Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 14 of 84
Found at i:2683261 original size:29 final size:31
Alignment explanation
Indices: 2683219--2683308 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 31
2683209 TTTTTTTTAA
* * *
2683219 TTTATAATTCAAATGTTATATTAAA-ATTTT
1 TTTATAATTTAAATATTATATTAAATATTAT
2683249 TTTA-AATTTAAATATTATATTAAATATTAT
1 TTTATAATTTAAATATTATATTAAATATTAT
* * * *
2683279 ATTATAATTTAAAAATTATTTTTAATATTA
1 TTTATAATTTAAATATTATATTAAATATTA
2683309 ACCCATAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.35
30 11 0.22
31 22 0.43
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
TTTATAATTTAAATATTATATTAAATATTAT
Found at i:2683273 original size:12 final size:12
Alignment explanation
Indices: 2683256--2683282 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2683246 TTTTTTAAAT
2683256 TTAAATATTATA
1 TTAAATATTATA
2683268 TTAAATATTATA
1 TTAAATATTATA
2683280 TTA
1 TTA
2683283 TAATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:2683309 original size:19 final size:20
Alignment explanation
Indices: 2683265--2683309 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2683255 TTTAAATATT
*
2683265 ATATTAAATATTATATTATA
1 ATATTAAAAATTATATTATA
*
2683285 AT-TTAAAAATTAT-TTTTA
1 ATATTAAAAATTATATTATA
2683303 ATATTAA
1 ATATTAA
2683310 CCCATAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 14 0.64
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAAAAATTATATTATA
Found at i:2685419 original size:249 final size:250
Alignment explanation
Indices: 2685015--2685475 Score: 619
Period size: 249 Copynumber: 1.8 Consensus size: 250
2685005 ACCAAAACAA
* *
2685015 CAGGCTGAAAGTTCAGTTCATCATTTAGCTTCTCCCACTCCGCCAAGAAGTCCATTGGCTTCCAT
1 CAGGCTGAAAGTTCAGCTCATCATTTAGCTTCTCCCACT-C-CCAAGAAGTCCATTGGCTTCAAT
* * ** *
2685080 ATCATTGCTGAAGAAACAAATGTTGCAGTCCAACGTACTTAGTGATCCTTTTTCAACTGATGATA
64 ATCATTGCAGAAGAAACAAATGTTGCAGTCCAACGCACAAAGTGATCCTTTTTCAACTGATAATA
* * * *
2685145 TTGACCGATCACCGATGAGAAATGCATCTCCTATTGAAAGTATT-AGTAAACAATCT-GATCAGG
129 TTGACCAATCACCGAGGAGAAATGCACCTCCTATTGAAACT-TTCAGTAAACAATCTAG-TCAGG
2685208 TTGATACAGAAAAGGAACCAAGTTTGTCTCAAAACGATGATAGAAGAACACTAAAAAGG
192 TTGATACAGAAAAGGAACCAAGTTTGTCTCAAAACGATGATAGAAGAACACTAAAAAGG
* * * * *
2685267 CAGGCTGAAAGTTCAGCTCTTCATTTAGTTTCTCCTACT-CCAAGAAGTCCGTTGGCTTCAATGT
1 CAGGCTGAAAGTTCAGCTCATCATTTAGCTTCTCCCACTCCCAAGAAGTCCATTGGCTTCAATAT
** *
2685331 CATTGCAGAAGAAACAGTTGTTGCAGT-CAGATC-CACAAAGTGGTCCTTTTTCAACTGATAATA
66 CATTGCAGAAGAAACAAATGTTGCAGTCCA-A-CGCACAAAGTGATCCTTTTTCAACTGATAATA
* *
2685394 TTGATCAATCACC-AGGGATAAATGCACCTCCTATTGAAACTTTCAGTAAACAATCTAGTCAGGT
129 TTGACCAATCACCGA-GGAGAAATGCACCTCCTATTGAAACTTTCAGTAAACAATCTAGTCAGGT
*
2685458 TGATGCAGAAAAGGAACC
193 TGATACAGAAAAGGAACC
2685476 GAACATGTCT
Statistics
Matches: 182, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
248 5 0.03
249 140 0.77
250 2 0.01
252 35 0.19
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (250 bp):
CAGGCTGAAAGTTCAGCTCATCATTTAGCTTCTCCCACTCCCAAGAAGTCCATTGGCTTCAATAT
CATTGCAGAAGAAACAAATGTTGCAGTCCAACGCACAAAGTGATCCTTTTTCAACTGATAATATT
GACCAATCACCGAGGAGAAATGCACCTCCTATTGAAACTTTCAGTAAACAATCTAGTCAGGTTGA
TACAGAAAAGGAACCAAGTTTGTCTCAAAACGATGATAGAAGAACACTAAAAAGG
Found at i:2693935 original size:27 final size:28
Alignment explanation
Indices: 2693876--2693935 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
2693866 AAATATAATG
*
2693876 ATAA-AATTTAACAAAATTGAAATTACA
1 ATAACAATTCAACAAAATTGAAATTACA
* *
2693903 A-CACAATTCAACGAAATT-AAATTACA
1 ATAACAATTCAACAAAATTGAAATTACA
2693929 ATAACAA
1 ATAACAA
2693936 AATTCAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (28 bp):
ATAACAATTCAACAAAATTGAAATTACA
Found at i:2693940 original size:29 final size:29
Alignment explanation
Indices: 2693859--2693942 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
2693849 AAAAGTTAAT
* * * * *
2693859 AAAATTAAAATATAATGATAAAATTTAAC
1 AAAATTAAATTACAATAACAAAATTCAAC
*
2693888 AAAATTGAAATTAC---AACACAATTCAAC
1 AAAATT-AAATTACAATAACAAAATTCAAC
*
2693915 GAAATTAAATTACAATAACAAAATTCAA
1 AAAATTAAATTACAATAACAAAATTCAA
2693943 TGTTGACACA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
26 7 0.16
27 14 0.33
29 17 0.40
30 5 0.12
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (29 bp):
AAAATTAAATTACAATAACAAAATTCAAC
Found at i:2713584 original size:49 final size:49
Alignment explanation
Indices: 2713527--2713621 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
2713517 TGTAGATGAA
* * * *
2713527 AATTGACAATCAATAAAGAAATCTAACTAACTTAAACATCAAATTAACC
1 AATTGACAATAAACAAAAAAATCTAACTAACTTAAACATAAAATTAACC
*
2713576 AATTGACAATAAACAAAAAAATCTAACTAACTTAAATATAAAATTA
1 AATTGACAATAAACAAAAAAATCTAACTAACTTAAACATAAAATTA
2713622 TAAAAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (49 bp):
AATTGACAATAAACAAAAAAATCTAACTAACTTAAACATAAAATTAACC
Found at i:2715123 original size:28 final size:27
Alignment explanation
Indices: 2715092--2715155 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
2715082 GACAGTAAAC
*
2715092 TTATTAAAAATA-AAAAATTAAGATATAT
1 TTATTAAAAATATAAAAATTAA-A-AAAT
* *
2715120 TTATTTTAAATTATAAAAATTAAAAAAT
1 TTA-TTAAAAATATAAAAATTAAAAAAT
2715148 TTATTAAA
1 TTATTAAA
2715156 TTTTGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.13
28 9 0.30
29 8 0.27
30 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTATTAAAAATATAAAAATTAAAAAAT
Found at i:2715472 original size:17 final size:17
Alignment explanation
Indices: 2715438--2715472 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2715428 GTGTTTATAA
*
2715438 TAATTTATTGATTTATT
1 TAATTTATTGATTGATT
*
2715455 TAATTTATTTATTGATT
1 TAATTTATTGATTGATT
2715472 T
1 T
2715473 CTTCTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TAATTTATTGATTGATT
Found at i:2721697 original size:2 final size:2
Alignment explanation
Indices: 2721653--2721679 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2721643 GTTCCAGAAG
2721653 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
2721680 GAGGTTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2724321 original size:2 final size:2
Alignment explanation
Indices: 2724316--2724348 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2724306 CTCTCTCTCT
2724316 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
2724349 GAACAGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2731271 original size:35 final size:35
Alignment explanation
Indices: 2731225--2731292 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
2731215 TTTTTTATAT
* * *
2731225 AATTTTATAATTAAGCAATTATAATAAAGAATTAC
1 AATTTCATAATTAAGCAATCATAATAAAAAATTAC
2731260 AATTTCATAATTAAGCAATCATAATAAAAAATT
1 AATTTCATAATTAAGCAATCATAATAAAAAATT
2731293 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.35
Consensus pattern (35 bp):
AATTTCATAATTAAGCAATCATAATAAAAAATTAC
Found at i:2732564 original size:3 final size:3
Alignment explanation
Indices: 2732556--2732601 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
2732546 TAGAAAATTG
*
2732556 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2732602 AAGATATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2734936 original size:3 final size:3
Alignment explanation
Indices: 2734928--2734975 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2734918 AGTACCTAAT
*
2734928 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2734976 ATATTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2737096 original size:16 final size:16
Alignment explanation
Indices: 2737051--2737096 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2737041 TAATGTTAAC
2737051 CCAAACTCAAACATAAT
1 CCAAACTCAAACAT-AT
* *
2737068 -TAAA-TCAATCATAT
1 CCAAACTCAAACATAT
2737082 CCAAACTCAAACATA
1 CCAAACTCAAACATA
2737097 AACCCATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 11 0.48
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (16 bp):
CCAAACTCAAACATAT
Found at i:2742150 original size:5 final size:5
Alignment explanation
Indices: 2742140--2742164 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2742130 ATTCATTACC
2742140 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
2742165 TTCCTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:2745087 original size:218 final size:217
Alignment explanation
Indices: 2744681--2745121 Score: 708
Period size: 218 Copynumber: 2.0 Consensus size: 217
2744671 TTATATATTG
* * *
2744681 TTGTTTTATCTATATCTTCACCTCTATTTGCAATCAGTTGAATTATTAAGTAAAATGATATATCC
1 TTGTTTTATCGATATCTTCACCTCTATTTGCAATCAGTTAAATTATAAAGTAAAATGATATATCC
*
2744746 TTCAAAAATAGTAAGAAATACTTAAGAATTAATTATTGTTTCTTTGCCCTAATAACTTATAGAAT
66 TTCAAAAATAGTAAGAAATACTCAAGAATTAATTATTGTTTCTTTGCCCTAATAACTTATAGAAT
* *
2744811 AATCTCCAATGAAAAAAGTATGTACACCACATTCATTTTAAAATGGCAAAATTTTCAATTCATTT
131 AATCTCCAATGAAAAAAATATGTACACCACATTCATTTTAAAATGGCAAAAATTTCAATTCATTT
2744876 TTATCAAAGACAC-ATTAAGTT
196 TTATCAAAGACACAATTAAGTT
* * *
2744897 TTGTTTTATCGATGTCTTTATCTCTATCTGTGCAATCTA-TTAAATTATAAAGTAAAATGATATA
1 TTGTTTTATCGATATCTTCACCTCTAT-T-TGCAATC-AGTTAAATTATAAAGTAAAATGATATA
* * *
2744961 TCCTTCAAAAATAGTAAGAAATACTCAGGAATTAATTATTGTTTGTTTGCCGC-AATAACTTATG
63 TCCTTCAAAAATAGTAAGAAATACTCAAGAATTAATTATTGTTTCTTTGCC-CTAATAACTTATA
*
2745025 GAATAATCTCCAATGAAAAAAATATGTACCCCACATTCATTTTAAAATGGCAAAAATTTCAATTC
127 GAATAATCTCCAATGAAAAAAATATGTACACCACATTCATTTTAAAATGGCAAAAATTTCAATTC
2745090 ATTTTTATCAAAGACACAATTAAGTT
192 ATTTTTATCAAAGACACAATTAAGTT
2745116 TTGTTT
1 TTGTTT
2745122 AGAAATTACT
Statistics
Matches: 207, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
216 23 0.11
217 1 0.00
218 167 0.81
219 16 0.08
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (217 bp):
TTGTTTTATCGATATCTTCACCTCTATTTGCAATCAGTTAAATTATAAAGTAAAATGATATATCC
TTCAAAAATAGTAAGAAATACTCAAGAATTAATTATTGTTTCTTTGCCCTAATAACTTATAGAAT
AATCTCCAATGAAAAAAATATGTACACCACATTCATTTTAAAATGGCAAAAATTTCAATTCATTT
TTATCAAAGACACAATTAAGTT
Found at i:2745320 original size:22 final size:21
Alignment explanation
Indices: 2745264--2745320 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
2745254 AACTTTGAGT
2745264 TATTCATAAACTT-AAAAACTTA
1 TATT-ATAAA-TTAAAAAACTTA
* *
2745286 TATTATTATTTAAAAAACTTTA
1 TATTATAAATTAAAAAAC-TTA
2745308 TATTATAAATTAA
1 TATTATAAATTAA
2745321 TTTATTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 18 0.62
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTATAAATTAAAAAACTTA
Found at i:2749370 original size:137 final size:138
Alignment explanation
Indices: 2749119--2749395 Score: 380
Period size: 137 Copynumber: 2.0 Consensus size: 138
2749109 CTAAATAACT
* * * * *
2749119 ATCTTATATAAATATCTAAAAATCAAAATTTCTAACAAAAAAAGAAATAATCTGATGTGAATAGT
1 ATCTTATATAAATATATAAAAATCAAAACTTCTAACAAAAAAAGAAATAATCCGATATAAATAGT
* * * *
2749184 TAACATTTTCAATATGTAGATAATTTAAAAAATTGACATGTGCTGAAAATTAATTATGTATTTAA
66 TAACATTTTCAATATGTAAATAATATAAAAAATTGACATGTGCTCAAAATTAATTATGCATTTAA
* *
2749249 CATTTAAA
131 AACTTAAA
* *
2749257 ATCTTATATAAATATATAAAAATCAAAGCTTCTAAC-AAAAAGGAAATAATCCGATATAAATAGT
1 ATCTTATATAAATATATAAAAATCAAAACTTCTAACAAAAAAAGAAATAATCCGATATAAATAGT
* *
2749321 CT-ACATCTTT-TATATGTAAATAATATAAAAAATTGACATGTGTTCAAAATTAATTATGCATTT
66 -TAACAT-TTTCAATATGTAAATAATATAAAAAATTGACATGTGCTCAAAATTAATTATGCATTT
2749384 AAAACTTAAA
129 AAAACTTAAA
2749394 AT
1 AT
2749396 TTAATGATAA
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
137 85 0.70
138 37 0.30
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (138 bp):
ATCTTATATAAATATATAAAAATCAAAACTTCTAACAAAAAAAGAAATAATCCGATATAAATAGT
TAACATTTTCAATATGTAAATAATATAAAAAATTGACATGTGCTCAAAATTAATTATGCATTTAA
AACTTAAA
Found at i:2749424 original size:16 final size:17
Alignment explanation
Indices: 2749392--2749426 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2749382 TTAAAACTTA
2749392 AAATTTAATGATAAAAT
1 AAATTTAATGATAAAAT
*
2749409 AAATTTAAT-TTAAAAT
1 AAATTTAATGATAAAAT
2749425 AA
1 AA
2749427 CTTATTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATTTAATGATAAAAT
Found at i:2749962 original size:44 final size:45
Alignment explanation
Indices: 2749909--2750006 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
2749899 ACATTATTTT
* * *
2749909 ATTTGATTTGATACATTTTTAGTCTTAAAAAA-TAAATATACTTA
1 ATTTGATTTGATACATTTGTAATCTAAAAAAAGTAAATATACTTA
* * * *
2749953 ATTTGATTTGATTCATTTGTAATGTAAAAAAAGTAAATTTATTTA
1 ATTTGATTTGATACATTTGTAATCTAAAAAAAGTAAATATACTTA
2749998 ATTTAGATT
1 ATTT-GATT
2750007 ATTAAACTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 27 0.60
45 14 0.31
46 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (45 bp):
ATTTGATTTGATACATTTGTAATCTAAAAAAAGTAAATATACTTA
Found at i:2750678 original size:6 final size:6
Alignment explanation
Indices: 2750645--2750677 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2750635 TATTTAAAGA
*
2750645 AAAATC AAAATC AAAATC AAAATT AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
2750678 AGGAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATC
Found at i:2750779 original size:59 final size:58
Alignment explanation
Indices: 2750708--2751226 Score: 572
Period size: 59 Copynumber: 8.8 Consensus size: 58
2750698 TCTTGCGCAG
*
2750708 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAACTTTAATTTAGA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAACTTTATTTTA-A
*** * *
2750767 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATCTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA-TTTTAA
* *
2750826 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATA--TTTTTCGAAAATTTTAATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTG-AAACTTT-ATTTT-AA
* * *
2750885 GGAAAATTGATACTTTAAACTTTT-TTCCAAAAATA-TTTTTTGGAAA-TTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTGAAACTTTATTT-TAA
* *
2750942 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT-GAAACTTT-ATTT-TAA
* ** *
2751003 GGAAAATTGATAATTTCAACTTTTCCTCAAAAAT-CCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA-TTTTAA
*
2751061 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-AAACTTT-ATTTT-AA
* * *** *
2751122 AGAAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTA-TTTTAA
* *
2751181 GAAAAATTGATACTTTCAACTTTTTCTC-AAAAT-TTTCTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTGAAA
2751227 ATTTTTATTT
Statistics
Matches: 398, Mismatches: 40, Indels: 45
0.82 0.08 0.09
Matches are distributed among these distances:
57 44 0.11
58 69 0.17
59 164 0.41
60 41 0.10
61 80 0.20
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAACTTTATTTTAA
Found at i:2750850 original size:118 final size:116
Alignment explanation
Indices: 2750708--2751226 Score: 681
Period size: 118 Copynumber: 4.4 Consensus size: 116
2750698 TCTTGCGCAG
2750708 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAACTTTAATTT-AGAGGAAA
1 GGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTGAAACTTTAATTTCA-AGGAAA
*
2750772 ATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATCTATTTTTAA
64 ATTGATACTTTCAACTTTTCCTCAAAAAT-CCTTTTTTGAAAATTTATTTTTAA
* *
2750826 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTCGAAAATTTTAATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTG-AAACTTTAA-TTTCAAGGAA
* * * * *
2750889 AATTGATACTTTAAACTTTT-TTCCAAAAAT-ATTTTTTGGAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCT-CAAAAATCCTTTTTTGAAAATTTATTTTTAA
* *
2750942 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTT-GAAACTTTAATTT-CAAGGAA
*
2751007 AATTGATAATTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
* * *
2751061 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTGATTTTCAAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTTG-AAACTTT-AATTTCAAGGAA
* * *
2751126 AATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATCC-TTTTTTGAAAATTTATTTTTAA
* * *
2751181 GAAAAATTGATACTTTCAACTTTTTCTCAAAAT-TTTCTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTAAAAATATTT-TTTTTGAAA
2751227 ATTTTTATTT
Statistics
Matches: 357, Mismatches: 29, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
115 3 0.01
116 55 0.15
117 12 0.03
118 120 0.34
119 119 0.33
120 48 0.13
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAACTTTAATTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
Found at i:2751074 original size:119 final size:119
Alignment explanation
Indices: 2750708--2751237 Score: 713
Period size: 119 Copynumber: 4.5 Consensus size: 119
2750698 TCTTGCGCAG
2750708 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTG-AAACTTTAA-TTT-AGAGG
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAACTTTAATTTTCA-AGG
*
2750769 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTGAAAATCTATTTTTAA
64 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-CCTTTTTTGAAAATTTATTTTTAA
* *
2750826 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATA--TTTTTCGAAAATTTTAATTTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTGAAAACTTTAATTTTCAAGGA
* * * * *
2750888 AAATTGATACTTTAAACTTTT-TTCCAAAAAT-ATTTTTTGGAAATTTATTTCTAA
65 AAATTGATACTTTCAACTTTTCCT-CAAAAATCCTTTTTTGAAAATTTATTTTTAA
* * * *
2750942 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAACTTTGATTTCCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTAATTTTCAAGGAA
*
2751007 AATTGATAATTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
66 AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
* * *
2751061 GGAAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTGATTTTCAAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTAATTTTCAAGGAA
* * *
2751126 AATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAA
66 AATTGATACTTTCAACTTTTCCTCAAAAATCC-TTTTTTGAAAATTTATTTTTAA
* * * *
2751181 GAAAAATTGATACTTTCAACTTTTTCTC-AAAAT-TTTCTTTTTGAAAATTTTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTGAAAACTTTAATTTT
2751238 TTTGCAAAAA
Statistics
Matches: 369, Mismatches: 32, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
116 57 0.15
117 10 0.03
118 120 0.33
119 136 0.37
120 46 0.12
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAACTTTAATTTTCAAGGAA
AATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
Found at i:2753262 original size:16 final size:17
Alignment explanation
Indices: 2753241--2753285 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
2753231 AAAAAAAATG
*
2753241 ATAAATATGAAATAAAA
1 ATAAATATAAAATAAAA
*
2753258 A-AAATTTAAAATAAAA
1 ATAAATATAAAATAAAA
2753274 ATAAATA-AAAAT
1 ATAAATATAAAAT
2753286 CCCTGCAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAATATAAAATAAAA
Found at i:2753269 original size:23 final size:23
Alignment explanation
Indices: 2753228--2753285 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
2753218 ATAATCAAAT
*
2753228 AATAAAAAAAA-TGATAAATATGA
1 AATAAAAAAAATTGATAAATA-AA
*
2753251 AATAAAAAAAATTTA-AAATAAA
1 AATAAAAAAAATTGATAAATAAA
2753273 AATAAATAAAAAT
1 AATAAA-AAAAAT
2753286 CCCTGCAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.23
23 22 0.71
24 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (23 bp):
AATAAAAAAAATTGATAAATAAA
Found at i:2763222 original size:24 final size:24
Alignment explanation
Indices: 2763190--2763247 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
2763180 ATTCATTGTC
2763190 ATAATAAATTAATATAATTGTATGG
1 ATAA-AAATTAATATAATTGTATGG
*
2763215 ATAAAAATTAATATAATTGTATTG
1 ATAAAAATTAATATAATTGTATGG
*
2763239 ACAAAAATT
1 ATAAAAATT
2763248 TACCTAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (24 bp):
ATAAAAATTAATATAATTGTATGG
Found at i:2763727 original size:25 final size:26
Alignment explanation
Indices: 2763682--2763738 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
2763672 GAATTGTAAC
**
2763682 ATATTTATAAAGGCAATAATAT-TTT
1 ATATTTATAAAGAAAATAATATATTT
2763707 ATATTTAT-AAGAAAATAAATATATTT
1 ATATTTATAAAGAAAAT-AATATATTT
2763733 A-ATTTA
1 ATATTTA
2763739 CTCAAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 18 0.64
26 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (26 bp):
ATATTTATAAAGAAAATAATATATTT
Found at i:2764064 original size:44 final size:44
Alignment explanation
Indices: 2764010--2764097 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
2764000 CATTCTAATC
*
2764010 ATAGACACTTAATTTTATCCGTCGATAAAAATGAATCTTAAATT
1 ATAGACACTTAATTTTATCCATCGATAAAAATGAATCTTAAATT
* * *
2764054 ATAGATACTTAATTTTATCTATCGATAAAAATGAATTTTAAATT
1 ATAGACACTTAATTTTATCCATCGATAAAAATGAATCTTAAATT
2764098 TCATTTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (44 bp):
ATAGACACTTAATTTTATCCATCGATAAAAATGAATCTTAAATT
Found at i:2766255 original size:14 final size:15
Alignment explanation
Indices: 2766231--2766260 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2766221 AATAAAAATG
2766231 AAATAATAATTTTTT
1 AAATAATAATTTTTT
2766246 AAATAA-AATTTTTT
1 AAATAATAATTTTTT
2766260 A
1 A
2766261 TAAGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATAATAATTTTTT
Found at i:2766287 original size:6 final size:6
Alignment explanation
Indices: 2766266--2766298 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
2766256 TTTTATAAGG
2766266 AAAATA AAATATA AAAAT- AAAATA AAAATA AAA
1 AAAATA AAA-ATA AAAATA AAAATA AAAATA AAA
2766299 GGCTAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:2768838 original size:12 final size:12
Alignment explanation
Indices: 2768813--2768847 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2768803 TTTTGTGAGG
2768813 AAAATGAAATATAA
1 AAAAT-AAA-ATAA
2768827 AAAATAAAATAA
1 AAAATAAAATAA
2768839 AAAATAAAA
1 AAAATAAAA
2768848 AAGGCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.62
13 3 0.14
14 5 0.24
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:2768845 original size:19 final size:19
Alignment explanation
Indices: 2768813--2768849 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2768803 TTTTGTGAGG
* *
2768813 AAAATGAAATATAAAAAAT
1 AAAATAAAAAATAAAAAAT
2768832 AAAATAAAAAATAAAAAA
1 AAAATAAAAAATAAAAAA
2768850 GGCTAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAATAAAAAATAAAAAAT
Found at i:2773203 original size:17 final size:17
Alignment explanation
Indices: 2773143--2773204 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
2773133 ATTAATTATT
* *
2773143 TAATAAAATTTGAATTAA
1 TAAT-AAATTTTAATAAA
* *
2773161 TATTAATATTTTATTAAAA
1 TAATAA-ATTTTAAT-AAA
*
2773180 AAATAAATTTTAATAAA
1 TAATAAATTTTAATAAA
2773197 TAATAAAT
1 TAATAAAT
2773205 CATACCTAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 12 0.35
18 16 0.47
19 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAAATTTTAATAAA
Found at i:2773550 original size:142 final size:142
Alignment explanation
Indices: 2773282--2774028 Score: 878
Period size: 141 Copynumber: 5.3 Consensus size: 142
2773272 TATTATAACA
** * * * *
2773282 CCAATCATTAATTCTAAAAACTGTCAA-TCACTTTTCAAATCAATGAATTATGGCTATTTGGGTG
1 CCAATCATTAATTCTAAAAACTACCAAGT-ACTTTTCAAATAAATGGATTATGGCCATTTAGGTG
* * * * * *
2773346 AAGACTTTAATGATTCGAGAAAGAAAACCAACCTACTTTTTCATTTCTTAATTGTATCCAATCCA
65 AAGACTTTAATGATTCAAGAAGGATAACCAACCCACATTTTCATTTCTTAATTGCATCCAATCCA
*
2773411 AATTCAACATATG
130 AATTCAACACATG
* *
2773424 CCAATCAGTAACTT-T-AAAACTACCAATTACTTTTCAAATAAATGGATTATGGCCATTTAGGTG
1 CCAATCATTAA-TTCTAAAAACTACCAAGTACTTTTCAAATAAATGGATTATGGCCATTTAGGTG
* * *
2773487 AAGACTTTAATGATTTAAGAATGGATAACCAACCCAAATTTTCATTTCTTAATTGCCTCCAATCC
65 AAGACTTTAATGATTCAAGAA-GGATAACCAACCCACATTTTCATTTCTTAATTGCATCCAATCC
**
2773552 AAATTCAACATGTG
129 AAATTCAACACATG
* *
2773566 CCAATCATTAATTCT-AAAACTACCGACTACTTTTCAAATAAATGGATTA----C------GTGA
1 CCAATCATTAATTCTAAAAACTACCAAGTACTTTTCAAATAAATGGATTATGGCCATTTAGGTGA
* * * *
2773620 AAACTTTAATGATTGAAGAAGGATAACCAACCTA-ATTTTCCATTTCTTAATTGCATTCAATCCA
66 AGACTTTAATGATTCAAGAAGGATAACCAACCCACATTTT-CATTTCTTAATTGCATCCAATCCA
*
2773684 TATTCAACACATG
130 AATTCAACACATG
* * * *
2773697 CCAATCATTAATTCTGAAAACGACCAGAGTACTTTACAAATAAATGGATTATGGCTATTTAGGTG
1 CCAATCATTAATTCTAAAAACTACCA-AGTACTTTTCAAATAAATGGATTATGGCCATTTAGGTG
* * ** * * *
2773762 AAGAATTTAATGATTCAATAAGGATAATTAACCCACTTTTTCATTTTTTAATTGCATCTAATCCA
65 AAGACTTTAATGATTCAAGAAGGATAACCAACCCACATTTTCATTTCTTAATTGCATCCAATCCA
2773827 AATTCAACACATG
130 AATTCAACACATG
* * * * *
2773840 CCGATCATTAATTCTAAAAACAACCAAATAC-TTTCAAATAAGTGGATTATGGCCATTCAGGTGA
1 CCAATCATTAATTCTAAAAACTACCAAGTACTTTTCAAATAAATGGATTATGGCCATTTAGGTGA
** * * * *
2773904 AGACTTTAATGATTCAAGAAGGACGACCAAACCTCATTTTCTTTTCTTAATTGCATCCCATCCAA
66 AGACTTTAATGATTCAAGAAGGATAACCAACCCACATTTTCATTTCTTAATTGCATCCAATCCAA
2773969 ATTCAACACATG
131 ATTCAACACATG
* *
2773981 CCAATCATTAATTCTAAAAACTACCAAGTATTTTTCTAATAAATGGAT
1 CCAATCATTAATTCTAAAAACTACCAAGTACTTTTCAAATAAATGGAT
2774029 ACTAGAATAA
Statistics
Matches: 514, Mismatches: 72, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
130 5 0.01
131 60 0.12
132 30 0.06
133 22 0.04
138 1 0.00
141 181 0.35
142 122 0.24
143 89 0.17
144 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (142 bp):
CCAATCATTAATTCTAAAAACTACCAAGTACTTTTCAAATAAATGGATTATGGCCATTTAGGTGA
AGACTTTAATGATTCAAGAAGGATAACCAACCCACATTTTCATTTCTTAATTGCATCCAATCCAA
ATTCAACACATG
Found at i:2775562 original size:12 final size:12
Alignment explanation
Indices: 2775545--2775569 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2775535 TTAGTTAAAG
2775545 AAAAATCAAAAT
1 AAAAATCAAAAT
2775557 AAAAATCAAAAT
1 AAAAATCAAAAT
2775569 A
1 A
2775570 GAAAGGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:2775732 original size:60 final size:59
Alignment explanation
Indices: 2775604--2776178 Score: 853
Period size: 60 Copynumber: 9.7 Consensus size: 59
2775594 TTTTGTGTAG
*
2775604 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATA--TTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTTG-AAATTTATTTCTAA
*
2775662 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAATTTATTTCTAA
*
2775722 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
2775780 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTT-GAAATTTATTTCTAA
* *
2775840 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTAA
*
2775901 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
** *
2775959 TTAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTAA
* * ** *
2776020 GAAAAATTGATACTTTCAACTTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AAATTTATTTCTAA
*
2776080 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
2776136 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2776179 ATTTAAAGAA
Statistics
Matches: 472, Mismatches: 28, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
56 39 0.08
57 21 0.04
58 120 0.25
59 41 0.09
60 149 0.32
61 93 0.20
62 9 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:2775752 original size:118 final size:118
Alignment explanation
Indices: 2775604--2776178 Score: 865
Period size: 118 Copynumber: 4.9 Consensus size: 118
2775594 TTTTGTGTAG
* *
2775604 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGAAAAAT
*
2775669 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
2775722 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTATTTCTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTCTAAGAAAAA
2775786 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
* * * *
2775840 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTCCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCC-CCAAAA-ATATTTTTTTGAAAATTT-ATTTCTAAGAAA
2775905 AATTGATACTTTCAACTTTTTCC-CAAAAATA--TTTTTTTGGAAATTTATTTCTAA
63 AATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
** * * *
2775959 TTAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTT-ATTTCTAAGAAA
* ** * *
2776024 AATTGATACTTTCAACTTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
* *
2776080 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGAAAAAT
2776143 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2776179 ATTTAAAGAA
Statistics
Matches: 420, Mismatches: 26, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
116 46 0.11
117 15 0.04
118 141 0.34
119 118 0.28
120 17 0.04
121 77 0.18
122 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
Found at i:2775967 original size:179 final size:176
Alignment explanation
Indices: 2775606--2776178 Score: 897
Period size: 179 Copynumber: 3.2 Consensus size: 176
2775596 TTGTGTAGGG
* *
2775606 AAAATTGATACTTTCAACTTTT-CTCCAAAAATA--TTTTTTTGAAAATTTATTTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTTGGAAATTTATTTCTAAGAAAAA
2775668 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAAGGAAAATTGAT
65 TTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTTTGAAATTTATTTCTAAGGAAAATTGAT
* *
2775733 ACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCTAAGA
128 ACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
*
2775782 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGAAAAAT
*
2775847 TGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTCCAAGGAAAATTGAT
66 TGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTGAAA-TTT-ATTTCTAAGGAAAATTGAT
**
2775912 ACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAATT
128 ACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
*
2775961 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTT-GAAACTTTGATTTCCAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAA-TTT-ATTTCTAAGAAAA
* * *
2776025 ATTGATACTTTCAACTTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGA
64 ATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTTG-AAATTTATTTCTAAGGAAAATTGA
*
2776090 TACTTTCAAC-TTTTCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGG
127 TACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
2776138 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2776179 ATTTAAAGAA
Statistics
Matches: 371, Mismatches: 16, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
176 31 0.08
177 76 0.20
178 76 0.20
179 134 0.36
180 50 0.13
181 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTCTAAGGAAAATTGATACT
TTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGA
Found at i:2776205 original size:10 final size:9
Alignment explanation
Indices: 2776190--2776274 Score: 50
Period size: 10 Copynumber: 8.9 Consensus size: 9
2776180 TTTAAAGAAT
2776190 ATAAAACAAA
1 ATAAAA-AAA
2776200 ATAAAAGTAAA
1 ATAAAA--AAA
*
2776211 AGTAAAAGAAG
1 A-TAAAA-AAA
2776222 A-AAAAAAA
1 ATAAAAAAA
2776230 ATAAAGAAAA
1 ATAAA-AAAA
*
2776240 GT-AAAAAA
1 ATAAAAAAA
*
2776248 A-AATAAAA
1 ATAAAAAAA
2776256 ATAAAATAAA
1 ATAAAA-AAA
2776266 GATAAAAAA
1 -ATAAAAAA
2776275 TATTAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
8 13 0.22
9 12 0.20
10 16 0.27
11 13 0.22
12 5 0.08
ACGTcount: A:0.79, C:0.01, G:0.08, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:2776216 original size:12 final size:11
Alignment explanation
Indices: 2776197--2776272 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
2776187 AATATAAAAC
2776197 AAAATAAAAGT
1 AAAATAAAAGT
*
2776208 AAAAGTAAAAGA
1 AAAA-TAAAAGT
* *
2776220 AGAAAAAAAAAT
1 A-AAATAAAAGT
*
2776232 -AAAGAAAAGT
1 AAAATAAAAGT
*
2776242 AAAA-AAAAAT
1 AAAATAAAAGT
2776252 AAAAATAAAA-T
1 -AAAATAAAAGT
2776263 AAAGATAAAA
1 AAA-ATAAAA
2776273 AATATTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
10 16 0.31
11 18 0.35
12 15 0.29
13 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (11 bp):
AAAATAAAAGT
Found at i:2776256 original size:11 final size:11
Alignment explanation
Indices: 2776222--2776276 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 11
2776212 GTAAAAGAAG
2776222 AAAAAAAAAT-
1 AAAAAAAAATA
* *
2776232 AAAGAAAAGT-
1 AAAAAAAAATA
2776242 AAAAAAAAATA
1 AAAAAAAAATA
*
2776253 AAAATAAAATA
1 AAAAAAAAATA
2776264 AAGATAAAAAATA
1 AA-A-AAAAAATA
2776277 TTAAATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.44
11 12 0.33
12 1 0.03
13 7 0.19
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:2776807 original size:30 final size:31
Alignment explanation
Indices: 2776771--2776840 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
2776761 ACTGGGTTGG
* ** *
2776771 TCGTCGGAAACTTCAAGGTTGGCCGAAA-TT
1 TCGTCGGAAAATTCAAACTTCGCCGAAATTT
2776801 TCGTCGGAAAATTCAAACTTCGCCGAAATTT
1 TCGTCGGAAAATTCAAACTTCGCCGAAATTT
2776832 TCGTCGGAA
1 TCGTCGGAA
2776841 TCTGGAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 24 0.69
31 11 0.31
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (31 bp):
TCGTCGGAAAATTCAAACTTCGCCGAAATTT
Found at i:2777332 original size:3 final size:3
Alignment explanation
Indices: 2777320--2777448 Score: 52
Period size: 3 Copynumber: 41.0 Consensus size: 3
2777310 AAAAAAAATG
* *
2777320 ATA ATG ATA ATA ATA AT- ATA ATA ATA ATA ATA ACA ACT- ATA ACTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A-TA
* * * *
2777365 TATAA ATA A-A ATA CAT- ATAA ATA TTA ACA GAAA AAA ATAA ATA TATA
1 -AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA -ATA ATA AT-A ATA -ATA
* *
2777412 TTA ATA CACA ATA ATA ATA ATA ATAA ATA ATA A-A ATA
1 ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
2777449 CAAAAGAAAG
Statistics
Matches: 97, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
2 9 0.09
3 64 0.66
4 22 0.23
5 2 0.02
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:2777346 original size:17 final size:17
Alignment explanation
Indices: 2777320--2777352 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2777310 AAAAAAAATG
*
2777320 ATAATGATAATAATAAT
1 ATAATAATAATAATAAT
2777337 ATAATAATAATAATAA
1 ATAATAATAATAATAA
2777353 CAACTATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:2777661 original size:9 final size:9
Alignment explanation
Indices: 2777635--2777687 Score: 58
Period size: 8 Copynumber: 6.0 Consensus size: 9
2777625 CAATTCAACA
2777635 TTGTCGTTTT
1 TTGT-GTTTT
*
2777645 TT-TATTTT
1 TTGTGTTTT
2777653 TTGTGTTTTT
1 TTGTG-TTTT
2777663 TTGTGTTTT
1 TTGTGTTTT
2777672 TTGT-TTTT
1 TTGTGTTTT
2777680 TTG-GTTTT
1 TTGTGTTTT
2777688 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 17 0.45
9 10 0.26
10 11 0.29
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.79
Consensus pattern (9 bp):
TTGTGTTTT
Found at i:2777662 original size:17 final size:18
Alignment explanation
Indices: 2777635--2777681 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
2777625 CAATTCAACA
2777635 TTGTCGTTTTTTTAT-TTT
1 TTGT-GTTTTTTTATGTTT
*
2777653 TTGTGTTTTTTTGTGTTT
1 TTGTGTTTTTTTATGTTT
2777671 TT-TGTTTTTTT
1 TTGTGTTTTTTT
2777682 GGTTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.81
Consensus pattern (18 bp):
TTGTGTTTTTTTATGTTT
Found at i:2777696 original size:9 final size:9
Alignment explanation
Indices: 2777649--2777700 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
2777639 CGTTTTTTTA
2777649 TTTTTTGTGT
1 TTTTTTGT-T
*
2777659 TTTTTTGTG
1 TTTTTTGTT
2777668 TTTTTTGTT
1 TTTTTTGTT
*
2777677 TTTTTGGTT
1 TTTTTTGTT
2777686 TTGTTTT-TT
1 TT-TTTTGTT
2777695 TTTTTT
1 TTTTTT
2777701 ACCAAAGCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 4 0.11
9 22 0.59
10 11 0.30
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:2777698 original size:17 final size:17
Alignment explanation
Indices: 2777640--2777697 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
2777630 CAACATTGTC
*
2777640 GTTTTTTTAT-TTTTTGT
1 GTTTTTTTGTGTTTTT-T
2777657 GTTTTTTTGTGTTTTTT
1 GTTTTTTTGTGTTTTTT
2777674 GTTTTTTTG-GTTTTGTT
1 GTTTTTTTGTGTTTT-TT
2777691 -TTTTTTT
1 GTTTTTTT
2777698 TTTACCAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
16 12 0.32
17 21 0.55
18 5 0.13
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.83
Consensus pattern (17 bp):
GTTTTTTTGTGTTTTTT
Found at i:2777801 original size:41 final size:41
Alignment explanation
Indices: 2777707--2778299 Score: 943
Period size: 41 Copynumber: 14.1 Consensus size: 41
2777697 TTTTACCAAA
* * *
2777707 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
2777750 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
2777791 GCTCCTCTAAATAGAGGTACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
2777833 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
2777875 GCTCCTCTAAACAGAGGCACCACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
2777917 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
2777958 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAACTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
2777999 GCTCCTCTAAAGAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
2778040 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
2778081 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG--A------AAAGTAAATT
* *
2778130 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
2778171 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
2778212 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
2778253 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
2778294 GCTCCT
1 GCTCCT
2778300 TGACAATCAT
Statistics
Matches: 517, Mismatches: 22, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
41 327 0.63
42 119 0.23
43 31 0.06
47 1 0.00
49 39 0.08
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:2778184 original size:213 final size:206
Alignment explanation
Indices: 2777707--2778299 Score: 972
Period size: 213 Copynumber: 2.8 Consensus size: 206
2777697 TTTTACCAAA
*
2777707 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGG-TACCACGACTTTGA-AAA-ATAAATTGCTCCTCTAAACAGAGGCACC
* * * *
2777771 ACGACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGTACCACGACTTTGGGAAAGTAAATTGCT
63 ACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCT
2777836 CCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
127 CCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
2777901 TTTGGGAAAGTAAATT
191 TTTGGGAAAGTAAATT
* *
2777917 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
* * *
2777982 ACTTTGAAAACTAAATTGCTCCTCTAAAGAGAGGCACCATGACTTTGAAAAGTAAATTGCTCCTC
66 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
2778047 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA
131 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-
2778112 AAGTTTTGAAAGTAAATT
195 --G----GAAAGTAAATT
2778130 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
2778195 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
66 ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
*
2778260 TAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCT
131 TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
2778300 TGACAATCAT
Statistics
Matches: 361, Mismatches: 14, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
206 41 0.11
207 41 0.11
208 72 0.20
209 4 0.01
210 28 0.08
213 175 0.48
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (206 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
TAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
GAAAGTAAATT
Found at i:2779535 original size:9 final size:10
Alignment explanation
Indices: 2779521--2779557 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
2779511 ATTTTTTCCC
2779521 CTTTTTTTTT
1 CTTTTTTTTT
2779531 CTTTTTTTTT
1 CTTTTTTTTT
2779541 CTTTTTTTTT
1 CTTTTTTTTT
*
2779551 CTCTTTT
1 CTTTTTT
2779558 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:2779535 original size:20 final size:20
Alignment explanation
Indices: 2779512--2779558 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2779502 CATTTTCTCA
2779512 TTTTTTCCCCTTTTTTTTTC
1 TTTTTTCCCCTTTTTTTTTC
***
2779532 TTTTTTTTTCTTTTTTTTTC
1 TTTTTTCCCCTTTTTTTTTC
*
2779552 TCTTTTC
1 TTTTTTC
2779559 TCATTTTTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCCCCTTTTTTTTTC
Found at i:2779565 original size:20 final size:20
Alignment explanation
Indices: 2779521--2779566 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2779511 ATTTTTTCCC
* *
2779521 CTTTTTTTTTCTTTTTTTTT
1 CTTTTTTTTTCTTCTTTTCT
2779541 CTTTTTTTTTC-TCTTTTCT
1 CTTTTTTTTTCTTCTTTTCT
2779560 CATTTTT
1 C-TTTTT
2779567 CATCCATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (20 bp):
CTTTTTTTTTCTTCTTTTCT
Found at i:2783544 original size:60 final size:59
Alignment explanation
Indices: 2783416--2784048 Score: 926
Period size: 60 Copynumber: 10.7 Consensus size: 59
2783406 TTTTGTGTAG
* *
2783416 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AAATTTATTTCTAA
2783474 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAATTTATTTCTAA
* *
2783534 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
*
2783592 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTT-GAAATTTATTTCTAA
*
2783652 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAA-TTT-ATTTCT-AA
* ** *
2783713 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-CCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AAATTTATTTCTAA
* * *
2783772 GGAAATTTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
* *
2783830 GGAAAATTTATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTAA
* ** *
2783891 GGAAAATTGATACTTTCAACTTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTG-AAATTTATTTCTAA
*
2783951 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
2784007 GGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2784049 GATTTAAAGA
Statistics
Matches: 524, Mismatches: 33, Indels: 36
0.88 0.06 0.06
Matches are distributed among these distances:
56 45 0.09
57 8 0.02
58 140 0.27
59 74 0.14
60 153 0.29
61 101 0.19
62 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAATTTATTTCTAA
Found at i:2783624 original size:118 final size:118
Alignment explanation
Indices: 2783416--2784050 Score: 966
Period size: 118 Copynumber: 5.4 Consensus size: 118
2783406 TTTTGTGTAG
2783416 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTATTTTTAAGGAAAA
2783480 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
65 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
*
2783534 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAAT
*
2783599 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAA
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
* * *
2783652 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTTCAAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAA-TTT-ATTTTTAAGGAA
** *
2783717 AATTGATACTTTCAACTTTTCCTC-AAAA-ATCCTTTTTTTGAAAATTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTG-AAATTTATTTCTAA
* * *
2783772 GGAAATTTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAAT
* *
2783837 TTATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAACTTTGATTTCCAA
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAA-TTT-ATTTCTAA
*
2783891 GGAAAATTGATACTTTCAAC-TTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAAAT-ATTTTTTTTG-AAATTTATTTTTAAGGAA
*
2783955 AATTGATACTTTCAACTTTTCC-CAAAAATA---TTTTTTGGAAATTTATTTCTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
*
2784007 GGAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGA
2784051 TTTAAAGAAT
Statistics
Matches: 474, Mismatches: 30, Indels: 31
0.89 0.06 0.06
Matches are distributed among these distances:
113 1 0.00
114 9 0.02
115 5 0.01
116 28 0.06
117 43 0.09
118 176 0.37
119 71 0.15
120 70 0.15
121 71 0.15
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAATTTATTTCTAA
Found at i:2783813 original size:178 final size:178
Alignment explanation
Indices: 2783416--2784048 Score: 1055
Period size: 178 Copynumber: 3.6 Consensus size: 178
2783406 TTTTGTGTAG
* *
2783416 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
2783481 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAA-TTT-A-TTTCTAAGGAAAATTG
66 TGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAACTTTGATTTTC-AAGGAAAATTG
* **
2783543 ATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAATTTATTTTTAA
129 ATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
* *
2783592 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGGAAATTTATTTCTAAGGAAA
* *
2783657 ATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTGAAACTTTGATTTTCAAAGAAAATTG
64 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGGAAAATTG
2783722 ATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
129 ATACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
*
2783772 GGAAATTTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
* *
2783837 TTATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGAT
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGGAAAATTGAT
*
2783902 ACTTTCAACTTTCCCTCAAAAATCCTTTTTTTTGAAAATTTATTTTTAA
131 ACTTTCAACTTTTCCTCAAAAATCC-TTTTTTTGAAAATTTATTTTTAA
2783951 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
2784014 TGATACTTTCAACTTTTCCTC-AAAATATTTTTTTT
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
2784049 GATTTAAAGA
Statistics
Matches: 431, Mismatches: 19, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
176 47 0.11
177 61 0.14
178 184 0.43
179 89 0.21
180 50 0.12
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (178 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTTCAAGGAAAATTGAT
ACTTTCAACTTTTCCTCAAAAATCCTTTTTTTGAAAATTTATTTTTAA
Found at i:2784104 original size:30 final size:27
Alignment explanation
Indices: 2784063--2784130 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 27
2784053 TAAAGAATAT
*
2784063 AAAACAAAATAAAAGTAAAAGTAAAAGAA
1 AAAAAAAAATAAAAG-AAAAGTAAAA-AA
*
2784092 GAAAAAAAAAT-AAAGAACAGTAAAAAA
1 -AAAAAAAAATAAAAGAAAAGTAAAAAA
*
2784119 AAATAAAAATAA
1 AAAAAAAAATAA
2784131 GATAAAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.26
27 3 0.09
28 9 0.26
29 4 0.12
30 9 0.26
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (27 bp):
AAAAAAAAATAAAAGAAAAGTAAAAAA
Found at i:2784203 original size:24 final size:23
Alignment explanation
Indices: 2784165--2784218 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2784155 AATCTAATCT
* *
2784165 AATAAATAAAAAAATAGAAAAACA
1 AATAAACAAAAAAAT-GAAAAAAA
*
2784189 AATAAACAAATAAATGAAAAAAA
1 AATAAACAAAAAAATGAAAAAAA
*
2784212 AAAAAAC
1 AATAAAC
2784219 CTGGAGCGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.11
Consensus pattern (23 bp):
AATAAACAAAAAAATGAAAAAAA
Found at i:2785202 original size:3 final size:3
Alignment explanation
Indices: 2785190--2785360 Score: 56
Period size: 3 Copynumber: 56.0 Consensus size: 3
2785180 GAAAAAAATG
* *
2785190 ATA ATG ATA ATA ATA AT- ATA ATA ATA ATA ATA ACA A-A TATA ACTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA
* * *
2785235 TATAA ATA A-A ATA CAT- ATAA ATA TTA ACA GA-A AAA ATA A-A TATA
1 -AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA -ATA ATA ATA ATA -ATA
* *
2785279 TATA TTA ATA CACA ATA ATA ATA ATA ATAA ATA ATA A-A ATA CATA A-A
1 -ATA ATA ATA -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA
* * * *
2785326 ATA CAAA AAA AGA A-A A-A ATA ATA ATA AAA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2785361 CCAGATAGAA
Statistics
Matches: 132, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
2 17 0.13
3 87 0.66
4 26 0.20
5 2 0.02
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:2785303 original size:16 final size:17
Alignment explanation
Indices: 2785270--2785325 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 17
2785260 AACAGAAAAA
2785270 ATAAATATATATATTAATAC
1 ATAAATA-ATA-A-TAATAC
*
2785290 A-CAATAATAATAATA-
1 ATAAATAATAATAATAC
2785305 ATAAATAATAA-AATAC
1 ATAAATAATAATAATAC
2785321 ATAAA
1 ATAAA
2785326 ATACAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.16
16 18 0.56
17 1 0.03
18 3 0.09
19 4 0.12
20 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATAATAATAATAC
Found at i:2785315 original size:42 final size:41
Alignment explanation
Indices: 2785209--2785360 Score: 103
Period size: 42 Copynumber: 3.5 Consensus size: 41
2785199 ATAATAATAT
*
2785209 AATAATAATAATAACAAAT-ATAACTATATAAATAAAATACA
1 AATAATAATAATAA-AAATAATAAATATATAAATAAAATACA
* * * * *
2785250 TATAAATATTAACAGAAAA-AATAAATATATATAT-TAATACA
1 AAT-AATAATAATA-AAAATAATAAATATATAAATAAAATACA
* * *
2785291 CAATAATAATAATAATAAATAATAAAATACATAAAATACAAAAAAAGA
1 -AATAATAATAATAA-AAATAAT-AAATATAT-AAAT---AAAATACA
*
2785339 AAAAATAATAATAAAAATAATA
1 AATAATAATAATAAAAATAATA
2785361 CCAGATAGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 19 0.23
42 28 0.33
43 8 0.10
44 3 0.04
45 1 0.01
46 7 0.08
47 13 0.15
48 4 0.05
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (41 bp):
AATAATAATAATAAAAATAATAAATATATAAATAAAATACA
Found at i:2797405 original size:25 final size:22
Alignment explanation
Indices: 2797358--2797434 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 22
2797348 TATTTTGCCT
2797358 AAAA-AAAAA-GAAAAAAAAT-
1 AAAATAAAAATGAAAAAAAATG
2797377 AAAATGAAAAATGTACAAAAAAATG
1 AAAAT-AAAAATG-A-AAAAAAATG
2797402 AAAAAAATAAAAATGAAAAAAAATG
1 ---AAAATAAAAATGAAAAAAAATG
2797427 AAAA-AAAA
1 AAAATAAAA
2797435 TGAGAAAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
19 4 0.08
21 9 0.18
22 5 0.10
23 1 0.02
24 8 0.16
25 9 0.18
26 1 0.02
27 7 0.14
28 5 0.10
ACGTcount: A:0.81, C:0.01, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAATAAAAATGAAAAAAAATG
Found at i:2797406 original size:10 final size:10
Alignment explanation
Indices: 2797358--2797437 Score: 71
Period size: 10 Copynumber: 8.1 Consensus size: 10
2797348 TATTTTGCCT
*
2797358 AAAAAAAAAG
1 AAAAAAAATG
*
2797368 AAAAAAAATA
1 AAAAAAAATG
2797378 AAATGAAAAATG
1 AAA--AAAAATG
2797390 TACAAAAAAATG
1 -A-AAAAAAATG
2797402 -AAAAAAAT-
1 AAAAAAAATG
2797410 ---AAAAATG
1 AAAAAAAATG
2797417 AAAAAAAATG
1 AAAAAAAATG
2797427 AAAAAAAATG
1 AAAAAAAATG
2797437 A
1 A
2797438 GAAAGAAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
6 6 0.10
9 8 0.14
10 29 0.49
12 13 0.22
13 1 0.02
14 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:2797433 original size:34 final size:34
Alignment explanation
Indices: 2797359--2797423 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2797349 ATTTTGCCTA
**
2797359 AAAAAAAAGAAAAAAAATAAAATGAAAAATGTAC
1 AAAAAAAAGAAAAAAAATAAAATGAAAAAAATAC
*
2797393 AAAAAAATG-AAAAAAATAAAAATGAAAAAAA
1 AAAAAAAAGAAAAAAAAT-AAAATGAAAAAAA
2797424 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.11
Consensus pattern (34 bp):
AAAAAAAAGAAAAAAAATAAAATGAAAAAAATAC
Found at i:2797445 original size:26 final size:25
Alignment explanation
Indices: 2797377--2797433 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
2797367 GAAAAAAAAT
*
2797377 AAAATGAAAAATGTACAAAAAAATGAAA
1 AAAAT-AAAAATG-AAAA-AAAATGAAA
2797405 AAAATAAAAATGAAAAAAAATGAAA
1 AAAATAAAAATGAAAAAAAATGAAA
2797430 AAAA
1 AAAA
2797434 ATGAGAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 13 0.46
26 3 0.11
27 7 0.25
28 5 0.18
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (25 bp):
AAAATAAAAATGAAAAAAAATGAAA
Found at i:2798655 original size:73 final size:73
Alignment explanation
Indices: 2798470--2799383 Score: 933
Period size: 73 Copynumber: 12.7 Consensus size: 73
2798460 CAGTCTTGTA
* * * * * *
2798470 TAATTGCCCGACTTGTGGTTCAATCCCAGTCGTTTTTAATCTTTGACTCGTGGTTTAATCCCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798535 CATTTCA-
66 CATTTCAT
* * * * * *** *
2798542 T--TCT-CTGACTTACGGTTCAGTCCTAGTCATCTTTATTCTTTGGCTTACGATTTAATCCCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798604 CATTTCAT
66 CATTTCAT
* * ** * *
2798612 TAATTTCCTGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798677 CATTTCAT
66 CATTTCAT
** * * * * *
2798685 TAATTTTTTGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798750 CATTTCAT
66 CATTTCAT
* * * * * *
2798758 TAATTTTCTAACTTGCGGTTCAGTTCCAGTCATCTTTAATTTTTGACTCATGATTTAATCCCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798823 CATTTCA-
66 CATTTCAT
* * * ** *
2798830 T--TCT-CTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGGT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798892 CATTTCAT
66 CATTTCAT
** * * * **
2798900 TAATTTTTTGACTTGCGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTAAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2798965 CATTTCAT
66 CATTTCAT
* * ** *
2798973 TAA-TTCTCTGACTTACGATTCAGTTTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCGCGA
1 TAATTTC-CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
2799037 TCATTTCA-
65 TCATTTCAT
* * * * * **
2799045 T--TCT-CTAACTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTTATGGTTTAATCCCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2799107 CATTTCAT
66 CATTTCAT
* * * * *
2799115 TAATTTTCTGACTTGTGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
2799180 CATTTCAT
66 CATTTCAT
* * * * * * * *
2799188 TAA-TTCTCTCGACTTGCGATTTAGTCCTAATCATCTTTAATCTTTGACTGGCGATTTAATCTCG
1 TAATTTC-CT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCG
*
2799252 GTCATTTCAT
64 ATCATTTCAT
* * **
2799262 TAATTCTCTTGACCTGCGGTTCAGTCCCAGTCATCTTTAA--TTTGACTCACGGTTTAATCCCGA
1 TAATT-TCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
2799325 TCATTTCAT
65 TCATTTCAT
* ** * *
2799334 TAATTCCCTCGACTTGTAGTTCAGTCTCAGTCATCTTTAATCCTTGACTC
1 TAATTTCCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTC
2799384 ACGGTGTCAT
Statistics
Matches: 699, Mismatches: 122, Indels: 40
0.81 0.14 0.05
Matches are distributed among these distances:
69 167 0.24
70 6 0.01
71 3 0.00
72 71 0.10
73 358 0.51
74 90 0.13
75 2 0.00
76 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
CATTTCAT
Found at i:2798864 original size:215 final size:215
Alignment explanation
Indices: 2798479--2799375 Score: 1047
Period size: 215 Copynumber: 4.1 Consensus size: 215
2798469 ATAATTGCCC
* * * * * *
2798479 GACTTGTGGTTCAATCCCAGTCGTTTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC---
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
* * * *
2798541 -ATTCTCTGACTTACGGTTCAGTCCTAGTCATCTTTATTCTTTGGCTTACGATTTAATCCCGATC
66 AATTCTCTGACTTACGATTCAGTCCTAGTCATCTTTAATCTTTGACTCACGATTTAATCCCGATC
* * * ** * *
2798605 ATTTCATTAATTTCCTGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAA
131 ATTTCA-T--TCT-CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAA
*
2798670 TCCCGGTCATTTCATTAATTTTTT
192 TCCCGATCATTTCATTAATTTTTT
* * *
2798694 GACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
* * * * * *
2798759 AATTTTCTAACTTGCGGTTCAGTTCC-AGTCATCTTTAATTTTTGACTCATGATTTAATCCCGAT
66 AATTCTCTGACTTACGATTCAG-TCCTAGTCATCTTTAATCTTTGACTCACGATTTAATCCCGAT
* * *
2798823 CATTTCATTCTCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCC
130 CATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCC
*
2798888 CGGTCATTTCATTAATTTTTT
195 CGATCATTTCATTAATTTTTT
* * *
2798909 GACTTGCGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATC-CTAATCATTTCAT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTC-GATCATTTCAT
* ** * *
2798973 TAATTCTCTGACTTACGATTCAGT-TTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCGCGA
65 TAATTCTCTGACTTACGATTCAGTCCT-AGTCATCTTTAATCTTTGACTCACGATTTAATCCCGA
* * * * *
2799037 TCATTTCATTCTCTAACTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTTATGGTTTAATC
129 TCATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATC
*
2799102 CCGATCATTTCATTAATTTTCT
194 CCGATCATTTCATTAATTTTTT
* *
2799124 GACTTGTGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
* * * ** * *
2799189 AATTCTCTCGACTTGCGATTTAGTCCTAATCATCTTTAATCTTTGACTGGCGATTTAATCTCGGT
66 AATTCTCT-GACTTACGATTCAGTCCTAGTCATCTTTAATCTTTGACTCACGATTTAATCCCGAT
* *
2799254 CATTTCATTAATTCTCTTGACCTGCGGTTCAGTCCCAGTCATCTTTAA--TTTGACTCACGGTTT
130 CATTTC----ATTCTC-TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTT
** *
2799317 AATCCCGATCATTTCATTAATTCCCTC
190 AATCCCGATCATTTCATTAATT-TTTT
** *
2799344 GACTTGTAGTTCAGTCTCAGTCATCTTTAATC
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATC
2799376 CTTGACTCAC
Statistics
Matches: 591, Mismatches: 74, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
214 2 0.00
215 376 0.64
216 54 0.09
217 1 0.00
218 1 0.00
219 93 0.16
220 38 0.06
221 26 0.04
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (215 bp):
GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATT
AATTCTCTGACTTACGATTCAGTCCTAGTCATCTTTAATCTTTGACTCACGATTTAATCCCGATC
ATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCC
GATCATTTCATTAATTTTTT
Found at i:2799032 original size:288 final size:289
Alignment explanation
Indices: 2798504--2799384 Score: 1134
Period size: 288 Copynumber: 3.1 Consensus size: 289
2798494 CCCAGTCGTT
* * * *
2798504 TTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTCTCTGACTTACGGTTCAGTCCTAGT
1 TTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTTAGTCCCAGT
* * * * * *
2798569 CATCTTTATTCTTTGGCTTACGATTTAATCCCGATCATTTCATTAATTTCCTGACTTGTGGTTTA
66 CATCTTTAATCTTTGGCTTATGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGATTTA
* * * *
2798634 GTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCATTAATTTTTTGACTT
131 GTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGGTCATTTCATTAATTCTCTGACTT
* * * *
2798699 ACGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGATCATTTCATTAATTT
196 ACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTC
2798764 TCTAACTTGCGGTTCAGTTC-CAGTCATC
261 TCTAACTTGCGGTTCAGTTCTCAGTCATC
* *
2798792 TTTAATTTTTGACTCATGATTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTTAGTCCCAGT
1 TTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTTAGTCCCAGT
** * *
2798857 CATCTTTAATCTTTAACTTATGGTTTAATCCCGGTCATTTCATTAATTTTTTGACTTGCGATTTA
66 CATCTTTAATCTTTGGCTTATGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGATTTA
* **
2798922 GTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTAATCATTTCATTAATTCTCTGACTT
131 GTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGGTCATTTCATTAATTCTCTGACTT
* ** * *
2798987 ACGATTCAGTTTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCGCGATCATTTC----ATTC
196 ACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTC
* *
2799048 TCTAACTTACGGTTCA-ATCTCAGTCATC
261 TCTAACTTGCGGTTCAGTTCTCAGTCATC
* * *
2799076 TTTAATCTTTGACTTATGGTTTAATCCCGATCATTTCATTAATTTTCTGACTTGTGGTTTAGTCC
1 TTTAATCTTTGACTCATGGTTTAATCCCGATCATTTC----ATTCTCTGACTTGCGGTTTAGTCC
** * *
2799141 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCG
62 CAGTCATCTTTAATCTTTGGCTTATGGTTTAATCCCGATCATTTCATTAATT-TCTTGACTTGCG
* * * * *
2799206 ATTTAGTCCTAATCATCTTTAATCTTTGACTGGCGATTTAAT-CTCGGTCATTTCATTAATTCTC
126 ATTTAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCT-GGTCATTTCATTAATTCTC
* * *
2799270 TTGACCTGCGGTTCAGTCCCAGTCATCTTTAA--TTTGACTCACGGTTTAATCCCGATCATTTCA
190 -TGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCA
* * **
2799333 TTAATTCCCTCGACTTGTAGTTCAG-TCTCAGTCATC
254 TTAATTCTCT-AACTTGCGGTTCAGTTCTCAGTCATC
*
2799369 TTTAATCCTTGACTCA
1 TTTAATCTTTGACTCA
2799385 CGGTGTCATC
Statistics
Matches: 510, Mismatches: 69, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
283 2 0.00
284 60 0.12
288 319 0.63
289 63 0.12
290 26 0.05
292 6 0.01
293 34 0.07
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (289 bp):
TTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTTAGTCCCAGT
CATCTTTAATCTTTGGCTTATGGTTTAATCCCGATCATTTCATTAATTTCTTGACTTGCGATTTA
GTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGGTCATTTCATTAATTCTCTGACTT
ACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTC
TCTAACTTGCGGTTCAGTTCTCAGTCATC
Found at i:2799221 original size:39 final size:40
Alignment explanation
Indices: 2799178--2799288 Score: 99
Period size: 35 Copynumber: 2.9 Consensus size: 40
2799168 TTTAATCTCG
*
2799178 ATCATTTCATTAATTCTCTCGACTTGCGATTTAGTCCT-A
1 ATCATTTCATTAATTCTCTTGACTTGCGATTTAGTCCTCA
* * * *
2799217 ATCA--TCTTTAA-TCT-TTGACTGGCGATTTAAT-CTCG
1 ATCATTTCATTAATTCTCTTGACTTGCGATTTAGTCCTCA
* * * *
2799252 GTCATTTCATTAATTCTCTTGACCTGCGGTTCAGTCC
1 ATCATTTCATTAATTCTCTTGACTTGCGATTTAGTCC
2799289 CAGTCATCTT
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
34 2 0.04
35 17 0.31
36 3 0.06
37 12 0.22
38 3 0.06
39 16 0.30
40 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (40 bp):
ATCATTTCATTAATTCTCTTGACTTGCGATTTAGTCCTCA
Found at i:2799688 original size:16 final size:16
Alignment explanation
Indices: 2799669--2799707 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2799659 TAATAATAAT
*
2799669 AATAAATATTTAAAAA
1 AATAAATAATTAAAAA
2799685 AATATAATAATTAAAAA
1 AATA-AATAATTAAAAA
*
2799702 ATTAAA
1 AATAAA
2799708 AAAGAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATAATTAAAAA
Found at i:2799688 original size:19 final size:19
Alignment explanation
Indices: 2799648--2799722 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 19
2799638 TAATAATAAT
*
2799648 AATAAT-AATAA-TAATAAT
1 AATAATAAATAATTAA-AAA
*
2799666 AATAATAAATATTTAAAAA
1 AATAATAAATAATTAAAAA
2799685 AAT-AT-AATAATTAAAAA
1 AATAATAAATAATTAAAAA
* * *
2799702 ATTAAAAAAGAATTAAAAA
1 AATAATAAATAATTAAAAA
2799721 AA
1 AA
2799723 GAGAAATGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
17 13 0.28
18 9 0.20
19 21 0.46
20 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAAATAATTAAAAA
Found at i:2799691 original size:27 final size:25
Alignment explanation
Indices: 2799664--2799710 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2799654 AATAATAATA
* *
2799664 ATAATAA-TAAATATTTAAAAAAAT
1 ATAATAATTAAAAAATTAAAAAAAT
2799688 ATAATAATTAAAAAATTAAAAAA
1 ATAATAATTAAAAAATTAAAAAA
2799711 GAATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAATAATTAAAAAATTAAAAAAAT
Found at i:2799695 original size:3 final size:3
Alignment explanation
Indices: 2799632--2799673 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
2799622 TTAAGTATAT
*
2799632 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2799674 ATATTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2801268 original size:17 final size:17
Alignment explanation
Indices: 2801243--2801309 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 17
2801233 TTTAAGTTTT
*
2801243 AAAACCCCTAAAAATCC
1 AAAATCCCTAAAAATCC
* * *
2801260 AAAATCCCTTAAGATTC
1 AAAATCCCTAAAAATCC
*
2801277 AAAA-CCTCTTAAAATCC
1 AAAATCC-CTAAAAATCC
*
2801294 AAAGT-CCTAAAAATCC
1 AAAATCCCTAAAAATCC
2801310 TAAGGACACG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 11 0.28
17 29 0.73
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATCCCTAAAAATCC
Found at i:2801448 original size:13 final size:12
Alignment explanation
Indices: 2801426--2801464 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
2801416 CTTAATTCAC
*
2801426 ATTAATAATAAG
1 ATTAATAATAAA
2801438 ATTAATAAATAAA
1 ATTAAT-AATAAA
2801451 ATT-ATAATAAA
1 ATTAATAATAAA
2801462 ATT
1 ATT
2801465 GAGATCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 9 0.36
12 8 0.32
13 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
ATTAATAATAAA
Found at i:2803255 original size:20 final size:20
Alignment explanation
Indices: 2803217--2803256 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2803207 TTGTTTAATA
*
2803217 AAAAATATTTTTATTATATT
1 AAAAATATTTTTATAATATT
2803237 AAAAAT-TTTTTATAAATATT
1 AAAAATATTTTTAT-AATATT
2803257 TTAATACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAAATATTTTTATAATATT
Found at i:2803316 original size:21 final size:21
Alignment explanation
Indices: 2803292--2803333 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2803282 TATAATCTTT
2803292 TCACTTAGAAATTATTAAAGC
1 TCACTTAGAAATTATTAAAGC
2803313 TCACTTAGAAATTATTAAAGC
1 TCACTTAGAAATTATTAAAGC
2803334 ATTATTACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
TCACTTAGAAATTATTAAAGC
Found at i:2803414 original size:20 final size:19
Alignment explanation
Indices: 2803391--2803436 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
2803381 TTTTTTACAT
*
2803391 TTTTTCATTATTTTTATTTA
1 TTTTTCATTACTTTT-TTTA
**
2803411 TTTTTGGTTACTTTTTTTA
1 TTTTTCATTACTTTTTTTA
2803430 TTTTTCA
1 TTTTTCA
2803437 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTTCATTACTTTTTTTA
Found at i:2804754 original size:3 final size:3
Alignment explanation
Indices: 2804748--2804778 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2804738 TAATTAATTA
2804748 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2804779 GTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2808166 original size:13 final size:13
Alignment explanation
Indices: 2808134--2808166 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
2808124 AAAGATGAAT
2808134 AGAGAGGAAAAAA
1 AGAGAGGAAAAAA
2808147 AGAAGAGGAAAAAA
1 AG-AGAGGAAAAAA
2808161 AGAGAG
1 AGAGAG
2808167 TAGAGTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (13 bp):
AGAGAGGAAAAAA
Found at i:2810886 original size:30 final size:29
Alignment explanation
Indices: 2810852--2811047 Score: 101
Period size: 30 Copynumber: 6.2 Consensus size: 29
2810842 ATATGGAAGG
*
2810852 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGGTTTGGATTTTAGAGTTT-GAGAT
* * *
2810882 TTTAGGATTTGGGTTTTAGGGTTTGGAGTTTTGAT
1 TTTAGGGTTTGGATTTTAGAGTTT-GA-----GAT
* * *
2810917 TTAAGGGTTTGGATTTTAGGGATTTTAGAT
1 TTTAGGGTTTGGATTTTAGAG-TTTGAGAT
*
2810947 TTT-GGGTTTTGGATTTTAGGTGTTTCGA-AT
1 TTTAGGG-TTTGGATTTTA-GAGTTT-GAGAT
* * *
2810977 TTTAGGGGTTCGGATTTAAGAGATTTTAGATT
1 TTTA-GGGTTTGGATTTTAGAG-TTTGAGA-T
*
2811009 TTTAGGGGTTTAGATTTTAGTAGGTTTTG-GAT
1 TTTA-GGGTTTGGATTTTAG-A-G-TTTGAGAT
2811041 TTTAGGG
1 TTTAGGG
2811048 GTTTTAGAAA
Statistics
Matches: 130, Mismatches: 20, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
29 3 0.02
30 50 0.38
31 19 0.15
32 26 0.20
33 3 0.02
34 4 0.03
35 22 0.17
36 3 0.02
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (29 bp):
TTTAGGGTTTGGATTTTAGAGTTTGAGAT
Found at i:2810963 original size:14 final size:14
Alignment explanation
Indices: 2810889--2810963 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 14
2810879 GATTTTAGGA
*
2810889 TTTGGGTTTTAGG-G
1 TTTGGGTTTT-GGAT
2810903 TTTGGAGTTTT-GAT
1 TTTGG-GTTTTGGAT
*
2810917 TTAAGGG-TTTGGAT
1 TT-TGGGTTTTGGAT
*
2810931 TTTAGGGATTTTAGAT
1 TTT-GGG-TTTTGGAT
2810947 TTTGGGTTTTGGAT
1 TTTGGGTTTTGGAT
2810961 TTT
1 TTT
2810964 AGGTGTTTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.08
14 26 0.53
15 10 0.20
16 9 0.18
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (14 bp):
TTTGGGTTTTGGAT
Found at i:2810993 original size:15 final size:15
Alignment explanation
Indices: 2810852--2811052 Score: 106
Period size: 16 Copynumber: 12.7 Consensus size: 15
2810842 ATATGGAAGG
2810852 TTTAGGGTTTT-GAT
1 TTTAGGGTTTTGGAT
* *
2810866 TTTAGAGTTTGGAGAT
1 TTTAGGGTTTTG-GAT
* *
2810882 TTTA-GGATTTGGGT
1 TTTAGGGTTTTGGAT
2810896 TTTAGGG-TTTGGAGTTTT
1 TTTAGGGTTTTGGA----T
2810914 GATTTAAGGG-TTTGGAT
1 --TTT-AGGGTTTTGGAT
*
2810931 TTTAGGGATTTTAGAT
1 TTTAGGG-TTTTGGAT
2810947 TTT-GGGTTTTGGAT
1 TTTAGGGTTTTGGAT
* *
2810961 TTTAGGTGTTTCGAAT
1 TTTAGG-GTTTTGGAT
* *
2810977 TTTAGGGGTTCGGAT
1 TTTAGGGTTTTGGAT
* * *
2810992 TTAAGAGATTTTAGATT
1 TTTAG-GGTTTTGGA-T
* *
2811009 TTTAGGGGTTTAGAT
1 TTTAGGGTTTTGGAT
2811024 TTTAGTAGGTTTTGGAT
1 TTTAG--GGTTTTGGAT
2811041 TTTAGGGGTTTT
1 TTTA-GGGTTTT
2811053 AGAAACCTAG
Statistics
Matches: 145, Mismatches: 23, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
14 34 0.23
15 31 0.21
16 47 0.32
17 18 0.12
18 2 0.01
20 3 0.02
21 10 0.07
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTTGGAT
Found at i:2811012 original size:32 final size:31
Alignment explanation
Indices: 2810916--2811051 Score: 134
Period size: 32 Copynumber: 4.4 Consensus size: 31
2810906 GGAGTTTTGA
* *
2810916 TTTAAGGGTTTGGATTTTAGGGATTTTAGAT
1 TTTAGGGGTTTGGATTTTAGAGATTTTAGAT
* *
2810947 TTT-GGGTTTTGGATTTTAG-G-TGTTTCGAAT
1 TTTAGGGGTTTGGATTTTAGAGAT-TTTAG-AT
* *
2810977 TTTAGGGGTTCGGATTTAAGAGATTTTAGATT
1 TTTAGGGGTTTGGATTTTAGAGATTTTAGA-T
* * *
2811009 TTTAGGGGTTTAGATTTTAGTAGGTTTTGGAT
1 TTTAGGGGTTTGGATTTTAG-AGATTTTAGAT
2811041 TTTAGGGGTTT
1 TTTAGGGGTTT
2811052 TAGAAACCTA
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
28 1 0.01
29 5 0.06
30 19 0.22
31 17 0.20
32 35 0.41
33 9 0.10
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (31 bp):
TTTAGGGGTTTGGATTTTAGAGATTTTAGAT
Found at i:2812509 original size:11 final size:12
Alignment explanation
Indices: 2812488--2812516 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2812478 TTCTTCTTCT
2812488 TTTTGTTTTGTA
1 TTTTGTTTTGTA
2812500 TTTT-TTTTGTA
1 TTTTGTTTTGTA
2812511 TTTTGT
1 TTTTGT
2812517 ATTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (12 bp):
TTTTGTTTTGTA
Found at i:2812516 original size:18 final size:19
Alignment explanation
Indices: 2812487--2812533 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
2812477 GTTCTTCTTC
*
2812487 TTTTTGTTTTGTATT-TT-
1 TTTTTATTTTGTATTATTA
2812504 TTTTGTATTTTGTATTATTA
1 TTTT-TATTTTGTATTATTA
2812524 TTTTTATTTT
1 TTTTTATTTT
2812534 TTTGGGACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 10 0.38
19 8 0.31
20 4 0.15
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTGTATTATTA
Found at i:2812780 original size:22 final size:22
Alignment explanation
Indices: 2812733--2812791 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
2812723 TTATGCCTAA
*
2812733 AGGTCTT-AGAAATCATGCCCAT
1 AGGTCTTAAG-AATCATGCCCAG
* *
2812755 AGGTCTTAAGAATCATGCTCGG
1 AGGTCTTAAGAATCATGCCCAG
2812777 AGGTCTTACAGAATC
1 AGGTCTTA-AGAATC
2812792 GACTGGGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (22 bp):
AGGTCTTAAGAATCATGCCCAG
Found at i:2812889 original size:21 final size:21
Alignment explanation
Indices: 2812865--2812923 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
2812855 TTATGCCTGA
*
2812865 AGGTTTTACAGAATTGCCCAG
1 AGGTCTTACAGAATTGCCCAG
* *
2812886 AGGTCTTAGA-AATCATGCCCGG
1 AGGTCTTACAGAAT--TGCCCAG
2812908 AGGTCTTACAGAATTG
1 AGGTCTTACAGAATTG
2812924 ACTGGGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
22 15 0.48
23 3 0.10
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (21 bp):
AGGTCTTACAGAATTGCCCAG
Found at i:2812916 original size:131 final size:132
Alignment explanation
Indices: 2812723--2813294 Score: 577
Period size: 131 Copynumber: 4.3 Consensus size: 132
2812713 CGAATTGAAT
* * ** *
2812723 TTATGCCTAAAGGTCTTAGAAATCATGCCCATAGGTCTTA-AGAATCATGCTCGGAGGTCTTACA
1 TTATGCCTGAAGGTCTTACAAAT-ATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGTCTTACA
* * *
2812787 GAATCGACTGGGATAACATCACAAGTCAAAAGATAAAGAATTGATCGGGATAACACCACGAATCA
65 GAATCGACTGGGATAACACCATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCA
2812852 AAA
130 AAA
* * *
2812855 TTATGCCTGAAGGTTTTACAGAAT-TGCCCAGAGGTCTTAGA-AATCATGCCCGGAGGTCTTACA
1 TTATGCCTGAAGGTCTTACA-AATATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGTCTTACA
* * * * * * * * *
2812918 GAATTGACTGGGATAACACCATAAGTCAGAA-ATAAAAAATCGATCGAGACAACATCGCAAATCG
65 GAATCGACTGGGATAACACCATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCA
2812982 AAA
130 AAA
* * * * * * *
2812985 TTATACCTGGAGGTCTTAGAAATCATGCCTGGAGGTCTTACAGAATCATGCCTGGAAGT-TT-TA
1 TTATGCCTGAAGGTCTTACAAAT-ATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGTCTTACA
* * * * ***
2813048 GAATCGATTGGGATAACATCGTAAGTCAAAATATAAAGAATCGATCGGGATAACACTGGGAATCA
65 GAATCGACTGGGATAACACCATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCA
*
2813113 AAT
130 AAA
* ** **
2813116 TTATG-CTCAAAGGTCTT-CGAAATCATGCATGGAGGTCTTACAGAATCATGTTCGGAGGTCTTA
1 TTATGCCT-GAAGGTCTTAC-AAAT-ATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGTCTTA
* * * *
2813179 CAGAATCGACTGAGATAACACCAAAAGTCAAAAGATAAAGAATCGATCAGAATAACACCACGAAT
63 CAGAATCGACTGGGATAACACCATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAAT
* *
2813244 CGAAT
128 CAAAA
* *
2813249 TTATGTCC-GAAGGTCTTAGAAATAATGCCCGGAGGTCTTATAGAAT
1 TTATG-CCTGAAGGTCTTACAAAT-ATGCCCGGAGGTCTTACAGAAT
2813295 TGACTGAGAT
Statistics
Matches: 358, Mismatches: 69, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
129 3 0.01
130 73 0.20
131 151 0.42
132 34 0.09
133 96 0.27
135 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (132 bp):
TTATGCCTGAAGGTCTTACAAATATGCCCGGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAG
AATCGACTGGGATAACACCATAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCAA
AA
Found at i:2813015 original size:22 final size:22
Alignment explanation
Indices: 2812981--2813050 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
2812971 ATCGCAAATC
* *
2812981 GAAATTATACCTGGAGGTCTTA
1 GAAATCATGCCTGGAGGTCTTA
2813003 GAAATCATGCCTGGAGGTCTTA
1 GAAATCATGCCTGGAGGTCTTA
* * *
2813025 CAGAATCATGCCTGGAAGTTTTA
1 GA-AATCATGCCTGGAGGTCTTA
2813048 GAA
1 GAA
2813051 TCGATTGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 22 0.54
23 19 0.46
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
GAAATCATGCCTGGAGGTCTTA
Found at i:2813165 original size:23 final size:23
Alignment explanation
Indices: 2813136--2813185 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2813126 AGGTCTTCGA
2813136 AATCATGCAT-GGAGGTCTTACAG
1 AATCATG-ATCGGAGGTCTTACAG
*
2813159 AATCATGTTCGGAGGTCTTACAG
1 AATCATGATCGGAGGTCTTACAG
2813182 AATC
1 AATC
2813186 GACTGAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
AATCATGATCGGAGGTCTTACAG
Found at i:2813397 original size:109 final size:110
Alignment explanation
Indices: 2813168--2813403 Score: 264
Period size: 109 Copynumber: 2.2 Consensus size: 110
2813158 GAATCATGTT
*
2813168 CGGAGGTCTTACAGAATCGACTGAGATAACACCAAAAGTCAAAAGATAAAGAATCGATCAGAATA
1 CGGAGGTCTTACAGAATCGACTGAGATAACACCAAAAGTCAAAAGATAAAGAATCGATCAGAACA
* * * * *
2813233 ACACCACGAATCGAATTTATGTCCGAAGGTCTTAGAAATAATGCC
66 ACACCACAAATCAAAATTATGCCCGAAGGTATTAGAAATAATGCC
* * * ** ** *
2813278 CGGAGGTCTTATAGAATTGACTGAGATAATACCGTAAGTCAGAAAGA-AAA-AATCGATTGGGAC
1 CGGAGGTCTTACAGAATCGACTGAGATAACACCAAAAGTCA-AAAGATAAAGAATCGATCAGAAC
* * * *
2813341 AATACCGCAAATCAAAATTATGCCCTG-AGGTATTAGAGATTATGCC
65 AACACCACAAATCAAAATTATGCCC-GAAGGTATTAGAAATAATGCC
2813387 CGGAGGTCTTACA-AATC
1 CGGAGGTCTTACAGAATC
2813404 TCAAAATCTT
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
108 3 0.03
109 56 0.54
110 40 0.38
111 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (110 bp):
CGGAGGTCTTACAGAATCGACTGAGATAACACCAAAAGTCAAAAGATAAAGAATCGATCAGAACA
ACACCACAAATCAAAATTATGCCCGAAGGTATTAGAAATAATGCC
Found at i:2813711 original size:40 final size:40
Alignment explanation
Indices: 2813654--2813752 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
2813644 AGGAAGGTTC
* **
2813654 CCTC-TAAACAGAGGCTTTGAAATCTTGATTAAAATTGATT
1 CCTCTTAAACAGA-GCTTTCAAATCTTGATTAAAAACGATT
2813694 CCTCTTAAACAGAGCTTTCAAATCTTGATTAAAAACGATT
1 CCTCTTAAACAGAGCTTTCAAATCTTGATTAAAAACGATT
* *
2813734 CTTTTTAAACAGAGACTTT
1 CCTCTTAAACAGAG-CTTT
2813753 AAAACTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 40 0.77
41 12 0.23
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (40 bp):
CCTCTTAAACAGAGCTTTCAAATCTTGATTAAAAACGATT
Found at i:2814003 original size:24 final size:25
Alignment explanation
Indices: 2813976--2814022 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2813966 ATACAAATGC
2813976 TATGATGCAAATGCAAAT-TCTTCT
1 TATGATGCAAATGCAAATGTCTTCT
* **
2814000 TATGGTGTGAATGCAAATGTCTT
1 TATGATGCAAATGCAAATGTCTT
2814023 ATACAAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (25 bp):
TATGATGCAAATGCAAATGTCTTCT
Found at i:2815439 original size:11 final size:11
Alignment explanation
Indices: 2815422--2815464 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2815412 TGTCCTTTTG
*
2815422 TTTTTTTTTCTC
1 TTTTTTTTT-AC
2815434 TTTTTTTTTAC
1 TTTTTTTTTAC
2815445 TTTTTTTTTA-
1 TTTTTTTTTAC
2815455 TTTTATTTTT
1 TTTT-TTTTT
2815465 GATGCCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 4 0.14
11 16 0.55
12 9 0.31
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:2820598 original size:30 final size:30
Alignment explanation
Indices: 2820564--2820759 Score: 103
Period size: 30 Copynumber: 6.2 Consensus size: 30
2820554 ATATGGAAGG
*
2820564 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGGTTTGGATTTTAGAGTTTGGAGAT
* * * *
2820594 TTTAGGATTTGGGTTTTGGGGTTTGGAGTTTTGAT
1 TTTAGGGTTTGGATTTTAGAGTTTGGA-----GAT
* * *
2820629 TTAAGGGTTTGGATTTTAGGGATTTTGA-AT
1 TTTAGGGTTTGGATTTTAGAG-TTTGGAGAT
* * * *
2820659 TTTGGGGTTTAGATTTTAGGCGTTTAGA-AT
1 TTTAGGGTTTGGATTTTA-GAGTTTGGAGAT
* * *
2820689 TTTAGGGGTTCGGATTTAAGAGATTT-TAGATT
1 TTTA-GGGTTTGGATTTTAGAG-TTTGGAGA-T
*
2820721 TTTAGGGGTTTGGATTTTAGCAAGTTTTG-GAT
1 TTTA-GGGTTTGGATTTTAG--AGTTTGGAGAT
2820753 TTTAGGG
1 TTTAGGG
2820760 GTTTTAGAAA
Statistics
Matches: 128, Mismatches: 24, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
30 52 0.41
31 20 0.16
32 24 0.19
33 5 0.04
34 2 0.02
35 20 0.16
36 5 0.04
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (30 bp):
TTTAGGGTTTGGATTTTAGAGTTTGGAGAT
Found at i:2820625 original size:51 final size:51
Alignment explanation
Indices: 2820562--2820670 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 51
2820552 GGATATGGAA
* **
2820562 GGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTA-GGA-TTTGGGTTTTGG
1 GGTTTAGGGTTTTGATTTAAGAGTTT-G-GATTTTAGGGATTTTGAATTTTGG
*
2820613 GGTTT-GGAGTTTTGATTTAAGGGTTTGGATTTTAGGGATTTTGAATTTTGG
1 GGTTTAGG-GTTTTGATTTAAGAGTTTGGATTTTAGGGATTTTGAATTTTGG
2820664 GGTTTAG
1 GGTTTAG
2820671 ATTTTAGGCG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
49 7 0.14
50 6 0.12
51 36 0.72
52 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.49
Consensus pattern (51 bp):
GGTTTAGGGTTTTGATTTAAGAGTTTGGATTTTAGGGATTTTGAATTTTGG
Found at i:2820660 original size:16 final size:15
Alignment explanation
Indices: 2820627--2820695 Score: 70
Period size: 16 Copynumber: 4.6 Consensus size: 15
2820617 TGGAGTTTTG
* *
2820627 ATTTAAGGGTTT-GG
1 ATTTTAGGGTTTAGA
*
2820641 ATTTTAGGGATTTTGA
1 ATTTTAGGG-TTTAGA
*
2820657 ATTTTGGGGTTTAG-
1 ATTTTAGGGTTTAGA
2820671 ATTTTAGGCGTTTAGA
1 ATTTTAGG-GTTTAGA
2820687 ATTTTAGGG
1 ATTTTAGGG
2820696 GTTCGGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 15 0.33
15 14 0.30
16 17 0.37
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (15 bp):
ATTTTAGGGTTTAGA
Found at i:2820736 original size:16 final size:15
Alignment explanation
Indices: 2820628--2820763 Score: 85
Period size: 15 Copynumber: 8.7 Consensus size: 15
2820618 GGAGTTTTGA
* *
2820628 TTTAAGGGTTTGGAT
1 TTTAGGGGTTTAGAT
* *
2820643 TTTAGGGATTTTGAAT
1 TTTAGGGGTTTAG-AT
2820659 TTT-GGGGTTTAGAT
1 TTTAGGGGTTTAGAT
*
2820673 TTTAGGCGTTTAGAAT
1 TTTAGGGGTTTAG-AT
**
2820689 TTTAGGGGTTCGGAT
1 TTTAGGGGTTTAGAT
* **
2820704 TTAAGAGATTTTAGATT
1 TTTAG-GGGTTTAGA-T
*
2820721 TTTAGGGGTTTGGAT
1 TTTAGGGGTTTAGAT
* * *
2820736 TTTAGCAAGTTTTGGAT
1 TTTAG--GGGTTTAGAT
2820753 TTTAGGGGTTT
1 TTTAGGGGTTT
2820764 TAGAAACCTA
Statistics
Matches: 92, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
14 5 0.05
15 41 0.45
16 28 0.30
17 18 0.20
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (15 bp):
TTTAGGGGTTTAGAT
Found at i:2820763 original size:32 final size:31
Alignment explanation
Indices: 2820620--2820763 Score: 120
Period size: 32 Copynumber: 4.7 Consensus size: 31
2820610 TGGGGTTTGG
*
2820620 AGTTTT-GA-TTTAAGGGTTTGGATTTTAG-
1 AGTTTTGGATTTTAGGGGTTTGGATTTTAGC
* * *
2820648 GGATTTTGAATTTT-GGGGTTTAGATTTTAGGC
1 AG-TTTTGGATTTTAGGGGTTTGGATTTTA-GC
* * * *
2820680 -GTTTAGAATTTTAGGGGTTCGGATTTAAG-
1 AGTTTTGGATTTTAGGGGTTTGGATTTTAGC
*
2820709 AGATTTTAGATTTTTAGGGGTTTGGATTTTAGC
1 AG-TTTTGGA-TTTTAGGGGTTTGGATTTTAGC
2820742 AAGTTTTGGATTTTAGGGGTTT
1 -AGTTTTGGATTTTAGGGGTTT
2820764 TAGAAACCTA
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
28 1 0.01
29 4 0.04
30 26 0.29
31 21 0.23
32 31 0.34
33 6 0.07
34 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (31 bp):
AGTTTTGGATTTTAGGGGTTTGGATTTTAGC
Found at i:2820764 original size:16 final size:16
Alignment explanation
Indices: 2820636--2820764 Score: 95
Period size: 16 Copynumber: 8.2 Consensus size: 16
2820626 GATTTAAGGG
*
2820636 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGGT
*
2820652 TTTGAATTTT-GGGG-
1 TTTGGATTTTAGGGGT
* *
2820666 TTTAGATTTTAGGCGT
1 TTTGGATTTTAGGGGT
* *
2820682 TTAGAATTTTAGGGG-
1 TTTGGATTTTAGGGGT
* * * *
2820697 TTCGGATTTAAGAGAT
1 TTTGGATTTTAGGGGT
*
2820713 TTTAGATTTTTAGGGG-
1 TTTGGA-TTTTAGGGGT
**
2820729 TTTGGATTTTAGCAAGT
1 TTTGGATTTTAG-GGGT
2820746 TTTGGATTTTAGGGGT
1 TTTGGATTTTAGGGGT
2820762 TTT
1 TTT
2820765 AGAAACCTAG
Statistics
Matches: 83, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
14 8 0.10
15 22 0.27
16 35 0.42
17 18 0.22
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGGT
Found at i:2821978 original size:16 final size:16
Alignment explanation
Indices: 2821957--2822000 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2821947 TTACGATATG
*
2821957 ATAATATAATATAAAT
1 ATAATATAAAATAAAT
* *
2821973 ATAATACAAAATATAT
1 ATAATATAAAATAAAT
*
2821989 ATATTATAAAAT
1 ATAATATAAAAT
2822001 TTAAGATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATATAAAATAAAT
Found at i:2822968 original size:14 final size:14
Alignment explanation
Indices: 2822949--2822979 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2822939 ATATTTAGAA
2822949 TGGGAGAACATAAT
1 TGGGAGAACATAAT
2822963 TGGGAGAACATAAT
1 TGGGAGAACATAAT
2822977 TGG
1 TGG
2822980 TCATATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (14 bp):
TGGGAGAACATAAT
Found at i:2824462 original size:33 final size:33
Alignment explanation
Indices: 2824422--2824487 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2824412 CCCACCTCAC
*
2824422 CCCCAACCCACGATAAAAGCTCACTTAAACCCA
1 CCCCAACCCACGATAAAAGCCCACTTAAACCCA
* *
2824455 CCCCAACCCATGATATAAGCCCACTTAAACCCA
1 CCCCAACCCACGATAAAAGCCCACTTAAACCCA
2824488 TTACTTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.42, G:0.06, T:0.14
Consensus pattern (33 bp):
CCCCAACCCACGATAAAAGCCCACTTAAACCCA
Found at i:2824663 original size:21 final size:23
Alignment explanation
Indices: 2824639--2824685 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2824629 TAAAATATAA
2824639 TTTTAAA-A-TATAAAAAAAAAG
1 TTTTAAATATTATAAAAAAAAAG
* *
2824660 TTTTAAATATTCTAAAAAAATAG
1 TTTTAAATATTATAAAAAAAAAG
2824683 TTT
1 TTT
2824686 ATAATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTTAAATATTATAAAAAAAAAG
Found at i:2824929 original size:3 final size:3
Alignment explanation
Indices: 2824915--2824950 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2824905 TTAAGTATAT
*
2824915 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2824951 ATATTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2826196 original size:22 final size:23
Alignment explanation
Indices: 2826168--2826211 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2826158 ATTTATGCAT
*
2826168 GATAAATGTTTAAAT-TTATTAG
1 GATAAATATTTAAATGTTATTAG
*
2826190 GATAAATATTTAATTGTTATTA
1 GATAAATATTTAAATGTTATTA
2826212 ATAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (23 bp):
GATAAATATTTAAATGTTATTAG
Found at i:2826613 original size:17 final size:16
Alignment explanation
Indices: 2826560--2826613 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
2826550 CTTAAGTTTT
2826560 AAAACCCTTAAAAATCC
1 AAAACCCTT-AAAATCC
* *
2826577 AAAATCCCTTAAGATTC
1 AAAA-CCCTTAAAATCC
2826594 AAAACCTCTTAAAATCC
1 AAAACC-CTTAAAATCC
2826611 AAA
1 AAA
2826614 GTCCTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.06
17 24 0.77
18 5 0.16
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAACCCTTAAAATCC
Found at i:2837699 original size:8 final size:8
Alignment explanation
Indices: 2837678--2837757 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
2837668 ATTTTGCTTA
2837678 AAAAAAAT
1 AAAAAAAT
2837686 AGAAAAAAAT
1 --AAAAAAAT
2837696 AAAAAGAA-
1 AAAAA-AAT
* *
2837704 AAAAAGTAC
1 AAAAA-AAT
2837713 AAAAAAAT
1 AAAAAAAT
2837721 GAAAAAAAT
1 -AAAAAAAT
2837730 --AAAAAT
1 AAAAAAAT
2837736 AAAAAAAT
1 AAAAAAAT
2837744 -AAAAAAT
1 AAAAAAAT
2837751 AAAAAAA
1 AAAAAAA
2837758 ATGAAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 25 0.41
9 15 0.25
10 8 0.13
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:2837703 original size:14 final size:14
Alignment explanation
Indices: 2837677--2837748 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 14
2837667 TATTTTGCTT
*
2837677 AAAAA-AAATAGAA
1 AAAAATAAAAAGAA
2837690 AAAAATAAAAAGAA
1 AAAAATAAAAAGAA
2837704 AAAAAGTACAAAAAAATGAA
1 AAAAA-T----AAAAA-GAA
*
2837724 AAAAATAAAAATAA
1 AAAAATAAAAAGAA
2837738 AAAAATAAAAA
1 AAAAATAAAAA
2837749 ATAAAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
13 5 0.10
14 25 0.50
15 6 0.12
19 6 0.12
20 8 0.16
ACGTcount: A:0.83, C:0.01, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAAATAAAAAGAA
Found at i:2837748 original size:40 final size:39
Alignment explanation
Indices: 2837690--2837765 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
2837680 AAAAATAGAA
*
2837690 AAAAATAAAAAGAAAAAAAGTACAAAAAAATGAAAAAAAT
1 AAAAATAAAAAGAAAAAAAATA-AAAAAAATGAAAAAAAT
2837730 AAAAATAAAAA-AATAAAAAATAAAAAAAATGAAAAA
1 AAAAATAAAAAGAA-AAAAAATAAAAAAAATGAAAAA
2837766 GGAAATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 16 0.47
40 18 0.53
ACGTcount: A:0.83, C:0.01, G:0.05, T:0.11
Consensus pattern (39 bp):
AAAAATAAAAAGAAAAAAAATAAAAAAAATGAAAAAAAT
Found at i:2837758 original size:9 final size:9
Alignment explanation
Indices: 2837676--2837765 Score: 69
Period size: 10 Copynumber: 9.7 Consensus size: 9
2837666 ATATTTTGCT
2837676 TAAAAAAAA
1 TAAAAAAAA
2837685 TAGAAAAAAA
1 TA-AAAAAAA
2837695 T---AAAAA
1 TAAAAAAAA
* *
2837701 GAAAAAAAG
1 TAAAAAAAA
2837710 TACAAAAAAA
1 TA-AAAAAAA
*
2837720 TGAAAAAAA
1 TAAAAAAAA
2837729 TAAAAATAAAA
1 T-AAAA-AAAA
*
2837740 AAATAAAAAA
1 TAA-AAAAAA
2837750 TAAAAAAAA
1 TAAAAAAAA
2837759 TGAAAAA
1 T-AAAAA
2837766 GGAAATGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
6 5 0.08
9 22 0.34
10 31 0.48
11 6 0.09
ACGTcount: A:0.82, C:0.01, G:0.06, T:0.11
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:2837765 original size:8 final size:7
Alignment explanation
Indices: 2837689--2837756 Score: 54
Period size: 7 Copynumber: 9.9 Consensus size: 7
2837679 AAAAAATAGA
2837689 AAAAAAT
1 AAAAAAT
2837696 AAAAAGA-
1 AAAAA-AT
2837703 AAAAAAGT
1 AAAAAA-T
*
2837711 ACAAAA-
1 AAAAAAT
**
2837717 AAATGA-
1 AAAAAAT
2837723 AAAAAAT
1 AAAAAAT
2837730 -AAAAAT
1 AAAAAAT
2837736 AAAAAAAT
1 -AAAAAAT
2837744 AAAAAAT
1 AAAAAAT
2837751 AAAAAA
1 AAAAAA
2837757 AATGAAAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 14 0.29
7 23 0.47
8 12 0.24
ACGTcount: A:0.84, C:0.01, G:0.04, T:0.10
Consensus pattern (7 bp):
AAAAAAT
Found at i:2838884 original size:34 final size:34
Alignment explanation
Indices: 2838846--2838937 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 34
2838836 TTTGACTCGT
* *
2838846 GGTTTAATCCCGGTCATTTCATTCTCTGACTTAC
1 GGTTTAATCCCAGTCATTTCATTCTCTGACTCAC
* * * * **
2838880 GGTTTAGTCCCAGTCATCTTTATTCTTTGGCTCGT
1 GGTTTAATCCCAGTCAT-TTCATTCTCTGACTCAC
*
2838915 GGTTTAATCTCAGTCATTTCATT
1 GGTTTAATCCCAGTCATTTCATT
2838938 AATTTCCTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 20 0.43
35 26 0.57
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (34 bp):
GGTTTAATCCCAGTCATTTCATTCTCTGACTCAC
Found at i:2838957 original size:38 final size:36
Alignment explanation
Indices: 2838909--2839016 Score: 103
Period size: 38 Copynumber: 3.0 Consensus size: 36
2838899 TTATTCTTTG
2838909 GCTCGTGGTTTAATCTCAGTCATTTCATTAATTTCCTA
1 GCTCGTGGTTTAATCTCAGTCATTTCATTAATTT--TA
* * * * * *
2838947 TCTTGTGGTTTAGTCTTAGTCA--TCTTTAATCTTTG
1 GCTCGTGGTTTAATCTCAGTCATTTCATTAAT-TTTA
* *
2838982 GCTCGTGGTTTAATCCCGGTCATTTCATTAATTTT
1 GCTCGTGGTTTAATCTCAGTCATTTCATTAATTTT
2839017 TTGACTTGCG
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
35 17 0.31
36 10 0.19
37 9 0.17
38 18 0.33
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (36 bp):
GCTCGTGGTTTAATCTCAGTCATTTCATTAATTTTA
Found at i:2838980 original size:73 final size:73
Alignment explanation
Indices: 2838795--2839710 Score: 880
Period size: 73 Copynumber: 12.7 Consensus size: 73
2838785 CAGTCTTGTA
* * * * * * * *
2838795 TAATTGCCCGACTTGTGGTTCAATCTCAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
2838860 CATTTCA-
66 CATTTCAT
* * * * * *
2838867 T--TCT-CTGACTTACGGTTTAGTCCCAGTCATCTTTATTCTTTGGCTCGTGGTTTAAT-CTCAG
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGA-
2838928 TCATTTCAT
65 TCATTTCAT
* * ** * * *
2838937 TAATTTCCT-ATCTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGG
1 TAATTTCCTGA-CTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGA
2839001 TCATTTCAT
65 TCATTTCAT
** * * *** *
2839010 TAATTTTTTGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGGCTTACGATTTAAT-CTCGA
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCT-GA
2839074 TCATTTCAT
65 TCATTTCAT
** * * * * * *
2839083 TAATTTTTTGACTTACGGTTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCCGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
2839148 CATTTCAT
66 CATTTCAT
* * * ** * *
2839156 T--CTT--TGACTTGCAGTTCAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGGT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
*
2839217 TATTTCAT
66 CATTTCAT
** * * * *
2839225 TAATTTTTTGACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
2839290 CATTTCAT
66 CATTTCAT
* * ** ** * *
2839298 TAA-TTCTCTGACTTACGATTCAGTTTCAGTTGTCTTTCATCTTTGACTCATGGTTTAATCCTGA
1 TAATTTC-CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGA
2839362 TCATTTCA-
65 TCATTTCAT
* **
2839370 T--TCT-CTGACTTGCGGTTCAGTCCCAGTCAT-TTTAATCTTTGACTTATGGTTTAATCCTGAT
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
2839431 CATTTCAT
66 CATTTCAT
** * * *
2839439 TAATTTTTTGACTTGTGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAAT-CTCGA
1 TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCT-GA
2839503 TCATTTCAT
65 TCATTTCAT
* * * * *
2839512 TAA-TTCTCTCGACTTGCGATTCAGTCCTAATCATCTTTAATCTTTGACTCGCGATTTAATCCTG
1 TAATTTC-CT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTG
2839576 ATCATTTCAT
64 ATCATTTCAT
* * * ** **
2839586 TAATTCCCTCGACTTGCGGTTCAGTCCCAGTCATCTTTAATTTTTAACTCACGGTTTAATCCCAA
1 TAATTTCCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGA
2839651 TCATTTCAT
65 TCATTTCAT
* * *
2839660 TAATTCCCTCGACTTGCAGTTCAGTCTCAGTCATCTTTAATCTTTGACTCG
1 TAATTTCCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG
2839711 CGGTGTCGTC
Statistics
Matches: 699, Mismatches: 119, Indels: 50
0.81 0.14 0.06
Matches are distributed among these distances:
68 37 0.05
69 129 0.18
70 2 0.00
71 7 0.01
72 35 0.05
73 322 0.46
74 163 0.23
75 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TAATTTCCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGAT
CATTTCAT
Found at i:2839042 original size:38 final size:38
Alignment explanation
Indices: 2838995--2839113 Score: 111
Period size: 38 Copynumber: 3.2 Consensus size: 38
2838985 CGTGGTTTAA
* *
2838995 TCCCGGTCATTTCATTAATTTTTTGACTTGCGATTCAG
1 TCCCAGTCATTTCATTAATTTTTTGACTTACGATTCAG
* * * * *
2839033 TCCCAGTCA--TCTTTAA-TCTTTGGCTTACGATTTAA
1 TCCCAGTCATTTCATTAATTTTTTGACTTACGATTCAG
* *
2839068 TCTC-GATCATTTCATTAATTTTTTGACTTACGGTTCAG
1 TCCCAG-TCATTTCATTAATTTTTTGACTTACGATTCAG
*
2839106 TTCCAGTC
1 TCCCAGTC
2839114 GTCTTTAATC
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
34 1 0.02
35 20 0.33
36 6 0.10
37 6 0.10
38 26 0.43
39 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (38 bp):
TCCCAGTCATTTCATTAATTTTTTGACTTACGATTCAG
Found at i:2839208 original size:215 final size:215
Alignment explanation
Indices: 2838821--2839710 Score: 988
Period size: 215 Copynumber: 4.1 Consensus size: 215
2838811 GGTTCAATCT
* * * * * * *
2838821 CAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTC----ATTCTCTGACTTACGG
1 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTACGA
* * * * * * * * * *
2838882 TTTAGTCCCAGTCATCTTTATTCTTTGGCTCGTGGTTTAAT-CTCAGTCATTTCATTAATTTCCT
66 TTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCTGA-TCATTTCATT-CTTT--G
* * ** ** * *
2838946 ATCTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCATT
127 A-CTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTAACTCATGGTTTAATCCCGATCATTTCATT
2839011 AATTTTTTGACTTGCGATTCAGTCC
191 AATTTTTTGACTTGCGATTCAGTCC
*** * *
2839036 CAGTCATCTTTAATCTTTGGCTTACGATTTAATCTCGATCATTTCATTAATTTTTTGACTTACGG
1 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTACGA
*
2839101 TTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCCGATCATTTCATTCTTTGACTT
66 TTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCATTCTTTGACTT
* * * *
2839166 GCAGTTCAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGGTTATTTCATTAATTT
131 GCGGTTCAGTCCCAGTCATCTTTAATCTTTAACTCATGGTTTAATCCCGATCATTTCATTAATTT
* *
2839231 TTTGACTTGTGATTTAGTCC
196 TTTGACTTGCGATTCAGTCC
* *
2839251 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATC-CTGATCATTTCATTAATTCTCTGACTTACG
1 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTC-GATCATTTCATTAATTTTTTGACTTACG
* * * * *
2839315 ATTCAGTTTCAGTTGTCTTTCATCTTTGACTCATGGTTTAATCCTGATCATTTCATTCTCTGACT
65 ATTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCATTCTTTGACT
* * *
2839380 TGCGGTTCAGTCCCAGTCAT-TTTAATCTTTGACTTATGGTTTAATCCTGATCATTTCATTAATT
130 TGCGGTTCAGTCCCAGTCATCTTTAATCTTTAACTCATGGTTTAATCCCGATCATTTCATTAATT
* * *
2839444 TTTTGACTTGTGGTTTAGTCC
195 TTTTGACTTGCGATTCAGTCC
* * *
2839465 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCG
1 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATT-TTTTGACTTACG
* * ** *
2839530 ATTCAG-TCCTAATCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCATTAATTCCC
65 ATTCAGTTCC-AGTCGTCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCATT-CTT---
* * *
2839594 TCGACTTGCGGTTCAGTCCCAGTCATCTTTAATTTTTAACTCACGGTTTAATCCCAATCATTTCA
125 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTAACTCATGGTTTAATCCCGATCATTTCA
** * *
2839659 TTAATTCCCTCGACTTGC-AGTTCAGTCT
189 TTAATT-TTTTGACTTGCGA-TTCAGTCC
*
2839687 CAGTCATCTTTAATCTTTGACTCG
1 CAGTCATCTTTAATCTTTGGCTCG
2839711 CGGTGTCGTC
Statistics
Matches: 577, Mismatches: 81, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
214 113 0.20
215 300 0.52
216 2 0.00
218 3 0.01
219 59 0.10
220 26 0.05
221 38 0.07
222 36 0.06
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (215 bp):
CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTACGA
TTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCATTCTTTGACTT
GCGGTTCAGTCCCAGTCATCTTTAATCTTTAACTCATGGTTTAATCCCGATCATTTCATTAATTT
TTTGACTTGCGATTCAGTCC
Done.