Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:584680 original size:21 final size:21
Alignment explanation
Indices: 584656--584702 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
584646 AAATCTTTTG
584656 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
584677 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
584697 CAAAAT
1 CAAAAT
584703 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:584699 original size:20 final size:19
Alignment explanation
Indices: 584658--584700 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
584648 ATCTTTTGCA
584658 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
584678 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
584698 AAA
1 AAA
584701 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:586971 original size:13 final size:13
Alignment explanation
Indices: 586953--586978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
586943 TACAGCAAGT
586953 ATGTATCGATACA
1 ATGTATCGATACA
586966 ATGTATCGATACA
1 ATGTATCGATACA
586979 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:592320 original size:10 final size:10
Alignment explanation
Indices: 592305--592329 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
592295 TCAAACGATA
592305 TTTTTTAAAT
1 TTTTTTAAAT
592315 TTTTTTAAAT
1 TTTTTTAAAT
592325 TTTTT
1 TTTTT
592330 AAAAAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:592965 original size:88 final size:87
Alignment explanation
Indices: 592840--593552 Score: 498
Period size: 87 Copynumber: 8.2 Consensus size: 87
592830 CCATCTTTAT
* * * *
592840 TCCTCTGAGGGAACACTCCAACC-C-CGCTTCAACAAAAATTCAAATTTTCTTTCATATAATTTT
1 TCCTCCGAGGGGACACTCCAACCTCACTCTTC-A-AAAAA-TCAAATTTTCTTTCGTATAATTTT
* * *
592903 ATCCTTGGGGAATCTTCATCCCCAC
63 ATCCTTAGGGAAACTCCATCCCCAC
* * * * * * * **
592928 TCCTCCAAGGGGACACTACAACTTCGCTCTTCAAAAAATCAAAATTTCCTTCATGCAATTTTATC
1 TCCTCCGAGGGGACACTCCAACCTCACTCTTCAAAAAATCAAATTTTCTTTCGTATAATTTTATC
* **
592993 TTTAGGGAAACTCCATCCTTAC
66 CTTAGGGAAACTCCATCCCCAC
* * * * * * ** **
593015 TCTTTCGATGGGATAGTGCAACCTCACTTCAACAAAAAATCAAATTTTCCTTT-GTGGAATTTTA
1 TCCTCCGAGGGGACACTCCAACCTCAC-TCTTCAAAAAATCAAATTTT-CTTTCGTATAATTTTA
* *
593079 TCCTTAGGGAAACTACATTCCCAC
64 TCCTTAGGGAAACTCCATCCCCAC
* * * * * * *
593103 TCTTTCGTGGGGACACTCTAACC-C-CGCTTCAACAAAAATTCAAAATTTCCTTCGTATAATTTT
1 TCCTCCGAGGGGACACTCCAACCTCACTCTTC-A-AAAAA-TCAAATTTTCTTTCGTATAATTTT
593166 ATCCTT-GGGAAACTCCATCCCCAC
63 ATCCTTAGGGAAACTCCATCCCCAC
** * * ** *
593190 T-CTCTAAGAGGACACTCCAACCACACATCAGCAAAAAATCAAA-TTT-TTTCGTACAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCTCAC-TCTTCAAAAAATCAAATTTTCTTTCGTATAATTTTAT
*
593252 CCTT-GGGAAACTCCATCCCCAT
65 CCTTAGGGAAACTCCATCCCCAC
* * * * *
593274 TCCTCTGAGGGGACACTCTAACCCCACTCTTCAAAAAAACAAATTTTCTTTTGTGA-AATTTTAT
1 TCCTCCGAGGGGACACTCCAACCTCACTCTTCAAAAAATCAAATTTTCTTTCGT-ATAATTTTAT
** * *
593338 TTTTGGGGAAACTCCATCCCTAC
65 CCTTAGGGAAACTCCATCCCCAC
* * ** ** *
593361 TTCTCCGAGGGGACATTCCAACCTTGCTTCAACAAAAATTCAAAATTTTCTTT-GTATAATTTTA
1 TCCTCCGAGGGGACACTCCAACCTCAC-TCTTCAAAAAATC-AAATTTTCTTTCGTATAATTTTA
* *
593425 TCCTTAGGGAAACTTCATCCCTAC
64 TCCTTAGGGAAACTCCATCCCCAC
* * * * * * * * * **
593449 TCCTCCAAGAGGATACTCCAACCCCACTCTTTAGAAAATTAAATTTTCCTTCATGGAATTTTAT-
1 TCCTCCGAGGGGACACTCCAACCTCACTCTTCAAAAAATCAAATTTTCTTTCGTATAATTTTATC
* **
593513 CTTTGGAGAAACTCCATCCTTAC
66 CTTAGG-GAAACTCCATCCCCAC
* *
593536 TCCTCTGAAGGGACACT
1 TCCTCCGAGGGGACACT
593553 TTAACCTTGT
Statistics
Matches: 487, Mismatches: 117, Indels: 43
0.75 0.18 0.07
Matches are distributed among these distances:
84 49 0.10
85 29 0.06
86 51 0.10
87 169 0.35
88 166 0.34
89 18 0.04
90 5 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (87 bp):
TCCTCCGAGGGGACACTCCAACCTCACTCTTCAAAAAATCAAATTTTCTTTCGTATAATTTTATC
CTTAGGGAAACTCCATCCCCAC
Found at i:592989 original size:87 final size:88
Alignment explanation
Indices: 592840--593552 Score: 528
Period size: 88 Copynumber: 8.2 Consensus size: 88
592830 CCATCTTTAT
* * * * * * *
592840 TCCTCTGAGGGAACACTCCAACCCCGCTTCAACAAAAATTCAAATTTTCTTTCATATAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
* * *
592905 CCTTGGGGAATCTTCATCCCCAC
66 CCTTAGGGAAACTCCATCCCCAC
* * ** * ** * **
592928 TCCTCCAAGGGGACACTACAACTTCGC-TCTTCAAAAAATCAAAATTTCCTTCATGCAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
* **
592992 CTTTAGGGAAACTCCATCCTTAC
66 CCTTAGGGAAACTCCATCCCCAC
* * * * * * * * * **
593015 TCTTTCGATGGGATAGTGCAACCTCACTTCAACAAAAAATCAAATTTTCCTTTGTGGAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
* *
593080 CCTTAGGGAAACTACATTCCCAC
66 CCTTAGGGAAACTCCATCCCCAC
* * * * * *
593103 TCTTTCGTGGGGACACTCTAACCCCGCTTCAACAAAAATTCAAAATTTCCTTCGTATAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
593168 CCTT-GGGAAACTCCATCCCCAC
66 CCTTAGGGAAACTCCATCCCCAC
** * * * * * *
593190 T-CTCTAAGAGGACACTCCAACCACACATCAGCAAAAAATC-AAATTT-TTTCGTACAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
*
593252 CCTT-GGGAAACTCCATCCCCAT
66 CCTTAGGGAAACTCCATCCCCAC
* * ** * * * *
593274 TCCTCTGAGGGGACACTCTAACCCCAC-TCTTCAAAAAAACAAATTTTCTTTTGTGA-AATTTTA
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGT-ATAATTTTA
** * *
593337 TTTTTGGGGAAACTCCATCCCTAC
65 TCCTTAGGGAAACTCCATCCCCAC
* * *** * * *
593361 TTCTCCGAGGGGACATTCCAACCTTGCTTCAACAAAAATTCAAAATTTTCTTTGTATAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
* *
593426 CCTTAGGGAAACTTCATCCCTAC
66 CCTTAGGGAAACTCCATCCCCAC
* * * *** * * * * **
593449 TCCTCCAAGAGGATACTCCAACCCCAC-TCTTTAGAAAATTAAATTTTCCTTCATGGAATTTTAT
1 TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
* **
593513 -CTTTGGAGAAACTCCATCCTTAC
66 CCTTAGG-GAAACTCCATCCCCAC
* *
593536 TCCTCTGAAGGGACACT
1 TCCTCCGAGGGGACACT
593553 TTAACCTTGT
Statistics
Matches: 488, Mismatches: 128, Indels: 19
0.77 0.20 0.03
Matches are distributed among these distances:
84 46 0.09
85 32 0.07
86 47 0.10
87 171 0.35
88 192 0.39
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (88 bp):
TCCTCCGAGGGGACACTCCAACCCCACTTCAACAAAAAATCAAAATTTCCTTCGTATAATTTTAT
CCTTAGGGAAACTCCATCCCCAC
Found at i:593117 original size:175 final size:173
Alignment explanation
Indices: 592847--593624 Score: 694
Period size: 175 Copynumber: 4.5 Consensus size: 173
592837 TATTCCTCTG
* * * * *
592847 AGGGAACACTCCAACCCCGCTTCAACAAAAATTCAAATTTTCTTTCATATAATTTTATCCTTGGG
1 AGGG-ACACTCCAACCTCACTTCAACAAAAAATCAAATTTTCTTT-GTATAATTTTATCCTTAGG
* ** *
592912 GAATCTTCATCCCCACTCCTCCAAGGGGACACTAC-AACTTCGCTCTTCAAAAAATCAAAATTTC
64 GAAACTTCATCCCCACTCCTCCAAGGGGACACT-CTAACCCCACTCTTCAAAAAATCAAAATTTC
* *
592976 CTTCATGCAATTTTATCTTTAGGGAAACTCCATCCTTACTCTTTCGA
128 CTTCATGAAATTTTATCTTT-GGGAAACTCCATCCCTACTCTTTCGA
* * * * **
593023 TGGGATAGTGCAACCTCACTTCAACAAAAAATCAAATTTTCCTTTGTGGAATTTTATCCTTAGGG
1 AGGGACACTCCAACCTCACTTCAACAAAAAATCAAATTTT-CTTTGTATAATTTTATCCTTAGGG
* * * * ** * ** *
593088 AAACTACATTCCCACTCTTTCGTGGGGACACTCTAACCCCGCTTCAACAAAAATTCAAAATTTCC
65 AAACTTCATCCCCACTCCTCCAAGGGGACACTCTAACCCCAC-TCTTCAAAAAATCAAAATTTCC
* * * *
593153 TTCGT-ATAATTTTATCCTTGGGAAACTCCATCCCCACTC--TCTA
129 TTCATGA-AATTTTATCTTTGGGAAACTCCATCCCTACTCTTTCGA
* * * * *
593196 AGAGGACACTCCAACCACACATCAGCAAAAAATCAAATTTT-TTCGTACAATTTTATCCTT-GGG
1 AG-GGACACTCCAACCTCACTTCAACAAAAAATCAAATTTTCTTTGTATAATTTTATCCTTAGGG
* * ** * * *
593259 AAACTCCATCCCCATTCCTCTGAGGGGACACTCTAACCCCACTCTTCAAAAAAACAAATTTTCTT
65 AAACTTCATCCCCACTCCTCCAAGGGGACACTCTAACCCCACTCTTCAAAAAATCAAAATTTCCT
** * *
593324 TTGTGAAATTTTATTTTTGGGGAAACTCCATCCCTACT-TCTCCGA
130 TCATGAAATTTTATCTTT-GGGAAACTCCATCCCTACTCT-TTCGA
* * ** *
593369 GGGGACATTCCAACCTTGCTTCAACAAAAATTCAAAATTTTCTTTGTATAATTTTATCCTTAGGG
1 AGGGACACTCCAACCTCACTTCAACAAAAAATC-AAATTTTCTTTGTATAATTTTATCCTTAGGG
* * * * * * * *
593434 AAACTTCATCCCTACTCCTCCAAGAGGATACTCCAACCCCACTCTTTAGAAAATTAAATTTTCCT
65 AAACTTCATCCCCACTCCTCCAAGGGGACACTCTAACCCCACTCTTCAAAAAATCAAAATTTCCT
* * *
593499 TCATGGAATTTTATCTTTGGAGAAACTCCATCCTTACTC-CTCTGA
130 TCATGAAATTTTATCTTTGG-GAAACTCCATCCCTACTCTTTC-GA
** ** ** * *
593544 AGGGACACTTTAACCT-TGTTCTAACAAAAGTTTAAATTTTCCTTTGTATAATTTTAT-TTTCAG
1 AGGGACACTCCAACCTCACTTC-AACAAAAAATCAAATTTT-CTTTGTATAATTTTATCCTT-AG
*
593607 GGAAACTTCATCCTCACT
63 GGAAACTTCATCCCCACT
593625 TCTTTGAAGG
Statistics
Matches: 483, Mismatches: 100, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
170 30 0.06
171 56 0.12
172 40 0.08
173 14 0.03
174 65 0.13
175 237 0.49
176 41 0.08
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (173 bp):
AGGGACACTCCAACCTCACTTCAACAAAAAATCAAATTTTCTTTGTATAATTTTATCCTTAGGGA
AACTTCATCCCCACTCCTCCAAGGGGACACTCTAACCCCACTCTTCAAAAAATCAAAATTTCCTT
CATGAAATTTTATCTTTGGGAAACTCCATCCCTACTCTTTCGA
Found at i:597465 original size:22 final size:22
Alignment explanation
Indices: 597440--597481 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
597430 AAATTAAAGC
*
597440 TGTCCAAATGTCTAAGCTCTGT
1 TGTCCAAATGTCTAAACTCTGT
* *
597462 TGTCTAAGTGTCTAAACTCT
1 TGTCCAAATGTCTAAACTCT
597482 AACAGTTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (22 bp):
TGTCCAAATGTCTAAACTCTGT
Found at i:603917 original size:28 final size:24
Alignment explanation
Indices: 603867--603915 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
603857 TACCTACCAA
603867 CCAATTCAATCATTCCCTTTCTTT
1 CCAATTCAATCATTCCCTTTCTTT
603891 CCAATTCAATCATTCCCTTTCTTT
1 CCAATTCAATCATTCCCTTTCTTT
603915 C
1 C
603916 TTAGGTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (24 bp):
CCAATTCAATCATTCCCTTTCTTT
Found at i:607299 original size:41 final size:41
Alignment explanation
Indices: 607253--607349 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
607243 TATCTAATTA
** *
607253 AATTAAATTAATTAAGAGATAATTGAAGAAATCTCAACTTT
1 AATTAAATTAATTAAGAGATAAACGAAGAAATCTCAACTAT
* * * *
607294 AATTAAATTAATTAGGAGATAAACGAAGAAATTTTATCTAT
1 AATTAAATTAATTAAGAGATAAACGAAGAAATCTCAACTAT
607335 AATTAAATTAATTAA
1 AATTAAATTAATTAA
607350 TATATATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (41 bp):
AATTAAATTAATTAAGAGATAAACGAAGAAATCTCAACTAT
Found at i:610660 original size:45 final size:47
Alignment explanation
Indices: 610567--610660 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 47
610557 TTTTGTCATA
* * *
610567 TATACTAATATTAAAGTCTTTTGATTTAATTAGTATCACAAGTTAAT
1 TATACTAATATTAAAGTCTTTTGATTCAATTAATATCACAAATTAAT
*
610614 TATACTAATATT-AAGT-TTTTTATTCAATTAATGAT-ACAAATTAAT
1 TATACTAATATTAAAGTCTTTTGATTCAATTAAT-ATCACAAATTAAT
610659 TA
1 TA
610661 CACATCAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 24 0.57
46 6 0.14
47 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (47 bp):
TATACTAATATTAAAGTCTTTTGATTCAATTAATATCACAAATTAAT
Found at i:611276 original size:27 final size:26
Alignment explanation
Indices: 611204--611278 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
611194 ATTTTTCTTC
* * *
611204 TTTCTTTGTTTCTTTGTTTCTCTTTTT
1 TTTCTTT-TTACTTTTTTTCTCTTTCT
* * *
611231 TTTCTGTTTTCCCTATTTTCTCTTTCCT
1 TTTCT-TTTTACTTTTTTTCTCTTT-CT
611259 TTTCTTTTTACTTTTTTTCT
1 TTTCTTTTTACTTTTTTTCT
611279 TGTTTTTCCT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTCTTTTTACTTTTTTTCTCTTTCT
Found at i:611886 original size:4 final size:4
Alignment explanation
Indices: 611877--611903 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
611867 TATATATTCA
611877 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
611904 ATTGAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:617034 original size:21 final size:23
Alignment explanation
Indices: 616999--617040 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
616989 AAGGGATTCA
*
616999 AATGCCTCGAAATAAGTTCATTT
1 AATGCCTCGAAATAAGATCATTT
617022 AATGCC-C-AAATAAGATCAT
1 AATGCCTCGAAATAAGATCAT
617041 GCATCATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (23 bp):
AATGCCTCGAAATAAGATCATTT
Found at i:620814 original size:52 final size:52
Alignment explanation
Indices: 620744--620864 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
620734 GAAAATTTAT
*
620744 CTGCATGTATTGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATTGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
620796 TTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATTGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
620848 CTGCATGTATCGATACA
1 CTGCATGTATTGATACA
620865 AAGATCGGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (52 bp):
CTGCATGTATTGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:620877 original size:52 final size:52
Alignment explanation
Indices: 620744--620884 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 52
620734 GAAAATTTAT
* *
620744 CTGCATGTATTGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* * *** *
620796 TTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
620848 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
620885 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:620891 original size:13 final size:13
Alignment explanation
Indices: 620873--620897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
620863 CAAAGATCGG
620873 TGTATCGATACAA
1 TGTATCGATACAA
620886 TGTATCGATACA
1 TGTATCGATACA
620898 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:620979 original size:13 final size:13
Alignment explanation
Indices: 620961--620985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
620951 CAAAAAAATA
620961 TGTATCGATACAT
1 TGTATCGATACAT
620974 TGTATCGATACA
1 TGTATCGATACA
620986 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:620981 original size:33 final size:33
Alignment explanation
Indices: 620939--621005 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
620929 AGTAGCTTAA
620939 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
620972 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
621005 A
1 A
621006 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:621634 original size:109 final size:108
Alignment explanation
Indices: 621432--621740 Score: 492
Period size: 109 Copynumber: 2.8 Consensus size: 108
621422 GAAGTTTTCT
* * *
621432 ACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAATGTGCCACGGAGTTGTGGACTTAAAAGAA
1 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
621497 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
66 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
* *
621540 TCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGG
1 ACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
621605 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
65 ATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
* * * *
621649 ACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAG
1 ACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
621714 ATGCCACAGAGTTGTGGACTTTAAAAG
65 ATGCCACAGAGTTGTGGAC-TTAAAAG
621741 AAAATGCCAC
Statistics
Matches: 183, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
108 28 0.15
109 148 0.81
110 7 0.04
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (108 bp):
ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
Found at i:621692 original size:136 final size:136
Alignment explanation
Indices: 621432--621740 Score: 476
Period size: 136 Copynumber: 2.3 Consensus size: 136
621422 GAAGTTTTCT
* * **
621432 ACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAATGTGCCACGGAGTTGTGGACTTAAAAGAA
1 ACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
621497 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAG
66 TGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACAGAG
621562 TTGTGG
131 TTGTGG
* **
621568 ACTTAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 ACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
*
621633 TGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGG-TGCCACAGA
66 TGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGATGCCACAGA
621697 GTTGTGG
130 GTTGTGG
* *
621704 ACTTAAAAAGATGCCACAGAGTTGTGGACTTTAAAAG
1 ACTTAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAG
621741 AAAATGCCAC
Statistics
Matches: 157, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 141 0.90
137 16 0.10
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (136 bp):
ACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
TGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACAGAG
TTGTGG
Found at i:621741 original size:27 final size:27
Alignment explanation
Indices: 621432--621740 Score: 465
Period size: 27 Copynumber: 11.3 Consensus size: 27
621422 GAAGTTTTCT
*
621432 ACTTAAAAGGGTGCCACGAAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
**
621459 ACTTAAAAATGTGCCACGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
** *
621486 ACTTAAAAGAATGCCACAGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
621513 ACTTAAAAGGGTGCCACGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
*
621540 TCTTAAAAGGGATGCCACGGAGTTGTGG
1 ACTTAAAAGGG-TGCCACGGAGTTGTGG
* *
621568 ACTTAAAAAGGTGCCATGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
621595 ACTTAAAAGGGTGCCACGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
621622 ACTTAAAAGGGTGCCACGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
*
621649 ACTAAAAAGGGTGCCACGGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
*
621676 ACTTTAAAAGGGTGCCACAGAGTTGTGG
1 AC-TTAAAAGGGTGCCACGGAGTTGTGG
* * *
621704 ACTTAAAAAGATGCCACAGAGTTGTGG
1 ACTTAAAAGGGTGCCACGGAGTTGTGG
621731 ACTTTAAAAG
1 AC-TTAAAAG
621741 AAAATGCCAC
Statistics
Matches: 257, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
27 201 0.78
28 56 0.22
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
ACTTAAAAGGGTGCCACGGAGTTGTGG
Found at i:628056 original size:20 final size:20
Alignment explanation
Indices: 628013--628056 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
628003 CCGTGTAAAT
* *
628013 GTATCGATACAATTTTTGAT
1 GTATCGATACAATATTTGAA
628033 GTATCGATAC-ATATTTGAAA
1 GTATCGATACAATATTTG-AA
628053 GTAT
1 GTAT
628057 AGCCGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (20 bp):
GTATCGATACAATATTTGAA
Found at i:628121 original size:13 final size:13
Alignment explanation
Indices: 628103--628128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
628093 CAATTTTTTG
628103 TGTATCGATACAT
1 TGTATCGATACAT
628116 TGTATCGATACAT
1 TGTATCGATACAT
628129 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:628193 original size:21 final size:21
Alignment explanation
Indices: 628167--628260 Score: 102
Period size: 20 Copynumber: 4.6 Consensus size: 21
628157 CTGCCAAGAA
*
628167 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
628188 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
628208 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
***
628229 ATGTATCGATACAT-TTCAAC
1 ATGTATCGATACATCTTTTTC
628249 ATGTATCGATAC
1 ATGTATCGATAC
628261 TTTGAATTGT
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 30 0.50
21 30 0.50
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:628224 original size:41 final size:41
Alignment explanation
Indices: 628167--628260 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
628157 CTGCCAAGAA
*
628167 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
628208 ATGTATCGATACATCTTTTTCATGTATCGATACATTTCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
628249 ATGTATCGATAC
1 ATGTATCGATAC
628261 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:628907 original size:15 final size:15
Alignment explanation
Indices: 628887--628915 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
628877 TATTAATAAA
628887 TCTCCCCCTTAATCC
1 TCTCCCCCTTAATCC
628902 TCTCCCCCTTAATC
1 TCTCCCCCTTAATC
628916 AAAATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (15 bp):
TCTCCCCCTTAATCC
Found at i:630721 original size:13 final size:13
Alignment explanation
Indices: 630703--630741 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
630693 ATAATCACCC
*
630703 TGTATCGATACAG
1 TGTATCGATACAA
630716 TGTATCGATACAA
1 TGTATCGATACAA
630729 TGTATCGATACAA
1 TGTATCGATACAA
630742 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:630752 original size:20 final size:20
Alignment explanation
Indices: 630727--630805 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
630717 GTATCGATAC
630727 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
630747 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
630772 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
630792 CATGTATCGATACA
1 AATGTATCGATACA
630806 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:634684 original size:21 final size:21
Alignment explanation
Indices: 634655--634699 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
634645 AAGTTTTCAT
*
634655 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
634675 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
634697 TTT
1 TTT
634700 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:636920 original size:13 final size:13
Alignment explanation
Indices: 636902--636927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
636892 CAATTTTTTG
636902 TGTATCGATACAT
1 TGTATCGATACAT
636915 TGTATCGATACAT
1 TGTATCGATACAT
636928 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:636992 original size:21 final size:21
Alignment explanation
Indices: 636966--637041 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
636956 CTGCCAAGAA
*
636966 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
636987 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
637007 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
637028 ATGTATCGATACAT
1 ATGTATCGATACAT
637042 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:637012 original size:20 final size:20
Alignment explanation
Indices: 636987--637059 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
636977 CATCTTTTTT
636987 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
637007 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
637028 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
637048 ATGTATCGATAC
1 ATGTATCGATAC
637060 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:637023 original size:41 final size:41
Alignment explanation
Indices: 636966--637059 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
636956 CTGCCAAGAA
*
636966 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
637007 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
637048 ATGTATCGATAC
1 ATGTATCGATAC
637060 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:640009 original size:25 final size:23
Alignment explanation
Indices: 639971--640016 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
639961 CTCCTCAATC
639971 GGAAAACCCACTTTGGTTTTTTTTT
1 GGAAAACCCACTTT--TTTTTTTTT
* *
639996 GGAAAGCCCTCTTTTTTTTTT
1 GGAAAACCCACTTTTTTTTTT
640017 CGACCCCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (23 bp):
GGAAAACCCACTTTTTTTTTTTT
Found at i:641092 original size:20 final size:20
Alignment explanation
Indices: 641069--641114 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
641059 ATCATGGATA
*
641069 TATTTATGATAATTTTATAC
1 TATTTATGATAATTATATAC
* * *
641089 TATTTTTTATAATTATATAT
1 TATTTATGATAATTATATAC
641109 TATTTA
1 TATTTA
641115 AAATAAGTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTTATGATAATTATATAC
Found at i:641608 original size:27 final size:29
Alignment explanation
Indices: 641578--641632 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
641568 ATTTTTTAAA
*
641578 TTAAAAATTA-C-TTATTTATTTTTATTT
1 TTAAAAATTATCATTACTTATTTTTATTT
*
641605 TTAAATATTATCTATTACTTATTTTTAT
1 TTAAAAATTATC-ATTACTTATTTTTAT
641633 ATCTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 1 0.04
30 13 0.57
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TTAAAAATTATCATTACTTATTTTTATTT
Found at i:643052 original size:6 final size:6
Alignment explanation
Indices: 643041--643127 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
643031 AAATTTTAAA
* * * *
643041 ATTTAT ATTTAT ATTTAA ATTTAAT TTTTTT ATTTA- ATTTATT AATTTAA
1 ATTTAT ATTTAT ATTTAT ATTT-AT ATTTAT ATTTAT ATTTA-T -ATTTAT
* * *
643091 ATATATT ATTTAT -TTTAT -TTTAA ATTAAT ATTTAT AT
1 ATTTA-T ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
643128 ATTTTATAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 14 0.23
6 34 0.56
7 8 0.13
8 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTAT
Found at i:643060 original size:18 final size:18
Alignment explanation
Indices: 643039--643127 Score: 67
Period size: 18 Copynumber: 4.9 Consensus size: 18
643029 AAAAATTTTA
643039 AAATTTATATTTATATTT
1 AAATTTATATTTATATTT
* *
643057 AAATTTAATTTTTTTATTT
1 AAATTT-ATATTTATATTT
* *
643076 -AATTTATTAATTTAAATAT
1 AAATTTA-T-ATTTATATTT
*
643095 ATTATTTAT-TTTAT-TTT
1 A-AATTTATATTTATATTT
*
643112 AAATTAATATTTATAT
1 AAATTTATATTTATAT
643128 ATTTTATAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.09
17 9 0.17
18 17 0.32
19 16 0.30
20 1 0.02
21 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATTTATATTTATATTT
Found at i:643061 original size:26 final size:24
Alignment explanation
Indices: 643039--643127 Score: 76
Period size: 26 Copynumber: 3.7 Consensus size: 24
643029 AAAAATTTTA
643039 AAATTTATATTTATATTTAAATTT
1 AAATTTATATTTATATTTAAATTT
* *
643063 AATTTTTTTATTTA-ATTTATTAATTT
1 AA-ATTTATATTTATATTTA--AATTT
* *
643089 AAATATATTATTTAT-TTT-ATTTT
1 AAATTTA-TATTTATATTTAAATTT
*
643112 AAATTAATATTTATAT
1 AAATTTATATTTATAT
643128 ATTTTATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
22 7 0.14
23 10 0.20
24 7 0.14
25 11 0.22
26 16 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AAATTTATATTTATATTTAAATTT
Found at i:643077 original size:13 final size:13
Alignment explanation
Indices: 643058--643109 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
643048 TTTATATTTA
*
643058 AATTTAATTTTTT
1 AATTTAATTTATT
*
643071 TATTTAATTTATT
1 AATTTAATTTATT
*
643084 AATTTAAATATATT
1 AATTT-AATTTATT
*
643098 -ATTTATTTTATT
1 AATTTAATTTATT
643110 TTAAATTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.19
13 19 0.59
14 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTTAATTTATT
Found at i:643122 original size:22 final size:21
Alignment explanation
Indices: 643077--643145 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
643067 TTTTTATTTA
* *
643077 ATTTAT-TAATTTAAATATATT
1 ATTTATATATTTTAAAT-TAAT
*
643098 ATTTATTTTATTTTAAATTAAT
1 ATTTA-TATATTTTAAATTAAT
643120 ATTTATATATTTTATAATTAA-
1 ATTTATATATTTTA-AATTAAT
643141 ATTTA
1 ATTTA
643146 AATAAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 18 0.43
22 15 0.36
23 9 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATATATTTTAAATTAAT
Found at i:643146 original size:56 final size:57
Alignment explanation
Indices: 643041--643149 Score: 136
Period size: 56 Copynumber: 1.9 Consensus size: 57
643031 AAATTTTAAA
* *
643041 ATTTATATTTATATTTAAATTTAATTTTTTTATTTAATTTATTAATTTAAATATATT
1 ATTTATATTTATATTTAAATTTAATTTTTATATTTAATTAATTAATTTAAATATATT
*
643098 ATTTAT-TTTAT-TTTAAA-TTAATATTTATATATTTTA-TAATTAAATTTAAATA
1 ATTTATATTTATATTTAAATTTAAT-TTT-TATATTTAATTAATT-AATTTAAATA
643150 AAAATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
54 5 0.11
55 13 0.28
56 22 0.48
57 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (57 bp):
ATTTATATTTATATTTAAATTTAATTTTTATATTTAATTAATTAATTTAAATATATT
Found at i:645343 original size:13 final size:13
Alignment explanation
Indices: 645295--645353 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 13
645285 TATTTTATTA
* *
645295 ATTTATAATTTAT
1 ATTTATATTTTGT
645308 ATTTATATTTTGTAAT
1 ATTTATATTTTG---T
645324 GATTTATATTTTGT
1 -ATTTATATTTTGT
645338 ATTTATATTTT-T
1 ATTTATATTTTGT
645350 ATTT
1 ATTT
645354 TTTTAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 5 0.12
13 21 0.52
14 1 0.03
16 1 0.03
17 12 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (13 bp):
ATTTATATTTTGT
Found at i:645584 original size:3 final size:3
Alignment explanation
Indices: 645566--645608 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
645556 GAATTTTTGA
645566 TAT TA- TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
645609 GTGTAGTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:648869 original size:18 final size:19
Alignment explanation
Indices: 648834--648869 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
648824 TAATTAAATA
*
648834 ATTTAATCTATTTTATATT
1 ATTTAATCTATATTATATT
648853 ATTTAAT-TATATTATAT
1 ATTTAATCTATATTATAT
648870 ATGCATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAATCTATATTATATT
Found at i:650630 original size:18 final size:21
Alignment explanation
Indices: 650604--650645 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 21
650594 CGGACTCAAG
650604 TATAAATA-TCGA-ATAAG-A
1 TATAAATATTCGATATAAGCA
*
650622 TATACATATTCGATATAAGCA
1 TATAAATATTCGATATAAGCA
650643 TAT
1 TAT
650646 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 5 0.25
21 4 0.20
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
TATAAATATTCGATATAAGCA
Found at i:658505 original size:22 final size:24
Alignment explanation
Indices: 658450--658505 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
658440 GGTTCAATTG
*
658450 AAAAAGAG-AGAAAGAAAAGACAA
1 AAAAAGAGAAAAAAGAAAAGACAA
*
658473 AAAAATA-AAAAAAG-AAAGA-AA
1 AAAAAGAGAAAAAAGAAAAGACAA
658494 AAAAAGAGAAAA
1 AAAAAGAGAAAA
658506 TAGAGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.29
22 9 0.32
23 11 0.39
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (24 bp):
AAAAAGAGAAAAAAGAAAAGACAA
Found at i:660485 original size:311 final size:308
Alignment explanation
Indices: 659794--660942 Score: 1120
Period size: 311 Copynumber: 3.7 Consensus size: 308
659784 TCTATAGCCT
* * * * *
659794 TTTTAAGTCCTTTAAGGGTACCGGGATACTTTCACGTTGAAGGTATCCCCTAGGGGTATTTTTGT
1 TTTTAAGTCCTTT-AGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTCGT
* * * * * * **
659859 ATTTTCTTAGAATCAAGTCCTAAGTTGTCACCGGGTCTGCTTTTATGCTGAAATTGGGCATTTAG
65 AATTTCTTAGAACCAAGTCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
* * * * ** * *
659924 GATAGGTTCATCCATTTTTTAGTCTTTTTAGGTCCTTTAGGGTT-ACTGGGATGCTTTTATGTCG
130 GATAGGTTCATCCCTTTTCTAGTCCTTTTAGGTCCTTTAGGGTTGCCAAGG-TACTTTTACGTCG
* * ** * *
659988 AAGGTATACCCCTAGGGGCATTTTCATAATTT-TTAAAACCAACTCCTAGGTCATCA-CTGGTCC
194 AAGGTATACCCATAGGGGCATTTTTATAATTTCTTAAAACTGAGTCCTAGGTCATCATCGGGTCC
* * * * *
660051 GCTTTTATG-CTAAAGGTGAGCATTTAGGATAGGTTCACCCCTTTTATAGTCT
259 GCTTTTATGCCGAAA-GTGGGCATTTAGGATAGGTTCA-TCCATTT-TAGTCC
** * * * * * * * *
660103 TTTTAAGTCCTTTAGGGTTTTCGGGGTACTTTTACGTCGAAGGTATACTCATAGGGGTATTTTTT
1 TTTTAAGTCCTTTAGGG-TACCGAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGGCA-TTTTC
* * * *
660168 GTAATTTCTTAAAATCGAGTCCCAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTT
63 GTAATTTCTTAGAACCAAGTCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* * *
660233 AGGATAGGTCCATCCCTTTTCTAGTCCTTTTAGGTCTTTTAAGGTTGCCAAGGTAC-TTTACGTC
128 AGGATAGGTTCATCCCTTTTCTAGTCCTTTTAGGTCCTTTAGGGTTGCCAAGGTACTTTTACGTC
* * * * * *
660297 GAAGGTATACCTATAGGGGTATTTTTGTAATTTCTTATAATTGAGTCCTAGGTCATCATCGGGTT
193 GAAGGTATACCCATAGGGGCATTTTTATAATTTCTTAAAACTGAGTCCTAGGTCATCATCGGGTC
* *
660362 CGTTTTTATGCCGAAAATGGGCATTTAGGATAGGTTCATAACCATTTCTAGTCC
258 CGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCAT--CCATTT-TAGTCC
* * *
660416 TTTTAAGTCCTTTAGGGTCACCGAGATACTTTTACTTC-AAGGTATACCCCTAATGGCATTTTCG
1 TTTTAAGTCCTTTAGGGT-ACCGAGATACTTTCACGTCGAAGGTAT-CCCCTAAGGGCATTTTCG
* * * * *
660480 TAATTT-TTAGAACCAATTCCTA-GTTCATCACC-GAGTCCTCTTTTATGTCAAAGGTGGGCATT
64 TAATTTCTTAGAACCAAGTCCTAGGTT-GTCACCAG-GTCCGCTTTTATGCCGAAGGTGGGCATT
** * *
660542 TAGGATAGGTTCATCATTTTTCTAGTCTTTTTAGGTCTTTTAGGGTTGCCAAGGTACTTTTACGT
127 TAGGATAGGTTCATCCCTTTTCTAGTCCTTTTAGGTCCTTTAGGGTTGCCAAGGTACTTTTACGT
* * * * ** *
660607 CGAAGGTATACCCATGGGGGCATTTTTATAATTTCCTAGAACTGAGTCCTAAGTCATTGTTGGGT
192 CGAAGGTATACCCATAGGGGCATTTTTATAATTTCTTAAAACTGAGTCCTAGGTCATCATCGGGT
* ** * * **
660672 CCACTTTTATGCCGACGGTAGGCATTTAGGATAGGTTCATCCCTTTTAAAACC
257 CCGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCATTTT-AGTCC
* ** *
660725 TTTTTTAAATATTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAAGGCATTTTC
1 --TTTTAAGTCCTTTA-GGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTC
* * * * * *
660790 GTAATTTTTTAGAACCAACTCTTAGGTCGTCACCAGGTCTGCTTTTATGCCGAATGTGGGCATTT
63 GTAATTTCTTAGAACCAAGTCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* * * *
660855 AGTATAGGTTCATCCCATTTCTA-TCCTTTTTAGGTCCTTTAGGG--G-TATTGGATACTTTTAC
128 AGGATAGGTTCATCCCTTTTCTAGTCC-TTTTAGGTCCTTTAGGGTTGCCA-AGG-TACTTTTAC
*
660916 GTCGAAGGTAT-CCCCTAGGGGCATTTT
190 GTCGAAGGTATACCCATAGGGGCATTTT
660943 CGAAATTTTT
Statistics
Matches: 697, Mismatches: 119, Indels: 47
0.81 0.14 0.05
Matches are distributed among these distances:
308 5 0.01
309 49 0.07
310 155 0.22
311 299 0.43
312 141 0.20
313 48 0.07
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (308 bp):
TTTTAAGTCCTTTAGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGCATTTTCGTA
ATTTCTTAGAACCAAGTCCTAGGTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGG
ATAGGTTCATCCCTTTTCTAGTCCTTTTAGGTCCTTTAGGGTTGCCAAGGTACTTTTACGTCGAA
GGTATACCCATAGGGGCATTTTTATAATTTCTTAAAACTGAGTCCTAGGTCATCATCGGGTCCGC
TTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCATTTTAGTCC
Found at i:660681 original size:466 final size:463
Alignment explanation
Indices: 659804--660952 Score: 1283
Period size: 466 Copynumber: 2.5 Consensus size: 463
659794 TTTTAAGTCC
** * ** *
659804 TTTAAGGGTACCGGGATACTTTCACGTTGAAGGTATCCCCTAGGGGTATTTTTGTATTTTCTTAG
1 TTTAAGGGTACCAAGATACTTTCACGTCGAAGGTATCCTATAGGGGTATTTTTGTAATTTCTTAG
* * * *
659869 AATCAAGTCCTAAGTTGTCACCGGGTCTGCTTTTATGCTGAAATTGGGCATTTAGGATAGGTTCA
66 AATCAAGTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAAATGGGCATTTAGGATAGGTTCA
* * *
659934 TCCATTTTTTAGTCTTTTTAGGTCCTTTAGGGTTACTGGGATGCTTTTA-TGTCGAAGGTATACC
131 TCCA-TTTCTAGTCCTTTTAGGTCCTTTAGGG-TACT-GGATACTTTTACT-TCGAAGGTATACC
* *
659998 CCTAGGGGCATTTTCATAATTTTTAAAACCAACTCCTAGGTCATCACTGGTCCGCTTTTATGCTA
192 CCTAGGGGCATTTTCGTAATTTTTAAAACCAACTCCTAGGTCATCACCGGTCCGCTTTTATGCTA
* ** **
660063 AAGGTGAGCATTTAGGATAGGTTCACCCCTTTTATAGTCTTTTTAAGTCCTTTAGGGTTTTCGGG
257 AAGGTGAGCATTTAGGATAGGTTCACCACTTTTATAGTCTTTTTAAGTCCTTTAGGGTTGCCAAG
* * * * *
660128 GTACTTTTACGTCGAAGGTATACTCATAGGGGTATTTTTTGTAATTTCTTAAAATCGAGTCCCAG
322 GTACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTTTATAATTTCCTAAAATCGAGTCCCAA
** * * * **
660193 GTTGTCACCAGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTCCATCCCTTTTCTAGT
387 GTCATCACCAGGTCCACTTTTATGCCGAAGGTAGGCATTTAGGATAGGTCCATCCCTTTT-AAAA
** *
660258 CC-TTTTAGGTCT
451 CCTTTTTAAATAT
* * *
660270 TTTAAGGTTGCCAAGGTACTTT-ACGTCGAAGGTATACCTATAGGGGTATTTTTGTAATTTCTTA
1 TTTAAGGGTACCAAGATACTTTCACGTCGAAGGTAT-CCTATAGGGGTATTTTTGTAATTTCTTA
* ** * * *
660334 TAATTGAGTCCTAGGTCATCATCGGGT-TCGTTTTTATGCCGAAAATGGGCATTTAGGATAGGTT
65 GAATCAAGTCCTAGGTCGTCACCGGGTCT-GCTTTTATGCCGAAAATGGGCATTTAGGATAGGTT
* *
660398 CATAACCATTTCTAGTCCTTTTAAGTCCTTTAGGGTCACCGAGATACTTTTACTTC-AAGGTATA
129 CAT--CCATTTCTAGTCCTTTTAGGTCCTTTAGGGT-ACTG-GATACTTTTACTTCGAAGGTATA
** * * * *
660462 CCCCTAATGGCATTTTCGTAATTTTTAGAACCAATTCCTAGTTCATCACCGAGTCCTCTTTTATG
190 CCCCTAGGGGCATTTTCGTAATTTTTAAAACCAACTCCTAGGTCATCACCG-GTCCGCTTTTATG
* * * * * *
660527 -TCAAAGGTGGGCATTTAGGATAGGTTCATCATTTTTCTAGTCTTTTTAGGTCTTTTAGGGTTGC
254 CT-AAAGGTGAGCATTTAGGATAGGTTCACCACTTTTATAGTCTTTTTAAGTCCTTTAGGGTTGC
* *
660591 CAAGGTACTTTTACGTCGAAGGTATACCCATGGGGGCA-TTTTTATAATTTCCTAGAA-CTGAGT
318 CAAGGTACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTTTATAATTTCCTAAAATC-GAGT
* ***** * *
660654 CCTAAGTCATTGTTGGGTCCACTTTTATGCCGACGGTAGGCATTTAGGATAGGTTCATCCCTTTT
382 CCCAAGTCATCACCAGGTCCACTTTTATGCCGAAGGTAGGCATTTAGGATAGGTCCATCCCTTTT
660719 AAAACCTTTTTTAAATAT
447 AAAACC-TTTTTAAATAT
* * ** ** * * *
660737 TTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCCTAAAGGCATTTTCGTAATTTTTTAG
1 TTTAAGGGTACCAAGATACTTTCACGTCGAAGGTATCCTATAGGGGTATTTTTGTAATTTCTTAG
* * * * ** *
660802 AACCAACTCTTAGGTCGTCACCAGGTCTGCTTTTATGCCGAATGTGGGCATTTAGTATAGGTTCA
66 AATCAAGTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAAATGGGCATTTAGGATAGGTTCA
* *
660867 TCCCATTTCTA-TCCTTTTTAGGTCCTTTAGGGGTATTGGATACTTTTACGTCGAAGGTAT-CCC
131 T-CCATTTCTAGTCC-TTTTAGGTCCTTTA-GGGTACTGGATACTTTTACTTCGAAGGTATACCC
*
660930 CTAGGGGCATTTTCGAAATTTTT
193 CTAGGGGCATTTTCGTAATTTTT
660953 TTGAACTTAG
Statistics
Matches: 565, Mismatches: 101, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
465 56 0.10
466 255 0.45
467 236 0.42
468 18 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (463 bp):
TTTAAGGGTACCAAGATACTTTCACGTCGAAGGTATCCTATAGGGGTATTTTTGTAATTTCTTAG
AATCAAGTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAAATGGGCATTTAGGATAGGTTCA
TCCATTTCTAGTCCTTTTAGGTCCTTTAGGGTACTGGATACTTTTACTTCGAAGGTATACCCCTA
GGGGCATTTTCGTAATTTTTAAAACCAACTCCTAGGTCATCACCGGTCCGCTTTTATGCTAAAGG
TGAGCATTTAGGATAGGTTCACCACTTTTATAGTCTTTTTAAGTCCTTTAGGGTTGCCAAGGTAC
TTTTACGTCGAAGGTATACCCATAGGGGCATTTTTTATAATTTCCTAAAATCGAGTCCCAAGTCA
TCACCAGGTCCACTTTTATGCCGAAGGTAGGCATTTAGGATAGGTCCATCCCTTTTAAAACCTTT
TTAAATAT
Found at i:660954 original size:156 final size:156
Alignment explanation
Indices: 659774--660950 Score: 965
Period size: 156 Copynumber: 7.6 Consensus size: 156
659764 ATAGTTTCAA
* * * *
659774 CATCACCTTTTCTA-TAGCCTTTTTAAGTCCTTTAAGGGTACCGGGATACTTTCACGTTGAAGGT
1 CATC-CCTTTTCTAGT--CCTTTTTAAGTCCTTTAGGGGTA-CAGGATACTTTTACGTCGAAGGT
* * * * * **
659838 AT-CCCCTAGGGGTATTTTTGTATTTTCTTAGAATCAAGTCCTAAGTTGTCACCGGGTCTGCTTT
62 ATACCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTT
* **
659902 TATGCTGAAATTGGGCATTTAGGATAGGTT
127 TATGCCGAAGGTGGGCATTTAGGATAGGTT
* * * * * * *
659932 CATCCATTTTTTAGT-CTTTTTAGGTCCTTTAGGGTTACTGGGATGCTTTTATGTCGAAGGTATA
1 CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGTAC-AGGATACTTTTACGTCGAAGGTATA
* * * * *
659996 CCCCTAGGGGCATTTTCATAATTT-TTAAAACCAACTCCTAGGTCATCA-CTGGTCCGCTTTTAT
65 CCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTAT
** *
660059 GCTAAAGGTGAGCATTTAGGATAGGTT
130 GCCGAAGGTGGGCATTTAGGATAGGTT
* * * * * *
660086 CACCCCTTTTATAGT-CTTTTTAAGTCCTTTAGGGTTTTCGGGGTACTTTTACGTCGAAGGTATA
1 CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGG-GTACAGGATACTTTTACGTCGAAGGTATA
* * * * * * * * ** * *
660150 CTCATAGGGGTATTTTTTGTAATTTCTTAAAATCGAGTCCCAGGTTGTCACCAGGTCCGCTTTTA
65 CCCCTAGGGGCA-TTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTA
*
660215 TGCCGAAGGTGGGCATTTAGGATAGGTC
129 TGCCGAAGGTGGGCATTTAGGATAGGTT
* * * * *
660243 CATCCCTTTTCTAGTCC-TTTTAGGTCTTTTAAGGTTGCCAAGG-TAC-TTTACGTCGAAGGTAT
1 CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGT-AC-AGGATACTTTTACGTCGAAGGTAT
** * * * *** * *
660305 ACCTATAGGGGTATTTTTGTAATTTCTTATAATTGAGTCCTAGGTCATCATCGGGT-TCGTTTTT
64 ACCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCT-GCTTTT
**
660369 ATGCCGAAAATGGGCATTTAGGATAGGTT
128 ATGCCGAAGGTGGGCATTTAGGATAGGTT
* * * *
660398 CATAACCATTTCTAGTCC-TTTTAAGTCCTTTA-GGGTCACCGAGATACTTTTACTTC-AAGGTA
1 CAT-CCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGT-ACAG-GATACTTTTACGTCGAAGGTA
** * * *
660460 TACCCCTAATGGCATTTTCGTAATTT-TTAGAACCAATTCCTAGTTCATCACCGAGTCCT-CTTT
63 TACCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGT-CTGCTTT
* *
660523 TATGTCAAAGGTGGGCATTTAGGATAGGTT
127 TATGCCGAAGGTGGGCATTTAGGATAGGTT
** * * * *
660553 CATCATTTTTCTAGT-CTTTTTAGGTCTTTTAGGGTTGCCAAGG-TACTTTTACGTCGAAGGTAT
1 CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGT-AC-AGGATACTTTTACGTCGAAGGTAT
* * ** * ** * **** **
660616 ACCCATGGGGGCATTTTTATAATTTCCTAGAACTGAGTCCTAAGTCATTGTTGGGTCCACTTTTA
64 ACCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTA
* *
660681 TGCCGACGGTAGGCATTTAGGATAGGTT
129 TGCCGAAGGTGGGCATTTAGGATAGGTT
* ** * ** * *
660709 CATCCCTTTT-AAAACCTTTTTTAAATATTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTAT
1 CATCCCTTTTCTAGTCC-TTTTTAAGTCCTTTAGGGGTACAG-GATACTTTTACGTCGAAGGTAT
** * * * * *
660773 -CCCCTAAAGGCATTTTCGTAATTTTTTAGAACCAACTCTTAGGTCGTCACCAGGTCTGCTTTTA
64 ACCCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTA
* *
660837 TGCCGAATGTGGGCATTTAGTATAGGTT
129 TGCCGAAGGTGGGCATTTAGGATAGGTT
* * **
660865 CATCCCATTTCTA-TCCTTTTTAGGTCCTTTAGGGGTATTGGATACTTTTACGTCGAAGGTAT-C
1 CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACAGGATACTTTTACGTCGAAGGTATAC
*
660928 CCCTAGGGGCATTTTCGAAATTT
66 CCCTAGGGGCATTTTCGTAATTT
660951 TTTTGAACTT
Statistics
Matches: 810, Mismatches: 181, Indels: 60
0.77 0.17 0.06
Matches are distributed among these distances:
153 1 0.00
154 172 0.21
155 251 0.31
156 259 0.32
157 119 0.15
158 8 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (156 bp):
CATCCCTTTTCTAGTCCTTTTTAAGTCCTTTAGGGGTACAGGATACTTTTACGTCGAAGGTATAC
CCCTAGGGGCATTTTCGTAATTTCTTAGAACCAAGTCCTAGGTCATCACCGGGTCTGCTTTTATG
CCGAAGGTGGGCATTTAGGATAGGTT
Found at i:666271 original size:92 final size:89
Alignment explanation
Indices: 666075--666250 Score: 214
Period size: 89 Copynumber: 2.0 Consensus size: 89
666065 TCTTCTTTCT
* * * * *
666075 CAACCACTACATGGTATTGATGCATCACTAAGCCTAATTTCCTTGGGGCAAGGTGTAGCCTACAC
1 CAACCACTAGATGGTATTGATGCATCACAAAACCTAATTTCCTTGGGGCAAAGTATAGCCTACAC
*
666140 ATTCCCAATCATATTTCCTTCATC
66 ATTCCCAATCATATTCCCTTCATC
* *
666164 CAACCACTAGATGGTATTGATGCATCACAAAACCTGATTTTCC-TGGGGCAAAG-ATATCCTAAC
1 CAACCACTAGATGGTATTGATGCATCACAAAACCT-AATTTCCTTGGGGCAAAGTATAGCCT-A-
666227 CACTCATTCCCAATCATA-TCCCTT
63 CA--CATTCCCAATCATATTCCCTT
666251 TTCCTAAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
88 5 0.07
89 42 0.57
90 8 0.11
91 5 0.07
92 14 0.19
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (89 bp):
CAACCACTAGATGGTATTGATGCATCACAAAACCTAATTTCCTTGGGGCAAAGTATAGCCTACAC
ATTCCCAATCATATTCCCTTCATC
Found at i:666675 original size:44 final size:43
Alignment explanation
Indices: 666553--666699 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 43
666543 TCCTTTCTAG
* ** *
666553 CGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGAATTAAA
1 CGTATGGTTACCACCTCGGTCAGATTCTTTTCA-TTCCTATT-GA
* * * *
666598 TGTATGGTTACCACC-CTAGTCA-AATCTGCTTCATTCCTATCTGA
1 CGTATGGTTACCACCTC-GGTCAGATTCT-TTTCATTCCTAT-TGA
*
666642 CGTATGGTTACCACCTCGGTTAGATTCTTTTCATT-CTAATTTGA
1 CGTATGGTTACCACCTCGGTCAGATTCTTTTCATTCCT-A-TTGA
*
666686 CATATGGTTACCAC
1 CGTATGGTTACCAC
666700 AATGGTCAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
43 2 0.02
44 50 0.62
45 29 0.36
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (43 bp):
CGTATGGTTACCACCTCGGTCAGATTCTTTTCATTCCTATTGA
Found at i:666896 original size:42 final size:42
Alignment explanation
Indices: 666811--666973 Score: 166
Period size: 42 Copynumber: 3.9 Consensus size: 42
666801 GTCAGCTCAA
* *
666811 ACCCGAGAGACTTTCTTTATCCTTTATCTGCCCGTCGACTTAG
1 ACCCGAGAGAC-TTCTTTATCCTTTGTCTGCCCGTCGGCTTAG
* * * * *
666854 ACCCGAGAGACTTTTTTATCTTTTGTCTGCCTGACGGTTTAG
1 ACCCGAGAGACTTCTTTATCCTTTGTCTGCCCGTCGGCTTAG
* * * *
666896 A-CCTAGGAGACTTCTTTATCTTTTGTTTACCCGTCGGCTTAG
1 ACCCGA-GAGACTTCTTTATCCTTTGTCTGCCCGTCGGCTTAG
* * * *
666938 GCCCGGGAGACTTCTTTATCCTTCGTCTGCCTGTCG
1 ACCCGAGAGACTTCTTTATCCTTTGTCTGCCCGTCG
666974 ACTTTGACTT
Statistics
Matches: 96, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.03
42 80 0.83
43 13 0.14
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.37
Consensus pattern (42 bp):
ACCCGAGAGACTTCTTTATCCTTTGTCTGCCCGTCGGCTTAG
Found at i:667057 original size:125 final size:125
Alignment explanation
Indices: 666811--667117 Score: 278
Period size: 125 Copynumber: 2.4 Consensus size: 125
666801 GTCAGCTCAA
* * * ** * *
666811 ACCCGAGAGACTTTCTTTATCCTTTA-TCTGCCCGTCGACTTAGACCCGAGAGACTTTTTTATCT
1 ACCCGGGAGAC-TTCTTTATCC-TTAGTCTGCCTGTCGACTTTGACTTG-GAGACTCTTTTAGCT
* * * **** *
666875 TTTGTCTGCCTGACGGTTTAGACCTAGGAGACTTCTTTATCTTTTGTTTACCCGTCGGCTTAGG
63 TTTGTCTGCCTGACGGTTTAAACCTAGGAGACTACTTCATCACAAGTCTACCCGTCGGCTT-GG
*
666939 -CCCGGGAGACTTCTTTATCCTTCGTCTGCCTGTCGACTTTGACTTGGAGACTCTTTT-GCTTTT
1 ACCCGGGAGACTTCTTTATCCTTAGTCTGCCTGTCGACTTTGACTTGGAGACTCTTTTAGCTTTT
* * * * *
667002 CGTCTGTCTGTCGGTTTAAACCTGGGAGACTACTTCATCACAAGTCTGCCTGTCGGCTTGG
66 -GTCTGCCTGACGGTTTAAACCTAGGAGACTACTTCATCACAAGTCTACCCGTCGGCTTGG
* * * * * * *
667063 ACCCTGGAGGCTTATTCACCCTTAAGTCTGCTTGTCGGCTTTGACCTTGGAGACT
1 ACCCGGGAGACTTCTTTATCCTT-AGTCTGCCTGTCGACTTTGA-CTTGGAGACT
667118 TCTTCACCCT
Statistics
Matches: 145, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
124 7 0.05
125 74 0.51
126 45 0.31
127 19 0.13
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (125 bp):
ACCCGGGAGACTTCTTTATCCTTAGTCTGCCTGTCGACTTTGACTTGGAGACTCTTTTAGCTTTT
GTCTGCCTGACGGTTTAAACCTAGGAGACTACTTCATCACAAGTCTACCCGTCGGCTTGG
Found at i:667091 original size:43 final size:43
Alignment explanation
Indices: 667043--667609 Score: 487
Period size: 43 Copynumber: 13.2 Consensus size: 43
667033 ACTTCATCAC
* * * *
667043 AAGTCTGCCTGTCGGCTTGGACCCTGGAGGCTTATTCACCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * *
667086 AAGTCTGCTTGTCGGCTTTGACCTTGGAGACTTCTTCACCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * *
667129 AAGTCTACCTGTCAGCTTTGACCCT-GAAGACTTCTTCCCCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTTCTTCACCCTT
* * * * * * *
667172 AAGTCTACCTGTCAGCTTTGACCTTGGAGACTTTTTTA-CCAT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * * * *
667214 AAGTCTGCCTATCGGCTTTTACCTTAGAGATTTCTACCCCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * * *
667257 AAGTCTGCCTATCGGCTTTTACCTTAGAGACTTCTACCCCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * *
667300 AAGTCTGCCTATCAGCTTTGACCCTAGAGACTTCTTCATCTTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * *
667343 AAGTCTG-CTCGTCGGCTTTAACCCTTGATACTTCTTCGCCCTT
1 AAGTCTGCCT-GTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * * * ** *
667386 AAGTCTCCCTATCGACTTTAACCCTAGAGACTTTTTTGCCTTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* ** * * *
667429 AAGTTTGTTTGTCGGCGTTGA-CCTTGAAGACTTCTTCACCCTA
1 AAGTCTGCCTGTCGGCTTTGACCCTAG-AGACTTCTTCACCCTT
* *
667472 AAGTCTGCCTGTCGGCCTTGACCCTAGAGACTTCCTTCATCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCACCCTT
* * * *
667516 AAGTCTACATGTCGGCTTTGACCCTAGTGACTTCCTCACCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
* * * * * * *
667559 AAGTTTGCTTGTCTGTTTTAACCCTAGAGACTTTTTTACCCTT
1 AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
*
667602 -TGTCTGCC
1 AAGTCTGCC
667610 CATCAGCTTT
Statistics
Matches: 426, Mismatches: 90, Indels: 17
0.80 0.17 0.03
Matches are distributed among these distances:
42 43 0.10
43 339 0.80
44 44 0.10
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (43 bp):
AAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCACCCTT
Found at i:667649 original size:42 final size:41
Alignment explanation
Indices: 667599--667681 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
667589 CTTTTTTACC
*
667599 CTTTGTCTGCCCATCAGCTTTGACAC-GGGAGACTTATTCAT
1 CTTTGTCTGCCCATCAACTTTGAC-CTGGGAGACTTATTCAT
* * *
667640 CTTTCGTCTGCCTATCAATTTTGACCTGGGAGACTTCTTCAT
1 CTTT-GTCTGCCCATCAACTTTGACCTGGGAGACTTATTCAT
667682 GCACTATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (41 bp):
CTTTGTCTGCCCATCAACTTTGACCTGGGAGACTTATTCAT
Found at i:667826 original size:42 final size:41
Alignment explanation
Indices: 667669--667893 Score: 182
Period size: 42 Copynumber: 5.3 Consensus size: 41
667659 TTTGACCTGG
** * * *
667669 GAGACTTCTTCATGC-ACTATCTACTCGTCGACTTAGTCTCGA
1 GAGACTTCTTCAT-CAACCGTCTACCCGTCGGCTTAGAC-CGA
* * **
667711 GAGACTTTTTTTATCAACCGTCTACCTATCGGCTTAGACCTGA
1 GAGAC-TTCTTCATCAACCGTCTACCCGTCGGCTTAGACC-GA
*** * *
667754 GAGACTTCTTCATCTTTCATCTACCTGTCGGCTTAGACCGAA
1 GAGACTTCTTCATCAACCGTCTACCCGTCGGCTTAGACCG-A
* * * *
667796 GAGACTTCTTCATCCACCGTCTGCCCGTCGGTTTAGACCTA
1 GAGACTTCTTCATCAACCGTCTACCCGTCGGCTTAGACCGA
* * *
667837 GGAGACTTTCTTTATCAACCGTCTTCCCGTCAGCTTAGACTCGA
1 -GAGAC-TTCTTCATCAACCGTCTACCCGTCGGCTTAGAC-CGA
667881 GAGACTTCTTCAT
1 GAGACTTCTTCAT
667894 TTTTTGTCTG
Statistics
Matches: 145, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
41 2 0.01
42 79 0.54
43 62 0.43
44 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
GAGACTTCTTCATCAACCGTCTACCCGTCGGCTTAGACCGA
Found at i:667848 original size:85 final size:84
Alignment explanation
Indices: 667662--667893 Score: 211
Period size: 85 Copynumber: 2.7 Consensus size: 84
667652 TATCAATTTT
* * * * * *
667662 GACCTGGGAGACTTCTTCATGC-ACTATCTACTCGTC-GACTTAGTCTCGAGAGACTTTTTTTAT
1 GACCTGAGAGACTTCTTCAT-CAACCATCTACCCGTCAG-CTTAGACTCGAGAGAC-TTCTTCAT
* * **
667725 CAACCGTCTACCTATCGGCTTA
63 CCACCGTCTGCCCGTCGGCTTA
*** * *
667747 GACCTGAGAGACTTCTTCATCTTTCATCTACCTGTCGGCTTAGAC-CGAAGAGACTTCTTCATCC
1 GACCTGAGAGACTTCTTCATCAACCATCTACCCGTCAGCTTAGACTCG-AGAGACTTCTTCATCC
*
667811 ACCGTCTGCCCGTCGGTTTA
65 ACCGTCTGCCCGTCGGCTTA
* * *
667831 GACCT-AGGAGACTTTCTTTATCAACCGTCTTCCCGTCAGCTTAGACTCGAGAGACTTCTTCAT
1 GACCTGA-GAGAC-TTCTTCATCAACCATCTACCCGTCAGCTTAGACTCGAGAGACTTCTTCAT
667894 TTTTTGTCTG
Statistics
Matches: 119, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
83 1 0.01
84 36 0.30
85 79 0.66
86 3 0.03
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (84 bp):
GACCTGAGAGACTTCTTCATCAACCATCTACCCGTCAGCTTAGACTCGAGAGACTTCTTCATCCA
CCGTCTGCCCGTCGGCTTA
Found at i:667903 original size:85 final size:85
Alignment explanation
Indices: 667784--668032 Score: 233
Period size: 85 Copynumber: 3.0 Consensus size: 85
667774 CTACCTGTCG
**** * *
667784 GCTTAGA-CCGAAGAGACTTCTTCATC-CACCGTCTGCCCGTCGGTTTAGACCTAGGAGACTTTC
1 GCTTAGACCCG-AGAGACTTCTTCATCTTTTTGTCTGCCCATCGGCTTAGACCTAGGAGACTTT-
* *
667847 TTTATCAACCGTCTTCCCGTCA
64 TTTATCAACCGTCTACCCATCA
* * * * *
667869 GCTTAGACTCGAGAGACTTCTTCAT-TTTTTGTCTGCCCATCGACTCAG-TCTCGGAAGACTTTT
1 GCTTAGACCCGAGAGACTTCTTCATCTTTTTGTCTGCCCATCGGCTTAGACCTAGG-AGAC-TTT
*
667932 TTTATCAACCGTCTACCCATCG
64 TTTATCAACCGTCTACCCATCA
* * *
667954 GCTTAGACCCGAGAGACTTTTTTATCCTTTTT-T-TGCCTATCGGCTTAGACCTAGGAGACTTTT
1 GCTTAGACCCGAGAGACTTCTTCAT-CTTTTTGTCTGCCCATCGGCTTAGACCTAGGAGACTTTT
* *
668017 TCATCCACCGTC-ACCC
65 TTATCAACCGTCTACCC
668033 GTCGCTTTAG
Statistics
Matches: 133, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
83 4 0.03
84 18 0.14
85 96 0.72
86 10 0.08
87 5 0.04
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (85 bp):
GCTTAGACCCGAGAGACTTCTTCATCTTTTTGTCTGCCCATCGGCTTAGACCTAGGAGACTTTTT
TATCAACCGTCTACCCATCA
Found at i:667928 original size:127 final size:127
Alignment explanation
Indices: 667709--667979 Score: 280
Period size: 127 Copynumber: 2.1 Consensus size: 127
667699 ACTTAGTCTC
* *
667709 GAGAGACTTTTTTTATCAACCGTCTACCTATCGGCTTAGACCTGAGAGACTTCTTCATCTTTCAT
1 GAGAGAC-TTTTTTATCAACCGTCTACCCATCAGCTTAGACCTGAGAGACTTCTTCATCTTTCAT
** * * * * * *
667774 CTACCTGTCGGCTTAGACCGAAGAGAC-TTCTTCATCCACCGTCTGCCCGTCGGTTTAGACCTA
65 CTACCCATCGACTCAGACCGAAGAGACTTTCTTCATCAACCGTCTACCCATCGGCTTAGACC-A
* * * **
667837 G-GAGACTTTCTTTATCAACCGTCTTCCCGTCAGCTTAGA-CTCGAGAGACTTCTTCATTTTTTG
1 GAGAGACTTT-TTTATCAACCGTCTACCCATCAGCTTAGACCT-GAGAGACTTCTTCATCTTTCA
* * * * * *
667900 TCTGCCCATCGACTCAGTCTCGGA-AGACTTTTTTTATCAACCGTCTACCCATCGGCTTAGACCC
64 TCTACCCATCGACTCAGAC-CGAAGAGACTTTCTTCATCAACCGTCTACCCATCGGCTTAGACCA
667964 GAGAGACTTTTTTATC
1 GAGAGACTTTTTTATC
667980 CTTTTTTTGC
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
126 5 0.04
127 72 0.62
128 40 0.34
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (127 bp):
GAGAGACTTTTTTATCAACCGTCTACCCATCAGCTTAGACCTGAGAGACTTCTTCATCTTTCATC
TACCCATCGACTCAGACCGAAGAGACTTTCTTCATCAACCGTCTACCCATCGGCTTAGACCA
Found at i:668671 original size:42 final size:42
Alignment explanation
Indices: 668544--668750 Score: 152
Period size: 43 Copynumber: 4.9 Consensus size: 42
668534 TACCCTTCGG
* * * * *
668544 CTTAGAC-CTGAGAGATTTTTTCATCCATAGTCTGCCTATTGG
1 CTTAGACTC-GAGAGACTTTTTCATCCATTGTCTGCCCATCGA
* * **
668586 CTCA-ATCTCGAGAGACTTCCTTT-ATCAATCATCTGCCCATCGA
1 CTTAGA-CTCGAGAGACTT--TTTCATCCATTGTCTGCCCATCGA
* *
668629 CTTAGACTCGAAAGACTTTTTCATCCATTGTCTGCCCGTCGA
1 CTTAGACTCGAGAGACTTTTTCATCCATTGTCTGCCCATCGA
* * ** ** *
668671 CTCAGTCTCGAGAGACTTCCTTT-ATTAATCATCTGCCCATCGG
1 CTTAGACTCGAGAGACTT--TTTCATCCATTGTCTGCCCATCGA
* *
668714 CTTAGACCCGAGAGACTTCTTCATCCATTGTCTGCCC
1 CTTAGACTCGAGAGACTTTTTCATCCATTGTCTGCCC
668751 GTCGGCTCAA
Statistics
Matches: 125, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
41 6 0.05
42 54 0.43
43 58 0.46
44 7 0.06
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (42 bp):
CTTAGACTCGAGAGACTTTTTCATCCATTGTCTGCCCATCGA
Found at i:668756 original size:42 final size:42
Alignment explanation
Indices: 668512--669542 Score: 444
Period size: 42 Copynumber: 24.3 Consensus size: 42
668502 TGAGTCTCAG
* * * * * *
668512 GAGACTTTCTTTATCAACCGTCTACCCTTCGGCTTAGACCTGA
1 GAGAC-TTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * * * *
668555 GAGATTTTTTCATCCATAGTCTGCCTATTGGCTCA-ATCTCGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGA-CCCGA
* * * * *
668597 GAGACTTCCTTTATCAATCATCTGCCCATCGACTTAGACTCGA
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * * * * *
668640 AAGACTTTTTCATCCATTGTCTGCCCGTCGACTCAGTCTCGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* ** *
668682 GAGACTTCCTTTATTAATCATCTGCCCATCGGCTTAGACCCGA
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * *
668725 GAGACTTCTTCATCCATTGTCTGCCCGTCGGCTCA-ATCCTGG
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGA-CCCGA
* ** * *
668767 GAGACTTCCTTTATTAATCGTCTGCCCGTCGGCTTAGACCTGA
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * *
668810 GAGACTTCTACATCCATAGTCTACCCATCGGCTCAGTCCC-A
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* ** * ** * * *
668851 GAAGACTTTCTTTATTAATCATCTGCCTGTTGGCTTAGATCCAA
1 G-AGAC-TTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * *
668895 G-GAACTTCATT-ATCCATTGTTTGCCTATCGGCTTAGTCTC-A
1 GAG-ACTTC-TTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * * * * * *
668936 GGATATTTCCTTTATCAACCGTCTACTCGTCGGCTAAGACCCGA
1 -GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * *
668980 GAGA-TTCTTCATCCA-CTATCTACCCATCGGCTTAGACCCAA
1 GAGACTTCTTCATCCATC-GTCTGCCCATCGGCTTAGACCCGA
* ** * * * * *
669021 GAGACTTTTTCATCTTTCGTTTACCCGTCAGTTTAGACCCGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * ** * * *
669063 AAGACTTCTTCATCTATCGTCTTCCTGTCAGCTTAGGCCCAA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * ** * * **
669105 GAGACTTCCTTTATCAACCATCTAACCGTCAGCTTAGATTCGA
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* *** * * * *
669148 GAAACTTCTTCATTTTTTGTCTGCCCATCGGTTTAGTCCTGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * *
669190 AAGACTTCTTTTATCGATCGTCTGCCCATCGGCTTAGACCCGA
1 GAGACTTC-TTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* ** * * *
669233 GAGACTTTTTCATCTTTCGTTTGCCCGTCGGCTTAAACCCGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * *
669275 GAGACTTCTTCATCCACCGTCTGCCCATTGCCTTAGACCTGG
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * * * * *
669317 GAGATTTCCTTTATCAATCGTCTGCTCGTCAGCTTAGACCCGA
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
*** * * * *
669360 GAGACTTCTTCATTTTTTGTTTGCCCCTCGGCTCA-ATCCCGA
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGA-CCCGA
* * ** * * *
669402 GAAACTTCCTTTATTAATCGTCTACCCATCAGCTTAGACCTG-
1 GAGACTT-CTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* * ** * * **
669444 GAAGACTTTTTGATCTTTTGTCTACCCATCAACTTAGACCCGA
1 G-AGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
* *** * *
669487 GAGACTTCTTCATCCACCGTCTGCTTGTCAGCTTAGACCCGG
1 GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
669529 GAGACTTCTTCATC
1 GAGACTTCTTCATC
669543 TCTTTATTTG
Statistics
Matches: 717, Mismatches: 243, Indels: 57
0.71 0.24 0.06
Matches are distributed among these distances:
40 1 0.00
41 36 0.05
42 405 0.56
43 269 0.38
44 6 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (42 bp):
GAGACTTCTTCATCCATCGTCTGCCCATCGGCTTAGACCCGA
Found at i:669282 original size:127 final size:127
Alignment explanation
Indices: 669145--669500 Score: 390
Period size: 127 Copynumber: 2.8 Consensus size: 127
669135 AGCTTAGATT
** * * * * *
669145 CGAGAAACTTCTTCATTTTTTGTCTGCCCATCGGTTTAGTCCTGAAAGACTTCTTTTATCGATCG
1 CGAGAAACTTCTTCATTAATCGTCTGCCCATCGGCTTAGACCTGGAAGACTTCTTTTATCAATCG
* *
669210 TCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTTGCCCGTCGGCTTAAACC
66 TCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCGTCGGCTTAAACC
* ** * * * * * *
669272 CGAGAGACTTCTTCATCCACCGTCTGCCCATTGCCTTAGACCTGGGAGATTTCCTTTATCAATCG
1 CGAGAAACTTCTTCATTAATCGTCTGCCCATCGGCTTAGACCTGGAAGACTTCTTTTATCAATCG
* * * * * * *
669337 TCTGCTCGTCAGCTTAGACCCGAGAGACTTCTTCATTTTTTGTTTGCCCCTCGGCTCAATCC
66 TCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCGTCGGCTTAAACC
* * * * ** *
669399 CGAGAAACTTCCTTTATTAATCGTCTACCCATCAGCTTAGACCTGGAAGACTT-TTTGATCTTTT
1 CGAGAAACTT-CTTCATTAATCGTCTGCCCATCGGCTTAGACCTGGAAGACTTCTTTTATCAATC
* *
669463 GTCTACCCATCAACTTAGACCCGAGAGACTTCTTCATC
65 GTCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATC
669501 CACCGTCTGC
Statistics
Matches: 183, Mismatches: 45, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
127 151 0.83
128 32 0.17
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (127 bp):
CGAGAAACTTCTTCATTAATCGTCTGCCCATCGGCTTAGACCTGGAAGACTTCTTTTATCAATCG
TCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTTTGCCCGTCGGCTTAAACC
Found at i:669283 original size:85 final size:85
Alignment explanation
Indices: 668512--669367 Score: 509
Period size: 85 Copynumber: 10.1 Consensus size: 85
668502 TGAGTCTCAG
* * * * * * * *
668512 GAGACTTTCTTTATCAACCGTCTACCCTTCGGCTTAGACCTGAGAGATTTTTTCATCCA-TAGTC
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCAT-CATTCGTC
* * * * *
668576 TGCCTATTGGCTCAATCTCGA
65 TGCCCATCGGCTTAGTCCCGA
* * * * * *
668597 GAGACTTCCTTTATCAATCATCTGCCCATCGACTTAGACTCGAAAGACTTTTTCATCCATT-GTC
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCAT-CATTCGTC
* * * *
668661 TGCCCGTCGACTCAGTCTCGA
65 TGCCCATCGGCTTAGTCCCGA
* * *
668682 GAGACTTCCTTTATTAATCATCTGCCCATCGGCTTAGACCCGAGAGACTTCTTCATCCATT-GTC
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCAT-CATTCGTC
* * * * *
668746 TGCCCGTCGGCTCAATCCTGG
65 TGCCCATCGGCTTAGTCCCGA
* * * *
668767 GAGACTTCCTTTATTAATCGTCTGCCCGTCGGCTTAGACCTGAGAGACTTCTACATCCA-TAGTC
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCAT-CATTCGTC
* *
668831 TACCCATCGGCTCAGTCCC-A
65 TGCCCATCGGCTTAGTCCCGA
* * * * * * *
668851 GAAGACTTTCTTTATTAATCATCTGCCTGTTGGCTTAGATCCAAG-GAACTTCATT-ATCCATT-
1 G-AGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAG-ACTTC-TTCAT-CATTC
* * *
668913 GTTTGCCTATCGGCTTAGTCTC-A
62 GTCTGCCCATCGGCTTAGTCCCGA
* * * * * * * *
668936 GGATATTTCCTTTATCAACCGTCTACTCGTCGGCTAAGACCCGAGAGA-TTCTTCATCCACT-AT
1 -GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCAT-CATTCGT
* * *
668999 CTACCCATCGGCTTAGACCCAA
64 CTGCCCATCGGCTTAGTCCCGA
** * * * * *
669021 GAGACTT--TTTCATCTTTCGTTTACCCGTCAGTTTAGACCCGAAAGACTTCTTCATC-TATCGT
1 GAGACTTCCTTT-ATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCATCAT-TCGT
* ** * * *
669083 CTTCCTGTCAGCTTAGGCCCAA
64 CTGCCCATCGGCTTAGTCCCGA
* * ** * ** * ** *
669105 GAGACTTCCTTTATCAACCATCTAACCGTCAGCTTAGATTCGAGAAACTTCTTCATTTTTTGTCT
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCATCATTCGTCT
* *
669170 GCCCATCGGTTTAGTCCTGA
66 GCCCATCGGCTTAGTCCCGA
* * * * * * *
669190 AAGACTTCTTTTATCGATCGTCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTT
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCATCATTCGTCT
* **
669255 GCCCGTCGGCTTAAACCCGA
66 GCCCATCGGCTTAGTCCCGA
* * * * * * * * * * *
669275 GAGACTT-CTTCATCCACCGTCTGCCCATTGCCTTAGACCTGGGAGATTTCCTTTATCAATCGTC
1 GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTT-CTTCATCATTCGTC
* * * *
669339 TGCTCGTCAGCTTAGACCCGA
65 TGCCCATCGGCTTAGTCCCGA
669360 GAGACTTC
1 GAGACTTC
669368 TTCATTTTTT
Statistics
Matches: 607, Mismatches: 145, Indels: 37
0.77 0.18 0.05
Matches are distributed among these distances:
82 3 0.00
83 30 0.05
84 99 0.16
85 466 0.77
86 9 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (85 bp):
GAGACTTCCTTTATCAATCGTCTGCCCGTCGGCTTAGACCCGAGAGACTTCTTCATCATTCGTCT
GCCCATCGGCTTAGTCCCGA
Found at i:669369 original size:212 final size:212
Alignment explanation
Indices: 668998--669536 Score: 609
Period size: 212 Copynumber: 2.5 Consensus size: 212
668988 TCATCCACTA
* *
668998 TCTACCCATCGGCTTAGACCCAAGAGACTTTTTCATCTTTCGTTTACCCGTCAGTTTAGACCCGA
1 TCTACCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTTACCCGTCAGCTTAGACCCGA
* * * * ** *
669063 AAGACTTCTTCATCTATCGTCTTCCTGTCAGCTTAGGCCCAAGAGACTTCCTTTATCAACCATCT
66 GAGACTTCTTCATCCACCGTCTGCCCATCAGCTTAGACCCAAGAGACTTCCTTTATCAACCATCT
** * * * *
669128 AACCGTCAGCTTAGATTCGAGAAACTTCTTCATTTTTTGTCTGCCCATCGGTTTAGTCCTGA-AA
131 AACCGTCAGCTTAGACCCGAGAAACTTCTTCATTTTTTGTCTGCCCATCGGCTCAATCCCGAGAA
* *
669192 GACTTCTTTTATCGATCG
196 -ACTTCCTTTATCAATCG
* * * *
669210 TCTGCCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTTGCCCGTCGGCTTAAACCCGA
1 TCTACCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTTACCCGTCAGCTTAGACCCGA
* *** * * *
669275 GAGACTTCTTCATCCACCGTCTGCCCAT-TGCCTTAGACCTGGGAGATTTCCTTTATCAATCGTC
66 GAGACTTCTTCATCCACCGTCTGCCCATCAG-CTTAGACCCAAGAGACTTCCTTTATCAACCATC
* * * *
669339 T-GCTCGTCAGCTTAGACCCGAGAGACTTCTTCATTTTTTGTTTGCCCCTCGGCTCAATCCCGAG
130 TAAC-CGTCAGCTTAGACCCGAGAAACTTCTTCATTTTTTGTCTGCCCATCGGCTCAATCCCGAG
*
669403 AAACTTCCTTTATTAATCG
194 AAACTTCCTTTATCAATCG
* * * * * * *
669422 TCTACCCATCAGCTTAGACCTG-GAAGACTTTTTGATCTTTTGTCTACCCATCAACTTAGACCCG
1 TCTACCCATCGGCTTAGACCCGAG-AGACTTTTTCATCTTTCGTTTACCCGTCAGCTTAGACCCG
*** **
669486 AGAGACTTCTTCATCCACCGTCTGCTTGTCAGCTTAGACCCGGGAGACTTC
65 AGAGACTTCTTCATCCACCGTCTGCCCATCAGCTTAGACCCAAGAGACTTC
669537 TTCATCTCTT
Statistics
Matches: 272, Mismatches: 50, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
211 3 0.01
212 266 0.98
213 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (212 bp):
TCTACCCATCGGCTTAGACCCGAGAGACTTTTTCATCTTTCGTTTACCCGTCAGCTTAGACCCGA
GAGACTTCTTCATCCACCGTCTGCCCATCAGCTTAGACCCAAGAGACTTCCTTTATCAACCATCT
AACCGTCAGCTTAGACCCGAGAAACTTCTTCATTTTTTGTCTGCCCATCGGCTCAATCCCGAGAA
ACTTCCTTTATCAATCG
Found at i:669385 original size:85 final size:85
Alignment explanation
Indices: 669209--669557 Score: 276
Period size: 85 Copynumber: 4.1 Consensus size: 85
669199 TTTATCGATC
* ** * * *
669209 GTCTGCCCATCGGCTTAGACCCGAGAGACTT--TTTCATCTTTCGTTTGCCCGTCGGCTTAAACC
1 GTCTGCCCATCGACTTAGACCCGAGAGACTTCCTTT-ATCAATCGTCTGCCCGTCAGCTTAGACC
***
669272 CGAGAGACTTCTTCATCCACC
65 CGAGAGACTTCTTCATCCTTT
* * * * * *
669293 GTCTGCCCATTGCCTTAGACCTGGGAGATTTCCTTTATCAATCGTCTGCTCGTCAGCTTAGACCC
1 GTCTGCCCATCGACTTAGACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCAGCTTAGACCC
**
669358 GAGAGACTTCTTCATTTTTT
66 GAGAGACTTCTTCATCCTTT
* * * * * * * *
669378 GTTTGCCCCTCGGCTCA-ATCCCGAGAAACTTCCTTTATTAATCGTCTACCCATCAGCTTAGACC
1 GTCTGCCCATCGACTTAGA-CCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCAGCTTAGACC
* * * *
669442 TG-GAAGACTTTTTGATCTTTT
65 CGAG-AGACTTCTTCATCCTTT
* * * * * **
669463 GTCTACCCATCAACTTAGACCCGAGAGACTT-CTTCATCCACCGTCTGCTTGTCAGCTTAGACCC
1 GTCTGCCCATCGACTTAGACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCAGCTTAGACCC
*
669527 GGGAGACTTCTTCATCTCTTT
66 GAGAGACTTCTTCATC-CTTT
* *
669548 ATTTGCCCAT
1 GTCTGCCCAT
669558 GCTCAGTCTT
Statistics
Matches: 203, Mismatches: 55, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
84 64 0.32
85 135 0.67
86 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.33
Consensus pattern (85 bp):
GTCTGCCCATCGACTTAGACCCGAGAGACTTCCTTTATCAATCGTCTGCCCGTCAGCTTAGACCC
GAGAGACTTCTTCATCCTTT
Found at i:669662 original size:84 final size:83
Alignment explanation
Indices: 669574--669844 Score: 280
Period size: 84 Copynumber: 3.2 Consensus size: 83
669564 TCTTGGGAAA
* * *
669574 TAACCTTCATCCATTATTTACCTATCAGCTCAGTCCCCGATAAACCCCATCTCTTCTTGGTGGCC
1 TAACCTTCATCCATTATTTACCTATCAGCTCAGTCCCCGATAAACCCCATCCCTT-ATGGTGACC
*
669639 TATCAGCCTAGTC-TCTGGT
65 TATCAGCCTAGTCTTC-GAT
** * *
669658 TAACCTTCATCCATTATTTACCTATCAGCTCAGTCTGCGATAAACCCTATCCCTTATGGTTACCT
1 TAACCTTCATCCATTATTTACCTATCAGCTCAGTCCCCGATAAACCCCATCCCTTATGGTGACCT
* *
669723 GTCAGCTTAGTCTTCGAT
66 ATCAGCCTAGTCTTCGAT
* * * * * * *
669741 CAACCTTCATCCATTATTTACCTATCGGCTTAGTCACCGGTAGA-CCCATTACCCCTATGGTGAC
1 TAACCTTCATCCATTATTTACCTATCAGCTCAGTCCCCGATAAACCCCA-T-CCCTTATGGTGAC
* *
669805 TTGTCAG-CTCAGTCTTC-AGT
64 CTATCAGCCT-AGTCTTCGA-T
*
669825 TAACCTTCATCCATTGTTTA
1 TAACCTTCATCCATTATTTA
669845 TTTCTCGGTT
Statistics
Matches: 158, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
82 3 0.02
83 59 0.37
84 96 0.61
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (83 bp):
TAACCTTCATCCATTATTTACCTATCAGCTCAGTCCCCGATAAACCCCATCCCTTATGGTGACCT
ATCAGCCTAGTCTTCGAT
Found at i:669686 original size:41 final size:41
Alignment explanation
Indices: 669575--669775 Score: 137
Period size: 41 Copynumber: 4.8 Consensus size: 41
669565 CTTGGGAAAT
* *
669575 AACCTTCATCCATTATTTACCTATCAG-CTCAGTCCCCGATA
1 AACCTTCATCCATTATTTACCTATCAGCCT-AGTCTCTGATA
* * * * *
669616 AACC-CCATCTC-TTCTTGGTGGCCTATCAGCCTAGTCTCTGGTT
1 AACCTTCATC-CATTATT--T-ACCTATCAGCCTAGTCTCTGATA
669659 AACCTTCATCCATTATTTACCTATCAG-CTCAGTCTGC-GATA
1 AACCTTCATCCATTATTTACCTATCAGCCT-AGTCT-CTGATA
* * * * *
669700 AACCCT-ATCCCTTATGGTTACCTGTCAGCTTAGTCT-TCGATC
1 AACCTTCATCCATTAT--TTACCTATCAGCCTAGTCTCT-GATA
* *
669742 AACCTTCATCCATTATTTACCTATCGGCTTAGTC
1 AACCTTCATCCATTATTTACCTATCAGCCTAGTC
669776 ACCGGTAGAC
Statistics
Matches: 124, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
40 18 0.15
41 41 0.33
42 26 0.21
43 29 0.23
44 10 0.08
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (41 bp):
AACCTTCATCCATTATTTACCTATCAGCCTAGTCTCTGATA
Found at i:669866 original size:84 final size:84
Alignment explanation
Indices: 669659--669919 Score: 221
Period size: 84 Copynumber: 3.1 Consensus size: 84
669649 GTCTCTGGTT
* * * ** * * * *
669659 AACCTTCATCCATTATTTACCTATCAGCTCAGTCTGCGATAAACCC--TATCCCTTATGGTTACC
1 AACCTTCATCCATTATTTACCTATCGGCTTAATCACCGGTAAGCCCATTA-CCCCTATGGTGACC
*
669722 TGTCAGCTTAGTCTTCGATC
65 TGTCAGCTCAGTCTTCGATC
* *
669742 AACCTTCATCCATTATTTACCTATCGGCTTAGTCACCGGT-AGACCCATTACCCCTATGGTGACT
1 AACCTTCATCCATTATTTACCTATCGGCTTAATCACCGGTAAG-CCCATTACCCCTATGGTGACC
*
669806 TGTCAGCTCAGTCTTC-AGTT
65 TGTCAGCTCAGTCTTCGA-TC
* ** * * * *
669826 AACCTTCATCCATTGTTTATTTCTCGG-TTCAATC-CTCGGTAAGCCCATTACCCTTATAGTGCC
1 AACCTTCATCCATTATTTACCTATCGGCTT-AATCAC-CGGTAAGCCCATTACCCCTATGGTGAC
* *
669889 CTGTCAGTTCAGTC-TCGACC
64 CTGTCAGCTCAGTCTTCGATC
*
669909 AACCTTTATCC
1 AACCTTCATCC
669920 TTCATTCACT
Statistics
Matches: 146, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
82 1 0.01
83 54 0.37
84 87 0.60
85 4 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.34
Consensus pattern (84 bp):
AACCTTCATCCATTATTTACCTATCGGCTTAATCACCGGTAAGCCCATTACCCCTATGGTGACCT
GTCAGCTCAGTCTTCGATC
Found at i:670126 original size:84 final size:84
Alignment explanation
Indices: 670038--670594 Score: 247
Period size: 84 Copynumber: 6.6 Consensus size: 84
670028 TTGGGTAAAT
* * * *
670038 CTTTTATCCTTCATTGACTTGTCGGTTTAATCTCGGTCAACATTTTATCCTTCATTCCCCTGTCG
1 CTTTTATCCTTTATTGACTTATCGGTTTAATCTCGGTCAACTTTTTATCCTTCATTCACCTGTCG
670103 GCTTGGTCCCAGGTACTTC
66 GCTTGGTCCCAGGTACTTC
* * ** ** * *
670122 CTTTTATCTTTTGTTGACTTATCGGTCCAATCAT-GGTCAACTTCTTTATCCTTTGTTTACCT-C
1 CTTTTATCCTTTATTGACTTATCGGTTTAATC-TCGGTCAACTT-TTTATCCTTCATTCACCTGT
*** * ** **
670185 CTAATCTAGT-CTGGAGTAAATC
64 CGGCT-TGGTCCCAG-GTACTTC
* * *
670207 C-TTTATCCTTTGTTGACTTATTGGTTTAATCTCGGTCAACTTTTTATCCTTCATTCACTTGTCG
1 CTTTTATCCTTTATTGACTTATCGGTTTAATCTCGGTCAACTTTTTATCCTTCATTCACCTGTCG
670271 GCTTGGTCCCAGGTACTTC
66 GCTTGGTCCCAGGTACTTC
* ** * * ** * *
670290 TTTTTATATTTTATTGACTTGTTGGTCCAATC-CTGGTCAACTTCTTTATCCCTT-GTTTACCTG
1 CTTTTATCCTTTATTGACTTATCGGTTTAATCTC-GGTCAACTT-TTTAT-CCTTCATTCACCTG
* * * * ** **
670353 TTGACTTAGTCTCAAATAAAT-
63 TCGGCTTGGTCCCAGGTACTTC
* * ** ** * ** * *
670374 CTTTTATCTTTTGTTGACTCGTCGGTCCAATCTCGATCAACTTTTTTATCCTTTGTTTACCTGCC
1 CTTTTATCCTTTATTGACTTATCGGTTTAATCTCGGTCAAC-TTTTTATCCTTCATTCACCTGTC
* * * * **
670439 AGCCTAGTCCC-GAGAAAATC
65 GGCTTGGTCCCAG-GTACTTC
** * * ** * * * *
670459 C-TTTATTCCTCGA-TGACCTGTTAGTTTAATCCCGATCAACTTTTTATCCTTTATTCCCCTGTC
1 CTTTTA-TCCTTTATTGACTTATCGGTTTAATCTCGGTCAACTTTTTATCCTTCATTCACCTGTC
* *
670522 GGCTTGGTCCCAGGTATTTT
65 GGCTTGGTCCCAGGTACTTC
* * * * *
670542 CTTTTAT-CTTATGTTGACTTTTCGGTATAGTC-CTAGTCAACTTCTTTATCCTT
1 CTTTTATCCTT-TATTGACTTATCGGTTTAATCTC-GGTCAACTT-TTTATCCTT
670595 TGTTTACCCA
Statistics
Matches: 347, Mismatches: 103, Indels: 45
0.70 0.21 0.09
Matches are distributed among these distances:
82 2 0.01
83 61 0.18
84 216 0.62
85 64 0.18
86 4 0.01
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (84 bp):
CTTTTATCCTTTATTGACTTATCGGTTTAATCTCGGTCAACTTTTTATCCTTCATTCACCTGTCG
GCTTGGTCCCAGGTACTTC
Found at i:670380 original size:252 final size:252
Alignment explanation
Indices: 670122--670602 Score: 630
Period size: 252 Copynumber: 1.9 Consensus size: 252
670112 CAGGTACTTC
* *
670122 CTTTTATCTTTTGTTGACTTATCGGTCCAATCAT-GGTCAACTTCTTTATCCTTTGTTTACCT-C
1 CTTTTATCTTTTGTTGACTCATCGGTCCAATC-TCGATCAACTTCTTTATCCTTTGTTTACCTGC
* ** * * * * * * *
670185 CTAATCTAGTCTGGAGTAAATCCTTTA-TCCTTTGTTGACTTATTGGTTTAATCTCGGTCAACTT
65 C-AACCTAGTCCCGAGAAAATCCTTTATTCC-TCGATGACCTATTAGTTTAATCCCGATCAACTT
* *
670249 TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCT-TTTTATATTTTATTGACTTGTT
128 TTTATCCTTCATTCACCTGTCGGCTTGGTCCCAGGTA-TTCTCTTTTATATTATATTGACTT-TT
* *
670313 -GGTCCAATCCTGGTCAACTTCTTTATCCCTTGTTTACCTGTTGACTTAGTCTCAAATAAAT
191 CGGTACAATCCTAGTCAACTTCTTTATCCCTTGTTTACCTGTTGACTTAGTCTCAAATAAAT
* *
670374 CTTTTATCTTTTGTTGACTCGTCGGTCCAATCTCGATCAACTTTTTTATCCTTTGTTTACCTGCC
1 CTTTTATCTTTTGTTGACTCATCGGTCCAATCTCGATCAACTTCTTTATCCTTTGTTTACCTGCC
* *
670439 AGCCTAGTCCCGAGAAAATCCTTTATTCCTCGATGACCTGTTAGTTTAATCCCGATCAACTTTTT
66 AACCTAGTCCCGAGAAAATCCTTTATTCCTCGATGACCTATTAGTTTAATCCCGATCAACTTTTT
* * * * *
670504 ATCCTTTATTCCCCTGTCGGCTTGGTCCCAGGTATTTTCTTTTATCTTATGTTGACTTTTCGGTA
131 ATCCTTCATTCACCTGTCGGCTTGGTCCCAGGTATTCTCTTTTATATTATATTGACTTTTCGGTA
* * *
670569 TAGTCCTAGTCAACTTCTTTATCCTTTGTTTACC
196 CAATCCTAGTCAACTTCTTTATCCCTTGTTTACC
670603 CATCGGCCCA
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
251 6 0.03
252 185 0.94
253 5 0.03
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (252 bp):
CTTTTATCTTTTGTTGACTCATCGGTCCAATCTCGATCAACTTCTTTATCCTTTGTTTACCTGCC
AACCTAGTCCCGAGAAAATCCTTTATTCCTCGATGACCTATTAGTTTAATCCCGATCAACTTTTT
ATCCTTCATTCACCTGTCGGCTTGGTCCCAGGTATTCTCTTTTATATTATATTGACTTTTCGGTA
CAATCCTAGTCAACTTCTTTATCCCTTGTTTACCTGTTGACTTAGTCTCAAATAAAT
Found at i:670389 original size:168 final size:166
Alignment explanation
Indices: 669913--670426 Score: 598
Period size: 168 Copynumber: 3.1 Consensus size: 166
669903 TCGACCAACC
* * * *
669913 TTTATCCTTCATTCACTAGTCGGCTTGGTCCTAGGCACTTCTTTCTATCTTTTGTTGACTTGTCG
1 TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* * * * * * * * * *
669978 ATCCAAT-CTCAGTCAACTTTTTTATCCTTTGTTTACTTGCCAGCCTAATTTTGGGTAAATCTTT
66 GTCCAATCCT-GGTCAACTTCTTTATCCTTTGTTTACCTG-TA-CTTAGTCTCGAGTAAATCTTT
** *
670042 TATCCTTCATTGACTTGTCGGTTTAATCTCGGTCAACAT
128 TATCCTTTGTTGACTTGTCGGTTTAATCTCGGTCAACTT
* * * *
670081 TTTATCCTTCATTCCCCTGTCGGCTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTATCG
1 TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* * * * *
670146 GTCCAATCATGGTCAACTTCTTTATCCTTTGTTTACCTCCTAATCTAGTCTGGAGTAAATCCTTT
66 GTCCAATCCTGGTCAACTTCTTTATCCTTTGTTTACCT-GTACT-TAGTCTCGAGTAAATCTTTT
* *
670211 ATCCTTTGTTGACTTATTGGTTTAATCTCGGTCAACTT
129 ATCCTTTGTTGACTTGTCGGTTTAATCTCGGTCAACTT
* * *
670249 TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCTTTTTATATTTTATTGACTTGTTG
1 TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
* * *
670314 GTCCAATCCTGGTCAACTTCTTTATCCCTTGTTTACCTGTTGACTTAGTCTCAAATAAATCTTTT
66 GTCCAATCCTGGTCAACTTCTTTATCCTTTGTTTACCTG-T-ACTTAGTCTCGAGTAAATCTTTT
* * ** *
670379 ATCTTTTGTTGACTCGTCGGTCCAATCTCGATCAACTTT
129 ATCCTTTGTTGACTTGTCGGTTTAATCTCGGTCAAC-TT
670418 TTTATCCTT
1 TTTATCCTT
670427 TGTTTACCTG
Statistics
Matches: 291, Mismatches: 49, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
168 277 0.95
169 14 0.05
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (166 bp):
TTTATCCTTCATTCACTTGTCGGCTTGGTCCCAGGTACTTCTTTTTATCTTTTGTTGACTTGTCG
GTCCAATCCTGGTCAACTTCTTTATCCTTTGTTTACCTGTACTTAGTCTCGAGTAAATCTTTTAT
CCTTTGTTGACTTGTCGGTTTAATCTCGGTCAACTT
Found at i:670669 original size:15 final size:15
Alignment explanation
Indices: 670649--670678 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
670639 TTGACTTGTC
670649 GATTTAATCCTGGAT
1 GATTTAATCCTGGAT
670664 GATTTAATCCTGGAT
1 GATTTAATCCTGGAT
670679 AACTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
GATTTAATCCTGGAT
Found at i:672531 original size:163 final size:159
Alignment explanation
Indices: 672109--672574 Score: 512
Period size: 161 Copynumber: 2.9 Consensus size: 159
672099 ATTACGGGAT
* * * *
672109 TTTTCTACTCCGTAAATTTGTTCGGTAAGATTTTTCTTAATTTTTATTTTTAAAATTCATCAAAT
1 TTTTCTACTCCGTAAATTTTTTC-G-AAGATTTTTCTTAGTTTTAATTTTTAAAATTCATCAAAC
* * * *
672174 ACCATTATTTATTCCATATTAACTCATTTTTCAAAAATTCATTCA-TTTCATTCA-TTTTT-ATT
64 ATCATTATTTATT-CATATT-ATTCAATTTTCAAAAATTCATTCATTTTCA-TGAGTTTTTGATT
* * *
672236 TTTTCCTTGAAACTTTTTTTTCTGAAATACGGTG
126 TTTTCCTTGAAACTTCTTTTCCTGAAATACGGTA
* * *
672270 TTTTCTACTTCGTAAATTGTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT-AAA
1 TTTTCTACTCCGTAAATTTTTTCGAA--GATTTTTCTTAG-TTTTAATTTTTAAAATTCATCAAA
* * * *
672334 CATTATTATTTATTTCCTATTGATTCAATTTTCAAAAATTCATTTATTTTTATGAGTTTTTGATT
63 CATCATTATTTA-TTCATATT-ATTCAATTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATT
672399 TTTTCCTTGAAACTTCCCTTTTCCT-AAATACGGTA
126 TTTTCCTTGAAACTT--CTTTTCCTGAAATACGGTA
* * *
672434 TTTTCTACTCCTTAAATTTTTTCG-AGATTTTTTCTCAGTTTTCAATTTTTAGAATTCATCAAAC
1 TTTTCTACTCCGTAAATTTTTTCGAAGA-TTTTTCTTAGTTTT-AATTTTTAAAATTCATCAAAC
* * *
672498 ATCATCATTTGATTCATATTATTTCAGTTTTCAAAAATTCAATCATTTTCATGAGTTTTTGAATT
64 ATCATTATTT-ATTCATATTA-TTCAATTTTCAAAAATTCATTCATTTTCATGAGTTTTTG-ATT
*
672563 TTTTCTTTGAAA
126 TTTTCCTTGAAA
672575 TCCCTATTTT
Statistics
Matches: 257, Mismatches: 33, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
159 2 0.01
160 1 0.00
161 76 0.30
162 54 0.21
163 73 0.28
164 45 0.18
165 6 0.02
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.52
Consensus pattern (159 bp):
TTTTCTACTCCGTAAATTTTTTCGAAGATTTTTCTTAGTTTTAATTTTTAAAATTCATCAAACAT
CATTATTTATTCATATTATTCAATTTTCAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTC
CTTGAAACTTCTTTTCCTGAAATACGGTA
Found at i:674984 original size:312 final size:309
Alignment explanation
Indices: 674168--675334 Score: 1068
Period size: 312 Copynumber: 3.7 Consensus size: 309
674158 ACCTCTTCTA
* * * * * * * *
674168 TAGTCTTTTTAAATCCTTTAAAGGTACCGGGATACTTTCACGTCGAAGGTAT-CCCTTAAG-TGT
1 TAGTATTTTTAAGTCCTTT-AGGGTAACGGGATACTTTTACATCGAAGGTATACCC-TAAGAGGC
* * *** * * * * **
674231 ATTTTCATAATTTCCTAGAATTGAGTCCTAAGTTGTCACCGGGTTCGCTTTTATGCTGAAGGTGG
64 ATTTTCGTAATTT-TTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCAAAGGTGG
* * * * *
674296 ACATTTAGGAAAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGAGATACTTT
128 GCATTTAGGATAGGTTCATCCCTTTTCTAGCCTTTTTAGGTCCTTTAGGGTTGCCGAGGTACTTT
* * * ** * * **
674361 TACGTCAAAGGTATACACCTCTAGGGGCATTTTCATAATTT-TTAGAACCAACTCCCAGGTTGTC
193 TACGTCGAAGGTATAC-CC-ATAAGGGCATTTTCATAATTTCTTAGAACTGAGTCCTAGGTCATC
* * * * *
674425 ACCAGGTCCGCTTTTATGCAAAAAGTGGACATTTAGGATAGGTTCACCCCTTTTA
256 ACCAGGTCCACTTTTATGC-CAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTC
** * * * **
674480 TAGTCCTTTTAAGTCCTTTAGGGTTTATGGGGTACTTTTACGCCGAAGGTATA-CCTATAGAGGC
1 TAGTATTTTTAAGTCCTTTAGGG-TAACGGGATACTTTTACATCGAAGGTATACCCTA-AGAGGC
* * * * * * * *
674544 ATTTTCGTAATTTCTTAGAATCGAGTCCTAAGTTGTCACCGAGTCCACTTTTATGTCGAAA-GTG
64 ATTTTCGTAATTT-TTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATG-CCAAAGGTG
* * * *
674608 GGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCATTTATGGTTGCCGGGGTACTT
127 GGCATTTAGGATAGGTTCATCCCTTTTCTAGCCTTTTTAGGTCCTTTAGGGTTGCCGAGGTACTT
* * * *
674673 TTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTCTTAAAACTGAGTCATAGGTCATCA
192 TTACGTCGAAGGTATACCCATAAGGGCATTTTCATAATTTCTTAGAACTGAGTCCTAGGTCATCA
* * * * *
674738 TCGGGTCTACTTTTATGCCGAAGGTGGGCATTTCA-GATAGGTTCATCACCATTTC
257 CCAGGTCCACTTTTATGCC-AAAGTGGGCATTT-AGGATAGGTTCATC-CCTTTTC
* ** ** * *
674793 TAGTATTTTTAAGTCCTTCAGGGTCCCCGATATACTTTTACATCAAAAGTATACCCTTAAG-GGC
1 TAGTATTTTTAAGTCCTTTAGGGT-AACGGGATACTTTTACATCGAAGGTATACCC-TAAGAGGC
* * *
674857 ATTTTTGTAATTTTTAGAACCAACTCTTAGGTCGTCACCGGGTCCGTTTTTATGCCAAAGGTGGG
64 ATTTTCGTAATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCAAAGGTGGG
* * * **
674922 CATTTAAGATCGGTTCATCCTTTTTCTAGCCTTTTTAGGTCCTTTAGGGTTGCAAAGGTACTTTT
129 CATTTAGGATAGGTTCATCCCTTTTCTAGCCTTTTTAGGTCCTTTAGGGTTGCCGAGGTACTTTT
* * **
674987 ACGTCGAAGGTATACCTATAAGGGCATTTTCATAATTTCCTAGAA-TCGAGTCCTAGGTCATTGC
194 ACGTCGAAGGTATACCCATAAGGGCATTTTCATAATTTCTTAGAACT-GAGTCCTAGGTCATCAC
****
675051 CAGGTCCACTTTTATGCCAACAACAAGCATTTAGGATAGGTTCAT-CCTTTTC
258 CAGGTCCACTTTTATGCCAA-AGTGGGCATTTAGGATAGGTTCATCCCTTTTC
** * * * * * *
675103 -AAAACCCTTTTCAAATCCTTTAGGGGTATCGGGATACTTTCACATTGAAGGTATCCCCT-AGAG
1 TAGTA---TTTTTAAGTCCTTTA-GGGTAACGGGATACTTTTACATCGAAGGTATACCCTAAGAG
* * * * *
675166 GCACTTTCGTAATTTTTTAAAACCAACTCCTAGGTCGTCATCGGGTCCGCTTTTATGTCGAAGGT
62 GCATTTTCGTAA-TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCAAAGGT
* *
675231 GGGCATTTAGGATAGGTTCATCCCATTTCTATCCTTTTTAGGTCCTTTATGGGTAT--C-AGGTA
126 GGGCATTTAGGATAGGTTCATCCCTTTTCTAGCCTTTTTAGGTCCTTTA-GGGT-TGCCGAGGTA
*
675293 CTTTTACGTCGAAGGTAT-CCCCTAAGGGCATTTTCATAATTT
189 CTTTTACGTCGAAGGTATACCCATAAGGGCATTTTCATAATTT
675335 TTCTTAAACT
Statistics
Matches: 704, Mismatches: 127, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
309 2 0.00
310 30 0.04
311 67 0.10
312 401 0.57
313 194 0.28
314 8 0.01
315 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (309 bp):
TAGTATTTTTAAGTCCTTTAGGGTAACGGGATACTTTTACATCGAAGGTATACCCTAAGAGGCAT
TTTCGTAATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCAAAGGTGGGCA
TTTAGGATAGGTTCATCCCTTTTCTAGCCTTTTTAGGTCCTTTAGGGTTGCCGAGGTACTTTTAC
GTCGAAGGTATACCCATAAGGGCATTTTCATAATTTCTTAGAACTGAGTCCTAGGTCATCACCAG
GTCCACTTTTATGCCAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTC
Found at i:675060 original size:468 final size:468
Alignment explanation
Indices: 674172--675336 Score: 1246
Period size: 468 Copynumber: 2.5 Consensus size: 468
674162 CTTCTATAGT
* * ** * * * *
674172 CTTTTTAAATCCTTTAAAGGTACCGGGATACTTTCACGTCGAAGGTATCCCTTAAGTGTATTTTC
1 CTTTTCAAATCATTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCATTTTC
* * * * * * * * *
674237 ATAATTTCCTAGAATTGAGTCCTAAGTTGTCACCGGGT-TCGCTTTTATGCTGAAGGTGGACATT
66 GTAATTTCTTAAAACTGAGTCCTAGGTCGTCATCGGGTCT-GCTTTTATGCCGAAGGTGGGCATT
* * * * * * *
674301 TAGGAAAGGTTCATCCCTTTTCTAGTCTTTTTAGGTCCTTTAGGGTTACCGAGATACTTTTACGT
130 TAGGATAGGTTCATCCCATTTCTAGTATTTTTAAGTCCTTCAGGGTCACCGAGATACTTTTACAT
* * *
674366 CAAAGGTATACACCTCTAGGGGCATTTTCATAATTTTTAGAACCAACTCCCAGGTTGTCACCAGG
195 CAAAAGTATACACCTCTAAGGGCATTTTCATAATTTTTAGAACCAACTCCCAGGTCGTCACCAGG
*
674431 TCCGCTTTTATGCAAAAAGTGGACATTTAGGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCC
260 TCCGCTTTTATGCAAAAAGTGGACATTTAAGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCC
* ** * *
674496 TTTAGGGTTTATGGGGTACTTTTACGCCGAAGGTATACCTATAGAGGCATTTTCGTAATTTCTTA
325 TTTAGGGTTCATAAGGTACTTTTACGCCGAAGGTATACCTATAGAGGCATTTTCATAATTTCCTA
** * ****
674561 GAATCGAGTCCTAAGTTGTCACCGAGTCCACTTTTATGTCGAA-AGTGGGCATTTAGGATAGGTT
390 GAATCGAGTCCTAAGTCATCACCGAGTCCACTTTTATG-CCAACAACAAGCATTTAGGATAGGTT
* **
674625 CATCCCTTTTC-TAGT
454 CAT-CCTTTTCAAACC
* ** * * * * *
674640 CTTTTTAGGTCATTTATGGTTGCCGGGGTACTTTTACGTCGAAGGTATACCCATAGGGGCATTTT
1 CTTTTCAAATCATTTAGGGGTACCGGGATACTTTCACGTCGAAGGTAT-CCCATAGGGGCATTTT
* * *
674705 CGTAATTTCTTAAAACTGAGTCATAGGTCATCATCGGGTCTACTTTTATGCCGAAGGTGGGCATT
65 CGTAATTTCTTAAAACTGAGTCCTAGGTCGTCATCGGGTCTGCTTTTATGCCGAAGGTGGGCATT
* *
674770 TCA-GATAGGTTCATCACCATTTCTAGTATTTTTAAGTCCTTCAGGGTCCCCGATATACTTTTAC
130 T-AGGATAGGTTCATC-CCATTTCTAGTATTTTTAAGTCCTTCAGGGTCACCGAGATACTTTTAC
** ** *
674834 ATCAAAAGTATAC-CCT-TAAGGGCATTTTTGTAATTTTTAGAACCAACTCTTAGGTCGTCACCG
193 ATCAAAAGTATACACCTCTAAGGGCATTTTCATAATTTTTAGAACCAACTCCCAGGTCGTCACCA
* * * * * * * * *
674897 GGTCCGTTTTTATGCCAAAGGTGGGCATTTAAGATCGGTTCATCCTTTTTCTAG-CCTTTTTAGG
258 GGTCCGCTTTTATGCAAAAAGTGGACATTTAAGATAGGTTCACCCCTTTTATAGTCC-TTTTAAG
*
674961 TCCTTTAGGGTTGCA-AAGGTACTTTTACGTCGAAGGTATACCTATA-AGGGCATTTTCATAATT
322 TCCTTTAGGGTT-CATAAGGTACTTTTACGCCGAAGGTATACCTATAGA-GGCATTTTCATAATT
* **
675024 TCCTAGAATCGAGTCCTAGGTCATTGCC-AGGTCCACTTTTATGCCAACAACAAGCATTTAGGAT
385 TCCTAGAATCGAGTCCTAAGTCATCACCGA-GTCCACTTTTATGCCAACAACAAGCATTTAGGAT
675088 AGGTTCATCCTTTTCAAAACC
449 AGGTTCATCCTTTTC-AAACC
* * * * * * *
675109 CTTTTCAAATCCTTTAGGGGTATCGGGATACTTTCACATTGAAGGTATCCCCTAGAGGCACTTTC
1 CTTTTCAAATCATTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCATTTTC
* ** * * *
675174 GTAATTTTTTAAAACCAACTCCTAGGTCGTCATCGGGTCCGCTTTTATGTCGAAGGTGGGCATTT
66 GTAATTTCTTAAAACTGAGTCCTAGGTCGTCATCGGGTCTGCTTTTATGCCGAAGGTGGGCATTT
* * * * * *
675239 AGGATAGGTTCATCCCATTTCTA-TCCTTTTTAGGTCCTTTATGGGT-ATC-AGGTACTTTTACG
131 AGGATAGGTTCATCCCATTTCTAGT-ATTTTTAAGTCCTTCA-GGGTCACCGAGATACTTTTACA
* *
675301 TCGAAGGTAT-C-CC-CTAAGGGCATTTTCATAATTTTT
194 TCAAAAGTATACACCTCTAAGGGCATTTTCATAATTTTT
675337 CTTAAACTTA
Statistics
Matches: 575, Mismatches: 107, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
465 23 0.04
466 19 0.03
467 38 0.07
468 325 0.57
469 116 0.20
470 54 0.09
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (468 bp):
CTTTTCAAATCATTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCATTTTC
GTAATTTCTTAAAACTGAGTCCTAGGTCGTCATCGGGTCTGCTTTTATGCCGAAGGTGGGCATTT
AGGATAGGTTCATCCCATTTCTAGTATTTTTAAGTCCTTCAGGGTCACCGAGATACTTTTACATC
AAAAGTATACACCTCTAAGGGCATTTTCATAATTTTTAGAACCAACTCCCAGGTCGTCACCAGGT
CCGCTTTTATGCAAAAAGTGGACATTTAAGATAGGTTCACCCCTTTTATAGTCCTTTTAAGTCCT
TTAGGGTTCATAAGGTACTTTTACGCCGAAGGTATACCTATAGAGGCATTTTCATAATTTCCTAG
AATCGAGTCCTAAGTCATCACCGAGTCCACTTTTATGCCAACAACAAGCATTTAGGATAGGTTCA
TCCTTTTCAAACC
Found at i:675342 original size:156 final size:155
Alignment explanation
Indices: 674200--675334 Score: 953
Period size: 156 Copynumber: 7.3 Consensus size: 155
674190 GGTACCGGGA
* * * * * ** *
674200 TACTTTCACGTCGAAGGTAT-CCCTTAAGTGTATTTTCATAATTTCCTAGAATTGAGTCCTAAGT
1 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAGGT
* * * *
674264 TGTCACCGGGTTCGCTTTTATGCTGAAGGTGGACATTTAGGAAAGGTTCATCCCTTTTCTAGT-C
66 CGTCACCGGGTCCGCTTTTATGC-GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCC
* *
674328 TTTTTAGGTCCTTTAGGGTTACCGAGA
130 TTTTTAGGTCCTTTAGGG-TATCGAGG
* * * * *
674355 TACTTTTACGTCAAAGGTATACACCTCTAGGGGCATTTTCATAATTT-TTAGAACCAACTCCCAG
1 TACTTTTACGTCGAAGGTATAC-CC-CTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAG
* * * * * * *
674419 GTTGTCACCAGGTCCGCTTTTATGCAAAAAGTGGACATTTAGGATAGGTTCACCCCTTTTATAGT
64 GTCGTCACCGGGTCCGCTTTTATGC-GAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGT
* *
674484 CC-TTTTAAGTCCTTTAGGGTTTAT-GGGG
128 CCTTTTTAGGTCCTTTAGGG--TATCGAGG
* * * *
674512 TACTTTTACGCCGAAGGTATA--CCTATAGAGGCATTTTCGTAATTTCTTAGAATCGAGTCCTAA
1 TACTTTTACGTCGAAGGTATACCCCTA-AG-GGCATTTTCATAATTTCTTAGAACCGAGTCCTAG
* * * *
674575 GTTGTCACCGAGTCCACTTTTATGTCGAAAGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGT
64 GTCGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGT
* * *
674640 -CTTTTTAGGTCATTTATGGT-TGCCGGGG
128 CCTTTTTAGGTCCTTTAGGGTAT--CGAGG
* * * * * *
674668 TACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATTTCTTAAAACTGAGTCATAGGT
1 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAGGT
* * ** *
674733 CATCATCGGGTCTACTTTTATGCCGAAGGTGGGCATTTCA-GATAGGTTCATCACCATTTCTAGT
66 CGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGCATTT-AGGATAGGTTCATC-CCTTTTCTAGT
* * * ** **
674797 -ATTTTTAAGTCCTTCAGGGTCCCCGATA
128 CCTTTTTAGGTCCTTTAGGGT-ATCGAGG
* * * * ** * * *
674825 TACTTTTACATCAAAAGTATACCCTTAAGGGCATTTTTGTAATTT-TTAGAACCAACTCTTAGGT
1 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAGGT
* * * * *
674889 CGTCACCGGGTCCGTTTTTATGCCAAAGGTGGGCATTTAAGATCGGTTCATCCTTTTTCTAG-CC
66 CGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCC
*
674953 TTTTTAGGTCCTTTAGGGT-TGCAAAGG
130 TTTTTAGGTCCTTTAGGGTAT-C-GAGG
** * *
674980 TACTTTTACGTCGAAGGTATACCTATAAGGGCATTTTCATAATTTCCTAGAATCGAGTCCTAGGT
1 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAGGT
* ** * * * ***** * **
675045 CATTGCCAGGTCCACTTTTATGCCAACAACAAGCATTTAGGATAGGTTCAT-CCTTTTCAAAACC
66 CGTCACCGGGTCCGCTTTTATGCGAA-GGTGGGCATTTAGGATAGGTTCATCCCTTTTC-TAGTC
* **
675109 CTTTTCAAATCCTTTAGGGGTATCG-GG
129 CTTTTTAGGTCCTTTA-GGGTATCGAGG
* * * * * * * * *
675136 ATACTTTCACATTGAAGGTAT-CCCCT-AGAGGCACTTTCGTAATTTTTTAAAACCAACTCCTAG
1 -TACTTTTACGTCGAAGGTATACCCCTAAG-GGCATTTTCATAATTTCTTAGAACCGAGTCCTAG
* *
675199 GTCGTCATCGGGTCCGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTA-T
64 GTCGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGT
675263 CCTTTTTAGGTCCTTTATGGGTATC-AGG
128 CCTTTTTAGGTCCTTTA-GGGTATCGAGG
675291 TACTTTTACGTCGAAGGTAT-CCCCTAAGGGCATTTTCATAATTT
1 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTT
675335 TTCTTAAACT
Statistics
Matches: 779, Mismatches: 166, Indels: 71
0.77 0.16 0.07
Matches are distributed among these distances:
153 4 0.01
154 40 0.05
155 135 0.17
156 355 0.46
157 215 0.28
158 29 0.04
159 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (155 bp):
TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTCTTAGAACCGAGTCCTAGGT
CGTCACCGGGTCCGCTTTTATGCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCCT
TTTTAGGTCCTTTAGGGTATCGAGG
Found at i:678411 original size:241 final size:241
Alignment explanation
Indices: 677975--678464 Score: 930
Period size: 241 Copynumber: 2.0 Consensus size: 241
677965 TTCTCGATAT
677975 GATGCATTTTAACCATTACAACATTTGTTCTGTATTTCCCTTTAATTTCTTGGATATTTACAAGG
1 GATGCATTTTAACCATTACAACATTTGTTCTGTATTTCCCTTTAATTTCTTGGATATTTACAAGG
678040 CCAACTAACTTCTTTCAAGTTTCCCTTTTCTTTTTTTATAGGAAACTAAGATTGCAATAGAATGT
66 CCAACTAACTTCTTTCAAGTTTCCCTTTTCTTTTTTTATAGGAAACTAAGATTGCAATAGAATGT
*
678105 TGCTATAAACTAAGTTAACTTTAACCGAAGCACCCTTCTAAGTGAGAGAAAGAAAAAAGTTTCCT
131 TGCTATAAACTAAGTTAACTTTAACCGAAGCACCCTTCTAAGTGAAAGAAAGAAAAAAGTTTCCT
*
678170 CTTCCTATCCTATACTACTAACTGTAAGCCTTTGCTAATTTAAGCA
196 CTTCCTATCCTATACTACTAACGGTAAGCCTTTGCTAATTTAAGCA
*
678216 -ATGCATTTTAACTATTACAACATTTGTTCTGTATTTCCCTTTAATTTCTTGGATATTTACAAGG
1 GATGCATTTTAACCATTACAACATTTGTTCTGTATTTCCCTTTAATTTCTTGGATATTTACAAGG
678280 CCAACTAACTTCTTTCAAGTTTCCCTTTTCTTTTTTTTATAGGAAACTAAGATTGCAATAGAATG
66 CCAACTAACTTCTTTCAAGTTTCCCTTTTC-TTTTTTTATAGGAAACTAAGATTGCAATAGAATG
678345 TTGCTATAAACTAAGTTAACTTTAACCGAAGCACCCTTCTAAGTGAAAGAAAGAAAAAAGTTTCC
130 TTGCTATAAACTAAGTTAACTTTAACCGAAGCACCCTTCTAAGTGAAAGAAAGAAAAAAGTTTCC
678410 TCTTCCTATCCTATACTACTAACGGTAAGCCTTTGCTAATTTAAGCA
195 TCTTCCTATCCTATACTACTAACGGTAAGCCTTTGCTAATTTAAGCA
678457 GA-GCATTT
1 GATGCATTT
678465 AGCTAGGCTA
Statistics
Matches: 244, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
240 93 0.38
241 150 0.61
242 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (241 bp):
GATGCATTTTAACCATTACAACATTTGTTCTGTATTTCCCTTTAATTTCTTGGATATTTACAAGG
CCAACTAACTTCTTTCAAGTTTCCCTTTTCTTTTTTTATAGGAAACTAAGATTGCAATAGAATGT
TGCTATAAACTAAGTTAACTTTAACCGAAGCACCCTTCTAAGTGAAAGAAAGAAAAAAGTTTCCT
CTTCCTATCCTATACTACTAACGGTAAGCCTTTGCTAATTTAAGCA
Found at i:680086 original size:27 final size:27
Alignment explanation
Indices: 680056--680126 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
680046 TATTTTGGTT
*
680056 TGATATAGAGTTTTTATTTTATTAGGC
1 TGATACAGAGTTTTTATTTTATTAGGC
* *
680083 TGATACAGAGTTTTTATTTTGTTGGGC
1 TGATACAGAGTTTTTATTTTATTAGGC
* *
680110 TGGTGCAGAGTTTTTAT
1 TGATACAGAGTTTTTAT
680127 CGGGCATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.49
Consensus pattern (27 bp):
TGATACAGAGTTTTTATTTTATTAGGC
Found at i:681705 original size:21 final size:21
Alignment explanation
Indices: 681671--681747 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
681661 ATACAAGTGA
* *
681671 AAATATATCGATACATTATGT
1 AAATGTATCAATACATTATGT
* *
681692 AAATGTATTAATACATCATGT
1 AAATGTATCAATACATTATGT
*
681713 --ATGGTATCGATACATTATGT
1 AAAT-GTATCAATACATTATGT
681733 AAATGTATCAATACA
1 AAATGTATCAATACA
681748 ACACGTATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (21 bp):
AAATGTATCAATACATTATGT
Found at i:681721 original size:41 final size:41
Alignment explanation
Indices: 681676--681769 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
681666 AGTGAAAATA
* * *
681676 TATCGATACATTATGTAAATGTATTAATACATCATGTATGG
1 TATCGATACATTATGTAAATGTATCAATACAACACGTATGG
*
681717 TATCGATACATTATGTAAATGTATCAATACAACACGTATTG
1 TATCGATACATTATGTAAATGTATCAATACAACACGTATGG
681758 TATCGATACATT
1 TATCGATACATT
681770 TCATTGGCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (41 bp):
TATCGATACATTATGTAAATGTATCAATACAACACGTATGG
Found at i:681725 original size:20 final size:19
Alignment explanation
Indices: 681676--681768 Score: 69
Period size: 21 Copynumber: 4.6 Consensus size: 19
681666 AGTGAAAATA
*
681676 TATCGATACATTATGTAAATG
1 TATCGATACATCATGT--ATG
**
681697 TATTAATACATCATGTATGG
1 TATCGATACATCATGTAT-G
*
681717 TATCGATACATTATGTAAATG
1 TATCGATACATCATGT--ATG
* * *
681738 TATCAATACAACACGTATTG
1 TATCGATACATCATGTA-TG
681758 TATCGATACAT
1 TATCGATACAT
681769 TTCATTGGCA
Statistics
Matches: 56, Mismatches: 12, Indels: 9
0.73 0.16 0.12
Matches are distributed among these distances:
19 3 0.05
20 25 0.45
21 26 0.46
22 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
TATCGATACATCATGTATG
Found at i:681848 original size:20 final size:21
Alignment explanation
Indices: 681824--681879 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
681814 GATACACATG
*
681824 TAAATGTATCAATACAATTCA
1 TAAATGTATCAATACAATCCA
*
681845 -AAATATATCAATAC-ATCCA
1 TAAATGTATCAATACAATCCA
*
681864 TAAATGTATCGATACA
1 TAAATGTATCAATACA
681880 CTGAATTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAATGTATCAATACAATCCA
Found at i:686198 original size:21 final size:21
Alignment explanation
Indices: 686172--686242 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
686162 GATTATTTTT
*
686172 AATTTAAATTAATGAAA-TAAA
1 AATTTAAATT-ATCAAATTAAA
*
686193 AATTTAAA-TATTAAATTAAAA
1 AATTTAAATTATCAAATT-AAA
*
686214 AATTTCAATTATCAAATTAAA
1 AATTTAAATTATCAAATTAAA
686235 AA-TTAAAT
1 AATTTAAAT
686243 AAAATTATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.12
20 7 0.16
21 23 0.53
22 8 0.19
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (21 bp):
AATTTAAATTATCAAATTAAA
Found at i:688889 original size:21 final size:20
Alignment explanation
Indices: 688849--688889 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
688839 TTGATATCTG
688849 AAGTCATCAAATTTATTTAT
1 AAGTCATCAAATTTATTTAT
688869 AAGT-ATCTAAATTTAATTTAT
1 AAGTCATC-AAATTT-ATTTAT
688890 TATATGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (20 bp):
AAGTCATCAAATTTATTTAT
Found at i:689279 original size:17 final size:16
Alignment explanation
Indices: 689249--689292 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
689239 TAATTTATTT
*
689249 ATTTTTTACTATTATA
1 ATTTTTTATTATTATA
689265 ATTTTTTATTAATTATA
1 ATTTTTTATT-ATTATA
*
689282 TTTATTTTATT
1 ATT-TTTTATT
689293 TAATACTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
17 8 0.33
18 7 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTATTATTATA
Found at i:689295 original size:19 final size:19
Alignment explanation
Indices: 689227--689296 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
689217 AATCAAAAGT
*
689227 TTTATTCTATATTAATT-TA
1 TTTATTTTAT-TTAATTATA
689246 TTTA-TTT-TTTACTATTATA
1 TTTATTTTATTTA--ATTATA
*
689265 ATT-TTTTA-TTAATTATA
1 TTTATTTTATTTAATTATA
689282 TTTATTTTATTTAAT
1 TTTATTTTATTTAAT
689297 ACTTGAGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 3 0.07
17 9 0.22
18 10 0.24
19 19 0.46
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTTATTTAATTATA
Found at i:690038 original size:88 final size:89
Alignment explanation
Indices: 689886--690056 Score: 263
Period size: 88 Copynumber: 1.9 Consensus size: 89
689876 CAAGATAAGC
*
689886 TAATCACTAAAACTGTACAAATAATTTAATCAATAAATAAATTTAATTTAAACGAATGAGATTCA
1 TAATCACTAAAACTATACAAATAATTTAATCAATAAATAAATTTAATTTAAACGAATGAGATTCA
689951 -ATCTAAGCCCGAAAAAAAAATTT
66 TATCTAAGCCCGAAAAAAAAATTT
* * * **
689974 TAATCATTAAAACTATATAAATAATTTAATCAATAAATAAATTTAATTTAAACGGATGCTATTCA
1 TAATCACTAAAACTATACAAATAATTTAATCAATAAATAAATTTAATTTAAACGAATGAGATTCA
* *
690039 TATCTAAGCTCGAGAAAA
66 TATCTAAGCCCGAAAAAA
690057 TTTTTTCTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 59 0.80
89 15 0.20
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (89 bp):
TAATCACTAAAACTATACAAATAATTTAATCAATAAATAAATTTAATTTAAACGAATGAGATTCA
TATCTAAGCCCGAAAAAAAAATTT
Found at i:697416 original size:69 final size:66
Alignment explanation
Indices: 697328--697497 Score: 241
Period size: 69 Copynumber: 2.5 Consensus size: 66
697318 TCGACTAGCA
* * * *
697328 TTCTTCAACTGCATGAAGATCATTCTGGATTTTGTAGGATAGATTTGAGATTTATTTCTACTAGG
1 TTCTTGAATTGCATGAAGATCATTATGGATGTTGTAGGATAGATTTGAGATTTATTTCTACTAGG
697393 G
66 G
* * *
697394 TTCTTCTTGAATTGCATGAAGATCGTTTTGGATGTTGTAGGATAGATTTGAGATTTATTTCTGCT
1 ---TTCTTGAATTGCATGAAGATCATTATGGATGTTGTAGGATAGATTTGAGATTTATTTCTACT
697459 AGGG
63 AGGG
697463 TTCTTGAATTGCATGAAAGATCATTATGGATGTTG
1 TTCTTGAATTGCATG-AAGATCATTATGGATGTTG
697498 GATACTCCTG
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 15 0.16
67 17 0.18
69 60 0.65
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.42
Consensus pattern (66 bp):
TTCTTGAATTGCATGAAGATCATTATGGATGTTGTAGGATAGATTTGAGATTTATTTCTACTAGG
G
Found at i:698224 original size:19 final size:18
Alignment explanation
Indices: 698183--698232 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
698173 ATTTAATTAG
698183 TATTTAATATAAATTTAT
1 TATTTAATATAAATTTAT
*
698201 T-TTTAATATATATTTTAT
1 TATTTAATATA-AATTTAT
698219 TATTTAATATAAAT
1 TATTTAATATAAAT
698233 ATTTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.32
18 10 0.36
19 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTAATATAAATTTAT
Found at i:698234 original size:21 final size:20
Alignment explanation
Indices: 698183--698237 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 20
698173 ATTTAATTAG
698183 TATTTAATATAA-A-TTTAT
1 TATTTAATATAATATTTTAT
698201 T-TTTAATAT-ATATTTTAT
1 TATTTAATATAATATTTTAT
698219 TATTTAATATAAATATTTT
1 TATTTAATAT-AATATTTT
698238 TGATTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 7 0.22
19 8 0.25
21 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTAATATAATATTTTAT
Found at i:698931 original size:17 final size:17
Alignment explanation
Indices: 698880--698935 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
698870 AATTATTACA
*
698880 TAATATAAATATAATTT
1 TAATATAATTATAATTT
* * * *
698897 T-ATTTATGTTTTATTTT
1 TAATATA-ATTATAATTT
698914 TAATATAATTATAATTT
1 TAATATAATTATAATTT
698931 TAATA
1 TAATA
698936 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
16 4 0.14
17 20 0.71
18 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATATAATTATAATTT
Found at i:698947 original size:29 final size:30
Alignment explanation
Indices: 698800--698966 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 30
698790 AAAAATCAAC
*
698800 AAATATAATTTTAATAATT-TGTT-AATAT
1 AAATATAATTTTAATAATTATTTTAAATAT
*
698828 AAATATAA--TTAATAATTATTACTAAATAT
1 AAATATAATTTTAATAATTATT-TTAAATAT
**
698857 AAATATAATTTT--TAATTATTACATAATAT
1 AAATATAATTTTAATAATTATTTTA-AATAT
** *
698886 AAATATAATTTTATTTATGTTTTATTTTTAATAT
1 AAATATAATTTTA---AT-AATTATTTTAAATAT
*
698920 AATTATAATTTTAATAATT-TTTTAAATAT
1 AAATATAATTTTAATAATTATTTTAAATAT
*
698949 ACATAT-ATTTTAATAATT
1 AAATATAATTTTAATAATT
698967 TTTAATTATT
Statistics
Matches: 112, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
26 9 0.08
27 1 0.01
28 22 0.20
29 51 0.46
30 2 0.02
31 4 0.04
34 18 0.16
35 5 0.04
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATATAATTTTAATAATTATTTTAAATAT
Found at i:699056 original size:100 final size:99
Alignment explanation
Indices: 698816--699035 Score: 242
Period size: 100 Copynumber: 2.3 Consensus size: 99
698806 AATTTTAATA
* **
698816 ATTTGTTAATATAAATATAA--TTAATAATTA-TTACTA-A-ATATA-AAT-ATAATTTTTAATT
1 ATTT-TTAATATAAATATAATGTTAATAATTATTTAATATACATATATTTTAATAATTTTTAATT
* * *
698874 ATTACATAATATAAATATAATTTTATTTATGTTTT
65 ATTACATAAGATAAATATAACTTTATTTATATTTT
* * *
698909 ATTTTTAATATAATTATAATTTTAATAATTTTTTAAATATACATATATTTTAATAATTTTTAATT
1 ATTTTTAATATAAATATAATGTTAATAATTATTT-AATATACATATATTTTAATAATTTTTAATT
*
698974 ATTA-TTCAAGATAAATAT-ACTTTATTTATATTTT
65 ATTACAT-AAGATAAATATAACTTTATTTATATTTT
699008 ATTGTTTAATATAAATATAAGTGTTAAT
1 ATT-TTTAATATAAATATAA-TGTTAAT
699036 GTTAATTATT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
92 14 0.13
93 4 0.04
94 9 0.09
95 2 0.02
96 3 0.03
97 1 0.01
98 5 0.05
99 19 0.18
100 42 0.40
101 6 0.06
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (99 bp):
ATTTTTAATATAAATATAATGTTAATAATTATTTAATATACATATATTTTAATAATTTTTAATTA
TTACATAAGATAAATATAACTTTATTTATATTTT
Found at i:699188 original size:25 final size:26
Alignment explanation
Indices: 699145--699196 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
699135 ATATTTTATT
699145 ATTAATTTTAATTTATTAT-TATAATA
1 ATTAATTTTAATTTATTATGTA-AATA
699171 ATTAATTTT-A-TTATTTATGTAAATA
1 ATTAATTTTAATTTA-TTATGTAAATA
699196 A
1 A
699197 ATTTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 3 0.12
25 10 0.42
26 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTAATTTTAATTTATTATGTAAATA
Found at i:699201 original size:21 final size:21
Alignment explanation
Indices: 699154--699202 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
699144 TATTAATTTT
*
699154 AATTTATTATTATAATAATTA
1 AATTTATTATTATAATAAATA
* *
699175 ATTTTATTATT-TATGTAAATA
1 AATTTATTATTATA-ATAAATA
699196 AATTTAT
1 AATTTAT
699203 AAAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTTATTATTATAATAAATA
Found at i:699787 original size:6 final size:7
Alignment explanation
Indices: 699754--699826 Score: 70
Period size: 6 Copynumber: 11.4 Consensus size: 7
699744 ACAATGTATA
*
699754 ATATTGT
1 ATATTAT
699761 AT-TTAT
1 ATATTAT
*
699767 ATATTTT
1 ATATTAT
*
699774 TTATTAT
1 ATATTAT
699781 A-ATTAT
1 ATATTAT
699787 ATATTA-
1 ATATTAT
699793 ATATTAT
1 ATATTAT
699800 ATATT-T
1 ATATTAT
699806 ATATTA-
1 ATATTAT
699812 ATA--AT
1 ATATTAT
699817 ATATTAT
1 ATATTAT
699824 ATA
1 ATA
699827 AATTCTAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 26 0.48
7 24 0.44
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (7 bp):
ATATTAT
Found at i:699798 original size:13 final size:13
Alignment explanation
Indices: 699752--699826 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
699742 TAACAATGTA
*
699752 TAATATTGTAT-T
1 TAATATTATATAT
* *
699764 TATATATTTTTTAT
1 TA-ATATTATATAT
699778 T-ATAATTATATAT
1 TAAT-ATTATATAT
699791 TAATATTATATAT
1 TAATATTATATAT
* *
699804 TTATATTA-ATAA
1 TAATATTATATAT
699816 T-ATATTATATA
1 TAATATTATATA
699827 AATTCTAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 6 0.12
12 11 0.21
13 31 0.60
14 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (13 bp):
TAATATTATATAT
Found at i:699885 original size:16 final size:16
Alignment explanation
Indices: 699835--699901 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
699825 TAAATTCTAA
699835 TATATTTA-TTTATTT
1 TATATTTATTTTATTT
* **
699850 T-TATTATTTTTTATAA
1 TATATT-TATTTTATTT
699866 TATATTTATTTTATTT
1 TATATTTATTTTATTT
*
699882 TATATTT-TTTATATCT
1 TATATTTATTT-TATTT
699898 TATA
1 TATA
699902 ATTTTATCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
14 4 0.10
15 5 0.12
16 28 0.68
17 4 0.10
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (16 bp):
TATATTTATTTTATTT
Found at i:699903 original size:37 final size:31
Alignment explanation
Indices: 699832--699894 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
699822 ATATAAATTC
699832 TAATATATTTATTTATTTTTATTATTTTTTA
1 TAATATATTTATTTATTTTTATTATTTTTTA
699863 TAATATATTTATTT-TATTTTA-TATTTTTTA
1 TAATATATTTATTTAT-TTTTATTATTTTTTA
699893 TA
1 TA
699895 TCTTATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (31 bp):
TAATATATTTATTTATTTTTATTATTTTTTA
Found at i:711161 original size:52 final size:52
Alignment explanation
Indices: 711031--711199 Score: 157
Period size: 52 Copynumber: 3.2 Consensus size: 52
711021 AATAACGAGG
* * * * * *
711031 TTGGAGTATCCTCGATTGT-GAAAAATTGGTAATTTTGGAAATAAAATC-GAA
1 TTGGAGTATCCCCGATTGTGGAAAAATTAG-AGTTTTGAAAATAAAACCGGGA
** *
711082 GTTGGAGTATCCCCGATTAAAGG-AAAATTAGCGTTTTGAAAATAAAACCGGGA
1 -TTGGAGTATCCCCGATT-GTGGAAAAATTAGAGTTTTGAAAATAAAACCGGGA
* ** *
711135 TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAAACCGGGG
1 TTGGAGTATCCCCGATTGTGGAAAAATTAGAGTTTTGA-AAATAAAACCGGGA
711187 TTGGAGTATCCCC
1 TTGGAGTATCCCC
711200 TCGAAAATAA
Statistics
Matches: 97, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
51 3 0.03
52 84 0.87
53 9 0.09
54 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
TTGGAGTATCCCCGATTGTGGAAAAATTAGAGTTTTGAAAATAAAACCGGGA
Found at i:711245 original size:27 final size:27
Alignment explanation
Indices: 711173--711257 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
711163 AGTGTTTTAG
*
711173 CGATAAA-ACCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
711200 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
711227 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
711254 CGAT
1 CGAT
711258 TGTGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 31 0.60
28 18 0.35
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:711271 original size:212 final size:212
Alignment explanation
Indices: 710965--711368 Score: 616
Period size: 212 Copynumber: 1.9 Consensus size: 212
710955 GAAGAAAAAA
* * *
710965 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTAGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAG
* *
711030 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-ATTTTGGAAATAAAATCGAAGTTGGAGTATCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATATTTTGGAAATAAAATCGAAGTTAGAGTATCC
* *
711094 CCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGTGGAA
131 CCGATTAAA-GAAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCAATTGTGGAA
711158 AAATTAGTGTTTTAGCGAT
194 AAATTAGTGTTTTAGCGAT
* * * *
711177 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAG
* *
711241 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTATATTTTGGAAATAAAATCGAAGTTAGAGTATC
* * *
711306 CCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCAATTGTGGA
130 CCCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTGTGGA
711369 GAATTGAGAA
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 106 0.61
213 38 0.22
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATATTTTGGAAATAAAATCGAAGTTAGAGTATCC
CCGATTAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:713720 original size:13 final size:13
Alignment explanation
Indices: 713702--713727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
713692 ACAAAGATCC
713702 ATGTATCGATACA
1 ATGTATCGATACA
713715 ATGTATCGATACA
1 ATGTATCGATACA
713728 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:713723 original size:33 final size:33
Alignment explanation
Indices: 713681--713747 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
713671 AAAATTTTCA
***
713681 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
713714 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
713747 A
1 A
713748 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:713791 original size:19 final size:18
Alignment explanation
Indices: 713767--713834 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
713757 CAGTAGCTAA
713767 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
713786 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
713801 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
713818 TTATGTATTGATACAAA
1 TTATGTATCGATACAAA
713835 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:713807 original size:13 final size:13
Alignment explanation
Indices: 713789--713813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
713779 ACAATACTTA
713789 TGTATCGATACAT
1 TGTATCGATACAT
713802 TGTATCGATACA
1 TGTATCGATACA
713814 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:713811 original size:32 final size:32
Alignment explanation
Indices: 713770--713832 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
713760 TAGCTAATTA
*
713770 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
713802 TGTATCGATACAAAACTTATGTATTGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
713833 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:713896 original size:21 final size:21
Alignment explanation
Indices: 713870--713925 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
713860 GTTGGGACCC
*
713870 TGTATCGATACATTCCATAAA
1 TGTATCGATACATTCCACAAA
*
713891 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
713912 TGTATCGATACATT
1 TGTATCGATACATT
713926 TGGATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:720682 original size:2 final size:2
Alignment explanation
Indices: 720677--720725 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
720667 AAAAAGTATC
720677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720719 AT AT AT A
1 AT AT AT A
720726 ACAAACAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:720771 original size:19 final size:18
Alignment explanation
Indices: 720747--720786 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
720737 CCGTAAATAT
* *
720747 TGGCAATATTGCTATTACA
1 TGGCAAAATTCCTATTA-A
720766 TGGCAAAATTCCTATTAA
1 TGGCAAAATTCCTATTAA
720784 TGG
1 TGG
720787 GGAATTGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
TGGCAAAATTCCTATTAA
Found at i:721416 original size:3 final size:3
Alignment explanation
Indices: 721404--721433 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
721394 GAAGTTAGTA
721404 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
721434 TTTTATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:723159 original size:18 final size:20
Alignment explanation
Indices: 723136--723291 Score: 93
Period size: 21 Copynumber: 8.0 Consensus size: 20
723126 TATCAACTTC
*
723136 AAAATATAA-AAATTAAT-T
1 AAAATATAATAAAATAATAT
*
723154 AAAATATAATAAAATATTAT
1 AAAATATAATAAAATAATAT
723174 AAAATATAATATAAA-AATAAT
1 AAAATATAATA-AAATAAT-AT
*
723195 AAAATAT-A-AACAT-AT-T
1 AAAATATAATAAAATAATAT
*
723211 AAAATTTATATAAAATAA-ATT
1 AAAATATA-ATAAAATAATA-T
*
723232 AATAATA-AATTAAA-AATAT
1 AA-AATATAATAAAATAATAT
* *
723251 -AATTATAATATAAAT-ATAC
1 AAAATATAATA-AAATAATAT
723270 ATAAATATAATATAAATAATAT
1 A-AAATATAATA-AAATAATAT
723292 TCGTAATTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 34
0.69 0.08 0.22
Matches are distributed among these distances:
16 7 0.07
17 3 0.03
18 18 0.17
19 20 0.19
20 22 0.21
21 30 0.28
22 6 0.06
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATATAATAAAATAATAT
Found at i:723163 original size:11 final size:11
Alignment explanation
Indices: 723144--723263 Score: 76
Period size: 11 Copynumber: 10.8 Consensus size: 11
723134 TCAAAATATA
723144 AAAAT-TAATT
1 AAAATATAATT
723154 AAAATATAA-T
1 AAAATATAATT
*
723164 AAAATATTA-T
1 AAAATATAATT
723174 AAAATATAATAT
1 AAAATATAAT-T
723186 AAAA-ATAA-T
1 AAAATATAATT
723195 AAAATATAAACATATT
1 AAAATAT----A-ATT
*
723211 AAAAT-TTATAT
1 AAAATATAAT-T
723222 AAAATA-AATT
1 AAAATATAATT
723232 AATAATA-AATT
1 AA-AATATAATT
723243 AAAAATATAATT
1 -AAAATATAATT
*
723255 ATAATATAA
1 AAAATATAA
723264 ATATACATAA
Statistics
Matches: 90, Mismatches: 5, Indels: 29
0.73 0.04 0.23
Matches are distributed among these distances:
9 5 0.06
10 30 0.33
11 35 0.39
12 11 0.12
14 1 0.01
15 2 0.02
16 6 0.07
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATATAATT
Found at i:723177 original size:31 final size:31
Alignment explanation
Indices: 723136--723201 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
723126 TATCAACTTC
723136 AAAATA-TA-AAAAT-TAAT-TAAAATATAAT
1 AAAATATTATAAAATATAATATAAAA-ATAAT
723164 AAAATATTATAAAATATAATATAAAAATAAT
1 AAAATATTATAAAATATAATATAAAAATAAT
723195 AAAATAT
1 AAAATAT
723202 AAACATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
28 6 0.18
29 2 0.06
30 5 0.15
31 16 0.47
32 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAATATTATAAAATATAATATAAAAATAAT
Found at i:723245 original size:21 final size:21
Alignment explanation
Indices: 723221--723286 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
723211 AAAATTTATA
723221 TAAAATAAATTAATAATAAAT
1 TAAAATAAATTAATAATAAAT
*
723242 TAAAAATATAATT-ATAATATAAA
1 T-AAAATA-AATTAATAATA-AAT
*
723265 TATACATAAATATAAT-ATAAAT
1 TA-AAATAAAT-TAATAATAAAT
723287 AATATTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
21 1 0.03
22 18 0.50
23 15 0.42
24 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAAATTAATAATAAAT
Found at i:723259 original size:6 final size:5
Alignment explanation
Indices: 723246--723291 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
723236 ATAAATTAAA
723246 AATAT AATTAT AATAT AAATAT ACATA- AATAT AATAT AA-AT AATAT
1 AATAT AA-TAT AATAT -AATAT A-ATAT AATAT AATAT AATAT AATAT
723292 TCGTAATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 7 0.19
5 16 0.44
6 13 0.36
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:723268 original size:11 final size:11
Alignment explanation
Indices: 723155--723287 Score: 91
Period size: 10 Copynumber: 12.5 Consensus size: 11
723145 AAATTAATTA
723155 AAATATAATA-
1 AAATATAATAT
*
723165 AAATATTATA-
1 AAATATAATAT
723175 AAATATAATAT
1 AAATATAATAT
*
723186 AAAAATAATA-
1 AAATATAATAT
*
723196 AAATATAA-AC
1 AAATATAATAT
* *
723206 ATAT-TAAAAT
1 AAATATAATAT
** *
723216 TTATATAAAAT
1 AAATATAATAT
723227 AAAT-TAATAAT
1 AAATATAAT-AT
*
723238 AAATTAAAAATAT
1 AAA-T-ATAATAT
*
723251 AATTATAATAT
1 AAATATAATAT
*
723262 AAATAT-ACAT
1 AAATATAATAT
723272 AAATATAATAT
1 AAATATAATAT
723283 AAATA
1 AAATA
723288 ATATTCGTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
9 4 0.04
10 44 0.45
11 41 0.42
12 2 0.02
13 4 0.04
14 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAATAT
Found at i:723275 original size:27 final size:26
Alignment explanation
Indices: 723137--723288 Score: 101
Period size: 25 Copynumber: 6.1 Consensus size: 26
723127 ATCAACTTCA
* *
723137 AAATATAA-AAAT-TAATTAAAATAT
1 AAATATAATAAATATAAATATAATAT
* *
723161 -AATAAAAT-ATTATAAAATATAATAT
1 AAATATAATAAATAT-AAATATAATAT
* * *
723186 AAAAATAATAAAATATAAACATATTA-
1 AAATATAAT-AAATATAAATATAATAT
*
723212 AAATTTATATAAA-ATAAAT-TAATAAT
1 AAATATA-ATAAATATAAATATAAT-AT
*
723238 AAAT-TAA-AAATATAATTATAATAT
1 AAATATAATAAATATAAATATAATAT
723262 AAATATACATAAATAT-AATATAA-AT
1 AAATATA-ATAAATATAAATATAATAT
723287 AA
1 AA
723289 TATTCGTAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
23 11 0.11
24 16 0.16
25 27 0.27
26 25 0.25
27 16 0.16
28 4 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATATAATAAATATAAATATAATAT
Done.