Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397275.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_34.0, whole genome shotgun sequence
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: 2955990
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 53928 characters in sequence are not A, C, G, or T
File 8 of 8
Found at i:2776560 original size:68 final size:68
Alignment explanation
Indices: 2776463--2776629 Score: 181
Period size: 68 Copynumber: 2.5 Consensus size: 68
2776453 CTATAAGATT
* ** * * * *
2776463 AGATTATGTATATGATGTAAATTCCATATACCATTTGAGATGATTAAGTATGCATAATGTATACT
1 AGATTATGTATATGATGTAAATTCCATATACAACATGAGATGATTAAGAAAGCATAATGAATACC
2776528 ATA
66 ATA
* * ** * * *
2776531 AGATTGTGTATATGATGTATATTTTATATACAACATGAGATGATTGAGAAAGCATGATGAATGCC
1 AGATTATGTATATGATGTAAATTCCATATACAACATGAGATGATTAAGAAAGCATAATGAATACC
*
2776596 ATG
66 ATA
**
2776599 AGATTATGTATATGATGTACTTTCCATATAC
1 AGATTATGTATATGATGTAAATTCCATATAC
2776630 CTTATGTGAT
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
68 79 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (68 bp):
AGATTATGTATATGATGTAAATTCCATATACAACATGAGATGATTAAGAAAGCATAATGAATACC
ATA
Found at i:2784457 original size:15 final size:15
Alignment explanation
Indices: 2784437--2784467 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2784427 AATCTTGTTG
2784437 AGTTATTTTAATTTA
1 AGTTATTTTAATTTA
*
2784452 AGTTATTTTAGTTTA
1 AGTTATTTTAATTTA
2784467 A
1 A
2784468 TTTTATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (15 bp):
AGTTATTTTAATTTA
Found at i:2799280 original size:35 final size:35
Alignment explanation
Indices: 2799236--2799309 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
2799226 TTAATTTTTG
* *
2799236 GGTTTTGGTTGATCCCATGAAAAACCATTGCTGAA
1 GGTTGTGGTTGAGCCCATGAAAAACCATTGCTGAA
** *
2799271 GGTTGTGGTTGAGCCGTTGAAAAACCATTGTTGAA
1 GGTTGTGGTTGAGCCCATGAAAAACCATTGCTGAA
2799306 GGTT
1 GGTT
2799310 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (35 bp):
GGTTGTGGTTGAGCCCATGAAAAACCATTGCTGAA
Found at i:2812583 original size:32 final size:32
Alignment explanation
Indices: 2812547--2812634 Score: 149
Period size: 32 Copynumber: 2.8 Consensus size: 32
2812537 AGACTACTAC
*
2812547 TAGAAATTGGGTTCAGAGATAGAGCCTACTGT
1 TAGAAACTGGGTTCAGAGATAGAGCCTACTGT
2812579 TAGAAACTGGGTTCAGAGATAGAGCCTACTGT
1 TAGAAACTGGGTTCAGAGATAGAGCCTACTGT
* *
2812611 TAGAAACTAGGTTCAGAGACAGAG
1 TAGAAACTGGGTTCAGAGATAGAG
2812635 ACGACTTAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (32 bp):
TAGAAACTGGGTTCAGAGATAGAGCCTACTGT
Found at i:2814836 original size:73 final size:73
Alignment explanation
Indices: 2814716--2814900 Score: 239
Period size: 73 Copynumber: 2.5 Consensus size: 73
2814706 CAAATAGAAT
*** * *
2814716 GCTCTTAGTCGACTAACATTGCTACTTAGTTGATTAAGTCATCTCTATCTTTGAACCCAGTTTCT
1 GCTCTTAGTCGACTAACAAAACTTCTTAGTTGATTAAGTCATCTCTATCTCTGAACCCAGTTT-T
*
2814781 AG-TAGT-A
65 AGACAGTAA
** *
2814788 GCCTCTTAGTCGACTAACAAAACTTCTTAGTCAATTAAGTCATTTCTATCTCTGAACCCAGTTTT
1 G-CTCTTAGTCGACTAACAAAACTTCTTAGTTGATTAAGTCATCTCTATCTCTGAACCCAGTTTT
*
2814853 TGACAGTAA
65 AGACAGTAA
*
2814862 GCTCTTCGTCGACTAACAAAACTTCTTAGTTGATTAAGT
1 GCTCTTAGTCGACTAACAAAACTTCTTAGTTGATTAAGT
2814901 GTTCTTTGTC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
72 3 0.03
73 92 0.95
74 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAAAACTTCTTAGTTGATTAAGTCATCTCTATCTCTGAACCCAGTTTTA
GACAGTAA
Found at i:2819747 original size:36 final size:35
Alignment explanation
Indices: 2819698--2819966 Score: 178
Period size: 36 Copynumber: 7.5 Consensus size: 35
2819688 ATTAAGTTGT
* * * *
2819698 GCCTAACTCATTAAATTGTTTAATTAAATTATTAGG
1 GCCTAATTGATTAAATTGTTTAATCAAGTTATT-GG
* * *
2819734 GCCTAAATGATTAAATTTTTGTACTCAAGTTATTGG
1 GCCTAATTGATTAAATTGTT-TAATCAAGTTATTGG
* * *
2819770 GCCTCATTGATGAAATTTGTTTAATCAAGTTATAGG
1 GCCTAATTGATTAAA-TTGTTTAATCAAGTTATTGG
** * *
2819806 GTTTAATTGATCAAATTGTTTAATTAAGTTATTGG
1 GCCTAATTGATTAAATTGTTTAATCAAGTTATTGG
* **** *
2819841 GCCTCCTCATTGATTAAATTAAACAATTAAGTTATTGG
1 G---CCTAATTGATTAAATTGTTTAATCAAGTTATTGG
*********
2819879 GCCTAATTGATTAAANNNNNNNNNNCAAGTTATTGG
1 GCCTAATTGATTAAA-TTGTTTAATCAAGTTATTGG
* *
2819915 GCCTAATTAATTAAATTGTTTAATTAAGTTATTGG
1 GCCTAATTGATTAAATTGTTTAATCAAGTTATTGG
* *
2819950 GCCCAATTAATTAAATT
1 GCCTAATTGATTAAATT
2819967 AAAAAATTAA
Statistics
Matches: 178, Mismatches: 49, Indels: 13
0.74 0.20 0.05
Matches are distributed among these distances:
35 58 0.33
36 79 0.44
37 14 0.08
38 27 0.15
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.39
Consensus pattern (35 bp):
GCCTAATTGATTAAATTGTTTAATCAAGTTATTGG
Found at i:2819975 original size:35 final size:35
Alignment explanation
Indices: 2819905--2819986 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
2819895 NNNNNNNNNC
* ****
2819905 AAGTTATTGGGCCTAATTAATTAAATTGTTTAATT
1 AAGTTATTGGGCCCAATTAATTAAATTAAAAAATT
2819940 AAGTTATTGGGCCCAATTAATTAAATTAAAAAATT
1 AAGTTATTGGGCCCAATTAATTAAATTAAAAAATT
2819975 AAGTTAATTGGG
1 AAGTT-ATTGGG
2819987 ATTTTTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 35 0.85
36 6 0.15
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (35 bp):
AAGTTATTGGGCCCAATTAATTAAATTAAAAAATT
Found at i:2825999 original size:68 final size:68
Alignment explanation
Indices: 2825901--2826082 Score: 213
Period size: 68 Copynumber: 2.7 Consensus size: 68
2825891 ATCTCATGAA
* * * * * *
2825901 GTATATGGAATGTACATTATATACATAATCTCATGGCATTTATCATGCATACGTAATCA-CTTCA
1 GTATATGGAATTTACATCATATACAAAATCTTATGGCATTCATCATGCATACGTAATAATC-TCA
2825965 TATG
65 TATG
* * * * * * * *
2825969 GTATATGGAATTTACATCCTACACACAATCTTGTAGTATACATCATGCATACTTAATAATCTCAT
1 GTATATGGAATTTACATCATATACAAAATCTTATGGCATTCATCATGCATACGTAATAATCTCAT
2826034 ATG
66 ATG
*
2826037 GTATATGGAATTTCCATCATATACAAAATCTTATGGCATTCATCAT
1 GTATATGGAATTTACATCATATACAAAATCTTATGGCATTCATCAT
2826083 ACCAAATAGG
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 91 0.99
69 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (68 bp):
GTATATGGAATTTACATCATATACAAAATCTTATGGCATTCATCATGCATACGTAATAATCTCAT
ATG
Found at i:2827815 original size:29 final size:28
Alignment explanation
Indices: 2827771--2827828 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
2827761 TGGGCTGCCT
* * *
2827771 ACTATCCACTATCCACTACCCTATTCCCC
1 ACTACCCACTACCCACAACCC-ATTCCCC
2827800 ACTACCCACTACCCACAACCCATTCCCC
1 ACTACCCACTACCCACAACCCATTCCCC
2827828 A
1 A
2827829 TAACCATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.28, C:0.52, G:0.00, T:0.21
Consensus pattern (28 bp):
ACTACCCACTACCCACAACCCATTCCCC
Found at i:2839355 original size:8 final size:8
Alignment explanation
Indices: 2839326--2839364 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
2839316 CGCGTGGCAT
2839326 ATATATAC
1 ATATATAC
* *
2839334 ATATGTAT
1 ATATATAC
*
2839342 ACATATAC
1 ATATATAC
2839350 ATATATAC
1 ATATATAC
2839358 ATATATA
1 ATATATA
2839365 AATGAATACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:2839483 original size:16 final size:16
Alignment explanation
Indices: 2839394--2839484 Score: 69
Period size: 16 Copynumber: 5.7 Consensus size: 16
2839384 ACACACACAC
2839394 ATATGTATACATATAT
1 ATATGTATACATATAT
* * * *
2839410 GTGTGTGTGAAAATATAT
1 ATATGTAT--ACATATAT
* *
2839428 ATATGTATAAATACAT
1 ATATGTATACATATAT
**
2839444 ATATGTATATGTATAT
1 ATATGTATACATATAT
*
2839460 ACA-G-ATACATATAT
1 ATATGTATACATATAT
2839474 ATATGTATACA
1 ATATGTATACA
2839485 CATAGACACA
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
14 10 0.18
15 2 0.04
16 32 0.57
18 12 0.21
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (16 bp):
ATATGTATACATATAT
Found at i:2839483 original size:22 final size:21
Alignment explanation
Indices: 2839422--2839484 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 21
2839412 GTGTGTGAAA
2839422 ATATATATATGTATA-AATAC
1 ATATATATATGTATACAATAC
2839442 ATATATGTATATGTATATACAGATAC
1 ATATA--TATATG--TATACA-ATAC
2839468 ATATATATATGTATACA
1 ATATATATATGTATACA
2839485 CATAGACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.14
22 12 0.32
24 10 0.27
25 1 0.03
26 9 0.24
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATATATATGTATACAATAC
Found at i:2844063 original size:25 final size:25
Alignment explanation
Indices: 2844029--2844084 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2844019 TTGCCATCAT
2844029 GTATATCAACTCGTGGCCTAGCTAC
1 GTATATCAACTCGTGGCCTAGCTAC
* * *
2844054 GTATTTCAACTTGTGGCCTTGCTAC
1 GTATATCAACTCGTGGCCTAGCTAC
*
2844079 ATATAT
1 GTATAT
2844085 ATCATAAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (25 bp):
GTATATCAACTCGTGGCCTAGCTAC
Found at i:2846259 original size:11 final size:11
Alignment explanation
Indices: 2846241--2846277 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
2846231 TCACGATACA
2846241 AATATTTTAAT
1 AATATTTTAAT
*
2846252 ATTATTTTAAT
1 AATATTTTAAT
*
2846263 AATATTTTATT
1 AATATTTTAAT
2846274 AATA
1 AATA
2846278 AAATATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:2846410 original size:11 final size:11
Alignment explanation
Indices: 2846394--2846421 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2846384 CATAATAAAA
2846394 TATTATTATTT
1 TATTATTATTT
2846405 TATTATTATTT
1 TATTATTATTT
2846416 TATTAT
1 TATTAT
2846422 GTATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTATTT
Found at i:2854845 original size:232 final size:232
Alignment explanation
Indices: 2853319--2855012 Score: 1564
Period size: 231 Copynumber: 7.3 Consensus size: 232
2853309 ATGCATACTT
* * * **
2853319 AAATCTTATCAAAATAATAATTATTCATTGATAAATCATTTCCAGCTTTTGAAGGCATGAT-AAA
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGATAAAA
* * * *
2853383 CTCAATATGC-TTTCT-ATTTGTCAATGGATAGCATCCACATCATA-TTTCCCAATGCAACACAT
66 AT-AAAAT-CTTTTTTCA-TTGTCAATGGATAGCATCCACTTCA-AGTTTCCCAATGCAA-ACAT
* ** ** *
2853445 CCAATT-CTAATAGGTTTTGACCAAGAACAACAAA-CATTTTGATTTATTTTTTATTTTTAATCA
126 CCAATTAC-AATAGGTTTTAACCAAGAACAACAAAGC-TTTCAATTTATTTTCGATTTATAATCA
* ** *
2853508 TTTGTAAGGTTATAAATGAATTATATATCATAATGCTGATGATC
189 TTTGTAAGATTATAAATGAATTATATATCATAATATTGATGATA
* ** *
2853552 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCCTTT-ATAGATAGGAT-AA
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAG-CTTTCAAAGGCATGATAAA
* * * * * * * * *
2853615 ATTAAAGTGC-TCTTTCCTTGTCAATGGATAGCATCCACTACATGTCTCCCAATACAAACATTCA
65 AATAAAAT-CTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATCCA
** * * * * *
2853679 ATTATGATAAGTTTTAACAAAGAACAATAAAGCTTTGAATTTATTTTCAATTTATAATCATTTGT
129 ATTACAATAGGTTTTAACCAAGAACAACAAAGCTTTCAATTTATTTTCGATTTATAATCATTTGT
* * *
2853744 ATGATTATAAATGAATTATATATTATAATATTGATGGTA
194 AAGATTATAAATGAATTATATATCATAATATTGATGATA
* * ** * * ** *
2853783 AAGTGTTATCGAAATGATAATTATTTGTTGATAAATTATTTCAAGGTTTCAAAGGTTTGGTAAAA
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGATAAAA
* * * * *
2853848 ATAAAATCTTCTTTCCTAGTCAGTGGATAGCATCCACTTCATGTTTCCCAATGC-AACATCCAAT
66 ATAAAATCTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATCCAAT
* ** ** *
2853912 TAAAATAGGTTTTAACCAAGAACAATGAAGCTTTTGATTTCTTTTCGATTTATAATCATTTGTAA
131 TACAATAGGTTTTAACCAAGAACAACAAAGCTTTCAATTTATTTTCGATTTATAATCATTTGTAA
* *
2853977 GATTATAAATGAATTATATGTCATAACATTGATGATA
196 GATTATAAATGAATTATATATCATAATATTGATGATA
* * * * * * * *
2854014 AAATGTTATCAAACTGATTATCATTCATTGATAAATTATTTCAATCTTTCGAAGCCATGATAAAG
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGATAAAA
* * * * * * * * ** *
2854079 TTAAAATTCTCTTTT-GTTGTCAATGGACAACATTCATTTCATGGCTCCCAATGCAAACTTCCAA
66 ATAAAA-TCTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATCCAA
** * * *
2854143 TTATGATAGGTTTTAACTAAGAACAACAAAGCTTTCGATCTGTTTTCAATTTATATTCAATTTAT
130 TTACAATAGGTTTTAACCAAGAACAACAAA------G--C---TTTCAATTTATTTTCGATTTAT
* * *
2854208 AATCATTTATAAGATTATGAATGAATTATATATCAAAATATTGATGATA
184 AATCATTTGTAAGATTATAAATGAATTATATATCATAATATTGATGATA
* ** *
2854257 AAAT-TGTATCAAAATGATAATTATTTGA-TGATAAATCATTTCAAGCTTTTGAAGCCGA-GATA
1 AAATGT-TATCAAAATGATAATTA-TTCATTGATAAATCATTTCAAGCTTTCAAAGGC-ATGATA
** * ** * * * *
2854319 AACTTAAAATGC-TCTCACTTTGTCAATGGATAGCATCCACTTCACGTTTCACAATGTAAACATC
63 AAAATAAAAT-CTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATC
* ** * * * * *
2854383 TAATTATGATAGGATTTAACCAAGAACAACAAAGCTTTTAATTTATTTT-TAATTATAATAATTT
127 CAATTACAATAGGTTTTAACCAAGAACAACAAAGCTTTCAATTTATTTTCGATTTATAATCATTT
* * *
2854447 ATAAGATTATAAATGAATTATATATCATAATATTTATGATT
192 GTAAGATTATAAATGAATTATATATCATAATATTGATGATA
* *** * * *
2854488 AAGTACAATCAAAATGATAATTATTAATTGATTAATCATTTCAAGCCTTT-GAAGGCATTG-T-A
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAG-CTTTCAAAGGCA-TGATAA
* * * * * *
2854550 AAATGAAAATTCTCTTTTC-TTGCCAATAGCTAGAATACACTTCATA-TTT-CCATATGCAAACA
64 AAAT-AAAA-TCTTTTTTCATTGTCAATGGATAGCATCCACTTCA-AGTTTCCCA-ATGCAAACA
* * * * *
2854612 TCCACTGACAATAGGTTTTAACCAAAAACAACGAAA-CATTCAATTTATTTTCGACTTATAATCA
125 TCCAATTACAATAGGTTTTAACCAAGAACAAC-AAAGCTTTCAATTTATTTTCGATTTATAATCA
* * * *
2854676 TTTGTAAGAATGTAAATGAATTATATATGATAATATTGATGATT
189 TTTGTAAGATTATAAATGAATTATATATCATAATATTGATGATA
* * *
2854720 AAGTGTTATCAAAATGATAATTATTCATTGATAATTCATTTCAAGCTTACAAAGGCATGATAAAA
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGATAAAA
* * *
2854785 ATAAAATCTTTTTTCATTGCCAATGGATAGCATCCACTTCAAGTTTCCCAATGTAAACATCTAAT
66 ATAAAATCTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATCCAAT
** * *
2854850 TACAATAGGTTTTAACCAAGAACAGTAAAGCTTTCAATTTATATTT-GATTTATAATCACTTATA
131 TACAATAGGTTTTAACCAAGAACAACAAAGCTTTCAATTTAT-TTTCGATTTATAATCATTTGTA
*
2854914 AGATTATAAATGAATTATATATCATAATATTTATGATA
195 AGATTATAAATGAATTATATATCATAATATTGATGATA
** *
2854952 AAATGGAATCAAAATGATAATTATTCATTCATAAATCATTTCAAGCTTTCAAAGGCATGAT
1 AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGAT
2855013 CAACTTACAA
Statistics
Matches: 1194, Mismatches: 221, Indels: 93
0.79 0.15 0.06
Matches are distributed among these distances:
230 12 0.01
231 499 0.42
232 423 0.35
233 63 0.05
234 4 0.00
235 1 0.00
237 1 0.00
238 1 0.00
240 1 0.00
242 3 0.00
243 182 0.15
244 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.37
Consensus pattern (232 bp):
AAATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCAAAGGCATGATAAAA
ATAAAATCTTTTTTCATTGTCAATGGATAGCATCCACTTCAAGTTTCCCAATGCAAACATCCAAT
TACAATAGGTTTTAACCAAGAACAACAAAGCTTTCAATTTATTTTCGATTTATAATCATTTGTAA
GATTATAAATGAATTATATATCATAATATTGATGATA
Found at i:2856266 original size:42 final size:42
Alignment explanation
Indices: 2856201--2856364 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
2856191 AAAACCAATC
* *
2856201 ACAACAAAGTCATTGGAAGTGGAGACCTACTCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
* * * *
2856243 TCAACAAAATCATGGGAAATGGAGACCTACTCAATCAACTAT
1 ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
* *
2856285 ACCAC-AAATCATGGGAAGTGGAGACATACTCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
* * * *
2856326 GCAATAAAATCATGGGAATGTGGAGACCTTCTTAATCCA
1 ACAACAAAATCATGGGAA-GTGGAGACCTACTCAATCCA
2856365 AATCATAACA
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 34 0.33
42 51 0.50
43 17 0.17
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (42 bp):
ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
Found at i:2863981 original size:29 final size:29
Alignment explanation
Indices: 2863949--2864005 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2863939 ATTTCCATAT
2863949 AAGCACAACAATTACC-AAT-TGACAAACAC
1 AAGCACAACAA-TACCTAATAT-ACAAACAC
*
2863978 AAGCATAACAATACCTAATATACAAACA
1 AAGCACAACAATACCTAATATACAAACA
2864006 ACACATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 20 0.80
30 1 0.04
ACGTcount: A:0.54, C:0.25, G:0.05, T:0.16
Consensus pattern (29 bp):
AAGCACAACAATACCTAATATACAAACAC
Found at i:2864238 original size:41 final size:41
Alignment explanation
Indices: 2864181--2864259 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
2864171 AATCCAAATA
* *
2864181 AAATCATGGGAAGTGGAGACCTACTCAATCCATTTTACCAC
1 AAATCATGGGAAGTGGAGACATACTCAATCCACTTTACCAC
2864222 AAATCATGGGAAGTGGAGACATACTCAATCCACTTTAC
1 AAATCATGGGAAGTGGAGACATACTCAATCCACTTTAC
2864260 AATAAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
AAATCATGGGAAGTGGAGACATACTCAATCCACTTTACCAC
Found at i:2873623 original size:40 final size:40
Alignment explanation
Indices: 2873574--2873729 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 40
2873564 ATACAGTGAT
* * * *
2873574 ATAACCTTAAATAACTATACATAAATATCCAAATAACAAC
1 ATAAACTTAAAAAACTAAACATAAATATCCAAAAAACAAC
* * * * *
2873614 GTAAACTTAAAAAACTAAGCACAAAGATCCAAACAAATAAC
1 ATAAACTTAAAAAACTAAACATAAATATCCAAA-AAACAAC
* * *
2873655 ATAAACTTAAATAACCAAACA-AATATATCTAAACAACAACAAC
1 ATAAACTTAAAAAACTAAACATAA-ATATC-CAA-AA-AACAAC
2873698 ATAAACTTAAAAAACTAAAC-TAAATATCCAAA
1 ATAAACTTAAAAAACTAAACATAAATATCCAAA
2873730 CAACTAGTTA
Statistics
Matches: 91, Mismatches: 19, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
40 29 0.32
41 28 0.31
42 8 0.09
43 26 0.29
ACGTcount: A:0.59, C:0.19, G:0.02, T:0.20
Consensus pattern (40 bp):
ATAAACTTAAAAAACTAAACATAAATATCCAAAAAACAAC
Found at i:2873693 original size:81 final size:82
Alignment explanation
Indices: 2873531--2873732 Score: 191
Period size: 80 Copynumber: 2.5 Consensus size: 82
2873521 AAAGATCTTA
* * * * * * * * *
2873531 AACATAAACTTAAATAACTTAAAAC-AAATATCCATAC-AGTGATATAACCTTAAATAACTATAC
1 AACATAAACTTAAAAAAC-T-AAACTAAAGATCCAAACAAATAACATAAACTTAAATAACCAAAC
*
2873594 ATAAATATCC-A-AATAAC
64 ATAAATATCCAACAACAAC
*
2873611 AACGTAAACTTAAAAAACTAAGCAC-AAAGATCCAAACAAATAACATAAACTTAAATAACCAAAC
1 AACATAAACTTAAAAAACTAA--ACTAAAGATCCAAACAAATAACATAAACTTAAATAACCAAAC
*
2873675 A-AATATATCTAAACAACAAC
64 ATAA-ATATC-CAACAACAAC
*
2873695 AACATAAACTTAAAAAACTAAACTAAATATCCAAACAA
1 AACATAAACTTAAAAAACTAAACTAAAGATCCAAACAA
2873733 CTAGTTAAAC
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.02
79 1 0.01
80 30 0.30
81 26 0.26
82 2 0.02
83 14 0.14
84 25 0.25
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (82 bp):
AACATAAACTTAAAAAACTAAACTAAAGATCCAAACAAATAACATAAACTTAAATAACCAAACAT
AAATATCCAACAACAAC
Found at i:2873706 original size:43 final size:42
Alignment explanation
Indices: 2873608--2873733 Score: 139
Period size: 41 Copynumber: 3.0 Consensus size: 42
2873598 ATATCCAAAT
* * * *
2873608 AACAACGTAAACTTAAAAAACTAAGCACAAAGATCCAAAC-A-
1 AACAACATAAACTTAAAAAACCAAACA-AAATATCCAAACAAC
* * *
2873649 AATAACATAAACTTAAATAACCAAACAAATATATCTAAACAAC
1 AACAACATAAACTTAAAAAACCAAACAAA-ATATCCAAACAAC
* *
2873692 AACAACATAAACTTAAAAAACTAAACTAAATATCCAAACAAC
1 AACAACATAAACTTAAAAAACCAAACAAAATATCCAAACAAC
2873734 TAGTTAAACA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 2 0.03
41 30 0.43
42 13 0.19
43 25 0.36
ACGTcount: A:0.60, C:0.21, G:0.02, T:0.17
Consensus pattern (42 bp):
AACAACATAAACTTAAAAAACCAAACAAAATATCCAAACAAC
Found at i:2880289 original size:20 final size:21
Alignment explanation
Indices: 2880252--2880293 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2880242 AATCAATTAA
*
2880252 TTTAAATGAACTATATTCAAT
1 TTTAAATGAACTAAATTCAAT
*
2880273 TTTAAATTAAC-AAATTCAAT
1 TTTAAATGAACTAAATTCAAT
2880293 T
1 T
2880294 CCATAGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAAATGAACTAAATTCAAT
Found at i:2885112 original size:35 final size:35
Alignment explanation
Indices: 2885073--2885209 Score: 148
Period size: 35 Copynumber: 3.9 Consensus size: 35
2885063 GAAGCCCAAT
*
2885073 TAACTTAATTGTTTAATTTAATCAATTAGGCCTAA
1 TAACTTAATTATTTAATTTAATCAATTAGGCCTAA
* *** * *
2885108 TAACTTGATTAAACAAATTTAATCAATTAGCCCCAA
1 TAACTTAATT-ATTTAATTTAATCAATTAGGCCTAA
* *
2885144 TAACTTAATTTTTTAATTTAATTAATTAGGCCTAA
1 TAACTTAATTATTTAATTTAATCAATTAGGCCTAA
*** *
2885179 TAACTTAATTAAACAATTTAATGAATTAGGC
1 TAACTTAATTATTTAATTTAATCAATTAGGC
2885210 ACAACTTAAN
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
35 53 0.65
36 28 0.35
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (35 bp):
TAACTTAATTATTTAATTTAATCAATTAGGCCTAA
Found at i:2885128 original size:36 final size:35
Alignment explanation
Indices: 2885087--2885209 Score: 156
Period size: 35 Copynumber: 3.5 Consensus size: 35
2885077 TTAATTGTTT
*
2885087 AATTTAATCAATTAGGCCTAATAACTTGATTAAAC
1 AATTTAATCAATTAGGCCTAATAACTTAATTAAAC
* * ****
2885122 AAATTTAATCAATTAGCCCCAATAACTTAATTTTTT
1 -AATTTAATCAATTAGGCCTAATAACTTAATTAAAC
*
2885158 AATTTAATTAATTAGGCCTAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCTAATAACTTAATTAAAC
*
2885193 AATTTAATGAATTAGGC
1 AATTTAATCAATTAGGC
2885210 ACAACTTAAN
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
35 44 0.61
36 28 0.39
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.37
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCTAATAACTTAATTAAAC
Found at i:2885151 original size:71 final size:71
Alignment explanation
Indices: 2885067--2885207 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
2885057 NNNNAAGAAG
*
2885067 CCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCTAATAACTTGATTAAACAAATTTAATC
1 CCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCTAATAACTTAATTAAAC-AATTTAATC
2885132 AATTAGC
65 AATTAGC
* * *
2885139 CCCAA-TAACTTAATTTTTTAATTTAATTAATTAGGCCTAATAACTTAATTAAACAATTTAATGA
1 CCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCA
2885203 ATTAG
66 ATTAG
2885208 GCACAACTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 14 0.22
71 46 0.71
72 5 0.08
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.39
Consensus pattern (71 bp):
CCCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCA
ATTAGC
Found at i:2888002 original size:29 final size:29
Alignment explanation
Indices: 2887965--2888049 Score: 152
Period size: 29 Copynumber: 2.9 Consensus size: 29
2887955 GTCGATCTCA
2887965 TGAAGGAAAAATTTAGGGGTAAATAATTTG
1 TGAA-GAAAAATTTAGGGGTAAATAATTTG
2887995 TGAAGAAAAATTTAGGGGTAAATAATTTG
1 TGAAGAAAAATTTAGGGGTAAATAATTTG
*
2888024 TGATGAAAAATTTAGGGGTAAATAAT
1 TGAAGAAAAATTTAGGGGTAAATAAT
2888050 AACACTGGCC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 50 0.93
30 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.31
Consensus pattern (29 bp):
TGAAGAAAAATTTAGGGGTAAATAATTTG
Found at i:2892430 original size:231 final size:231
Alignment explanation
Indices: 2891818--2894845 Score: 2514
Period size: 231 Copynumber: 13.0 Consensus size: 231
2891808 TAGAAAAATA
** * * * * * * *
2891818 TTTTGATTTATAAAAATTTATAAGATAAAAAATAAAATATATATTAGAATATTGATGATAAGATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
** * * * * * * *
2891883 CAATTAAAATAATACTTATTCATTAATAAATCATTTCATGCATTCAAAGGCATGATAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* ** * *
2891948 ATGCTCTTTCATTGTCAATGGATAGCATCCACTTCACATTTCCCAATGTAACCATCCAATTATGA
131 ATGCTCTTTC-TTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTATGA
2892013 TAGGTTTTAACAAAGAACAA-AAAGGCTTTCGATTTAT
195 TAGGTTTTAACAAAGAACAACAAA-GCTTTCGATTTAT
* * * * * * *
2892050 TTTTTATTTGTAATCA--T-TAAGATTTTTAATGAATTATATATTATAATATTCATGATCAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
********** * *
2892112 TTATCAAAATGATAATTNNNNNNNNNNAAATCATTTCAAGCTTTTGAAGGCATAATAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* ** *
2892177 ATGCTCTTTTCTTGCCAATGGATAGTATCCACTTCACATTTCCCAATGCAAACATCAAATTATGA
131 ATGCTC-TTTCTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTATGA
* * *
2892242 TTGGTTTGAACAAAGGACAACAAAGCTTTCGATTTAT
195 TAGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
** ** * ** *
2892279 TTTCAATTTAGCATC-TTTAGAAGATTATAAACAAATTATATATCCTAATATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* *
2892343 TTATCAAAAAGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGGTAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * * ** * *
2892408 ATGCCCTTCTCTT-TCTAATGGATAGCATCCATTTCATGTTTTCGGATTCAAATATCCAATTATG
131 ATGCTCTT-TCTTGTC-AATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTATG
* *
2892472 ATAGGTTTTAACTAAGAACAACATAA-CTTTTGATTTAT
194 ATAGGTTTTAACAAAGAACAACA-AAGCTTTCGATTTAT
* *
2892510 TTTTGATTAATAATCATTTATATGAGATTATAAATGAATTATATGTCATAATATTGATGA-AAAT
1 TTTTGATTTATAATCATTTATA--AGATTATAAATGAATTATATATCATAATATTGATGATAAA-
* *
2892574 ATGTTATCAAAAT-AGTAATTATTCATTGATAAATCATTTCAAGATTTCGAAGGCATGATAAATT
63 ATGTTATCAAAATGA-TAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACT
* * * * *
2892638 TAAAATGCTCTTTCATTGTTAATGGATAGAATCTACTTCATGTTGT-CGAATGCAAACATCCAAC
127 TAAAATGCTCTTTC-TTGTCAATGGATAGTATCCACTTCATGTT-TCCCAATGCAAACATCCAAT
* ** ** * *
2892702 TATAATAGGTTTTAATGAAGAACAGTAATGCTTTCAATTTAT
190 TATGATAGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
* * * * *
2892744 TTTTGATTAATAATCCTTTATAAGATCATAAATGAATTACATATCATAATATTGATG-GAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* *
2892808 CTT-TCAAAATGATAATTATTCATTGATAAAGCATTTCAAGC-TTCTGAAGGGATGATAAACTTA
66 -TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTC-GAAGGCATGATAAACTTA
* * ** ** ** * ** *** * *
2892871 AAATGCTCCTTCCTTATCAATACATAACATGTATTTCACATTTTTTAATACACACATCCAATTAT
129 AAATGCT-CTTTCTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTAT
*
2892936 GGTAGGTTTTAACAAAG---AACAAA------G-----T
193 GATAGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
* * ** * *
2892961 TTTGGATTTATAACCACATATAAGGTTATAAATGAATTATATATCATAATATTGATGATAAAATA
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* * * * ** * * * *
2893026 TTATCGAAATGATAGTTATTCATTGAT-AAGCAATTGCTTGCATTT-GAAGGTATCATCAACTTT
66 TTATCAAAATGATAATTATTCATTGATAAATC-ATTTCAAGC-TTTCGAAGGCATGATAAACTTA
* * * * *
2893089 AAATGCTTTTTCCTTGTCAAT-GATAGCATCCACTTCATGTATCCCAATGTAAAAATCCAATTAT
129 AAATGCTCTTT-CTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTAT
* * *
2893153 GATAGATTTTAACCAAGAACAA-AGAAGCTTTCTATTTAT
193 GATAGGTTTTAACAAAGAACAACA-AAGCTTTCGATTTAT
** * * * *
2893192 TTTCAATTTATAATCATTTATAAGAATATAAAAGAATTATATATTAGAATATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* * * * *
2893257 TTATCATAATGATAATTATTCATTGATAAATCATTCCAAGATTTCGAAGGCTTGATAAACTTTAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * * * * * * *
2893322 ATCCTTTTTTCTTGTCAATGAATAGCT-TCCACTTCATATTTCTCAATGAAAACATCGAATCATA
131 ATGC-TCTTTCTTGTCAATGGATAG-TATCCACTTCATGTTTCCCAATGCAAACATCCAATTATG
* *
2893386 ATAGGTTTTAACAAAGAACCAAAAAAGCTTTCAATTTAT
194 ATAGGTTTTAACAAAGAA-CAACAAAGCTTTCGATTTAT
* * * * * *
2893425 TTTCGATTTATAATCATTTGTAAGATTAAAAATGAATTATCTATCGTAGTATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* * * * * *
2893490 TTATCAAAAGGATAATTATTCCTTGATAATTGATTTCATGTTTTCGAAGGCATGATAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * *
2893555 ATGGTCTTTCCTTGTCAATGGATAGCT-TCCACATCA-GATTTCTCAATGCAAACATCTAATTAT
131 ATGCTCTTT-CTTGTCAATGGATAG-TATCCACTTCATG-TTTCCCAATGCAAACATCCAATTAT
* * *
2893618 GATAGGTTTAAACCAAGAACAACAAAGCTTTTGATTAATTTTCTATT
193 GATAGGTTTTAACAAAGAACAACAAAGCTTTCG----A--TT-TA-T
* * * * *
2893665 TATTTCGATTTATAATCATTAAAAAGATTTTAAATGAATTATATA-CAATAATAATGATGATCAA
1 T-TTT-GATTTATAATCATTTATAAGATTATAAATGAATTATATATC-ATAATATTGATGATAAA
* * *
2893729 ATGTTATCAAAATAATAATTATTCATTGACAAATCATTTCAAGCATTT-GAAGGCATGATAAACA
63 ATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGC-TTTCGAAGGCATGATAAACT
* *** *
2893793 TAAAATGCTCTTTCCTTGTCAATGGATAGTATCCACCTCATGTTTCTTGATGCAAACATTCAATT
127 TAAAATGCTCTTT-CTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATT
* * * * *
2893858 ATGATAGGTTTTAACCATGAACAAGAAAGATTTTGATTT-T
191 ATGATAGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
*
2893898 TTTT-ATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAACATTGGA-GATAAAAT
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATT-GATGATAAAAT
* * * * * * ** ** * * *
2893961 ATTATCAAAAGGATAAATATTCATTGACAAATCATGTCAAGCATTAAAAGGTGTGGTAAAGTTAG
65 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAA
** * * * * * * * *
2894026 AATGCTCTTCTCTACTCAATTGATAGAATCCACTTCACGTTTTCCAACGTAAACATCCAATTGTA
130 AATGCTCTT-TCTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTATG
** * *
2894091 ATAAATTTTAATC-ATGAA-AAGCAAAGCTTTCTATTAAAATTTTTTATTT
194 ATAGGTTTTAA-CAAAGAACAA-CAAAGCTTTC------GA---TTTA--T
* * * * * *
2894140 AATTTTGATTTATAATCATTTAAAAAATTATATATGAATTGTATATCATGATATTGATGCTAAAA
1 --TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAA
* * * *
2894205 TGTTCTCAAACTGATAATTATTCATTGATAAATCTTTTCAAGCTTTCGAACGCATGATAAACTTA
64 TGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTA
* * * **
2894270 AAATGCACTTTCTT-TCTTAACGGATAGTATCCACTTCATGTTTCCCAATGTAAACAAT-CTTTT
129 AAATGCTCTTTCTTGTC--AATGGATAGTATCCACTTCATGTTTCCCAATGCAAAC-ATCCAATT
* * * **
2894333 ATGATAGGTTTTAACCAAGAACCACTAAGCTTTATATTTAT
191 ATGATAGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
* * * * * * *
2894374 TTTAGTTTTATTACCATTTATAACATTATAAATGAATTATGTATCACAATATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* * * * ** ** *
2894439 TTATCAAATTAATAATTATTCAGTGATAAATCACTTCATCCTTGT-GAAAACATGATAATCTTAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTT-TCGAAGGCATGATAAACTTAA
* * * * * *
2894503 AATTCTCTTTCCTTGTCAATGGATAGTATCCATTTCAGGTTTTCGATTGCATTGCAAACATTCAA
130 AATGCTCTTT-CTTGTCAATGGATAGTATCCACTTCATG-TTTC----CCAATGCAAACATCCAA
* *
2894568 TTATGATAGGTTTTAACAAA-AAGCCAA-AAAGTTTTCAATTTAT
189 TTATGATAGGTTTTAACAAAGAA--CAACAAAGCTTTCGATTTAT
* * *
2894611 TTTTTATTTATAATCTTTTATAAGATTATAAATGAATTATATATCATAATAGTGATGATAAATAT
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAA-AT
* * * * *
2894676 GTTATCAAAATGATAATTATTCATTAATAACTCGTTCCATGC-TTCTGAAGGCATGATAAACTTA
65 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTC-GAAGGCATGATAAACTTA
** * ** * * * *
2894740 AAATATTTTTTCCTTGTCAATGGATACCATCCACCTCATGTTTCTCAATACAACCATCCAATTAT
129 AAATGCTCTTT-CTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTAT
* * * * *
2894805 GATAGCTTTAAACCAAGAACAGCAAAAGCTTTCTATTTAT
193 GATAGGTTTTAACAAAGAACAAC-AAAGCTTTCGATTTAT
2894845 T
1 T
2894846 CTCAATTTAT
Statistics
Matches: 2228, Mismatches: 457, Indels: 220
0.77 0.16 0.08
Matches are distributed among these distances:
217 99 0.04
218 62 0.03
219 1 0.00
220 6 0.00
228 3 0.00
229 179 0.08
230 185 0.08
231 399 0.18
232 269 0.12
233 237 0.11
234 212 0.10
235 3 0.00
236 13 0.01
237 97 0.04
238 87 0.04
239 6 0.00
240 2 0.00
241 4 0.00
242 184 0.08
243 6 0.00
244 10 0.00
245 161 0.07
246 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (231 bp):
TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
ATGCTCTTTCTTGTCAATGGATAGTATCCACTTCATGTTTCCCAATGCAAACATCCAATTATGAT
AGGTTTTAACAAAGAACAACAAAGCTTTCGATTTAT
Found at i:2892824 original size:465 final size:461
Alignment explanation
Indices: 2891818--2894845 Score: 2443
Period size: 465 Copynumber: 6.5 Consensus size: 461
2891808 TAGAAAAATA
** * * * * * * *
2891818 TTTTGATTTATAAAAATTTATAAGATAAAAAATAAAATATATATTAGAATATTGATGATAAGATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
** * * * * * * *
2891883 CAATTAAAATAATACTTATTCATTAATAAATCATTTCATGCATTCAAAGGCATGATAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * *
2891948 ATGCTCTTTCATTGTCAATGGATAGCATCCACTTCACATTTCCCAATGT-AACCATCCAATTATG
131 ATGCCCTTTC-TTGTCAATGGATAGCATCCACTTCATATTTTCCAAT-TCAAACATCCAATTATG
* * *
2892012 ATAGGTTTTAACAAAGAACAA-AAAGGCTTTCGATTTATTTTTTATTTGTAATCA--T-TAAGAT
194 ATAGGTTTTAACAAAGAACAACAAA-GCTTTTGATTTATTTTTGATTTATAATCATTTATAAGAT
* * * * * *********
2892073 TTTTAATGAATTATATATTATAATATTCATGATCAAATGTTATCAAAATGATAATTNNNNNNNNN
258 TATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGA
* * * * * * *
2892138 NAAATCATTTCAAGCTTTTGAAGGCATAATAAACTTAAAATGCTCTTTTCTTGCCAATGGATAGT
323 TAAATCATTTCAAG-ATTTGAAGGCATGATAAATTTAAAATGCTCTTTCCTTGTCAATGGATAGA
* * * * * * *
2892203 ATCCACTTCACATTTCCCAATGCAAACATCAAATTATGATTGGTTTGAACAAAGGACAACAAAGC
387 ATCCACTTCACGTTT-CCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGCAAAGC
*
2892268 TTTCGATTTAT
451 TTTCAATTTAT
** ** * ** *
2892279 TTTCAATTTAGCATC-TTTAGAAGATTATAAACAAATTATATATCCTAATATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* *
2892343 TTATCAAAAAGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGGTAAACTTAAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * ** *
2892408 ATGCCCTTCTCTT-TCTAATGGATAGCATCCATTTCATGTTTTCGGATTCAAATATCCAATTATG
131 ATGCCCTT-TCTTGTC-AATGGATAGCATCCACTTCATATTTTCCAATTCAAACATCCAATTATG
* *
2892472 ATAGGTTTTAACTAAGAACAACATAA-CTTTTGATTTATTTTTGATTAATAATCATTTATATGAG
194 ATAGGTTTTAACAAAGAACAACA-AAGCTTTTGATTTATTTTTGATTTATAATCATTTATA--AG
*
2892536 ATTATAAATGAATTATATGTCATAATATTGATGA-AAATATGTTATCAAAAT-AGTAATTATTCA
256 ATTATAAATGAATTATATATCATAATATTGATGATAAA-ATGTTATCAAAATGA-TAATTATTCA
* *
2892599 TTGATAAATCATTTCAAGATTTCGAAGGCATGATAAATTTAAAATGCTCTTTCATTGTTAATGGA
319 TTGATAAATCATTTCAAGATTT-GAAGGCATGATAAATTTAAAATGCTCTTTCCTTGTCAATGGA
* * * * * ** *
2892664 TAGAATCTACTTCATGTTGTCGAATGCAAACATCCAACTATAATAGGTTTTAATGAAGAACAGTA
383 TAGAATCCACTTCACGTT-TCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGCA
*
2892729 ATGCTTTCAATTTAT
447 AAGCTTTCAATTTAT
* * * * *
2892744 TTTTGATTAATAATCCTTTATAAGATCATAAATGAATTACATATCATAATATTGATG-GAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* *
2892808 CTT-TCAAAATGATAATTATTCATTGATAAAGCATTTCAAGC-TTCTGAAGGGATGATAAACTTA
66 -TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTC-GAAGGCATGATAAACTTA
* * ** * ** * * ** * *
2892871 AAATGCTCCTTCCTTATCAATACATAACATGTATTTCACATTTTTTAATACACACATCCAATTAT
129 AAATGC-CCTTTCTTGTCAATGGATAGCATCCACTTCATATTTTCCAATTCAAACATCCAATTAT
* * ** *
2892936 GGTAGGTTTTAACAAAG---AACAAAG-TTTTG----------GATTTATAACCACATATAAGGT
193 GATAGGTTTTAACAAAGAACAACAAAGCTTTTGATTTATTTTTGATTTATAATCATTTATAAGAT
* * *
2892987 TATAAATGAATTATATATCATAATATTGATGATAAAATATTATCGAAATGATAGTTATTCATTGA
258 TATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGA
* * ** * * * *
2893052 T-AAGCAATTGCTTGCATTTGAAGGTATCATCAACTTT-AAATGCTTTTTCCTTGTCAAT-GATA
323 TAAATC-ATTTCAAG-ATTTGAAGGCATGAT-AAATTTAAAATGCTCTTTCCTTGTCAATGGATA
* * * * * * *
2893114 GCATCCACTTCATGTATCCCAATGTAAAAATCCAATTATGATAGATTTTAACCAAGAACA-AAGA
385 GAATCCACTTCACGT-TTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGCA-A
*
2893178 AGCTTTCTATTTAT
448 AGCTTTCAATTTAT
** * * * *
2893192 TTTCAATTTATAATCATTTATAAGAATATAAAAGAATTATATATTAGAATATTGATGATAAAATG
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
* * * * *
2893257 TTATCATAATGATAATTATTCATTGATAAATCATTCCAAGATTTCGAAGGCTTGATAAACTTTAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * ** * *
2893322 AT-CCTTTTTTCTTGTCAATGAATAGCTTCCACTTCATA-TTTCTCAATGAAAACATCGAATCAT
131 ATGCC--CTTTCTTGTCAATGGATAGCATCCACTTCATATTTTC-CAATTCAAACATCCAATTAT
* * ** * *
2893385 AATAGGTTTTAACAAAGAACCAAAAAAGCTTTCAATTTATTTTCGATTTATAATCATTTGTAAGA
193 GATAGGTTTTAACAAAGAA-CAACAAAGCTTTTGATTTATTTTTGATTTATAATCATTTATAAGA
* * * * * *
2893450 TTAAAAATGAATTATCTATCGTAGTATTGATGATAAAATGTTATCAAAAGGATAATTATTCCTTG
257 TTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTG
* * * * * *
2893515 ATAATTGATTTCATGTTTTCGAAGGCATGATAAACTTAAAATGGTCTTTCCTTGTCAATGGATAG
322 ATAAATCATTTCAAGATTT-GAAGGCATGATAAATTTAAAATGCTCTTTCCTTGTCAATGGATAG
** * * * *
2893580 CTTCCACATCA-GATTTCTCAATGCAAACATCTAATTATGATAGGTTTAAACCAAGAACAACAAA
386 AATCCACTTCACG-TTTC-CAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGCAAA
*
2893644 GCTTTTGATTAATTTTCTATT
449 GC--TT--TCAA--TT-TA-T
* * * * *
2893665 TATTTCGATTTATAATCATTAAAAAGATTTTAAATGAATTATATA-CAATAATAATGATGATCAA
1 T-TTT-GATTTATAATCATTTATAAGATTATAAATGAATTATATATC-ATAATATTGATGATAAA
* * *
2893729 ATGTTATCAAAATAATAATTATTCATTGACAAATCATTTCAAGCATTT-GAAGGCATGATAAACA
63 ATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGC-TTTCGAAGGCATGATAAACT
* * * * ** * *
2893793 TAAAATGCTCTTTCCTTGTCAATGGATAGTATCCACCTCAT-GTTTCTTGATGCAAACATTCAAT
127 TAAAATGCCCTTT-CTTGTCAATGGATAGCATCCACTTCATATTTTC-CAATTCAAACATCCAAT
* * * *
2893857 TATGATAGGTTTTAACCATGAACAAGAAAGATTTTGATTT-TTTTT-ATTTATAATCATTTATAA
190 TATGATAGGTTTTAACAAAGAACAACAAAGCTTTTGATTTATTTTTGATTTATAATCATTTATAA
* * * *
2893920 GATTATAAATGAATTATATATCATAACATTGGA-GATAAAATATTATCAAAAGGATAAATATTCA
255 GATTATAAATGAATTATATATCATAATATT-GATGATAAAATGTTATCAAAATGATAATTATTCA
* * ** ** * * * ** *
2893984 TTGACAAATCATGTCAAGCATTAAAAGGTGTGGTAAAGTTAGAATGCTC-TTCTCTACTCAATTG
319 TTGATAAATCATTTCAAG-ATTTGAAGGCATGATAAATTTAAAATGCTCTTTC-CTTGTCAATGG
* * * * ** * * *
2894048 ATAGAATCCACTTCACGTTTTCCAACGTAAACATCCAATTGTAATAAATTTTAATCATGAAAAGC
382 ATAGAATCCACTTCACG-TTTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGC
2894113 AAAGCTTTCTATTAAAATTTTTTATTT
446 AAAGCTTTC------AA---TTTA--T
* * * * * *
2894140 AATTTTGATTTATAATCATTTAAAAAATTATATATGAATTGTATATCATGATATTGATGCTAAAA
1 --TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAA
* * * *
2894205 TGTTCTCAAACTGATAATTATTCATTGATAAATCTTTTCAAGCTTTCGAACGCATGATAAACTTA
64 TGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTA
* * * * * **
2894270 AAATGCACTTTCTT-TCTTAACGGATAGTATCCACTTCATGTTTCCCAATGT-AAACAAT-CTTT
129 AAATGCCCTTTCTTGTC--AATGGATAGCATCCACTTCATATTTTCCAAT-TCAAAC-ATCCAAT
* * * * * * *
2894332 TATGATAGGTTTTAACCAAGAACCACTAAGCTTTAT-ATTTATTTTAGTTTTATTACCATTTATA
190 TATGATAGGTTTTAACAAAGAACAACAAAGCTTT-TGATTTATTTTTGATTTATAATCATTTATA
* * * * *
2894396 ACATTATAAATGAATTATGTATCACAATATTGATGATAAAATGTTATCAAATTAATAATTATTCA
254 AGATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCA
* * *** ** *
2894461 GTGATAAATCACTTCATCCTTGTGAAAACATGAT-AATCTTAAAATTCTCTTTCCTTGTCAATGG
319 TTGATAAATCATTTCAAGATT-TGAAGGCATGATAAAT-TTAAAATGCTCTTTCCTTGTCAATGG
* * * * *
2894525 ATAGTATCCATTTCAGGTTTTCGATTGCATTGCAAACATTCAATTATGATAGGTTTTAA-CAA-A
382 ATAGAATCCACTTCACG-TTTC-----CAATGCAAACATCCAATTATGATAGGTTTTAACCAAGA
*
2894588 A-AGCCAAAAAGTTTTCAATTTAT
441 ACAG-C--AAAGCTTTCAATTTAT
* * *
2894611 TTTTTATTTATAATCTTTTATAAGATTATAAATGAATTATATATCATAATAGTGATGATAAATAT
1 TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAA-AT
* * * * *
2894676 GTTATCAAAATGATAATTATTCATTAATAACTCGTTCCATGC-TTCTGAAGGCATGATAAACTTA
65 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTC-GAAGGCATGATAAACTTA
**** * * * * *
2894740 AAATATTTTTTCCTTGTCAATGGATACCATCCACCTCAT-GTTTCTCAATACAACCATCCAATTA
129 AAATGCCCTTT-CTTGTCAATGGATAGCATCCACTTCATATTTTC-CAATTCAAACATCCAATTA
* * * *
2894804 TGATAGCTTTAAACCAAGAACAGCAAAAGCTTTCT-ATTTATT
192 TGATAGGTTTTAACAAAGAACAAC-AAAGCTTT-TGATTTATT
2894846 CTCAATTTAT
Statistics
Matches: 2034, Mismatches: 419, Indels: 218
0.76 0.16 0.08
Matches are distributed among these distances:
447 2 0.00
448 120 0.06
449 201 0.10
450 16 0.01
451 14 0.01
453 6 0.00
454 3 0.00
459 3 0.00
460 185 0.09
461 19 0.01
462 7 0.00
463 9 0.00
464 120 0.06
465 341 0.17
466 45 0.02
467 2 0.00
468 1 0.00
469 63 0.03
470 111 0.05
471 24 0.01
472 162 0.08
473 21 0.01
474 29 0.01
475 341 0.17
476 26 0.01
477 121 0.06
478 3 0.00
479 2 0.00
480 3 0.00
481 2 0.00
482 32 0.02
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (461 bp):
TTTTGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATG
TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
ATGCCCTTTCTTGTCAATGGATAGCATCCACTTCATATTTTCCAATTCAAACATCCAATTATGAT
AGGTTTTAACAAAGAACAACAAAGCTTTTGATTTATTTTTGATTTATAATCATTTATAAGATTAT
AAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAA
ATCATTTCAAGATTTGAAGGCATGATAAATTTAAAATGCTCTTTCCTTGTCAATGGATAGAATCC
ACTTCACGTTTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAGCAAAGCTTTCA
ATTTAT
Found at i:2893869 original size:475 final size:462
Alignment explanation
Indices: 2891818--2894858 Score: 2515
Period size: 475 Copynumber: 6.5 Consensus size: 462
2891808 TAGAAAAATA
** * * * * * * *
2891818 TTTT-GATTTATAAAAATTTATAAGATAAAAAATAAAATATATATTAGAATATTGATGATAAGAT
1 TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAAT
** * * * * * **
2891882 GCAATTAAAATAATACTTATTCATTAATAAATCATTTCATGCATTCAAAGGCATGATAAACTTAA
66 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGC-TTTGAAGGCATGATAAACTTAA
* ** * * *
2891947 AATGCTCTTTCATTGTCAATGGATAGCATCCACTTCACATTTCCCAATGTAACCATCCAATTATG
130 AATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTATG
* ** *
2892012 ATAGGTTTTAACAAAGAACAAAAAGGCTTTCGATTTATTTTTTATTTGTAATCA--T-TAAGATT
195 ATAGGTTTTAACAAAGAACAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAGATT
* * * * * **********
2892074 TTTAATGAATTATATATTATAATATTCATGATCAAATGTTATCAAAATGATAATTNNNNNNNNNN
260 ATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGAT
* * *
2892139 AAATCATTTCAAGCTTTTGAAGGCATAATAAACTTAAAATGCTCTTTTCTTGCCAATGGATAGTA
325 AAATCATTTCAAG-TTTTGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAG-A
** * * * * *
2892204 TCCACTTCACATTTCCCAATGCAAACATCAAATTATGATTGGTTTGAACAAAGGACAACAAAGC-
388 TCCACTTCATGTTT-CCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAACAAAGCT
**
2892268 TTTCGATTTA-
452 TTTTAATTTAT
* ** * ** *
2892278 TTTTCAATTTAGCATC-TTTAGAAGATTATAAACAAATTATATATCCTAATATTGATGATAAAAT
1 TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAAT
* *
2892342 GTTATCAAAAAGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGGTAAACTTAA
66 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTT-GAAGGCATGATAAACTTAA
* * * * *
2892407 AATGC-CCTTCTCTT-TCTAATGGATAGCATCCATTTCATGTTT-TCGGATTCAAATATCCAATT
130 AATGCTCTTTC-CTTGTC-AATGGATAGCATCCACTTCATGTTTCTC-AATGCAAACATCCAATT
* * * * *
2892469 ATGATAGGTTTTAACTAAGAACAACATAA-CTTTTGATTTATTTTTGATTAATAATCATTTATAT
192 ATGATAGGTTTTAACAAAGAACAA-AAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATA-
*
2892533 GAGATTATAAATGAATTATATGTCATAATATTGATGA-AAATATGTTATCAAAAT-AGTAATTAT
255 -AGATTATAAATGAATTATATATCATAATATTGATGATAAA-ATGTTATCAAAATGA-TAATTAT
* * * *
2892596 TCATTGATAAATCATTTCAAGATTTCGAAGGCATGATAAATTTAAAATGCTCTTTCATTGTTAAT
317 TCATTGATAAATCATTTCAAG-TTTTGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAAT
* * * * **
2892661 GGATAGAATCTACTTCATGTTGTCGAATGCAAACATCCAACTATAATAGGTTTTAATGAAGAACA
381 GGATAG-ATCCACTTCATGTT-TCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACA
** * *
2892726 GTAATGC-TTTCAATTTAT
444 ACAAAGCTTTTTAATTTAT
* * * * *
2892744 TTTT-GATTAATAATCCTTTATAAGATCATAAATGAATTACATATCATAATATTGATG-GAAAAT
1 TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAAT
* *
2892807 GCTT-TCAAAATGATAATTATTCATTGATAAAGCATTTCAAGCTTCTGAAGGGATGATAAACTTA
66 G-TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTT-TGAAGGCATGATAAACTTA
* * ** * ** * ** * * * *
2892871 AAATGCTCCTTCCTTATCAATACATAACATGTATTTCACATTTTTTAATACACACATCCAATTAT
129 AAATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTAT
* * * ** *
2892936 GGTAGGTTTTAACAAAGAAC---AAA------G-----TTTTGGATTTATAACCACATATAAGGT
194 GATAGGTTTTAACAAAGAACAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAGAT
* * *
2892987 TATAAATGAATTATATATCATAATATTGATGATAAAATATTATCGAAATGATAGTTATTCATTGA
259 TATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGA
* * ** * * * * * *
2893052 T-AAGCAATTGCTTGCATTTGAAGGTATCATCAACTTTAAATGCTTTTTCCTTGTCAAT-GATAG
324 TAAATC-ATTTCAAG-TTTTGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAG
* * * *
2893115 CATCCACTTCATGTATCCCAATGTAAAAATCCAATTATGATAGATTTTAACCAAGAACAA-AGAA
387 -ATCCACTTCATGT-TTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAACA-AA
*
2893179 GCTTTCT-ATTTA-
449 GCTTTTTAATTTAT
* * * * *
2893191 TTTTCAATTTATAATCATTTATAAGAATATAAAAGAATTATATATTAGAATATTGATGATAAAAT
1 TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAAT
* * * * *
2893256 GTTATCATAATGATAATTATTCATTGATAAATCATTCCAAGATTTCGAAGGCTTGATAAACTTTA
66 GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTT-GAAGGCATGATAAACTTAA
* * * * * * * * * *
2893321 AATCCTTTTTTCTTGTCAATGAATAGCTTCCACTTCATATTTCTCAATGAAAACATCGAATCATA
130 AATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTATG
* *
2893386 ATAGGTTTTAACAAAGAACCAAAAAAGCTTTCAATTTATTTTCGATTTATAATCATTTGTAAGAT
195 ATAGGTTTTAACAAAGAA-CAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAGAT
* * * * * *
2893451 TAAAAATGAATTATCTATCGTAGTATTGATGATAAAATGTTATCAAAAGGATAATTATTCCTTGA
259 TATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGA
* * * *
2893516 TAATTGATTTCATGTTTTCGAAGGCATGATAAACTTAAAATGGTCTTTCCTTGTCAATGGATAGC
324 TAAATCATTTCAAGTTTT-GAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAG-
* * * *
2893581 TTCCACATCA-GATTTCTCAATGCAAACATCTAATTATGATAGGTTTAAACCAAGAACAACAAAG
387 ATCCACTTCATG-TTTC-CAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAACAAAG
2893645 CTTTTGATTAATTTTCTATT
450 C-TTT--TTAA--TT-TA-T
* * * * *
2893665 TATTTCGATTTATAATCATTAAAAAGATTTTAAATGAATTATATA-CAATAATAATGATGATCAA
1 T-TTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATC-ATAATATTGATGATAAA
* * *
2893729 ATGTTATCAAAATAATAATTATTCATTGACAAATCATTTCAAGCATTTGAAGGCATGATAAACAT
64 ATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGC-TTTGAAGGCATGATAAACTT
* * ** *
2893794 AAAATGCTCTTTCCTTGTCAATGGATAGTATCCACCTCATGTTTCTTGATGCAAACATTCAATTA
128 AAAATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTA
* * * * * *
2893859 TGATAGGTTTTAACCATGAACAAGAAAGATTTTGATTT-TTTT-TATTTATAATCATTTATAAGA
193 TGATAGGTTTTAACAAAGAACAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAGA
* * * *
2893922 TTATAAATGAATTATATATCATAACATTGGA-GATAAAATATTATCAAAAGGATAAATATTCATT
258 TTATAAATGAATTATATATCATAATATT-GATGATAAAATGTTATCAAAATGATAATTATTCATT
* * * ** ** * * * ** *
2893986 GACAAATCATGTCAAGCATTAAAAGGTGTGGTAAAGTTAGAATGCTC-TTCTCTACTCAATTGAT
322 GATAAATCATTTCAAG-TTTTGAAGGCATGATAAACTTAAAATGCTCTTTC-CTTGTCAATGGAT
* * * * * ** * *
2894050 AGAATCCACTTCACGTTTTCCAACGTAAACATCCAATTGTAATAAATTTTAATCATGAA-AAGCA
385 AG-ATCCACTTCATG-TTTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAA-CA
2894114 AAGCTTTCTATTAAAATTTTTTATT
447 AAGC-TT-T-TT--AA---TTTA-T
* * * * * * *
2894139 TAATTTTGATTTATAATCATTTAAAAAATTATATATGAATTGTATATCATGATATTGATGCTAAA
1 T--TTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAA
* * * *
2894204 ATGTTCTCAAACTGATAATTATTCATTGATAAATCTTTTCAAGCTTTCGAACGCATGATAAACTT
64 ATGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTT-GAAGGCATGATAAACTT
* * * * * * * * **
2894269 AAAATGCACTTTCTTTCTTAACGGATAGTATCCACTTCATGTTTCCCAATGTAAACAAT-CTTTT
128 AAAATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAAC-ATCCAATT
* * ** ** * * * * *
2894333 ATGATAGGTTTTAACCAAGAACCACTAAGCTTTATATTTATTTTAGTTTTATTACCATTTATAAC
192 ATGATAGGTTTTAACAAAGAACAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAG
* * * * *
2894398 ATTATAAATGAATTATGTATCACAATATTGATGATAAAATGTTATCAAATTAATAATTATTCAGT
257 ATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATT
* ** * ** * *
2894463 GATAAATCACTTCATCCTTGTGAAAACATGATAATCTTAAAATTCTCTTTCCTTGTCAATGGATA
322 GATAAATCATTTCA-AGTTTTGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATA
* * * * *
2894528 GTATCCATTTCAGGTTTTCGATTGCATTGCAAACATTCAATTATGATAGGTTTTAA-CAAAAAGC
386 G-ATCCACTTCATG-TTTC-----CAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAA--
*
2894592 CAA-AAAG-TTTTCAATTTAT
442 CAACAAAGCTTTTTAATTTAT
* * *
2894611 TTTT-TATTTATAATCTTTTATAAGATTATAAATGAATTATATATCATAATAGTGATGATAAATA
1 TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAA-A
* * * * *
2894675 TGTTATCAAAATGATAATTATTCATTAATAACTCGTTCCATGCTTCTGAAGGCATGATAAACTTA
65 TGTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTT-TGAAGGCATGATAAACTTA
** * * * * *
2894740 AAATATTTTTTCCTTGTCAATGGATACCATCCACCTCATGTTTCTCAATACAACCATCCAATTAT
129 AAATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTAT
* * * * * * *
2894805 GATAGCTTTAAACCAAGAACAGCAAAAGCTTTCTATTTATTCTCAATTTATAAT
194 GATAGGTTTTAACAAAGAACA-AAAAAGCTTTCGATTTATTTTCGATTTATAAT
2894859 ATCAAAATCG
Statistics
Matches: 2045, Mismatches: 442, Indels: 177
0.77 0.17 0.07
Matches are distributed among these distances:
447 5 0.00
448 109 0.05
449 219 0.11
450 5 0.00
451 18 0.01
453 3 0.00
456 1 0.00
459 9 0.00
460 182 0.09
461 10 0.00
462 1 0.00
463 5 0.00
464 123 0.06
465 345 0.17
466 55 0.03
468 1 0.00
469 52 0.03
470 122 0.06
471 30 0.01
472 167 0.08
473 18 0.01
474 25 0.01
475 362 0.18
476 14 0.01
477 123 0.06
478 4 0.00
479 1 0.00
480 2 0.00
481 4 0.00
482 28 0.01
484 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (462 bp):
TTTTCGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGATGATAAAAT
GTTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTGAAGGCATGATAAACTTAAA
ATGCTCTTTCCTTGTCAATGGATAGCATCCACTTCATGTTTCTCAATGCAAACATCCAATTATGA
TAGGTTTTAACAAAGAACAAAAAAGCTTTCGATTTATTTTCGATTTATAATCATTTATAAGATTA
TAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATA
AATCATTTCAAGTTTTGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGATCC
ACTTCATGTTTCCAATGCAAACATCCAATTATGATAGGTTTTAACCAAGAACAACAAAGCTTTTT
AATTTAT
Found at i:2895558 original size:231 final size:230
Alignment explanation
Indices: 2894914--2896168 Score: 1327
Period size: 231 Copynumber: 5.4 Consensus size: 230
2894904 TTAAAATGTT
* * * * * **
2894914 CTTTCCTTATTAATGG-TAGCATACACTTCATG-TATCACAATGCAAATGTCCAATTATGATAGG
1 CTTTCCTTGTCAATGGATAGCATCCAATTCATGTTTTC-CAATGCAAACATCCAATTATGATAGG
* * * ** *
2894977 TTTTAAGTAAGAACAAGAAGCTTTTGATTTATTTTCGATTTATAATTGTTTAGAAGATTATAAAT
65 TTTTAAGCAAGAACAAAAAGCTTTTGATTTATTTTCAATTTATAATCATTTATAAGATTATAAAT
* * * *
2895042 GAATTATATATAATAATATTAATGATAAAATGTTATCAAAATTATAATTATTCACTGATAAATCA
130 GAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAAATCA
* *
2895107 TTTCAAGCTTTCGAAGGCAAGATAAAATTCAAATCC
195 TTTCAAGCTTTCGAAGGCAAGATAAACTTAAAATCC
* * * * * *
2895143 TCTTTCCTTATCAATGGCTAGAATCTAGTTCATG-TTTCCTAATGCAAACATCTAATTATGATAG
1 -CTTTCCTTGTCAATGGATAGCATCCAATTCATGTTTTCC-AATGCAAACATCCAATTATGATAG
* * ** * * * *
2895207 GTTTTAACCGAA-AACCAAAAAAAG-TTTCGATTTATTTTTGATTTATACTTATTTGTAAGTTTA
64 GTTTTAAGC-AAGAA-C--AAAAAGCTTTTGATTTATTTTCAATTTATAATCATTTATAAGATTA
* *
2895270 TAAATGAATTATATATCATAATATTGATAATAAAATGTTATCAAAATGATTATTATTCATTGATA
125 TAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATA
* * * *
2895335 AATCTTTTCAAGTTTTCGAAAGCACGATAAACTTAAAATGCC
190 AATCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAAT-CC
* * * *
2895377 CTTTCCTTGTCAACGGATAGCATCCAATAT-ATGTTTTCCAATGTAAATATCCACTTATGATA-G
1 CTTTCCTTGTCAATGGATAGCATCCAAT-TCATGTTTTCCAATGCAAACATCCAATTATGATAGG
* * * * *
2895440 TTTTAAGTAAGAACAACAAAGGTTTTGATTTATTTTCTATCTATAATCATTTATAAGATTAGAAA
65 TTTTAAGCAAGAACAA-AAAGCTTTTGATTTATTTTCAATTTATAATCATTTATAAGATTATAAA
* * *
2895505 TAAATTATATACCATAATATTGATGATAAAATGTTATCAAAATAATAATTATTCATTGATAAATC
129 TGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAAATC
* *
2895570 ATTTCAAGCTTTCGTAGGCAAGATAAACTTAAAATGCT
194 ATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAAT-CC
* * * * ** * * *
2895608 CTTT-TTCTGTCAATGGATAGTATCTACTTCACATTTCCCAATGCAAACATTCAATTATGATA-A
1 CTTTCCT-TGTCAATGGATAGCATCCAATTCATGTTTTCCAATGCAAACATCCAATTATGATAGG
* * **
2895671 TGTTTAACCAAGAACAAGAAAGATTTCAATTTATCTTT-AATTTATAATCATTTATAAGATTATA
65 T-TTTAAGCAAGAACAA-AAAGCTTTTGATTTAT-TTTCAATTTATAATCATTTATAAGATTATA
* * *
2895735 AATGAA--GTATATCATAATATTGAGGATAAAATGTTATCAAAATGATAATTATTCATTGAGAAA
127 AATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAAA
* * * ***
2895798 TCATTTCAAGCTTTTGAAGGCATGAGAAACTTGTGATCC
192 TCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAATCC
* * ** * * * * *
2895837 TATTTTCTTG-CAAAAAGATAGCATCCATTTCACGTTTCCCATTGC-AACATCCAATTGTGATAG
1 -CTTTCCTTGTC-AATGGATAGCATCCAATTCATGTTTTCCAATGCAAACATCCAATTATGATAG
* * * *
2895900 GTTTTAACCAAGAACAAAAGAGCTTTTGACTTGTTTTCAATTTCA-AATCATTTGTAAGATTATA
64 GTTTTAAGCAAGAACAAAA-AGCTTTTGATTTATTTTCAATTT-ATAATCATTTATAAGATTATA
* *
2895964 AATGAATTATGTATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCAATGATAAA
127 AATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAAA
* * ** *
2896029 TCATTTCAAGCATTCAAAGGCGTGATAAACTTAAAATATC
192 TCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAAT-CC
* *
2896069 CTTTCCTTGTCAATGGATAGCATCC-ATTCCATGTTTTCCAATGCAAATATCCAATTATGATAGT
1 CTTTCCTTGTCAATGGATAGCATCCAATT-CATGTTTTCCAATGCAAACATCCAATTATGATAGG
2896133 TTTTAAGCAAGAACATAAAAGCTTTTGATTTATTTT
65 TTTTAAGCAAGAACA-AAAAGCTTTTGATTTATTTT
2896169 TTATTTAATT
Statistics
Matches: 850, Mismatches: 145, Indels: 58
0.81 0.14 0.06
Matches are distributed among these distances:
228 5 0.01
229 72 0.08
230 139 0.16
231 334 0.39
232 113 0.13
233 174 0.20
234 13 0.02
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (230 bp):
CTTTCCTTGTCAATGGATAGCATCCAATTCATGTTTTCCAATGCAAACATCCAATTATGATAGGT
TTTAAGCAAGAACAAAAAGCTTTTGATTTATTTTCAATTTATAATCATTTATAAGATTATAAATG
AATTATATATCATAATATTGATGATAAAATGTTATCAAAATGATAATTATTCATTGATAAATCAT
TTCAAGCTTTCGAAGGCAAGATAAACTTAAAATCC
Found at i:2895989 original size:461 final size:460
Alignment explanation
Indices: 2894962--2896152 Score: 1368
Period size: 461 Copynumber: 2.6 Consensus size: 460
2894952 AATGCAAATG
* * **
2894962 TCCAATTATGATAGGTTTTAAGTAAGAACAAGAAGCTTTTGATTTATTTTCGATTTATAATTGTT
1 TCCAATTATGATAGGTTTTAAGTAAGAACAAAAAGCTTTTGATTTATTTTCAATTTATAATCATT
* * *
2895027 TAG-AAGATTATAAATGAATTATATATAATAATATTAATGATAAAATGTTATCAAAATTATAATT
66 T-GTAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATAATAATT
* * * *
2895091 ATTCACTGATAAATCATTTCAAGCTTTCGAAGGCAAGATAAAATTCAAATCCTCTTTCCTTATCA
130 ATTCAATGATAAATCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAAT-CTCTTTCCTTGTCA
* ** * *
2895156 ATGGCTAGAATCTAGTTCATGTTTCCTAATGCAAACA-TCTAATTATGAT-AGGTTTTAACCGAA
194 ATGGATAGAATCTA-TTCACATTTCCCAATGCAAACATTC-AATTATGATAATG-TTTAACC-AA
* * * * * * *
2895219 -AACCAAAAAAAGTTTCGATTTATTTTTGATTTATACTTATTTGTAAGTTTATAAATGAATTATA
255 GAA-CAAAAAAAGTTTCAATTTATCTTTAATTTATAATCATTTATAAGATTATAAATGAA-TATA
* * * *
2895283 TATCATAATATTGATAATAAAATGTTATCAAAATGATTATTATTCATTGATAAATCTTTTCAAGT
318 TATCATAATATTGAGAATAAAATGTTATCAAAATGATAATTATTCATTGAGAAATCATTTCAAGT
* * ** *
2895348 TTTCGAAAGCACGATAAACTTAAAATGCCCTTTCCTTGTCAACGGATAGCATCCAATATATGTTT
383 TTTCGAAAGCACGAGAAACTTAAAATGCCATTTCCTTGTCAAAAGATAGCATCCAATATACGTTT
* *
2895413 TCCAATGTAAATA
448 CCCAATGTAAACA
* * * *
2895426 TCCACTTATGATA-GTTTTAAGTAAGAACAACAAAGGTTTTGATTTATTTTCTATCTATAATCAT
1 TCCAATTATGATAGGTTTTAAGTAAGAACAA-AAAGCTTTTGATTTATTTTCAATTTATAATCAT
* * * *
2895490 TTATAAGATTAGAAATAAATTATATACCATAATATTGATGATAAAATGTTATCAAAATAATAATT
65 TTGTAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATAATAATT
* * *
2895555 ATTCATTGATAAATCATTTCAAGCTTTCGTAGGCAAGATAAACTTAAAATGCTCTTT-TTCTGTC
130 ATTCAATGATAAATCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAAT-CTCTTTCCT-TGTC
*
2895619 AATGGATAGTATCTACTTCACATTTCCCAATGCAAACATTCAATTATGATAATGTTTAACCAAGA
193 AATGGATAGAATCTA-TTCACATTTCCCAATGCAAACATTCAATTATGATAATGTTTAACCAAGA
* *
2895684 AC-AAGAAAGATTTCAATTTATCTTTAATTTATAATCATTTATAAGATTATAAATGAA-GTATAT
257 ACAAAAAAAG-TTTCAATTTATCTTTAATTTATAATCATTTATAAGATTATAAATGAATATATAT
*
2895747 CATAATATTGAGGATAAAATGTTATCAAAATGATAATTATTCATTGAGAAATCATTTCAAGCTTT
321 CATAATATTGAGAATAAAATGTTATCAAAATGATAATTATTCATTGAGAAATCATTTCAAG-TTT
* * *** * *
2895812 T-GAAGGCATGAGAAACTTGTGAT-CCTATTTTCTTG-CAAAAAGATAGCATCC-ATTTCACGTT
385 TCGAAAGCACGAGAAACTTAAAATGCC-ATTTCCTTGTC-AAAAGATAGCATCCAATAT-ACGTT
* *
2895873 TCCCATTG-CAACA
447 TCCCAATGTAAACA
* ** * *
2895886 TCCAATTGTGATAGGTTTTAACCAAGAACAAAAGAGCTTTTGACTTGTTTTCAATTTCA-AATCA
1 TCCAATTATGATAGGTTTTAAGTAAGAACAAAA-AGCTTTTGATTTATTTTCAATTT-ATAATCA
* *
2895950 TTTGTAAGATTATAAATGAATTATGTATCATAATATTGATGATAAAATGTTATCAAAATGATAAT
64 TTTGTAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATAATAAT
* * ** *
2896015 TATTCAATGATAAATCATTTCAAGCATTCAAAGGCGTGATAAACTTAAAATATCCTTTCCTTGTC
129 TATTCAATGATAAATCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAATCT-CTTTCCTTGTC
* * * * * * * *
2896080 AATGGATAGCATCCATTC-CATGTTTTCCAATGCAAATATCCAATTATGATAGTTTTTAAGCAAG
193 AATGGATAGAATCTATTCACA--TTTCCCAATGCAAACATTCAATTATGATAATGTTTAACCAAG
*
2896144 AACATAAAA
256 AACAAAAAA
2896153 GCTTTTGATT
Statistics
Matches: 617, Mismatches: 91, Indels: 40
0.82 0.12 0.05
Matches are distributed among these distances:
459 2 0.00
460 26 0.04
461 308 0.50
462 15 0.02
463 61 0.10
464 201 0.33
465 4 0.01
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (460 bp):
TCCAATTATGATAGGTTTTAAGTAAGAACAAAAAGCTTTTGATTTATTTTCAATTTATAATCATT
TGTAAGATTATAAATGAATTATATATCATAATATTGATGATAAAATGTTATCAAAATAATAATTA
TTCAATGATAAATCATTTCAAGCTTTCGAAGGCAAGATAAACTTAAAATCTCTTTCCTTGTCAAT
GGATAGAATCTATTCACATTTCCCAATGCAAACATTCAATTATGATAATGTTTAACCAAGAACAA
AAAAAGTTTCAATTTATCTTTAATTTATAATCATTTATAAGATTATAAATGAATATATATCATAA
TATTGAGAATAAAATGTTATCAAAATGATAATTATTCATTGAGAAATCATTTCAAGTTTTCGAAA
GCACGAGAAACTTAAAATGCCATTTCCTTGTCAAAAGATAGCATCCAATATACGTTTCCCAATGT
AAACA
Found at i:2898132 original size:243 final size:242
Alignment explanation
Indices: 2897645--2898152 Score: 528
Period size: 243 Copynumber: 2.1 Consensus size: 242
2897635 AACACGAAGG
* * *
2897645 TTTCGATTTATTTTTGA-TTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTG
1 TTTCGATTTATTTTCGATTTATAATCATATATAAGATTATAAATAAATTATATATCATAATATTG
* * * * *
2897709 AAGATAAAATATTATCAGAAGGATAAGTATTTATTGATAAATCATGTCAAGCTTTCGAAGGCATG
66 AAGATAAAATATTATCAGAAGAATAAGTATTCATTGATAAATCATGTAAAGCTATCAAAGGCATG
* * * * *
2897774 GTAAAGCTAAAATGCTCTTTCCATGTCATTGGATAGCATTATCTTCACATTTTCCCACACAAACA
131 ATAAAGCTAAAATGCACTTTCCATGTCAATGGATAGCATCATCTTCACAGTTTCCCACACAAACA
* *
2897839 TCCAATTTTAATAAATTTTAACGATGAACAACAAAATTTTCAACTTAT
196 TCC-ATTTTAATAAATTTTAACGAGGAACAACAAAACTTTCAACTTAT
* *
2897887 TTTCGATTCATTTTCGATTTATAATCATATATAAGATTATAAATAAATTGTATATCATAATATTG
1 TTTCGATTTATTTTCGATTTATAATCATATATAAGATTATAAATAAATTATATATCATAATATTG
* ** * * * * *
2897952 ATA-TTAAAATATTATCAGACTAATAATTGTTCATTGATAAATCGTTTAAAGCTATCAAAGGTAT
66 A-AGATAAAATATTATCAGAAGAATAAGTATTCATTGATAAATCATGTAAAGCTATCAAAGGCAT
* * * * **
2898016 GATAAA-CTTAAAATGCACTTTTCTTGTTAATGGATAGTATCCA-CTTCAC-GTTTCCCATTGCA
130 GATAAAGC-TAAAATGCACTTTCCATGTCAATGGATAGCAT-CATCTTCACAGTTTCCCA-CACA
** ** * * *
2898078 AACAAT-C-TTTTATGATAGGTTTTAATTAGGAACAATAAAGCTTTCAATTTAT
192 AAC-ATCCATTTTA--ATAAATTTTAACGAGGAACAACAAAACTTTCAACTTAT
* *
2898130 TTTAGATTTATTATC-ATTTATAA
1 TTTCGATTTATTTTCGATTTATAA
2898153 GTTTATAAAT
Statistics
Matches: 217, Mismatches: 41, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
241 5 0.02
242 31 0.14
243 177 0.82
244 4 0.02
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (242 bp):
TTTCGATTTATTTTCGATTTATAATCATATATAAGATTATAAATAAATTATATATCATAATATTG
AAGATAAAATATTATCAGAAGAATAAGTATTCATTGATAAATCATGTAAAGCTATCAAAGGCATG
ATAAAGCTAAAATGCACTTTCCATGTCAATGGATAGCATCATCTTCACAGTTTCCCACACAAACA
TCCATTTTAATAAATTTTAACGAGGAACAACAAAACTTTCAACTTAT
Found at i:2898219 original size:232 final size:231
Alignment explanation
Indices: 2896621--2898838 Score: 1540
Period size: 231 Copynumber: 9.7 Consensus size: 231
2896611 TGATAATTAT
* * * * * * *
2896621 TCATTTAAAGCTTTCAAAGGCATGATAAACTTAAAGTACTCTGTCATTGTTAATGGATAGTATCC
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
** ** * * * * * ** *
2896686 GTTTCACGTTTTTCAATGTAATCATTCAATTATGATAGTTTTTAACTAAGAACAAGAAAATTTTG
66 ACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGCTTTC
** * * * * * ***
2896751 AA-TTATTTTTTATTTATAATCATTTATAAGATTGTAAATAAATTACATATCGTAACACCAACGA
131 AATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA-GA
* * * * *
2896815 TAAATTGTTAGCAAAATGATAATTATTCAATGATAAA
195 CAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * * * * * *
2896852 TCATTTCTAGCTTTTGCAGGCATGGTAAACATGAAATCCTCTTTCCTTGCCAATGGATAGCATCC
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
* * ** * * *
2896917 ATTTCATGTTTCTTAATGCAAACATCCAATTATGATAGTTTTTAACCAAGAACAGTAAAAGCTTT
66 ACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAAT-AAAGCTTT
* ** * *
2896982 CGATTTATTTTTCATTTATAATCATTTGTAAGATTATTAAATGAATTATATATCACAATATTGAT
130 CAATTTATTTTAGATTTATAATCATTTATAAGATTA-TAAATGAATTATATATCATAATATTGA-
* * *
2897047 GATAAAATGTTGTCAAAATGAT-A--ATT-ATTG-T---
193 GACAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * * * * *
2897078 T--TTT-AAGTTTTCAAAGGCATGATAAACTCAAAATACTCTATCTTTGTCAATGGATAATATCT
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
* * * * *
2897140 AATTCACATTTTCCAATGCAAACATTCAATTATGATAGTTTTTAA-TCAAGAAC----AAG----
66 ACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACT-AAGAACAATAAAGCTTT
* * * * * *
2897196 -GA-TGA-TTTCGATTTATAATCATTTATAAGATTATAATTGAATTATATATCATAACATTAATG
130 CAATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA-G
* * *
2897258 ACAAAATGTTATCAAAATGATAATTGTTCATTGAAAAA
194 ACAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * *
2897296 TCATTTC-AGCTCTT-GAAGGCATGATAAACTTCAAATCCTCTTTCCTT-TCCTATGGATAGTGT
1 TCATTTCAAGCT-TTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGT-CAATGGATAGTAT
* * * * * *
2897358 CCA-TTGGATGTTTCCTAATGCAAACATCCAATTACGATAGGTTTTAACCT-AGAATAGTAAAAG
64 CCACTT-CACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAA-CTAAGAACAAT-AAAG
* ** * * *
2897421 CCTTCAATTTATTTTCTATATATAATCA--T-T----TT-TGAATGAACTATATATCATAATATT
126 CTTTCAATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATT
* * *
2897478 GATGATAAAATGTTATCAAAATGATAATTATTTATTGATAAA
191 GA-GACAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * *
2897520 TTATTTCAACCTTTCGAAGGTATGATAAACTTGAAATGCAT-TTTCCTTGTCAATGAATA-TCAT
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGC-TCTTTCCTTGTCAATGGATAGT-AT
* * * * * ** *
2897583 CTACTACATGTTTCCCAATGCAAATATCCAATTATGATAGTTTTTAA-TGAAGAAC-ACGAAGGT
64 CCACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACT-AAGAACAATAAAGCT
* *
2897646 TTCGATTTATTTTTGA-TTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA
128 TTCAATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTG-
* * * * *
2897710 AGATAAAATATTATCAGAAGGATAAGTATTTATTGATAAA
192 AGACAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * *
2897750 TCATGTCAAGCTTTCGAAGGCATGGTAAAGC-TAAAATGCTCTTTCCATGTCATTGGATAGCAT-
1 TCATTTCAAGCTTTCGAAGGCATGATAAA-CTTAAAATGCTCTTTCCTTGTCAATGGATAGTATC
* * * * ** * * * **
2897813 TATCTTCACATTTTCCCACA--CAAACATCCAATTTTAATAAATTTTAACGATGAACAACAAAAT
65 CA-CTTCAC-GTTTCCCA-ATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGC
* * * *
2897876 TTTCAACTTATTTTCGATTCATTTTCGATTTATAATCATATATAAGATTATAAATAAATTGTATA
127 TTTC-A---A---T---TT-ATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATA
* * * * * *
2897941 TCATAATATTGATATTAAAATATTATCAGACTAATAATTGTTCATTGATAAA
181 TCATAATATTGAGA-CAAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * * * * *
2897993 TCGTTTAAAGCTATCAAAGGTATGATAAACTTAAAATGCACTTTTCTTGTTAATGGATAGTATCC
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
* ** * *
2898058 ACTTCACGTTTCCCATTGCAAACAAT-CTTTTATGATAGGTTTTAATTAGGAACAATAAAGCTTT
66 ACTTCACGTTTCCCAATGCAAAC-ATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGCTTT
* * *
2898122 CAATTTATTTTAGATTTATTATCATTTATAAGTTTATAAATGAATTATATATCATAATTTTGACG
130 CAATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA-G
* *
2898187 ACAAAATGTTATCAAAATGAGAATTATTCATTGATAAA
194 ACAAAATATTATCAAAATGATAATTATTCATTGATAAA
** * * ** * * *
2898225 GAATTTTTAA-CTTTTGAAGGCATGGCAAACTTAAAATACTCTTTCCTTGTCAGTGGATAGTAAC
1 TCA-TTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATC
* * * * ** * *
2898289 CACTACACGTTTCTCAATGCAAATATCAAATCGTGATAGGTTTTAACCATGAACAATAAAGCTTT
65 CACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGCTTT
* * * *
2898354 -AGATTTATTTTCA-ATTTATGATCATTTATAAGATTA-AAAAGTATTATACATCATAATATTGA
130 CA-ATTTATTTT-AGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA
**
2898416 TTCTAAAATATTATCAAAATGATAATTATTCATTGATAAA
193 GAC-AAAATATTATCAAAATGATAATTATTCATTGATAAA
* * * * * * * *
2898456 TCATTTCATGCTTTCAAAGACATGATAAACTTGAAATGCTTTTTCCTTCTCAATGAATAGCATCC
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
* * ** * *
2898521 ACTTCAC-ATTCTCTAATGCAAACATTAAATTATGATAGGTTTTAACTAAAAATAATAAAGCTTT
66 ACTTCACGTTTC-CCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGCTTT
* *
2898585 C----------A-ATTTATAATCATTTATAAGATTATAAATCAATTATAGATCATAATATTGATG
130 CAATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGA-G
* * * * *
2898639 ATAAAATGTTATGAATATGATAATTATTCCA-TCATAAA
194 ACAAAATATTATCAAAATGATAATTATT-CATTGATAAA
* * * * * * * *
2898677 TAATTTCAAGCTTTCGAAGTCATAATAACCTTAAAATGCTTTTTCCTTGTGAATGAATAGCATCC
1 TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
* * * * * * * * * *
2898742 ACTTCATGTTTTCGAATGTAAACATCCAATTATGACAAGTTTTAAGTAAGAACAAGAAGGTTTTT
66 ACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAG-CTTT
** ** *
2898807 TTATTTATTTTTTATTTATAATCATCTATAAG
130 CAATTTATTTTAGATTTATAATCATTTATAAG
2898839 TAGATTGGGG
Statistics
Matches: 1558, Mismatches: 329, Indels: 198
0.75 0.16 0.09
Matches are distributed among these distances:
210 44 0.03
211 26 0.02
212 2 0.00
213 4 0.00
214 4 0.00
218 4 0.00
219 3 0.00
220 105 0.07
221 152 0.10
222 16 0.01
223 103 0.07
224 71 0.05
225 87 0.06
226 4 0.00
229 7 0.00
230 151 0.10
231 268 0.17
232 224 0.14
233 57 0.04
234 38 0.02
235 1 0.00
236 1 0.00
238 1 0.00
239 1 0.00
241 2 0.00
242 18 0.01
243 161 0.10
244 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (231 bp):
TCATTTCAAGCTTTCGAAGGCATGATAAACTTAAAATGCTCTTTCCTTGTCAATGGATAGTATCC
ACTTCACGTTTCCCAATGCAAACATCCAATTATGATAGGTTTTAACTAAGAACAATAAAGCTTTC
AATTTATTTTAGATTTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGAGAC
AAAATATTATCAAAATGATAATTATTCATTGATAAA
Found at i:2898541 original size:231 final size:231
Alignment explanation
Indices: 2897201--2898786 Score: 1153
Period size: 232 Copynumber: 6.9 Consensus size: 231
2897191 ACAAGGATGA
* ** * * * *
2897201 TTTCGATTTATAATCATTTATAAGATTATAATTGAATTATATATCATAACATTAATGACAAAATG
1 TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
* * *
2897266 TTATCAAAATGATAATTGTTCATTGAAAAATCATTTC-AGCTCTT-GAAGGCATGATAAACTTCA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCT-TTCGAAGGCATGATAAACTTAA
* * * * ** * ** *
2897329 AATCCTCTTTCCTT-TCCTATGGATAGTGTCCA-TTGGATGTTTCCTAATGCAAACATCCAATTA
130 AATGCTTTTTCCTTGT-CAATGAATAGCATCCACTT-CACATTTCC-AATGCAAACATCAAATTA
* * * *
2897392 CGATAGGTTTTAACC-TAGAATAGTAAAAGCCTTCA-ATTTAT
192 TGATAGGTTTTAACCAT-GAACAAT-AAAG-CTTTAGATTTAT
* * * * *
2897433 TTTCTATATATAATCATTT-T-TGA--AT----GAACTATATATCATAATATTGATGATAAAATG
1 TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
* * * * *
2897490 TTATCAAAATGATAATTATTTATTGATAAATTATTTCAACCTTTCGAAGGTATGATAAACTTGAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * * * ** * *
2897555 ATGCATTTTCCTTGTCAATGAATATCATCTACTACATGTTTCCCAATGCAAATATCCAATTATGA
131 ATGCTTTTTCCTTGTCAATGAATAGCATCCACTTCACATTT-CCAATGCAAACATCAAATTATGA
* ** * ** * *
2897620 TAGTTTTTAATGAAGAAC-ACGAAGGTTTCGATTTAT
195 TAGGTTTTAACCATGAACAATAAAGCTTTAGATTTAT
** * *
2897656 TTTTGA-TTATAATCATTTATAAGATTATAAATGAATTATATATCATAATATTGAAGATAAAATA
1 TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
* * * * * *
2897720 TTATCAGAAGGATAAGTATTTATTGATAAATCATGTCAAGCTTTCGAAGGCATGGTAAAGC-TAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAA-CTTAA
* * * * * * ** * *
2897784 AATGCTCTTTCCATGTCATTGGATAGCAT-TATCTTCACATTTTCCCACACAAACATCCAATTTT
130 AATGCTTTTTCCTTGTCAATGAATAGCATCCA-CTTCACA-TTTCCAATGCAAACATCAAATTAT
* ** * * * * *
2897848 AATAAATTTTAACGATGAACAACAAAATTTTCAACTTATTTTCGATTCAT
193 GATAGGTTTTAACCATGAAC-A-ATAA-----AGC----TTTAGATTTAT
* * *
2897898 TTTCGATTTATAATCATATATAAGATTATAAATA-AATTGTATATCATAATATTGAT-ATTAAAA
1 TTTCAATTTATAATCATTTATAAGATTATAAA-AGAATTATATATCATAATATTGATGA-TAAAA
* * * * * * * * *
2897961 TATTATCAGACTAATAATTGTTCATTGATAAATCGTTTAAAGCTATCAAAGGTATGATAAACTTA
64 TATTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTA
* * * * * * **
2898026 AAATGCACTTTT-CTTGTTAATGGATAGTATCCACTTCACGTTTCCCATTGCAAACAATC-TTTT
129 AAATGC-TTTTTCCTTGTCAATGAATAGCATCCACTTCACATTT-CCAATGCAAAC-ATCAAATT
** *
2898089 ATGATAGGTTTTAATTAGGAACAATAAAGCTTTCA-ATTTAT
191 ATGATAGGTTTTAACCATGAACAATAAAGCTTT-AGATTTAT
* * * * * *
2898130 TTT-AGATTTATTATCATTTATAAGTTTATAAATGAATTATATATCATAATTTTGACGACAAAAT
1 TTTCA-ATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAAT
* * ** * * **
2898194 GTTATCAAAATGAGAATTATTCATTGATAAAGAATTTTTAA-CTTTTGAAGGCATGGCAAACTTA
65 ATTATCAAAATGATAATTATTCATTGATAAATCA-TTTCAAGCTTTCGAAGGCATGATAAACTTA
* * * * * * * * * **
2898258 AAATACTCTTTCCTTGTCAGTGGATAGTAACCACTACACGTTTCTCAATGCAAATATCAAATCGT
129 AAATGCTTTTTCCTTGTCAATGAATAGCATCCACTTCACATTTC-CAATGCAAACATCAAATTAT
2898323 GATAGGTTTTAACCATGAACAATAAAGCTTTAGATTTAT
193 GATAGGTTTTAACCATGAACAATAAAGCTTTAGATTTAT
* * * **
2898362 TTTCAATTTATGATCATTTATAAGATTA-AAAAGTATTATACATCATAATATTGATTCTAAAATA
1 TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
* * * *
2898426 TTATCAAAATGATAATTATTCATTGATAAATCATTTCATGCTTTCAAAGACATGATAAACTTGAA
66 TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
* * *
2898491 ATGCTTTTTCCTTCTCAATGAATAGCATCCACTTCACATTCTCTAATGCAAACATTAAATTATGA
131 ATGCTTTTTCCTTGTCAATGAATAGCATCCACTTCACATT-TCCAATGCAAACATCAAATTATGA
* *
2898556 TAGGTTTTAA-C-T-AAAAAT-AA----TA-A---AGC
195 TAGGTTTTAACCATGAACAATAAAGCTTTAGATTTA-T
** * *
2898582 TTTCAATTTATAATCATTTATAAGATTATAAATCAATTATAGATCATAATATTGATGATAAAATG
1 TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
* * * * * * *
2898647 TTATGAATATGATAATTATTCCA-TCATAAATAATTTCAAGCTTTCGAAGTCATAATAACCTTAA
66 TTATCAAAATGATAATTATT-CATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAA
* ** * * *
2898711 AATGCTTTTTCCTTGTGAATGAATAGCATCCACTTCATGTTTTCGAATGTAAACATCCAATTATG
130 AATGCTTTTTCCTTGTCAATGAATAGCATCCACTTCA-CATTTCCAATGCAAACATCAAATTATG
* *
2898776 ACAAGTTTTAA
194 ATAGGTTTTAA
2898787 GTAAGAACAA
Statistics
Matches: 1072, Mismatches: 228, Indels: 119
0.76 0.16 0.08
Matches are distributed among these distances:
219 1 0.00
220 27 0.03
221 143 0.13
222 18 0.02
223 16 0.01
224 65 0.06
225 78 0.07
226 6 0.01
227 2 0.00
228 7 0.01
229 3 0.00
230 147 0.14
231 147 0.14
232 220 0.21
233 9 0.01
236 2 0.00
238 1 0.00
241 3 0.00
242 21 0.02
243 149 0.14
244 7 0.01
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (231 bp):
TTTCAATTTATAATCATTTATAAGATTATAAAAGAATTATATATCATAATATTGATGATAAAATA
TTATCAAAATGATAATTATTCATTGATAAATCATTTCAAGCTTTCGAAGGCATGATAAACTTAAA
ATGCTTTTTCCTTGTCAATGAATAGCATCCACTTCACATTTCCAATGCAAACATCAAATTATGAT
AGGTTTTAACCATGAACAATAAAGCTTTAGATTTAT
Found at i:2898612 original size:18 final size:17
Alignment explanation
Indices: 2898589--2898631 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2898579 AGCTTTCAAT
*
2898589 TTATAATCATTTATAAGA
1 TTATAATCAATTAT-AGA
2898607 TTATAAATCAATTATAGA
1 TTAT-AATCAATTATAGA
*
2898625 TCATAAT
1 TTATAAT
2898632 ATTGATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (17 bp):
TTATAATCAATTATAGA
Found at i:2898775 original size:221 final size:220
Alignment explanation
Indices: 2898362--2898786 Score: 566
Period size: 221 Copynumber: 1.9 Consensus size: 220
2898352 TTAGATTTAT
* **
2898362 TTTCAATTTATGATCATTTATAAGATTAAAAAGTATTATACATCATAATATTGATTCTAAAATAT
1 TTTCAATTTATAATCATTTATAAGATTAAAAAGTATTATACATCATAATATTGATGATAAAATAT
* * * * *
2898427 TATCAAAATGATAATTATTCATTGATAAATCATTTCATGCTTTCAAAGACATGATAAACTTGAAA
66 TATCAAAATGATAATTATTCATTCATAAATAATTTCAAGCTTTCAAAGACATAATAAACTTAAAA
* * *
2898492 TGCTTTTTCCTTCTCAATGAATAGCATCCACTTCACATTCTCTAATGCAAACATTAAATTATGAT
131 TGCTTTTTCCTTCTCAATGAATAGCATCCACTTCACATTCTCGAATGCAAACATCAAATTATGAC
*
2898557 AGGTTTTAACTAAAAATAATAAAGC
196 AAGTTTTAACTAAAAATAATAAAGC
* *
2898582 TTTCAATTTATAATCATTTATAAGATTATAAA-TCAATTATAGATCATAATATTGATGATAAAAT
1 TTTCAATTTATAATCATTTATAAGATTAAAAAGT--ATTATACATCATAATATTGATGATAAAAT
* * * * * *
2898646 GTTATGAATATGATAATTATTCCA-TCATAAATAATTTCAAGCTTTCGAAGTCATAATAACCTTA
64 ATTATCAAAATGATAATTATT-CATTCATAAATAATTTCAAGCTTTCAAAGACATAATAAACTTA
* * ** * * *
2898710 AAATGCTTTTTCCTTGTGAATGAATAGCATCCACTTCATGTTTTCGAATGTAAACATCCAATTAT
128 AAATGCTTTTTCCTTCTCAATGAATAGCATCCACTTCACATTCTCGAATGCAAACATCAAATTAT
2898775 GACAAGTTTTAA
193 GACAAGTTTTAA
2898787 GTAAGAACAA
Statistics
Matches: 175, Mismatches: 27, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
219 1 0.01
220 30 0.17
221 142 0.81
222 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (220 bp):
TTTCAATTTATAATCATTTATAAGATTAAAAAGTATTATACATCATAATATTGATGATAAAATAT
TATCAAAATGATAATTATTCATTCATAAATAATTTCAAGCTTTCAAAGACATAATAAACTTAAAA
TGCTTTTTCCTTCTCAATGAATAGCATCCACTTCACATTCTCGAATGCAAACATCAAATTATGAC
AAGTTTTAACTAAAAATAATAAAGC
Found at i:2915217 original size:36 final size:36
Alignment explanation
Indices: 2915171--2915244 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
2915161 ACATACAATA
*
2915171 TCATGTCATGCCCCATTGCTGCA-GCAAACAACGAAG
1 TCATGCCATGCCCCATTGCTG-ATGCAAACAACGAAG
* *
2915207 TCATGCCATGCCCTATTGTTGATGCAAACAACGAAG
1 TCATGCCATGCCCCATTGCTGATGCAAACAACGAAG
2915243 TC
1 TC
2915245 TTGTCACGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (36 bp):
TCATGCCATGCCCCATTGCTGATGCAAACAACGAAG
Found at i:2915270 original size:36 final size:37
Alignment explanation
Indices: 2915193--2915270 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 37
2915183 CCATTGCTGC
* * * *
2915193 AGCAAACAACGAAGTCATGCCATGCCCTATTGTTGAT
1 AGCAAACAACGAAGTCATGCCACGCCCCACTGTTCAT
* *
2915230 -GCAAACAACGAAGTCTTGTCACGCCCCACTG-TCAT
1 AGCAAACAACGAAGTCATGCCACGCCCCACTGTTCAT
2915265 AGCAAA
1 AGCAAA
2915271 TGATGGAGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (37 bp):
AGCAAACAACGAAGTCATGCCACGCCCCACTGTTCAT
Found at i:2916813 original size:70 final size:70
Alignment explanation
Indices: 2916696--2916864 Score: 173
Period size: 70 Copynumber: 2.4 Consensus size: 70
2916686 ATTTACCCTG
* * * * *
2916696 CATAAGATCAGCTATAGAGGGTTTGTAGTCGATCTTAGACCAAAATGTT-CATTT-TTAGCAGAT
1 CATAAGATCAACTATAGAGGGTCTATAGCCGATCTTAGACCAAAATGTTACATTTCTT-CCA-AT
*
2916759 TTTGCTT
64 TTTCCTT
* * * *
2916766 CATAAAATCAACTATAGAGGGTCTATAGCCGATCTTCGA-CATGAATGTTCACATTTCTTCCATT
1 CATAAGATCAACTATAGAGGGTCTATAGCCGATCTTAGACCA-AAATGTT-ACATTTCTTCCAAT
2916830 TTTCCTT
64 TTTCCTT
* *
2916837 CTTAAGATCAACTATAGAGGGCCTATAG
1 CATAAGATCAACTATAGAGGGTCTATAG
2916865 TCGACCTTGG
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
69 2 0.02
70 39 0.48
71 32 0.39
72 7 0.09
73 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (70 bp):
CATAAGATCAACTATAGAGGGTCTATAGCCGATCTTAGACCAAAATGTTACATTTCTTCCAATTT
TCCTT
Found at i:2923937 original size:67 final size:67
Alignment explanation
Indices: 2923822--2923948 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 67
2923812 AGGCCATCTG
* *** * * *
2923822 TTGGGATATTGCCCTAGATGATGATTGTGATGACACTTGTGGAAAATACTTTGGGTGATGTTGTT
1 TTGGGATATTGCCCGAGATGATGATTGTGATGACACCCATAGAAAATACTCTAGGTGATGTTGTT
2923887 CA
66 CA
* *
2923889 TTGGGATATTGCCCCGA-ATGATGATTGTGATGCCACCCATAGAGAATACTCTAGGTGATG
1 TTGGGATATTG-CCCGAGATGATGATTGTGATGACACCCATAGAAAATACTCTAGGTGATG
2923949 CCATCTGTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (67 bp):
TTGGGATATTGCCCGAGATGATGATTGTGATGACACCCATAGAAAATACTCTAGGTGATGTTGTT
CA
Found at i:2934877 original size:171 final size:170
Alignment explanation
Indices: 2934347--2935371 Score: 653
Period size: 171 Copynumber: 6.0 Consensus size: 170
2934337 NNNNNCGTGG
* * * *
2934347 GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGACTTTTGTTCTCAATTAATGGCTTTTT
1 GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAATTTTCTTATCAATGAAT-GCTTTTT
* * ** * * * * * * *
2934412 ATACATGTTT-TCGCAGGTA-ATAATTTAATTATAGTCTGTTTTAACAAAAAATAT-AAAAAATT
65 CTACACGTTTCT-TAAGGCAGA-CATTCAATCATAGTCTGTTTTAACTAAAAATGTAAAAAAATA
* * * *
2934474 GAACTTAAAAGT-AATTATGCGATTATAAAACTATTTAAAGCT-T
128 CAACTTAAAA-TCAATTATGAGATTATAAAACCATTTAAAG-TAA
* * * * * * *
2934517 GTAATAAGGCTTTTGAACGAGT-AGGTGACTATAAATGGACTTTTCTTACCAATGAATACCTTTT
1 GTAATAAGGCTTTTGAAGGAATGA-GAGACTATAAATAGAATTTTCTTATCAATGAAT-GC-TTT
* ** * * * * * * * * *
2934581 TTCT-CAAGTTTCTCGATGTAAAAATTTAGTTATAATCTGTTTTTACTAAACAA-GTAAAGAAAA
63 TTCTACACGTTTCTTAAGGCAGACATTCAATCATAGTCTGTTTTAACTAAA-AATGTAAA-AAAA
** * ********** *
2934644 TTGAACTTAAAATCAATTTTGAGATTANNNNNNNNNNTAAAGTGA
126 TACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAA
* * * *
2934689 GTAATAAGGCTTTTGAAGGAGTGGGTGACTATAAATAGAATTTTCTTGTCAATGAATGCATTTTT
1 GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAATTTTCTTATCAATGAATGC-TTTTT
** * *
2934754 CTTTACGTTTCTTAAGGGAGACATTCAATCATTA-TCTGTTTTAACAAAAAATGTAAAAAAATAC
65 CTACACGTTTCTTAAGGCAGACATTCAATCA-TAGTCTGTTTTAACTAAAAATGTAAAAAAATAC
* *
2934818 ATCTTAAAATCAATTATGAGATTATAAAACCAATTAAAGTAA
129 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAA
* * *
2934860 GTAATAAGGCTTTTGAAGGAAT-AGGAGACTATTAAT-GAATTTTTCTT-TCAAATAAATGGGTT
1 GTAATAAGGCTTTTGAAGGAATGA-GAGACTATAAATAGAA-TTTTCTTATC-AATGAAT-GCTT
* * * * * * * * * *
2934922 TTTCTATATGTTTCATGAGGCAGGCATTC-ATGTACAGCCTGTTTTAACTAAAAATGTACAAAAC
62 TTTCTACACGTTTCTTAAGGCAGACATTCAAT-CATAGTCTGTTTTAACTAAAAATGTAAAAAAA
* * * * * * * *
2934986 TTCAACTTAATATTAATTACGAGATTATAAGATCATTTACAGCAA
126 TACAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAA
* * * *
2935031 GTAATAAAGCTTTCGAAGGAATGAGAGAC-ATAAATAGACTTATCTTATCAATGAATGCTTTTTT
1 GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAATTTTCTTATCAATGAATGC-TTTTT
* * * * * ** * *
2935095 CTTCACTTTTATTAATGTAGACATTTGATTATAGTCTGTTTTAACTAAAAATGTAAAAAAAATTC
65 CTACACGTTTCTTAAGGCAGACATTCAATCATAGTCTGTTTTAACTAAAAATGT-AAAAAAATAC
**********
2935160 AACTTAAAATCNNNNNNNNNNTTATAAAACCATTTAAAG-AGA
129 AACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTA-A
* * *
2935202 GTAATAAGGCTTTTGAAGAAATGAGAGACTATAAATAGACTTTTCTTATCAATGAATGGCTTTCT
1 GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAATTTTCTTATCAATGAAT-GCTTTTT
* * * * *
2935267 CTACATGTTTCTTGAGGCA-AGTATTCAATTATAGTCTGTTTTAA-TGAAAAATGTAAAAAAACA
65 CTACACGTTTCTTAAGGCAGA-CATTCAATCATAGTCTGTTTTAACT-AAAAATGTAAAAAAA-T
* * *
2935330 ATTAACTTAAAATCAGTTATGAAATTATAAAACCATTTAAAG
127 A-CAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG
2935372 CGAGNNNNNN
Statistics
Matches: 661, Mismatches: 162, Indels: 61
0.75 0.18 0.07
Matches are distributed among these distances:
169 2 0.00
170 152 0.23
171 285 0.43
172 189 0.29
173 33 0.05
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (170 bp):
GTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATAGAATTTTCTTATCAATGAATGCTTTTTC
TACACGTTTCTTAAGGCAGACATTCAATCATAGTCTGTTTTAACTAAAAATGTAAAAAAATACAA
CTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTAA
Found at i:2935036 original size:342 final size:342
Alignment explanation
Indices: 2934688--2935326 Score: 754
Period size: 342 Copynumber: 1.9 Consensus size: 342
2934678 NNNTAAAGTG
* * * * * * *
2934688 AGTAATAAGGCTTTTGAAGGAGTGGGTGACTATAAATAGAATTTTCTTGTCAATGAATGCATTTT
1 AGTAATAAAGCTTTCGAAGGAATGAGAGAC-ATAAATAGAATTATCTTATCAATGAATGCATTTT
* *
2934753 TCTTTACGTTTCTTAAGGGAGACATTCAATCATTA-TCTGTTTTAACAAAAAATGT-AAAAAAAT
65 TCTTCACGTTTATTAAGGGAGACATTCAATCA-TAGTCTGTTTTAACAAAAAATGTAAAAAAAAT
* *
2934816 ACATCTTAAAATCAATTATGAGATTATAAAACCAATTAAAGTA-AGTAATAAGGCTTTTGAAGGA
129 ACAACTTAAAATCAATTATGAGATTATAAAACCAATTAAAG-AGAGTAATAAGGCTTTTGAAGAA
* * * * *
2934880 AT-AGGAGACTATTAAT-GAATTTTTCTT-TCAAATAAATGGGTTTTTCTATATGTTTCATGAGG
193 ATGA-GAGACTATAAATAG-ACTTTTCTTATC-AATAAATGGCTTTCTCTACATGTTTCATGAGG
* *
2934942 CAGGCATTC-ATGTACAGCCTGTTTTAACT-AAAAATGTACAAAACTTCAACTTAATATTAATTA
255 CAAGCATTCAAT-TACAGCCTGTTTTAA-TGAAAAATGTAAAAAACTTCAACTTAATATTAATTA
2935005 CGAGATTATAAGATCATTTACAGCA
318 CGAGATTATAAGATCATTTACAGCA
* *
2935030 AGTAATAAAGCTTTCGAAGGAATGAGAGACATAAATAGACTTATCTTATCAATGAATGCTTTTTT
1 AGTAATAAAGCTTTCGAAGGAATGAGAGACATAAATAGAATTATCTTATCAATGAATGCATTTTT
* * * ** * * *
2935095 CTTCACTTTTATTAATGTAGACATTTGATTATAGTCTGTTTTAACTAAAAATGTAAAAAAAATTC
66 CTTCACGTTTATTAAGGGAGACATTCAATCATAGTCTGTTTTAACAAAAAATGTAAAAAAAATAC
********** *
2935160 AACTTAAAATCNNNNNNNNNNTTATAAAACCATTTAAAGAGAGTAATAAGGCTTTTGAAGAAATG
131 AACTTAAAATCAATTATGAGATTATAAAACCAATTAAAGAGAGTAATAAGGCTTTTGAAGAAATG
* * *
2935225 AGAGACTATAAATAGACTTTTCTTATCAATGAATGGCTTTCTCTACATGTTTCTTGAGGCAAGTA
196 AGAGACTATAAATAGACTTTTCTTATCAATAAATGGCTTTCTCTACATGTTTCATGAGGCAAGCA
* *
2935290 TTCAATTATAGTCTGTTTTAATGAAAAATGTAAAAAA
261 TTCAATTACAGCCTGTTTTAATGAAAAATGTAAAAAA
2935327 ACAATTAACT
Statistics
Matches: 245, Mismatches: 44, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
340 2 0.01
341 75 0.31
342 162 0.66
343 6 0.02
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.35
Consensus pattern (342 bp):
AGTAATAAAGCTTTCGAAGGAATGAGAGACATAAATAGAATTATCTTATCAATGAATGCATTTTT
CTTCACGTTTATTAAGGGAGACATTCAATCATAGTCTGTTTTAACAAAAAATGTAAAAAAAATAC
AACTTAAAATCAATTATGAGATTATAAAACCAATTAAAGAGAGTAATAAGGCTTTTGAAGAAATG
AGAGACTATAAATAGACTTTTCTTATCAATAAATGGCTTTCTCTACATGTTTCATGAGGCAAGCA
TTCAATTACAGCCTGTTTTAATGAAAAATGTAAAAAACTTCAACTTAATATTAATTACGAGATTA
TAAGATCATTTACAGCA
Found at i:2937462 original size:171 final size:170
Alignment explanation
Indices: 2935548--2937762 Score: 801
Period size: 171 Copynumber: 13.1 Consensus size: 170
2935538 NNNNNNNNNN
** * *
2935548 AAACCATTTAAAGTGAGTAATAAGG-TTTTGAAAGAATGGGTTACTATAAAT-AGACTTTTCTTA
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGA-ACTTTTCTTA
** * * * * **
2935611 CCAATGAATATTTTTTTCTTCATGTTTCTCGAGATAGATATTCAATTATAGTCTGTTTTAACAAA
65 CCAATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAA
* * ** **********
2935676 AAATGTAAAAAATTTAACTTAAAATTAGTTANNNNNNNNNN
130 AAATGTAAAAAATTCAACTTAAAATCAACTATGAGATTATA
* * * * * * * *
2935717 AAATCATTTCAAGCGAGTAATAAGG-TTTTGACAGAATAGGTTACTATAAAT-AGACTTTTCTTG
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGA-ACTTTTCTTA
* * * ** * ********** *
2935780 CCAATGAA-AGCTTTTTTCTTTACGTTTCTCAAGGTAGACATTCAATTATAGNNNNNNNNNNTAA
65 CCAATGAATA-CCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGA
* * ** *
2935844 AAAATATAAAAAAATTTAACTTAAAATCAGTTATGAGAATATA
129 AAAATGT-AAAAAATTCAACTTAAAATCAACTATGAGATTATA
* * * * * * * * **
2935887 AAACTATTTGAAGCGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATGAATGAACTTTTCTTGT
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* * * * * *
2935952 CAATG-ATAGGCTTTTTCTACACGTTTCTTGAGGCA-AG-CATTTAATTATATTTTGTTTTAATG
66 CAATGAATA-CCTTATTCTTCACGTTTCTTGA-G-ATAGACATTCAATTATAGTCTGTTTTAATG
* * *
2936014 AAAAATGTAAAAAAAATTCAA-TTTAAATACAATTATTAGATTATA
128 AAAAATGT--AAAAAATTCAACTTAAAAT-CAACTATGAGATTATA
* ** * * * * * * *
2936059 AACCCATTTAAGGCTAGTAATAAGGCTTTTGAAGGTATAGG-AACTATAAATGAGCTTTTCTT-C
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* ** * *** * * * * *
2936122 CAAATAAATGGC---TT-TACACGTTTCCCAAGGTAAACACTCAATTATAGTCTATTTTAATAAA
66 C-AATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAA
* ********** *
2936183 AAATATAANNNNNNNNNNTTAAAATCAATTATGAGATTATA
130 AAATGTAAAAAATTCAACTTAAAATCAACTATGAGATTATA
* * * * * *
2936224 AAACCATTTAACACAAGTAATAAGG-TTTTGAAAGAATGGGTTACTATAAATGAAATTTTTTTAC
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
*** * * * ** * * * *
2936288 CAATGAATGTGTTTTTTTTCACTTTTCTCAATG-TAAATATTCAATTATAATCTATTTTAACT-A
66 CAATGAATACCTTATTCTTCACGTTTCTTGA-GATAGACATTCAATTATAGTCTGTTTTAA-TGA
* * * ***
2936351 TAAATGTAAAACAAATTGAACTTAAAATCAATTATGAGATTNNN
129 AAAATGT-AAA-AAATTCAACTTAAAATCAACTATGAGATTATA
******* *** * * ** * *
2936395 NNNNNNNTTAATGTGAGTAATAAGGC-TTTGAAAGAATGGGTGGCTATAAATGGCCTTTGCTTGC
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
*** * * ** * * * * **
2936459 CAATGAATGTGTTGTTCTCCATATTTCTCGAGGTAGACATTCAATTATTGTCTATTTTAACCAAA
66 CAATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAAA
* * *
2936524 AATGTAAAAAATATTGAACGT-AAATCAATTATGAGATTATA
131 AATGT-AAAAA-ATTCAACTTAAAATCAACTATGAGATTATA
* * * ** * * * * **
2936565 AAACCATTTAAAGCGAGTAACATGGCTTTTGATGGAATGAGAGACTATAAATGGACTTTTCTTTG
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* * ** * ** * * *
2936630 AAATAAATGA-CTT-TCTCCACACATTTCTCAAGGTAGGCATTCAATTATAGTCTATTTTAATGA
66 CAATGAAT-ACCTTAT-TCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGA
* *
2936693 AATATGTAAAACAATTCAACTTAAAATCAATTATGAGATTATA
129 AAAATGTAAAA-AATTCAACTTAAAATCAACTATGAGATTATA
** *********** * * * * **
2936736 AATTCATTTAAAGNNNNNNNNNNGGCTTTTGAAGGAATTGGTGACTATAAATGGACTTTTCTTGG
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* * * * * * *
2936801 CAATGAATGCTTTTTTCTTCATGTTT-TTCAAAGTAGACATTCAATTATCA-TCTGTTTGAACT-
66 CAATGAATACCTTATTCTTCACGTTTCTTGAGA-TAGACATTCAATTAT-AGTCTGTTTTAA-TG
* * * * * *
2936863 -AAAATGCATAAAATTAAACATAAAATCAATTTTGAGATTATA
128 AAAAATGTAAAAAATTCAACTTAAAATCAACTATGAGATTATA
* *** * * ** *
2936905 AAAACATTTAAAGTAAGTAATAAGCCTTTTG-AAGAAATTGGTGATTATAAAT-AGGCTTTTCTT
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAG-AATGGGTGACCATAAATGA-ACTTTTCTT
** * ** * * *** * * ** *
2936968 GTCAATAAATGTCTTTTTCTACACGTTTCCCAAGGTA-AGTATTCAATTGGAGTCTATTTTAAT-
64 ACCAATGAATACCTTATTCTTCACGTTTCTTGAGATAGA-CATTCAATTATAGTCTGTTTTAATG
* *
2937031 AAAAA---AAAAAATTCAACTT-CAATACAATTATGACG-TTATA
128 AAAAATGTAAAAAATTCAACTTAAAAT-CAACTATGA-GATTATA
** * * ** * * * *
2937071 AAAGCC-TTTAAGGCTAGTAATAAGGCTTTTGAATGAATAAGAGACTATAAATAAACTTTTTTTT
1 AAA-CCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAAC-TTTTCTT
* * * * * * * * * *
2937135 A--AATAAATA-GTT-TTTTTGTACATTTCCTAAGATAGGCATTCAATTAGAGTCTGTTTTAATA
64 ACCAATGAATACCTTATTCTT-CACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATG
* *
2937196 AAAAATATAAAAAATTCAACTTAAAATCAACTTTGAGATTATA
128 AAAAATGTAAAAAATTCAACTTAAAATCAACTATGAGATTATA
* * * * * * *
2937239 TAACCATTTAAAATGGGTAATAAGGCTTTTGAAGGATTGGGTGACCATAAATGGACTTTTTTTAC
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* * *
2937304 CAATGAATGCCTTATTCTTCATGTTTCTTGAGATAGACATTCAATTATAGTCTCTTTTAATGAAA
66 CAATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAAA
*
2937369 ACTGTAAAACAATTCAACTTAAAATCAA-TGATGAGATTATA
131 AATGTAAAA-AATTCAACTTAAAATCAACT-ATGAGATTATA
********** * **
2937410 AAACCATTTAAAACGAGNNNNNNNNNNTTTGAAAGAATGGGTGACTATAAATGAACTTTTCTTGT
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
* * *
2937475 CAATGAATATCTTTTTCTTCACGTTTCTTGACG-TAAACATTCAATTATAGTCTGTTTTAATGAA
66 CAATGAATACCTTATTCTTCACGTTTCTTGA-GATAGACATTCAATTATAGTCTGTTTTAATGAA
********* * *
2937539 AAATGTAAANNNNNNNNNNTTAAAATTAATTATGAGATTATA
130 AAATGTAAA-AAATTCAACTTAAAATCAACTATGAGATTATA
* * * * * * ** * * *
2937581 AAACTATTTAAAGCGAATGATAAGACTTTTGAAGGAATAAGTGGCTACAAAT-AGACTTTTCTTA
1 AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGA-ACTTTTCTTA
* * ** * * * * * **
2937645 CCAATGAATGCCTT-TTTTTCACGTTTCTCAAGGTAGATATTCAGTTATAGTTTTTTTTAACCAA
65 CCAATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAA
* * * *
2937709 ATATGTAAAAAAATTCAACTTAAAATCAATTTTGAGATAATA
130 AAATGT-AAAAAATTCAACTTAAAATCAACTATGAGATTATA
2937751 AAACCATTTAAA
1 AAACCATTTAAA
2937763 GTGGGTAATA
Statistics
Matches: 1544, Mismatches: 431, Indels: 141
0.73 0.20 0.07
Matches are distributed among these distances:
163 3 0.00
164 47 0.03
165 77 0.05
166 72 0.05
167 59 0.04
168 75 0.05
169 273 0.18
170 232 0.15
171 638 0.41
172 68 0.04
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.35
Consensus pattern (170 bp):
AAACCATTTAAAACGAGTAATAAGGCTTTTGAAAGAATGGGTGACCATAAATGAACTTTTCTTAC
CAATGAATACCTTATTCTTCACGTTTCTTGAGATAGACATTCAATTATAGTCTGTTTTAATGAAA
AATGTAAAAAATTCAACTTAAAATCAACTATGAGATTATA
Found at i:2940467 original size:22 final size:22
Alignment explanation
Indices: 2940436--2940488 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
2940426 CTACATCGCC
*
2940436 GCAGCGCTGACTCCCCAACGCT
1 GCAGCACTGACTCCCCAACGCT
*
2940458 GCAGGACTGACTCCCCAACGCT
1 GCAGCACTGACTCCCCAACGCT
2940480 GCAGCACTG
1 GCAGCACTG
2940489 GAGCTGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.42, G:0.25, T:0.13
Consensus pattern (22 bp):
GCAGCACTGACTCCCCAACGCT
Found at i:2949496 original size:170 final size:170
Alignment explanation
Indices: 2949121--2950156 Score: 654
Period size: 171 Copynumber: 6.1 Consensus size: 170
2949111 NNNNNNNNAT
* * * * * *
2949121 TTTAAGTTCAATTTTTTTATATTTTTGGTTAAAATAGATAATAATTGAATGTTTAACTCCAGAAA
1 TTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCAAGAAA
* * ** * * * * *
2949186 CGTAAAGAAAAACACATTCATTGGCAAGCAAAGTCTATTTATAGTCACCCATTCTTTCAAAAGCC
66 AGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGT-ATCTATTCATTCAAAAGCC
* * * *
2949251 TTATTACTCACTTTAGATGGTTTTATGATCTCAAAATTAAT
130 TTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
* *
2949292 TTTAAGTTCAATTTTTTTGAGC-TTTTTAGTTAAAACAGATTAT-ATTGAA-GATTTACCTCAAG
1 TTTAAGTTCAATTTTTTT-A-CATTTTTGGTTAAAACAGATTATAATTGAATG-TCTACCTCAAG
* * * *
2949354 AAAAGTGAAGGAAAAGGCATTCATTGGCAAGAGAATTCCATTTATAGTAATCTATTCATTCAAGA
63 AAAAGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGT-ATCTATTCATTCAAAA
* * * *
2949419 -CCTTATTACTTGCTTTAAATGGTTTTATAATTTCATAATTGA-
127 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
* ** *
2949461 TTTAATGTTCAATTTTTTATACATTTTTGGTTAAAACATACCATAATTGAATGTCTACCTCGAGA
1 TTTAA-GTTCAATTTTTT-TACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCAAGA
* * * * *
2949526 AATGTGAA-AAAAAAGCATTCATTAGCAAGAAAAGTCCATTTATAGTGTCTAATTCCTTCAAAAG
64 AAAGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTATCT-ATTCATTCAAAAG
* * * *
2949590 TCTTATTACTCGCTTTAAATGGGTTTATTATCTCAAAATTCAG
128 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
* * * * * *
2949633 TTTATGTTCAATTTTTTTTACATTTTT-GTATAAAATAGATTATAATTGACTATCTATCTTAAGA
1 TTTAAGTTCAA-TTTTTTTACATTTTTGGT-TAAAACAGATTATAATTGAATGTCTACCTCAAGA
* * * * * * *
2949697 AACA-TGAAGAAAAAGGTATTCATTGGTAAGAAAAGTCTATTTATAGCCACCCATTCCTTCAAAA
64 AA-AGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAG-TATCTATTCATTCAAAA
**************** * * *
2949761 GCCTTATNNNNNNNNNNNNNNNNTTTTATAATCTCATAATTGAT
127 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
* * ** * * * *
2949805 TTTAAGTTGAA-TTGTTTACATTTTTCATTAAAATAGAAT-TCATTGGCAA-G---ACCT---TA
1 TTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGATTATAATT-G-AATGTCTACCTCAAGA
** * * ** * * * * * *
2949861 TTACTCATAGAAAAACCCATTTATTTGAAAGAAAAGCCCATTTATAGTCTCCCATTCATTCAAAA
64 AAAGTGA-AGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTAT-CTATTCATTCAAAA
* * * *
2949926 GCCTTATTACTCGCCTTAAATAGTTTTGTAATCTCATAATTATA-
127 GCCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTA-AG
* * * ** * ** * * * *
2949970 TTGAAGTTGAATTTTTTTATATTTTTCATTAAAACAGACTCCAATTGAAT-ACTTGCCTTAGGAA
1 TTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTC-TACCTCAAGAA
* * * * * *
2950034 ACGTGTAGAAAAAGTCATTCATTGGCAAGAAAAGCCCATTTATAGTCACCCATT-ATTTCAAAAG
65 AAGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGT-ATCTATTCA-TTCAAAAG
* * * * *
2950098 GCTTTTTACTCGCTTTAAATAGTTTTATAATCTCAAAATTGAT
128 CCTTATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
*
2950141 TTTATGTTCAATTTTT
1 TTTAAGTTCAATTTTT
2950157 NNNNNNNNNN
Statistics
Matches: 664, Mismatches: 165, Indels: 72
0.74 0.18 0.08
Matches are distributed among these distances:
163 1 0.00
164 3 0.00
165 80 0.12
166 26 0.04
167 6 0.01
169 16 0.02
170 137 0.21
171 287 0.43
172 107 0.16
173 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (170 bp):
TTTAAGTTCAATTTTTTTACATTTTTGGTTAAAACAGATTATAATTGAATGTCTACCTCAAGAAA
AGTGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTATCTATTCATTCAAAAGCCT
TATTACTCGCTTTAAATGGTTTTATAATCTCAAAATTAAG
Found at i:2951968 original size:171 final size:171
Alignment explanation
Indices: 2951785--2953224 Score: 663
Period size: 171 Copynumber: 8.4 Consensus size: 171
2951775 TATTTGGAAA
* * *
2951785 AAAAGACCATTTATAGTCTCCCATACCTTCAAAAGCCTCATTACTAGCCTTAAATGGTTTTATAA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTA-CCTTAAATGGTTTTATAA
* * * * *
2951850 TCTCATAATTGTATTTAAATTGAATTTTTTTATATTTTTTATTAAAACAGACTATAGTTGAATG-
65 TCTCATAACTGTATTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGT
* *
2951914 CTTGCCTCTGA-AAACGTGTA-AAAAAAGTCATTCATTAGCAAG
130 C-T-CCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
* * * * *
2951956 AAAAGTCCATTTATAATCTCCTATTCCTTAAAAAGACTTATTACT-CACTTTAATCGGTTTTATA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAC-CTTAAAT-GGTTTTATA
* * *
2952020 ATCTTATAACTG-ATTTTAAGTTGAATTTTTTTACATTTTTGATTGAAACAGACTATAATTAAAT
64 ATCTCATAACTGTA-TTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTATAATTGAAT
* * *
2952084 GTCTACTTTGAGAAACGTAAAGAAAAAAG-CATTCATTGGCAAG
128 GTCTCCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
* * * * *
2952127 AAAAGTCAATTGATAGTC-CCACATTCCTTCAAAATCCTTATTACTCACTTTAAATGATTTTATA
1 AAAAGTCCATTTATAGTCTCC-CATTCCTTCAAAAGCCTTATTACT-ACCTTAAATGGTTTTATA
********* * * *
2952191 ATCNNNNNNNNNNT-TTTAAGTTGAATTTGTTTACATTTTTGGTTAAAAAAGACTATAATTGAAT
64 ATC-TCATAACTGTATTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTATAATTGAAT
* * *
2952255 GTCTACCTCT-AGAAACGTGAAGAAAAAAGT-TTTCACTGGCAAT
128 GTCT-CCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
* * * * **********
2952298 AAAAGTCCATTTATAGTCTTCCATTCCTTCGAAAGCCTTATTACTTGCTTTAANNNNNNNNNNAA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTAC-TACCTTAAATGGTTTTATAA
* * * * * *
2952363 TCTCATAATTG-ATTTTAAGTTGAAGTTTTTAACA-TTTTCAGTTAAAATAGACTGT-ATATGAA
65 TCTCATAACTGTA-TTTAAGTTGAATTTTTTTACATTTTTGA-TTAAAACAGACTATAAT-TGAA
* * * * * *
2952425 TGTCT-ATCTCAAGAAACATGTAG-AAAAA-TCTATTTATTTGG-AAA
127 TGTCTCCTCT-GAGAAACGTGAAGAAAAAAGTC-ATTCA-TTGGCAAG
** * * * * * ********* * *
2952469 AAAAGTTTATTAATAATCTTCTATTCTTTCAAAAGCCNNNNNNNNNNCTTTAAAAGGTTTTATAA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCC-TTATTACTACCTTAAATGGTTTTATAA
*
2952534 TCTCAT-ACT-TATTTTTAAGTTGAATTTTTTTACATTTTT-AGTTAAAACAGACTATAATTTAA
65 TCTCATAACTGTA--TTTAAGTTGAATTTTTTTACATTTTTGA-TTAAAACAGACTATAATTGAA
* * * * * *
2952596 TATCTACCT-TGAAAAACATG--GTAAAAA-TGCATTTATTGACAAG
127 TGTCT-CCTCTGAGAAACGTGAAGAAAAAAGT-CATTCATTGGCAAG
** * * * * *
2952639 AAAAGTTTATTTATAGTCACCCATTCCTTCAAAAGCCCTATT-CTCACTTTAAATCGTTTTATTA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-ACCTTAAATGGTTTTATAA
* * * * * *
2952703 TCTCAAAATTG-ATTTTATGCTTCATTTTTATTTACATTTTTTATTAAAACAGACTATAATTGAA
65 TCTCATAACTGTA-TTTAAG-TTGAATTTT-TTTACATTTTTGATTAAAACAGACTATAATTGAA
********** *
2952767 TGTCTNNNNNNNNNNACATGAAGAAAAAAG-CATTCATTGGCAAG
127 TGTCTCCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
* * * * * * * * *
2952811 AACACTCTATATATAGTCACTCATTCCTTCTAAAGCCTTATTACTCACTTTAAATGATTTTATAA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACT-ACCTTAAATGGTTTTATAA
********** * * * * *
2952876 TCTNNNNNNNNNNTTTAAGTTCAATTTTTTTTC-TTTTTTAGTTAAAACAGATTATAATTAAATG
65 TCTCATAACTGTATTTAAGTTGAATTTTTTTACATTTTTGA-TTAAAACAGACTATAATTGAATG
** * * ** * * *
2952940 TCTAAAT-TAAGAAACATGGGGAAAAATGT-ATTCATCGGTAAG
129 TCT-CCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
* *** ********
2952982 AAAAGTCCATTTATAGTCACTTGTTCCTTCAAAAGCCTTATTACT-CNNNNNNNNNNGTTTTATA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAC--CTTAAATGGTTTTATA
* * * * * *
2953046 ATCTCATAATTGCT-TTTAAGTTCAA-TTTATTATATTTTTTATTGAAACAGACTATAATTGAAT
64 ATCTCATAACTG-TATTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTATAATTGAAT
* * * * * *
2953109 GCCTGCT-TGTGGAAACAT-ATAG-AAAAAG-CTATTAATTGAG-AAC
128 GTCTCCTCTG-AGAAACGTGA-AGAAAAAAGTC-ATTCATTG-GCAAG
* * * *
2953152 AAAAATCCATTTATAGTCTCCTATTCCTTCAAAAGTCTTATTACT-CGTGTTAAATGGTTTTATA
1 AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTAC--CTTAAATGGTTTTATA
2953216 ATCTCATAA
64 ATCTCATAA
2953225 TNNNNNNNNN
Statistics
Matches: 952, Mismatches: 259, Indels: 117
0.72 0.20 0.09
Matches are distributed among these distances:
169 43 0.05
170 190 0.20
171 600 0.63
172 84 0.09
173 35 0.04
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.38
Consensus pattern (171 bp):
AAAAGTCCATTTATAGTCTCCCATTCCTTCAAAAGCCTTATTACTACCTTAAATGGTTTTATAAT
CTCATAACTGTATTTAAGTTGAATTTTTTTACATTTTTGATTAAAACAGACTATAATTGAATGTC
TCCTCTGAGAAACGTGAAGAAAAAAGTCATTCATTGGCAAG
Found at i:2953813 original size:170 final size:170
Alignment explanation
Indices: 2953383--2954823 Score: 994
Period size: 170 Copynumber: 8.4 Consensus size: 170
2953373 NNNNTATCTT
* * * * * * * * *
2953383 GAGAAACGTGAAGAAAAAAGCATTCATTGGCAACAAAAATCTATTTGTAGTCTCCCACTCCTTCG
1 GAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCA
* * * **
2953448 AAAGCCTTATTACTCACTTTAAATGATTTTATTATCTCAAAATTGATTTTATGCTCAATATTTTT
66 AAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAAG-TTGA-ATTTTT
* * * * * *
2953513 TTCATTTTTTGTTAAAATAGACTATAATTGAATGTTTACCTC
129 TTAAATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * * * ******
2953555 AAGAAACGTAAAGAGAAAA-ACATTCATTTGGCAAGAAAAGTCCATTTATAGTCTCTTANNNNNN
1 GAGAAACATGAAGA-AAAAGGCATTCA-TTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTT
**** * *
2953619 NNNNAGCCTTATTACTCGCTTTAAATGATTTTATTATCTCA-ACATTGATTTTAAGTTGAATTTT
64 CAAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATA-ATTGATTTTAAGTTGAATTTT
* *
2953683 TTTAAATTTTAGTTAAAATAGACAATAATTGAATGTCTAGCTC
128 TTTAAATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * * * * * *
2953726 GAGAAGCCTGAAGAAACAGGCATTCATTGACAAAAAAAGTCCGTTTATAGTCTCTTATTCCCTCA
1 GAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCA
*
2953791 AAAGCCTTATTACTCACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTC
66 AAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTT-
** * * * *
2953856 GCATTTTTGGTTAAAATAGACTATAATTGAATGTCTACCTC
130 TAAATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * *
2953897 -ATGAAACATGGAGAAAAAAGG-ATTCATTGGCAAGAAAAGTCGATTTATAGTCACTCATTCTTT
1 GA-GAAACATGAAG-AAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTT
* * * ********** * *
2953960 CGAAAGCATTATTACTCGCTTTAAATTG-TNNNNNNNNNNCATAATTGATTTTAAGTT-AAATAT
64 CAAAAGCCTTATTACTCACTTTAAA-TGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTT
* *
2954023 TTTAAATTTTTCA-TTAAAACAGACTATAATTGAATCTCTATCTC
128 TTTAAA-TTTT-AGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * * * * *
2954067 AAGAAACATGAAGAAAAAGGGAGTCATTGGCAAGAAAAGTCCATTTATAGTCACCCACTCCTTCN
1 GAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCA
********* * *
2954132 NNNNNNNNNTTACTCGCTTTAAATGGTTTTATAATCTCATAATTG-TATTTAAGTTGAATTTGTT
66 AAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGAT-TTTAAGTTGAATTT-TT
* * *
2954196 TTATATATTTTTCA-TCAAAAAAGA-TCATAATTGAATG-CTTGCCTC
129 TTA-A-A-TTTT-AGTTAAAACAGACT-ATAATTGAATGTCTAG-CTC
* * * * * * **
2954241 G-TAAACGTGTAGAAAAAGCCATTCATTGGGAAGAAAAGTTCATTTATAGTCTCTCATTTTTTCA
1 GAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCA
* * ********** *
2954305 AAAACCTTATTACTCACTTTAAATGGTNNNNNNNNNNCATAATTGATTTTAAGTTGAATATTTTT
66 AAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
* * * * *
2954370 ATATTTTCGTTAAAACAGACAATAATTGAATGTATAGCCC
131 AAATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * ** * **
2954410 CAGAAACGTGAAGAAACAA-GCATTTATTGGCAAGAAAAGTTTATTTACAGTCTC-CTATTATTT
1 GAGAAACATGAAGAAA-AAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTC-ATT-CCT
* * *
2954473 TC-AAAGCATTATTACTCGA-TTTAAA-CAGTTTTATAATCTCATAATTGATTTTAAGTTTAATT
63 TCAAAAGCCTTATTACTC-ACTTTAAATGA-TTTTATAATCTCATAATTGATTTTAAGTTGAATT
* * * *
2954535 TGTTTATATTTTTGGTTAAAACAGACTATAATTGAATGTCTATCTC
126 TTTTTA-AATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
* * * * ** * * * *
2954581 GAGAAATATGAGGAAAAAGGTATTTATTTGTAAAAAAAAGTCTATTTATAGTCACCCATTCCTTC
1 GAGAAACATGAAGAAAAAGGCATTCA-TTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTC
** * * * * *
2954646 AAAAGCCTTATTACTTGCTTTAAATTATTTTATAATCTCATAACTAATTTTAAGTTAAATTTTCT
65 AAAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTT
* ** * *
2954711 TATATTTTTCTTTAAAACAGACTATAATTGAATG-CTTGTCTT
130 TA-AATTTTAGTTAAAACAGACTATAATTGAATGTCTAG-CTC
* * * * * * *
2954753 GAAAAACATGCAGAAAAAGCCATTCATCGAG-AAGAAAAGTCTATTTATAGTCACCCATTCCTTC
1 GAGAAACATGAAGAAAAAGGCATTCATTG-GCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTC
2954817 AAAAGCC
65 AAAAGCC
2954824 ATTCATCTTG
Statistics
Matches: 992, Mismatches: 237, Indels: 81
0.76 0.18 0.06
Matches are distributed among these distances:
169 37 0.04
170 302 0.30
171 285 0.29
172 169 0.17
173 169 0.17
174 30 0.03
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (170 bp):
GAGAAACATGAAGAAAAAGGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCTCATTCCTTCA
AAAGCCTTATTACTCACTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTGAATTTTTTT
AAATTTTAGTTAAAACAGACTATAATTGAATGTCTAGCTC
Found at i:2954728 original size:343 final size:340
Alignment explanation
Indices: 2953384--2954822 Score: 1061
Period size: 343 Copynumber: 4.2 Consensus size: 340
2953374 NNNTATCTTG
* * * * * * * * *
2953384 AGAAACGTGAAGAAAAAAGCATTCATTGGCAACAAAAATCTATTTGTAGTCTCCCACTCCTTCGA
1 AGAAACATGAAGAAACAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCTATTCCTTCAA
* * * * * * *
2953449 AAGCCTTATTACTC-ACTTTAAATGATTTTATTATCTCAAAATTGATTTTATGCTCAATATT-TT
66 AAGCATTATTACTCGA-TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAAT-TTGTT
* * * * * * * * *
2953512 TTTCATTTTTTGTTAAAATAGACTATAATTGAATGTTTACCTCAAGAAACGTAAAGAGAAAAA-C
129 TAT-ATTTTTGGTTAAAAAAGACTATAATTGAATGTCTATCTCGAGAAACAT-GAG-GAAAAAGG
* * * * **********
2953576 ATTCATTTGGCAAGAAAAGTCCATTTATAGTCTCTTANNNNNNNNNNAGCCTTATTACTCGCTTT
191 ATTCA-TTGGAAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTT
* * * * *
2953641 AAATGATTTTATTATCTCA-ACATTGATTTTAAGTTGAATTTTTT-TAAATTTTAGTTAAAATAG
255 AAATGATTTTATAATCTCATA-ATTGATTTTAAGTTAAATTTTTTAT-ATTTTTCGTTAAAACAG
*
2953704 ACAATAATTGAATGTCTAGCTCG
318 ACAATAATTGAATGTCTAGCTCA
* * * * * * * *
2953727 AGAAGCCTGAAGAAACAGGCATTCATTGACAAAAAAAGTCCGTTTATAGTCTCTTATTCCCTCAA
1 AGAAACATGAAGAAACAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCTATTCCTTCAA
*
2953792 AAGCCTTATTACTC-ACTTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTT-TTT
66 AAGCATTATTACTCGA-TTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTT
** * * *
2953855 CGCATTTTTGGTTAAAATAGACTATAATTGAATGTCTACCTC-ATGAAACATGGAGAAAAAAGGA
130 -ATATTTTTGGTTAAAAAAGACTATAATTGAATGTCTATCTCGA-GAAACAT-GAGGAAAAAGGA
* * * *
2953919 TTCATTGGCAAGAAAAGTCGATTTATAGTCACTCATTCTTTCGAAAGCATTATTACTCGCTTTAA
192 TTCATTGGAAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAA
********** * * * *
2953984 ATTG-TNNNNNNNNNNCATAATTGATTTTAAGTTAAATATTTTAAATTTTTCATTAAAACAGACT
257 A-TGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTATATTTTTCGTTAAAACAGACA
* *
2954048 ATAATTGAATCTCTATCTCA
321 ATAATTGAATGTCTAGCTCA
* * * * * *
2954068 AGAAACATGAAGAAA-AAGGGAGTCATTGGCAAGAAAAGTCCATTTATAGTCACCCACTCCTTCN
1 AGAAACATGAAGAAACAA-GCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCTATTCCTTCA
********* *
2954132 NNNNNNNNNTTACTCGCTTTAAATGGTTTTATAATCTCATAATTG-TATTTAAGTTGAATTTGTT
65 AAAGCATTATTACTCGATTTAAATGGTTTTATAATCTCATAATTGAT-TTTAAGTTGAATTTG--
** * * *
2954196 TTATATATTTTTCATCAAAAAAGA-TCATAATTGAATG-CT-TGCCTCG-TAAACGTGTA-GAAA
127 TT-TATATTTTTGGTTAAAAAAGACT-ATAATTGAATGTCTAT--CTCGAGAAACATG-AGGAAA
* * * * *
2954256 AAGCCATTCATTGGGAAGAAAAGT-TCATTTATAGTCTCTCATTTTTTCAAAAACCTTATTACTC
187 AAG-GATTCATTGGAAAGAAAAGTCT-ATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTC
* * ********** *
2954320 ACTTTAAATGGTNNNNNNNNNNCATAATTGATTTTAAGTTGAATATTTTTATA-TTTTCGTTAAA
250 GCTTTAAATGATTTTATAATCTCATAATTGATTTTAAGTTAAAT-TTTTTATATTTTTCGTTAAA
* * *
2954384 ACAGACAATAATTGAATGTATAGCCCC
314 ACAGACAATAATTGAATGTCTAGCTCA
* * ** * **
2954411 AGAAACGTGAAGAAACAAGCATTTATTGGCAAGAAAAGTTTATTTACAGTCTCCTATTATTTTC-
1 AGAAACATGAAGAAACAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCTATT-CCTTCA
** *
2954475 AAAGCATTATTACTCGATTTAAACAGTTTTATAATCTCATAATTGATTTTAAGTTTAATTTGTTT
65 AAAGCATTATTACTCGATTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTT
* *
2954540 ATATTTTTGGTTAAAACAGACTATAATTGAATGTCTATCTCGAGAAATATGAGGAAAAAGGTATT
130 ATATTTTTGGTTAAAAAAGACTATAATTGAATGTCTATCTCGAGAAACATGAGGAAAAAGG-ATT
* * * * * *
2954605 TATTTGTAAAAAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTTGCTTTAAA
194 CA-TTGGAAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAA
* * * * *
2954670 TTATTTTATAATCTCATAACTAATTTTAAGTTAAATTTTCTTATATTTTTCTTTAAAACAGACTA
258 TGATTTTATAATCTCATAATTGATTTTAAGTTAAATTTT-TTATATTTTTCGTTAAAACAGACAA
* *
2954735 TAATTGAATG-CTTGTCTTGA
322 TAATTGAATGTCTAG-C-TCA
* * * * *
2954755 A-AAACATGCAGAAA-AAGCCATTCATCGAG-AAGAAAAGTCTATTTATAGTCACCCATTCCTTC
1 AGAAACATGAAGAAACAAG-CATTCATTG-GCAAGAAAAGTCCATTTATAGTCTCCTATTCCTTC
2954817 AAAAGC
64 AAAAGC
2954823 CATTCATCTT
Statistics
Matches: 862, Mismatches: 194, Indels: 80
0.76 0.17 0.07
Matches are distributed among these distances:
340 35 0.04
341 230 0.27
342 152 0.18
343 400 0.46
344 44 0.05
345 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (340 bp):
AGAAACATGAAGAAACAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCTCCTATTCCTTCAA
AAGCATTATTACTCGATTTAAATGGTTTTATAATCTCATAATTGATTTTAAGTTGAATTTGTTTA
TATTTTTGGTTAAAAAAGACTATAATTGAATGTCTATCTCGAGAAACATGAGGAAAAAGGATTCA
TTGGAAAGAAAAGTCTATTTATAGTCACTCATTCTTTCAAAAGCCTTATTACTCGCTTTAAATGA
TTTTATAATCTCATAATTGATTTTAAGTTAAATTTTTTATATTTTTCGTTAAAACAGACAATAAT
TGAATGTCTAGCTCA
Found at i:2955510 original size:341 final size:340
Alignment explanation
Indices: 2954836--2955990 Score: 890
Period size: 341 Copynumber: 3.4 Consensus size: 340
2954826 TCATCTTGAA
* * * * * *
2954836 TTTTTTTACATTTTTGGTTAAAATAGA-TAATAATTGAATGTGTACCTCAAGAAACATGAAG-AA
1 TTTTTTTAC-TTTTTTGTTAAAACAAACT-ATAATTGAATGTCTA-CTCAAAAAACGTGAAGAAA
* * * * * * *
2954899 AA-TCATTCATTGGTAAGAAAAGTCCATTTATAATCACCCATTCTTTCAAAAGCCTTGTTACTCG
63 AAGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCA-CCATTCCTTCAAAAGCCTTATTACTCA
********** * * * * *
2954963 CTTTANNNNNNNNNNTAATCTCATAACTGATTTGAAGTTGAATTTTTTTACTTTTTTGATTAAAA
127 CTTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTAAATTTTTTAACATTTTTGATTAAAA
* * * * ** ** * * * * *
2955028 CAGATAATAATTGAATGTCCACCTCAAGAAGTATGAAGAAAAACTCTTTTATTGGCAAGAGAAGT
192 CAGACAATAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTAATTGGTAAAAAAAGT
* * *********** * * **
2955093 CCA-TTATAGTCAACC-ATTCCTTCAAAAGCCTTATTANNNNNNNNNNATGGTTTTATAACCTCA
257 CCATTTATAGTC-ACCTATTCCTTAAAAAGGCTTATTTCTCGCTTTAAAAGGGTTTATAATATCA
* * *
2955156 AAATTA-ATTTTAAGTTCAA-
321 TAA-CAGATTTTAAGTTAAAT
*
2955175 TTTTTTTACTTTTTTGATTAAAACAAATTATAATTGAATGTCTACTTCAAAAAACGTGAAGAAAA
1 TTTTTTTACTTTTTTG-TTAAAACAAACTATAATTGAATGTCTAC-TCAAAAAACGTGAAGAAAA
*
2955240 AGGTATTCATTGGCAAGAAAAGTCTATTT-TGAGTCACCAATT-CTTCAAAAGCCTTATTACT-A
64 AGGCATTCATTGGCAAGAAAAGTCTATTTAT-AGTCACC-ATTCCTTCAAAAGCCTTATTACTCA
********** * * * *
2955302 GCNNNNNNNNNNTTTATAATCTCATAATTGATTTTGAA-TTAAATTTTTTAATATTTTTTATTAA
127 -CTTTAAATGGTTTTATAATCTCATAACTAATTTT-AAGTTAAATTTTTTAACATTTTTGATTAA
*** * *
2955366 AACAGGTTATAATTAAATGTCTGCCTTAAGAAACATGTAG-AAAAAGCCATTAATTGAG-AAAAA
190 AACAGACAATAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAG-CATTAATTG-GTAAAAA
* * * *
2955429 AAGTCCATTTATAGTCACTTATTCCTTCAAAA-GC-TATGTTACTTGCTTTAAACGGGTTTATAA
253 AAGTCCATTTATAGTCACCTATTCCTTAAAAAGGCTTAT-TT-CTCGCTTTAAAAGGGTTTATAA
*** *
2955492 TATC-TCAGTTGATTTTAAGTTGAAT
316 TATCAT-AACAGATTTTAAGTTAAAT
* * * * * * * *
2955517 TTTTTTTA-TTTTTAGTTAAAACAGACAATAGTTGAATGTGTACCTCGAGAAATGTGAAGAAACA
1 TTTTTTTACTTTTTTGTTAAAACAAACTATAATTGAATGTCTA-CTCAAAAAACGTGAAGAAA-A
2955581 A-GCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTCAC
64 AGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCA-CCATTCCTTCAAAAGCCTTATTACTCAC
* * * *
2955645 TTTAAATGGTTTTATAATCTCATAGCTAATTTTAAGTTAAATTTTTTTACATTTTTGGTTAAAAT
128 TTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTAAATTTTTTAACATTTTTGATTAAAAC
* * * *
2955710 AGACAATAATTCAATGTGTACCTTAAGAAACATGAAGAAAAAAGCATTCATTGGTAAGAAAAGTC
193 AGACAATAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTAATTGGTAAAAAAAGTC
* * *
2955775 CATTTATAGTCACCTATTCTTTAAAAAGGCTTATTTCTCGCTTTAAAAGGTTTTATAATCTCATA
258 CATTTATAGTCACCTATTCCTTAAAAAGGCTTATTTCTCGCTTTAAAAGGGTTTATAATATCATA
*
2955840 ACAGATTTTAAATTAAAT
323 ACAGATTTTAAGTTAAAT
* * *
2955858 TTTTTTTACTTTTTGGTTGAAACAAACTATAATTGAATGTCTAC-GAAGAGAAACGTGAAGAAAA
1 TTTTTTTACTTTTTTGTTAAAACAAACTATAATTGAATGTCTACTCAA-A-AAACGTGAAGAAAA
* * * * * * *
2955922 AGGGATTCATTAGCTAGAAAAGTCCATTTATAGTTACTCATTCCTTCAAAAGGCTTATTACTCGC
64 AGGCATTCATTGGCAAGAAAAGTCTATTTATAGTCAC-CATTCCTTCAAAAGCCTTATTACTCAC
2955987 TTTA
128 TTTA
Statistics
Matches: 650, Mismatches: 131, Indels: 67
0.77 0.15 0.08
Matches are distributed among these distances:
338 7 0.01
339 51 0.08
340 198 0.30
341 273 0.42
342 118 0.18
343 3 0.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.37
Consensus pattern (340 bp):
TTTTTTTACTTTTTTGTTAAAACAAACTATAATTGAATGTCTACTCAAAAAACGTGAAGAAAAAG
GCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCATTCCTTCAAAAGCCTTATTACTCACTTT
AAATGGTTTTATAATCTCATAACTAATTTTAAGTTAAATTTTTTAACATTTTTGATTAAAACAGA
CAATAATTAAATGTCTACCTTAAGAAACATGAAGAAAAAAGCATTAATTGGTAAAAAAAGTCCAT
TTATAGTCACCTATTCCTTAAAAAGGCTTATTTCTCGCTTTAAAAGGGTTTATAATATCATAACA
GATTTTAAGTTAAAT
Found at i:2955782 original size:171 final size:171
Alignment explanation
Indices: 2954834--2955990 Score: 958
Period size: 170 Copynumber: 6.8 Consensus size: 171
2954824 ATTCATCTTG
* *
2954834 AATTTTTTTACATTTTTGGTTAAAATAGATAATAATTGAATGTGTACCTCAAGAAACATGAAG--
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
* * * * *
2954897 AAAATCATTCATTGGTAAGAAAAGTCCATTTATAATCACCCATTCTTTCAAAAGCCTTGTTACTC
66 AAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
********** * * *
2954962 GCTTTANNNNNNNNNNTAATCTCATAACTGATTTGAAGTTG
131 GCTTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTA
* * * **
2955003 AATTTTTTTACTTTTTTGATTAAAACAGATAATAATTGAATGTCCACCTCAAGAAGTATGAAGAA
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
** * * * * ***
2955068 AAACTCTTTTATTGGCAAGAGAAGTCCA-TTATAGTCAACCATTCCTTCAAAAGCCTTATTANNN
66 AAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
******* * * * *
2955132 NNNNNNNATGGTTTTATAACCTCAAAATTAATTTTAAGTTC
131 GCTTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTA
* * * * * * *
2955173 AATTTTTTTACTTTTTTGATTAAAACAAATTATAATTGAATGTCTACTTCAAAAAACGTGAAGAA
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
* * * *
2955238 AAAGGTATTCATTGGCAAGAAAAGTCTATTT-TGAGTCACCAATT-CTTCAAAAGCCTTATTACT
66 AAAAGCATTCATTGGCAAGAAAAGTCCATTTAT-AGTCACCCATTCCTTCAAAAGCCTTATTACT
* ********** * *
2955301 AGCNNNNNNNNNNTTTATAATCTCATAATTGATTTTGAA-TTA
130 CGCTTTAAATGGTTTTATAATCTCATAACTAATTTT-AAGTTA
* * ** * * * * * *
2955343 AATTTTTTAATATTTTTTATTAAAACAGGTTATAATTAAATGTCTGCCTTAAGAAACATGTAG-A
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
* * ** *
2955407 AAAAGCCATTAATTGAG-AAAAAAAGTCCATTTATAGTCACTTATTCCTTCAAAAG-CTATGTTA
66 AAAAG-CATTCATTG-GCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCT-TATTA
* * * * ** * *
2955470 CTTGCTTTAAACGGGTTTATAATATC-TCAGTTGATTTTAAGTTG
128 CTCGCTTTAAATGGTTTTATAATCTCAT-AACTAATTTTAAGTTA
* * * * * * **
2955514 AATTTTTTT-TATTTTTAGTTAAAACAGACAATAGTTGAATGTGTACCTCGAGAAATGTGAAGAA
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
* *
2955578 ACAAGCATTCATTGGCAAGAAAAGTCTATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
66 AAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
* *
2955643 ACTTTAAATGGTTTTATAATCTCATAGCTAATTTTAAGTTA
131 GCTTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTA
* * * * *
2955684 AATTTTTTTACATTTTTGGTTAAAATAGACAATAATTCAATGTGTACCTTAAGAAACATGAAGAA
1 AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
* * * * * *
2955749 AAAAGCATTCATTGGTAAGAAAAGTCCATTTATAGTCACCTATTCTTTAAAAAGGCTTATTTCTC
66 AAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
* *
2955814 GCTTTAAAAGGTTTTATAATCTCATAAC-AGATTTTAAATTA
131 GCTTTAAATGGTTTTATAATCTCATAACTA-ATTTTAAGTTA
* * ** *
2955855 AATTTTTTTTAC-TTTTTGGTTGAAACAAACT-ATAATTGAATGTCTA-CGAAGAGAAACGTGAA
1 AA-TTTTTTTACATTTTTGGTTAAAACAGA-TAATAATTGAATGTCTACCTCA-AGAAACATGAA
* * * * * * *
2955917 GAAAAAGGGATTCATTAGCTAGAAAAGTCCATTTATAGTTACTCATTCCTTCAAAAGGCTTATTA
63 GAAAAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTA
2955982 CTCGCTTTA
128 CTCGCTTTA
Statistics
Matches: 790, Mismatches: 177, Indels: 40
0.78 0.18 0.04
Matches are distributed among these distances:
169 62 0.08
170 387 0.49
171 332 0.42
172 9 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.36
Consensus pattern (171 bp):
AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTACCTCAAGAAACATGAAGAA
AAAAGCATTCATTGGCAAGAAAAGTCCATTTATAGTCACCCATTCCTTCAAAAGCCTTATTACTC
GCTTTAAATGGTTTTATAATCTCATAACTAATTTTAAGTTA
Done.