Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 98 of 284
Found at i:32385337 original size:24 final size:25
Alignment explanation
Indices: 32385300--32385347 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
32385290 TTAGGATTAA
*
32385300 GGTTTAGTGGTTTAG-GATTTTTAG
1 GGTTTAGTAGTTTAGTGATTTTTAG
* *
32385324 GGTTTAGTATTTTAGTGTTTTTTA
1 GGTTTAGTAGTTTAGTGATTTTTA
32385348 AGGGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (25 bp):
GGTTTAGTAGTTTAGTGATTTTTAG
Found at i:32385801 original size:125 final size:126
Alignment explanation
Indices: 32385474--32385900 Score: 651
Period size: 126 Copynumber: 3.4 Consensus size: 126
32385464 ATTAATTACA
*
32385474 GAAAAAAGTTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
* * * * **
32385539 TGTTTTTGAACGAATTGTGTCAAAAACGCTTTAAGAAGGATGCATTGTCAGCAAAATTACA
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
* * *
32385600 GAAAAAAGCTCCCACGTGGATGCTCTTTTACTATAGTAGTATCTGAAAAAATAATTTTGAGAAGA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
* * **
32385665 TATTTTTGAACAAATAGTGTTAAAAACGCTTCAAGAATAATGCACTGTCAGCAAAATTATG
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
*
32385726 GAAAAAAGCT-CCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
*
32385790 TGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
* * ** *
32385851 GAAAAAAGCTGCTAAATGGATGCTCTTTTGCTACAGTAGTATCT-AAAAAA
1 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAA
32385901 GCCTTAGACT
Statistics
Matches: 273, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 122 0.45
126 151 0.55
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (126 bp):
GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
Found at i:32389089 original size:62 final size:59
Alignment explanation
Indices: 32389026--32389222 Score: 174
Period size: 61 Copynumber: 3.3 Consensus size: 59
32389016 TAAAATATTA
* *
32389026 AAAATAACTTTTATTTTATTAATTAAAACTATATAAAAATAATGAAAATATTGGCTAATTT
1 AAAAGAACATTTATTTTATTAATTAAAACTATATAAAAATAATGAAAATATT--CTAATTT
* * * * * *
32389087 AAAAGAACATTTATTTTAATAAAATTAAAA-AAAAGTAAAGTACAATTAAAATA-T-TAA---
1 AAAAGAACATTTATTTT-AT-TAATTAAAACTATA-TAAA-AATAATGAAAATATTCTAATTT
* *
32389144 AAAA-AACTTTTATTTTATTAATTAAAACTATATAAAAATAATAAAAAATATTACCTAATTT
1 AAAAGAACATTTATTTTATTAATTAAAACTATATAAAAATAAT-GAAAATATT--CTAATTT
32389205 AAAAGAACATTTATTTTA
1 AAAAGAACATTTATTTTA
32389223 ATAAAATTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
53 4 0.04
54 18 0.17
55 5 0.05
56 11 0.10
57 4 0.04
58 3 0.03
60 3 0.03
61 19 0.18
62 16 0.15
63 13 0.12
64 10 0.09
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAAGAACATTTATTTTATTAATTAAAACTATATAAAAATAATGAAAATATTCTAATTT
Found at i:32389299 original size:118 final size:117
Alignment explanation
Indices: 32388948--32389298 Score: 580
Period size: 117 Copynumber: 3.0 Consensus size: 117
32388938 ACATTTATTC
* * *
32388948 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
32389013 AATTAAAATATTAAAAATAACTTTTATTTTATTAATTAAAACTATATAAAAA
66 AATTAAAATATTAAAAAAAACTTTTATTTTATTAATTAAAACTATATAAAAA
*
32389065 TAAT-GAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAAGTAAAGTA
32389129 CAATTAAAATATTAAAAAAAACTTTTATTTTATTAATTAAAACTATATAAAAA
65 CAATTAAAATATTAAAAAAAACTTTTATTTTATTAATTAAAACTATATAAAAA
** *
32389182 TAATAAAAAATATTACCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAATAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
* *
32389247 AATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAA
66 AATTAAAATATTAAAAAAAACTTTTATTTTATTAAT-TAAAACTATATAAAAA
32389299 AAGTTTCTAC
Statistics
Matches: 220, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
116 42 0.19
117 137 0.62
118 41 0.19
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (117 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
AATTAAAATATTAAAAAAAACTTTTATTTTATTAATTAAAACTATATAAAAA
Found at i:32389432 original size:21 final size:21
Alignment explanation
Indices: 32389403--32389442 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32389393 TGGTTCAACT
* *
32389403 TCTGGTGAGGGTTGTGGTTTC
1 TCTGATGAGGATTGTGGTTTC
32389424 TCTGATGAGGATTGTGGTT
1 TCTGATGAGGATTGTGGTT
32389443 CCTCCGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.40, T:0.42
Consensus pattern (21 bp):
TCTGATGAGGATTGTGGTTTC
Found at i:32389866 original size:30 final size:30
Alignment explanation
Indices: 32389802--32389867 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
32389792 TGAAGTGCTA
* * * *
32389802 GGCCAGGTGATTGTGTGGGCCCTGTTGATG
1 GGCCCGGTGATTGTGTGGGACCTGCTAATG
* *
32389832 GGCCCGGTGATTGTGTGGGAGCTGCTAATT
1 GGCCCGGTGATTGTGTGGGACCTGCTAATG
32389862 GGCCCG
1 GGCCCG
32389868 CGTCGTCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.20, G:0.42, T:0.27
Consensus pattern (30 bp):
GGCCCGGTGATTGTGTGGGACCTGCTAATG
Found at i:32390376 original size:7 final size:7
Alignment explanation
Indices: 32390364--32390389 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32390354 TTATATAGGT
32390364 AATACTA
1 AATACTA
32390371 AATACTA
1 AATACTA
32390378 AATACTA
1 AATACTA
32390385 AATAC
1 AATAC
32390390 GAAAGAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:32391553 original size:22 final size:21
Alignment explanation
Indices: 32391535--32391574 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
32391525 ACAGAGATTT
32391535 TTTG-CAAAAATTAGAGAGAGC
1 TTTGACAAAAATT-GAGAGAGC
32391556 TTTGACAAAAATTGAGAGA
1 TTTGACAAAAATTGAGAGA
32391575 AATTGGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAGC
Found at i:32391596 original size:13 final size:11
Alignment explanation
Indices: 32391564--32391607 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
32391554 GCTTTGACAA
32391564 AAATT-GAGAG
1 AAATTGGAGAG
32391574 AAATTGGAGAG
1 AAATTGGAGAG
32391585 AAATTGGAGAG
1 AAATTGGAGAG
32391596 -AATTGTGAGAG
1 AAATTG-GAGAG
32391607 A
1 A
32391608 TGAGAGGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.20
Consensus pattern (11 bp):
AAATTGGAGAG
Found at i:32394372 original size:20 final size:21
Alignment explanation
Indices: 32394336--32394378 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
32394326 TTTTACATTA
32394336 AATTCTAAATCTTGAATCTTG
1 AATTCTAAATCTTGAATCTTG
32394357 AATT-TAAAT-TTCGAATCTTG
1 AATTCTAAATCTT-GAATCTTG
32394377 AA
1 AA
32394379 CTCTGAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
AATTCTAAATCTTGAATCTTG
Found at i:32399068 original size:68 final size:63
Alignment explanation
Indices: 32398921--32399075 Score: 177
Period size: 63 Copynumber: 2.4 Consensus size: 63
32398911 CATAATTTTG
* * * *
32398921 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCCACTTTATCTCGTA
* * *
32398984 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTACCACCCATGCGACCTAGCCA-CT--T--TATCT
32399048 CGTA
60 CGTA
*
32399052 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
32399076 TCCCGTATTA
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 44 0.57
64 1 0.01
66 1 0.01
68 29 0.38
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGTACACATAGTACCACCCATGCGACCTAGCCACTTTATCTCGTA
Found at i:32399097 original size:68 final size:68
Alignment explanation
Indices: 32398977--32399103 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
32398967 AGCCAGTTTA
* * *
32398977 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
32399042 ATG
66 ATG
* * *
32399045 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCTAGCTAC
32399104 ATACCATCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTAGCTACCTCATA
ATG
Found at i:32402214 original size:18 final size:18
Alignment explanation
Indices: 32402191--32402227 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32402181 TCATCCATCA
*
32402191 TATATTCGATAACTTAGC
1 TATATTCGATAACATAGC
*
32402209 TATATTTGATAACATAGC
1 TATATTCGATAACATAGC
32402227 T
1 T
32402228 TCCCACTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (18 bp):
TATATTCGATAACATAGC
Found at i:32406786 original size:27 final size:27
Alignment explanation
Indices: 32406738--32406896 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
32406728 GCGAAGCTGC
* *
32406738 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
32406765 TAGATCTTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
32406791 CAGATGTATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
32406818 CAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
32406845 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
32406872 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
32406897 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 8 0.07
27 98 0.89
28 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:32406831 original size:54 final size:54
Alignment explanation
Indices: 32406773--32406896 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
32406763 TATAGATCTT
* *
32406773 GTGGCAGAGCCACCAGAACAGATGTATGTGGCAGAGCCACCAGATCAGATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
* *
32406827 GTGGCATAGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
32406881 GTGGCATAGCCACCAG
1 GTGGCATAGCCACCAG
32406897 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATC
Found at i:32407063 original size:28 final size:26
Alignment explanation
Indices: 32407001--32407063 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
32406991 AAATTAACCC
* ** *
32407001 TAGGGGTATAATAGTATTTTTGTACT
1 TAGGGGTATAACAGTATTTTCATACA
32407027 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGT-ATTTT-CATACA
32407055 TAGGGGTAT
1 TAGGGGTAT
32407064 TATAATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.45
27 5 0.16
28 12 0.39
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAACAGTATTTTCATACA
Found at i:32408843 original size:26 final size:26
Alignment explanation
Indices: 32408812--32408919 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
32408802 TGAAATGCCC
*
32408812 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
32408838 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
32408864 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
32408890 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32408916 ATCA
1 ATCA
32408920 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32411483 original size:21 final size:21
Alignment explanation
Indices: 32411455--32411514 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
32411445 ACTTATAAAA
* *
32411455 AATAAAAAAATTATAAATTTTT
1 AATAAAAATATTA-AAAATTTT
32411477 AATAAAAATATTAAAAATTTT
1 AATAAAAATATTAAAAATTTT
*
32411498 ATTAAAAATA-TAAAAAT
1 AATAAAAATATTAAAAAT
32411515 CATAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 7 0.20
21 16 0.46
22 12 0.34
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAAATATTAAAAATTTT
Found at i:32411527 original size:28 final size:29
Alignment explanation
Indices: 32411448--32411544 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
32411438 GCAAAAAACT
* * *
32411448 TATAAAAA-A-TAAAAAAATTATAAATTTT
1 TATAAAAATATTAAAAATATTATAAA-ATA
*
32411476 TAATAAAAATATTAAAAATTTTATTAAAA-A
1 T-ATAAAAATATTAAAAATATTA-TAAAATA
32411506 TATAAAAATCA-TAAAAA-ATTATAAAATA
1 TATAAAAAT-ATTAAAAATATTATAAAATA
*
32411534 TATAGAAATAT
1 TATAAAAATAT
32411545 AGAAGAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
27 6 0.11
28 13 0.23
29 21 0.38
30 3 0.05
31 9 0.16
32 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (29 bp):
TATAAAAATATTAAAAATATTATAAAATA
Found at i:32411629 original size:20 final size:21
Alignment explanation
Indices: 32411580--32411634 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
32411570 AAGTCATAAG
*
32411580 AAAATTATAAAA-AATGTAAA
1 AAAATTATAAAATTATGTAAA
*
32411600 GAAA-TATAAAATTA-GTAAA
1 AAAATTATAAAATTATGTAAA
32411619 AAAATTATAAAATTAT
1 AAAATTATAAAATTAT
32411635 TGTACCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAATTATGTAAA
Found at i:32411630 original size:10 final size:10
Alignment explanation
Indices: 32411440--32411630 Score: 64
Period size: 10 Copynumber: 19.4 Consensus size: 10
32411430 CACATGTGGC
32411440 AAAAAACTTAT
1 AAAAAA-TTAT
32411451 AAAAAA-TA-
1 AAAAAATTAT
32411459 AAAAAATTAT
1 AAAAAATTAT
***
32411469 AAATTTTTAAT
1 AAAAAATT-AT
32411480 AAAAATATTA-
1 AAAAA-ATTAT
**
32411490 AAAATTTTAT
1 AAAAAATTAT
*
32411500 TAAAAA-TAT
1 AAAAAATTAT
*
32411509 -AAAAATCAT
1 AAAAAATTAT
32411518 AAAAAATTAT
1 AAAAAATTAT
*
32411528 AAAATA-TAT
1 AAAAAATTAT
* *
32411537 -AGAAATATAG
1 AAAAAAT-TAT
32411547 AAGAAAATT-T
1 AA-AAAATTAT
* * *
32411557 ATAAATTTTT
1 AAAAAATTAT
* * *
32411567 ATAAAGTCAT
1 AAAAAATTAT
32411577 AAGAAAATTAT
1 AA-AAAATTAT
32411588 AAAAAATGTA-
1 AAAAAAT-TAT
*
32411598 AAGAAA-TAT
1 AAAAAATTAT
32411607 --AAAATTAGT
1 AAAAAATTA-T
32411616 AAAAAAATTAT
1 -AAAAAATTAT
32411627 AAAA
1 AAAA
32411631 TTATTGTACC
Statistics
Matches: 131, Mismatches: 29, Indels: 41
0.65 0.14 0.20
Matches are distributed among these distances:
7 3 0.02
8 18 0.14
9 21 0.16
10 51 0.39
11 25 0.19
12 13 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:32413300 original size:25 final size:26
Alignment explanation
Indices: 32413254--32413302 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
32413244 TTAGTTAACG
* **
32413254 AAATATAAATACCATATGTAAAAAAA
1 AAATATAAATACCAAAAATAAAAAAA
32413280 AAAT-TAAATACCAAAAATAAAAA
1 AAATATAAATACCAAAAATAAAAA
32413303 TATAATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (26 bp):
AAATATAAATACCAAAAATAAAAAAA
Found at i:32417764 original size:110 final size:110
Alignment explanation
Indices: 32417571--32417829 Score: 306
Period size: 110 Copynumber: 2.4 Consensus size: 110
32417561 CCTTAAAATT
**
32417571 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAATTTTACAGTTGGAACA
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAGCTTACAGTTGGAACA
*
32417636 TAATTTGTTTAAATATAAACCCTAAACACATACACACGTGTCTCG
66 TAATTTGTTCAAATATAAACCCTAAACACATACACACGTGTCTCG
* * * * *
32417681 AATTATTAACGTAATCGATTGAATTATTCAATTGATTGTACACTCATAAGCTTACAGTT-GAATC
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAGCTTACAGTTGGAA-C
* * * ** *
32417745 A-AATTTTGTTCAAATATAAACCCTAAACTCATATATAAATGTCTCA
65 ATAA-TTTGTTCAAATATAAACCCTAAACACATACACACGTGTCTCG
* * * * * *
32417791 AATTACGAATGTAACCAGTTGAATGATCAAATTAATTGT
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGT
32417830 TTCACTTGAA
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
109 5 0.04
110 118 0.96
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (110 bp):
AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAGCTTACAGTTGGAACA
TAATTTGTTCAAATATAAACCCTAAACACATACACACGTGTCTCG
Found at i:32418076 original size:132 final size:131
Alignment explanation
Indices: 32417910--32418152 Score: 317
Period size: 132 Copynumber: 1.8 Consensus size: 131
32417900 ATTGATTGCA
* * *
32417910 TTATTCAATTAATCTATAATCATAAAGTTACAATTGAATCGAAAGTTGTT-AAAGTGTAAACCCT
1 TTATCCAATTAATCTATAATCATAAAGTTACAATTAAATCGAAAGTTGTTCAAA-TATAAACCCT
* ** **
32417974 ACACTCATATCCACATGTCTTGAATTATGAACATAACTGATTGAATTCTAATTAATTGTACAATC
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATC
32418039 AT
130 AT
* * * * * *
32418041 TTATCCAATTAATTGTATAATCATGAATTTACAATTAAATCGAAATTTGTTCGAATATGAACCCT
1 TTATCCAATTAA-TCTATAATCATAAAGTTACAATTAAATCGAAAGTTGTTCAAATATAAACCCT
* *
32418106 AAACTCATATGCACATGTCTCAAATTTTGAACATAACCAATTGAATT
65 AAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATT
32418153 ATCCAATTAA
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
131 11 0.12
132 81 0.86
133 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (131 bp):
TTATCCAATTAATCTATAATCATAAAGTTACAATTAAATCGAAAGTTGTTCAAATATAAACCCTA
AACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATCA
T
Found at i:32418820 original size:24 final size:24
Alignment explanation
Indices: 32418793--32418843 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
32418783 TCATTATGAC
*
32418793 ATTGTAAGTTAATATAATGATAAA
1 ATTGTAAGTTAATATAATAATAAA
*
32418817 ATTGTAATTTAATATAATAATAAA
1 ATTGTAAGTTAATATAATAATAAA
32418841 ATT
1 ATT
32418844 ATACTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (24 bp):
ATTGTAAGTTAATATAATAATAAA
Found at i:32418984 original size:11 final size:11
Alignment explanation
Indices: 32418955--32418985 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32418945 AAAACTTCAT
*
32418955 AAAAGTGCTTA
1 AAAAGTGTTTA
32418966 AAAAGTGTTTA
1 AAAAGTGTTTA
32418977 AAAAGTGTT
1 AAAAGTGTT
32418986 CGAGTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (11 bp):
AAAAGTGTTTA
Found at i:32420306 original size:31 final size:31
Alignment explanation
Indices: 32420243--32420306 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
32420233 TGTCATTAGG
*
32420243 GTCTAAAAAGCAATAGGTATTCTGTACCGGT
1 GTCTAAAAAGCAATAGGTACTCTGTACCGGT
* * *
32420274 GTCTAAAAAGTATTAGGTAC-CTCGTACTGGT
1 GTCTAAAAAGCAATAGGTACTCT-GTACCGGT
32420305 GT
1 GT
32420307 TGGATGCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (31 bp):
GTCTAAAAAGCAATAGGTACTCTGTACCGGT
Found at i:32421346 original size:30 final size:30
Alignment explanation
Indices: 32421310--32421366 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
32421300 AGGGACTGGT
*
32421310 ACATGGGCGTGTGGTCAGCCCGTGTGGCTC
1 ACATGGGCGTGTGGTCAACCCGTGTGGCTC
*
32421340 ACATGGGTGTGTGGTCAACCCGTGTGG
1 ACATGGGCGTGTGGTCAACCCGTGTGG
32421367 ATCCTGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.23, G:0.40, T:0.25
Consensus pattern (30 bp):
ACATGGGCGTGTGGTCAACCCGTGTGGCTC
Found at i:32423186 original size:6 final size:6
Alignment explanation
Indices: 32423170--32423262 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
32423160 TAAGTTGAAG
* * * * *
32423170 AAAATA AAAA-A ATAAA-A CAACTA AA-ATA AAATTA AAAAGA AAGATA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
32423216 ACAAATAA TAAAATTA AAAATA AAATTA AAAAT- AAAATA ATAATA AA
1 A-AAAT-A -AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AA
32423263 CTCAATAATA
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
5 13 0.20
6 38 0.58
7 7 0.11
8 5 0.08
9 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:32423235 original size:7 final size:6
Alignment explanation
Indices: 32423192--32423387 Score: 76
Period size: 6 Copynumber: 30.7 Consensus size: 6
32423182 TAAAACAACT
* * * *
32423192 AAAATA AAATTA AAAAGA AAGATA ACAAATAA TAAAATTA AAAATA AAATTA
1 AAAATA AAAATA AAAATA AAAATA A-AAAT-A -AAAA-TA AAAATA AAAATA
* * * ** ** **
32423244 AAAAT- AAAATA ATAAT- AAACTCA ATAATA TCAATA AACTTA AAGGTA
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA
* *
32423291 ACAATA GCACAAA-A AAATACA AAAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA --A-AAATA AAA-ATA AAA-ATA AAAATA AAAATA AAAATA AAAATA
*
32423343 ATAAA-A ATATATAA AAAATAA AAAATAA AAAATAA AAAATA AAAA
1 A-AAATA A-AAAT-A AAAAT-A AAAAT-A AAAAT-A AAAATA AAAA
32423388 ATATAAGTAT
Statistics
Matches: 146, Mismatches: 29, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
5 10 0.07
6 77 0.53
7 46 0.32
8 9 0.06
9 4 0.03
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:32423316 original size:9 final size:8
Alignment explanation
Indices: 32423301--32423393 Score: 93
Period size: 9 Copynumber: 11.2 Consensus size: 8
32423291 ACAATAGCAC
32423301 AAAAAAAT
1 AAAAAAAT
32423309 ACAAAAAAT
1 A-AAAAAAT
*
32423318 AAAAATAAA
1 AAAAA-AAT
32423327 AATAAAAAT
1 AA-AAAAAT
32423336 AAAAATAAT
1 AAAAA-AAT
*
32423345 AAAAATAT
1 AAAAAAAT
32423353 ATAAAAAAT
1 A-AAAAAAT
32423362 -AAAAAAT
1 AAAAAAAT
32423369 -AAAAAAT
1 AAAAAAAT
32423376 -AAAAAAT
1 AAAAAAAT
32423383 AAAAAATAT
1 AAAAAA-AT
32423392 AA
1 AA
32423394 GTATAAGAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
7 21 0.28
8 16 0.22
9 34 0.46
10 3 0.04
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAAAT
Found at i:32423323 original size:6 final size:6
Alignment explanation
Indices: 32423312--32423387 Score: 82
Period size: 6 Copynumber: 11.8 Consensus size: 6
32423302 AAAAAATACA
*
32423312 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AATAAA- AATATAT AAAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AA-AAAT -AAAAAT
32423362 AAAAAAT AAAAAAT AAAAAAT AAAAA
1 -AAAAAT -AAAAAT -AAAAAT AAAAA
32423388 ATATAAGTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
6 36 0.55
7 27 0.42
8 2 0.03
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:32423388 original size:7 final size:7
Alignment explanation
Indices: 32423302--32423390 Score: 98
Period size: 7 Copynumber: 13.1 Consensus size: 7
32423292 CAATAGCACA
32423302 AAAAAAT
1 AAAAAAT
32423309 ACAAAAA-
1 A-AAAAAT
32423316 ATAAAAAT
1 A-AAAAAT
32423324 -AAAAAT
1 AAAAAAT
32423330 -AAAAAT
1 AAAAAAT
32423336 -AAAAAT
1 AAAAAAT
*
32423342 AATAAA-
1 AAAAAAT
* *
32423348 AATATAT
1 AAAAAAT
32423355 AAAAAAT
1 AAAAAAT
32423362 AAAAAAT
1 AAAAAAT
32423369 AAAAAAT
1 AAAAAAT
32423376 AAAAAAT
1 AAAAAAT
32423383 AAAAAAT
1 AAAAAAT
32423390 A
1 A
32423391 TAAGTATAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
6 23 0.32
7 45 0.62
8 5 0.07
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:32423464 original size:5 final size:5
Alignment explanation
Indices: 32423426--32423478 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
32423416 AATTAATTAG
* *
32423426 TAAAA TAAAA -ATAA TAATA TAACAA TTAATAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
32423473 TAAAA T
1 TAAAA T
32423479 TGGGGTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
4 3 0.08
5 28 0.70
6 4 0.10
7 5 0.12
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (5 bp):
TAAAA
Found at i:32423464 original size:8 final size:8
Alignment explanation
Indices: 32423337--32423478 Score: 61
Period size: 7 Copynumber: 17.6 Consensus size: 8
32423327 AATAAAAATA
32423337 AAAATAAT
1 AAAATAAT
32423345 AAAAATATAT
1 -AAAATA-AT
32423355 AAAA-AAT
1 AAAATAAT
32423362 AAAA-AAT
1 AAAATAAT
32423369 AAAA-AAT
1 AAAATAAT
32423376 AAAA-AAT
1 AAAATAAT
32423383 AAAA-AAT
1 AAAATAAT
*
32423390 ATAAGT-AT
1 A-AAATAAT
32423398 AAGAATAATT
1 AA-AATAA-T
32423408 AATTAATTAAT
1 AA--AA-TAAT
* * *
32423419 TAATTAGT
1 AAAATAAT
32423427 AAAAT-A-
1 AAAATAAT
32423433 AAAATAAT
1 AAAATAAT
* *
32423441 AATATAAC
1 AAAATAAT
32423449 AATTAATAAT
1 AA--AATAAT
32423459 AAAATAA-
1 AAAATAAT
32423466 AATAA-AAT
1 AA-AATAAT
32423474 AAAAT
1 AAAAT
32423479 TGGGGTGATT
Statistics
Matches: 105, Mismatches: 13, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
6 5 0.05
7 39 0.37
8 31 0.30
9 12 0.11
10 11 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (8 bp):
AAAATAAT
Found at i:32423474 original size:18 final size:18
Alignment explanation
Indices: 32423170--32423475 Score: 62
Period size: 17 Copynumber: 16.9 Consensus size: 18
32423160 TAAGTTGAAG
32423170 AAAAT-AAA-AAAATAA-
1 AAAATAAAATAAAATAAT
*
32423185 AACAACTAAAATAAAATTA-
1 AA-AA-TAAAATAAAATAAT
*
32423204 AAAAGAAAGATAACAAATAAT
1 AAAATAAA-AT-A-AAATAAT
*
32423225 AAAATTAAAAATAAAATTA-
1 AAAA-T-AAAATAAAATAAT
32423244 AAAATAAAAT--AATAAT
1 AAAATAAAATAAAATAAT
* * *
32423260 AAACT-CAATAATATCAAT
1 AAAATAAAATAAAAT-AAT
* * **
32423278 AAACTTAAAGGTAACAATAGC
1 AAA-ATAAA-ATAA-AATAAT
*
32423299 ACAAA-AAAATACAAAAAAT
1 A-AAATAAAATA-AAATAAT
32423318 AAAAATAAAA-ATAAA-AAT
1 -AAAATAAAATA-AAATAAT
*
32423336 AAAA-ATAATAAAA-ATAT
1 AAAATAAAATAAAATA-AT
*
32423353 ATAA-AAAATAAAA-AAT
1 AAAATAAAATAAAATAAT
32423369 AAAA-AATAA-AAAATAA-
1 AAAATAA-AATAAAATAAT
32423385 AAAATATAAGTATAAGAATAAT
1 AAAATA-AA--ATAA-AATAAT
* * * *
32423407 -TAAT-TAATTAATTAAT
1 AAAATAAAATAAAATAAT
* *
32423423 -TAGTAAAATAAAAATAAT
1 AAAATAAAAT-AAAATAAT
* *
32423441 AATATAACAAT-TAATAAT
1 AAAATAA-AATAAAATAAT
32423459 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
32423476 AATTGGGGTG
Statistics
Matches: 214, Mismatches: 39, Indels: 73
0.66 0.12 0.22
Matches are distributed among these distances:
15 9 0.04
16 36 0.17
17 45 0.21
18 41 0.19
19 31 0.14
20 25 0.12
21 18 0.08
22 6 0.03
23 3 0.01
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATAAAATAAAATAAT
Found at i:32426455 original size:10 final size:10
Alignment explanation
Indices: 32426440--32426466 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32426430 ATTAATAAAG
32426440 TAATATATCA
1 TAATATATCA
32426450 TAATATATCA
1 TAATATATCA
32426460 TAATATA
1 TAATATA
32426467 CTTCCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATATATCA
Found at i:32427790 original size:10 final size:10
Alignment explanation
Indices: 32427762--32427791 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
32427752 TGCGTGTTTA
32427762 AATAGAAATG
1 AATAGAAATG
32427772 AAT-GAAATG
1 AATAGAAATG
32427781 AATAGAAATG
1 AATAGAAATG
32427791 A
1 A
32427792 GAAACATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AATAGAAATG
Found at i:32427890 original size:18 final size:18
Alignment explanation
Indices: 32427867--32427903 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32427857 CAGGTTTCTA
*
32427867 AAAATAGAAATGGAAATG
1 AAAATAAAAATGGAAATG
32427885 AAAATAAAAATGGAAATG
1 AAAATAAAAATGGAAATG
32427903 A
1 A
32427904 TCCATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAATAAAAATGGAAATG
Found at i:32428115 original size:26 final size:26
Alignment explanation
Indices: 32428053--32428122 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
32428043 TTTCTTAAAT
* *
32428053 TTTTACTAGGAGCAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
*
32428079 TTTTATTAGGGGTAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
32428105 TTTTACTAGGGGTAAAAT
1 TTTTACTAGGGGTAAAAT
32428123 AGGGATGAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTTACTAGGGGTAAAATTGTCAAAA
Found at i:32429419 original size:101 final size:101
Alignment explanation
Indices: 32429244--32429446 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
32429234 ATTACAATTG
*
32429244 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACATA
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
32429309 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
66 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
*
32429345 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTTTCAGTCTAGGTGCACACA
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
32429410 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
66 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
32429446 A
1 A
32429447 TCACCTCATC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (101 bp):
ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
Found at i:32430534 original size:14 final size:14
Alignment explanation
Indices: 32430515--32430544 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32430505 TTTGTCTCGT
32430515 ATCGTAGCTGTTTA
1 ATCGTAGCTGTTTA
32430529 ATCGTAGCTGTTTA
1 ATCGTAGCTGTTTA
32430543 AT
1 AT
32430545 TTTGACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (14 bp):
ATCGTAGCTGTTTA
Found at i:32440363 original size:28 final size:28
Alignment explanation
Indices: 32440321--32440416 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
32440311 TTCAAATATT
* *
32440321 AAAAATTAGAAAAAAATATAAATATCGTAA
1 AAAAATTA-TAAAATATATAAA-ATCGTAA
* * *
32440351 AAAAATTATAAAACATGTAGAAAT-ATAA
1 AAAAATTATAAAATATATA-AAATCGTAA
* *
32440379 AAAAATTATAAAATTTTATAAAGTCGT-A
1 AAAAATTATAAAA-TATATAAAATCGTAA
32440407 AAAAATTATA
1 AAAAATTATA
32440417 CAAAATGTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 30 0.56
29 14 0.26
30 10 0.19
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAAATTATAAAATATATAAAATCGTAA
Found at i:32443710 original size:290 final size:290
Alignment explanation
Indices: 32443190--32443761 Score: 1117
Period size: 290 Copynumber: 2.0 Consensus size: 290
32443180 GTACTAGCTT
32443190 AAGGAGTCGACTTTGTTGTAGATTTTGAATTAATCTGATGCTCCACATGCTTTTGATTTTCTTTA
1 AAGGAGTCGACTTTGTTGTAGATTTTGAATTAATCTGATGCTCCACATGCTTTTGATTTTCTTTA
32443255 TTGGAAGAGTCTTTAAGAGATAATTTAGGTAGTATAGCAGTTTTATAAAAAACAACATCTCTGCT
66 TTGGAAGAGTCTTTAAGAGATAATTTAGGTAGTATAGCAGTTTTATAAAAAACAACATCTCTGCT
32443320 AATCACAACTTTTCTATTTTCAGGACACCATAACTTAGACTTTTTTACACCAGTTTTATAACCAA
131 AATCACAACTTTTCTATTTTCAGGACACCATAACTTAGACTTTTTTACACCAGTTTTATAACCAA
*
32443385 GAAAAAATATTTAATGGATCTCGATTCCAATTTTCCATTCTCAACATGAGCATACGCAGGACACT
196 GAAAAAATATTTAATGGATCTCGATTCCAATTTTCCATTCTCAACATGAGCATACGCAGGACACC
*
32443450 CAAAGATCTTTAAGTCAGAATAATCAACAA
261 CAAAGATCTTTAAATCAGAATAATCAACAA
32443480 AAGGAGTCGACTTTGTTGTAGATTTTGAATTAATCTGATGCTCCACATGCTTTTGATTTTCTTTA
1 AAGGAGTCGACTTTGTTGTAGATTTTGAATTAATCTGATGCTCCACATGCTTTTGATTTTCTTTA
32443545 TTGGAAGAGTCTTTAAGAGATAATTTAGGTAGTATAGCAGTTTTATAAAAAACAACATCTCTGCT
66 TTGGAAGAGTCTTTAAGAGATAATTTAGGTAGTATAGCAGTTTTATAAAAAACAACATCTCTGCT
32443610 AATCACAACTTTTCTATTTTCAGGACACCATAACTTAGACTTTTTTACACCAGTTTTATAACCAA
131 AATCACAACTTTTCTATTTTCAGGACACCATAACTTAGACTTTTTTACACCAGTTTTATAACCAA
32443675 GAAAAAATATTTAATGGATCTCGATTCCAATTTTCCATTCTCAACATGAGCATACGCAGGACACC
196 GAAAAAATATTTAATGGATCTCGATTCCAATTTTCCATTCTCAACATGAGCATACGCAGGACACC
*
32443740 CAAAGATTTTTAAATCAGAATA
261 CAAAGATCTTTAAATCAGAATA
32443762 CCATACCACT
Statistics
Matches: 279, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 279 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (290 bp):
AAGGAGTCGACTTTGTTGTAGATTTTGAATTAATCTGATGCTCCACATGCTTTTGATTTTCTTTA
TTGGAAGAGTCTTTAAGAGATAATTTAGGTAGTATAGCAGTTTTATAAAAAACAACATCTCTGCT
AATCACAACTTTTCTATTTTCAGGACACCATAACTTAGACTTTTTTACACCAGTTTTATAACCAA
GAAAAAATATTTAATGGATCTCGATTCCAATTTTCCATTCTCAACATGAGCATACGCAGGACACC
CAAAGATCTTTAAATCAGAATAATCAACAA
Found at i:32452116 original size:21 final size:20
Alignment explanation
Indices: 32452092--32452174 Score: 52
Period size: 18 Copynumber: 4.1 Consensus size: 20
32452082 TGATTGATAT
32452092 TGAAATGGCCAAGATGAGAAA
1 TGAAATGG-CAAGATGAGAAA
32452113 TGAATAT-G--AGATGAGAAATA
1 TGAA-ATGGCAAGATGAG-AA-A
*
32452133 TTGAATTGGCAAAGATGAGAAA
1 -TGAAATGGC-AAGATGAGAAA
32452155 TG-AATGTG--AGATGAGAAA
1 TGAAATG-GCAAGATGAGAAA
32452173 TG
1 TG
32452175 TGATATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 21
0.69 0.03 0.28
Matches are distributed among these distances:
18 19 0.37
19 2 0.04
20 5 0.10
21 13 0.25
22 3 0.06
23 2 0.04
24 7 0.14
ACGTcount: A:0.46, C:0.04, G:0.29, T:0.22
Consensus pattern (20 bp):
TGAAATGGCAAGATGAGAAA
Found at i:32452126 original size:18 final size:18
Alignment explanation
Indices: 32452103--32452196 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 18
32452093 GAAATGGCCA
32452103 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
32452121 AGATGAGAAATATTGAAT-TGG
1 AGATGAG-AA-A-TGAATAT-G
*
32452142 CAAAGATGAGAAATGAATGTG
1 ---AGATGAGAAATGAATATG
*
32452163 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
32452182 AAATGATGAAATGAA
1 AGATGA-GAAATGAA
32452197 ATGTGAAACT
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
18 19 0.31
19 12 0.19
20 8 0.13
21 12 0.19
22 2 0.03
23 2 0.03
24 7 0.11
ACGTcount: A:0.48, C:0.01, G:0.28, T:0.23
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:32452148 original size:42 final size:42
Alignment explanation
Indices: 32452088--32452173 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
32452078 TATATGATTG
*
32452088 ATATTGAAATGGCCAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
* *
32452130 ATATTGAATTGGCAAAGATGAGAAATGAATGTGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
32452172 AT
1 AT
32452174 GTGATATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
Found at i:32452197 original size:13 final size:12
Alignment explanation
Indices: 32452151--32452204 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
32452141 GCAAAGATGA
32452151 GAAATG-AATGT
1 GAAATGAAATGT
*
32452162 GAGATGAGAAATGT
1 GAAAT--GAAATGT
*
32452176 GATATGAAATGAT
1 GAAATGAAATG-T
32452189 GAAATGAAATGT
1 GAAATGAAATGT
32452201 GAAA
1 GAAA
32452205 CTTGAAATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.11
12 11 0.31
13 12 0.33
14 9 0.25
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GAAATGAAATGT
Found at i:32455633 original size:26 final size:29
Alignment explanation
Indices: 32455592--32455654 Score: 96
Period size: 26 Copynumber: 2.3 Consensus size: 29
32455582 CATATTGAAC
*
32455592 GAATTTTCTCGAAATTTTACCAGCGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
32455621 -AATTTT-T-GAAATTTTACCAACGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
32455647 GAATTTTC
1 GAATTTTC
32455655 AAAACTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 18 0.58
27 7 0.23
28 6 0.19
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (29 bp):
GAATTTTCTCGAAATTTTACCAACGGTAA
Found at i:32455663 original size:27 final size:26
Alignment explanation
Indices: 32455607--32455664 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
32455597 TTCTCGAAAT
* ** *
32455607 TTTACCAGCGGTAAAATTTTTGAAAT
1 TTTACCAACGGTAAAATTTTCAAAAC
32455633 TTTACCAACGGTAAGAATTTTCAAAAC
1 TTTACCAACGGTAA-AATTTTCAAAAC
32455660 TTTAC
1 TTTAC
32455665 TGTGTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (26 bp):
TTTACCAACGGTAAAATTTTCAAAAC
Found at i:32457851 original size:5 final size:5
Alignment explanation
Indices: 32457841--32457868 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32457831 AAGAAATTGT
32457841 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
32457869 ATTGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:32457871 original size:12 final size:12
Alignment explanation
Indices: 32457844--32457881 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32457834 AAATTGTTAT
32457844 TATATTATA-T-
1 TATATTATATTA
32457854 TATATTATATTA
1 TATATTATATTA
*
32457866 TATATTGTATTA
1 TATATTATATTA
32457878 TATA
1 TATA
32457882 AATAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
12 15 0.60
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TATATTATATTA
Found at i:32459657 original size:45 final size:45
Alignment explanation
Indices: 32459576--32459680 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
32459566 CTGTTACTGG
* * * *
32459576 TACTGTTACTATTACTGTTACCGATTCGGCATTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
* * *
32459621 TACTATTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
32459666 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
32459681 TGTTTCGGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:32459827 original size:18 final size:18
Alignment explanation
Indices: 32459804--32459991 Score: 139
Period size: 18 Copynumber: 10.4 Consensus size: 18
32459794 CTGATTATTT
32459804 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
32459822 CCGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
32459840 TTGGATAATAGATTGTTA
1 CTGAATAATTGACTGTTA
* * *
32459858 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* *
32459876 CTGAATAAATGA-TCATTA
1 CTGAATAATTGACT-GTTA
* * *
32459894 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
32459912 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
32459930 CTAAATAACTTTATTGCTA
1 CTGAATAA-TTGACTGTTA
*
32459949 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
32459966 CTAAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
*
32459984 CTGGATAA
1 CTGAATAA
32459992 CCGATCAATT
Statistics
Matches: 132, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
17 13 0.10
18 107 0.81
19 12 0.09
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:32459908 original size:54 final size:54
Alignment explanation
Indices: 32459789--32459991 Score: 160
Period size: 54 Copynumber: 3.8 Consensus size: 54
32459779 AAAGGTATAA
* * * * * * *
32459789 AATAACTGATTATTTCTGAATAATTGACTGTTACCGAATAATTGACTGTTATTG
1 AATAACTGATTGTTACTGAATAAATGACTGTTACTGAATAAATGACTATTACTG
* * * *
32459843 GATAA-TAGATTGTTACTGAATAACTGAATATTACTGAATAAATGA-TCATTACTG
1 AATAACT-GATTGTTACTGAATAAATGACTGTTACTGAATAAATGACT-ATTACTG
* * * * * **
32459897 AATAACTGATTGTCACTGAATAAATGACTGTTACTAAATAACTTTATTGCTACTG
1 AATAACTGATTGTTACTGAATAAATGACTGTTACTGAATAA-ATGACTATTACTG
* * * *
32459952 AATATCTGATT-TTACTAAATAATTGACTGTTACTGGATAA
1 AATAACTGATTGTTACTGAATAAATGACTGTTACTGAATAA
32459992 CCGATCAATT
Statistics
Matches: 118, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
53 2 0.02
54 97 0.82
55 18 0.15
56 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (54 bp):
AATAACTGATTGTTACTGAATAAATGACTGTTACTGAATAAATGACTATTACTG
Found at i:32460069 original size:36 final size:36
Alignment explanation
Indices: 32459789--32460084 Score: 184
Period size: 36 Copynumber: 8.0 Consensus size: 36
32459779 AAAGGTATAA
* * * *
32459789 AATAACTGATTATTTCTGAATAATTGACTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * * *
32459825 AATAATTGACTGTTATTGGATAATAGATTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * **
32459861 AATAACTGAATATTACTGAATAAATGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * *
32459897 AATAACTGATTGTCACTGAATAAATGACTGTTACTA
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
32459933 AATAACTTTATTGCTACTGAAT-ATCTGATT-TTACTA
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * * *
32459969 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTA
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * *
32460013 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
32460049 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
32460084 A
1 A
32460085 TTGTTAATGA
Statistics
Matches: 196, Mismatches: 52, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
35 11 0.06
36 139 0.71
37 18 0.09
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:32460080 original size:18 final size:18
Alignment explanation
Indices: 32459789--32460084 Score: 130
Period size: 18 Copynumber: 16.1 Consensus size: 18
32459779 AAAGGTATAA
* * *
32459789 AATAACTGATTATTTCTG
1 AATAAATGATTGTTACTG
* * *
32459807 AATAATTGACTGTTACCG
1 AATAAATGATTGTTACTG
* * *
32459825 AATAATTGACTGTTATTG
1 AATAAATGATTGTTACTG
*
32459843 GAT-AATAGATTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
32459861 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
**
32459879 AATAAATGATCATTACTG
1 AATAAATGATTGTTACTG
* *
32459897 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
* *
32459915 AATAAATGACTGTTACTA
1 AATAAATGATTGTTACTG
* * *
32459933 AATAACTTTATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
32459952 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* *
32459969 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
32459987 GATAACCGATCAATTGATCGATACTA
1 AATAA---AT-GATTG-T---TACTG
* * * *
32460013 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
32460031 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
32460049 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
32460067 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
32460084 A
1 A
32460085 TTGTTAATGA
Statistics
Matches: 203, Mismatches: 63, Indels: 25
0.70 0.22 0.09
Matches are distributed among these distances:
17 18 0.09
18 154 0.76
19 14 0.07
21 2 0.01
22 5 0.02
23 2 0.01
26 8 0.04
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:32460524 original size:32 final size:33
Alignment explanation
Indices: 32460488--32460556 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
32460478 TTTACTAAAA
32460488 AATTCGTAGTGATTCTAAATTAGTCCCGAATT-
1 AATTCGTAGTGATTCTAAATTAGTCCCGAATTG
*
32460520 AATTCGTAGTGATTCTAAATTAGTTCCGAATTG
1 AATTCGTAGTGATTCTAAATTAGTCCCGAATTG
32460553 AATT
1 AATT
32460557 TACTGTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (33 bp):
AATTCGTAGTGATTCTAAATTAGTCCCGAATTG
Found at i:32460855 original size:10 final size:10
Alignment explanation
Indices: 32460840--32460868 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
32460830 ATTGCGTGTT
32460840 TGAATAGAAA
1 TGAATAGAAA
32460850 TGAATAG-AA
1 TGAATAGAAA
32460859 TGAATAGAAA
1 TGAATAGAAA
32460869 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:32461169 original size:26 final size:26
Alignment explanation
Indices: 32461123--32461185 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
32461113 ACAAATTTTC
32461123 TCAAAATTTTATCCGAGGTAAAAACG
1 TCAAAATTTTATCCGAGGTAAAAACG
* * **
32461149 TTAAAATTTTAT-CGGGAGTAAAATTG
1 TCAAAATTTTATCCGAG-GTAAAAACG
32461175 TCAAAATTTTA
1 TCAAAATTTTA
32461186 CTAGGGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATCCGAGGTAAAAACG
Found at i:32461374 original size:35 final size:35
Alignment explanation
Indices: 32461334--32461405 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
32461324 ACTCGATGGG
32461334 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
1 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
32461369 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
1 AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
32461404 AG
1 AG
32461406 CAATAACCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (35 bp):
AGAGATGCCCAAAACCTCTCATATAACATGAAGGT
Found at i:32469932 original size:14 final size:15
Alignment explanation
Indices: 32469913--32469941 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32469903 TTGAGTCTCT
32469913 TTATTTTATT-TTTA
1 TTATTTTATTATTTA
32469927 TTATTTTATTATTTA
1 TTATTTTATTATTTA
32469942 CTTTCAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTATTTA
Found at i:32475098 original size:2 final size:2
Alignment explanation
Indices: 32475091--32475130 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32475081 TGCAATCTGG
32475091 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
32475131 TATATTGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32477571 original size:10 final size:10
Alignment explanation
Indices: 32477558--32477602 Score: 72
Period size: 10 Copynumber: 4.5 Consensus size: 10
32477548 ATAAACACAA
32477558 ATAAATAAAG
1 ATAAATAAAG
*
32477568 ATAATTAAAG
1 ATAAATAAAG
*
32477578 ATAAATAAGG
1 ATAAATAAAG
32477588 ATAAATAAAG
1 ATAAATAAAG
32477598 ATAAA
1 ATAAA
32477603 AGCTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:32477958 original size:22 final size:22
Alignment explanation
Indices: 32477930--32477973 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32477920 TGAAGAAGAA
32477930 AAACAAGTTGAACTTTAATTGC
1 AAACAAGTTGAACTTTAATTGC
32477952 AAACAAGTTGAACTTTAATTGC
1 AAACAAGTTGAACTTTAATTGC
32477974 TTGAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
AAACAAGTTGAACTTTAATTGC
Found at i:32479211 original size:14 final size:14
Alignment explanation
Indices: 32479192--32479229 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
32479182 TCTTTATACA
32479192 TTTAAAACATTTGT
1 TTTAAAACATTTGT
32479206 TTTAAAACATTTGT
1 TTTAAAACATTTGT
*
32479220 TTTGAAACAT
1 TTTAAAACAT
32479230 CCCTCGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (14 bp):
TTTAAAACATTTGT
Found at i:32479760 original size:27 final size:26
Alignment explanation
Indices: 32479700--32479761 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
32479690 GAAAGGCTCT
32479700 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
32479726 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
32479754 ATTTTATT
1 ATTTTATT
32479762 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:32479776 original size:10 final size:10
Alignment explanation
Indices: 32479757--32479788 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
32479747 TTTTAGGATT
32479757 TTAT-TTTAA
1 TTATCTTTAA
32479766 TTATCTTTAA
1 TTATCTTTAA
32479776 TTATCTTTAA
1 TTATCTTTAA
32479786 TTA
1 TTA
32479789 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:32485890 original size:3 final size:3
Alignment explanation
Indices: 32485875--32485932 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
32485865 ATTTTAAATT
* * *
32485875 TTA TTA TTT TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TTT TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32485921 TTA TT- TTA TTA T
1 TTA TTA TTA TTA T
32485933 ATTTAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.13
3 40 0.87
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:32485913 original size:25 final size:24
Alignment explanation
Indices: 32485882--32485953 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 24
32485872 ATTTTATTAT
32485882 TTTTATTATTATTATTATTATTTTA
1 TTTTATT-TTATTATTATTATTTTA
*
32485907 TTTTA-TTT-TTATTTTTATTTTA
1 TTTTATTTTATTATTATTATTTTA
* * *
32485929 TTATATTTAATTTTTAATTATTTTA
1 TTTTATTTTATTATT-ATTATTTTA
32485954 ATAAAATTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 17 0.44
23 4 0.10
24 5 0.13
25 13 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTATTTTATTATTATTATTTTA
Found at i:32485916 original size:31 final size:32
Alignment explanation
Indices: 32485878--32485942 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
32485868 TTAAATTTTA
32485878 TTATTTTTATTATTATTATTATTAT-TTT-ATT
1 TTATTTTTATTATTATT-TTATTATATTTAATT
*
32485909 TTATTTTTATTTTTATTTTATTATATTTAATT
1 TTATTTTTATTATTATTTTATTATATTTAATT
32485941 TT
1 TT
32485943 TAATTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 19 0.61
32 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (32 bp):
TTATTTTTATTATTATTTTATTATATTTAATT
Found at i:32485918 original size:22 final size:22
Alignment explanation
Indices: 32485875--32485936 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
32485865 ATTTTAAATT
* *
32485875 TTATTATTTT-TATTATTATTA
1 TTATTATTTTATTTTATTTTTA
32485896 TTATTATTTTATTTTATTTTTA
1 TTATTATTTTATTTTATTTTTA
* *
32485918 TTTTTATTTTATTATATTT
1 TTATTATTTTATTTTATTT
32485937 AATTTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATTTTATTTTATTTTTA
Found at i:32485948 original size:17 final size:15
Alignment explanation
Indices: 32485865--32485955 Score: 65
Period size: 15 Copynumber: 6.5 Consensus size: 15
32485855 CCAATCTTTA
*
32485865 ATTTTAAATTTTATT
1 ATTTTAATTTTTATT
* *
32485880 ATTTTTATTATTATT
1 ATTTTAATTTTTATT
*
32485895 A--TT-ATTATT-TT
1 ATTTTAATTTTTATT
32485906 ATTTT-ATTTTTA-T
1 ATTTTAATTTTTATT
32485919 -TTTT-A-TTTTATT
1 ATTTTAATTTTTATT
32485931 ATATTTAATTTTTAATT
1 AT-TTTAATTTTT-ATT
32485948 ATTTTAAT
1 ATTTTAAT
32485956 AAAATTCTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
11 8 0.13
12 12 0.19
13 11 0.17
14 3 0.05
15 14 0.22
16 10 0.16
17 5 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTAATTTTTATT
Found at i:32485955 original size:9 final size:8
Alignment explanation
Indices: 32485872--32485953 Score: 69
Period size: 9 Copynumber: 9.8 Consensus size: 8
32485862 TTAATTTTAA
32485872 ATTTTATT
1 ATTTTATT
32485880 ATTTTTATT
1 A-TTTTATT
32485889 ATTATTATT
1 ATT-TTATT
32485898 ATTATT-TT
1 ATT-TTATT
32485906 ATTTTATT
1 ATTTTATT
* *
32485914 TTTATTTTT
1 ATT-TTATT
32485923 ATTTTATT
1 ATTTTATT
32485931 ATATTTAATT
1 AT-TTT-ATT
*
32485941 -TTTAATT
1 ATTTTATT
32485948 ATTTTA
1 ATTTTA
32485954 ATAAAATTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
7 5 0.08
8 24 0.39
9 29 0.48
10 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:32488641 original size:115 final size:115
Alignment explanation
Indices: 32488433--32488714 Score: 521
Period size: 115 Copynumber: 2.4 Consensus size: 115
32488423 TGACTGACTA
*
32488433 AGTAACCGGGGTAGGGTGCTTGGGTTGTCATTCTACTTTGCGTCAAAAGGTTCCGTGACGTGTTG
1 AGTAACGGGGGT-GGGTGCTTGGGTTGTCATTCTACTTTGCGTCAAAAGGTTCCGTGACGTGTTG
32488498 GGTAAAACTCCGCTAACCGAAAATAAAAAATTTTAGGAGTATGTTGGGCTG
65 GGTAAAACTCCGCTAACCGAAAATAAAAAATTTTAGGAGTATGTTGGGCTG
32488549 AGTAACGGGGGTGGGTGCTTGGGTTGTCATTCTACTTTGCGTCAAAAGGTTCCGTGACGTGTTGG
1 AGTAACGGGGGTGGGTGCTTGGGTTGTCATTCTACTTTGCGTCAAAAGGTTCCGTGACGTGTTGG
32488614 GTAAAACTCCGCTAACCGAAAATAAAAAATTTTAGGAGTATGTTGGGCTG
66 GTAAAACTCCGCTAACCGAAAATAAAAAATTTTAGGAGTATGTTGGGCTG
*
32488664 AGTAACGGGGGTGGGTGCTTGGGTTGTCATCTCT-CTTCGCGTCAAAAGGTT
1 AGTAACGGGGGTGGGTGCTTGGGTTGTCAT-TCTACTTTGCGTCAAAAGGTT
32488715 TAATATATTC
Statistics
Matches: 163, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
115 149 0.91
116 14 0.09
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.30
Consensus pattern (115 bp):
AGTAACGGGGGTGGGTGCTTGGGTTGTCATTCTACTTTGCGTCAAAAGGTTCCGTGACGTGTTGG
GTAAAACTCCGCTAACCGAAAATAAAAAATTTTAGGAGTATGTTGGGCTG
Found at i:32488776 original size:9 final size:9
Alignment explanation
Indices: 32488764--32488788 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32488754 AAAAAATTCA
32488764 AAAAAAAAG
1 AAAAAAAAG
32488773 AAAAAAAAG
1 AAAAAAAAG
32488782 AAAAAAA
1 AAAAAAA
32488789 TAAGTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:32490682 original size:31 final size:31
Alignment explanation
Indices: 32490636--32490717 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
32490626 TCGGTAAAAA
*
32490636 TGGGCTCACACGCCCATGTGATCTGCCCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
* * *
32490667 TGGGCCCATATGCCCATGTGATCTGCTCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
32490698 TGGGCCCACACGCCCATGTG
1 TGGGCCCACACGCCCATGTG
32490718 GCCCACTCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.13, C:0.34, G:0.29, T:0.23
Consensus pattern (31 bp):
TGGGCCCACACGCCCATGTGATCTGCCCGTG
Found at i:32492698 original size:31 final size:31
Alignment explanation
Indices: 32492663--32492738 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
32492653 AATGTGGATA
*
32492663 ATTACAGGGTATGAACATGTGAATATGAATG
1 ATTACAGGGTATGAACATATGAATATGAATG
* * * *
32492694 ATTACCGAGTATAAACATATGAATATGGATG
1 ATTACAGGGTATGAACATATGAATATGAATG
32492725 ATTACAGGGTATGA
1 ATTACAGGGTATGA
32492739 TAATGCAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (31 bp):
ATTACAGGGTATGAACATATGAATATGAATG
Found at i:32495531 original size:57 final size:58
Alignment explanation
Indices: 32495462--32495579 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
32495452 TATTTCCAGG
* * *
32495462 TCATTTTCATTTTAGAGAAAGCCACATTCATTTCCAGATGATTCC-ATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
* * * *
32495519 TCATTTTTATTTTAGAGAAAATCATAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
32495577 TCA
1 TCA
32495580 CTATGTCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 38 0.72
58 15 0.28
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (58 bp):
TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
Found at i:32497530 original size:52 final size:52
Alignment explanation
Indices: 32497473--32497578 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
32497463 TAACATAAAA
* *
32497473 AAAAGTTCCTCATATGATTAATATTACACACATGGAAGGCCAAATAAATAAG
1 AAAAGTTCCTCATATGATCAATATTACACACATAGAAGGCCAAATAAATAAG
32497525 AAAAGTTCCTCATATGATCAATATTACACACATAGAAGGCCAAATAAATAAG
1 AAAAGTTCCTCATATGATCAATATTACACACATAGAAGGCCAAATAAATAAG
32497577 AA
1 AA
32497579 TGATGTATCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (52 bp):
AAAAGTTCCTCATATGATCAATATTACACACATAGAAGGCCAAATAAATAAG
Found at i:32503110 original size:22 final size:23
Alignment explanation
Indices: 32503084--32503142 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
32503074 TCGTGGAAAT
32503084 TCATGGAACT-TCGTGAAACTGC
1 TCATGGAACTGTCGTGAAACTGC
* * * *
32503106 TCATGGGA-TGTTGTGGAACTGT
1 TCATGGAACTGTCGTGAAACTGC
32503128 TCATGGAACTAGTCG
1 TCATGGAACT-GTCG
32503143 CAAAACTGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 1 0.04
22 23 0.82
23 1 0.04
24 3 0.11
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (23 bp):
TCATGGAACTGTCGTGAAACTGC
Found at i:32504260 original size:56 final size:56
Alignment explanation
Indices: 32504174--32504330 Score: 305
Period size: 56 Copynumber: 2.8 Consensus size: 56
32504164 ATGATGGGCA
32504174 AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATG
1 AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATG
32504230 AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATG
1 AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATG
*
32504286 AAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAA
1 AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAA
32504331 TAAACTAATA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 100 1.00
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.23
Consensus pattern (56 bp):
AAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAAACATGTCATG
Found at i:32508229 original size:64 final size:64
Alignment explanation
Indices: 32508128--32508254 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
32508118 ACTTGGATGG
32508128 GTTGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAACATAC
1 GTTGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAACATAC
*
32508192 GTTGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAGCATA
1 GTTGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAACATA
32508255 TCTTGCGTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (64 bp):
GTTGCCAGCTGTAATATCCTCAATGTTGGCCCAGAAATATGTAAGAAAAGGGTGCGAAACATAC
Found at i:32512153 original size:80 final size:79
Alignment explanation
Indices: 32512069--32512240 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
32512059 GGACTAAGAT
*
32512069 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
32512133 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
32512149 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
32512214 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
32512228 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32512241 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:32512220 original size:39 final size:39
Alignment explanation
Indices: 32512016--32512238 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
32512006 TTGAATGCTG
* * * * *
32512016 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
32512056 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
32512095 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
32512136 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
32512176 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
32512215 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32512239 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:32512258 original size:79 final size:80
Alignment explanation
Indices: 32512096--32512273 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
32512086 AGATACAAAT
* * * *
32512096 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
32512161 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
32512176 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
32512240 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
32512255 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32512274 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:32516435 original size:46 final size:46
Alignment explanation
Indices: 32516368--32516460 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
32516358 ATTGGTTGCA
32516368 AAACGGGCTGAGTGTGTTCCGAACAAGGAATCGGAGTGTCAAATTG
1 AAACGGGCTGAGTGTGTTCCGAACAAGGAATCGGAGTGTCAAATTG
*
32516414 AAACGGGCTGAGTGTGTTCCGAACAAGGAATCGGAGTTTCAAATTG
1 AAACGGGCTGAGTGTGTTCCGAACAAGGAATCGGAGTGTCAAATTG
32516460 A
1 A
32516461 TGATGATGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (46 bp):
AAACGGGCTGAGTGTGTTCCGAACAAGGAATCGGAGTGTCAAATTG
Found at i:32524297 original size:9 final size:9
Alignment explanation
Indices: 32524285--32524309 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32524275 TTTTCTCTTT
32524285 TTTTAAATA
1 TTTTAAATA
32524294 TTTTAAATA
1 TTTTAAATA
32524303 TTTTAAA
1 TTTTAAA
32524310 AAATTGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTAAATA
Found at i:32525590 original size:20 final size:20
Alignment explanation
Indices: 32525551--32525590 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32525541 AAATTATTTT
*
32525551 AAAAAATTATAAAAATGAAA
1 AAAAAATTATAAAAAGGAAA
32525571 AAAAAATTA-AAAATAGGAAA
1 AAAAAATTATAAAA-AGGAAA
32525591 TTACCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
AAAAAATTATAAAAAGGAAA
Found at i:32528309 original size:52 final size:52
Alignment explanation
Indices: 32528248--32528354 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
32528238 TCTCGGCCTG
32528248 GCTTGAAAAATAGGTCTAAAATTTTGTCCAAACTCAGCCCATATTAAAAAAT
1 GCTTGAAAAATAGGTCTAAAATTTTGTCCAAACTCAGCCCATATTAAAAAAT
32528300 GCTTGAAAAATAGGTCTAAAATTTTGTCCAAACTCAGCCCATATTAAAAAAT
1 GCTTGAAAAATAGGTCTAAAATTTTGTCCAAACTCAGCCCATATTAAAAAAT
32528352 GCT
1 GCT
32528355 AAACTCTAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (52 bp):
GCTTGAAAAATAGGTCTAAAATTTTGTCCAAACTCAGCCCATATTAAAAAAT
Found at i:32532702 original size:30 final size:30
Alignment explanation
Indices: 32532667--32532733 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
32532657 TAAACTAAAT
*
32532667 AGTATAATCACACAATTCAAATATAATATA
1 AGTATAATCACACAATTCAAACATAATATA
32532697 AGTATAATCACACAATTCAAACATAATATA
1 AGTATAATCACACAATTCAAACATAATATA
32532727 A-TATAAT
1 AGTATAAT
32532734 ATAATATAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (30 bp):
AGTATAATCACACAATTCAAACATAATATA
Found at i:32534123 original size:26 final size:26
Alignment explanation
Indices: 32534094--32534153 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
32534084 TCAGAAATGA
32534094 AAAATTTTAACT-ATTTTGCCCCTAGT
1 AAAATTTTAA-TGATTTTGCCCCTAGT
* * * *
32534120 AAAATTTTGATGATTTTGTCTCTTGT
1 AAAATTTTAATGATTTTGCCCCTAGT
32534146 AAAATTTT
1 AAAATTTT
32534154 GAGAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (26 bp):
AAAATTTTAATGATTTTGCCCCTAGT
Found at i:32535046 original size:20 final size:20
Alignment explanation
Indices: 32535021--32535062 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32535011 GAATGGTGCT
32535021 ACATATTACAGAAGTCGTAC
1 ACATATTACAGAAGTCGTAC
32535041 ACATATTACAGAAGTCGTAC
1 ACATATTACAGAAGTCGTAC
32535061 AC
1 AC
32535063 CCAACACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (20 bp):
ACATATTACAGAAGTCGTAC
Found at i:32536207 original size:14 final size:14
Alignment explanation
Indices: 32536188--32536214 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32536178 GTTTACGTGT
32536188 AAAATGTTTTATGG
1 AAAATGTTTTATGG
32536202 AAAATGTTTTATG
1 AAAATGTTTTATG
32536215 CATTTTCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
AAAATGTTTTATGG
Found at i:32536536 original size:22 final size:22
Alignment explanation
Indices: 32536511--32536554 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32536501 TAGTCATATA
32536511 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
32536533 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
32536555 TATTTAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:32536590 original size:13 final size:14
Alignment explanation
Indices: 32536574--32536615 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
32536564 GTTCAATTTT
32536574 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
32536587 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
32536602 ATTTTAAATAATAT
1 ATTTT-AATAATAT
32536616 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:32536600 original size:16 final size:16
Alignment explanation
Indices: 32536578--32536614 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
32536568 AATTTTATTT
32536578 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
32536595 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
32536610 TAATA
1 TAATA
32536615 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:32536667 original size:15 final size:15
Alignment explanation
Indices: 32536647--32536698 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
32536637 ATTCAATATT
32536647 AATATTTTAATAATA
1 AATATTTTAATAATA
*
32536662 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
32536681 AATATATTAATAATA
1 AATATTTTAATAATA
32536696 AAT
1 AAT
32536699 GTTTCGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:32548905 original size:11 final size:11
Alignment explanation
Indices: 32548889--32548919 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32548879 ATACCCATAC
32548889 CCCATACCTTG
1 CCCATACCTTG
*
32548900 CCCATACCTTT
1 CCCATACCTTG
32548911 CCCATACCT
1 CCCATACCT
32548920 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:32549494 original size:18 final size:18
Alignment explanation
Indices: 32549467--32549523 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
32549457 TACGACCGTT
32549467 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
32549485 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
32549503 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
32549521 TAC
1 TAC
32549524 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:32553593 original size:11 final size:11
Alignment explanation
Indices: 32553577--32553607 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32553567 ATACCCATAC
32553577 CCCATACCTTG
1 CCCATACCTTG
*
32553588 CCCATACCTTT
1 CCCATACCTTG
32553599 CCCATACCT
1 CCCATACCT
32553608 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:32554837 original size:7 final size:7
Alignment explanation
Indices: 32554825--32554854 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
32554815 TATTTTTATG
32554825 TAATATT
1 TAATATT
32554832 TAATATT
1 TAATATT
32554839 TAATATT
1 TAATATT
32554846 TATATATT
1 TA-ATATT
32554854 T
1 T
32554855 TATTACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TAATATT
Found at i:32557934 original size:47 final size:48
Alignment explanation
Indices: 32557857--32557947 Score: 125
Period size: 47 Copynumber: 1.9 Consensus size: 48
32557847 TTTAAGGGTT
*
32557857 AAAAAGATTATGAATAAAAATAGGTATTGTATTGAAA-AATATATTTTG
1 AAAAAGATTATAAATAAAAATAGGTATTGTATT-AAAGAATATATTTTG
*
32557905 AAAAA-ATTATAAATAAAAAT-GAGTTTTGTATTAAAGAATATAT
1 AAAAAGATTATAAATAAAAATAG-GTATTGTATTAAAGAATATAT
32557948 ATTACATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
46 4 0.10
47 30 0.77
48 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (48 bp):
AAAAAGATTATAAATAAAAATAGGTATTGTATTAAAGAATATATTTTG
Found at i:32558967 original size:129 final size:129
Alignment explanation
Indices: 32558737--32559015 Score: 549
Period size: 129 Copynumber: 2.2 Consensus size: 129
32558727 AATTTTTTTG
32558737 AATTTAATTTTTTTAAATTAAAAAAATACCATCGTGCTAGCAATGGCCAGAGAACTAATCCGTCT
1 AATTTAATTTTTTTAAATTAAAAAAATACCATCGTGCTAGCAATGGCCAGAGAACTAATCCGTCT
32558802 TGATAATAAGCACATCTCCGTTGAGCAAATGAAAATGGTAAGTGATATTTAATTTATTTATGCA
66 TGATAATAAGCACATCTCCGTTGAGCAAATGAAAATGGTAAGTGATATTTAATTTATTTATGCA
32558866 AATTTAATTTTTTTAAATTAAAAAAATACCATCGTGCTAGCAATGGCCAGAGAACTAATCCGTCT
1 AATTTAATTTTTTTAAATTAAAAAAATACCATCGTGCTAGCAATGGCCAGAGAACTAATCCGTCT
32558931 TGATAATAAGCACATCTCCGTTGAGCAAATGAAAATGGTAAGTGATATTTAATTTATTTATGCA
66 TGATAATAAGCACATCTCCGTTGAGCAAATGAAAATGGTAAGTGATATTTAATTTATTTATGCA
*
32558995 AATTTAATTTTTTTAATTTAA
1 AATTTAATTTTTTTAAATTAA
32559016 TTTTCAGTTA
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 149 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AATTTAATTTTTTTAAATTAAAAAAATACCATCGTGCTAGCAATGGCCAGAGAACTAATCCGTCT
TGATAATAAGCACATCTCCGTTGAGCAAATGAAAATGGTAAGTGATATTTAATTTATTTATGCA
Found at i:32560571 original size:14 final size:14
Alignment explanation
Indices: 32560552--32560611 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
32560542 ACGACGTAGG
32560552 CCCATCAACAGCGC
1 CCCATCAACAGCGC
32560566 CCCATCAACAGCGCC
1 CCCATCAACAGCG-C
32560581 CACACAATCAACAG-G-
1 C-C-C-ATCAACAGCGC
*
32560596 CCCATCAACAGTGC
1 CCCATCAACAGCGC
32560610 CC
1 CC
32560612 ATACAATCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.20
13 2 0.05
14 16 0.40
15 3 0.08
16 1 0.03
17 2 0.05
18 8 0.20
ACGTcount: A:0.32, C:0.47, G:0.13, T:0.08
Consensus pattern (14 bp):
CCCATCAACAGCGC
Found at i:32560602 original size:30 final size:30
Alignment explanation
Indices: 32560555--32560636 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
32560545 ACGTAGGCCC
32560555 ATCAACAGCGCCCCATCAACAGCGCCCACACA
1 ATCAACAG-G-CCCATCAACAGCGCCCACACA
* *
32560587 ATCAACAGGCCCATCAACAGTGCCCATACA
1 ATCAACAGGCCCATCAACAGCGCCCACACA
* *
32560617 ATCAGCAAGCCCATCAACAG
1 ATCAACAGGCCCATCAACAG
32560637 TGCTGCCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 37 0.80
31 1 0.02
32 8 0.17
ACGTcount: A:0.37, C:0.40, G:0.13, T:0.10
Consensus pattern (30 bp):
ATCAACAGGCCCATCAACAGCGCCCACACA
Found at i:32560637 original size:30 final size:30
Alignment explanation
Indices: 32560566--32560639 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
32560556 TCAACAGCGC
* *
32560566 CCCATCAACAGCGCCCACACAATCAACAGG
1 CCCATCAACAGTGCCCACACAATCAACAAG
* *
32560596 CCCATCAACAGTGCCCATACAATCAGCAAG
1 CCCATCAACAGTGCCCACACAATCAACAAG
32560626 CCCATCAACAGTGC
1 CCCATCAACAGTGC
32560640 TGCCACAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.35, C:0.41, G:0.14, T:0.11
Consensus pattern (30 bp):
CCCATCAACAGTGCCCACACAATCAACAAG
Found at i:32560659 original size:30 final size:28
Alignment explanation
Indices: 32560555--32560659 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
32560545 ACGTAGGCCC
*
32560555 ATCAACAGCGCCCCATCAACAGCGCCCACACA
1 ATCAACAG-G-CCCATCAACAGTG-CC-CACA
32560587 ATCAACAGGCCCATCAACAGTGCCCATACA
1 ATCAACAGGCCCATCAACAGTGCCC--ACA
* *
32560617 ATCAGCAAGCCCATCAACAGTGCTGCCACA
1 ATCAACAGGCCCATCAACAGTGC--CCACA
* *
32560647 ATCACCGGGCCCA
1 ATCAACAGGCCCA
32560660 ACAGCTCAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 49 0.78
31 1 0.02
32 10 0.16
ACGTcount: A:0.33, C:0.41, G:0.15, T:0.10
Consensus pattern (28 bp):
ATCAACAGGCCCATCAACAGTGCCCACA
Found at i:32560737 original size:18 final size:18
Alignment explanation
Indices: 32560716--32560758 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32560706 TGCCAGGTAC
*
32560716 GTATCCTATCCCTTATAT
1 GTATCCTAACCCTTATAT
*
32560734 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
32560752 GTTTCCT
1 GTATCCT
32560759 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:32565217 original size:126 final size:126
Alignment explanation
Indices: 32564944--32565692 Score: 1284
Period size: 126 Copynumber: 6.0 Consensus size: 126
32564934 ATAGCCTCAG
*
32564944 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
32565009 CAGTGCATCCTGCTTGAAGCATTTTT-ACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* ** *
32565069 TTTTTCTACAAACTACAATAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTACTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
* *
32565134 TAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* *
32565195 TTTTTCTACGAACTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTTCCGAAATCTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
* *
32565260 CAGTTCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * *
32565321 TTTTTCTACGAACTACTATAGCAAAAGCGCGTCCACATGGGAGATTTTTTCCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
32565386 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
** *
32565447 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTAAGAGCTTTTTTTCGAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
32565512 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * * *
32565573 ATTTTCTACGAACTATTGTAGCAAAAGCGCGACCACGTGGGAGCTTTTTTCCAAAATTTTGCTGA
1 TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
*
32565638 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTACTCA
66 CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCA
32565693 ATTAACCTAA
Statistics
Matches: 586, Mismatches: 37, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
125 84 0.14
126 502 0.86
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (126 bp):
TTTTTCTACGAACTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCCGAAATTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATTA
Found at i:32565713 original size:18 final size:19
Alignment explanation
Indices: 32565690--32565730 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32565680 AAACATCTAC
32565690 TCAATTAAC-CTAAATTAA
1 TCAATTAACGCTAAATTAA
* *
32565708 TCAATTAACGCTCATTTAA
1 TCAATTAACGCTAAATTAA
32565727 TCAA
1 TCAA
32565731 ATGATTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (19 bp):
TCAATTAACGCTAAATTAA
Found at i:32565827 original size:19 final size:19
Alignment explanation
Indices: 32565803--32565875 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
32565793 ACCATTATGT
32565803 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAAATTA
* * *
32565822 ATCAATTAACGCTCATTTA
1 ATCAATTAACCCTAAATTA
*
32565841 ATCGAA-TAACCCTAATTTA
1 ATC-AATTAACCCTAAATTA
* * *
32565860 ATTAACTAACCATAAA
1 ATCAATTAACCCTAAA
32565876 CCCTAAACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.05
19 40 0.91
20 2 0.05
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (19 bp):
ATCAATTAACCCTAAATTA
Found at i:32565947 original size:7 final size:7
Alignment explanation
Indices: 32565932--32565989 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
32565922 TTTATGAATT
*
32565932 AACCATA
1 AACCCTA
32565939 AACCCTA
1 AACCCTA
32565946 AACCACT-
1 AACC-CTA
*
32565953 AACCATA
1 AACCCTA
32565960 AACCCTA
1 AACCCTA
32565967 AACCACT-
1 AACC-CTA
*
32565974 AACCATA
1 AACCCTA
32565981 AACCCTA
1 AACCCTA
32565988 AA
1 AA
32565990 ATAACTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 2 0.05
7 36 0.86
8 4 0.10
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:32565956 original size:14 final size:15
Alignment explanation
Indices: 32565932--32565989 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
32565922 TTTATGAATT
32565932 AACCA-TAAACCCTA
1 AACCACTAAACCCTA
*
32565946 AACCACT-AACCATA
1 AACCACTAAACCCTA
32565960 AACC-CTAAACCACT-
1 AACCACTAAACC-CTA
32565974 AACCA-TAAACCCTA
1 AACCACTAAACCCTA
32565988 AA
1 AA
32565990 ATAACTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.11
14 31 0.84
15 2 0.05
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (15 bp):
AACCACTAAACCCTA
Found at i:32565957 original size:21 final size:21
Alignment explanation
Indices: 32565931--32565989 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
32565921 TTTTATGAAT
32565931 TAACCATAAACCCTAAACCAC
1 TAACCATAAACCCTAAACCAC
32565952 TAACCATAAACCCTAAACCAC
1 TAACCATAAACCCTAAACCAC
32565973 TAACCATAAACCCTAAA
1 TAACCATAAACCCTAAA
32565990 ATAACTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (21 bp):
TAACCATAAACCCTAAACCAC
Found at i:32566242 original size:21 final size:22
Alignment explanation
Indices: 32566218--32566263 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
32566208 TGAAAAACAT
*
32566218 AAATTAATAATAA-TTAAG-ATA
1 AAATT-ATAAAAATTTAAGAATA
32566239 AAATTATAAAAATTTAAGAATA
1 AAATTATAAAAATTTAAGAATA
32566261 AAA
1 AAA
32566264 ATAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 10 0.45
22 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATTATAAAAATTTAAGAATA
Found at i:32569498 original size:47 final size:47
Alignment explanation
Indices: 32569428--32569553 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
32569418 AAGTGATTTC
* * *
32569428 CGTATAATACCATATCTGGGATATGACATCGGTATGATATATGCT-ACT
1 CGTATAAGACCATATCTGGGATATGACATCGAT-TGAGATATG-TGACT
*
32569476 -GTATAAGACCATATCTGGGATATGACATC-ATTGAGATATGTGATT
1 CGTATAAGACCATATCTGGGATATGACATCGATTGAGATATGTGACT
* * *
32569521 CGTGTAAGACCATAGCTGGGCTATGACATCGAT
1 CGTATAAGACCATATCTGGGATATGACATCGAT
32569554 AAATGAAGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 1 0.01
45 10 0.15
46 27 0.40
47 30 0.44
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGACATCGATTGAGATATGTGACT
Found at i:32569587 original size:42 final size:43
Alignment explanation
Indices: 32569522--32569604 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
32569512 TATGTGATTC
** *
32569522 GTGTAAGACCATAGCTGGGCTATGACATCGA-TAAATGAAGAT
1 GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAGAT
*
32569564 GTGTAAGACCATAGTTGAACTATGACATCGAGTAAACGAAG
1 GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAG
32569605 TACTCAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAACTATGACATCGAGTAAACGAAGAT
Found at i:32573700 original size:17 final size:17
Alignment explanation
Indices: 32573678--32573712 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32573668 TTTCAAAGAG
*
32573678 TGTGATGTTCAATTAAT
1 TGTGATGTTCAATCAAT
32573695 TGTGATGTTCAATCAAT
1 TGTGATGTTCAATCAAT
32573712 T
1 T
32573713 TTTTACGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.46
Consensus pattern (17 bp):
TGTGATGTTCAATCAAT
Found at i:32578881 original size:3 final size:3
Alignment explanation
Indices: 32578873--32578911 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32578863 TGTTTGTTTA
32578873 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
32578912 GTTTTGTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Done.