Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 28 of 170
Found at i:7557270 original size:41 final size:41
Alignment explanation
Indices: 7557213--7557294 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
7557203 AAACTGTTTT
7557213 AGTGCAAGATGTTGATTACTAAGTTTATAACTCTCTTATTC
1 AGTGCAAGATGTTGATTACTAAGTTTATAACTCTCTTATTC
7557254 AGTGCAAGATGTTGATTACTAAGTTTATAACTCTCTTATTC
1 AGTGCAAGATGTTGATTACTAAGTTTATAACTCTCTTATTC
7557295 CCTTTCTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (41 bp):
AGTGCAAGATGTTGATTACTAAGTTTATAACTCTCTTATTC
Found at i:7560361 original size:16 final size:17
Alignment explanation
Indices: 7560335--7560366 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7560325 TAAATGTTAC
7560335 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAT
7560352 GTGA-TATATGCTTAA
1 GTGATTATATGCTTAA
7560367 AAGTGAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
GTGATTATATGCTTAAT
Found at i:7560367 original size:39 final size:39
Alignment explanation
Indices: 7560110--7560364 Score: 357
Period size: 39 Copynumber: 6.5 Consensus size: 39
7560100 AACATGTATT
* * *
7560110 TGAGTATTATAATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
7560149 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
7560188 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
7560227 TGAGTATTGTAATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * **
7560266 TGAGTATTGTGATATATGCTTAAATATTATGTGAAAATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * * *
7560305 TGAGTGTTGTGGTATTTGCTTAAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** *
7560344 TGCTTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
7560365 AAAAGTGAAC
Statistics
Matches: 192, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 192 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:7560372 original size:17 final size:17
Alignment explanation
Indices: 7560335--7560372 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7560325 TAAATGTTAC
*
7560335 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAA
7560352 GTGA-TATATGCTTAAAA
1 GTGATTATATGCTT-AAA
7560369 GTGA
1 GTGA
7560373 ACGTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (17 bp):
GTGATTATATGCTTAAA
Found at i:7563618 original size:35 final size:35
Alignment explanation
Indices: 7563577--7563663 Score: 138
Period size: 36 Copynumber: 2.5 Consensus size: 35
7563567 GTTTTTATGG
7563577 ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
1 ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
*
7563612 ATTTTTTTTAAAAACTACAATTCCACAAGACACGAT
1 A-TTTTTTTAAAAACTACAATTCCACAAAACACGAT
* *
7563648 GTTTTTCTAAAAACTA
1 ATTTTTTTAAAAACTA
7563664 ATGTTTTTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
35 15 0.31
36 33 0.69
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (35 bp):
ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
Found at i:7565767 original size:78 final size:78
Alignment explanation
Indices: 7565638--7565794 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
7565628 GAGGTGATTG
* *
7565638 TACTGAGCCCGCTGGGGCATTCTTTTAGAGTTAGCAAACTGCAAAGGGATGTTCCTTTAGAGGTT
1 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGCAAAGGGATGTTCCTTTAGAGGTT
7565703 CAAGAGACGGTAT
66 CAAGAGACGGTAT
*
7565716 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
1 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGCAAAGGGATGTTCCTTTAGAGGTT
7565781 CAAGAGACGGTAT
66 CAAGAGACGGTAT
7565794 T
1 T
7565795 TCTGGTTGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (78 bp):
TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGCAAAGGGATGTTCCTTTAGAGGTT
CAAGAGACGGTAT
Found at i:7573385 original size:21 final size:21
Alignment explanation
Indices: 7573361--7573401 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7573351 TCTTAATTGT
*
7573361 TAAATTTTTTTGAGATTTTTC
1 TAAATTTTTTTGAAATTTTTC
7573382 TAAATTTTTTTGAAATTTTT
1 TAAATTTTTTTGAAATTTTT
7573402 TTTATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (21 bp):
TAAATTTTTTTGAAATTTTTC
Found at i:7573391 original size:12 final size:11
Alignment explanation
Indices: 7573362--7573403 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
7573352 CTTAATTGTT
7573362 AAATTTTTTTG
1 AAATTTTTTTG
* *
7573373 AGATTTTTCT-
1 AAATTTTTTTG
7573383 AAATTTTTTTG
1 AAATTTTTTTG
7573394 AAATTTTTTT
1 AAATTTTTTT
7573404 TATATTCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:7574281 original size:24 final size:22
Alignment explanation
Indices: 7574254--7574327 Score: 53
Period size: 24 Copynumber: 3.3 Consensus size: 22
7574244 TTAAAAATTA
7574254 AATTATAATTATTTTTAAATGTGT
1 AATTATAATTATTTTT-AATGT-T
* * ** *
7574278 AATTGTCACAATTTTT-AT-TA
1 AATTATAATTATTTTTAATGTT
7574298 AATTATAATTATTTTTAGATGTAT
1 AATTATAATTATTTTTA-ATGT-T
7574322 AATTAT
1 AATTAT
7574328 CAAAACTTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 4 0.11
23 1 0.03
24 18 0.50
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
AATTATAATTATTTTTAATGTT
Found at i:7576464 original size:41 final size:41
Alignment explanation
Indices: 7576384--7576535 Score: 160
Period size: 41 Copynumber: 3.7 Consensus size: 41
7576374 ATCGGAGTGT
* * * ***
7576384 AAACAGGGACACTTATGTGCAATTCAGGGGTATTAAAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
*
7576425 AAAGAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
* * * * * *
7576466 AAATAGTGGCACATATCTGTAATTTAGGGGTACCGGAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
* * *
7576507 AAACAAGGGCACGTATGTGCAATTCAGGG
1 AAACAGGGGCACATATATGCAATTCAGGG
7576536 AATAATTAAC
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
Found at i:7592120 original size:31 final size:30
Alignment explanation
Indices: 7592083--7592161 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
7592073 ACAGCCGAAG
*
7592083 CCATCCCTTTTCGTAATTTTGATGGTCGTCA
1 CCATCCCTTTTC-TAATTTTGATGGTCATCA
7592114 CCATCCCTTTTC--ATTGTTGATGGTCATCA
1 CCATCCCTTTTCTAATT-TTGATGGTCATCA
7592143 CCATCCCTTTTCATAATTT
1 CCATCCCTTTTC-TAATTT
7592162 GATAGCCGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.07
29 24 0.56
31 13 0.30
32 3 0.07
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (30 bp):
CCATCCCTTTTCTAATTTTGATGGTCATCA
Found at i:7592150 original size:119 final size:120
Alignment explanation
Indices: 7591954--7592217 Score: 370
Period size: 119 Copynumber: 2.2 Consensus size: 120
7591944 CCATAGTTCA
* *
7591954 ACAGTCGAAGCTATCCCTTTTCATAATTTTGATGGTCATCACTATCCCCTTTTATTGTTAATGGT
1 ACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCATCACCATCCCCTTTTATTGTTAATGGT
** ** * *
7592019 TGTCACCATCCCTTTTCATAATTTGATAATTGGAGCTAT-CCTTTTCATGATTCG
66 CATCACCATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTTCATGAATCG
* * * *
7592073 ACAGCCGAAGCCATCCCTTTTCGTAATTTTGATGGTCGTCACCAT-CCCTTTTCATTGTTGATGG
1 ACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCATCACCATCCCCTTTT-ATTGTTAATGG
*
7592137 TCATCACCATCCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATGAATCG
65 TCATCACCATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTTCATGAATCG
* *
7592193 ACAGTTGAAGCCACCCCTTTTCATA
1 ACAGTCGAAGCCATCCCTTTTCATA
7592218 GTTCGATCGC
Statistics
Matches: 126, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
118 7 0.06
119 84 0.67
120 35 0.28
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (120 bp):
ACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCATCACCATCCCCTTTTATTGTTAATGGT
CATCACCATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTTCATGAATCG
Found at i:7594089 original size:12 final size:12
Alignment explanation
Indices: 7594072--7594097 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7594062 AGCCAGACGC
7594072 CCGTGTGCTAGG
1 CCGTGTGCTAGG
7594084 CCGTGTGCTAGG
1 CCGTGTGCTAGG
7594096 CC
1 CC
7594098 ATGTAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:7595029 original size:41 final size:40
Alignment explanation
Indices: 7594968--7595089 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 40
7594958 GAGTGTAAAC
7594968 AAGGGCACTGATGTGAAATTCAGGGGTACTGAAGTACAAAA
1 AAGGGCACT-ATGTGAAATTCAGGGGTACTGAAGTACAAAA
* * *
7595009 AAGGGCACGTATGTGTAATTCAGGGGTA-TCGAAGTATAAAT
1 AAGGGCAC-TATGTGAAATTCAGGGGTACT-GAAGTACAAAA
* *
7595050 AAGGGCACATATGT-ACAATTTAGGGGTACCGAAGTACAAA
1 AAGGGCAC-TATGTGA-AATTCAGGGGTACTGAAGTACAAA
7595090 CAGGGACATA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 67 0.97
42 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (40 bp):
AAGGGCACTATGTGAAATTCAGGGGTACTGAAGTACAAAA
Found at i:7595103 original size:41 final size:40
Alignment explanation
Indices: 7594984--7595112 Score: 127
Period size: 41 Copynumber: 3.1 Consensus size: 40
7594974 ACTGATGTGA
* * *
7594984 AATTCAGGGGTACTGAAGTACAAAAAAGGGCACGTATGTGT-
1 AATTCAGGGGTACCGAAGTAC-AAAAAGGG-ACATATATGTC
* * *
7595025 AATTCAGGGGTATCGAAGTATAAATAAGGG-CACATATGTAC
1 AATTCAGGGGTACCGAAGTACAAA-AAGGGACATATATGT-C
* *
7595066 AATTTAGGGGTACCGAAGTACAAACAGGGACATATATGTGC
1 AATTCAGGGGTACCGAAGTACAAAAAGGGACATATATGT-C
7595107 AATTCA
1 AATTCA
7595113 AGGAATAATT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.08
40 7 0.10
41 58 0.82
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (40 bp):
AATTCAGGGGTACCGAAGTACAAAAAGGGACATATATGTC
Found at i:7606945 original size:24 final size:25
Alignment explanation
Indices: 7606917--7606963 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7606907 TTAATCTTCA
7606917 CATTTAACTCTATA-TTTTCATACT
1 CATTTAACTCTATATTTTTCATACT
* *
7606941 CATTTCACTTTATATTTTTCATA
1 CATTTAACTCTATATTTTTCATA
7606964 ATTTAGTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (25 bp):
CATTTAACTCTATATTTTTCATACT
Found at i:7614981 original size:147 final size:147
Alignment explanation
Indices: 7614778--7615071 Score: 545
Period size: 147 Copynumber: 2.0 Consensus size: 147
7614768 TTTTGATGAG
*
7614778 CAGGCAAGTTTCTCAGAAAAGAATTTAAACTTCTTATTCGATTTAATCATCTAAAATTGAAAGCA
1 CAGGCAAGTTCCTCAGAAAAGAATTTAAACTTCTTATTCGATTTAATCATCTAAAATTGAAAGCA
7614843 GTAATCAATATAAAAACGAAGAGGGGTATAGAAAATATTGCCTCTATGAA-TCAATTATGTTGTT
66 GTAATCAATATAAAAACGAAGAGGGGTATAGAAAATATTGCCTCTATGAACTCAATTATGTTGTT
7614907 ACCTATGGCATTCGGAT
131 ACCTATGGCATTCGGAT
7614924 CAGGCAAGTTCCTCAGAAAAAGAATTTAAACTTCTTATTCGATTTAATCATCTAAAATTGAAAGC
1 CAGGCAAGTTCCTCAG-AAAAGAATTTAAACTTCTTATTCGATTTAATCATCTAAAATTGAAAGC
* *
7614989 AGTAATCAATATAAAAATGAAGAGGGGTATAGAAAATATTGCCTCTTTGAACTCAATTATGTTGT
65 AGTAATCAATATAAAAACGAAGAGGGGTATAGAAAATATTGCCTCTATGAACTCAATTATGTTGT
7615054 TACCTATGGCATTCGGAT
130 TACCTATGGCATTCGGAT
7615072 GCTTTTCACC
Statistics
Matches: 143, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
146 15 0.10
147 97 0.68
148 31 0.22
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (147 bp):
CAGGCAAGTTCCTCAGAAAAGAATTTAAACTTCTTATTCGATTTAATCATCTAAAATTGAAAGCA
GTAATCAATATAAAAACGAAGAGGGGTATAGAAAATATTGCCTCTATGAACTCAATTATGTTGTT
ACCTATGGCATTCGGAT
Found at i:7624219 original size:16 final size:16
Alignment explanation
Indices: 7624198--7624252 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
7624188 TGAATTACTA
7624198 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
7624214 ATTACAGCTT-TATTCC
1 ATTACAG-TTCTATTCC
* *
7624230 ATT-CAATTTCTATTTC
1 ATTAC-AGTTCTATTCC
7624246 ATTACAG
1 ATTACAG
7624253 CCTTATTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.09
16 26 0.81
17 3 0.09
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:7624249 original size:32 final size:32
Alignment explanation
Indices: 7624205--7624266 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
7624195 CTAATTACAG
*
7624205 TTCTATTCCATTACAGCTTTATTCCATTCAAT
1 TTCTATTCCATTACAGCCTTATTCCATTCAAT
*
7624237 TTCTATTTCATTACAGCCTTATTCCATTCA
1 TTCTATTCCATTACAGCCTTATTCCATTCA
7624267 CCCCAACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (32 bp):
TTCTATTCCATTACAGCCTTATTCCATTCAAT
Found at i:7630389 original size:4 final size:4
Alignment explanation
Indices: 7630380--7630572 Score: 386
Period size: 4 Copynumber: 48.2 Consensus size: 4
7630370 ATGAAAGTTC
7630380 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7630428 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7630476 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7630524 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7630572 A
1 A
7630573 AATGTTGGGA
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 189 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:7632303 original size:60 final size:60
Alignment explanation
Indices: 7632210--7632331 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
7632200 TCGTGTCCTC
7632210 TGACTGTGTGGAAATGCTAAGGCCATATGGAATGGGATACACAGCTTTGTAGGAAAGCCG
1 TGACTGTGTGGAAATGCTAAGGCCATATGGAATGGGATACACAGCTTTGTAGGAAAGCCG
7632270 TGACTGTGTGGAAATGCTAAGGCCATATGGAATGGGATACACAGCTTTGTAGGAAAGCCG
1 TGACTGTGTGGAAATGCTAAGGCCATATGGAATGGGATACACAGCTTTGTAGGAAAGCCG
7632330 TG
1 TG
7632332 CAACAAACTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.24
Consensus pattern (60 bp):
TGACTGTGTGGAAATGCTAAGGCCATATGGAATGGGATACACAGCTTTGTAGGAAAGCCG
Found at i:7635859 original size:14 final size:14
Alignment explanation
Indices: 7635840--7635873 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7635830 CGGATCACAT
7635840 TTATCACTTGTCAC
1 TTATCACTTGTCAC
7635854 TTATCACTTGTCAC
1 TTATCACTTGTCAC
*
7635868 TGATCA
1 TTATCA
7635874 GATAAGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (14 bp):
TTATCACTTGTCAC
Found at i:7635920 original size:51 final size:51
Alignment explanation
Indices: 7635844--7636013 Score: 297
Period size: 51 Copynumber: 3.4 Consensus size: 51
7635834 TCACATTTAT
* *
7635844 CACTTGTCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
7635895 CACTTATCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
7635946 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
7635996 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
7636014 GATCAGAAGT
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 25 0.22
51 89 0.78
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:7641374 original size:43 final size:44
Alignment explanation
Indices: 7641276--7641387 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
7641266 TCACATTTAT
*
7641276 CACTTGTCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAC
*
7641320 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAC
*
7641363 CACTTATCACTTGTCACTAATCAGA
1 CACTTATCACTTGTCACTGATCAGA
7641388 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
43 31 0.48
44 34 0.52
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAC
Found at i:7648429 original size:18 final size:17
Alignment explanation
Indices: 7648385--7648437 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
7648375 GCAATAAGAA
7648385 AATATTTTGAAATTGAAT
1 AATATTTTGAAA-TGAAT
*
7648403 AACGA-TTTGTAAATGAAT
1 AA-TATTTTG-AAATGAAT
7648421 AATATTTTGGAAATGAA
1 AATATTTT-GAAATGAA
7648438 CGACACGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.03
18 23 0.79
19 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (17 bp):
AATATTTTGAAATGAAT
Found at i:7653650 original size:24 final size:24
Alignment explanation
Indices: 7653619--7653672 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
7653609 GACTTTGAAA
*
7653619 AATTATTAAACATTGTATACAAAT
1 AATTATTAAAAATTGTATACAAAT
7653643 AATTATTAAAAATTGTATACAAAT
1 AATTATTAAAAATTGTATACAAAT
7653667 AATTAT
1 AATTAT
7653673 GGGTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (24 bp):
AATTATTAAAAATTGTATACAAAT
Found at i:7655660 original size:2 final size:2
Alignment explanation
Indices: 7655655--7655684 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7655645 TTATATAAAA
7655655 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7655685 AAGATTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7656692 original size:12 final size:12
Alignment explanation
Indices: 7656675--7656709 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7656665 CTGTATCTGA
7656675 TTTGTATTTGTT
1 TTTGTATTTGTT
7656687 TTTGTATTTGTT
1 TTTGTATTTGTT
**
7656699 AATGTATTTGT
1 TTTGTATTTGT
7656710 ACCTGCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (12 bp):
TTTGTATTTGTT
Found at i:7657031 original size:66 final size:66
Alignment explanation
Indices: 7656954--7657092 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
7656944 TTTTTTAAAT
* * *
7656954 TGCAAACCTATCTGGTTTTACAAACTAAATCACGATTTTCAAATTTAAGAACTCA-AAACTTTTC
1 TGCAAAACTATCTGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAA-TTTTC
7657018 GC
65 GC
7657020 TGCAAAACTATCTGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
1 TGCAAAACTATCTGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
*
7657085 T
66 C
7657086 TGCAAAA
1 TGCAAAA
7657093 TATAGTATTC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 65 0.96
67 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (66 bp):
TGCAAAACTATCTGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
C
Found at i:7665666 original size:15 final size:15
Alignment explanation
Indices: 7665646--7665702 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
7665636 TATATTAGAT
7665646 AATTAAATAATTAAG
1 AATTAAATAATTAAG
* * *
7665661 AATTAATTAAATAAA
1 AATTAAATAATTAAG
7665676 ATATTAAAATAATT-AG
1 A-ATT-AAATAATTAAG
7665692 AATT-AATAATT
1 AATTAAATAATT
7665703 TTAGGTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.21
15 16 0.47
16 5 0.15
17 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AATTAAATAATTAAG
Found at i:7667931 original size:17 final size:18
Alignment explanation
Indices: 7667899--7667933 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7667889 CCAAGAAGTT
*
7667899 CACTCGTGTAGGCCCACA
1 CACTCGAGTAGGCCCACA
7667917 CACTCGAGT-GGCCCACA
1 CACTCGAGTAGGCCCACA
7667934 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (18 bp):
CACTCGAGTAGGCCCACA
Found at i:7670253 original size:36 final size:36
Alignment explanation
Indices: 7670206--7670287 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
7670196 TTGTGAACCA
* * * *
7670206 TGTTAACTTGGTGAAT-TATATTATTATGGCAAACTG
1 TGTTAATTTGGTG-ATCTATATTAATACGGAAAACTG
7670242 TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
1 TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
*
7670278 TATTAATTTG
1 TGTTAATTTG
7670288 TCAAACTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
Found at i:7672076 original size:16 final size:16
Alignment explanation
Indices: 7672055--7672086 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7672045 TATATATTTC
7672055 ATGATTAATTGTATGG
1 ATGATTAATTGTATGG
7672071 ATGATTAATTGTATGG
1 ATGATTAATTGTATGG
7672087 TGTGAGTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
ATGATTAATTGTATGG
Found at i:7673172 original size:33 final size:31
Alignment explanation
Indices: 7673108--7673173 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
7673098 AACTGGAAAG
7673108 AAACTAAAAATAAAACTAAAATATTATTCTA
1 AAACTAAAAATAAAACTAAAATATTATTCTA
* *
7673139 AAACTAAGAATAGAAACCTAACAT-TTGATTCTA
1 AAACTAAAAATA-AAA-CTAAAATATT-ATTCTA
7673172 AA
1 AA
7673174 TTGAACCCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.37
32 5 0.17
33 14 0.47
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (31 bp):
AAACTAAAAATAAAACTAAAATATTATTCTA
Found at i:7679298 original size:51 final size:51
Alignment explanation
Indices: 7679217--7679431 Score: 295
Period size: 51 Copynumber: 4.2 Consensus size: 51
7679207 GTGGGCAGTC
*
7679217 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCGTACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * *
7679268 GATTATGTAAAGTTATATATATGAATTGTGAATGCAAGATATGTGCATACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * * **
7679319 GATTTTGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGTGTACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * *
7679370 AATTATGTAAAGTTCTATCTGTGAATTGTGAATGCAAGGTATGTGCATACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
7679421 AATTATGTAAA
1 AATTATGTAAA
7679432 AATTTTATGT
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 143 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (51 bp):
AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
Found at i:7679348 original size:102 final size:102
Alignment explanation
Indices: 7679217--7679445 Score: 341
Period size: 102 Copynumber: 2.2 Consensus size: 102
7679207 GTGGGCAGTC
* * *
7679217 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCGTACTGATTATGTAAAGTT
1 AATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTT
7679282 ATATATATGAATTGTGAATGCAAGATATGTGCATACT
66 ATATATATGAATTGTGAATGCAAGATATGTGCATACT
* * *
7679319 GATTTTGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGTGTACTAATTATGTAAAGTT
1 AATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTT
* * * *
7679384 CTATCTGTGAATTGTGAATGCAAGGTATGTGCATACT
66 ATATATATGAATTGTGAATGCAAGATATGTGCATACT
* *
7679421 AATTATGTAAAAATTTTATGTGTGA
1 AATTATGT-AAAGTTCTATGTGTGA
7679446 TCTGGCATTG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 98 0.88
103 14 0.12
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (102 bp):
AATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTT
ATATATATGAATTGTGAATGCAAGATATGTGCATACT
Found at i:7679767 original size:32 final size:32
Alignment explanation
Indices: 7679720--7679845 Score: 146
Period size: 32 Copynumber: 3.8 Consensus size: 32
7679710 GTCGTATCGT
* * *
7679720 TGTGCAAGTTGTTCAATATGCGTGCCGTAAAA
1 TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
* *
7679752 TGTGTGAGTTGTTCAATATGCATGCCATAGAA
1 TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
* *
7679784 TGTGCGAGTTATTCAA-ATTGTGTGCCATAGAA
1 TGTGCGAGTTGTTCAATA-TGCGTGCCATAGAA
7679816 TGTGCGAGTTTTGTTCAAATATGCGTGCCA
1 TGTGCGAG--TTGTTC-AATATGCGTGCCA
7679846 AATAGTGCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
31 1 0.01
32 61 0.78
34 5 0.06
35 10 0.13
36 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (32 bp):
TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
Found at i:7680136 original size:18 final size:18
Alignment explanation
Indices: 7680092--7680145 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7680082 ATTCACCTAA
*
7680092 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCAAACCCAATT
* * *
7680111 ATCTAACCCAACCCAATT
1 ACCCAACCAAACCCAATT
*
7680129 ACCCAACCTAACCCAAT
1 ACCCAACCAAACCCAAT
7680146 CATAAAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.15
Consensus pattern (18 bp):
ACCCAACCAAACCCAATT
Found at i:7680185 original size:24 final size:24
Alignment explanation
Indices: 7680147--7680197 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7680137 TAACCCAATC
* *
7680147 ATAAAAATTACAAATAATTTAATAA
1 ATAAAAATTAAAAATAATAT-ATAA
7680172 ATAAAAA-TAAAAATAATATATAA
1 ATAAAAATTAAAAATAATATATAA
7680195 ATA
1 ATA
7680198 GGCACATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 10 0.42
25 7 0.29
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAAAAATTAAAAATAATATATAA
Found at i:7680349 original size:37 final size:37
Alignment explanation
Indices: 7680308--7680382 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
7680298 TGTTAATTTC
*
7680308 AAGACTTATGTAATTTTTTTAATTATGTACTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
*
7680345 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
7680382 A
1 A
7680383 TTCGGTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
Found at i:7680372 original size:17 final size:17
Alignment explanation
Indices: 7680313--7680373 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7680303 ATTTCAAGAC
*
7680313 TTATGTAATTTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
7680330 TTATGTACTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
7680349 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
7680367 TTATGTA
1 TTATGTA
7680374 GTGATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 4 0.12
20 9 0.28
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:7680433 original size:17 final size:18
Alignment explanation
Indices: 7680390--7680437 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
7680380 CAATTCGGTT
* *
7680390 AATTCGGGTAATTCAGGT
1 AATTCGGTTAATTCAGGC
7680408 AATTCGGTTAATTC-GGC
1 AATTCGGTTAATTCAGGC
*
7680425 AATTTGGTTAATT
1 AATTCGGTTAATT
7680438 TTAACCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (18 bp):
AATTCGGTTAATTCAGGC
Found at i:7680438 original size:9 final size:9
Alignment explanation
Indices: 7680381--7680437 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
7680371 GTAGTGATTC
7680381 AATTCGGTT
1 AATTCGGTT
*
7680390 AATTCGGGT
1 AATTCGGTT
7680399 AATTCAGG-T
1 AATTC-GGTT
7680408 AATTCGGTT
1 AATTCGGTT
*
7680417 AATTCGG-C
1 AATTCGGTT
*
7680425 AATTTGGTT
1 AATTCGGTT
7680434 AATT
1 AATT
7680438 TTAACCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 8 0.20
9 31 0.76
10 2 0.05
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7680880 original size:13 final size:13
Alignment explanation
Indices: 7680845--7680882 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
7680835 GAGATATTTG
7680845 TAATTTGAAAACT
1 TAATTTGAAAACT
7680858 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
7680872 TAATTTGAAAA
1 TAATTTGAAAA
7680883 TTTGGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:7681183 original size:35 final size:35
Alignment explanation
Indices: 7681139--7681345 Score: 219
Period size: 35 Copynumber: 6.1 Consensus size: 35
7681129 TTCACTTGTC
* *
7681139 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * *
7681174 TTCTGTTGCAGGGAATCTTTTCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
7681207 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
7681241 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * *
7681276 TTTTGTTGCAGGGAATCTTTACTGTTTA--CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
* * * * *
7681309 -TTTCTTGCAGGGAATCTCTCATGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
7681343 TTT
1 TTT
7681346 CTTTTTGGAC
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
32 45 0.31
33 8 0.06
34 7 0.05
35 83 0.58
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.43
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTTTCCTGTTCACGCATTA
Found at i:7681248 original size:67 final size:69
Alignment explanation
Indices: 7681139--7681333 Score: 229
Period size: 67 Copynumber: 2.9 Consensus size: 69
7681129 TTCACTTGTC
* * * *
7681139 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTTCTGTT-CAC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTCTCCTGTTACAC
7681203 ATCA
66 ATCA
*
7681207 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTCTCCTGTT-ACA
*
7681271 CATTA
65 CATCA
* * * * * * *
7681276 TTTTGTTGCAGGGAATCTTTACTGTTTA--CATCATT-TCTTGCAGGGAATCTCTCATGTT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTCTCCTGTT
7681334 CATGTATTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 76 0.68
68 6 0.05
69 6 0.05
70 23 0.21
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (69 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTCTCCTGTTACAC
ATCA
Found at i:7681320 original size:102 final size:102
Alignment explanation
Indices: 7681139--7681345 Score: 324
Period size: 102 Copynumber: 2.0 Consensus size: 102
7681129 TTCACTTGTC
* * *
7681139 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTTCTGTTCACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTACTGTTCACA
*
7681204 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
* * * *
7681241 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTACTGTTTACA
1 TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTACTGTTCACA
* *
7681306 TCATTTCTTGCAGGGAATCTCTCATGTTCATGTATTA
66 TCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
7681343 TTT
1 TTT
7681346 CTTTTTGGAC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.43
Consensus pattern (102 bp):
TTTTCTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTACTGTTCACA
TCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
Found at i:7684933 original size:26 final size:25
Alignment explanation
Indices: 7684893--7684941 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
7684883 ACGAACGCCC
7684893 TTCTTTGCTCTCTGCTCTCTGCTGG
1 TTCTTTGCTCTCTGCTCTCTGCTGG
*
7684918 TTCTTTGTTTCTCTGCTCTCTGCT
1 TTCTTTG-CTCTCTGCTCTCTGCT
7684942 ACGCTGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.00, C:0.31, G:0.16, T:0.53
Consensus pattern (25 bp):
TTCTTTGCTCTCTGCTCTCTGCTGG
Found at i:7684951 original size:31 final size:33
Alignment explanation
Indices: 7684893--7684955 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
7684883 ACGAACGCCC
* *
7684893 TTCTTTGCTCTCTGCTCTCTGCTGGTTCTTTGT
1 TTCTCTGCTCTCTGCTCACTGCTGGTTCTTTGT
7684926 TTCTCTGCTCTCTGCT-AC-GCTGGTTCTTTG
1 TTCTCTGCTCTCTGCTCACTGCTGGTTCTTTG
7684956 CCCTCATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 12 0.43
32 1 0.04
33 15 0.54
ACGTcount: A:0.02, C:0.29, G:0.19, T:0.51
Consensus pattern (33 bp):
TTCTCTGCTCTCTGCTCACTGCTGGTTCTTTGT
Found at i:7687539 original size:13 final size:13
Alignment explanation
Indices: 7687521--7687581 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
7687511 CTCAAATTTT
7687521 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
7687534 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
7687547 TCCAGAGCACTTC
1 TCAAAAGCACTTC
* *
7687560 TCAAAAACACTTT
1 TCAAAAGCACTTC
7687573 TCAAAAGCA
1 TCAAAAGCA
7687582 ATGAAGAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:7687581 original size:26 final size:26
Alignment explanation
Indices: 7687518--7687581 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
7687508 ACACTCAAAT
*
7687518 TTTTCAAAAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAACAC
* *
7687544 TTTTCCAGAGCACTTCTCAAAAACAC
1 TTTTCAAAAGCACTTCTCAAAAACAC
7687570 TTTTCAAAAGCA
1 TTTTCAAAAGCA
7687582 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.28
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAACAC
Found at i:7696306 original size:29 final size:28
Alignment explanation
Indices: 7696272--7696362 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
7696262 TTGTTTAAAG
7696272 AAGCCCTTATACTATTTTCGTAGTTTAAT
1 AAGCCCTTATACTATTTT-GTAGTTTAAT
* *
7696301 AAGCCCCTAGT-CTATAATTT-T--TTTAAAG
1 AAGCCCTTA-TACTAT--TTTGTAGTTT-AAT
*
7696329 AAGCCCTTATACTATTTTTGTAGTTAAAT
1 AAGCCCTTATACTA-TTTTGTAGTTTAAT
7696358 AAGCC
1 AAGCC
7696363 TCTAACCTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
27 7 0.15
28 14 0.29
29 21 0.44
30 3 0.06
31 3 0.06
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.41
Consensus pattern (28 bp):
AAGCCCTTATACTATTTTGTAGTTTAAT
Found at i:7696373 original size:57 final size:57
Alignment explanation
Indices: 7696265--7696375 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
7696255 ATACTCTTTG
* **
7696265 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTTAATAAGCCCCTAGTCTATAATTTT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
* *
7696322 TTTAAAGAAGCCCTTATACTATTTTTGTAGTTAAATAAGCCTCTAACCTATAAT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAAT
7696376 GTTTACCCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (57 bp):
TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
Found at i:7702840 original size:10 final size:10
Alignment explanation
Indices: 7702825--7702852 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7702815 AACTCACATT
7702825 CAATATCATC
1 CAATATCATC
7702835 CAATATCATC
1 CAATATCATC
7702845 CAATATCA
1 CAATATCA
7702853 ATCATAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (10 bp):
CAATATCATC
Found at i:7705263 original size:7 final size:8
Alignment explanation
Indices: 7705246--7705295 Score: 64
Period size: 8 Copynumber: 5.9 Consensus size: 8
7705236 AAATTATTTT
7705246 AAAAATAA
1 AAAAATAA
7705254 AAAAATAA
1 AAAAATAA
7705262 AAAAATAA
1 AAAAATAA
*
7705270 AAAAATATTTT
1 AAAAATA---A
7705281 AAAAATAA
1 AAAAATAA
7705289 AAAAATA
1 AAAAATA
7705296 TATATTTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 30 0.81
11 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAAATAA
Found at i:7705293 original size:19 final size:19
Alignment explanation
Indices: 7705233--7705296 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
7705223 AATAAACACC
*
7705233 AAAAAATTATTTTAAAAAT
1 AAAAAAATATTTTAAAAAT
*
7705252 AAAAAAATA---AAAAAAT
1 AAAAAAATATTTTAAAAAT
7705268 AAAAAAATATTTTAAAAAT
1 AAAAAAATATTTTAAAAAT
7705287 AAAAAAATAT
1 AAAAAAATAT
7705297 ATATTTATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 15 0.38
19 24 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAAATATTTTAAAAAT
Found at i:7706105 original size:11 final size:11
Alignment explanation
Indices: 7706091--7706125 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7706081 TAAAAATATC
*
7706091 AAAAATCGTAA
1 AAAAATTGTAA
*
7706102 AAAAATTATAA
1 AAAAATTGTAA
7706113 AAAAATTGTAA
1 AAAAATTGTAA
7706124 AA
1 AA
7706126 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:7706115 original size:21 final size:21
Alignment explanation
Indices: 7706082--7706157 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
7706072 AAAAAAATAT
*
7706082 AAAAA-TATCAAAAATCGTAA
1 AAAAATTATAAAAAATCGTAA
*
7706102 AAAAATTATAAAAAAATTGT-A
1 AAAAATTAT-AAAAAATCGTAA
**
7706123 AAATTTTAT-AAAAATCGTAA
1 AAAAATTATAAAAAATCGTAA
7706143 AATAAATTTATAAAA
1 AA-AAA-TTATAAAA
7706158 TATATAGGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 8 0.19
20 8 0.19
21 12 0.28
22 12 0.28
23 3 0.07
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAAATTATAAAAAATCGTAA
Found at i:7706125 original size:19 final size:19
Alignment explanation
Indices: 7706103--7706145 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
7706093 AAATCGTAAA
*
7706103 AAAATTATAAAAAAATTGT
1 AAAATTATAAAAAAATCGT
* *
7706122 AAAATTTTATAAAAATCGT
1 AAAATTATAAAAAAATCGT
7706141 AAAAT
1 AAAAT
7706146 AAATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAAAATCGT
Found at i:7706152 original size:22 final size:22
Alignment explanation
Indices: 7706091--7706157 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
7706081 TAAAAATATC
*
7706091 AAAAATCGTAAAA-AAATTATAA
1 AAAAATCGTAAAATAAATT-TAT
*
7706113 AAAAATTGTAAAAT---TTTAT
1 AAAAATCGTAAAATAAATTTAT
7706132 AAAAATCGTAAAATAAATTTAT
1 AAAAATCGTAAAATAAATTTAT
7706154 AAAA
1 AAAA
7706158 TATATAGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 15 0.39
20 2 0.05
22 21 0.55
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (22 bp):
AAAAATCGTAAAATAAATTTAT
Found at i:7706232 original size:62 final size:62
Alignment explanation
Indices: 7706092--7706233 Score: 137
Period size: 62 Copynumber: 2.3 Consensus size: 62
7706082 AAAAATATCA
* * * * * *
7706092 AAAATCGTAAAAAAAT-TATAAAAAAATTGTAAAATTTTATAAAAATCGTAAAATAAATTTAT
1 AAAATC-TAAAGAAATATAGAAAAAAATTATAAAAGTTTATAAAAATCATAAAATAAATTTAG
* * * * *
7706154 AAAATATATAGGAATATAGAAAAAAATTTATAAAAGTTTAT-AAATTCATAAGA-AAATTATAG
1 AAAATCTAAAGAAATATAGAAAAAAA-TTATAAAAGTTTATAAAAATCATAAAATAAATT-TAG
7706216 AAAATCTAAAGAAATATA
1 AAAATCTAAAGAAATATA
7706234 AAACTTGTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
61 11 0.17
62 40 0.63
63 12 0.19
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (62 bp):
AAAATCTAAAGAAATATAGAAAAAAATTATAAAAGTTTATAAAAATCATAAAATAAATTTAG
Found at i:7709743 original size:168 final size:168
Alignment explanation
Indices: 7709553--7709886 Score: 650
Period size: 168 Copynumber: 2.0 Consensus size: 168
7709543 AAAAAGGTTT
7709553 TTGATTTGGTAATTTATGTTTTATAATGATTTATTAGATTCAAGTGGTAAGACCCTAAGGTCAAG
1 TTGATTTGGTAATTTATGTTTTATAATGATTTATTAGATTCAAGTGGTAAGACCCTAAGGTCAAG
7709618 TGGTTTTAGAAAGTGAGGTATTGGGACCTCGTTTCTATAAAATGAGTCATAATATTTTTATAAAT
66 TGGTTTTAGAAAGTGAGGTATTGGGACCTCGTTTCTATAAAATGAGTCATAATATTTTTATAAAT
*
7709683 ATTTATAAAGTGTCATTAAGGTGGTATTAAATTTTCAA
131 ATTTATAAAGTGTCATTAAGGTGGTAGTAAATTTTCAA
7709721 TTGATTTGGTAATTTATGTTTTATAATGATTTATTAGATTCAAGTGGTAAGACCCTAAGGTCAAG
1 TTGATTTGGTAATTTATGTTTTATAATGATTTATTAGATTCAAGTGGTAAGACCCTAAGGTCAAG
7709786 TGGTTTTAGAAAGTGAGGTATTGGGACCTCGTTTCTATAAAATGAGTCATAATATTTTTATAAAT
66 TGGTTTTAGAAAGTGAGGTATTGGGACCTCGTTTCTATAAAATGAGTCATAATATTTTTATAAAT
*
7709851 ATTTATAGAGTGTCATTAAGGTGGTAGTAAATTTTC
131 ATTTATAAAGTGTCATTAAGGTGGTAGTAAATTTTC
7709887 GATGAAAAAT
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 164 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (168 bp):
TTGATTTGGTAATTTATGTTTTATAATGATTTATTAGATTCAAGTGGTAAGACCCTAAGGTCAAG
TGGTTTTAGAAAGTGAGGTATTGGGACCTCGTTTCTATAAAATGAGTCATAATATTTTTATAAAT
ATTTATAAAGTGTCATTAAGGTGGTAGTAAATTTTCAA
Found at i:7710570 original size:17 final size:16
Alignment explanation
Indices: 7710523--7710570 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
7710513 GGCATATAAT
7710523 ATTTAGATAGATTATTA
1 ATTT-GATAGATTATTA
* *
7710540 ATTTGAGAAAATTAGTTA
1 ATTTGA-TAGATTA-TTA
7710558 ATTTGATAGATTA
1 ATTTGATAGATTA
7710571 ACTAATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 14 0.56
18 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:7711100 original size:21 final size:21
Alignment explanation
Indices: 7711070--7711144 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
7711060 GTGGATCAGC
*
7711070 TCTTATGAGCTTCTGTTTAGT
1 TCTTACGAGCTTCTGTTTAGT
7711091 TCTTACGAGCTTCTGTTTAGT
1 TCTTACGAGCTTCTGTTTAGT
* *
7711112 TCTTACGAGCTTCTATTTAGC
1 TCTTACGAGCTTCTGTTTAGT
7711133 TCTTACGAGCTT
1 TCTTACGAGCTT
7711145 TTATTCAGCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (21 bp):
TCTTACGAGCTTCTGTTTAGT
Found at i:7711149 original size:21 final size:21
Alignment explanation
Indices: 7711067--7711154 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
7711057 TGGGTGGATC
* *
7711067 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTATTT
* *
7711088 AGTTCTTACGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTATTT
*
7711109 AGTTCTTACGAGCTTCTATTT
1 AGCTCTTACGAGCTTCTATTT
* *
7711130 AGCTCTTACGAGCTTTTATTC
1 AGCTCTTACGAGCTTCTATTT
7711151 AGCT
1 AGCT
7711155 TTTGAGCTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTATTT
Found at i:7716318 original size:28 final size:28
Alignment explanation
Indices: 7716270--7716461 Score: 107
Period size: 28 Copynumber: 6.6 Consensus size: 28
7716260 GCGAAGTGTC
* * **
7716270 AAGT-GCAAGATGCAAGTTGACTCCACA
1 AAGTGGCAAGATGCGAGCTGACTCTGCA
*
7716297 AAGTGGCAAGGTGCGAGCTGACTCTGCA
1 AAGTGGCAAGATGCGAGCTGACTCTGCA
* * * * *
7716325 AAGAGGCAAGATGCGAGATGGCACTGCG
1 AAGTGGCAAGATGCGAGCTGACTCTGCA
* *
7716353 AAGTGGCAGGGTGCGAGCTGACGAGCTGACTCTGTA
1 AAGTGGCA-------AGATG-CGAGCTGACTCTGCA
* * * * * *
7716389 AAGAGGCAAGATGCGAGATGGCACCGCG
1 AAGTGGCAAGATGCGAGCTGACTCTGCA
* * *
7716417 AAGTGGCAGGGTGCGAGCTGACTCTGTA
1 AAGTGGCAAGATGCGAGCTGACTCTGCA
*
7716445 AAGAGGCAAGATGCGAG
1 AAGTGGCAAGATGCGAG
7716462 ATGGCACCGC
Statistics
Matches: 118, Mismatches: 38, Indels: 17
0.68 0.22 0.10
Matches are distributed among these distances:
27 4 0.03
28 89 0.75
29 4 0.03
35 4 0.03
36 17 0.14
ACGTcount: A:0.29, C:0.19, G:0.36, T:0.15
Consensus pattern (28 bp):
AAGTGGCAAGATGCGAGCTGACTCTGCA
Found at i:7716411 original size:64 final size:60
Alignment explanation
Indices: 7716306--7716485 Score: 278
Period size: 56 Copynumber: 3.0 Consensus size: 60
7716296 AAAGTGGCAA
* *
7716306 GGTGCGAGCTGACTCTGCAAAGAGGCAAGATGCGAGATGGCACTGCGAAGTGGCAGGGTG
1 GGTGCGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCAGGGTG
7716366 CGAGCTGACGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCA----G
1 -G-G-TG-CGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCAGGGTG
7716426 GGTGCGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCAGGGTG
1 GGTGCGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCAGGGTG
7716486 TGAACTGCAG
Statistics
Matches: 110, Mismatches: 2, Indels: 15
0.87 0.02 0.12
Matches are distributed among these distances:
56 51 0.46
57 2 0.02
58 1 0.01
59 1 0.01
60 2 0.02
61 1 0.01
62 1 0.01
63 2 0.02
64 49 0.45
ACGTcount: A:0.26, C:0.19, G:0.40, T:0.14
Consensus pattern (60 bp):
GGTGCGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCGAAGTGGCAGGGTG
Found at i:7716480 original size:28 final size:28
Alignment explanation
Indices: 7716393--7716480 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
7716383 TCTGTAAAGA
7716393 GGCAAGATGCGAGATGGCACCGCGAAGT
1 GGCAAGATGCGAGATGGCACCGCGAAGT
* * * * * * ** *
7716421 GGCAGGGTGCGAGCTGACTCTGTAAAGA
1 GGCAAGATGCGAGATGGCACCGCGAAGT
7716449 GGCAAGATGCGAGATGGCACCGCGAAGT
1 GGCAAGATGCGAGATGGCACCGCGAAGT
7716477 GGCA
1 GGCA
7716481 GGGTGTGAAC
Statistics
Matches: 42, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.27, C:0.20, G:0.40, T:0.12
Consensus pattern (28 bp):
GGCAAGATGCGAGATGGCACCGCGAAGT
Found at i:7725160 original size:18 final size:18
Alignment explanation
Indices: 7725133--7725225 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
7725123 TACGACCGTT
7725133 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
7725151 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
*
7725169 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
*
7725187 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
7725205 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
7725223 TAC
1 TAC
7725226 AGTAGTTAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:7725185 original size:36 final size:36
Alignment explanation
Indices: 7725133--7725225 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
7725123 TACGACCGTT
*
7725133 TACGGTACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
7725169 TACGATACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
7725205 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
7725226 AGTAGTTAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:7732288 original size:6 final size:6
Alignment explanation
Indices: 7732275--7732311 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
7732265 TCCTTTTCTG
*
7732275 TATCTA TATTTA TATCTA TATCTA TATCTA TATCTA T
1 TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA T
7732312 GGTTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (6 bp):
TATCTA
Found at i:7734059 original size:11 final size:11
Alignment explanation
Indices: 7734037--7734083 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
7734027 AACTAATCCT
7734037 CTCTCAAATTTC
1 CTCTC-AATTTC
7734049 CTCTCAATTTC
1 CTCTCAATTTC
*
7734060 CTCTAAATTTC
1 CTCTCAATTTC
*
7734071 CTCTCAAATTC
1 CTCTCAATTTC
7734082 CT
1 CT
7734084 TCCAAATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:7734070 original size:22 final size:22
Alignment explanation
Indices: 7734037--7734101 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
7734027 AACTAATCCT
*
7734037 CTCTCAAATTTCCTCTCAATTTC
1 CTCT-AAATTTCCTCTCAAATTC
7734060 CTCTAAATTTCCTCTCAAATTC
1 CTCTAAATTTCCTCTCAAATTC
* *
7734082 CTTCCAAATTT-CTCTGAAAT
1 C-TCTAAATTTCCTCTCAAAT
7734102 CCATATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 26 0.68
23 12 0.32
ACGTcount: A:0.26, C:0.31, G:0.02, T:0.42
Consensus pattern (22 bp):
CTCTAAATTTCCTCTCAAATTC
Found at i:7738121 original size:15 final size:16
Alignment explanation
Indices: 7738101--7738130 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7738091 AACCTATGTG
7738101 AAATATTGGA-TTTTT
1 AAATATTGGACTTTTT
7738116 AAATATTGGACTTTT
1 AAATATTGGACTTTT
7738131 GGTGATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (16 bp):
AAATATTGGACTTTTT
Found at i:7739722 original size:22 final size:20
Alignment explanation
Indices: 7739687--7739726 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
7739677 GAATAATATA
7739687 ACCATTATAATAATGATAAC
1 ACCATTATAATAATGATAAC
7739707 ACCATTGATCAATAATGATA
1 ACCATT-AT-AATAATGATA
7739727 GGGATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (20 bp):
ACCATTATAATAATGATAAC
Found at i:7742641 original size:18 final size:18
Alignment explanation
Indices: 7742605--7742645 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7742595 ATGTTTTTAA
*
7742605 AAATGTGAAAATATGAAT
1 AAATGTGAAAATATAAAT
7742623 AAATGTGAAAA-ATTAAAT
1 AAATGTGAAAATA-TAAAT
7742641 AAATG
1 AAATG
7742646 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (18 bp):
AAATGTGAAAATATAAAT
Found at i:7742741 original size:20 final size:20
Alignment explanation
Indices: 7742711--7742765 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
7742701 CCCTTTTGGT
*
7742711 TTTTTTTTTTGTATTCCCTCA
1 TTTTCTTTTTGTATTCCC-CA
*
7742732 -TTTCTTTTTGTACTTCTCCA
1 TTTTCTTTTTGTA-TTCCCCA
*
7742752 TTTTTTTTTTGTAT
1 TTTTCTTTTTGTAT
7742766 CTCCTCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.09, C:0.16, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTCTTTTTGTATTCCCCA
Found at i:7742760 original size:21 final size:21
Alignment explanation
Indices: 7742711--7742834 Score: 69
Period size: 20 Copynumber: 6.0 Consensus size: 21
7742701 CCCTTTTGGT
7742711 TTTTTTTTTTGTATTCCCTCA
1 TTTTTTTTTTGTATTCCCTCA
* *
7742732 -TTTCTTTTTGTACTTCTC-CA
1 TTTTTTTTTTGTA-TTCCCTCA
7742752 TTTTTTTTTTGTA-TCTCCTCA
1 TTTTTTTTTTGTATTC-CCTCA
** * *
7742773 -TAATTTTTTGTTTTCCATCA
1 TTTTTTTTTTGTATTCCCTCA
** * * *
7742793 TACTTTCTTTGTATTTCCTTA
1 TTTTTTTTTTGTATTCCCTCA
* * *
7742814 -GTTTTTTTGGCATTCCCTCA
1 TTTTTTTTTTGTATTCCCTCA
7742834 T
1 T
7742835 AATTTTTTAT
Statistics
Matches: 73, Mismatches: 23, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
19 2 0.03
20 40 0.55
21 31 0.42
ACGTcount: A:0.12, C:0.20, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTTTTTTTTGTATTCCCTCA
Found at i:7742779 original size:20 final size:20
Alignment explanation
Indices: 7742756--7742852 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
7742746 TCTCCATTTT
*
7742756 TTTTTTGTATCTCCTCATAA
1 TTTTTTGTATTTCCTCATAA
*
7742776 TTTTTTGT-TTTCCATCATAC
1 TTTTTTGTATTTCC-TCATAA
*
7742796 TTTCTTTGTATTTCCT--TAGT
1 TTT-TTTGTATTTCCTCATA-A
* *
7742816 TTTTTTGGCATTCCCTCATAA
1 TTTTTT-GTATTTCCTCATAA
*
7742837 TTTTTTATATTTCCTC
1 TTTTTTGTATTTCCTC
7742853 GAATGTGTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
19 9 0.15
20 33 0.54
21 12 0.20
22 7 0.11
ACGTcount: A:0.15, C:0.20, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTTTGTATTTCCTCATAA
Found at i:7744261 original size:31 final size:31
Alignment explanation
Indices: 7744189--7744266 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
7744179 AAGCTTAAAA
*
7744189 ATATATATACCTATATATATAAAAAAATGCCC
1 ATATATATA-TTATATATATAAAAAAATGCCC
* * **
7744221 ATATGTATATTATATA-ATAAAAACTATGCGT
1 ATATATATATTATATATATAAAAA-AATGCCC
7744252 ATATATATATGTATA
1 ATATATATAT-TATA
7744267 GAAAATATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 7 0.18
31 19 0.50
32 12 0.32
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (31 bp):
ATATATATATTATATATATAAAAAAATGCCC
Found at i:7744290 original size:3 final size:3
Alignment explanation
Indices: 7744276--7744341 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
7744266 AGAAAATATG
* * *
7744276 ATA ATA ATTA ATA ATA ATAA ATA AT- ATA ATA AAA ATA ATTA ATT TTA
1 ATA ATA A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA
7744323 ATA ATA A-A ATA ATTA ATA A
1 ATA ATA ATA ATA A-TA ATA A
7744342 CAAGGGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:7744316 original size:31 final size:32
Alignment explanation
Indices: 7744278--7744341 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
7744268 AAAATATGAT
7744278 AATAATTAA-TAATAAT-AAATAATATAATAAA
1 AATAATTAATTAATAATAAAATAAT-TAATAAA
7744309 AATAATTAATTTTAATAATAAAATAATTAATAA
1 AATAATTAA--TTAATAATAAAATAATTAATAA
7744342 CAAGGGACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 9 0.31
34 13 0.45
35 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAATTAATTAATAATAAAATAATTAATAAA
Found at i:7745981 original size:132 final size:132
Alignment explanation
Indices: 7745844--7747272 Score: 1380
Period size: 133 Copynumber: 10.6 Consensus size: 132
7745834 CTATTGTTCC
*
7745844 GGGAGATAGAATTACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * *
7745909 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
7745974 CA
131 CA
* * * *
7745976 AGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCACTATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * ** **
7746041 TTGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
66 TTGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGACAAGATCTGAAATCTTCAATC
*** *
7746106 TACTT-CAC-GCCAACCG
116 TA-TTCCACTGCTGCCCA
* * * *
7746122 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * *
7746187 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
7746252 CA
131 CA
* *
7746254 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATAT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* ** **
7746319 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
66 TTGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGACAAGATCTGAAATCTTCAATC
*** *
7746384 TACTT-CAC-GCCAACCG
116 TA-TTCCACTGCTGCCCA
* * * * **
7746400 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTTAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * *
7746465 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
7746530 CA
131 CA
*
7746532 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * * * * * *
7746597 TTGATATGCTTCACT-GT-CTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCT
66 TTGATCTGCTCCACTACTGCT-T--AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
7746660 GCCCA
128 GCCCA
* *
7746665 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * * * *
7746730 TTGATCTGTTCCACTACTGTTTAGGGAGACAATATATGAAATATTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
7746795 CA
131 CA
* * * *
7746797 GGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCGTC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC
* * ** * *
7746861 TTCGATCTGCTTCGCTATCTA-TGC--AGGAAGGTAAGATCTAAAATCTTCAGTCTATTCCACTG
65 TTTGATCTGC-TC-C-A-CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTG
7746923 CTGCCCA
126 CTGCCCA
* * ** *
7746930 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCTGCCGTCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATC-
* * * * ** * * *
7746995 TCAATCTGTTTTGCTGC-CTA-TGC--AGGAAGGTAATATCTAAAATCTTCAGTCTATTCCACTG
65 T---T-TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTG
*
7747056 CTGCCTA
126 CTGCCCA
* * ** *
7747063 GGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * * * * * *
7747128 TCGACCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
66 TTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
*
7747190 TGCCAA
127 TGCCCA
* * * *
7747196 GGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
7747261 TTGATCTGCTCC
66 TTGATCTGCTCC
7747273 GCTGTCTATG
Statistics
Matches: 1101, Mismatches: 139, Indels: 115
0.81 0.10 0.08
Matches are distributed among these distances:
128 4 0.00
129 2 0.00
130 7 0.01
131 52 0.05
132 327 0.30
133 445 0.40
134 11 0.01
135 4 0.00
136 6 0.01
137 4 0.00
138 15 0.01
139 4 0.00
140 10 0.01
141 2 0.00
142 2 0.00
144 6 0.01
145 4 0.00
146 144 0.13
147 48 0.04
148 4 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
CA
Found at i:7746175 original size:146 final size:146
Alignment explanation
Indices: 7745977--7746607 Score: 646
Period size: 132 Copynumber: 4.5 Consensus size: 146
7745967 TGTTGCCCAA
* *
7745977 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTT-AGGGAGGTAAAATCCACTATCT
1 GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAA-CTTCAGGGAGGTAAAATCCACCATCT
*
7746041 TTGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
65 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
7746106 TACTTCACGCCAACCGG
130 TACTTCACGCCAACCGG
*
7746123 GGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
* * **
7746188 TGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGATAAGATCTG-TAATCTTCAATC
66 TGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-ATCTTTGATC
**** *
7746237 TA-TTCCACTGTTGCCCAG
130 TACTT-CAC-GCCAACCGG
* * *
7746255 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATATT
1 GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
7746320 TGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
66 TGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
7746385 ACTTCACGCCAACCGG
131 ACTTCACGCCAACCGG
* * * **
7746401 GGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTTAGGGAGGTAAAATCTGCCATCTT
1 GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
* * * ** **
7746466 CGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGGCAAGATCTGAAATCTTCAATCT
66 TGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
**** *
7746516 A-TTCCACTGTTGCCCAG
131 ACTT-CAC-GCCAACCGG
* *
7746533 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
*
7746598 TGATATGCTT
66 TGATCTGCTT
7746608 CACTGTCTAT
Statistics
Matches: 405, Mismatches: 55, Indels: 62
0.78 0.11 0.12
Matches are distributed among these distances:
130 5 0.01
131 48 0.12
132 147 0.36
133 4 0.01
134 4 0.01
136 1 0.00
137 1 0.00
138 6 0.01
139 3 0.01
140 9 0.02
141 2 0.00
142 2 0.00
144 5 0.01
145 5 0.01
146 136 0.34
147 24 0.06
148 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (146 bp):
GGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTT
TGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
ACTTCACGCCAACCGG
Found at i:7746347 original size:278 final size:278
Alignment explanation
Indices: 7745844--7746872 Score: 1464
Period size: 278 Copynumber: 3.7 Consensus size: 278
7745834 CTATTGTTCC
* *
7745844 GGGAGATAGAATTACCGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* *
7745909 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
* * *
7745974 CAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTTAGGGAGGTAAAATCCACTAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
*
7746039 CTTTGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
196 CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
7746104 TCTACTTCACGCCAACCG
261 TCTACTTCACGCCAACCG
* * *
7746122 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* *
7746187 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
7746252 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
*
7746317 ATTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
196 CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
7746382 TCTACTTCACGCCAACCG
261 TCTACTTCACGCCAACCG
* * * **
7746400 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTTAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* *
7746465 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
7746530 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
* * * *** *
7746595 CTTTGATATGC-TTC-ACTG-TCTA--T-G----C---A--GGAAGGCAAGATCTAAAATC-TTC
196 CTTTGATCTGCTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTG
*** *
7746644 AGTCTA-TTCCACTGCTGCCCA
260 A-TCTACTT-CAC-GCCAACCG
* * *
7746665 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * * * * *
7746730 TTGATCTGTTCCACTACTGTTTAGGGAGACAATATATGAAATATTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
* * * * *
7746795 CAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCG
131 CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCA
*
7746859 TCTTCGATCTGCTT
195 TCTTTGATCTGCTT
7746873 CGCTATCTAT
Statistics
Matches: 692, Mismatches: 53, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
263 5 0.01
264 24 0.03
265 185 0.27
266 2 0.00
269 1 0.00
273 1 0.00
274 1 0.00
276 5 0.01
277 4 0.01
278 464 0.67
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (278 bp):
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
TCTACTTCACGCCAACCG
Found at i:7746884 original size:265 final size:265
Alignment explanation
Indices: 7746400--7747268 Score: 1285
Period size: 265 Copynumber: 3.3 Consensus size: 265
7746390 ACGCCAACCG
* * ***
7746400 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTTAGGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * *
7746465 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
66 TCGATCTGTTCCACTACTGTTTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCACTGCTGCC
* * * * *
7746530 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
131 CAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCGT
* * *
7746595 CTTTGATATGCTTCACTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCT
196 CTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCT
7746660 GCCCA
261 GCCCA
*
7746665 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
* * * *
7746729 TTTGATCTGTTCCACTACTGTTTAGGGAGACAATATATGAAATATTCAATCTATTCCACTGCTGC
65 TTCGATCTGTTCCACTACTGTTTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCACTGCTGC
7746794 CCAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACC
130 CCAGGGAGA-TAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACC
* *
7746858 GTCTTCGATCTGCTTCGCTATCTATGCAGGAAGGTAAGATCTAAAATCTTCAGTCTATTCCACTG
194 GTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTG
7746923 CTGCCCA
259 CTGCCCA
* *
7746930 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCTGCCGTCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* *** * * ** * * * *
7746995 TCAATCTGTTTTGCTGCCTATGCAGGAAGGTAATATCTAAAATCTTCAGTCTATTCCACTGCTGC
66 TCGATCTGTTCCACT-ACTGTTTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCACTGCTGC
* *
7747060 CTAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
130 CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCG
*
7747125 TCTTCGACCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
195 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
*
7747190 TGCCAA
260 TGCCCA
*
7747196 GGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCGCCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
*
7747260 TTTGATCTG
65 TTCGATCTG
7747269 CTCCGCTGTC
Statistics
Matches: 544, Mismatches: 54, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
264 2 0.00
265 308 0.57
266 233 0.43
267 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (265 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
TCGATCTGTTCCACTACTGTTTAGGGAGGCAATATCTGAAATCTTCAATCTATTCCACTGCTGCC
CAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCGT
CTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCT
GCCCA
Found at i:7752965 original size:22 final size:22
Alignment explanation
Indices: 7752938--7752987 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
7752928 TATATTTACA
*
7752938 AAAAAAAGTATATATATAAAA-T
1 AAAAAAA-TATATATAAAAAAGT
*
7752960 -ATAAAATATATATAAAAAAGT
1 AAAAAAATATATATAAAAAAGT
7752981 AAAAAAA
1 AAAAAAA
7752988 ACAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.52
21 6 0.26
22 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAAAATATATATAAAAAAGT
Found at i:7753144 original size:3 final size:3
Alignment explanation
Indices: 7753130--7753195 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
7753120 AGAAAATATG
* * *
7753130 ATA ATA ATTA ATA ATA ATAA ATA AT- ATA ATA AAA ATA ATTA ATT TTA
1 ATA ATA A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA
7753177 ATA ATA A-A ATA ATTA ATA A
1 ATA ATA ATA ATA A-TA ATA A
7753196 CAAGGGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:7753170 original size:31 final size:32
Alignment explanation
Indices: 7753132--7753195 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
7753122 AAAATATGAT
7753132 AATAATTAA-TAATAAT-AAATAATATAATAAA
1 AATAATTAATTAATAATAAAATAAT-TAATAAA
7753163 AATAATTAATTTTAATAATAAAATAATTAATAA
1 AATAATTAA--TTAATAATAAAATAATTAATAA
7753196 CAAGGGACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 9 0.31
34 13 0.45
35 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAATTAATTAATAATAAAATAATTAATAAA
Found at i:7754341 original size:19 final size:19
Alignment explanation
Indices: 7754312--7754361 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
7754302 TTTTTGTACT
*
7754312 TCATATGTTTTTGTATCCCC
1 TCATAT-TTTTAGTATCCCC
*
7754332 TCATAATTTTTAGTATTCCC
1 TCAT-ATTTTTAGTATCCCC
7754352 TCATATTTTT
1 TCATATTTTT
7754362 CTATATCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 19 0.70
21 2 0.07
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (19 bp):
TCATATTTTTAGTATCCCC
Found at i:7754342 original size:20 final size:18
Alignment explanation
Indices: 7754294--7754381 Score: 63
Period size: 20 Copynumber: 4.6 Consensus size: 18
7754284 TTGGTTTTCT
7754294 CTCATAATTTTTTGTA--C
1 CTCAT-ATTTTTTGTATCC
*
7754311 TTCATATGTTTTTGTATCCC
1 CTCATAT-TTTTTGTAT-CC
*
7754331 CTCATAATTTTTAGTATTCC
1 CTCAT-ATTTTTTGTA-TCC
*
7754351 CTCATATTTTTCTATATCC
1 CTCATATTTTT-TGTATCC
*
7754370 TTTCATATTTTT
1 -CTCATATTTTT
7754382 GGTACTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.04
17 12 0.21
19 9 0.16
20 31 0.54
21 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.05, T:0.56
Consensus pattern (18 bp):
CTCATATTTTTTGTATCC
Found at i:7754418 original size:20 final size:19
Alignment explanation
Indices: 7754338--7754420 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
7754328 CCCCTCATAA
* *
7754338 TTTTTAGTATTCCCTCATAT
1 TTTTTAGTATT-CTTTATAT
*
7754358 TTTTCTA-TATCCTTTCATA-
1 TTTT-TAGTATTCTTT-ATAT
* *
7754377 TTTTTGGTACTTATTTAT-T
1 TTTTTAGTA-TTCTTTATAT
7754396 TTTTTAGTATTCTCTTATAT
1 TTTTTAGTATTCT-TTATAT
7754416 TTTTT
1 TTTTT
7754421 TGTACACCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
18 4 0.08
19 22 0.46
20 20 0.42
21 2 0.04
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTTAGTATTCTTTATAT
Found at i:7754945 original size:21 final size:21
Alignment explanation
Indices: 7754921--7754967 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7754911 GAGCTAAGTA
*
7754921 AAAAAAACATGAGAGAATACC
1 AAAAAAACATGAGAAAATACC
*
7754942 AAAAAAACATGATAAAATACC
1 AAAAAAACATGAGAAAATACC
7754963 AAAAA
1 AAAAA
7754968 GATATGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.68, C:0.13, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAAAAACATGAGAAAATACC
Found at i:7755096 original size:17 final size:17
Alignment explanation
Indices: 7755043--7755097 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
7755033 CAGACACGAG
7755043 GGAGTACCAAAAATTAT
1 GGAGTACCAAAAATTAT
*
7755060 GAGAGATTACAAAAAATTAT
1 G-GAG--TACCAAAAATTAT
*
7755080 GGAGTACCAACAATTAT
1 GGAGTACCAAAAATTAT
7755097 G
1 G
7755098 AGGGACTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.41
18 3 0.09
19 3 0.09
20 13 0.41
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (17 bp):
GGAGTACCAAAAATTAT
Found at i:7756520 original size:81 final size:80
Alignment explanation
Indices: 7756382--7756542 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 80
7756372 AAAACTCATT
*
7756382 TTAATAAAATGTTAGACTTATTAAAACAATACTTTTCGATCTACAAAATCCAAGAAATGGGTTCG
1 TTAATAAAATGTTAGACTTATTAAAAAAATACTTTTCGATCTACAAAATCCAAGAAATGGGTTCG
*
7756447 GGAGTTGGTTACGCA
66 GGAGTCGGTTACGCA
* *
7756462 TTAATAAAATGTTAGACTTATTAAAAAAAATACTTTTCGATCTACAAAATCCAGGAAATTGGTTC
1 TTAATAAAATGTTAGACTTATT-AAAAAAATACTTTTCGATCTACAAAATCCAAGAAATGGGTTC
7756527 GGGAGTCGGTTACGCA
65 GGGAGTCGGTTACGCA
7756543 CGAGGAAGGA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 22 0.29
81 54 0.71
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (80 bp):
TTAATAAAATGTTAGACTTATTAAAAAAATACTTTTCGATCTACAAAATCCAAGAAATGGGTTCG
GGAGTCGGTTACGCA
Found at i:7757116 original size:14 final size:14
Alignment explanation
Indices: 7757099--7757133 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7757089 AATATTGTAA
7757099 TAATAATATAATAT
1 TAATAATATAATAT
*
7757113 TAATATTATAATAT
1 TAATAATATAATAT
7757127 TAATAAT
1 TAATAAT
7757134 CGTATTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATAATATAATAT
Found at i:7757382 original size:3 final size:3
Alignment explanation
Indices: 7757369--7757420 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
7757359 TATAAAAAAG
7757369 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7757415 TAA TAA
1 TAA TAA
7757421 AGACATAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7758434 original size:25 final size:23
Alignment explanation
Indices: 7758389--7758435 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
7758379 TTTCTTTTGA
*
7758389 ACTTTTTCTTTTCTATTTTTTTT
1 ACTTTTTCTTTTCTATGTTTTTT
*
7758412 ACTTTTTCGTATTTCTCTGTTTTT
1 ACTTTTTC-T-TTTCTATGTTTTT
7758436 CTCCCCCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (23 bp):
ACTTTTTCTTTTCTATGTTTTTT
Found at i:7759077 original size:44 final size:44
Alignment explanation
Indices: 7759026--7759484 Score: 370
Period size: 44 Copynumber: 10.5 Consensus size: 44
7759016 CGTTTCACTA
* * * *
7759026 CAACTTCAGGGAGATAAGATTTGTACCTTTAATCTACTCTGCTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
* * * *
7759070 CAGCTTCAGGGAGATAAGATTTACTATCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTT-GTAGCTTCAATCTGCTCTACTG
* *
7759115 CAAATTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
** * *
7759159 CAACTTCAAAGAGATAAGA--T-T--C-ACAATCTGCTCTACTA
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
* * * *
7759197 CAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGGTCCA-TG
1 CAACTTCAGGGAGATAAGA----T---TTGTAGCTTCAATCTGCTCTACTG
*
7759247 CAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
* * * * *
7759291 CAACTTCAGAGAGATAAGA-----ATC-ACAATATGCTCAACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
* * * * *
7759329 CAACGTCAGAGAGATAAGGTTTGTAACTTCAATC-GCTTTACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
* * * * * *
7759372 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGTTCCATTG
1 CAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCTACTG
* * * * *
7759417 CAATTTTAAGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
*
7759461 CAACTTCAGAGAGATAAGATTTGT
1 CAACTTCAGGGAGATAAGATTTGT
7759485 CACAATAACT
Statistics
Matches: 330, Mismatches: 62, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
38 62 0.19
39 3 0.01
41 1 0.00
42 1 0.00
43 47 0.14
44 125 0.38
45 60 0.18
46 1 0.00
47 1 0.00
48 1 0.00
50 19 0.06
51 9 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTG
Found at i:7759195 original size:38 final size:38
Alignment explanation
Indices: 7759144--7759217 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
7759134 TTTGTAGCTT
*
7759144 CAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCA
1 CAATCTGCTCTACTACAACTTCAAAGAGATAAGATTCA
*
7759182 CAATCTGCTCTACTACAACTTCAAGGAGATAAGATT
1 CAATCTGCTCTACTACAACTTCAAAGAGATAAGATT
7759218 TGTAACTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (38 bp):
CAATCTGCTCTACTACAACTTCAAAGAGATAAGATTCA
Found at i:7759272 original size:132 final size:133
Alignment explanation
Indices: 7759101--7759357 Score: 410
Period size: 132 Copynumber: 1.9 Consensus size: 133
7759091 TACTATCTTC
7759101 AATCTGCTCCACTGCAAATTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
1 AATCTGCTCCACTGCAAATTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
* * * *
7759166 AAAGAGATAAGATTCACAATCTGCTCTACTACAACTTCA-AGGAGATAAGATTTGTAACTTGTAG
66 AAAGAGATAAGAATCACAATATGCTCAACTACAACGTCAGA-GAGATAAGATTTGTAACTTGTAG
7759230 CTTT
130 CTTT
* *
7759234 AATCTGGTCCA-TGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
1 AATCTGCTCCACTGCAAATTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
* * *
7759298 AGAGAGATAAGAATCACAATATGCTCAACTGCAACGTCAGAGAGATAAGGTTTGTAACTT
66 AAAGAGATAAGAATCACAATATGCTCAACTACAACGTCAGAGAGATAAGATTTGTAACTT
7759358 CAATCGCTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 103 0.90
133 11 0.10
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (133 bp):
AATCTGCTCCACTGCAAATTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTACTGCAACTTC
AAAGAGATAAGAATCACAATATGCTCAACTACAACGTCAGAGAGATAAGATTTGTAACTTGTAGC
TTT
Found at i:7761599 original size:79 final size:80
Alignment explanation
Indices: 7761463--7761619 Score: 237
Period size: 79 Copynumber: 2.0 Consensus size: 80
7761453 AAACTCATTT
* *
7761463 TAATAAAATGTTAGACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAG-TCGG
1 TAATAAAATGTTAAACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAGTTCAG
7761527 GAGTCGGTTACGCAG
66 GAGTCGGTTACGCAG
* * * *
7761542 TAATAAAATGTTAAACTTATTAAAACGATACTTTTTGATCTACAAAAT-TCAGGAAATGGGTTTA
1 TAATAAAATGTTAAACTTATTAAAACGATACTTTTCGATCTACAAAATCT-AGAAAATGAGTTCA
7761606 GGAGTCGGTTACGC
65 GGAGTCGGTTACGC
7761620 GCGAGGAAGG
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 54 0.77
80 15 0.21
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (80 bp):
TAATAAAATGTTAAACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAGTTCAG
GAGTCGGTTACGCAG
Found at i:7762195 original size:14 final size:15
Alignment explanation
Indices: 7762178--7762218 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
7762168 GAATACTGTA
7762178 ATAATAAT-ATAATT
1 ATAATAATCATAATT
7762192 ATAATAATCAT-ATT
1 ATAATAATCATAATT
* *
7762206 ATAGTAATGATAA
1 ATAATAATCATAA
7762219 ATAAATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (15 bp):
ATAATAATCATAATT
Found at i:7762526 original size:25 final size:26
Alignment explanation
Indices: 7762466--7762517 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7762456 ACTAAAAGAG
*
7762466 AAAAAGAAAATAAAAAAACTCTCAAT
1 AAAAAGAAAATAAAAAAACTCTAAAT
*
7762492 AAAAAGAAAATAAAAAAA-TTTAAAT
1 AAAAAGAAAATAAAAAAACTCTAAAT
7762517 A
1 A
7762518 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (26 bp):
AAAAAGAAAATAAAAAAACTCTAAAT
Found at i:7762791 original size:16 final size:16
Alignment explanation
Indices: 7762770--7762804 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7762760 GAAATGCGCG
7762770 AAAAGAACTAGAGACT
1 AAAAGAACTAGAGACT
* *
7762786 AAAAGAATTAGGGACT
1 AAAAGAACTAGAGACT
7762802 AAA
1 AAA
7762805 TGGGACATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.09, G:0.20, T:0.14
Consensus pattern (16 bp):
AAAAGAACTAGAGACT
Found at i:7785116 original size:26 final size:26
Alignment explanation
Indices: 7785069--7785118 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7785059 TTTCAACAGT
* * * *
7785069 GAAAGTAGCCGATAGAGGAAGTGATG
1 GAAAGTAGACGACAAAGAAAGTGATG
7785095 GAAAGTAGACGACAAAGAAAGTGA
1 GAAAGTAGACGACAAAGAAAGTGA
7785119 CAGAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.34, T:0.12
Consensus pattern (26 bp):
GAAAGTAGACGACAAAGAAAGTGATG
Found at i:7792036 original size:18 final size:18
Alignment explanation
Indices: 7792010--7792044 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7792000 ATTGTATTTT
*
7792010 TATCGATACCATCTTTGA
1 TATCAATACCATCTTTGA
*
7792028 TATCAATACCATTTTTG
1 TATCAATACCATCTTTG
7792045 CATTCTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (18 bp):
TATCAATACCATCTTTGA
Found at i:7792126 original size:20 final size:21
Alignment explanation
Indices: 7792077--7792131 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
7792067 AAACAATTAT
* *
7792077 AAAAAGTATCGATATCTTTTC
1 AAAAGGTATCGATACCTTTTC
7792098 AAAAGGTATCGATACCTTTT-
1 AAAAGGTATCGATACCTTTTC
**
7792118 ACCAGGTATCGATA
1 AAAAGGTATCGATA
7792132 AAATGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAGGTATCGATACCTTTTC
Found at i:7795737 original size:26 final size:26
Alignment explanation
Indices: 7795701--7795753 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7795691 ATAGAGGATA
7795701 CAATCCATTCTTTAACACCTATAACC
1 CAATCCATTCTTTAACACCTATAACC
7795727 CAATCCATTCTTTAACACCTATAACC
1 CAATCCATTCTTTAACACCTATAACC
7795753 C
1 C
7795754 GGTGGCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (26 bp):
CAATCCATTCTTTAACACCTATAACC
Found at i:7798011 original size:17 final size:17
Alignment explanation
Indices: 7797989--7798021 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7797979 TATATTTTTA
*
7797989 TTTTTAATCACATATAC
1 TTTTTAATCAAATATAC
7798006 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
7798022 TATTAAATAT
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:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:7801525 original size:13 final size:13
Alignment explanation
Indices: 7801491--7801527 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
7801481 TGTAATTTGA
7801491 AATTTGAAAACTT
1 AATTTGAAAACTT
7801504 AAGTTTGAAAACTT
1 AA-TTTGAAAACTT
7801518 AATTTGAAAA
1 AATTTGAAAA
7801528 TTTGGAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (13 bp):
AATTTGAAAACTT
Found at i:7801808 original size:34 final size:34
Alignment explanation
Indices: 7801765--7801940 Score: 237
Period size: 34 Copynumber: 5.1 Consensus size: 34
7801755 TTACTTGTCT
7801765 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
7801799 TTTCTTGCAGGGAATCTTTCCTTTTCACTCATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * * *
7801833 TTTCTTGCAGGGATTAATC-CCTGTTCACGCATTA
1 TTTCTTGCAGGGAAT-CTCTCCTGTTCACACATCA
*
7801867 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* *
7801902 TTTCTTGCAGGGAATATCTCCTGTTCATACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
7801936 TTTCT
1 TTTCT
7801941 GATATTATTT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
34 95 0.78
35 27 0.22
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:7801901 original size:69 final size:68
Alignment explanation
Indices: 7801765--7801940 Score: 246
Period size: 69 Copynumber: 2.6 Consensus size: 68
7801755 TTACTTGTCT
* * * *
7801765 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTTTCCTTTTCACTCA
1 TTTCTTGCAGGGAATATCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACACA
7801830 TCA
66 TCA
* * * *
7801833 TTTCTTGCAGGGATTAATC-CCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTCTTGCAGGGAAT-ATCTCCTGTTCACACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
7801897 CATCA
64 CATCA
*
7801902 TTTCTTGCAGGGAATATCTCCTGTTCATACATCATTTCT
1 TTTCTTGCAGGGAATATCTCCTGTTCACACATCATTTCT
7801941 GATATTATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 34 0.37
69 58 0.63
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (68 bp):
TTTCTTGCAGGGAATATCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACACA
TCA
Found at i:7804785 original size:20 final size:23
Alignment explanation
Indices: 7804750--7804794 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
7804740 GAACAAATTG
7804750 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
7804772 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
7804793 TT
1 TT
7804795 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:7836395 original size:35 final size:35
Alignment explanation
Indices: 7836356--7836440 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
7836346 CTTTATTTGG
* *
7836356 TGTGTTTTGGAGGGGCTAGCTCTTATAAGTATTGA
1 TGTGTTTTGGAGGGACTAGCTCTTATAAGCATTGA
* ** *
7836391 TGTGTTTCGGTTGGACTAGCTCTTATAAGCATTGG
1 TGTGTTTTGGAGGGACTAGCTCTTATAAGCATTGA
7836426 TGT-TTTTCGGAGGGA
1 TGTGTTTT-GGAGGGA
7836441 TTGGCTCGTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 3 0.08
35 37 0.93
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.40
Consensus pattern (35 bp):
TGTGTTTTGGAGGGACTAGCTCTTATAAGCATTGA
Found at i:7837302 original size:15 final size:16
Alignment explanation
Indices: 7837276--7837319 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
7837266 ATAGCCTGAG
*
7837276 ACACCGGTGTGTGACTC
1 ACACC-GTGTGTGACAC
7837293 A-ACCGTGTGTGACAC
1 ACACCGTGTGTGACAC
7837308 ACGACCGTGTGT
1 AC-ACCGTGTGT
7837320 CCCATGTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 3 0.12
17 10 0.42
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (16 bp):
ACACCGTGTGTGACAC
Found at i:7841988 original size:17 final size:17
Alignment explanation
Indices: 7841968--7842001 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7841958 TAAAATATTA
* *
7841968 ATAATTATTTTAAAAAT
1 ATAAATATTCTAAAAAT
7841985 ATAAATATTCTAAAAAT
1 ATAAATATTCTAAAAAT
7842002 TAAGTATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATATTCTAAAAAT
Found at i:7842163 original size:9 final size:9
Alignment explanation
Indices: 7842145--7842203 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
7842135 TAATAGTGAA
7842145 ATAA-TTTT
1 ATAATTTTT
7842153 ATAATTTTT
1 ATAATTTTT
*
7842162 ATTATTTTTT
1 A-TAATTTTT
7842172 ATATATTTTT
1 ATA-ATTTTT
* *
7842182 AGAATTATT
1 ATAATTTTT
7842191 A-ATATTTTT
1 ATA-ATTTTT
7842200 ATAA
1 ATAA
7842204 AATTTAAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.12
9 20 0.49
10 16 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:7842208 original size:29 final size:29
Alignment explanation
Indices: 7842149--7842204 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
7842139 AGTGAAATAA
* * * *
7842149 TTTTATAATTTTTATTATTTTTTATATAT
1 TTTTAGAATTATTAATATTTTTTATAAAT
7842178 TTTTAGAATTATTAATA-TTTTTATAAA
1 TTTTAGAATTATTAATATTTTTTATAAA
7842205 ATTTAAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTAGAATTATTAATATTTTTTATAAAT
Found at i:7842345 original size:8 final size:8
Alignment explanation
Indices: 7842332--7842378 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
7842322 ATTTTTTTGA
7842332 ATTTTTCAT
1 ATTTTT-AT
7842341 A-TTTTAT
1 ATTTTTAT
7842348 ATTTTTAT
1 ATTTTTAT
7842356 ATTTTTAT
1 ATTTTTAT
7842364 ATTTTTTAT
1 A-TTTTTAT
7842373 ATTTTT
1 ATTTTT
7842379 GCACTCGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.08
8 24 0.67
9 9 0.25
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Done.