Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold40
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: 1915636
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 67970 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:590715 original size:178 final size:176
Alignment explanation
Indices: 590436--590813 Score: 460
Period size: 178 Copynumber: 2.1 Consensus size: 176
590426 ATGTGATCTA
* * * *
590436 CTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTAATCCGCTCCACTGCAACTTCAGGGAGA
1 CTCTACTGCAACTTCAGGGAGATAAAATCCATCATTCAATCCGCTCCACTGCAACTTCAGAGAGA
* * * * *
590501 TAGGATTGGTTTCTTCAATCTGCTCTACTACAACTTCAG-GGAGATAAGATTTGCTTTCTTCAGT
66 TAGGACTGGTTACTTCAATCTGCTCCACTACAACTTCAGAGG-GATAAGACTTGCTTTCTTCAAT
* *
590565 CTGCTCCACTG-TACCTTCAGGGAGATAGGACTTACAACTTTAATCCG
130 CTGCTCCACTGCAACC-TCAGGGAGATAAGACTTACAACTTTAATCCG
* * *
590612 CTTTACTGCAACTTCAGGGAGATAAAATTCGCCATC-TTCAGTCTGCTCCACTGCAACTTCAGAG
1 CTCTACTGCAACTTCAGGGAGATAAAA-T--CCATCATTCAATCCGCTCCACTGCAACTTCAGAG
* * *
590676 AGATAAGG-CTGGTTACTTCAGTTTG-TCCCACTGCAACTTCAGAGGGATAAGACTTGCTTTCTT
63 AGAT-AGGACTGGTTACTTCAATCTGCT-CCACTACAACTTCAGAGGGATAAGACTTGCTTTCTT
* **
590739 CAATCTGCTCTACTGCAACCTCAGGGAGATAAGACTTGTAACTTTAATCCG
126 CAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTACAACTTTAATCCG
* *
590790 CTCCACTACAACTTCAGGGAGATA
1 CTCTACTGCAACTTCAGGGAGATA
590814 GGATGATTGA
Statistics
Matches: 172, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
176 24 0.14
177 2 0.01
178 133 0.77
179 13 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (176 bp):
CTCTACTGCAACTTCAGGGAGATAAAATCCATCATTCAATCCGCTCCACTGCAACTTCAGAGAGA
TAGGACTGGTTACTTCAATCTGCTCCACTACAACTTCAGAGGGATAAGACTTGCTTTCTTCAATC
TGCTCCACTGCAACCTCAGGGAGATAAGACTTACAACTTTAATCCG
Found at i:597756 original size:19 final size:19
Alignment explanation
Indices: 597732--597769 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
597722 ATCACTATGA
597732 TTAGATAATGGATTCTCTG
1 TTAGATAATGGATTCTCTG
597751 TTAGATAATGGATTCTCTG
1 TTAGATAATGGATTCTCTG
597770 CACTGGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
TTAGATAATGGATTCTCTG
Found at i:602990 original size:17 final size:17
Alignment explanation
Indices: 602970--603017 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
602960 AAAAAGGAAT
602970 AATAAGAATAAAAACAA
1 AATAAGAATAAAAACAA
* *
602987 AATAAG-ATGAATAATAA
1 AATAAGAAT-AAAAACAA
*
603004 AATAAAAATAAAAA
1 AATAAGAATAAAAA
603018 AACTAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
AATAAGAATAAAAACAA
Found at i:603136 original size:3 final size:3
Alignment explanation
Indices: 603128--603228 Score: 71
Period size: 3 Copynumber: 34.0 Consensus size: 3
603118 ACAATTTAAA
** ** * * *
603128 AAT AAT AAT AAT AAT AAT -AT TGT GGT AAA AAT AAA AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
603175 AGT AAT AAT AA- AAGT AAT AGT AAT AGT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
603220 AAA AAT AAT
1 AAT AAT AAT
603229 GGTAATACTA
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
2 4 0.05
3 70 0.92
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:603195 original size:18 final size:17
Alignment explanation
Indices: 603169--603235 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
603159 TAAAAATAAT
* *
603169 AATATTAGTAATAATAA
1 AATAATAGTAATAGTAA
603186 AAGTAATAGTAATAGTAA
1 AA-TAATAGTAATAGTAA
*
603204 TAATAATAATAATAGTAAA
1 -AATAATAGTAATAGT-AA
*
603223 AATAATGGTAATA
1 AATAATAGTAATA
603236 CTATTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.05
18 36 0.86
19 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
AATAATAGTAATAGTAA
Found at i:603243 original size:21 final size:21
Alignment explanation
Indices: 603195--603249 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 21
603185 AAAGTAATAG
*
603195 TAATAGTAATAATAA---TAA
1 TAATAGTAAAAATAATGGTAA
603213 TAATAGTAAAAATAATGGTAA
1 TAATAGTAAAAATAATGGTAA
* * *
603234 TACTATTAAAATTAAT
1 TAATAGTAAAAATAAT
603250 CAATTTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.47
21 16 0.53
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (21 bp):
TAATAGTAAAAATAATGGTAA
Found at i:603904 original size:17 final size:17
Alignment explanation
Indices: 603884--603920 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
603874 ATAAAAAACA
603884 AAAAGAAAAGGAAAAGG
1 AAAAGAAAAGGAAAAGG
* *
603901 AAAAGAAAATGAAAATG
1 AAAAGAAAAGGAAAAGG
603918 AAA
1 AAA
603921 GAATCACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAGGAAAAGG
Found at i:605842 original size:23 final size:23
Alignment explanation
Indices: 605808--605864 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
605798 ATTATATATA
*
605808 AAAATT-TAAAA-ATGATTTTTTAT
1 AAAATTCTAAAATAT-ATATTTT-T
605831 AAAATTCTAAAATATATATTTTT
1 AAAATTCTAAAATATATATTTTT
605854 -AAATTCTAAAA
1 AAAATTCTAAAA
605865 AGTCAAAANN
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 11 0.35
23 7 0.23
24 11 0.35
25 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAATTCTAAAATATATATTTTT
Found at i:611391 original size:17 final size:18
Alignment explanation
Indices: 611358--611392 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
611348 AAGTTGTAGT
611358 AAGAAATGTGAAAACAAA
1 AAGAAATGTGAAAACAAA
611376 AAGAAATGTG-AAACAAA
1 AAGAAATGTGAAAACAAA
611393 TTTCATTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.11
Consensus pattern (18 bp):
AAGAAATGTGAAAACAAA
Found at i:611706 original size:3 final size:3
Alignment explanation
Indices: 611700--611733 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
611690 CAATTATATT
611700 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
611734 AGAAAATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:613206 original size:46 final size:44
Alignment explanation
Indices: 613120--613393 Score: 219
Period size: 46 Copynumber: 6.3 Consensus size: 44
613110 TGCTGCAACT
* * *
613120 TCAGGGAGATAAGAT-TACTATCTTTGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGATCTGC-ATCTTCGATCTGCTCCACTGTAATC
* *
613164 TAAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATC
1 TCAGGGAGATAAGATCTGC-A-TCTTCGATCTGCTCCACTGTAATC
* * ** *
613210 TCAGGGAGATAAGACCTG-A--TACGATCCACTCTACTGTAA-C
1 TCAGGGAGATAAGATCTGCATCTTCGATCTGCTCCACTGTAATC
* * **
613250 TTCAGAGAGATAAGATC--C-T-TT-AATCCACTCCACTGTAATC
1 -TCAGGGAGATAAGATCTGCATCTTCGATCTGCTCCACTGTAATC
* * * * *
613290 TCAAGGAGATAGGAT-TACCATCTTTGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGATCT-GCATCTTCGATCTGCTCCACTGTAATC
* *
613334 TTAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATC
1 TCAGGGAGATAAGATCTGC-A-TCTTCGATCTGCTCCACTGTAATC
613380 TCAGGGAGATAAGA
1 TCAGGGAGATAAGA
613394 CCTGTATAAT
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
39 27 0.15
40 3 0.02
41 30 0.16
42 1 0.01
43 2 0.01
44 43 0.24
45 5 0.03
46 71 0.39
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGCATCTTCGATCTGCTCCACTGTAATC
Found at i:613287 original size:39 final size:40
Alignment explanation
Indices: 613197--613300 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 40
613187 CTTCGGTCTG
*
613197 CTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCA
1 CTCCACTGTAATCTCAGAGAGATAAGACCTGATAC-ATCCA
* *
613238 CTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-ATCCA
1 CTCCACTGTAATC-TCAGAGAGATAAGA-CCTGATACATCCA
613277 CTCCACTGTAATCTCA-AGGAGATA
1 CTCCACTGTAATCTCAGA-GAGATA
613301 GGATTACCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
38 1 0.02
39 24 0.44
40 2 0.04
41 25 0.45
42 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
CTCCACTGTAATCTCAGAGAGATAAGACCTGATACATCCA
Found at i:613342 original size:170 final size:171
Alignment explanation
Indices: 613037--613397 Score: 555
Period size: 170 Copynumber: 2.1 Consensus size: 171
613027 CTGCAACATT
* * * *
613037 AGGGATATAAGGCATGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATC----GCTTTA
* ** * *
613102 ATCCGCTCTGCTGCAACTTCAGGGAGATAAGATTACTATCTTTGATCTGCTCCGCTGTAATCTAA
62 ATCCACTCCACTGCAACTTCAAGGAGATAAGATTACCATCTTTGATCTGCTCCGCTGTAATCTAA
613167 GGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTC
127 GGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTC
613212 AGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTAATCC
1 AGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCGCTTTAATCC
* * *
613276 ACTCCACTGTAA-TCTCAAGGAGATAGGATTACCATCTTTGATCTGCTCCGCTGTAATCTTAGGG
66 ACTCCACTGCAACT-TCAAGGAGATAAGATTACCATCTTTGATCTGCTCCGCTGTAATCTAAGGG
613340 AGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTC
130 AGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTC
613382 AGGGAGATAAGACCTG
1 AGGGAGATAAGACCTG
613398 TATAATGAAC
Statistics
Matches: 173, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
169 1 0.01
170 120 0.69
175 52 0.30
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (171 bp):
AGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCGCTTTAATCC
ACTCCACTGCAACTTCAAGGAGATAAGATTACCATCTTTGATCTGCTCCGCTGTAATCTAAGGGA
GATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTC
Found at i:621543 original size:51 final size:51
Alignment explanation
Indices: 621467--621578 Score: 215
Period size: 51 Copynumber: 2.2 Consensus size: 51
621457 GTCTTCGTGG
621467 ATGTGGTTCAGTCTGAACTTGCGCATGCGGAGGCGTGAATCCTGGAGGAAA
1 ATGTGGTTCAGTCTGAACTTGCGCATGCGGAGGCGTGAATCCTGGAGGAAA
621518 ATGTGGTTCAGTCTGAACTTGCGCATGCGGAGGCGTGAATCCTGGAGGAAA
1 ATGTGGTTCAGTCTGAACTTGCGCATGCGGAGGCGTGAATCCTGGAGGAAA
*
621569 AAGTGGTTCA
1 ATGTGGTTCA
621579 TCATTGTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (51 bp):
ATGTGGTTCAGTCTGAACTTGCGCATGCGGAGGCGTGAATCCTGGAGGAAA
Found at i:626920 original size:20 final size:21
Alignment explanation
Indices: 626879--626920 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
626869 TCTTGTGTGA
*
626879 TTTGGGCTATTAGGGTTTGTT
1 TTTGGGCTATTAGGGTTGGTT
626900 TTTGGG-TATT-GGGCTTGGTT
1 TTTGGGCTATTAGGG-TTGGTT
626920 T
1 T
626921 AATTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.07, C:0.05, G:0.36, T:0.52
Consensus pattern (21 bp):
TTTGGGCTATTAGGGTTGGTT
Found at i:628412 original size:48 final size:50
Alignment explanation
Indices: 628321--628417 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 50
628311 ATCTATTTCT
** * * * *
628321 AGGTTGAAAAACCCTTATTCTAATCAATTTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAACCCTTATTCTAATCAAGGTAAAATAAAAGAAGTATAGTA
628371 AGGTT-AAAAA-CCTTATTCTAATCAAGGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACCCTTATTCTAATCAAGGTAAAATAAAAGAAGTATAGT
628418 TCTATATGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 31 0.76
49 5 0.12
50 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (50 bp):
AGGTTGAAAAACCCTTATTCTAATCAAGGTAAAATAAAAGAAGTATAGTA
Found at i:635887 original size:23 final size:23
Alignment explanation
Indices: 635859--635928 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
635849 GGTCAACTAT
**
635859 ATGTTCATGAACATGTTCATTTA
1 ATGTTCACAAACATGTTCATTTA
* *
635882 ATGTTCGCAAACATGATT-GTTTA
1 ATGTTCACAAACATG-TTCATTTA
*
635905 ATGTTCACAAACAAGTTCATTTA
1 ATGTTCACAAACATGTTCATTTA
635928 A
1 A
635929 CTTAAACGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (23 bp):
ATGTTCACAAACATGTTCATTTA
Found at i:643926 original size:15 final size:14
Alignment explanation
Indices: 643908--643934 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
643898 AGTAAAATAT
643908 TTTTTGGAAAATGA
1 TTTTTGGAAAATGA
643922 TTTTTGGAAAATG
1 TTTTTGGAAAATG
643935 GTTTACTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTTTTGGAAAATGA
Found at i:643947 original size:20 final size:20
Alignment explanation
Indices: 643922--643967 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
643912 TGGAAAATGA
*
643922 TTTTTGGAAAATGGTTTACT
1 TTTTTGGAAAATGATTTACT
643942 TTTTT-GAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
643961 TTTTTGG
1 TTTTTGG
643968 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTTTGGAAAATGATTTACT
Found at i:644088 original size:16 final size:16
Alignment explanation
Indices: 644048--644084 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
644038 CTATTTTTAC
644048 ATATATTAATAAATAT
1 ATATATTAATAAATAT
644064 ATATATTAATAAA-AT
1 ATATATTAATAAATAT
644079 -TATATT
1 ATATATT
644085 TTAAATTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 2 0.10
16 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATATTAATAAATAT
Found at i:645486 original size:12 final size:12
Alignment explanation
Indices: 645469--645493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
645459 TAGCATACCA
645469 TTCTCTTTCTTC
1 TTCTCTTTCTTC
645481 TTCTCTTTCTTC
1 TTCTCTTTCTTC
645493 T
1 T
645494 CGCTCCGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTTCTTC
Found at i:647652 original size:89 final size:88
Alignment explanation
Indices: 647452--647657 Score: 211
Period size: 89 Copynumber: 2.3 Consensus size: 88
647442 GTATACTCCT
*
647452 AATA-GCCATTAATATACCAA-TTCCATAAACATAAGCCATCAAATTAAAGACATTTTTTCCATC
1 AATATGCCATTAATATACCAATTTCCATAAACACAAGCCATCAAATTAAAGACA--TTTTCCATC
* * * *
647515 ATGATCAAATATTCAATTTACACCT
64 ATGACCAAATATTCAATATACAACA
* * * * * * *
647540 CATATGCCATCAATATAGCAATTTCCCATAAACACAAGCCATTTAAATTCAAGACA-TTTCTATT
1 AATATGCCATTAATATACCAATTT-CCATAAACACAAGCCA-TCAAATTAAAGACATTTTCCATC
*
647604 ATGGCCAAATATTCAATATACAACA
64 ATGACCAAATATTCAATATACAACA
* *
647629 AATATGCTATTAATACACCAATTTTCCAT
1 AATATGCCATTAATATACCAA-TTTCCAT
647658 TTTTATCATT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
88 3 0.03
89 60 0.63
90 5 0.05
91 15 0.16
92 12 0.13
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (88 bp):
AATATGCCATTAATATACCAATTTCCATAAACACAAGCCATCAAATTAAAGACATTTTCCATCAT
GACCAAATATTCAATATACAACA
Found at i:651927 original size:21 final size:21
Alignment explanation
Indices: 651901--651949 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
651891 CACTATACAA
651901 GTTATGGATTTTGACTCAATG
1 GTTATGGATTTTGACTCAATG
*
651922 GTTATGAATTTTGACTCAATG
1 GTTATGGATTTTGACTCAATG
651943 GTTATGG
1 GTTATGG
651950 GACTTCCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (21 bp):
GTTATGGATTTTGACTCAATG
Found at i:661737 original size:19 final size:19
Alignment explanation
Indices: 661713--661753 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
661703 TAGGCAATTA
661713 TTCATTTTCAACACAAAAT
1 TTCATTTTCAACACAAAAT
661732 TTCATTTTCAACACAAAAT
1 TTCATTTTCAACACAAAAT
661751 TTC
1 TTC
661754 CTAGGGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (19 bp):
TTCATTTTCAACACAAAAT
Found at i:678155 original size:14 final size:14
Alignment explanation
Indices: 678136--678206 Score: 83
Period size: 14 Copynumber: 5.0 Consensus size: 14
678126 CAGGTGGGAT
678136 GAAAGAAAAGAGAA
1 GAAAGAAAAGAGAA
678150 GAAAGAAAAGAGAA
1 GAAAGAAAAGAGAA
678164 -AAAGGAAAAGAGAA
1 GAAA-GAAAAGAGAA
*
678178 GCAAGAAAA-AGGAA
1 GAAAGAAAAGA-GAA
*
678192 AAAAGGAAAAGAGAA
1 GAAA-GAAAAGAGAA
678207 TGAAGGATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 4 0.08
14 34 0.69
15 10 0.20
16 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAGAGAA
Found at i:678163 original size:7 final size:7
Alignment explanation
Indices: 678139--678206 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 7
678129 GTGGGATGAA
678139 AGAAAAG
1 AGAAAAG
678146 AGAAGAA-
1 AGAA-AAG
678153 AGAAAAG
1 AGAAAAG
678160 AGAAAA-
1 AGAAAAG
678166 AGGAAAAG
1 A-GAAAAG
678174 AGAAGCAAG
1 AGAA--AAG
678183 A-AAAAG
1 AGAAAAG
*
678189 -GAAAAA
1 AGAAAAG
678195 AGGAAAAG
1 A-GAAAAG
678203 AGAA
1 AGAA
678207 TGAAGGATGT
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
6 10 0.20
7 25 0.50
8 11 0.22
9 4 0.08
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:678173 original size:28 final size:29
Alignment explanation
Indices: 678140--678206 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
678130 TGGGATGAAA
678140 GAAAAGAGAAGAAAG-AAAA-GAGAAAAAG
1 GAAAAGAGAAGAAAGAAAAAGGA-AAAAAG
*
678168 GAAAAGAGAAGCAAGAAAAAGGAAAAAAG
1 GAAAAGAGAAGAAAGAAAAAGGAAAAAAG
678197 GAAAAGAGAA
1 GAAAAGAGAA
678207 TGAAGGATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 14 0.39
29 20 0.56
30 2 0.06
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.00
Consensus pattern (29 bp):
GAAAAGAGAAGAAAGAAAAAGGAAAAAAG
Found at i:683527 original size:14 final size:15
Alignment explanation
Indices: 683491--683527 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
683481 AATGTTTCAC
*
683491 TTCCTTCGTTCTCTT
1 TTCCTTCTTTCTCTT
683506 TTCC-TCTTTCT-TT
1 TTCCTTCTTTCTCTT
683519 TTCCTTCTT
1 TTCCTTCTT
683528 CTGCCTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 10 0.50
15 4 0.20
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (15 bp):
TTCCTTCTTTCTCTT
Found at i:683912 original size:70 final size:70
Alignment explanation
Indices: 683835--683967 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 70
683825 TCGGGGCAAC
* *
683835 ACCGTGTAAATGACATATAAGTCATTCGGGGCGATACCATGTAAACAATATATAGGTCCTTTGAG
1 ACCGTGTAAATAACATATAAGTCATTCGGGGCGACACCATGTAAACAATATATAGGTCCTTTGAG
683900 ATAGT
66 ATAGT
* * * * ** * *
683905 ACCGTGTAATTAATATATAGGTCCTTCGGGGCGACACGGTGTAAACATTATATAGGTCTTTTG
1 ACCGTGTAAATAACATATAAGTCATTCGGGGCGACACCATGTAAACAATATATAGGTCCTTTG
683968 GGGCGACACC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (70 bp):
ACCGTGTAAATAACATATAAGTCATTCGGGGCGACACCATGTAAACAATATATAGGTCCTTTGAG
ATAGT
Found at i:683947 original size:35 final size:35
Alignment explanation
Indices: 683818--683977 Score: 133
Period size: 35 Copynumber: 4.6 Consensus size: 35
683808 GATTATCAAC
* ** *
683818 AGGTCCTTCGGGGCAACACCGTGTAAATGACATAT
1 AGGTCCTTCGGGGCGACACCGTGTAAACAATATAT
* * * *
683853 AAGTCATTCGGGGCGATACCATGTAAACAATATAT
1 AGGTCCTTCGGGGCGACACCGTGTAAACAATATAT
* * ** * **
683888 AGGTCCTT-TGAGATAGTACCGTGTAATTAATATAT
1 AGGTCCTTCGGGGCGA-CACCGTGTAAACAATATAT
* *
683923 AGGTCCTTCGGGGCGACACGGTGTAAACATTATAT
1 AGGTCCTTCGGGGCGACACCGTGTAAACAATATAT
* *
683958 AGGTCTTTTGGGGCGACACC
1 AGGTCCTTCGGGGCGACACC
683978 TCAAAAAGGG
Statistics
Matches: 94, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
34 3 0.03
35 88 0.94
36 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (35 bp):
AGGTCCTTCGGGGCGACACCGTGTAAACAATATAT
Found at i:686401 original size:12 final size:12
Alignment explanation
Indices: 686384--686418 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
686374 GTTCGCAAAT
686384 AAAAACATAAAG
1 AAAAACATAAAG
* *
686396 AAAAACACAAGG
1 AAAAACATAAAG
686408 AAAAACATAAA
1 AAAAACATAAA
686419 AATAATGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAACATAAAG
Found at i:687983 original size:27 final size:27
Alignment explanation
Indices: 687953--688005 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
687943 GAACCCTAGC
687953 TCACCAGGCCTACTGGCGTACTTCAAT
1 TCACCAGGCCTACTGGCGTACTTCAAT
* * *
687980 TCACTATGTCTACTGGCGTACTTCAA
1 TCACCAGGCCTACTGGCGTACTTCAA
688006 CTTGCCAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (27 bp):
TCACCAGGCCTACTGGCGTACTTCAAT
Found at i:691434 original size:30 final size:30
Alignment explanation
Indices: 691381--691449 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
691371 TCACACGGAT
* *
691381 TGGACACACGCCGATGTGAGCCACATAGGC
1 TGGACACACACCGATGTGAGCCACACAGGC
* *
691411 TGGACACACACCTG-TGTGTGCCACACAGTC
1 TGGACACACACC-GATGTGAGCCACACAGGC
*
691441 TGGCCACAC
1 TGGACACAC
691450 TCACATGGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (30 bp):
TGGACACACACCGATGTGAGCCACACAGGC
Found at i:701269 original size:387 final size:387
Alignment explanation
Indices: 700555--701329 Score: 1550
Period size: 387 Copynumber: 2.0 Consensus size: 387
700545 TAGCTTAGGA
700555 TTGGTTGCTTGAAAATTAATTTCTAAAAATGAGATGTTCTATACTCAGTTTTTTTCGAGTTATAG
1 TTGGTTGCTTGAAAATTAATTTCTAAAAATGAGATGTTCTATACTCAGTTTTTTTCGAGTTATAG
700620 TAAGTATTTTCTAATGAACTTAGGGACTTTTAAAACCAAATTCAGTCATTTTGCCTTGGCATTAA
66 TAAGTATTTTCTAATGAACTTAGGGACTTTTAAAACCAAATTCAGTCATTTTGCCTTGGCATTAA
700685 TAAATAAAGGGAAGTAGGCACTCCAATGCTTAGAATTTCCGAGTAAGTTAGCACCACTTTGTTTA
131 TAAATAAAGGGAAGTAGGCACTCCAATGCTTAGAATTTCCGAGTAAGTTAGCACCACTTTGTTTA
700750 CTCCATCCTATTGTTGACTAGAAAGGTGTGTTTAAGTAAGAGTGTGTAATAGAAAGAAAATAAAT
196 CTCCATCCTATTGTTGACTAGAAAGGTGTGTTTAAGTAAGAGTGTGTAATAGAAAGAAAATAAAT
700815 TAGGGACACTCCGTTGTAGTAACGAGTTGAGTAGCTAAGGAGGTAGTTGTTTGCTCCATTCATCT
261 TAGGGACACTCCGTTGTAGTAACGAGTTGAGTAGCTAAGGAGGTAGTTGTTTGCTCCATTCATCT
700880 TCTACGTCGAAAGCCTTAGCTTCAAGAGTGATTGCTATTTAAATGTGACATAATTGAGTACT
326 TCTACGTCGAAAGCCTTAGCTTCAAGAGTGATTGCTATTTAAATGTGACATAATTGAGTACT
700942 TTGGTTGCTTGAAAATTAATTTCTAAAAATGAGATGTTCTATACTCAGTTTTTTTCGAGTTATAG
1 TTGGTTGCTTGAAAATTAATTTCTAAAAATGAGATGTTCTATACTCAGTTTTTTTCGAGTTATAG
701007 TAAGTATTTTCTAATGAACTTAGGGACTTTTAAAACCAAATTCAGTCATTTTGCCTTGGCATTAA
66 TAAGTATTTTCTAATGAACTTAGGGACTTTTAAAACCAAATTCAGTCATTTTGCCTTGGCATTAA
701072 TAAATAAAGGGAAGTAGGCACTCCAATGCTTAGAATTTCCGAGTAAGTTAGCACCACTTTGTTTA
131 TAAATAAAGGGAAGTAGGCACTCCAATGCTTAGAATTTCCGAGTAAGTTAGCACCACTTTGTTTA
701137 CTCCATCCTATTGTTGACTAGAAAGGTGTGTTTAAGTAAGAGTGTGTAATAGAAAGAAAATAAAT
196 CTCCATCCTATTGTTGACTAGAAAGGTGTGTTTAAGTAAGAGTGTGTAATAGAAAGAAAATAAAT
701202 TAGGGACACTCCGTTGTAGTAACGAGTTGAGTAGCTAAGGAGGTAGTTGTTTGCTCCATTCATCT
261 TAGGGACACTCCGTTGTAGTAACGAGTTGAGTAGCTAAGGAGGTAGTTGTTTGCTCCATTCATCT
701267 TCTACGTCGAAAGCCTTAGCTTCAAGAGTGATTGCTATTTAAATGTGACATAATTGAGTACT
326 TCTACGTCGAAAGCCTTAGCTTCAAGAGTGATTGCTATTTAAATGTGACATAATTGAGTACT
701329 T
1 T
701330 GGTAATTCGG
Statistics
Matches: 388, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
387 388 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (387 bp):
TTGGTTGCTTGAAAATTAATTTCTAAAAATGAGATGTTCTATACTCAGTTTTTTTCGAGTTATAG
TAAGTATTTTCTAATGAACTTAGGGACTTTTAAAACCAAATTCAGTCATTTTGCCTTGGCATTAA
TAAATAAAGGGAAGTAGGCACTCCAATGCTTAGAATTTCCGAGTAAGTTAGCACCACTTTGTTTA
CTCCATCCTATTGTTGACTAGAAAGGTGTGTTTAAGTAAGAGTGTGTAATAGAAAGAAAATAAAT
TAGGGACACTCCGTTGTAGTAACGAGTTGAGTAGCTAAGGAGGTAGTTGTTTGCTCCATTCATCT
TCTACGTCGAAAGCCTTAGCTTCAAGAGTGATTGCTATTTAAATGTGACATAATTGAGTACT
Found at i:704673 original size:26 final size:26
Alignment explanation
Indices: 704637--704690 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
704627 GCTAATATGA
704637 TTGATATTTGGGCATACGAGTGGTGG
1 TTGATATTTGGGCATACGAGTGGTGG
704663 TTGATATTTGGGCATACGAGTGGTGG
1 TTGATATTTGGGCATACGAGTGGTGG
704689 TT
1 TT
704691 TACAGTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.07, G:0.37, T:0.37
Consensus pattern (26 bp):
TTGATATTTGGGCATACGAGTGGTGG
Found at i:707014 original size:5 final size:6
Alignment explanation
Indices: 706989--707013 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
706979 TTCCCAGTAG
706989 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
707014 GCAAACCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:708391 original size:27 final size:26
Alignment explanation
Indices: 708353--708405 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
708343 CATTACGAAC
708353 TAGGGAAACTATTTTAATGGATAGTTT
1 TAGGGAAACTATTTTAATGGAT-GTTT
708380 TAGGGAAACTATTTTAATGGATGTTT
1 TAGGGAAACTATTTTAATGGATGTTT
708406 CCTATATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.42
Consensus pattern (26 bp):
TAGGGAAACTATTTTAATGGATGTTT
Found at i:708803 original size:4 final size:4
Alignment explanation
Indices: 708794--708821 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
708784 AAAGTTAATT
708794 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
708822 CTATATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:710258 original size:45 final size:45
Alignment explanation
Indices: 710194--710279 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
710184 ATGCTTTCAT
* *
710194 ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATC
1 ATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTTATC
*
710239 ATGATGTCATAACATCTTTCAACTATGGTCTTACTCATTTT
1 ATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTT
710280 AGGCATATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
ATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTTATC
Found at i:714984 original size:98 final size:98
Alignment explanation
Indices: 714853--715049 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
714843 GTATTTGTTT
*
714853 GCCTAGGTGAGACCGAAAGGGTATCTTAAGTGGTAATCCTTAGTGAAGATGAGATCGAAAAGGTA
1 GCCTAGGTGAGACCGAAAGGGTATCTTAAGTGGTAATCCTTAGTGAAGATGAGACCGAAAAGGTA
714918 TTATTAACTAAGGATGGTAAATACTTAAATTAA
66 TTATTAACTAAGGATGGTAAATACTTAAATTAA
*
714951 GCCTAGGTGAGACCGAGAGGGTATCTTAAGTGGTAATCCTTAGTGAAGATGAGACCGAAAAGGTA
1 GCCTAGGTGAGACCGAAAGGGTATCTTAAGTGGTAATCCTTAGTGAAGATGAGACCGAAAAGGTA
* *
715016 TTCTTAACTAAGGATGGTAAATATTTAAATTAA
66 TTATTAACTAAGGATGGTAAATACTTAAATTAA
715049 G
1 G
715050 GGTAATTATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (98 bp):
GCCTAGGTGAGACCGAAAGGGTATCTTAAGTGGTAATCCTTAGTGAAGATGAGACCGAAAAGGTA
TTATTAACTAAGGATGGTAAATACTTAAATTAA
Found at i:724107 original size:14 final size:14
Alignment explanation
Indices: 724088--724154 Score: 66
Period size: 14 Copynumber: 4.6 Consensus size: 14
724078 TTTTAAAAAT
724088 TTTATATTTTTAAA
1 TTTATATTTTTAAA
724102 TTTATA--TTTAATA
1 TTTATATTTTTAA-A
*
724115 TTTAATATTTTTATA
1 TTT-ATATTTTTAAA
*
724130 TTTTTATTTATTAAA
1 TTTATATTT-TTAAA
724145 TTTTATATTT
1 -TTTATATTT
724155 AAACATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 4 0.09
14 14 0.33
15 8 0.19
16 12 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATATTTTTAAA
Found at i:724117 original size:28 final size:29
Alignment explanation
Indices: 724079--724154 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
724069 TTTTTAATTT
*
724079 TTTAAAAATTTTATATTTTTAAATTTATA
1 TTTATAAATTTTATATTTTTAAATTTATA
* * * *
724108 TTTA-ATATTTAATATTTTTATATTTTTA
1 TTTATAAATTTTATATTTTTAAATTTATA
724136 TTTATTAAATTTTATATTT
1 TTTA-TAAATTTTATATTT
724155 AAACATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 24 0.62
29 4 0.10
30 11 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTATAAATTTTATATTTTTAAATTTATA
Found at i:724130 original size:22 final size:22
Alignment explanation
Indices: 724102--724172 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
724092 TATTTTTAAA
724102 TTTATATTTAATATTTAATATT
1 TTTATATTTAATATTTAATATT
* * *
724124 TTTATATTT-TTATTTATTAAAT
1 TTTATATTTAATATTTAAT-ATT
*
724146 TTTATATTTAAACATTTTAATATT
1 TTTATATTT-AATA-TTTAATATT
724170 TTT
1 TTT
724173 TTAATATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
21 7 0.18
22 20 0.53
24 6 0.16
25 5 0.13
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATATTTAATATTTAATATT
Found at i:724170 original size:8 final size:8
Alignment explanation
Indices: 724070--724171 Score: 60
Period size: 8 Copynumber: 13.5 Consensus size: 8
724060 CATATATTAT
*
724070 TTTTAATT
1 TTTTAATA
*
724078 TTTTAAAAA
1 TTTT-AATA
724087 TTTT-ATA
1 TTTTAATA
724094 TTTTTAA-A
1 -TTTTAATA
724102 -TTT-ATA
1 TTTTAATA
724108 -TTTAATA
1 TTTTAATA
724115 -TTTAATA
1 TTTTAATA
*
724122 TTTTTATA
1 TTTTAATA
*
724130 TTTTTAT-
1 TTTTAATA
724137 TTATTAA-A
1 TT-TTAATA
724145 TTTT-ATA
1 TTTTAATA
* *
724152 TTTAAACA
1 TTTTAATA
724160 TTTTAATA
1 TTTTAATA
724168 TTTT
1 TTTT
724172 TTTAATATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
5 1 0.01
6 8 0.11
7 20 0.27
8 39 0.52
9 7 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTAATA
Found at i:725380 original size:16 final size:18
Alignment explanation
Indices: 725359--725393 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
725349 TTCTCCATTC
725359 TTTA-TTTA-TTCTCTTT
1 TTTATTTTATTTCTCTTT
725375 TTTATTTTATTTCTCTTT
1 TTTATTTTATTTCTCTTT
725393 T
1 T
725394 CTTGACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTTATTTCTCTTT
Found at i:728313 original size:9 final size:9
Alignment explanation
Indices: 728299--728323 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
728289 GTCCGTAGAC
728299 TCGAGTTTA
1 TCGAGTTTA
728308 TCGAGTTTA
1 TCGAGTTTA
728317 TCGAGTT
1 TCGAGTT
728324 AAAGTAAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (9 bp):
TCGAGTTTA
Found at i:743512 original size:3 final size:3
Alignment explanation
Indices: 743504--743534 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
743494 AATATATCAA
743504 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
743535 TTTAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:746285 original size:17 final size:17
Alignment explanation
Indices: 746246--746285 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
746236 TATTCACTTA
*
746246 TTGATAAACTAATAACC
1 TTGATAAAATAATAACC
* *
746263 TCGATAAAATAATAACT
1 TTGATAAAATAATAACC
746280 TTGATA
1 TTGATA
746286 TTATTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (17 bp):
TTGATAAAATAATAACC
Found at i:751290 original size:31 final size:31
Alignment explanation
Indices: 751275--751336 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 31
751265 CTGTTATATG
751275 AGTTGTCAATTTTAGTCACACTCGTTAAATA
1 AGTTGTCAATTTTAGTCACACTCGTTAAATA
*
751306 AGTTGTTAATTTTAGTCACACTACCGTTAAA
1 AGTTGTCAATTTTAGTCACACT--CGTTAAA
751337 ATGGGTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
33 7 0.25
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTTGTCAATTTTAGTCACACTCGTTAAATA
Found at i:757564 original size:38 final size:39
Alignment explanation
Indices: 757472--757580 Score: 175
Period size: 39 Copynumber: 2.8 Consensus size: 39
757462 AAAATATCCA
*
757472 ACCCAACTCAATAAAACTAAAACTAAAGTCTACCCAATC
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATC
757511 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAAT-
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATC
** *
757549 TGCCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTA
757581 ACTCTTAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 29 0.44
39 37 0.56
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.17
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATC
Found at i:763922 original size:37 final size:37
Alignment explanation
Indices: 763876--763946 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
763866 TTTTCATACT
* *
763876 ATTATGTAATGTTTTTAATTATGTAGTGATTCAAAGA
1 ATTACGTAATATTTTTAATTATGTAGTGATTCAAAGA
763913 ATTACGTAATATTTTTAATTATGTAGTGATTCAA
1 ATTACGTAATATTTTTAATTATGTAGTGATTCAA
763947 TTCGGGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.46
Consensus pattern (37 bp):
ATTACGTAATATTTTTAATTATGTAGTGATTCAAAGA
Found at i:765089 original size:19 final size:18
Alignment explanation
Indices: 765066--765138 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
765056 ATTTTTAAAT
765066 ATATTTTTATATTTTTTG
1 ATATTTTTATATTTTTTG
765084 AGTA-TTTTATATTATTTT-
1 A-TATTTTTATATT-TTTTG
* *
765102 ATAAATTTTAATAATTTTTG
1 AT--ATTTTTATATTTTTTG
765122 A-ATTTTTATATATTTTT
1 ATATTTTTATAT-TTTTT
765139 AATTTAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
17 9 0.20
18 16 0.36
19 11 0.25
20 8 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATATTTTTATATTTTTTG
Found at i:765128 original size:18 final size:16
Alignment explanation
Indices: 765068--765143 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 16
765058 TTTTAAATAT
*
765068 ATTTTTATATTTTTTGA
1 ATTTTTATAATTTTT-A
*
765085 GTATTTTATATTATTTTATAA
1 --ATTTT-TATAATTTT-T-A
*
765106 ATTTTAATAATTTTTGA
1 ATTTTTATAATTTTT-A
765123 ATTTTTATATATTTTTA
1 ATTTTTATA-ATTTTTA
765140 ATTT
1 ATTT
765144 AAATTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 15 0.32
18 13 0.28
19 10 0.21
20 7 0.15
21 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
ATTTTTATAATTTTTA
Found at i:769097 original size:37 final size:37
Alignment explanation
Indices: 769051--769121 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
769041 TTTTCATACT
* *
769051 ATTATGTAATGTTTTTAATTATGTAGTGATTCAAAGA
1 ATTACGTAATATTTTTAATTATGTAGTGATTCAAAGA
769088 ATTACGTAATATTTTTAATTATGTAGTGATTCAA
1 ATTACGTAATATTTTTAATTATGTAGTGATTCAA
769122 TTCGGGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.46
Consensus pattern (37 bp):
ATTACGTAATATTTTTAATTATGTAGTGATTCAAAGA
Found at i:770346 original size:19 final size:18
Alignment explanation
Indices: 770323--770395 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
770313 ATTTTTAAAT
770323 ATATTTTTATATTTTTTG
1 ATATTTTTATATTTTTTG
770341 AGTA-TTTTATATTATTTT-
1 A-TATTTTTATATT-TTTTG
* *
770359 ATAAATTTTAATAATTTTTG
1 AT--ATTTTTATATTTTTTG
770379 A-ATTTTTATATATTTTT
1 ATATTTTTATAT-TTTTT
770396 AATTTAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
17 9 0.20
18 16 0.36
19 11 0.25
20 8 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATATTTTTATATTTTTTG
Found at i:770385 original size:18 final size:16
Alignment explanation
Indices: 770325--770400 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 16
770315 TTTTAAATAT
*
770325 ATTTTTATATTTTTTGA
1 ATTTTTATAATTTTT-A
*
770342 GTATTTTATATTATTTTATAA
1 --ATTTT-TATAATTTT-T-A
*
770363 ATTTTAATAATTTTTGA
1 ATTTTTATAATTTTT-A
770380 ATTTTTATATATTTTTA
1 ATTTTTATA-ATTTTTA
770397 ATTT
1 ATTT
770401 AAATTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 15 0.32
18 13 0.28
19 10 0.21
20 7 0.15
21 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
ATTTTTATAATTTTTA
Found at i:777710 original size:19 final size:19
Alignment explanation
Indices: 777677--777729 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
777667 TTCAGAATAG
777677 TAATTCATCAA-CATTTAAC
1 TAATT-ATCAATCATTTAAC
* *
777696 TAA-TATCATATCATTTCAG
1 TAATTATCA-ATCATTTAAC
777715 TAATTATCAATCATT
1 TAATTATCAATCATT
777730 CATATTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 18 0.62
20 5 0.17
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATTATCAATCATTTAAC
Found at i:788315 original size:21 final size:22
Alignment explanation
Indices: 788242--788319 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
788232 TGTTCTTGGG
*
788242 TCACAC-GGCGCGTGCCTCCCT
1 TCACACGGGCGTGTGCCTCCCT
* *
788263 TCACACAGGCATGTGCCTCCCT
1 TCACACGGGCGTGTGCCTCCCT
788285 TCACACGGGCGTGTGCCT-CCT
1 TCACACGGGCGTGTGCCTCCCT
*
788306 TCACATGGGCGTGT
1 TCACACGGGCGTGT
788320 TGACCCCACA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 22 0.43
22 29 0.57
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (22 bp):
TCACACGGGCGTGTGCCTCCCT
Found at i:788347 original size:19 final size:19
Alignment explanation
Indices: 788325--788372 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
788315 CGTGTTGACC
*
788325 CCACACGGCCTAGGCATTT
1 CCACACGGCCTAGGCACTT
788344 CCACACGGCCTAGGCACTT
1 CCACACGGCCTAGGCACTT
*
788363 CTACACGGCC
1 CCACACGGCC
788373 GTGTGGCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.42, G:0.21, T:0.17
Consensus pattern (19 bp):
CCACACGGCCTAGGCACTT
Found at i:789891 original size:18 final size:18
Alignment explanation
Indices: 789834--789892 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
789824 AGTAGACTTG
789834 AAAAAAA-AAGA-AAAAT
1 AAAAAAAGAAGAGAAAAT
* * * *
789850 TAGAAAAGAAAAGAAAAC
1 AAAAAAAGAAGAGAAAAT
**
789868 GGAAAAAGAAGAGAAAAT
1 AAAAAAAGAAGAGAAAAT
789886 AAAAAAA
1 AAAAAAA
789893 TAAAAAAAGA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 22 0.73
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAAAGAAGAGAAAAT
Found at i:790632 original size:22 final size:22
Alignment explanation
Indices: 790604--790646 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
790594 GTTATGCATA
790604 TGTATCTAATCTATTCTACATT
1 TGTATCTAATCTATTCTACATT
* * *
790626 TGTATCTGATTTGTTCTACAT
1 TGTATCTAATCTATTCTACAT
790647 CTTACCTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.51
Consensus pattern (22 bp):
TGTATCTAATCTATTCTACATT
Found at i:794708 original size:14 final size:14
Alignment explanation
Indices: 794667--794709 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
794657 ATGCATCTAA
* *
794667 TTTTTGTATGTATA
1 TTTTTGCATGTATG
*
794681 TTTTTACATGTATG
1 TTTTTGCATGTATG
794695 TTTTTGCATGTATG
1 TTTTTGCATGTATG
794709 T
1 T
794710 ATGTCGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (14 bp):
TTTTTGCATGTATG
Found at i:797617 original size:43 final size:42
Alignment explanation
Indices: 797527--797623 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 42
797517 CCCAAATATT
* * *
797527 TTTTTCCTTTCTACTTTCTTTCTCTTCTATCTTCTCTACTATT
1 TTTTTCC-TTCTACTTTCTTTCTCTTCTATATTATCTACTATC
* * *
797570 TTTTTCCTTCT-CCTTCTCTTCTCTTCTCTATTATGCTAGTATC
1 TTTTTCCTTCTACTTTCT-TTCTCTTCTATATTAT-CTACTATC
*
797613 TTTTTCTTTCT
1 TTTTTCCTTCT
797624 TTTACTACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
41 5 0.11
42 17 0.38
43 23 0.51
ACGTcount: A:0.08, C:0.28, G:0.02, T:0.62
Consensus pattern (42 bp):
TTTTTCCTTCTACTTTCTTTCTCTTCTATATTATCTACTATC
Found at i:802062 original size:85 final size:85
Alignment explanation
Indices: 801902--802144 Score: 324
Period size: 85 Copynumber: 2.8 Consensus size: 85
801892 GTTTAATCTA
* * * *
801902 CAAATAGTGTGGTTCAATTATGAACCAAGTGACAGTTTGTTTAGTCTGCAAATATGTTGTGCACT
1 CAAATA-TGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACT
* * *
801967 CACAACAAGTGGTAGTAACTG
65 CACAAAAAGTGGCAATAACTG
* * *
801988 CAAATATGTGGTTCAATCATGAACTAAGTGGCAGTTTGTTTAATATGAAAATATGTTGTGCATTC
1 CAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACTC
*
802053 ATAAAAAGTGGCAATAACTG
66 ACAAAAAGTGGCAATAACTG
** * * * *
802073 CAAATATGTGGTTTGATCATAAACCAAGTGGTAGTTTGTTTAATATTCAAATATGTTGTGCACCC
1 CAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACTC
802138 ACAAAAA
66 ACAAAAA
802145 ATGTCAGTAA
Statistics
Matches: 136, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 130 0.96
86 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (85 bp):
CAAATATGTGGTTCAATCATGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACTC
ACAAAAAGTGGCAATAACTG
Found at i:803326 original size:10 final size:11
Alignment explanation
Indices: 803311--803358 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
803301 ATCACATTAG
803311 TTTTCTTTTA-
1 TTTTCTTTTAC
803321 TTTTCTTTTAC
1 TTTTCTTTTAC
803332 TATTTCTTTTTAC
1 T-TTTC-TTTTAC
*
803345 TTTT-TTTTAA
1 TTTTCTTTTAC
803355 TTTT
1 TTTT
803359 AATTTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 19 0.56
11 1 0.03
12 7 0.21
13 7 0.21
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTAC
Found at i:805324 original size:18 final size:18
Alignment explanation
Indices: 805301--805337 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
805291 CGAAGAAATT
* *
805301 TGAATAATAATGTTAAAA
1 TGAATAAAAATATTAAAA
805319 TGAATAAAAATATTAAAA
1 TGAATAAAAATATTAAAA
805337 T
1 T
805338 AAAATTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TGAATAAAAATATTAAAA
Found at i:805997 original size:23 final size:23
Alignment explanation
Indices: 805965--806009 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
805955 ATCACTCTAC
*
805965 TTTTTCAAATTCAATTATTAATA
1 TTTTTAAAATTCAATTATTAATA
**
805988 TTTTTAAAATTCTTTTATTAAT
1 TTTTTAAAATTCAATTATTAAT
806010 TATAGCTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTAAAATTCAATTATTAATA
Found at i:816311 original size:16 final size:16
Alignment explanation
Indices: 816290--816328 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
816280 TTGATTTGCT
*
816290 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
816306 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
816322 ATTACAC
1 ATTACAC
816329 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:816329 original size:16 final size:16
Alignment explanation
Indices: 816303--816359 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
816293 ACACAGCTTT
* *
816303 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
816319 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
816335 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
816351 TCCAATACA
1 TCCAATACA
816360 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:832543 original size:19 final size:19
Alignment explanation
Indices: 832521--832558 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
832511 TCAATCATCC
832521 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
832540 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
832559 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:851623 original size:13 final size:13
Alignment explanation
Indices: 851580--851615 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
851570 AACAAAAAAT
851580 AAAGAAAAATTAC
1 AAAGAAAAATTAC
851593 AAAGAAAAATTAC
1 AAAGAAAAATTAC
851606 AAAGAAAAAT
1 AAAGAAAAAT
851616 AGAGAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (13 bp):
AAAGAAAAATTAC
Found at i:871901 original size:43 final size:42
Alignment explanation
Indices: 871853--871938 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 42
871843 CTGTGATTTG
871853 ACAATAGTAGAAAGAATATCATTGATATAATTTTTTTTGTGAA
1 ACAATAGTAGAAAGAATATCATTGATATAA-TTTTTTTGTGAA
* *
871896 ACAATAGTAGAAAGGATATCATTGATATCATTTTTTTGTGAA
1 ACAATAGTAGAAAGAATATCATTGATATAATTTTTTTGTGAA
871938 A
1 A
871939 GAATGGGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 13 0.32
43 28 0.68
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (42 bp):
ACAATAGTAGAAAGAATATCATTGATATAATTTTTTTGTGAA
Found at i:876967 original size:32 final size:32
Alignment explanation
Indices: 876906--876973 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
876896 CATATCTAAC
*
876906 CATGCTTGCTAAAAAATTACTCTTTTTTGCCA
1 CATGCTTGCTAAAAAATTACTCTTCTTTGCCA
* *
876938 CATGCTTTGCTCAAAAATTATTC-TCTTTGCCA
1 CATGC-TTGCTAAAAAATTACTCTTCTTTGCCA
876970 CATG
1 CATG
876974 TATCTATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (32 bp):
CATGCTTGCTAAAAAATTACTCTTCTTTGCCA
Found at i:878317 original size:135 final size:135
Alignment explanation
Indices: 878070--878329 Score: 376
Period size: 135 Copynumber: 1.9 Consensus size: 135
878060 CATAGTTCAC
* * * * *
878070 TCATTTTGGTCACTCCTATTAAAATCTCTAATGGAAATCTGACATGACATTTTTTGACATGTAAA
1 TCATTTTGATCACTCATATTAAAATCTCTAACGAAAATCTGACATGACATTTTTTGACACGTAAA
* * *
878135 CCAATCATTAGATGCCACATGGCACAATTTATCATGTCATAAGTGTTGCATACCACTTTACTTAG
66 CCAATCATTAGATGCCACATAGCACAATTTATCACGTCATAAATGTTGCATACCACTTTACTTAG
878200 TTTGT
131 TTTGT
* ** *
878205 TCATTTTGATCACTCATATTAAAATCTCTAACGAAAATTTGACATGACATTTTTTGATGCGTAGA
1 TCATTTTGATCACTCATATTAAAATCTCTAACGAAAATCTGACATGACATTTTTTGACACGTAAA
* * * *
878270 CCAATCCTTGGATGCCACATAGCACAATTTATCACGTTATAAATGTTGCATATCACTTTA
66 CCAATCATTAGATGCCACATAGCACAATTTATCACGTCATAAATGTTGCATACCACTTTA
878330 AAAGACTAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 109 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (135 bp):
TCATTTTGATCACTCATATTAAAATCTCTAACGAAAATCTGACATGACATTTTTTGACACGTAAA
CCAATCATTAGATGCCACATAGCACAATTTATCACGTCATAAATGTTGCATACCACTTTACTTAG
TTTGT
Found at i:886874 original size:19 final size:18
Alignment explanation
Indices: 886852--886891 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
886842 TGAATAAAAC
886852 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
886871 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
886889 TTA
1 TTA
886892 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:897992 original size:27 final size:27
Alignment explanation
Indices: 897960--898020 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
897950 AGCACATAAG
*
897960 TTTCAAACGATATATATTTGAAAACTT
1 TTTCAAACCATATATATTTGAAAACTT
897987 TTTCAAACCATATATATTTGAAAACTT
1 TTTCAAACCATATATATTTGAAAACTT
898014 TTTCAAA
1 TTTCAAA
898021 ACAAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTCAAACCATATATATTTGAAAACTT
Found at i:898167 original size:19 final size:19
Alignment explanation
Indices: 898143--898185 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
898133 TTATAGATTT
898143 TTTTAAA-AAA-AAATTATAA
1 TTTTAAATAAATAAA-TA-AA
898162 TTTTAAATAAATAAATAAA
1 TTTTAAATAAATAAATAAA
898181 TTTTA
1 TTTTA
898186 GAACTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 14 0.64
20 5 0.23
21 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTAAATAAATAAATAAA
Found at i:902147 original size:66 final size:66
Alignment explanation
Indices: 902039--902237 Score: 240
Period size: 66 Copynumber: 3.0 Consensus size: 66
902029 GGTCATCCTC
* * **
902039 CTCCTTGTTCTTCTCTATTTTTT-ATGTACTCCTCTCAATTTAATAACCCCTTTTTGGGGTCTTG
1 CTCCTTGTTCTACTCTATTTTTTAATGTCCTCCTCTTGATTTAATAACCCCTTTTTGGGGTCTTG
902103 T
66 T
* * * * *
902104 CTCCTTGTTCTGCTTTGTTTTTTAATGCCCTCCTCTTGATTTAATAACCCCTTTTGGGGGTCTTG
1 CTCCTTGTTCTACTCTATTTTTTAATGTCCTCCTCTTGATTTAATAACCCCTTTTTGGGGTCTTG
902169 T
66 T
* * * * **
902170 CTCTTTGTTCTACTCTATTTTCTAATTTCCTCCTCTTGGTTTAATAATACC-TTTTGGGGTCCTT
1 CTCCTTGTTCTACTCTATTTTTTAATGTCCTCCTCTTGATTTAATAACCCCTTTTTGGGGT-CTT
902234 GT
65 GT
902236 CT
1 CT
902238 GAGCTTTCAT
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
65 28 0.25
66 85 0.75
ACGTcount: A:0.13, C:0.24, G:0.13, T:0.50
Consensus pattern (66 bp):
CTCCTTGTTCTACTCTATTTTTTAATGTCCTCCTCTTGATTTAATAACCCCTTTTTGGGGTCTTG
T
Found at i:903280 original size:16 final size:17
Alignment explanation
Indices: 903259--903296 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
903249 ACAACAGATT
903259 TATTTTGATTT-TTTTC
1 TATTTTGATTTCTTTTC
**
903275 TATTTTTCTTTCTTTTC
1 TATTTTGATTTCTTTTC
903292 TATTT
1 TATTT
903297 CGGCTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTTTGATTTCTTTTC
Found at i:904030 original size:3 final size:3
Alignment explanation
Indices: 904018--904070 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
904008 ATTATCACCC
*
904018 TTA TTA -TA TTA TTT TTCCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA TTA TTA TTA TTA TTA
904064 TTA TTA T
1 TTA TTA T
904071 ATCATTTACT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
5 2 0.04
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:904247 original size:24 final size:24
Alignment explanation
Indices: 904200--904249 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
904190 TATACATATG
**
904200 TTTTATTTTTTTTATTTTTGTTTT
1 TTTTATTTTTTTTATTTTACTTTT
904224 TTTTATTTTTGTTT-TTTTACTTTT
1 TTTTATTTTT-TTTATTTTACTTTT
904248 TT
1 TT
904250 ATATATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.86
Consensus pattern (24 bp):
TTTTATTTTTTTTATTTTACTTTT
Found at i:904248 original size:15 final size:15
Alignment explanation
Indices: 904200--904241 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
904190 TATACATATG
*
904200 TTTTATTTTTTTTAT
1 TTTTGTTTTTTTTAT
904215 TTTTGTTTTTTTTAT
1 TTTTGTTTTTTTTAT
904230 TTTTGTTTTTTT
1 TTTTGTTTTTTT
904242 ACTTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.88
Consensus pattern (15 bp):
TTTTGTTTTTTTTAT
Found at i:905459 original size:17 final size:17
Alignment explanation
Indices: 905429--905464 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
905419 GTGTGTTTTG
* *
905429 TTTTGGCTGCATGACAT
1 TTTTGACTGAATGACAT
905446 TTTTGACTGAATGACAT
1 TTTTGACTGAATGACAT
905463 TT
1 TT
905465 CATTATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (17 bp):
TTTTGACTGAATGACAT
Found at i:905931 original size:19 final size:18
Alignment explanation
Indices: 905907--905952 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
905897 AACGTCTCTT
*
905907 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
905926 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
905945 TATGCATT
1 TTTGCATT
905953 AGACACCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:908801 original size:7 final size:7
Alignment explanation
Indices: 908789--908831 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
908779 AAATGACGAG
908789 ATGAAAA
1 ATGAAAA
908796 ATGAAAA
1 ATGAAAA
908803 AGTG-AAA
1 A-TGAAAA
908810 ATGAAAA
1 ATGAAAA
*
908817 CTGAAAA
1 ATGAAAA
908824 ATGGAAAA
1 AT-GAAAA
908832 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 22 0.71
8 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.19, T:0.14
Consensus pattern (7 bp):
ATGAAAA
Found at i:908810 original size:14 final size:13
Alignment explanation
Indices: 908793--908839 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
908783 GACGAGATGA
908793 AAAATGAAAAAGTG
1 AAAATG-AAAAGTG
*
908807 AAAATGAAAACTG
1 AAAATGAAAAGTG
908820 AAAAATGGAAAAGT-
1 -AAAAT-GAAAAGTG
908834 AAAATG
1 AAAATG
908840 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 11 0.38
15 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:910316 original size:133 final size:132
Alignment explanation
Indices: 910142--910876 Score: 1025
Period size: 133 Copynumber: 5.6 Consensus size: 132
910132 GACAGCGAAA
* *
910142 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * ** ** **
910207 TATTTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTTCTACA-TAGACAGC
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTACAGTAG-CAG-
* *
910271 GAAA
129 GGAG
* *
910275 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
910340 TATCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAGTAG--T
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-A-CAGTAGCAG
910403 GGAG
129 GGAG
* *
910407 CAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* *
910472 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGTAG-TG
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-A-CAGTAGCAG
910536 GGAG
129 GGAG
* *
910540 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTCACAGTGGAGTACATTGAGGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
910605 TATCTCCCTGGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGC-G
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT-A-CAGTAGCAG
910669 GGAG
129 GGAG
*
910673 CAGATCAAAGATGGCAGATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * * * *
910738 TATCTCCTTAGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCATA-AGCAGTAGTG
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTACAGTAGCAG-G
910802 GAG
130 GAG
* * *
910805 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTAGAGTATATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
910870 TAT-TCCC
66 TATCTCCC
910877 CCGGTCGGTA
Statistics
Matches: 555, Mismatches: 40, Indels: 16
0.91 0.07 0.03
Matches are distributed among these distances:
130 4 0.01
131 4 0.01
132 190 0.34
133 351 0.63
134 1 0.00
135 2 0.00
136 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (132 bp):
CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTACAGTAGCAGGG
AG
Found at i:910630 original size:265 final size:266
Alignment explanation
Indices: 910142--910876 Score: 1095
Period size: 265 Copynumber: 2.8 Consensus size: 266
910132 GACAGCGAAA
* *
910142 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * ** ** ** *
910207 TATTTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTTCT-A-CA-TAGACA
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG--T
* * * *
910269 GCGAAACAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAG
129 G-GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
* *
910334 TAATTCTATCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
193 TAATTCTATCTCCCTGGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
*
910399 TAG-TGGAG
258 TAGCGGGAG
* *
910407 CAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
910472 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGTAGTGG
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
910537 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTCACAGTGGAGTACATTGAGGCCAGTAA
131 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
* *
910602 TTCTATCTCCCTGGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
196 TTCTATCTCCCTGGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAGTAG
910667 CGGGAG
261 CGGGAG
*
910673 CAGATCAAAGATGGCAGATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * * *
910738 TATCTCCTTAGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCATAAGCAGTAGT-G
66 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * *
910802 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTAGAGTATATTGAAGCCAGTAA
131 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
910867 TTCTAT-TCCC
196 TTCTATCTCCC
910877 CCGGTCGGTA
Statistics
Matches: 427, Mismatches: 39, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
264 4 0.01
265 292 0.68
266 126 0.30
267 2 0.00
268 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (266 bp):
CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAGTAG
CGGGAG
Found at i:910837 original size:398 final size:397
Alignment explanation
Indices: 910142--910876 Score: 1134
Period size: 398 Copynumber: 1.8 Consensus size: 397
910132 GACAGCGAAA
* *
910142 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTCACAGTGGAGTACATTGAAGCCAGTAATTC
* * * ** * **
910207 TATTTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTTCTACATAGACAGCG
66 TATCTCCCTGGGAAACAGTGGAATAGACTGAAGATTACAGATCTTACCTCCCTACATAGACAGCG
*
910272 AAACAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGATTACATTGAAGCCAGTAA
131 AAACAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * *
910337 TTCTATCTCCCTGGGCAGCAGCGGAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAGTAG
196 TTCTATCTCCCTAGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCATAACCAGTAG
* *
910402 TGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGT
261 TGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTAAAGCCAGT
910467 AATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGT
326 AATTCTAT-TCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGT
910532 AGTGGGAG
390 AGTGGGAG
* *
910540 CAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTCACAGTGGAGTACATTGAGGCCAGTAATTC
1 CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTCACAGTGGAGTACATTGAAGCCAGTAATTC
* *
910605 TATCTCCCTGGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG-C-
66 TATCTCCCTGGGAAACAGTGGAATAGACTGAAGATTACAGATCTTACCTCCCT-A-CA-TAGACA
* * * *
910668 G-GGAGCAGATCAAAGATGGCAGATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAG
128 GCGAAACAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAG
* * *
910732 TAATTCTATCTCCTTAGGAAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCATAAGCAG
193 TAATTCTATCTCCCTAGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCATAACCAG
* * *
910797 TAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTAGAGTATATTGAAGCC
258 TAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTAAAGCC
910862 AGTAATTCTATTCCC
323 AGTAATTCTATTCCC
910877 CCGGTCGGTA
Statistics
Matches: 303, Mismatches: 31, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
397 4 0.01
398 291 0.96
399 2 0.01
400 3 0.01
401 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (397 bp):
CAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTCACAGTGGAGTACATTGAAGCCAGTAATTC
TATCTCCCTGGGAAACAGTGGAATAGACTGAAGATTACAGATCTTACCTCCCTACATAGACAGCG
AAACAGATCAAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTAGGAAACAGCGGAATAGATTGAAGATTACAGATCTTATCTCCATAACCAGTAG
TGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTAAAGCCAGT
AATTCTATTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAAGCAGTA
GTGGGAG
Found at i:911742 original size:17 final size:17
Alignment explanation
Indices: 911720--911758 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
911710 ACAACAGATT
*
911720 TATTTTGATTTTTTTTC
1 TATTTTGATTTCTTTTC
**
911737 TATTTTTCTTTCTTTTC
1 TATTTTGATTTCTTTTC
911754 TATTT
1 TATTT
911759 CGGCTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (17 bp):
TATTTTGATTTCTTTTC
Found at i:914239 original size:174 final size:174
Alignment explanation
Indices: 913949--914298 Score: 682
Period size: 174 Copynumber: 2.0 Consensus size: 174
913939 TTTAAATGTG
**
913949 TATAAATCTATAATCTTAAAATTAATCGTATTTATTATAATAAGGCTAATGAGTCTAAAAAAGCC
1 TATAAATCTATAATAATAAAATTAATCGTATTTATTATAATAAGGCTAATGAGTCTAAAAAAGCC
914014 TCAGTAAAAAAAATCAAAAAAATCAATTGGAACCTTGAGTCCTCAATCCCTTAAAAAAGTCAATT
66 TCAGTAAAAAAAATCAAAAAAATCAATTGGAACCTTGAGTCCTCAATCCCTTAAAAAAGTCAATT
914079 AGACCCTTCTATTTACAAAAACTATCATTGACTGGTTTGATTGT
131 AGACCCTTCTATTTACAAAAACTATCATTGACTGGTTTGATTGT
914123 TATAAATCTATAATAATAAAATTAATCGTATTTATTATAATAAGGCTAATGAGTCTAAAAAAGCC
1 TATAAATCTATAATAATAAAATTAATCGTATTTATTATAATAAGGCTAATGAGTCTAAAAAAGCC
914188 TCAGTAAAAAAAATCAAAAAAATCAATTGGAACCTTGAGTCCTCAATCCCTTAAAAAAGTCAATT
66 TCAGTAAAAAAAATCAAAAAAATCAATTGGAACCTTGAGTCCTCAATCCCTTAAAAAAGTCAATT
914253 AGACCCTTCTATTTACAAAAACTATCATTGACTGGTTTGATTGT
131 AGACCCTTCTATTTACAAAAACTATCATTGACTGGTTTGATTGT
914297 TA
1 TA
914299 ACAACTGATG
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (174 bp):
TATAAATCTATAATAATAAAATTAATCGTATTTATTATAATAAGGCTAATGAGTCTAAAAAAGCC
TCAGTAAAAAAAATCAAAAAAATCAATTGGAACCTTGAGTCCTCAATCCCTTAAAAAAGTCAATT
AGACCCTTCTATTTACAAAAACTATCATTGACTGGTTTGATTGT
Found at i:928829 original size:45 final size:45
Alignment explanation
Indices: 928728--928839 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
928718 CAGATCGAGT
* **
928728 CTTATCTCCCTGAAGTTGCAGT-AGAGCAGACTAAGTAGGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAATAGGCAAAA
*
928772 TTTATC-CTCCTGAAGTTGCAGTGAGA-CAGACTGAAA-ATGGCAAAA
1 CTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAATA-GGCAAAA
*
928817 CTTATCTCCCTGAAGTTACAGTG
1 CTTATCTCCCTGAAGTTGCAGTG
928840 GAACAGATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 1 0.02
44 26 0.46
45 29 0.51
46 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAATAGGCAAAA
Found at i:928874 original size:89 final size:88
Alignment explanation
Indices: 928727--929486 Score: 344
Period size: 89 Copynumber: 8.8 Consensus size: 88
928717 ACAGATCGAG
* * ** * **
928727 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGTAGGCAAGTTTTATCCTC-CTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA-TCCTAT-CTCGCTGAAGTTG
928790 CAGTGAGACAGACTGAAAATGGCAAA
64 CAGTGAG-CAGACTGAAAATGGCAAA
* * *
928816 ACTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
* * **** *
928881 GTGAGCTGA-TTAAAACCTTAGA
66 GTGAGCAGACTGAAAATGGCAAA
* * * ** * * *
928903 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T---CCCATTTAGTCTTATC-CTTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-GGTAATCCTATCTC-GCTGAAGTTG
*
928962 CAGTGAGGCAGACTGAAGATGGCAAA
64 CAGTGA-GCAGACTGAAAATGGCAAA
*
928988 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
* * * *** *
929053 GTGGGCGGA-TTAAAATCTTAGA
66 GTGAGCAGACTGAAAATGGCAAA
* * ** *** * * * *
929075 TCTTATCTCTCTGAAATTGCA-AAGAGCAGATT---GCATCTAGTCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
** *
929136 GTGGAGTGGACT-AAGTAA--GCAAG
66 GT-GAGCAGACTGAA--AATGGCAAA
* * * ** * *
929159 TCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGGT-AATCCTATCTCGCTGAAGTT
* ** *
929222 GCAGTGGAGCAGA-TTAAAGCCGG-TAA
63 GCAGT-GAGCAGACTGAAA-ATGGCAAA
* * * * * *
929248 TCCTATC-CCGCTGAAGTTGCAGTGG-GCGGATTAAAACC-TTAGATCTTATCTCTCTGAAGTTG
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTA-ATCCTATCTCGCTGAAGTT-
** * * *
929310 GC-GAAAGCAGA-TCG--TAT--CTAG
63 GCAGTGAGCAGACT-GAAAATGGCAAA
* * * *** * *
929331 TCTTATCTCCCTAAAGTTGCAGTGGAGCGGACT-AAGTAAGCAAGTCTTATCCTC-CTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA-TCCTAT-CTCGCTGAAGTTG
* *
929394 CAATGAGGCAGACTGAAGATGGCAAA
64 CAGTGA-GCAGACTGAAAATGGCAAA
* * *
929420 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTTC-CTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATC-TCGCTGAAGTTGC
929484 AGT
65 AGT
929487 AAAGTGGATT
Statistics
Matches: 497, Mismatches: 127, Indels: 94
0.69 0.18 0.13
Matches are distributed among these distances:
82 3 0.01
83 75 0.15
84 54 0.11
85 43 0.09
86 33 0.07
87 76 0.15
88 24 0.05
89 171 0.34
90 18 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
GTGAGCAGACTGAAAATGGCAAA
Found at i:928883 original size:44 final size:44
Alignment explanation
Indices: 928727--929585 Score: 311
Period size: 44 Copynumber: 19.9 Consensus size: 44
928717 ACAGATCGAG
* * ** *
928727 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGTAGGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * ** *
928770 GTTTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAA-ATGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTAAAGCCGG-TAA
* * *
928816 ACTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * * * *
928860 TCCTATCTCGCTGAAGTTGCAGT-GAGCTGATTAAAACC-TTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTA-A
* * * ** *
928903 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T---CCCATTTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-GGTAA
* * * ** *
928943 TCTTATC-CTTCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGG-TAA
*
928988 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * * ** *
929032 TCCTATCTCGCTGAAGTTGCAGTGG-GCGGATTAAAATC-TTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTA-A
* * ** *** *
929075 TCTTATCTCTCTGAAATTGCA-AAGAGCAGATT---GCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* ** * *** *
929115 TCTTATCTCCCTGAAGTTACAGTGGAGTGGACT-AAGTAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * * **
929158 GTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGTAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGGT-AA
929204 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * * *
929248 TCCTATC-CCGCTGAAGTTGCAGTGG-GCGGATTAAAACC-TTAGA
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTA-A
* ** *** * *
929291 TCTTATCTCTCTGAAGTTGGC-G-AAAGCAGATCGTA-TC--TAG
1 TCTTATCTCCCTGAAGTT-GCAGTGGAGCAGATTAAAGCCGGTAA
* * * *** *
929331 TCTTATCTCCCTAAAGTTGCAGTGGAGCGGACT-AAGTAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * * ** *
929374 GTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTGAAGATGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGG-TAA
* * *
929420 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * ** ** *
929464 TCCTATCTTCCTGAAGTTGCAGTAAAGTGGATTAAAACCTTGG--A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC--GGTAA
* * * * * *
929508 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCATA-TC--TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
* * *
929548 TCTTATCTCCCTGAAGTTGCAGAGGAGTAGATTGAAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
929586 ACTAGTTCCT
Statistics
Matches: 607, Mismatches: 150, Indels: 118
0.69 0.17 0.13
Matches are distributed among these distances:
39 5 0.01
40 79 0.13
41 32 0.05
42 11 0.02
43 131 0.22
44 202 0.33
45 126 0.21
46 21 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGTAA
Found at i:929021 original size:172 final size:172
Alignment explanation
Indices: 928773--929138 Score: 572
Period size: 172 Copynumber: 2.1 Consensus size: 172
928763 TAGGCAAGTT
*
928773 TTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAAATGGCAAAACTTATCTCCCTGAAGTTACAG
1 TTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAAATGGCAAAACTTATCTCCCTGAAGTTACAA
*
928838 TGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCTGATTAAAACCTTAGA
66 TGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGA
* * *
928903 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCCCATTTAGTC
131 TCTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
* * * * *
928945 TTATCCTTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAA
1 TTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAAATGGCAAAACTTATCTCCCTGAAGTTACAA
* * *
929010 TGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAATCTTAGA
66 TGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGA
**
929075 TCTTATCTCTCTGAAATTGCAAAGAGCAGATTGCATCTAGTC
131 TCTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
*
929117 TTAT-CTCCCTGAAGTTACAGTG
1 TTATCCT-CCTGAAGTTGCAGTG
929139 GAGTGGACTA
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
171 2 0.01
172 174 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (172 bp):
TTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAAATGGCAAAACTTATCTCCCTGAAGTTACAA
TGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGA
TCTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
Found at i:929163 original size:216 final size:216
Alignment explanation
Indices: 928941--929575 Score: 1013
Period size: 216 Copynumber: 2.9 Consensus size: 216
928931 GATCCCATTT
*
928941 AGTCTTATCCTTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
929006 GCAATGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAATCT
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCT
* * * *
929071 TAGATCTTATCTCTCTGAAATTGCAAAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTACA
131 TAGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCA
929136 GTGGAGTGGACTAAGTAAGCA
196 GTGGAGTGGACTAAGTAAGCA
* *
929157 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
929222 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCCCGCTGAAGTTGCAGTGGGCGGATTAAAACCT
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCT
* *
929287 TAGATCTTATCTCTCTGAAGTTGGCGAA-AGCAGATCGTATCTAGTCTTATCTCCCTAAAGTTGC
131 TAGATCTTATCTCTCTGAAGTT-GCAAAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGC
*
929351 AGTGGAGCGGACTAAGTAAGCA
195 AGTGGAGTGGACTAAGTAAGCA
*
929373 AGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * * ** *
929438 ACAGTGGAGCAGATTAAAGTCGATAATCCTATCTTC-CTGAAGTTGCAGTAAAGTGGATTAAAAC
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATC-TCGCTGAAGTTGCAGT-GGGCGGATTAAAAC
* * *
929502 CTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCATATCTAGTCTTATCTCCCTGAAGTTG
129 CTTAGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTG
*
929567 CAGAGGAGT
194 CAGTGGAGT
929576 AGATTGAAGC
Statistics
Matches: 385, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
216 306 0.79
217 79 0.21
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (216 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCT
TAGATCTTATCTCTCTGAAGTTGCAAAGAGCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGCA
GTGGAGTGGACTAAGTAAGCA
Found at i:929220 original size:172 final size:171
Alignment explanation
Indices: 928773--929239 Score: 532
Period size: 172 Copynumber: 2.7 Consensus size: 171
928763 TAGGCAAGTT
* * * * * *
928773 TTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAAATGGCAAAACTTATCTCCCTGAAGTTACAG
1 TTATCCTCCTGAAGTTACAGTGAG-GAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTACAA
* * * * *
928838 TGGAACAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCTGATTAAAACCTTAGA
65 TGGAGCAGACTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATTAAAACCTTAGA
* * *
928903 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCCCATTTAGTC
130 TCTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
* * * *
928945 TTATCCTTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAA
1 TTATCCTCCTGAAGTTACAGTGAGG-AGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTACAA
* * * *
929010 TGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAATCTTAGA
65 TGGAGCAGACTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATTAAAACCTTAGA
**
929075 TCTTATCTCTCTGAAATTGCAAAGAGCAGATTGCATCTAGTC
130 TCTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
*
929117 TTAT-CTCCCTGAAGTTACAGTGGAGTG-GACT-AAG-TAAGCAAGTCTTATC-CTCCTGAAGTT
1 TTATCCT-CCTGAAGTTACAGT-GAG-GAGACTGAAGAT-AGCAAATCTTATCTC-CCTGAAGTT
* * * * *
929177 ACAGT-GAGGCAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
61 ACAATGGA-GCAGACTAAAGACGGT-AATCCTATCTCGCTGAAGTTGCAGTGG-GCAGATTAAA
929240 GCCGGTAATC
Statistics
Matches: 258, Mismatches: 28, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
170 4 0.02
171 40 0.16
172 201 0.78
173 12 0.05
174 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (171 bp):
TTATCCTCCTGAAGTTACAGTGAGGAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTACAAT
GGAGCAGACTAAAGACGGTAATCCTATCTCGCTGAAGTTGCAGTGGGCAGATTAAAACCTTAGAT
CTTATCTCTCTGAAATTGCAAAGAGCAGATCCCATCTAGTC
Found at i:931132 original size:29 final size:27
Alignment explanation
Indices: 931084--931154 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 27
931074 TAAACTAATG
* * *
931084 TTTTTTTCATATTTATATGTTTACATT
1 TTTTTTTAATTTTTATATGTTGACATT
931111 TTTTTTTAATTTTTGATAATGTTGACATT
1 TTTTTTTAATTTTT-AT-ATGTTGACATT
* **
931140 ATTTAATAATTTTTA
1 TTTTTTTAATTTTTA
931155 ATATATTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 12 0.33
28 3 0.08
29 21 0.58
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (27 bp):
TTTTTTTAATTTTTATATGTTGACATT
Found at i:945379 original size:73 final size:73
Alignment explanation
Indices: 945260--945407 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
945250 TAAAAAGATG
*
945260 AAGCTATTTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATT
1 AAGCTAATTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATT
945325 TGTATTAA
66 TGTATTAA
* *
945333 AAGCTAATTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCTCGACTTTCGTT
1 AAGCTAATTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATT
945398 TGTATTAA
66 TGTATTAA
945406 AA
1 AA
945408 ATAAATATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.42
Consensus pattern (73 bp):
AAGCTAATTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATT
TGTATTAA
Found at i:945506 original size:14 final size:15
Alignment explanation
Indices: 945487--945515 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
945477 GTGAACTAGT
945487 AAAAAGAGA-AGAAA
1 AAAAAGAGATAGAAA
945501 AAAAAGAGATAGAAA
1 AAAAAGAGATAGAAA
945516 TCTATATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAAAGAGATAGAAA
Found at i:949618 original size:390 final size:390
Alignment explanation
Indices: 948887--949620 Score: 1026
Period size: 390 Copynumber: 1.9 Consensus size: 390
948877 CTCAGGAAGG
* * * * *
948887 ATTATTCATGATTGTAAATAAATGAACTTTGGTTGTTATCGTAAATTAGTGAGCCTTAATAATAT
1 ATTATTCATGATAGTAAATAAATAAACTTAGGTTGTTATCGTAAATCAGCGAGCCTTAATAATAT
* ** * * * *
948952 CAGCTATGATATTAAATCTATGAATTGTTTGGAGTAGCAATAGTAAATGAACTAACTTAGAGAAG
66 CAACTATGATATTAAATCTAACAACTATTTGGAGTAGCAATAGTAAATCAACTAACTTAGAAAAG
* * *
949017 ATTGTTCATGATATTAAATCAATGAATTTAGGCCGTGATCGTAAATCAATGAGCCTTAACAATAT
131 ATTGTTCATGATAGTAAATCAATGAACTTAGGCCGTAATCGTAAATCAATGAGCCTTAACAATAT
* *** * * * * *
949082 CAGCTGTGATATTAAACCAGTGAGCTGTTTGGAGTAGAGATAATTAATCAGCTAACTCATAGAAG
196 CAACTGTGATATTAAACCAACAAGCTATTTGGAGTAGAGATAATAAATCAACTAACTCAGAAAAG
* * *
949147 ATTTTACATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAGCCTTAATAATAT
261 ATTTTACATGATAATAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCCTTAATAATAT
949212 CAATTGTGACCTTAAATCAGCGAGCTATTTGAAGTAACGATAGTAAATCAACTAACTTAGAGAAT
326 CAATTGTGACCTTAAATCAGCGAGCTATTTGAAGTAACGATAGTAAATCAACTAACTTAGAGAAT
*
949277 ATTATTCATGATAGTAAATTAATAAACTTAGGTT-TTGATCGTAAATCAGCGAGCCTTAATAATA
1 ATTATTCATGATAGTAAATAAATAAACTTAGGTTGTT-ATCGTAAATCAGCGAGCCTTAATAATA
* *
949341 TCAACTGTGATATTAAATC-AACAAGCTATTTGGAGTAGCGATAGTAAATCAACTAACTTAGAAA
65 TCAACTATGATATTAAATCTAACAA-CTATTTGGAGTAGCAATAGTAAATCAACTAACTTAGAAA
* * ** *
949405 AGATTGTTTATGATAGTAAATTAATGAACTTAGGTTGTAATCGTAAATCAATGAGCCTTAATAAT
129 AGATTGTTCATGATAGTAAATCAATGAACTTAGGCCGTAATCGTAAATCAATGAGCCTTAACAAT
* * * *
949470 ATCAACTGTGATATTAAATCAACAAGTTATTTGGAGTAGAGATAGTAAATCAACTAACTTAGAAA
194 ATCAACTGTGATATTAAACCAACAAGCTATTTGGAGTAGAGATAATAAATCAACTAACTCAGAAA
* *
949535 AGATTATT-CATGATAATAAATCATTGAACTTAAGCTGTGATCGTAAATTAACGAGCCTTAATAA
259 AGATT-TTACATGATAATAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCCTTAATAA
*
949599 TATC-ATCTGTGATCTTAAATCA
323 TATCAAT-TGTGACCTTAAATCA
949621 ACAAGTTGTT
Statistics
Matches: 298, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
389 7 0.02
390 289 0.97
391 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (390 bp):
ATTATTCATGATAGTAAATAAATAAACTTAGGTTGTTATCGTAAATCAGCGAGCCTTAATAATAT
CAACTATGATATTAAATCTAACAACTATTTGGAGTAGCAATAGTAAATCAACTAACTTAGAAAAG
ATTGTTCATGATAGTAAATCAATGAACTTAGGCCGTAATCGTAAATCAATGAGCCTTAACAATAT
CAACTGTGATATTAAACCAACAAGCTATTTGGAGTAGAGATAATAAATCAACTAACTCAGAAAAG
ATTTTACATGATAATAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCCTTAATAATAT
CAATTGTGACCTTAAATCAGCGAGCTATTTGAAGTAACGATAGTAAATCAACTAACTTAGAGAAT
Found at i:949627 original size:130 final size:130
Alignment explanation
Indices: 948868--949625 Score: 878
Period size: 130 Copynumber: 5.8 Consensus size: 130
948858 TATTATCATG
* * * * * * *
948868 AATCAAC-AACTCAGGAAGGATTATTCATGATTGTAAATAAATGAACTTTGGTTGTTATCGTAAA
1 AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
* ** * * ** * *
948932 TTAGTGAGCCTTAATAATATCAGCTATGATATTAAATCTATGAA-TTGTTTGGAGTAGCA-ATAG
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATC-AACAAGCTATTTGGAGTAG-AGATAG
948995 TA
129 TA
* * * * * **
948997 AATGAACTAACTTAGAGAAGATTGTTCATGATATTAAATCAATGAATTTAGGCCGTGATCGTAAA
1 AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
* * * * *** * * *
949062 TCAATGAGCCTTAACAATATCAGCTGTGATATTAAACCAGTGAGCTGTTTGGAGTAGAGATAATT
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGAGATAGTA
* * * *
949127 AATCAGCTAACTCATAGAAGATT-TTACATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAA
1 AATCAACTAACTTAGAAAAGATTATT-CATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAA
* ** * * *
949191 ATCAACGAGCCTTAATAATATCAATTGTGACCTTAAATCAGCGAGCTATTTGAAGTA-ACGATAG
65 ATCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGA-GATAG
949255 TA
129 TA
* * * * *
949257 AATCAACTAACTTAGAGAATATTATTCATGATAGTAAATTAATAAACTTAGGTTTTGATCGTAAA
1 AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
* *
949322 TCAGCGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGCGATAGTA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGAGATAGTA
* * * *
949387 AATCAACTAACTTAGAAAAGATTGTTTATGATAGTAAATTAATGAACTTAGGTTGTAATCGTAAA
1 AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
* *
949452 TCAATGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGTTATTTGGAGTAGAGATAGTA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGAGATAGTA
* * * *
949517 AATCAACTAACTTAGAAAAGATTATTCATGATAATAAATCATTGAACTTAAGCTGTGATCGTAAA
1 AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
* * *
949582 TTAACGAGCCTTAATAATATCATCTGTGATCTTAAATCAACAAG
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAG
949626 TTGTTTTACA
Statistics
Matches: 539, Mismatches: 83, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
129 12 0.02
130 525 0.97
131 2 0.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (130 bp):
AATCAACTAACTTAGAAAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAA
TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAACAAGCTATTTGGAGTAGAGATAGTA
Found at i:956339 original size:69 final size:69
Alignment explanation
Indices: 956264--956486 Score: 170
Period size: 69 Copynumber: 3.1 Consensus size: 69
956254 ACCATATATA
956264 AAATAAAATATAAATAGAATTATTTATATTTAATCTGTTAAATATAAAAAAAAACCGTAACAGAA
1 AAATAAAATATAAATAGAATTATTTATATTTAATCTGTTAAATATAAAAAAAAACCGTAACAGAA
956329 GTTG
66 GTTG
* * * * ** * * *
956333 AAATAAAA-AGGAAGGAAAAAGATT-TTACGATATGTTGAGGCCTGTGAAAACATAAATAAATAA
1 AAATAAAATA-TAA--ATAGA-ATTATT--TATAT-TT-A-ATCTGT-TAAATATAAA-AAAAAA
* * *
956396 ---TAAAACCATA-TATA
55 CCGTAACA-GA-AGT-TG
956410 AAATAAAATATAAATAGAATTATTTATATTTAATCTGTTAAATATAAAAAAAAACCGTAACAGAA
1 AAATAAAATATAAATAGAATTATTTATATTTAATCTGTTAAATATAAAAAAAAACCGTAACAGAA
956475 GTTG
66 GTTG
956479 AAATAAAA
1 AAATAAAA
956487 AGGAAGGAAA
Statistics
Matches: 110, Mismatches: 24, Indels: 40
0.63 0.14 0.23
Matches are distributed among these distances:
68 6 0.05
69 28 0.25
70 6 0.05
71 10 0.09
72 5 0.05
73 8 0.07
74 5 0.05
75 10 0.09
76 6 0.05
77 20 0.18
78 6 0.05
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (69 bp):
AAATAAAATATAAATAGAATTATTTATATTTAATCTGTTAAATATAAAAAAAAACCGTAACAGAA
GTTG
Found at i:956401 original size:146 final size:147
Alignment explanation
Indices: 956237--956530 Score: 581
Period size: 146 Copynumber: 2.0 Consensus size: 147
956227 ATCGAACAAA
956237 ATAAATAAATAAATAAAACCATATATAAAATAAAATATAAATAGAATTATTTATATTTAATCTGT
1 ATAAATAAATAAATAAAACCATATATAAAATAAAATATAAATAGAATTATTTATATTTAATCTGT
956302 TAAATATAAAAAAAAACCGTAACAGAAGTTGAAATAAAAAGGAAGGAAAAAGATTTTACGATATG
66 TAAATATAAAAAAAAACCGTAACAGAAGTTGAAATAAAAAGGAAGGAAAAAGATTTTACGATATG
956367 TTGAGGCCTGTGAAAAC
131 TTGAGGCCTGTGAAAAC
956384 ATAAATAAAT-AATAAAACCATATATAAAATAAAATATAAATAGAATTATTTATATTTAATCTGT
1 ATAAATAAATAAATAAAACCATATATAAAATAAAATATAAATAGAATTATTTATATTTAATCTGT
956448 TAAATATAAAAAAAAACCGTAACAGAAGTTGAAATAAAAAGGAAGGAAAAAGATTTTACGATATG
66 TAAATATAAAAAAAAACCGTAACAGAAGTTGAAATAAAAAGGAAGGAAAAAGATTTTACGATATG
956513 TTGAGGCCTGTGAAAAC
131 TTGAGGCCTGTGAAAAC
956530 A
1 A
956531 CAGTTTCCTT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 137 0.93
147 10 0.07
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (147 bp):
ATAAATAAATAAATAAAACCATATATAAAATAAAATATAAATAGAATTATTTATATTTAATCTGT
TAAATATAAAAAAAAACCGTAACAGAAGTTGAAATAAAAAGGAAGGAAAAAGATTTTACGATATG
TTGAGGCCTGTGAAAAC
Found at i:956865 original size:20 final size:19
Alignment explanation
Indices: 956840--956886 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
956830 GGGGCAATTG
956840 AATTAATTTGATTAAAATCA
1 AATTAATTT-ATTAAAATCA
*
956860 AATTAAATTTATTAGAATCA
1 AATT-AATTTATTAAAATCA
956880 AA-TAATT
1 AATTAATT
956887 CAAGATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 1 0.04
20 15 0.60
21 5 0.20
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTAATTTATTAAAATCA
Found at i:959104 original size:15 final size:15
Alignment explanation
Indices: 959084--959113 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
959074 AAAGAAAATA
959084 TTTTAAAAATTTCTT
1 TTTTAAAAATTTCTT
*
959099 TTTTAAATATTTCTT
1 TTTTAAAAATTTCTT
959114 AACATACCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAAAATTTCTT
Found at i:962864 original size:96 final size:93
Alignment explanation
Indices: 962700--962944 Score: 274
Period size: 96 Copynumber: 2.6 Consensus size: 93
962690 CTAGTTAACC
* * * * * *
962700 TGAGATTAAAATTAAATTTTTAATCAAAATAGTAAACAAATATCACTTATTTATAAGGTAAATGT
1 TGAGATTAAAATTAAATTTTTAATAAAAATAGTGAAGAATTGTCACTTATTTATAAGGTAAATAT
* * *
962765 GAGATATGAGGGTGTTCCCTAGTCAAAG
66 GAGACATGAGAGTGTTCCCTACTCAAAG
* * * *
962793 TGAGATTAAAACTAATTTTTTTTAATGAAAATAGTGAAGAAGTTGTCACTTATTTATAAGTTAAA
1 TGAGATTAAAATTAA--ATTTTTAATAAAAATAGTGAAGAA-TTGTCACTTATTTATAAGGTAAA
* *
962858 TATGAGACATGAGAGTGTTCTCTACTCAACG
63 TATGAGACATGAGAGTGTTCCCTACTCAAAG
* * * * *
962889 TGAGATTAAGATTAACTTTTAAATAAAAATAATGAAGAAATTGACACTTATTTATA
1 TGAGATTAAAATTAAATTTTTAATAAAAATAGTGAAG-AATTGTCACTTATTTATA
962945 GGATAAGTGT
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
93 14 0.11
94 33 0.26
95 22 0.17
96 58 0.46
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (93 bp):
TGAGATTAAAATTAAATTTTTAATAAAAATAGTGAAGAATTGTCACTTATTTATAAGGTAAATAT
GAGACATGAGAGTGTTCCCTACTCAAAG
Found at i:963175 original size:94 final size:92
Alignment explanation
Indices: 963026--963217 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 92
963016 GTATTTTGTA
* * * * *
963026 ATCAATGTGAGATTAAAATTAACTTTTTTATGAAAATAGGGAAGAAATTGTCACTTACTTATAAG
1 ATCAATATGAGATTAAAATTAACCTTTTAATGAAAATAAGGAAGAAATTGACACTTACTTATAAG
*
963091 TTAAATATGAGATATGAGAGTGTTCTCT
66 GTAAATATGAG-TATGAGAGTGTTCTCT
* *
963119 AGTCAATATGAGATTAAAATTAACCTTTTAATGAAAATAATGAAGAAATTGACACTTATTTATAA
1 A-TCAATATGAGATTAAAATTAACCTTTTAATGAAAATAAGGAAGAAATTGACACTTACTTATAA
* * * *
963184 GGTAAGTGTGAGCATGAGAGTGTTCCCT
65 GGTAAATATGAGTATGAGAGTGTTCTCT
963212 ATCAAT
1 ATCAAT
963218 GTAGGATTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 5 0.06
93 16 0.19
94 65 0.76
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (92 bp):
ATCAATATGAGATTAAAATTAACCTTTTAATGAAAATAAGGAAGAAATTGACACTTACTTATAAG
GTAAATATGAGTATGAGAGTGTTCTCT
Found at i:964118 original size:17 final size:19
Alignment explanation
Indices: 964096--964134 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
964086 TTTTATAATT
964096 AAAATAAAT-AAATAT-TA
1 AAAATAAATAAAATATGTA
*
964113 AAAATAATTAAAATATGTA
1 AAAATAAATAAAATATGTA
964132 AAA
1 AAA
964135 TATTATGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATAAATAAAATATGTA
Found at i:964135 original size:18 final size:16
Alignment explanation
Indices: 964093--964136 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
964083 TTATTTTATA
964093 ATTAAAATAAATAAAT
1 ATTAAAATAAATAAAT
*
964109 ATTAAAAATAATTAAAAT
1 ATT-AAAATAAAT-AAAT
964127 ATGTAAAATA
1 AT-TAAAATA
964137 TTATGATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 12 0.50
19 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATTAAAATAAATAAAT
Found at i:964479 original size:20 final size:20
Alignment explanation
Indices: 964456--964498 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
964446 AAAATAAGTT
964456 TAATTTAATATAGATAATGA
1 TAATTTAATATAGATAATGA
964476 TAATTTAATATAGATAATGA
1 TAATTTAATATAGATAATGA
964496 TAA
1 TAA
964499 GAGTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TAATTTAATATAGATAATGA
Found at i:966900 original size:18 final size:19
Alignment explanation
Indices: 966858--966907 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
966848 TTCCTGAGCT
966858 TTATTTT-TTTCTTTTACG
1 TTATTTTCTTTCTTTTACG
* *
966876 TT-CTTTCTTTCTTTTTC-
1 TTATTTTCTTTCTTTTACG
*
966893 TTATTTTCCTTCTTT
1 TTATTTTCTTTCTTT
966908 CCTTTTCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTTCTTTCTTTTACG
Found at i:974896 original size:23 final size:22
Alignment explanation
Indices: 974865--974933 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
974855 TTTTGTTATA
* *
974865 TACATTATATATATATACGTTT
1 TACAATATATATATATACATTT
*
974887 CTACAATATATATATACACATTT
1 -TACAATATATATATATACATTT
* *
974910 TTCTAATATATATACATACATTT
1 TAC-AATATATATATATACATTT
974933 T
1 T
974934 TTAAAGTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.39, C:0.13, G:0.01, T:0.46
Consensus pattern (22 bp):
TACAATATATATATATACATTT
Found at i:981419 original size:11 final size:11
Alignment explanation
Indices: 981405--981450 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
981395 TATATTTAAA
981405 AAAAGAAGAAG
1 AAAAGAAGAAG
981416 AAAAGAA-AAG
1 AAAAGAAGAAG
981426 AAAAAGAAGAA-
1 -AAAAGAAGAAG
981437 AAAA-AAGAAG
1 AAAAGAAGAAG
981447 AAAA
1 AAAA
981451 AGAAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.16
10 11 0.34
11 14 0.44
12 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:981430 original size:6 final size:6
Alignment explanation
Indices: 981404--981458 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
981394 ATATATTTAA
* *
981404 AAAAAG AAGAAG -AAAAG -AAAAG AAAAAG AAGAAAAA AAAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -A-AAAAG AAA-AAG AAAAAG
981453 AAAAAG
1 AAAAAG
981459 GAGAGGCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.22
6 21 0.51
7 7 0.17
8 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:981437 original size:9 final size:9
Alignment explanation
Indices: 981410--981458 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
981400 TTAAAAAAAG
981410 AAGAAGAAA
1 AAGAAGAAA
*
981419 AGAAAAGAAA
1 A-AGAAGAAA
981429 AAGAAGAAA
1 AAGAAGAAA
*
981438 AAAAAGAAGA
1 AAGAAGAA-A
981448 AA-AAGAAA
1 AAGAAGAAA
981456 AAG
1 AAG
981459 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 3 0.09
9 20 0.59
10 11 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:981442 original size:18 final size:19
Alignment explanation
Indices: 981402--981457 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
981392 AAATATATTT
981402 AAAAA-AAG-AAGAAGAAA
1 AAAAAGAAGAAAGAAGAAA
981419 AGAAAAGAA-AAAGAAGAAA
1 A-AAAAGAAGAAAGAAGAAA
981438 AAAAAGAAGAAA-AAGAAA
1 AAAAAGAAGAAAGAAGAAA
981456 AA
1 AA
981458 GGAGAGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.03
18 19 0.54
19 15 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAGAAGAAAGAAGAAA
Found at i:982835 original size:88 final size:88
Alignment explanation
Indices: 982730--983194 Score: 653
Period size: 88 Copynumber: 5.3 Consensus size: 88
982720 ATGGATTGAA
* * * *
982730 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAG-CAAGGTAAATTGAAAACACAAGCCTTATCT
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAA-GTAGATAGAAAACACCAGCCTTATCT
* *
982794 TCCTGAGCAGCAGAGGAGTAGGTT
65 CCCTGAGCAGCAGTGGAGTAGGTT
*
982818 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAAAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
982883 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * *
982906 GAAGATTGTAGATCTTATCTTCCTATACTAGTAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
* *
982971 CCTGAGCAGCAGTGGAATAAGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
** *
982994 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAACAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
*
983059 CCTGAGCAACAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * * * * *
983082 AAAGATGGTAGATCTTGTCTTCCTGTACTGACAGTGAAGCAGATCGAAAACACTAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
* * *
983147 CTTAAGCAGCAGTAGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * *
983170 GAAAATTGTAGATATTGTCTCCCTA
1 GAAGATTGTAGATCTTGTCTTCCTA
983195 AGCAGTAGTG
Statistics
Matches: 338, Mismatches: 38, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
88 336 0.99
89 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTGAAGTAGATAGAAAACACCAGCCTTATCTC
CCTGAGCAGCAGTGGAGTAGGTT
Found at i:982967 original size:44 final size:44
Alignment explanation
Indices: 982835--982969 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 44
982825 GTAGATCTTG
* *
982835 TCTTCCTATACTGGCAGTGAAGTAGATAAAAAACACCAGCCTTA
1 TCTTCCTATACTAGCAGTGAAGTAGATAGAAAACACCAGCCTTA
* * * * * * **** *
982879 TCTCCCTGA-GC-AGCAGTGGAGTAGGTTGAAGATTGTAGATCTTA
1 TCTTCCT-ATACTAGCAGTGAAGTAGATAGAAAACACCAG-CCTTA
*
982923 TCTTCCTATACTAGTAGTGAAGTAGATAGAAAACACCAGCCTTA
1 TCTTCCTATACTAGCAGTGAAGTAGATAGAAAACACCAGCCTTA
982967 TCT
1 TCT
982970 CCCTGAGCAG
Statistics
Matches: 62, Mismatches: 25, Indels: 8
0.65 0.26 0.08
Matches are distributed among these distances:
43 18 0.29
44 25 0.40
45 19 0.31
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTCCTATACTAGCAGTGAAGTAGATAGAAAACACCAGCCTTA
Found at i:983465 original size:72 final size:72
Alignment explanation
Indices: 983378--983519 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 72
983368 TTGGCTTTGC
* * * * ** *
983378 AGTGGAGCAGATTAAAGCTAAAGGTAGTGAATCTTGTTTCCTTGGCATTGTAGTGGAATACATTA
1 AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACACATTA
983443 AAGCTCA
66 AAGCTCA
* *
983450 AGTGGAGC-GAATTAAAGCTGAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACAGATT
1 AGTGGAGCAG-ATTAAAGCTAAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACACATT
983514 AAAGCT
65 AAAGCT
983520 AAAGGTAGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
71 1 0.02
72 59 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (72 bp):
AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCCTATTTCCTTGGCATTACAGTGGAACACATTA
AAGCTCA
Done.