTTC-GGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43069667 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43069707 CCTTCGGGACTTAG-CC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43069746 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
43069764 ATTATCATCC
Statistics
Matches: 159, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.02
39 82 0.52
40 74 0.47
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43069680 original size:79 final size:78
Alignment explanation
Indices: 43069549--43069768 Score: 300
Period size: 79 Copynumber: 2.8 Consensus size: 78
43069539 AAACCAAGTA
** *
43069549 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACCTAGCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
*
43069614 AACTCGCACAAATG
65 AACTCACACAAATG
*
43069628 CCTTC-GGACCTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACCTAG-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
43069692 TAACTCACACAAATG
64 TAACTCACACAAATG
* * * *
43069707 CCTTCGGGACTTAGCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGATTAT
1 CCTTCGGGACCTAGCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
43069769 CATCCGGATA
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 10 0.08
79 109 0.87
80 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CCTTCGGGACCTAGCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
ACTCACACAAATG
Found at i:43087219 original size:40 final size:40
Alignment explanation
Indices: 43087142--43087359 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
43087132 AAACCAAGTA
* * *
43087142 CCTTCGGGATTTAG-CCGAATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43087181 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43087221 CCTTCGGGACCTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43087261 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43087301 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43087341 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43087360 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43091405 original size:19 final size:20
Alignment explanation
Indices: 43091383--43091423 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43091373 GGGTTTATAT
*
43091383 AAGAAGAAGG-GGAGAAGAA
1 AAGAAGAAGGAGGAAAAGAA
*
43091402 AAGAATAAGGAGGAAAAGAA
1 AAGAAGAAGGAGGAAAAGAA
43091422 AA
1 AA
43091424 AAAAGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (20 bp):
AAGAAGAAGGAGGAAAAGAA
Found at i:43092031 original size:36 final size:33
Alignment explanation
Indices: 43091990--43092055 Score: 87
Period size: 36 Copynumber: 1.9 Consensus size: 33
43091980 CCCTACACTA
43091990 TTTATTCATCTCCATATCAATTTCTTTATTCCATAT
1 TTTATTCATCTCCATATC-ATTT-TTT-TTCCATAT
* *
43092026 TTTATTTATCTCCATTTCATTTTTTTTCCA
1 TTTATTCATCTCCATATCATTTTTTTTCCA
43092056 CACTGTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 3 0.11
35 4 0.14
36 16 0.57
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTATTCATCTCCATATCATTTTTTTTCCATAT
Found at i:43092047 original size:20 final size:19
Alignment explanation
Indices: 43091990--43092048 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
43091980 CCCTACACTA
* *
43091990 TTTATTCATCTCCATATCAA
1 TTTATTTATCTCCAT-TCAT
*
43092010 TTTCTTTAT-TCCA-T-AT
1 TTTATTTATCTCCATTCAT
43092026 TTTATTTATCTCCATTTCAT
1 TTTATTTATCTCCA-TTCAT
43092046 TTT
1 TTT
43092049 TTTTCCACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
19 5 0.16
20 12 0.39
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATTTATCTCCATTCAT
Found at i:43095740 original size:30 final size:30
Alignment explanation
Indices: 43095704--43095765 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
43095694 CAAAAAACTT
*
43095704 TCAAATTTCTCCTTAAATTTCTCAAAGTTC
1 TCAAATTTCTCCTTAAATTTCTCAAAGCTC
43095734 TCAAATTTCTCCTTAAATTTCTCAAAGCTC
1 TCAAATTTCTCCTTAAATTTCTCAAAGCTC
43095764 TC
1 TC
43095766 TTTAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (30 bp):
TCAAATTTCTCCTTAAATTTCTCAAAGCTC
Found at i:43095765 original size:21 final size:21
Alignment explanation
Indices: 43095731--43095770 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43095721 TTTCTCAAAG
**
43095731 TTCTCAAATTTCTCCTTAAAT
1 TTCTCAAAGCTCTCCTTAAAT
*
43095752 TTCTCAAAGCTCTCTTTAA
1 TTCTCAAAGCTCTCCTTAA
43095771 TTAATTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (21 bp):
TTCTCAAAGCTCTCCTTAAAT
Found at i:43102900 original size:42 final size:42
Alignment explanation
Indices: 43102836--43102990 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
43102826 TACCGAGACT
* *
43102836 GTGTAATACCATATCTGAGATATGGCATC-ATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTC
*
43102878 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * **
43102920 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
* *
43102963 ATGTAAGACCATATATGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
43102991 TGGTGTAGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:43106019 original size:126 final size:125
Alignment explanation
Indices: 43105793--43106122 Score: 516
Period size: 126 Copynumber: 2.6 Consensus size: 125
43105783 GTCCAAACAT
* *
43105793 GAACTACTGTAGAAGAAGAGCGTCCACGTGAGAGCTGTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCT-TTTTCAGTAATTTTGCTGACAATGCATC
* * *
43105858 TTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTATTCAG
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTATTCAA
* * * **
43105919 GAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTGTCAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTCAGT-AATTTTGCTGACAATGCATC
* * *
43105984 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAATGTCTTCTCAAAATTATTTTTTCAA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTATTCAA
*
43106045 GAACTACTGTAGAAAAAGAGCGTCCAAGTGAGAGCTTTTTCAGTAATTTTGCTGACAATGCATCC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTCAGTAATTTTGCTGACAATGCATCC
43106110 TGCTTGAAGCGTT
66 TGCTTGAAGCGTT
43106123 GTAAATTCAG
Statistics
Matches: 184, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
125 40 0.22
126 144 0.78
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTCAGTAATTTTGCTGACAATGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTATTCAA
Found at i:43106326 original size:34 final size:33
Alignment explanation
Indices: 43106240--43106335 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
43106230 TATTATTTTA
* * *
43106240 AAAAAACTAAACCCAAATTTAATTTTTTTCTTT
1 AAAACACTAAACCCAAATTTAATTTATTTATTT
43106273 AAAACACTAAACCCAAATTTAATTTATTTATTT
1 AAAACACTAAACCCAAATTTAATTTATTTATTT
* * *
43106306 AAAACCTCTAAACCCTAATTTAATTAATTT
1 AAAA-CACTAAACCCAAATTTAATTTATTT
43106336 TTAAACAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
33 34 0.61
34 22 0.39
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (33 bp):
AAAACACTAAACCCAAATTTAATTTATTTATTT
Found at i:43112724 original size:87 final size:86
Alignment explanation
Indices: 43112578--43112741 Score: 249
Period size: 87 Copynumber: 1.9 Consensus size: 86
43112568 TTTAAGTTTA
* *
43112578 GTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGAGTA
1 GTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGAGTA
43112643 ATAAACTCAACCTCACATTCCG
66 A-AAACTCAACCTCACATTCCG
* *
43112665 GTGAATTCATCAAGTCCATCTTAATAGGACCACCCAAA-TCCTAGGATATGAATTCATTAAGAGT
1 GTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACT-CTAGGATATGAACTCATTAAGAGT
* *
43112729 GAGAACTCAACCT
65 AAAAACTCAACCT
43112742 TAAGTATGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
86 11 0.16
87 59 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (86 bp):
GTGAATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGAGTA
AAAACTCAACCTCACATTCCG
Found at i:43115523 original size:19 final size:17
Alignment explanation
Indices: 43115479--43115523 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
43115469 TCTTAGTTAA
43115479 TTAGTTA-TTTTTCTTT
1 TTAGTTATTTTTTCTTT
*
43115495 TTAATTATTTTTATCTTT
1 TTAGTTATTTTT-TCTTT
43115513 GTTAGTTATTT
1 -TTAGTTATTT
43115524 GTTCAGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 4 0.17
18 5 0.21
19 9 0.38
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (17 bp):
TTAGTTATTTTTTCTTT
Found at i:43138674 original size:42 final size:40
Alignment explanation
Indices: 43138579--43138730 Score: 124
Period size: 41 Copynumber: 3.6 Consensus size: 40
43138569 GTACAATGTT
* * * * *
43138579 AACGTCCCAGACGTGGTCTTAGATGTAATCAAATATCGATGTC
1 AACGTCCCAGACATGGTCTTACACGAAAT--AA-ATCGATGCC
* * * *
43138622 AATGCCCCAGATAGGGTCTTACACGAAATCAAATACGATGCC
1 AACGTCCCAGACATGGTCTTACACGAAAT-AAAT-CGATGCC
* * ** *
43138664 AGCGTCCCAGACATGGTGTTACATATAAATAAGTCGATGCC
1 AACGTCCCAGACATGGTCTTACA-CGAAATAAATCGATGCC
43138705 AACGTCCCAGACATGGTCTTACACGA
1 AACGTCCCAGACATGGTCTTACACGA
43138731 TAACACATAC
Statistics
Matches: 84, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
40 1 0.01
41 30 0.36
42 28 0.33
43 25 0.30
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (40 bp):
AACGTCCCAGACATGGTCTTACACGAAATAAATCGATGCC
Found at i:43139233 original size:29 final size:29
Alignment explanation
Indices: 43139200--43139258 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
43139190 TCTCATAGTG
43139200 TTCATACAAGCCCATATGTTTCATTTATT
1 TTCATACAAGCCCATATGTTTCATTTATT
*
43139229 TTCATACAAGTCCATATGTTTCATTTATT
1 TTCATACAAGCCCATATGTTTCATTTATT
43139258 T
1 T
43139259 CACATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (29 bp):
TTCATACAAGCCCATATGTTTCATTTATT
Found at i:43140760 original size:107 final size:107
Alignment explanation
Indices: 43140574--43140789 Score: 387
Period size: 107 Copynumber: 2.0 Consensus size: 107
43140564 GTACCTTTAA
* * *
43140574 AATCAGGAATGCAGCATCTCAACATATCACTGAGAATCTGAATAATCCGCTCGGATTGACCATCC
1 AATCAAGAATGCAACATCTCAACATATCACCGAGAATCTGAATAATCCGCTCGGATTGACCATCC
43140639 GTTTGTGGGTGAAAAGCAGTACTGAATTACACTTTCATACCT
66 GTTTGTGGGTGAAAAGCAGTACTGAATTACACTTTCATACCT
*
43140681 AATCAAGAATGCAACATCTCAACATATCTCCGAGAATCTGAATAATCCGCTCGGATTGACCATCC
1 AATCAAGAATGCAACATCTCAACATATCACCGAGAATCTGAATAATCCGCTCGGATTGACCATCC
*
43140746 GTTTGTGGGTGAAAAGCAGTACTGAATTGCACTTTCATACCT
66 GTTTGTGGGTGAAAAGCAGTACTGAATTACACTTTCATACCT
43140788 AA
1 AA
43140790 AGCCTCTTGC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (107 bp):
AATCAAGAATGCAACATCTCAACATATCACCGAGAATCTGAATAATCCGCTCGGATTGACCATCC
GTTTGTGGGTGAAAAGCAGTACTGAATTACACTTTCATACCT
Found at i:43140908 original size:18 final size:18
Alignment explanation
Indices: 43140885--43140921 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43140875 ACAATATCAG
43140885 AAATGTATAACTCAGCTA
1 AAATGTATAACTCAGCTA
43140903 AAATGTATAACTCAGCTA
1 AAATGTATAACTCAGCTA
43140921 A
1 A
43140922 CTTATCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AAATGTATAACTCAGCTA
Found at i:43146237 original size:42 final size:42
Alignment explanation
Indices: 43146138--43146288 Score: 191
Period size: 44 Copynumber: 3.5 Consensus size: 42
43146128 AATGCCGACA
* *
43146138 TCCCAGACGTGGTCTTACA-TATAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACGA-AATCAAATA-CGATGCCAATG
43146181 TCCCAGACAG-GGTCTTACACGAAATCAAATACGATGCCAATG
1 TCCCAGAC-GTGGTCTTACACGAAATCAAATACGATGCCAATG
* *
43146223 TCCAAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAACG
1 TCCCAGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAATG
43146267 TCCCAGACGTGGTCTTACACGA
1 TCCCAGACGTGGTCTTACACGA
43146289 TAACACATAT
Statistics
Matches: 97, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 33 0.34
44 34 0.35
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAATCAAATACGATGCCAATG
Found at i:43152216 original size:86 final size:86
Alignment explanation
Indices: 43152120--43152377 Score: 371
Period size: 84 Copynumber: 3.0 Consensus size: 86
43152110 AAAAAACTCT
* * * *
43152120 AAAAACCTCAAACATATCATTTCAATATTTAATTAATTT-TTTCATACTAATTAAGTAAGAAGCA
1 AAAAATCTCAAATATATCATTTCAGTATTTAATTAATTTCTTT-ATACTAATTAAGTAACAAGCA
43152184 TACAAATAAATAATAATACAAA
65 TACAAATAAATAATAATACAAA
* *
43152206 AAAAATCTCAAATATATCATTTTAGTATTTAATTAATTTCTTTATACTAATTAAGTGACAAGCAT
1 AAAAATCTCAAATATATCATTTCAGTATTTAATTAATTTCTTTATACTAATTAAGTAACAAGCAT
43152271 ACAAA-AAATAATAATAC-AA
66 ACAAATAAATAATAATACAAA
* * * * *
43152290 AAAAATCTCAAATATGTCAGTTCAGTATTTAATTAGTTTGTTTATACTAATTAAGTAACAAACAT
1 AAAAATCTCAAATATATCATTTCAGTATTTAATTAATTTCTTTATACTAATTAAGTAACAAGCAT
*
43152355 ACAAATAAATAGTAATA-AAA
66 ACAAATAAATAATAATACAAA
43152375 AAA
1 AAA
43152378 TTTAACCCTA
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
84 65 0.42
85 27 0.17
86 60 0.39
87 3 0.02
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (86 bp):
AAAAATCTCAAATATATCATTTCAGTATTTAATTAATTTCTTTATACTAATTAAGTAACAAGCAT
ACAAATAAATAATAATACAAA
Found at i:43155122 original size:41 final size:41
Alignment explanation
Indices: 43155065--43155195 Score: 210
Period size: 41 Copynumber: 3.2 Consensus size: 41
43155055 AAATACATCA
* *
43155065 TTTTCATTT-ATTATCCTTTTTGGATAATATCCTTTTCAACC
1 TTTTCATTTGA-TATCCTTTTTAGATAACATCCTTTTCAACC
*
43155106 TTTTCATTTGATATCCTTTTCAGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTTAGATAACATCCTTTTCAACC
*
43155147 TTTTCATTTGATATTCTTTTTAGATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTTAGATAACATCCTTTTCAACC
43155188 TTTTCATT
1 TTTTCATT
43155196 GATTCAGAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTTCATTTGATATCCTTTTTAGATAACATCCTTTTCAACC
Found at i:43156676 original size:30 final size:30
Alignment explanation
Indices: 43156641--43156742 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
43156631 AAATATTACT
43156641 CCACAAAGGCTCAGATATAACAGAGAACAA
1 CCACAAAGGCTCAGATATAACAGAGAACAA
* ** *
43156671 CCACAAAGGCTTTC-GTATATAACA-TGTTCTA
1 CCACAAAGGC--TCAG-ATATAACAGAGAACAA
* *
43156702 CCACAAAGGCTCAGATATAATAGAGAACAG
1 CCACAAAGGCTCAGATATAACAGAGAACAA
43156732 CCACAAAGGCT
1 CCACAAAGGCT
43156743 TCCATATATA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
29 9 0.16
30 24 0.42
31 14 0.25
32 10 0.18
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.18
Consensus pattern (30 bp):
CCACAAAGGCTCAGATATAACAGAGAACAA
Found at i:43156750 original size:30 final size:31
Alignment explanation
Indices: 43156590--43156750 Score: 100
Period size: 30 Copynumber: 5.3 Consensus size: 31
43156580 ATCGTAAGAC
* * *
43156590 TCACATATAATAGAGAACAGCCATAAAAGCT
1 TCACATATAACAGAGAACAGCCACAAAGGCT
* * ** *
43156621 TCCACATATAAAATATTAC-TCCACAAAGGC-
1 T-CACATATAACAGAGAACAGCCACAAAGGCT
* *
43156651 TCAGATATAACAGAGAACAACCACAAAGGCTT
1 TCACATATAACAGAGAACAGCCACAAAGGC-T
** * **
43156683 TCGTATATAACA-TGTTCTA-CCACAAAGGC-
1 TCACATATAACAGAGAAC-AGCCACAAAGGCT
* *
43156712 TCAGATATAATAGAGAACAGCCACAAAGGCT
1 TCACATATAACAGAGAACAGCCACAAAGGCT
43156743 TC-CATATA
1 TCACATATA
43156751 TAACATATTC
Statistics
Matches: 97, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
29 22 0.23
30 28 0.29
31 23 0.24
32 24 0.25
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.21
Consensus pattern (31 bp):
TCACATATAACAGAGAACAGCCACAAAGGCT
Found at i:43156770 original size:31 final size:30
Alignment explanation
Indices: 43156626--43156773 Score: 95
Period size: 31 Copynumber: 4.9 Consensus size: 30
43156616 AAGCTTCCAC
* * *
43156626 ATATAAAATATTACTCCACAAAGGC-TCAG
1 ATATAACATATTCCACCACAAAGGCTTCAG
* ** *
43156655 ATATAACAGAGAACAACCACAAAGGCTTTC-G
1 ATATAACATA-TTCCACCACAAAGGC-TTCAG
* *
43156686 TATATAACATGTTCTACCACAAAGGC-TCAG
1 -ATATAACATATTCCACCACAAAGGCTTCAG
* * *** *
43156716 ATATAATAGAGAACAGCCACAAAGGCTTCCAT
1 ATATAACATATTCCA-CCACAAAGGCTT-CAG
43156748 ATATAACATATTCCACCACAAAGGCT
1 ATATAACATATTCCACCACAAAGGCT
43156774 CAATTATAGT
Statistics
Matches: 86, Mismatches: 25, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
29 18 0.21
30 21 0.24
31 25 0.29
32 22 0.26
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.22
Consensus pattern (30 bp):
ATATAACATATTCCACCACAAAGGCTTCAG
Found at i:43156813 original size:61 final size:61
Alignment explanation
Indices: 43156589--43156836 Score: 264
Period size: 61 Copynumber: 4.1 Consensus size: 61
43156579 CATCGTAAGA
* * * *
43156589 CTCACATATAATAGAGAACAGCCATAAAAGCTTCCACATATAAAATATTACTCCACAAAGG
1 CTCAGATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTCCACCACAAAGG
* * * * ** * * *
43156650 CTCAGATATAACAGAGAACAACCACAAAGGCTTTCGTATATAACATGTTCTACCACAAAGG
1 CTCAGATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTCCACCACAAAGG
* * *
43156711 CTCAGATATAATAGAGAACAGCCACAAAGGCTTCCATATATAACATATTCCACCACAAAGG
1 CTCAGATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTCCACCACAAAGG
* * * * * * * *
43156772 CTCA-ATTATAGTAGATAATAGCCGCAAAAGCTTTCACATATAAAATTTTTCACCACAATGG
1 CTCAGA-TATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTCCACCACAAAGG
43156833 CTCA
1 CTCA
43156837 CATACAGCAA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
60 1 0.01
61 155 0.99
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (61 bp):
CTCAGATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTCCACCACAAAGG
Found at i:43156813 original size:122 final size:122
Alignment explanation
Indices: 43156589--43156840 Score: 301
Period size: 122 Copynumber: 2.1 Consensus size: 122
43156579 CATCGTAAGA
* *
43156589 CTCACATATAATAGAGAACAGCCATAAAAGCTTCCACATATAAAATATTACTCCACAAAGGCTCA
1 CTCACATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTACACCACAAAGGCTCA
* ** *
43156654 GATATAACAGAGAACAACCACAAAGGCTTTCGTATATAACATGTTCT-ACCACAAAGG
66 GATATAACAGAGAACAACCACAAAAGCTTTCACATATAAAAT-TTCTCACCACAAAGG
* * * * *
43156711 CTCAGATATAATAGAGAACAGCCACAAAGGCTTCCATATATAACATATTCCACCACAAAGGCTCA
1 CTCACATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTACACCACAAAGGCTCA
** * * * * * *
43156776 -ATTATAGTAGATAATAGCCGCAAAAGCTTTCACATATAAAATTTTTCACCACAATGG
66 GA-TATAACAGAGAACAACCACAAAAGCTTTCACATATAAAATTTCTCACCACAAAGG
43156833 CTCACATA
1 CTCACATA
43156841 CAGCAAAGAA
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
121 4 0.04
122 104 0.96
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (122 bp):
CTCACATATAATAGAGAACAGCCACAAAAGCTTCCACATATAAAATATTACACCACAAAGGCTCA
GATATAACAGAGAACAACCACAAAAGCTTTCACATATAAAATTTCTCACCACAAAGG
Found at i:43156851 original size:122 final size:122
Alignment explanation
Indices: 43156589--43156871 Score: 273
Period size: 122 Copynumber: 2.3 Consensus size: 122
43156579 CATCGTAAGA
* * * * * *
43156589 CTCACATATAATAGAGAACAGCCATAAAAGCTTCCACATATAAAATATTACTCCACAAAGGCTCA
1 CTCACATACAACAAAGAACAGCCACAAAAGCTTCCATATATAAAATATTACACCACAAAGGCTCA
* ** *
43156654 GATATAACAGAGAACAACCACAAAGGCTTTCGTATATAACATGTTCTACCACAAAGG
66 GATATAACAGAGAACAACCACAAAAGCTTTCACATATAAAATGTTCTACCACAAAGG
* * * * * * *
43156711 CTCAGATATAATAGAGAACAGCCACAAAGGCTTCCATATATAACATATTCCACCACAAAGGCTCA
1 CTCACATACAACAAAGAACAGCCACAAAAGCTTCCATATATAAAATATTACACCACAAAGGCTCA
** * * * * * *
43156776 -ATTATAGTAGATAATAGCCGCAAAAGCTTTCACATATAAAAT-TTTTCACCACAATGG
66 GA-TATAACAGAGAACAACCACAAAAGCTTTCACATATAAAATGTTCT-ACCACAAAGG
* * * *
43156833 CTCACATACAGCAAAGAACAACTACAAAAGCTTTCATAT
1 CTCACATACAACAAAGAACAGCCACAAAAGCTTCCATAT
43156872 TTTAGTAAAT
Statistics
Matches: 131, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
121 4 0.03
122 127 0.97
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (122 bp):
CTCACATACAACAAAGAACAGCCACAAAAGCTTCCATATATAAAATATTACACCACAAAGGCTCA
GATATAACAGAGAACAACCACAAAAGCTTTCACATATAAAATGTTCTACCACAAAGG
Found at i:43159641 original size:20 final size:20
Alignment explanation
Indices: 43159616--43159668 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
43159606 TGTATATTAT
*
43159616 ATATTTATATTTTATTTTTG
1 ATATTTATATTTTATTTTTA
* *
43159636 ATATTTAGATTTAATTTTTA
1 ATATTTATATTTTATTTTTA
*
43159656 AGA-TTATATTTTA
1 ATATTTATATTTTA
43159669 GTTTGTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
ATATTTATATTTTATTTTTA
Found at i:43167060 original size:2 final size:2
Alignment explanation
Indices: 43167053--43167082 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43167043 AGTATACTCC
43167053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43167083 GGGAGATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43169753 original size:20 final size:20
Alignment explanation
Indices: 43169720--43169757 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43169710 ACTAATTGTG
*
43169720 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
43169740 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
43169758 GTTATATCAT
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:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:43176991 original size:24 final size:24
Alignment explanation
Indices: 43176959--43177008 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
43176949 CCATTAAGTA
*
43176959 TAACATATATAGGCATAAACAACT
1 TAACATATATAGCCATAAACAACT
43176983 TAACATATATAGCCATAAACAACT
1 TAACATATATAGCCATAAACAACT
43177007 TA
1 TA
43177009 GTATTATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (24 bp):
TAACATATATAGCCATAAACAACT
Found at i:43180120 original size:21 final size:21
Alignment explanation
Indices: 43180095--43180171 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
43180085 ACACGGCTGG
* **
43180095 TCACACGGGCGTGTGTCCCCT
1 TCACATGGGCGTGTGTGGCCT
* **
43180116 ACACATGGATGTGTGTGGCCT
1 TCACATGGGCGTGTGTGGCCT
43180137 TCACATGGGCGTGTGTGGCCT
1 TCACATGGGCGTGTGTGGCCT
43180158 TCACATGGGCGTGT
1 TCACATGGGCGTGT
43180172 AGACCCCCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.27
Consensus pattern (21 bp):
TCACATGGGCGTGTGTGGCCT
Found at i:43182240 original size:18 final size:18
Alignment explanation
Indices: 43182217--43182260 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43182207 ATCAATAAAT
43182217 AATTTAAAATTATAAAAA
1 AATTTAAAATTATAAAAA
* *
43182235 AATTTAAAATTTTACAAA
1 AATTTAAAATTATAAAAA
*
43182253 AATATAAA
1 AATTTAAA
43182261 CAAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTAAAATTATAAAAA
Found at i:43182295 original size:20 final size:19
Alignment explanation
Indices: 43182213--43182295 Score: 53
Period size: 18 Copynumber: 4.2 Consensus size: 19
43182203 GCACATCAAT
*
43182213 AAATAATTTAAAATTATAA
1 AAATAATTTAAAATAATAA
** *
43182232 AAA-AATTTAAAATTTTAC
1 AAATAATTTAAAATAATAA
* *
43182250 AAA-AATATAAACAAAATTGAA
1 AAATAATTTAAA-ATAA-T-AA
43182271 GAAATAATTATAAAATAATAA
1 -AAATAATT-TAAAATAATAA
43182292 AAAT
1 AAAT
43182296 TCAATTTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
18 23 0.47
19 4 0.08
20 5 0.10
21 3 0.06
22 4 0.08
23 6 0.12
24 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAATTTAAAATAATAA
Found at i:43183176 original size:19 final size:20
Alignment explanation
Indices: 43183154--43183202 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
43183144 TCTTCTATTA
43183154 TATATATTTTTTATA-ATTT
1 TATATATTTTTTATAGATTT
*
43183173 TATA-ATTATTTTATAGTTTT
1 TATATATT-TTTTATAGATTT
43183193 TATATATTTT
1 TATATATTTT
43183203 AAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 9 0.35
21 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATATATTTTTTATAGATTT
Found at i:43183215 original size:29 final size:28
Alignment explanation
Indices: 43183150--43183208 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
43183140 ATTTTCTTCT
* *
43183150 ATTATA-TATATTTTTTATAATTTTATA
1 ATTATATTATAGTTTTTATAATTTTAAA
*
43183177 ATTATTTTATAGTTTTTATATATTTTAAA
1 ATTATATTATAGTTTTTATA-ATTTTAAA
43183206 ATT
1 ATT
43183209 TAATTATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 12 0.44
29 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
ATTATATTATAGTTTTTATAATTTTAAA
Found at i:43183399 original size:31 final size:32
Alignment explanation
Indices: 43183361--43183431 Score: 117
Period size: 31 Copynumber: 2.2 Consensus size: 32
43183351 TATATATAAT
*
43183361 TCAAAATAAGCATTTAACAACATAGTTTTAC-
1 TCAAAATAAGCATTTAACAACATAATTTTACG
43183392 TCAAAATAAGCATTTAACAACATAATTTTACG
1 TCAAAATAAGCATTTAACAACATAATTTTACG
*
43183424 GCAAAATA
1 TCAAAATA
43183432 TATTTTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (32 bp):
TCAAAATAAGCATTTAACAACATAATTTTACG
Found at i:43183753 original size:13 final size:13
Alignment explanation
Indices: 43183730--43183781 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
43183720 ATCTTAAACC
43183730 AAACTTTTCAAAA
1 AAACTTTTCAAAA
* *
43183743 ATACTTCTCAAAA
1 AAACTTTTCAAAA
*
43183756 AAACTTTTCAATA
1 AAACTTTTCAAAA
**
43183769 GCACTTTTCAAAA
1 AAACTTTTCAAAA
43183782 GCCATACTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (13 bp):
AAACTTTTCAAAA
Found at i:43183774 original size:26 final size:26
Alignment explanation
Indices: 43183730--43183781 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43183720 ATCTTAAACC
*
43183730 AAACTTTTCAAAAATACTTCTCAAAA
1 AAACTTTTCAAAAACACTTCTCAAAA
* * *
43183756 AAACTTTTCAATAGCACTTTTCAAAA
1 AAACTTTTCAAAAACACTTCTCAAAA
43183782 GCCATACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (26 bp):
AAACTTTTCAAAAACACTTCTCAAAA
Found at i:43184255 original size:21 final size:20
Alignment explanation
Indices: 43184229--43184268 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43184219 ATTAATAAAA
43184229 TTTAATTAATTATAAAATTAT
1 TTTAATT-ATTATAAAATTAT
*
43184250 TTTAATTATTATTAAATTA
1 TTTAATTATTATAAAATTA
43184269 AATATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAATTATTATAAAATTAT
Found at i:43184663 original size:28 final size:29
Alignment explanation
Indices: 43184627--43184689 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
43184617 ATAAATAGTT
*
43184627 TAAAGAATAATTCAATAAAA-T-TTAAAAA
1 TAAAAAATAATTCAA-AAAATTATTAAAAA
* * *
43184655 TAAAAAATATTTTAAAAAATTATTTAAAA
1 TAAAAAATAATTCAAAAAATTATTAAAAA
43184684 TAAAAA
1 TAAAAA
43184690 TATGTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
TAAAAAATAATTCAAAAAATTATTAAAAA
Found at i:43184690 original size:16 final size:16
Alignment explanation
Indices: 43184669--43184701 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43184659 AAATATTTTA
43184669 AAAAATTAT-TTAAAAT
1 AAAAA-TATGTTAAAAT
43184685 AAAAATATGTTAAAAT
1 AAAAATATGTTAAAAT
43184701 A
1 A
43184702 TCTGGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAAATATGTTAAAAT
Found at i:43190187 original size:3 final size:3
Alignment explanation
Indices: 43190179--43190208 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
43190169 AATAAAATTG
43190179 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43190209 AGGGACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43191965 original size:10 final size:11
Alignment explanation
Indices: 43191952--43192013 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 11
43191942 ATGAGGGAAG
43191952 AAGAAAG-GGA
1 AAGAAAGAGGA
43191962 AAGAAAGAGGA
1 AAGAAAGAGGA
43191973 AAGAAA-A--A
1 AAGAAAGAGGA
43191981 AAG-AAGA-GA
1 AAGAAAGAGGA
*
43191990 AAGAAAGA-AA
1 AAGAAAGAGGA
43192000 AAGAAA-A-GA
1 AAGAAAGAGGA
43192009 AAGAA
1 AAGAA
43192014 GAGAAAGGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
7 2 0.04
8 5 0.11
9 11 0.24
10 19 0.41
11 9 0.20
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAGAAAGAGGA
Found at i:43191969 original size:4 final size:4
Alignment explanation
Indices: 43191960--43192020 Score: 56
Period size: 4 Copynumber: 15.2 Consensus size: 4
43191950 AGAAGAAAGG
* *
43191960 GAAA GAAA G-AG GAAA GAAA AAAA GAAGA GAAA GAAA G-AA -AAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA G-AAA
43192007 GAAA GAAGA GAAA G
1 GAAA GAA-A GAAA G
43192021 GGAGGGGGCG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.13
4 29 0.62
5 12 0.26
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:43191985 original size:19 final size:19
Alignment explanation
Indices: 43191961--43192020 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
43191951 GAAGAAAGGG
43191961 AAAGAAAGAGGAAAGAA-AA
1 AAAGAAAGA-GAAAGAAGAA
43191980 AAAG-AAGAGAAAGAAAGAA
1 AAAGAAAGAGAAAG-AAGAA
*
43191999 AAAGAAA-AGAAAGAAGAG
1 AAAGAAAGAGAAAGAAGAA
43192017 AAAG
1 AAAG
43192021 GGAGGGGGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 5 0.14
18 14 0.38
19 16 0.43
20 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAGAAAGAAGAA
Found at i:43191986 original size:32 final size:31
Alignment explanation
Indices: 43191949--43192023 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
43191939 AAGATGAGGG
* *
43191949 AAGAAGAAAGGGAAAGAAAGAGGAAAGAAAAA
1 AAGAAGAAAGGGAAAGAAAAAGAAAAG-AAAA
* *
43191981 AAGAAGAGAA-AGAAAGAAAAAGAAAAGAAAG
1 AAGAAGA-AAGGGAAAGAAAAAGAAAAGAAAA
43192012 AAG-AGAAAGGGA
1 AAGAAGAAAGGGA
43192024 GGGGGCGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 2 0.06
30 5 0.14
31 6 0.17
32 21 0.58
33 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (31 bp):
AAGAAGAAAGGGAAAGAAAAAGAAAAGAAAA
Found at i:43191995 original size:28 final size:28
Alignment explanation
Indices: 43191960--43192020 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
43191950 AGAAGAAAGG
*
43191960 GAAAGAAAGAGGAAAGAAAA-AAAGAAGA
1 GAAAGAAAGA-AAAAGAAAAGAAAGAAGA
43191988 GAAAGAAAGAAAAAGAAAAGAAAGAAGA
1 GAAAGAAAGAAAAAGAAAAGAAAGAAGA
43192016 GAAAG
1 GAAAG
43192021 GGAGGGGGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (28 bp):
GAAAGAAAGAAAAAGAAAAGAAAGAAGA
Found at i:43196512 original size:30 final size:30
Alignment explanation
Indices: 43196454--43196513 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43196444 GACATGACCA
*
43196454 TTACACACGAGCATGTGGTCTACTCGTGTG
1 TTACACACGAGCATGTGGTCTACCCGTGTG
* *
43196484 TTACACACGGGCGTGTGGATC-ACCCGTGTG
1 TTACACACGAGCATGTGG-TCTACCCGTGTG
43196514 GAAGTGCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (30 bp):
TTACACACGAGCATGTGGTCTACCCGTGTG
Found at i:43200360 original size:10 final size:10
Alignment explanation
Indices: 43200347--43200420 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
43200337 TCTTTTTTGG
43200347 ATTTTTAATA
1 ATTTTTAATA
43200357 ATTTTTAAATA
1 ATTTTT-AATA
43200368 ATGTTTT-ATA
1 AT-TTTTAATA
*
43200378 ATTTATTGA-A
1 ATTT-TTAATA
43200388 A--TTT-ATA
1 ATTTTTAATA
43200395 ATTTTTAA-A
1 ATTTTTAATA
* *
43200404 AATTTTAAGA
1 ATTTTTAATA
43200414 ATTTTTA
1 ATTTTTA
43200421 TATCATATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 1 0.02
9 13 0.25
10 23 0.43
11 7 0.13
12 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:43200408 original size:17 final size:17
Alignment explanation
Indices: 43200372--43200404 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43200362 TAAATAATGT
*
43200372 TTTATAATTTATTGAAA
1 TTTATAATTTATTAAAA
43200389 TTTATAATTT-TTAAAA
1 TTTATAATTTATTAAAA
43200405 ATTTTAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTATAATTTATTAAAA
Found at i:43201189 original size:20 final size:20
Alignment explanation
Indices: 43201152--43201190 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43201142 AATATTTAAA
*
43201152 TTTTTAATTTTTAATAATAT
1 TTTTTAATTTTCAATAATAT
*
43201172 TTTTTAATTTTCATTAATA
1 TTTTTAATTTTCAATAATA
43201191 CATTTATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTTCAATAATAT
Found at i:43201628 original size:77 final size:77
Alignment explanation
Indices: 43201536--43201691 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
43201526 GTTCATGTGG
43201536 TAAGCTAGGTGGCAAGTCTGTTATATGTTTGTTGTCATCAAACATAATACTATATGGTCCTTCTT
1 TAAGCTAGGTGGCAAGTCTGTTATATGTTTGTTGTCATCAAACATAATACTATATGGTCCTTCTT
43201601 TGACATTCTCCT
66 TGACATTCTCCT
*
43201613 TAAGCTAGGTGGCAAGTCTGTTATATGTTTGTTGTCGTCAAACATAATACTATATGGTCCTTCTT
1 TAAGCTAGGTGGCAAGTCTGTTATATGTTTGTTGTCATCAAACATAATACTATATGGTCCTTCTT
43201678 TGACATTCTCCT
66 TGACATTCTCCT
43201690 TA
1 TA
43201692 TTTAGGTTGT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.40
Consensus pattern (77 bp):
TAAGCTAGGTGGCAAGTCTGTTATATGTTTGTTGTCATCAAACATAATACTATATGGTCCTTCTT
TGACATTCTCCT
Found at i:43202522 original size:22 final size:22
Alignment explanation
Indices: 43202497--43202557 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
43202487 TCTCTCAATG
* *
43202497 AAATTTTTTTTAAAAAAATTCA
1 AAATTTTTTATAAAAAAAATCA
* *
43202519 AAA-TATTTATAAAAAAAATCC
1 AAATTTTTTATAAAAAAAATCA
*
43202540 AAA-TTTTCATAAAAAAAA
1 AAATTTTTTATAAAAAAAA
43202558 ATTTCACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATTTTTTATAAAAAAAATCA
Found at i:43202559 original size:22 final size:21
Alignment explanation
Indices: 43202507--43202557 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
43202497 AAATTTTTTT
*
43202507 TAAAAAAATTCAAAATATTTA
1 TAAAAAAAATCAAAATATTTA
*
43202528 TAAAAAAAATCCAAAT-TTTCA
1 TAAAAAAAATCAAAATATTT-A
43202549 TAAAAAAAA
1 TAAAAAAAA
43202558 ATTTCACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAAAATCAAAATATTTA
Found at i:43203511 original size:10 final size:9
Alignment explanation
Indices: 43203495--43203529 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
43203485 GACTGAAATT
43203495 AAAAATAAA
1 AAAAATAAA
43203504 ATAAAATAATA
1 A-AAAATAA-A
43203515 AAAAATAAA
1 AAAAATAAA
43203524 AAAAAT
1 AAAAAT
43203530 TATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.33
10 14 0.58
11 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAATAAA
Done.