Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 98 of 172
Found at i:33050128 original size:18 final size:18
Alignment explanation
Indices: 33050105--33050140 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33050095 CACATAAAAG
33050105 ATTAAGTGAGGTAACAAT
1 ATTAAGTGAGGTAACAAT
33050123 ATTAAGTGAGGTAACAAT
1 ATTAAGTGAGGTAACAAT
33050141 GTATTCCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (18 bp):
ATTAAGTGAGGTAACAAT
Found at i:33056463 original size:16 final size:15
Alignment explanation
Indices: 33056438--33056471 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33056428 AAAGTTGATA
*
33056438 ATAATTAATATATATT
1 ATAATAAATATA-ATT
33056454 ATAATAAATATAATT
1 ATAATAAATATAATT
33056469 ATA
1 ATA
33056472 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:33056594 original size:30 final size:30
Alignment explanation
Indices: 33056537--33056595 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33056527 TGCCTTTGAA
* * *
33056537 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGACACACCAAATTTTT
33056567 AATATTTACAAAAAGATCA-ACCAAATTTT
1 AATATTTACAAAAAGA-CACACCAAATTTT
33056596 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGACACACCAAATTTTT
Found at i:33069898 original size:42 final size:43
Alignment explanation
Indices: 33069816--33069908 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
33069806 AGTCATAATG
* * *
33069816 TAATCTCGTATCGATGCCAATAGCCCAGCTATGGTGTTACACA
1 TAATCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACA
* *
33069859 -AAGTCTCATATCGATGCC-ATATCCCGGATATGGTCTTACACA
1 TAA-TCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACA
33069901 TAATCTCA
1 TAATCTCA
33069909 GTAACCCTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
TAATCTCATATCGATGCCAATAGCCCAGATATGGTCTTACACA
Found at i:33072693 original size:16 final size:16
Alignment explanation
Indices: 33072674--33072704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33072664 CTTTTGCACT
33072674 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33072690 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33072705 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33072710 original size:20 final size:20
Alignment explanation
Indices: 33072671--33072710 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33072661 AAACTTTTGC
* *
33072671 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
33072691 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
33072711 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:33073023 original size:53 final size:54
Alignment explanation
Indices: 33072894--33073148 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
33072884 ACTCGGTTAC
* * * *
33072894 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * **
33072943 CTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
33072996 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* ** * *
33073051 CTTATCAATGCCATATCTTGACATGGTCTTGCACGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
33073104 CCTTACCAACTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
33073149 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 10 0.06
55 69 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:33073518 original size:30 final size:30
Alignment explanation
Indices: 33073484--33073542 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
33073474 TCCTTGACTC
*
33073484 AAACTTTTGCAAAATTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
* * *
33073514 AAACTTTTACATATTTACACTTTTTCCCC
1 AAACTTTTACAAAATTACACTTTTGCCCC
33073543 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACACTTTTGCCCCT
Found at i:33080381 original size:16 final size:16
Alignment explanation
Indices: 33080362--33080392 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33080352 CTTCTTCACT
33080362 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33080378 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33080393 CCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33080761 original size:55 final size:53
Alignment explanation
Indices: 33080640--33080825 Score: 223
Period size: 55 Copynumber: 3.4 Consensus size: 53
33080630 CAATGCCTCA
33080640 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* * * * *
33080693 GCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCACCAATGCCATGCCTTG
* *
33080748 ACATGGACTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTTG
* *
33080803 GCGTGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
33080826 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 8 0.07
55 73 0.65
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (53 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
Found at i:33087243 original size:64 final size:64
Alignment explanation
Indices: 33087163--33087347 Score: 180
Period size: 67 Copynumber: 2.9 Consensus size: 64
33087153 AGACATTATG
* *
33087163 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACAGCATGTAGACAAGAGAGCTACG-GAATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * * *
33087227 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
33087292 AA
63 AA
* * * *
33087294 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GCACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCT
33087348 GAACTATATG
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 21 0.21
65 8 0.08
66 16 0.16
67 29 0.30
68 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:33090246 original size:43 final size:42
Alignment explanation
Indices: 33090209--33090333 Score: 148
Period size: 42 Copynumber: 2.9 Consensus size: 42
33090199 TCCCACACAG
*
33090209 GGTCTTACACAAAATCGAT-TAACGATG-CAAATGTCCCAGATAT
1 GGTCTTACACATAATC-ATATAA-GATGTC-AATGTCCCAGATAT
*
33090252 GGTCTTACACGTAATCATATAAGATGTCAATGTCCCAGATAT
1 GGTCTTACACATAATCATATAAGATGTCAATGTCCCAGATAT
* *
33090294 GGTCTTACACATAATCACAATACA-ATGCCAATGTCCCAGA
1 GGTCTTACACATAATCA-TATA-AGATGTCAATGTCCCAGA
33090334 CATTTTCTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 36 0.49
43 36 0.49
44 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACATAATCATATAAGATGTCAATGTCCCAGATAT
Found at i:33090343 original size:43 final size:42
Alignment explanation
Indices: 33090209--33090333 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 42
33090199 TCCCACACAG
* * * *
33090209 GGTCTTACACAAAATCGATTAACGATGCAAATGTCCCAGATAT
1 GGTCTTACACATAATCAAATAA-GATGCCAATGTCCCAGATAT
* * *
33090252 GGTCTTACACGTAATCATATAAGATGTCAATGTCCCAGATAT
1 GGTCTTACACATAATCAAATAAGATGCCAATGTCCCAGATAT
33090294 GGTCTTACACATAATCACAATACA-ATGCCAATGTCCCAGA
1 GGTCTTACACATAATCA-AATA-AGATGCCAATGTCCCAGA
33090334 CATTTTCTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.49
43 35 0.50
44 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACATAATCAAATAAGATGCCAATGTCCCAGATAT
Found at i:33094056 original size:42 final size:42
Alignment explanation
Indices: 33093957--33094073 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
33093947 GTACCAATGT
* *
33093957 CATATCCCAGATATGGTATTA-ATGTAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGC
* * * *
33093998 CAATAGCACAGCTATGGTCTTACATG-AAGTCTCATATCGATTC
1 C-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATGC
*
33094041 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACATGTAATCTCA
33094074 ATAACCCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.69
43 18 0.29
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGC
Found at i:33094269 original size:20 final size:20
Alignment explanation
Indices: 33094241--33094282 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
33094231 TAAGCATTTG
*
33094241 TACATATATAATTTAATGCT
1 TACACATATAATTTAATGCT
33094261 TACACATATAATTTAATGCT
1 TACACATATAATTTAATGCT
33094281 TA
1 TA
33094283 TTAAACATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (20 bp):
TACACATATAATTTAATGCT
Found at i:33098995 original size:11 final size:11
Alignment explanation
Indices: 33098970--33099017 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
33098960 CGAATCTGTC
* *
33098970 AAAAATAAATC
1 AAAAATTAATT
33098981 AAAAATTAATT
1 AAAAATTAATT
*
33098992 -AAAATTTATT
1 AAAAATTAATT
33099002 ATAAAATTAATT
1 A-AAAATTAATT
33099014 AAAA
1 AAAA
33099018 TTCAACATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 12 0.39
12 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:33100332 original size:64 final size:64
Alignment explanation
Indices: 33100226--33100391 Score: 298
Period size: 64 Copynumber: 2.6 Consensus size: 64
33100216 GGTACTCTAC
33100226 TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTATTTTTCATAAAAACTCGAGATTTTTTA
1 TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTATTTTTCATAAAAACTCGAGATTTTTTA
* *
33100290 CT-TAGTATAGTGAGGTTTATTTCCCAATTAAATTCTATTTTTCATAAAAACTCGAGATTTTTTA
1 -TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTATTTTTCATAAAAACTCGAGATTTTTTA
33100354 TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTAT
1 TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTAT
33100392 CCTACTGAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
63 1 0.01
64 94 0.98
65 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (64 bp):
TGAAATATAGTGAGGTTTATTTCCCAATTAAATTCTATTTTTCATAAAAACTCGAGATTTTTTA
Found at i:33104449 original size:18 final size:19
Alignment explanation
Indices: 33104414--33104452 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33104404 TGCCTAAAAC
33104414 AAGGAAAAAGCAAGAAGAA
1 AAGGAAAAAGCAAGAAGAA
33104433 AAGGAAAAGAG-AA-AAGAA
1 AAGGAAAA-AGCAAGAAGAA
33104451 AA
1 AA
33104453 CACAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 10 0.53
20 2 0.11
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGGAAAAAGCAAGAAGAA
Found at i:33111824 original size:40 final size:39
Alignment explanation
Indices: 33111793--33112002 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
33111783 GGACTAAGAT
* *
33111793 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
33111833 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
33111873 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
33111913 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
33111953 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
33111992 CCGAAGGCATT
1 CCGAAGGCATT
33112003 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:33111956 original size:120 final size:120
Alignment explanation
Indices: 33111740--33112002 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
33111730 TTGAATGCTG
* *
33111740 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
33111804 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
33111860 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
33111923 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
33111979 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33112003 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:33112022 original size:79 final size:80
Alignment explanation
Indices: 33111793--33112037 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
33111783 GGACTAAGAT
* * * * * * * ** *
33111793 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
33111856 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
33111873 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
33111938 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
33111953 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
33112017 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
33112031 CCGAAGG
1 CCGAAGG
33112038 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:33119831 original size:80 final size:79
Alignment explanation
Indices: 33119747--33119918 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
33119737 GGACTAAGAT
*
33119747 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
33119811 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
33119827 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33119892 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
33119906 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33119919 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:33119898 original size:39 final size:39
Alignment explanation
Indices: 33119694--33119916 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
33119684 TTGAATGCTG
* * * * *
33119694 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
33119734 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
33119773 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
33119814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
33119854 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
33119893 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33119917 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:33119936 original size:79 final size:80
Alignment explanation
Indices: 33119774--33119951 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
33119764 AGATACAAAT
* * * *
33119774 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
33119839 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
33119854 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
33119918 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33119933 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33119952 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:33121976 original size:32 final size:32
Alignment explanation
Indices: 33121896--33121976 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
33121886 TGTGTGGCAC
***
33121896 GCCCGTGTAGCCCACATGTCCAACTTAGCCTA
1 GCCCGTGTAGCCCACACACCCAACTTAGCCTA
* *
33121928 GCCCATGTGGCCCACACACCCAACTTAGCCTA
1 GCCCGTGTAGCCCACACACCCAACTTAGCCTA
*
33121960 GCCCGTGTAGCTCACAC
1 GCCCGTGTAGCCCACAC
33121977 GGCTACACCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.22, C:0.41, G:0.19, T:0.19
Consensus pattern (32 bp):
GCCCGTGTAGCCCACACACCCAACTTAGCCTA
Found at i:33123830 original size:4 final size:4
Alignment explanation
Indices: 33123821--33123848 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33123811 AGTGAAGAAG
33123821 AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA
33123849 GAAAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:33126701 original size:100 final size:100
Alignment explanation
Indices: 33126475--33126758 Score: 333
Period size: 100 Copynumber: 2.8 Consensus size: 100
33126465 TGAGGTCGCA
* * * *
33126475 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCAC-GTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-T-TGGTCACAG-GTGTAGTACTA
*** * * *** *
33126538 AGTGCAGGCTACTACATGTATCAG-ATGGT-TAGGTCACG
62 AGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
* * *
33126576 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACTTAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACAGGTGTAGTACTAAGTG
33126641 CAGGCTACTATGCGTACCCGAAAACTGTGATCACG
66 CAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* *
33126676 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCAGGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACAGGTGTAGTACTAAGTG
33126741 CAGGCTACTATGCGTACC
66 CAGGCTACTATGCGTACC
33126759 AGATAGCTTC
Statistics
Matches: 158, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
99 35 0.22
100 89 0.56
101 34 0.22
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACAGGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCCGAAAACTGTGATCACG
Found at i:33126758 original size:49 final size:49
Alignment explanation
Indices: 33126475--33126763 Score: 321
Period size: 49 Copynumber: 5.8 Consensus size: 49
33126465 TGAGGTCGCA
* * *
33126475 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-T-TGGTCACG
** * **
33126526 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACG
* * *
33126576 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
* * * * *
33126625 TGTGTAGTACTTAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCACG
* * *
33126676 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCAC-G
*
33126726 -GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
33126764 GCTTCGGCTA
Statistics
Matches: 201, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
49 82 0.41
50 49 0.24
51 70 0.35
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACG
Found at i:33136120 original size:20 final size:22
Alignment explanation
Indices: 33136080--33136120 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
33136070 GCAATAGTTA
*
33136080 TATATGTGTTTACAATTTATTT
1 TATATGTGTTTACAATATATTT
33136102 TATATGT-TTTA-AATATATT
1 TATATGTGTTTACAATATATT
33136121 CTTTGGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATGTGTTTACAATATATTT
Found at i:33136563 original size:34 final size:34
Alignment explanation
Indices: 33136489--33136602 Score: 92
Period size: 30 Copynumber: 3.4 Consensus size: 34
33136479 ATGTTGCTAC
* * * * **
33136489 TATTTTATTGTTATTGTTTAGATATTATATAAAACT
1 TATTTTATTGTTAAT-TTT-GTTATTATTTTAAAGG
33136525 TATTTTATTGTTAATTTTGTTATTATTTTAAAGG
1 TATTTTATTGTTAATTTTGTTATTATTTTAAAGG
* *
33136559 TA---T-TTGTTAATTTTGTTATTAATTTAGAGG
1 TATTTTATTGTTAATTTTGTTATTATTTTAAAGG
**
33136589 TATTTGCTTGTTAA
1 TATTTTATTGTTAA
33136603 GTTATATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
30 27 0.42
31 1 0.02
34 20 0.31
35 3 0.05
36 14 0.22
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (34 bp):
TATTTTATTGTTAATTTTGTTATTATTTTAAAGG
Found at i:33136566 original size:30 final size:30
Alignment explanation
Indices: 33136532--33136594 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
33136522 ACTTATTTTA
*
33136532 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTAATTTAAAGGTAT
*
33136562 TTGTTAATTTTGTTATTAATTTAGAGGTAT
1 TTGTTAATTTTGTTATTAATTTAAAGGTAT
33136592 TTG
1 TTG
33136595 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTAATTTAAAGGTAT
Found at i:33136732 original size:11 final size:11
Alignment explanation
Indices: 33136716--33136746 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33136706 TATATATATG
33136716 TAAAAATTATA
1 TAAAAATTATA
*
33136727 TAAAAATAATA
1 TAAAAATTATA
33136738 TAAAAATTA
1 TAAAAATTA
33136747 ATATGAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:33136743 original size:12 final size:11
Alignment explanation
Indices: 33136716--33136750 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33136706 TATATATATG
*
33136716 TAAAAATTATA
1 TAAAAATAATA
33136727 TAAAAATAATA
1 TAAAAATAATA
33136738 TAAAAATTAATA
1 TAAAAA-TAATA
33136750 T
1 T
33136751 GAACAAGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:33149166 original size:60 final size:60
Alignment explanation
Indices: 33149096--33149957 Score: 1661
Period size: 60 Copynumber: 14.4 Consensus size: 60
33149086 GGCTTTGTCG
*
33149096 ATTACCAGTCCAGGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149156 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149216 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149276 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149336 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149396 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149456 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149516 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149576 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149636 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149696 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149756 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
33149816 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
* * *
33149876 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTTCATATAGAGTCAAATCTGG
1 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
* * *
33149936 ATTACCAATCCAGGATAAATCC
1 ATTACCAGTCCATGCTAAATCC
33149958 AATCAATTAG
Statistics
Matches: 795, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 795 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (60 bp):
ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
Found at i:33162767 original size:60 final size:60
Alignment explanation
Indices: 33162698--33162839 Score: 239
Period size: 60 Copynumber: 2.4 Consensus size: 60
33162688 GGCTTTGTCG
*
33162698 ATTACCAGTCCAGGCTAAATCCTTTATATGACAAAGAACTCCTTATAGAGTCAAATCTGA
1 ATTACCAGTCCAGGCTAAATCCTTTATATGACAAAGAACTCCATATAGAGTCAAATCTGA
* *
33162758 ATTACCAGTCCATGCTAAATCCTTTATATGACAAAGAACTCCATATAGAGTCAAATCTGG
1 ATTACCAGTCCAGGCTAAATCCTTTATATGACAAAGAACTCCATATAGAGTCAAATCTGA
* *
33162818 ATTACCAATCCAGGATAAATCC
1 ATTACCAGTCCAGGCTAAATCC
33162840 AATCAATTAG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (60 bp):
ATTACCAGTCCAGGCTAAATCCTTTATATGACAAAGAACTCCATATAGAGTCAAATCTGA
Found at i:33165335 original size:71 final size:71
Alignment explanation
Indices: 33165257--33165611 Score: 192
Period size: 71 Copynumber: 5.1 Consensus size: 71
33165247 TAATTTCGGT
33165257 CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGT
1 CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGT
33165322 TTCATA
66 TTCATA
** * * * * ** *
33165328 -AAAA-ATATTA-AT-TG--TA-T-ATATT-TTATCGAATTTATTAATATAAACAATTATATTAA
1 CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAA---A-GAATATAATTAA-TATATGAA
**
33165384 TTAATTTCA-A
61 TTTGTTTCATA
* * * *
33165394 TCAAAATATAAAAGACATGGAAATTAATCTTCTTTTGGAAAGAATATAATTAATATAAGAATTTG
1 -CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTG
*
33165459 ATTCATA
65 TTTCATA
* ** ** * * * *
33165466 TAAAATATTAATTG-TAT-ATATTTTACCGA-ATT-TATT-AAAATAA-ACAATT-ATAT-T-AA
1 CAAAATA-TAAAAGATATGA-AAATTA---ATATTCTTTTGGAAAGAATATAATTAATATATGAA
**
33165522 TTAATTTCAGT-
61 TTTGTTTCA-TA
* * *
33165533 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGACTTTGA
1 CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGT
33165598 TTCATA
66 TTCATA
33165604 CAAAATAT
1 CAAAATAT
33165612 TAATTTTATA
Statistics
Matches: 196, Mismatches: 56, Indels: 64
0.62 0.18 0.20
Matches are distributed among these distances:
62 6 0.03
63 5 0.03
64 2 0.01
65 5 0.03
66 17 0.09
67 41 0.21
68 13 0.07
69 16 0.08
70 12 0.06
71 46 0.23
72 17 0.09
73 4 0.02
74 2 0.01
75 4 0.02
76 6 0.03
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (71 bp):
CAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGT
TTCATA
Found at i:33165400 original size:67 final size:66
Alignment explanation
Indices: 33165190--33165540 Score: 148
Period size: 67 Copynumber: 5.1 Consensus size: 66
33165180 TTGGTTCATA
*
33165190 CAAAATATTAATTGTATATATTTTA-CTGAATTTATTAATATAAACAGTTATATTAATTAATTTC
1 CAAAATATTAATTGTATATATTTTATC-GAATTTATTAA-ATAAACAATTATATTAATTAATTTC
**
33165254 GGT
64 AAT
** * * * * * *
33165257 CAAAATA-TAAAAGATATGAAAATTAAT---ATTCTTTTGGAAAGAATATAATTAATATATGAAT
1 CAAAATATTAATTG-TAT-ATATTTTATCGAATT-TATT--AAATAA-ACAATT-ATAT-T-AAT
**
33165318 TTGTTTC-AT
57 TAATTTCAAT
*
33165327 AAAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAAACAATTATATTAATTAATTTC
1 -CAAAATATTAATTGTATATATTTTATCGAATTTATTAA-ATAAACAATTATATTAATTAATTTC
33165392 AAT
64 AAT
** * * * *** * * * *
33165395 CAAAATA-TAAAAG-ACATGGAAATTAATCTTCTTT-TGGAAAGAATATAATTAATATAAGAATT
1 CAAAATATTAATTGTATAT---ATTTTATCGAATTTAT-TAAATAA-ACAATT-ATAT--TAA-T
*
33165457 TGA-TTCATAT
57 TAATTTCA-AT
*
33165467 -AAAATATTAATTGTATATATTTTACCGAATTTATTAAAATAAACAATTATATTAATTAATTTCA
1 CAAAATATTAATTGTATATATTTTATCGAATTTATT-AAATAAACAATTATATTAATTAATTTCA
*
33165531 GT
65 AT
33165533 CAAAATAT
1 CAAAATAT
33165541 AAAAGACATG
Statistics
Matches: 199, Mismatches: 52, Indels: 66
0.63 0.16 0.21
Matches are distributed among these distances:
65 6 0.03
66 15 0.08
67 44 0.22
68 30 0.15
69 16 0.08
70 28 0.14
71 38 0.19
72 16 0.08
73 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (66 bp):
CAAAATATTAATTGTATATATTTTATCGAATTTATTAAATAAACAATTATATTAATTAATTTCAA
T
Found at i:33165418 original size:138 final size:138
Alignment explanation
Indices: 33165161--33165723 Score: 880
Period size: 138 Copynumber: 4.1 Consensus size: 138
33165151 GAGAACATAG
*
33165161 ATATAATTAATATATGAATTTGGTTCATACAAAATATTAATTGTATATATTTTA-CTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATC-GAATTTAT
* ** *
33165225 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTCTT
65 TAATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTT
33165290 TTGGAAAGA
130 TTGGAAAGA
* *
33165299 ATATAATTAATATATGAATTTGTTTCATAAAAAATATTAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
* *
33165364 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATCTTCTTT
66 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
33165429 TGGAAAGA
131 TGGAAAGA
* * *
33165437 ATATAATTAATATAAGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
* *
33165502 AAAATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
33165567 TGGAAAGA
131 TGGAAAGA
* *
33165575 ATATAATTAATATATGACTTTGATTCATACAAAATATTAATTTTATATATTTTAAT-GAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTT-ATCGAATTTAT
* * * * *
33165639 TAATATAAATAATTATATTAATTAATTCCTATCAATATATAAAAGACAT-AGAAATTAATACTCT
65 TAATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGA-AAATTAATATTCT
*
33165703 TTTGGAAATA
129 TTTGGAAAGA
33165713 ATATAATTAAT
1 ATATAATTAAT
33165724 TTTTCTAACT
Statistics
Matches: 393, Mismatches: 29, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
137 1 0.00
138 390 0.99
139 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:33169637 original size:40 final size:40
Alignment explanation
Indices: 33169581--33169952 Score: 392
Period size: 40 Copynumber: 9.3 Consensus size: 40
33169571 CATTTGAATG
* *
33169581 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
33169621 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGATT
* * *
33169661 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
33169701 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGATT
* * *
33169741 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
33169781 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGATT
* * *
33169821 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
33169861 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
33169901 AAATCCGAGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
33169941 ATATCC-GGCTAA
1 ATATCCGGGCTAA
33169953 ATTCCGAAGA
Statistics
Matches: 264, Mismatches: 62, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
39 11 0.04
40 247 0.94
41 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:33169718 original size:80 final size:80
Alignment explanation
Indices: 33169585--33169952 Score: 621
Period size: 80 Copynumber: 4.6 Consensus size: 80
33169575 TGAATGATAT
33169585 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
33169650 TGCGACTTGCTATAC
66 TGCGACTTGCTATAC
33169665 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
33169730 TGCGACTTGCTATAC
66 TGCGACTTGCTATAC
33169745 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
33169810 TGCGACTTGCTATAC
66 TGCGACTTGCTATAC
* *
33169825 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
* * * *
33169890 TGCGAGTTACTAAAT
66 TGCGACTTGCTATAC
* * * * * *
33169905 CCGAGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
33169953 ATTCCGAAGA
Statistics
Matches: 275, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
79 5 0.02
80 270 0.98
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGACTTGCTATAC
Found at i:33172400 original size:25 final size:25
Alignment explanation
Indices: 33172362--33172455 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 25
33172352 GCCCATTTTC
*
33172362 ACAGCTCGTATGAGTATACTGATTT
1 ACAGCTCATATGAGTATACTGATTT
* *
33172387 ACAGCTCATGTGAGCATACCT-ATTT
1 ACAGCTCATATGAGTATA-CTGATTT
* ** * * *
33172412 ATAGCTTGTATGAGTATACCGGTTC
1 ACAGCTCATATGAGTATACTGATTT
* *
33172437 ACAGCTCATGTGAGAATAC
1 ACAGCTCATATGAGTATAC
33172456 ATGTACAAGA
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (25 bp):
ACAGCTCATATGAGTATACTGATTT
Found at i:33173418 original size:45 final size:45
Alignment explanation
Indices: 33173348--33173452 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
33173338 CTATAAGTTA
* *
33173348 GTTGCTCATTTTGACCAAATAGAGTACATGATTAAATATGTTTCCAT
1 GTTG-TCA-TTTGAGCAAATAGAGTACATGATTAAACATGTTTCCAT
* *
33173395 GTTGTCATTTGAGCAAATGGAGTACATGGTTAAACATGTTTCCAT
1 GTTGTCATTTGAGCAAATAGAGTACATGATTAAACATGTTTCCAT
33173440 GTTGTCATTTGAG
1 GTTGTCATTTGAG
33173453 GTGCCTAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 47 0.87
46 3 0.06
47 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (45 bp):
GTTGTCATTTGAGCAAATAGAGTACATGATTAAACATGTTTCCAT
Found at i:33181200 original size:44 final size:42
Alignment explanation
Indices: 33181129--33181273 Score: 118
Period size: 42 Copynumber: 3.4 Consensus size: 42
33181119 TGTGATTTCG
*
33181129 TGTAAGACCACATCTGGGGCATTGGCATCGACT-TCTGTTTTACA
1 TGTAAGACCACATCTGGGACA-TGGCATCGA-TATCTG-TTTACA
** *
33181173 TGTAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CG
1 TGTAAGACCACATCTGGGACAT-GGCATCGATATCTG-TTTACA
* * * *
33181215 TGTAAGACC-CTATCTGAGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-ATCTGGGACA-TGGCATCGATATCTGTTTACA
*
33181258 TGTAAGACCACGTCTG
1 TGTAAGACCACATCTG
33181274 AGACGTTGAC
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 28 0.35
43 27 0.33
44 26 0.32
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATGGCATCGATATCTGTTTACA
Found at i:33181242 original size:42 final size:41
Alignment explanation
Indices: 33181121--33181245 Score: 119
Period size: 42 Copynumber: 2.9 Consensus size: 41
33181111 TTTCGTTATG
*
33181121 TGATTTCGTGTAAGACCAC-ATCTGGGGCATTGGCATCGACTTC
1 TGATTTCGTGTAAGACC-CTATCTGGGACA-TGGCATCGAC-TC
* * * *
33181164 TGTTTTACATGTAAGACCATGTCTGGGACATCGGCATCGTA-TC
1 TGATTT-CGTGTAAGACCCTATCTGGGACAT-GGCATCG-ACTC
*
33181207 TGATTTCGTGTAAGACCCTATCTGAGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTATCTGGGACA-TGGCATCGA
33181246 TGTTTGATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 14 0.21
44 25 0.37
45 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTATCTGGGACATGGCATCGACTC
Found at i:33184967 original size:42 final size:42
Alignment explanation
Indices: 33184920--33185007 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
33184910 TAAGTTAGTG
33184920 TCTGAGTATAAGTCTGAGTATCTGAGACTGAGCCGGTATGCT
1 TCTGAGTATAAGTCTGAGTATCTGAGACTGAGCCGGTATGCT
* *
33184962 TCTGAGTATGAGTTTGAGTATCTGAGACTGAGCCGGTATGCT
1 TCTGAGTATAAGTCTGAGTATCTGAGACTGAGCCGGTATGCT
33185004 TCTG
1 TCTG
33185008 GGATTGTCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.33
Consensus pattern (42 bp):
TCTGAGTATAAGTCTGAGTATCTGAGACTGAGCCGGTATGCT
Found at i:33185007 original size:22 final size:22
Alignment explanation
Indices: 33184940--33185007 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
33184930 AGTCTGAGTA
33184940 TCTGAGACTGAGCCGGTATGCT
1 TCTGAGACTGAGCCGGTATGCT
***
33184962 TCTGAGTA-TGAGTTTG-A-G-T
1 TCTGAG-ACTGAGCCGGTATGCT
33184981 ATCTGAGACTGAGCCGGTATGCT
1 -TCTGAGACTGAGCCGGTATGCT
33185004 TCTG
1 TCTG
33185008 GGATTGTCGC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 2 0.06
22 16 0.47
23 2 0.06
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (22 bp):
TCTGAGACTGAGCCGGTATGCT
Found at i:33190622 original size:26 final size:27
Alignment explanation
Indices: 33190593--33190652 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
33190583 CCACATATAT
*
33190593 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
33190619 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
33190646 ATATCTG
1 ATATCTG
33190653 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:33195963 original size:53 final size:53
Alignment explanation
Indices: 33195902--33196007 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
33195892 CAAACTGATT
* *
33195902 ACCATCCAAATCCCCCTTTCTTCTCCTAAATTTTGGCTACACACTTCCCTACA
1 ACCATCCAAATCCCCCTTTCTTCTCCTAAATTTCGGCTACACACTCCCCTACA
*
33195955 ACCATCCAAATCCCCCTTTCTTCTCCTAAATTTCGGTTACACACTCCCCTACA
1 ACCATCCAAATCCCCCTTTCTTCTCCTAAATTTCGGCTACACACTCCCCTACA
33196008 CCTTTCAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.25, C:0.41, G:0.04, T:0.31
Consensus pattern (53 bp):
ACCATCCAAATCCCCCTTTCTTCTCCTAAATTTCGGCTACACACTCCCCTACA
Found at i:33197399 original size:14 final size:15
Alignment explanation
Indices: 33197380--33197409 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33197370 GTTTATTATA
33197380 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
33197394 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
33197409 T
1 T
33197410 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:33198264 original size:43 final size:43
Alignment explanation
Indices: 33198203--33198319 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
33198193 GATATTTGGG
* * * *
33198203 CTTCGGGCCTAGCAGGCTATAATGTCGGTGAGATAATATCGGC
1 CTTCGAGCCTAGCAGGCTATAATGCCAGTGAAATAATATCGGC
* *
33198246 CTTCGAGCCTAGCAGGCTATAATGCCAGTGAAATGATATCGGG
1 CTTCGAGCCTAGCAGGCTATAATGCCAGTGAAATAATATCGGC
* * *
33198289 CTTCAAGCCTAGTAGGC-AAAATGCCAGTGAA
1 CTTCGAGCCTAGCAGGCTATAATGCCAGTGAA
33198320 TGAGTTCAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 13 0.20
43 52 0.80
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCAGTGAAATAATATCGGC
Found at i:33203403 original size:40 final size:40
Alignment explanation
Indices: 33203305--33203567 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33203295 TCCTCGTTCA
* * * * *
33203305 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33203344 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33203384 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33203424 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33203464 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33203504 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33203544 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33203568 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33211353 original size:40 final size:40
Alignment explanation
Indices: 33211255--33211517 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
33211245 TCCTCGTTCA
* * * * *
33211255 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33211294 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33211334 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33211374 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33211414 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33211454 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33211494 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33211518 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33217169 original size:23 final size:23
Alignment explanation
Indices: 33217143--33217186 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
33217133 CCTAACCAGC
33217143 ATTAAGACAATGTTTAAATGTAT
1 ATTAAGACAATGTTTAAATGTAT
*
33217166 ATTAAGGCAATGTTTAAATGT
1 ATTAAGACAATGTTTAAATGT
33217187 GAACTTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.39
Consensus pattern (23 bp):
ATTAAGACAATGTTTAAATGTAT
Found at i:33217248 original size:40 final size:39
Alignment explanation
Indices: 33217201--33217278 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
33217191 TTAGACAAAC
*
33217201 ATTAATGATG-TCAAAATTAAGACACATAATTAAA-ACACAT
1 ATTAATGATGTTC-AAACTAAG--ACATAATTAAAGACACAT
33217241 ATTAATGATGTTCAAACTAAGACATAATTAAAGACACA
1 ATTAATGATGTTCAAACTAAGACATAATTAAAGACACA
33217279 AACTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 11 0.31
39 5 0.14
40 17 0.49
41 2 0.06
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (39 bp):
ATTAATGATGTTCAAACTAAGACATAATTAAAGACACAT
Found at i:33218679 original size:18 final size:18
Alignment explanation
Indices: 33218653--33218693 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
33218643 CCACCTCAAA
*
33218653 ATAATCTACTGCTAAAGC
1 ATAAGCTACTGCTAAAGC
33218671 ATAAGCTACTGCTAAAGC
1 ATAAGCTACTGCTAAAGC
33218689 ATAAG
1 ATAAG
33218694 GAACCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (18 bp):
ATAAGCTACTGCTAAAGC
Found at i:33223088 original size:28 final size:28
Alignment explanation
Indices: 33223036--33223120 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
33223026 AATCTCTTTC
*
33223036 ATATGGCCCATTAGGCCC-ATTCACATTT
1 ATATGG-CCATTAGGCCCAAATCACATTT
* * *
33223064 ATGTGGCCATTAGGCCCAAAGCACATTC
1 ATATGGCCATTAGGCCCAAATCACATTT
* *
33223092 ATATGGCCACTAAGCCCAAATCACATTT
1 ATATGGCCATTAGGCCCAAATCACATTT
33223120 A
1 A
33223121 CACTCATGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 11 0.23
28 36 0.77
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCATTAGGCCCAAATCACATTT
Found at i:33228361 original size:17 final size:17
Alignment explanation
Indices: 33228339--33228373 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33228329 GACTTATAGC
33228339 TTGGGTGATGATAGAAA
1 TTGGGTGATGATAGAAA
33228356 TTGGGTGATGATAGAAA
1 TTGGGTGATGATAGAAA
33228373 T
1 T
33228374 CAAAGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (17 bp):
TTGGGTGATGATAGAAA
Found at i:33239983 original size:32 final size:32
Alignment explanation
Indices: 33239945--33240008 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
33239935 GAGTTTCCAT
33239945 AAGAATTATTGCAGATGTTACTGACATAAAAG
1 AAGAATTATTGCAGATGTTACTGACATAAAAG
33239977 AAGAATTATTGCAGATGTTACTGACATAAAAG
1 AAGAATTATTGCAGATGTTACTGACATAAAAG
33240009 GCATTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (32 bp):
AAGAATTATTGCAGATGTTACTGACATAAAAG
Found at i:33240202 original size:12 final size:12
Alignment explanation
Indices: 33240185--33240209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33240175 CAAGACTTAA
33240185 TAGATTGGGCCC
1 TAGATTGGGCCC
33240197 TAGATTGGGCCC
1 TAGATTGGGCCC
33240209 T
1 T
33240210 CGAGGCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (12 bp):
TAGATTGGGCCC
Found at i:33242554 original size:13 final size:13
Alignment explanation
Indices: 33242536--33242560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33242526 ATGTATGTTT
33242536 GAAAATTTTTATG
1 GAAAATTTTTATG
33242549 GAAAATTTTTAT
1 GAAAATTTTTAT
33242561 TATTTGCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
GAAAATTTTTATG
Found at i:33242596 original size:22 final size:22
Alignment explanation
Indices: 33242568--33242620 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
33242558 TATTATTTGC
* *
33242568 TTTATTATT-GGTATTTGAAATT
1 TTTATTATTAGATATGT-AAATT
33242590 TTTATTATTAGATATGTAAATT
1 TTTATTATTAGATATGTAAATT
33242612 TTTATTATT
1 TTTATTATT
33242621 TGCTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (22 bp):
TTTATTATTAGATATGTAAATT
Found at i:33242614 original size:56 final size:56
Alignment explanation
Indices: 33242551--33242662 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
33242541 TTTTTATGGA
33242551 AAATTTTTATTATTTGCTTTATTATTGGTATTTGAAATTTTTATTATTAGATATGT
1 AAATTTTTATTATTTGCTTTATTATTGGTATTTGAAATTTTTATTATTAGATATGT
33242607 AAATTTTTATTATTTGCTTTATTATTGGTATTTGAAATTTTTATTATTAGATATGT
1 AAATTTTTATTATTTGCTTTATTATTGGTATTTGAAATTTTTATTATTAGATATGT
33242663 TTATGAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (56 bp):
AAATTTTTATTATTTGCTTTATTATTGGTATTTGAAATTTTTATTATTAGATATGT
Found at i:33242628 original size:34 final size:34
Alignment explanation
Indices: 33242590--33242654 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
33242580 ATTTGAAATT
33242590 TTTATTATTAGATATGT-AAATTTTTATTATTTGC
1 TTTATTATT-GATATGTGAAATTTTTATTATTTGC
* *
33242624 TTTATTATTGGTATTTGAAATTTTTATTATT
1 TTTATTATTGATATGTGAAATTTTTATTATT
33242655 AGATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (34 bp):
TTTATTATTGATATGTGAAATTTTTATTATTTGC
Found at i:33245100 original size:26 final size:25
Alignment explanation
Indices: 33245032--33245101 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33245022 GAGGAAGTGC
* * *
33245032 AAAGGGCTATGCCCTAGTTTATCGA
1 AAAGGGCTTTGCCCCAGTTTACCGA
33245057 AAAGGGCTTTGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACCGA
33245082 AAAGGGCTTTTGCCCCAGTT
1 AAAGGGC-TTTGCCCCAGTT
33245102 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 29 0.71
26 12 0.29
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCGA
Found at i:33249591 original size:25 final size:25
Alignment explanation
Indices: 33249562--33249609 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33249552 TTATAATATG
* *
33249562 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
33249587 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
33249610 GTTTAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:33249819 original size:25 final size:25
Alignment explanation
Indices: 33249742--33249812 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
33249732 GAGGAAGTGC
* *
33249742 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
33249767 AAAAGGGCTTTGCCTCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
33249792 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
33249813 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 30 0.73
26 11 0.27
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:33255886 original size:21 final size:22
Alignment explanation
Indices: 33255846--33255889 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
33255836 ACCAGTTATA
33255846 ATTTTCATATGCACATACTTTT
1 ATTTTCATATGCACATACTTTT
33255868 ATTTTCATCATG-A-ATACTTTT
1 ATTTTCAT-ATGCACATACTTTT
33255889 A
1 A
33255890 CATATGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 9 0.43
23 3 0.14
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTTCATATGCACATACTTTT
Found at i:33256216 original size:56 final size:56
Alignment explanation
Indices: 33256156--33256366 Score: 309
Period size: 56 Copynumber: 3.8 Consensus size: 56
33256146 AGACAGGGTT
* * *
33256156 TTACTCGTACACATATATCGGAGTCATATATCGATGCCAACATATTAAACGTGGTC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* **
33256212 TTACTCGCACACATATATTGGAGTCACATATCGATGCCAACGCATTAAACGTGGAC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* * *
33256268 TTACTCACACATATATATCGGAGTCACA-ATCGATGCCAACGTATTAAACGTGGAC
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
* *
33256323 TTACTCGCACAAATATATCGGAGCCACATATCGATGCC-ACATAT
1 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATAT
33256367 ACTTCCAGGT
Statistics
Matches: 140, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
55 56 0.40
56 84 0.60
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATTAAACGTGGAC
Found at i:33259390 original size:80 final size:79
Alignment explanation
Indices: 33259242--33259416 Score: 237
Period size: 80 Copynumber: 2.2 Consensus size: 79
33259232 NNNNNNNNNN
* **
33259242 GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAAC
33259307 GAGTTA-CTAAATCC
66 GAG-TAGCTAAATCC
* * *
33259321 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA-CCGGGCTATGTCCCGAAGGCATTTGA
1 -GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGA
*
33259385 ACGAGTAGCTATATCC
64 ACGAGTAGCTAAATCC
*
33259401 GGTTAAATTCCGAAGG
1 GGTTAAGTTCCGAAGG
33259417 TACGTGATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 16 0.19
80 66 0.79
81 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAAC
GAGTAGCTAAATCC
Found at i:33259397 original size:40 final size:40
Alignment explanation
Indices: 33259242--33259383 Score: 232
Period size: 40 Copynumber: 3.5 Consensus size: 40
33259232 NNNNNNNNNN
*
33259242 GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
33259282 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
33259322 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA-CCG
1 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
* *
33259362 GGCTATGTCCCGAAGGCATTTG
1 GGTTAAGTCCCGAAGGCATTTG
33259384 AACGAGTAGC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 95 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:33267358 original size:40 final size:40
Alignment explanation
Indices: 33267264--33267408 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
33267254 TACTCGAATG
*
33267264 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
33267305 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
33267345 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
33267385 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
33267409 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:33278942 original size:26 final size:26
Alignment explanation
Indices: 33278903--33278976 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
33278893 TCATCCCTAT
*
33278903 TTTACCCCTGGTAAAATTTTGACGAA
1 TTTACCCCTAGTAAAATTTTGACGAA
* *
33278929 TTTACCCCTAGTAAAATTTTGATGAT
1 TTTACCCCTAGTAAAATTTTGACGAA
33278955 TTTACCCCTAGTAAAATTTTGA
1 TTTACCCCTAGTAAAATTTTGA
33278977 AAAAATATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTACCCCTAGTAAAATTTTGACGAA
Found at i:33282889 original size:26 final size:26
Alignment explanation
Indices: 33282860--33282912 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
33282850 TCAAACATGC
33282860 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
33282886 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
33282912 A
1 A
33282913 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:33284431 original size:26 final size:26
Alignment explanation
Indices: 33284401--33284456 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
33284391 TGAAATGCCC
* *
33284401 ATCATGGAACATTTAGCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
33284427 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
33284453 ATCA
1 ATCA
33284457 ATTTTTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:33293977 original size:45 final size:44
Alignment explanation
Indices: 33293839--33294053 Score: 279
Period size: 45 Copynumber: 4.9 Consensus size: 44
33293829 ATTTATTCAT
* * * * *
33293839 CGGCATT-TTGCCTACTAGGCCCGAGGCCCCAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
33293882 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
* * * * *
33293926 CAGCATTATAGCCTACTAGGCTCAGAGGCCTGAATAATATCTCAT
1 CGGCATTATAGCCTGCTAGGCTCA-AGGCCCGAATAGTATCTCAC
* * *
33293971 CGGCATTATAGTCTGCTAGGGTCAAAGGCCCGAATACTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAGTATCTCAC
*
33294016 CAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
33294054 CTGTATAATA
Statistics
Matches: 148, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
43 7 0.05
44 67 0.45
45 73 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
CGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATCTCAC
Found at i:33300662 original size:19 final size:20
Alignment explanation
Indices: 33300638--33300675 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33300628 GGTACCTCCA
33300638 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
33300657 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
33300676 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:33301064 original size:93 final size:93
Alignment explanation
Indices: 33300905--33301075 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
33300895 GCCCCTAAGT
* *
33300905 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
33300970 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
33300998 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
33301063 CGAGTTCGGATGC
66 CGAGTTCGGATGC
33301076 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:33301065 original size:46 final size:46
Alignment explanation
Indices: 33300900--33301072 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
33300890 AACCCGCCCC
* * * * *
33300900 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
33300946 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
33300994 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
33301039 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33301073 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 59 0.57
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:33301531 original size:30 final size:30
Alignment explanation
Indices: 33301497--33301556 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33301487 ATTTAATACG
33301497 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
33301527 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
33301557 GGCTCGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:33304890 original size:26 final size:26
Alignment explanation
Indices: 33304854--33304906 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
33304844 AAAGTAAACT
33304854 TATCGAGTAATCAGCATACATCCATA
1 TATCGAGTAATCAGCATACATCCATA
*
33304880 TATCGAGTAATTAGCATACATCCATA
1 TATCGAGTAATCAGCATACATCCATA
33304906 T
1 T
33304907 CTAAATCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
TATCGAGTAATCAGCATACATCCATA
Found at i:33318607 original size:17 final size:18
Alignment explanation
Indices: 33318585--33318620 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33318575 GATATGATAC
*
33318585 TAAAAT-TATGAAAAAAT
1 TAAAATATATAAAAAAAT
33318602 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
33318620 T
1 T
33318621 CGGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:33318916 original size:23 final size:22
Alignment explanation
Indices: 33318873--33318930 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
33318863 AAAAGGTATC
* *
33318873 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
33318894 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
33318917 TACATATCATATCT
1 TACAAATCATATCT
33318931 AATATTGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:33318964 original size:35 final size:36
Alignment explanation
Indices: 33318921--33318991 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
33318911 TAAGATTACA
*
33318921 TATCATATCTAATATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
33318956 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
33318992 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:33318980 original size:19 final size:19
Alignment explanation
Indices: 33318909--33318999 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
33318899 AATCATATCT
*
33318909 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
33318928 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
33318946 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
33318963 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33318982 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
33319000 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.23
19 35 0.53
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33319161 original size:22 final size:21
Alignment explanation
Indices: 33319118--33319158 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33319108 TTGGACTTCG
* **
33319118 TTTTTTTTTTTGGGTTTATTA
1 TTTTTATTTTTGGACTTATTA
33319139 TTTTTATTTTTGGACTTATT
1 TTTTTATTTTTGGACTTATT
33319159 TATGGGCCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (21 bp):
TTTTTATTTTTGGACTTATTA
Found at i:33320184 original size:21 final size:20
Alignment explanation
Indices: 33320150--33320203 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
33320140 TCAGATCGTG
* *
33320150 TGACAGGGATACACAGCCATC
1 TGACA-GGACACACACCCATC
* *
33320171 TGACTGAGACACACACCCATG
1 TGACAG-GACACACACCCATC
33320192 TGACAGGACACA
1 TGACAGGACACA
33320204 GTCGTGTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.13
Consensus pattern (20 bp):
TGACAGGACACACACCCATC
Found at i:33320967 original size:10 final size:10
Alignment explanation
Indices: 33320942--33320989 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
33320932 GGAGAACCAA
*
33320942 AAAGAGAAAC
1 AAAGAAAAAC
33320952 -AAGAAAAAC
1 AAAGAAAAAC
*
33320961 AAAGAAATAC
1 AAAGAAAAAC
*
33320971 AAATAAAAATC
1 AAAGAAAAA-C
33320982 AAAGAAAA
1 AAAGAAAA
33320990 TTGGGAGAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.06
Consensus pattern (10 bp):
AAAGAAAAAC
Found at i:33322401 original size:19 final size:18
Alignment explanation
Indices: 33322361--33322406 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
33322351 ATTAAAAAAT
*
33322361 ATTTTTATATTTTTAATC
1 ATTTTTATATTTTTAATA
33322379 ATTTTTA-ATTTTTAAAGTA
1 ATTTTTATATTTTT-AA-TA
33322398 ATTTTTATA
1 ATTTTTATA
33322407 ATTCACTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 8 0.33
20 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTATATTTTTAATA
Found at i:33327209 original size:29 final size:28
Alignment explanation
Indices: 33327085--33327219 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 28
33327075 TCGATAACTA
*
33327085 AAACTATCCCTTTTCATAATTTTGATGGTC
1 AAACTATCCCTTTTCAT-A-TTCGATGGTC
** * * * *
33327115 GTCACCATGCCTTTTCATATTCAATTGTC
1 -AAACTATCCCTTTTCATATTCGATGGTC
* * * * * *
33327144 GAAACCATCCCTTTTCACAATCGGTAGCC
1 -AAACTATCCCTTTTCATATTCGATGGTC
33327173 AAAGCTATCCCTTTTCATATTCGATGGTC
1 AAA-CTATCCCTTTTCATATTCGATGGTC
*
33327202 ATCACTATCCCTTTTCAT
1 A-AACTATCCCTTTTCAT
33327220 TGTTCGATAG
Statistics
Matches: 79, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
28 3 0.04
29 61 0.77
30 2 0.03
31 13 0.16
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.38
Consensus pattern (28 bp):
AAACTATCCCTTTTCATATTCGATGGTC
Found at i:33344547 original size:15 final size:15
Alignment explanation
Indices: 33344518--33344546 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33344508 TGTTTTGTTG
33344518 GGTTTTAGTGTTTTT
1 GGTTTTAGTGTTTTT
33344533 GGTTTTAG-GTTTTT
1 GGTTTTAGTGTTTTT
33344547 TTTGGGCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.07, C:0.00, G:0.28, T:0.66
Consensus pattern (15 bp):
GGTTTTAGTGTTTTT
Found at i:33345005 original size:18 final size:18
Alignment explanation
Indices: 33344982--33345016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33344972 TCAAATCCAA
33344982 CTCTCTCAATTCTCTCAC
1 CTCTCTCAATTCTCTCAC
* *
33345000 CTCTCTTAATTTTCTCA
1 CTCTCTCAATTCTCTCA
33345017 AATTTTGTTT
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:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCTCTCAATTCTCTCAC
Found at i:33345227 original size:9 final size:9
Alignment explanation
Indices: 33345215--33345243 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
33345205 ATTAAGTTAA
33345215 TTTTAATTT
1 TTTTAATTT
33345224 TTTTAATTT
1 TTTTAATTT
33345233 TTTTAATTT
1 TTTTAATTT
33345242 TT
1 TT
33345244 AAATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:33345253 original size:18 final size:18
Alignment explanation
Indices: 33345215--33345264 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
33345205 ATTAAGTTAA
*
33345215 TTTTAATTTTTTTAATTT
1 TTTTAATTTTTTAAATTT
*
33345233 TTTTAA-TTTTTAAATTA
1 TTTTAATTTTTTAAATTT
*
33345250 TTTT-ATTTTGTAAAT
1 TTTTAATTTTTTAAAT
33345265 AGAAATAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.75
18 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTAATTTTTTAAATTT
Found at i:33348441 original size:83 final size:83
Alignment explanation
Indices: 33348348--33348514 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
33348338 TGATTTGTGC
33348348 AATTCATTACTTTTTAAAATTCATTTAATACTTATTTTTTATATTTTTGATTTACCATGATAATT
1 AATTCATTACTTTTTAAAATTCATTTAATACTTATTTTTTATATTTTTGATTTACCATGATAATT
33348413 TTACCCCCTTTTTTATAT
66 TTACCCCCTTTTTTATAT
*
33348431 AATTCATTACTTTTTAAAATTCATTTAATTCTTATTTTTTATATTTTTGATTTACCATGATAATT
1 AATTCATTACTTTTTAAAATTCATTTAATACTTATTTTTTATATTTTTGATTTACCATGATAATT
33348496 TTACCCCCTTTTTTATAT
66 TTACCCCCTTTTTTATAT
33348514 A
1 A
33348515 TAAAATCTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (83 bp):
AATTCATTACTTTTTAAAATTCATTTAATACTTATTTTTTATATTTTTGATTTACCATGATAATT
TTACCCCCTTTTTTATAT
Found at i:33351324 original size:14 final size:14
Alignment explanation
Indices: 33351305--33351332 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33351295 GATGAAAGGA
33351305 AGAGGGTCGCTATC
1 AGAGGGTCGCTATC
33351319 AGAGGGTCGCTATC
1 AGAGGGTCGCTATC
33351333 TTCGCCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
AGAGGGTCGCTATC
Found at i:33361821 original size:135 final size:135
Alignment explanation
Indices: 33361572--33361828 Score: 327
Period size: 135 Copynumber: 1.9 Consensus size: 135
33361562 AGCAAGTCTC
* *
33361572 ATCTCCCTAAAGTTACAGTGCAACAGACTAAAGTTAGCAGATCTTGTCTCCCTGAAGTTGCAGCG
1 ATCTCCCTAAAGTTACAGTGCAACAGACTAAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGCG
* * * ** *
33361637 GAGTAGATCGAAGCCATAATCCTTATTTCACTGGAGTTGTAGTATAGCAGGATAAAATTACCCAA
66 GAGTAGATCGAAACCATAATCCTTATTTCACTGAACTTACAGTAGAGCAGGATAAAATTACCCAA
33361702 ATATT
131 ATATT
* * * * * * * *
33361707 ATCTCTCTGAAGTTACAGTGGAGCAGACTGAAGATGGCAGATCTTATCTCCCTGAAGTTGTAGTG
1 ATCTCCCTAAAGTTACAGTGCAACAGACTAAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGCG
* * *
33361772 GAGTAGATTGAAACTATAATCCTTATCTT-TCTGAACTTACAGTAGAGCAGGATAAAA
66 GAGTAGATCGAAACCATAATCCTTAT-TTCACTGAACTTACAGTAGAGCAGGATAAAA
33361829 AAATACGCAA
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
135 100 0.98
136 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (135 bp):
ATCTCCCTAAAGTTACAGTGCAACAGACTAAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGCG
GAGTAGATCGAAACCATAATCCTTATTTCACTGAACTTACAGTAGAGCAGGATAAAATTACCCAA
ATATT
Found at i:33363422 original size:87 final size:89
Alignment explanation
Indices: 33363308--33363482 Score: 309
Period size: 87 Copynumber: 2.0 Consensus size: 89
33363298 AAGTATCATT
33363308 TTTAGTTAAAATTTTTTTTAATTGAGTCCTTTCGATTTGTACAATTCATTACTTTTTAAAATTCA
1 TTTAGTTAAAATTTTTTTTAATTGAGTCCTTTCGATTTGTACAATTCATTACTTTTTAAAATTCA
33363373 TTTAATACTTA-TTTTTATATTTA
66 TTTAATACTTATTTTTTATATTTA
* * *
33363396 TTTAGTT-TAATTTTTTTTAATTGAGTCCTTTTGATTTGTGCAATTCATTACTTTTTAAAATTCA
1 TTTAGTTAAAATTTTTTTTAATTGAGTCCTTTCGATTTGTACAATTCATTACTTTTTAAAATTCA
33363460 TTTAATACTTATTTTTTATATTT
66 TTTAATACTTATTTTTTATATTT
33363483 TTGATTTACC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
87 65 0.78
88 18 0.22
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (89 bp):
TTTAGTTAAAATTTTTTTTAATTGAGTCCTTTCGATTTGTACAATTCATTACTTTTTAAAATTCA
TTTAATACTTATTTTTTATATTTA
Found at i:33365793 original size:29 final size:28
Alignment explanation
Indices: 33365758--33365848 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 28
33365748 GTTATTTCTG
*
33365758 AAAGAAAGTC-TTTATAGTGATCTCTGTTA
1 AAAGAAAG-CATTTAT-GCGATCTCTGTTA
33365787 AAAGAAAGCATTTATGGCGATCTCTGTTA
1 AAAGAAAGCATTTAT-GCGATCTCTGTTA
*
33365816 AAAGAAAGCATTTGTGACGATCTCTGTTA
1 AAAGAAAGCATTTATG-CGATCTCTGTTA
33365845 AAAG
1 AAAG
33365849 GATCCCTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 2 0.04
29 55 0.96
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (28 bp):
AAAGAAAGCATTTATGCGATCTCTGTTA
Found at i:33365867 original size:29 final size:29
Alignment explanation
Indices: 33365776--33365848 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
33365766 TCTTTATAGT
*
33365776 GATCTCTGTTAAAAGAAAGCATTTATGGC
1 GATCTCTGTTAAAAGAAAGCATTTGTGGC
*
33365805 GATCTCTGTTAAAAGAAAGCATTTGTGAC
1 GATCTCTGTTAAAAGAAAGCATTTGTGGC
33365834 GATCTCTGTTAAAAG
1 GATCTCTGTTAAAAG
33365849 GATCCCTTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (29 bp):
GATCTCTGTTAAAAGAAAGCATTTGTGGC
Found at i:33366609 original size:27 final size:27
Alignment explanation
Indices: 33366579--33366638 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
33366569 AATGAGTCTT
33366579 GGGTGTCTTATAAACAACTTTTGTGAA
1 GGGTGTCTTATAAACAACTTTTGTGAA
33366606 GGGTGTCTTATAAACAACTTTTGTGAA
1 GGGTGTCTTATAAACAACTTTTGTGAA
*
33366633 AGGTGT
1 GGGTGT
33366639 TAGCATGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (27 bp):
GGGTGTCTTATAAACAACTTTTGTGAA
Found at i:33367341 original size:46 final size:44
Alignment explanation
Indices: 33367233--33367361 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 44
33367223 ACATTATTAG
* *
33367233 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACA
1 AGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACA
* *
33367279 AGGGCTAGTATAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 A--GCCAGTATAAGACATGTCTGGGACATGCATCGGCATCGAGAC--A
* * * *
33367327 AGCCAGTTTCAGACATGTTTGAGACATGCATCGGC
1 AGCCAGTATAAGACATGTCTGGGACATGCATCGGC
33367362 TACGAGATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 44 0.63
47 14 0.20
48 12 0.17
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (44 bp):
AGCCAGTATAAGACATGTCTGGGACATGCATCGGCATCGAGACA
Found at i:33368540 original size:21 final size:21
Alignment explanation
Indices: 33368515--33368554 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33368505 TTGAATTGGC
33368515 CACACGGGCGTGTGCCCCTTT
1 CACACGGGCGTGTGCCCCTTT
33368536 CACACGGGCGTGTGCCCCT
1 CACACGGGCGTGTGCCCCT
33368555 ATGTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.40, G:0.30, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCCTTT
Found at i:33370519 original size:46 final size:46
Alignment explanation
Indices: 33370466--33370556 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
33370456 TATATATACA
* * *
33370466 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
33370512 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
33370557 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:33370599 original size:22 final size:21
Alignment explanation
Indices: 33370573--33370694 Score: 54
Period size: 22 Copynumber: 5.3 Consensus size: 21
33370563 TTCCACGTTC
33370573 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGG-CATTCTGCCTT
*
33370595 ATCACATATATGCATGT-T-CACATTT
1 ATCACAT-T-GGCAT-TCTGC-C--TT
*
33370620 ATCACATTGGTCATTCGGCCTT
1 ATCACATTGG-CATTCTGCCTT
33370642 ATCACATATGTGCATGT-T-CACATT
1 ATCACAT-TG-GCAT-TCTGC-C-TT
*
33370666 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGG-CATTCTGCCTT
33370689 ATCACA
1 ATCACA
33370695 CAAATGCATG
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 24 0.31
23 18 0.23
24 17 0.22
25 18 0.23
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (21 bp):
ATCACATTGGCATTCTGCCTT
Found at i:33370601 original size:47 final size:47
Alignment explanation
Indices: 33370570--33370767 Score: 279
Period size: 47 Copynumber: 4.2 Consensus size: 47
33370560 CACTTCCACG
*
33370570 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
33370617 TTTATCACATTGGTCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
33370664 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * **
33370711 TTCATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
33370758 TCCATCACAT
1 TTCATCACAT
33370768 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:33370650 original size:94 final size:93
Alignment explanation
Indices: 33370536--33370767 Score: 293
Period size: 94 Copynumber: 2.5 Consensus size: 93
33370526 TTCGCATTAA
* ** * *
33370536 CCATTCGGCTTTCCCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTTATCACA
1 CCATTCGGCCTTAGCACATATATACACTT-CACATTCATCACATTGGCCATTCGGCCTTATCACA
* * *
33370601 TATATGCATGTTCACATTTATCACATTGG
65 CAAATGCATGTTCACATTCATCACATTGG
* * * * *
33370630 TCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CCATTCGGCCTTAGCACATATATACA-CTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
*
33370695 CAAATGCATGTTCACATTCATCACATTTG
65 CAAATGCATGTTCACATTCATCACATTGG
* *
33370724 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTAGCACATATATACAC-TTCACATTCATCACAT
33370768 AAAATCCTAA
Statistics
Matches: 116, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 114 0.98
95 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (93 bp):
CCATTCGGCCTTAGCACATATATACACTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
AAATGCATGTTCACATTCATCACATTGG
Found at i:33374704 original size:12 final size:12
Alignment explanation
Indices: 33374689--33374713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33374679 ACACTTGTAC
33374689 CAACACCAATGT
1 CAACACCAATGT
33374701 CAACACCAATGT
1 CAACACCAATGT
33374713 C
1 C
33374714 GTCATCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CAACACCAATGT
Found at i:33386071 original size:96 final size:96
Alignment explanation
Indices: 33385893--33386086 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
33385883 TCGCTTCTTT
* *
33385893 TTGCTCCTCTTAGCCCTCCTGGCTTCAGCTTTACCCTTGCTCAAACCAAGCTTCTTGAGCTCCTT
1 TTGCTCCTCTTAGCCCTCCTGGCTTCAGCTTTACCCTTGCTCAAACCAAGCTTCCTGAGCTCCGT
* * * *
33385958 GTCTACTCCATCGTTCCCTTCGATGACAGAC
66 ATCTACTCCATCATTCCCATCGATAACAGAC
* ** * * *
33385989 TTGCTCCTCTTTA-CCCTCTTGGCTTTGGCTTTTCCCTTGCTCGAACCAAGCTTCCTGGGCTCCG
1 TTGCTCCTC-TTAGCCCTCCTGGCTTCAGCTTTACCCTTGCTCAAACCAAGCTTCCTGAGCTCCG
* * *
33386053 TATCTGCTCGATTATTCCCATCGATAACAGAC
65 TATCTACTCCATCATTCCCATCGATAACAGAC
33386085 TT
1 TT
33386087 CCTCAGACAC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 79 0.96
97 3 0.04
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCCTGGCTTCAGCTTTACCCTTGCTCAAACCAAGCTTCCTGAGCTCCGT
ATCTACTCCATCATTCCCATCGATAACAGAC
Found at i:33388636 original size:39 final size:39
Alignment explanation
Indices: 33388563--33388680 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 39
33388553 TAATGGAGAA
* *
33388563 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
*
33388602 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
* *
33388641 TTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTG
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGTG
33388681 ATTGGATTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 35 0.49
40 36 0.51
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
Found at i:33397191 original size:7 final size:7
Alignment explanation
Indices: 33397179--33397207 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
33397169 ATGAAAGCCA
33397179 CTTGCTT
1 CTTGCTT
33397186 CTTGCTT
1 CTTGCTT
33397193 CTTGCTT
1 CTTGCTT
33397200 CTTGCTT
1 CTTGCTT
33397207 C
1 C
33397208 CTAAAGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.31, G:0.14, T:0.55
Consensus pattern (7 bp):
CTTGCTT
Found at i:33400178 original size:17 final size:18
Alignment explanation
Indices: 33400145--33400178 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33400135 ATCAAGTCAA
*
33400145 CCATTCCTCCCACAACCT
1 CCATTCCTCCAACAACCT
33400163 CCATTCC-CCAACAACC
1 CCATTCCTCCAACAACC
33400179 ATCCTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.56, G:0.00, T:0.18
Consensus pattern (18 bp):
CCATTCCTCCAACAACCT
Found at i:33402758 original size:16 final size:16
Alignment explanation
Indices: 33402737--33402767 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33402727 TGAGCCTTCC
33402737 ATCAGCTTCAATGTTA
1 ATCAGCTTCAATGTTA
33402753 ATCAGCTTCAATGTT
1 ATCAGCTTCAATGTT
33402768 GCATTAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
ATCAGCTTCAATGTTA
Found at i:33402955 original size:20 final size:20
Alignment explanation
Indices: 33402918--33402955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33402908 TCTGTAATAA
**
33402918 TTTGTGTAATTAGGCAATGT
1 TTTGTGTAATTACACAATGT
33402938 TTTGTGTAATTACACAAT
1 TTTGTGTAATTACACAAT
33402956 ACATTACGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (20 bp):
TTTGTGTAATTACACAATGT
Found at i:33402989 original size:60 final size:59
Alignment explanation
Indices: 33402831--33403047 Score: 249
Period size: 60 Copynumber: 3.7 Consensus size: 59
33402821 GCAATTTGTG
* ** * *
33402831 TTACACAAAACTTTATTAGATTTGTAACAATTTGTGTAATAAGGCAATG--TTGTGTAA
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * * *
33402888 TTACACAAAACTTTATGAGATCTGTAATAATTTGTGTAATTAGGCAATGTTTTGTGTAA
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * *
33402947 TTACACAATACATTACGAATATTTGTAACAATTTGTGCAATTAGGTAATGTTTTGTGTAA
1 TTACACAAAACATTACG-ATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
* * * * *
33403007 TTATACAAAACATTACCATAGTTGTAATAATTTGTATAATT
1 TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATT
33403048 GAGTATGTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
57 45 0.33
59 42 0.30
60 51 0.37
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (59 bp):
TTACACAAAACATTACGATATTTGTAACAATTTGTGTAATTAGGCAATGTTTTGTGTAA
Found at i:33403846 original size:74 final size:74
Alignment explanation
Indices: 33403755--33403897 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
33403745 ATGCAACATA
* * **
33403755 TTTACTTCACATCAAATGATGTTTTTAAAAGGAACCTTGACATTTCAAATTCCATTAACAATGTC
1 TTTACTTCACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGTC
33403820 TATATGGCC
66 TATATGGCC
* *
33403829 TTTACTTCGA-ATAAAATGATGTTTTTAACAGGAAACTTGACATTTCAAATTTCAGAAACAATGT
1 TTTACTTC-ACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGT
*
33403893 TTATA
65 CTATA
33403898 CAGCCAACTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 60 0.98
75 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (74 bp):
TTTACTTCACATAAAATGATGTTTTTAAAAGGAAACTTGACATTTCAAATTCCAGAAACAATGTC
TATATGGCC
Found at i:33407708 original size:91 final size:91
Alignment explanation
Indices: 33407604--33407838 Score: 470
Period size: 91 Copynumber: 2.6 Consensus size: 91
33407594 CCATAAAGAT
33407604 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
33407669 GCGTAAGATTTTGCATAAAAAAGTTA
66 GCGTAAGATTTTGCATAAAAAAGTTA
33407695 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
33407760 GCGTAAGATTTTGCATAAAAAAGTTA
66 GCGTAAGATTTTGCATAAAAAAGTTA
33407786 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAA
1 TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAA
33407839 GGAAAAAAAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 144 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (91 bp):
TGTTGTTTGATGTAACCCAAGTGAAATTGCTTCTATGCATTTCAAAGCTAGAATTAGATACACTA
GCGTAAGATTTTGCATAAAAAAGTTA
Found at i:33408564 original size:3 final size:3
Alignment explanation
Indices: 33408556--33408594 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
33408546 TGATTTGAAG
33408556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33408595 GATCATGATC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33413475 original size:40 final size:40
Alignment explanation
Indices: 33413411--33413486 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
33413401 TATACATATA
*
33413411 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
* ** *
33413451 TAGCCGAAGCTATTTTGAACCGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCA
33413487 TTTTTTTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACCAAGTGCCACATT
Found at i:33415981 original size:14 final size:14
Alignment explanation
Indices: 33415962--33415990 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33415952 TACTCGTGAT
33415962 TACACAAAAATTCA
1 TACACAAAAATTCA
33415976 TACACAAAAATTCA
1 TACACAAAAATTCA
33415990 T
1 T
33415991 TACCATACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TACACAAAAATTCA
Found at i:33417273 original size:48 final size:48
Alignment explanation
Indices: 33417135--33417280 Score: 195
Period size: 48 Copynumber: 3.0 Consensus size: 48
33417125 AAATCTCATA
* * * *
33417135 CCGAAGCCTTATCCCAGATATGGTCTTACATATA-ATCTCATACCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACA-AGATCTCATATCGATG
*
33417183 CCGATGCCGTATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
* * * *
33417231 CTGATGCCATATCCCAAATATGGTCTTACACAGGATCTCATATCAATG
1 CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
33417279 CC
1 CC
33417281 ATGTCCCAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 86 0.99
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
CCGATGCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATG
Done.