Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 97 of 279
Found at i:31309649 original size:28 final size:27
Alignment explanation
Indices: 31309595--31309657 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
31309585 AAATGCATCC
31309595 AAAAAGAAAAACAAAAGTACAAAAATAGA
1 AAAAAGAAAAACAAAAG-ACAAAAATA-A
**
31309624 AAAAAGAAAAGGAAAAG-CAAACAATAA
1 AAAAAGAAAAACAAAAGACAAA-AATAA
31309651 AACAAAG
1 AA-AAAG
31309658 GTCATAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.23
28 8 0.27
29 15 0.50
ACGTcount: A:0.75, C:0.08, G:0.13, T:0.05
Consensus pattern (27 bp):
AAAAAGAAAAACAAAAGACAAAAATAA
Found at i:31310259 original size:31 final size:32
Alignment explanation
Indices: 31310194--31310259 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
31310184 AAAGAGATCG
*
31310194 AAATTAAAAAATCAAAATAAAAAAAAGAAGAA
1 AAATTAAAAAATCAAAATAAAAAAAAGAAAAA
* * **
31310226 AAATT-AAAAATTAAAATCAAAAAATTAAAAA
1 AAATTAAAAAATCAAAATAAAAAAAAGAAAAA
31310257 AAA
1 AAA
31310260 AAGAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (32 bp):
AAATTAAAAAATCAAAATAAAAAAAAGAAAAA
Found at i:31311365 original size:64 final size:64
Alignment explanation
Indices: 31311258--31311377 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
31311248 ATAAATCACG
* ** *
31311258 CATCTAGTTAGGAGCATTTGATTCATTTTGATTATAGCATCCTAATTATTTGACATAAGCATTA
1 CATCTAGTTAAGAGCATTTGATTCATTTCAATTATAGCATCCTAATTATTTAACATAAGCATTA
**
31311322 CATCTAGTTAAGAGCATTTGATTCATTTCAATTATAGTGTCCTAATTATTTAACAT
1 CATCTAGTTAAGAGCATTTGATTCATTTCAATTATAGCATCCTAATTATTTAACAT
31311378 CACTCATATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (64 bp):
CATCTAGTTAAGAGCATTTGATTCATTTCAATTATAGCATCCTAATTATTTAACATAAGCATTA
Found at i:31311809 original size:133 final size:133
Alignment explanation
Indices: 31311649--31311903 Score: 388
Period size: 133 Copynumber: 1.9 Consensus size: 133
31311639 TTGAAAGTTG
*
31311649 AGTCTTATCTTTCTGTGGTAGCAAGGAAGCAGACT-GAAGATTGAAGATCTTACCTCCCTAAGCA
1 AGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGGAA-ATTGAAGATCTTACCTCCCTAAGCA
*
31311713 GTAGTGGAGCAGATCGAAT-ATAGTGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGGCA
65 GTAGTGGAGCAGATCG-ATCATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGGCA
31311777 ATAGT
129 ATAGT
* * * *
31311782 AGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGGAATTTGTAGATCTTATCTCCCTAGGCAG
1 AGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGGAAATTGAAGATCTTACCTCCCTAAGCAG
* * * *
31311847 TAGTGGGGCAGATTGATCATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGA
66 TAGTGGAGCAGATCGATCATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGA
31311904 TTTTAGCCAC
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 2 0.02
133 105 0.95
134 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (133 bp):
AGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGGAAATTGAAGATCTTACCTCCCTAAGCAG
TAGTGGAGCAGATCGATCATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGGCAAT
AGT
Found at i:31311923 original size:133 final size:132
Alignment explanation
Indices: 31311652--31311965 Score: 370
Period size: 133 Copynumber: 2.4 Consensus size: 132
31311642 AAAGTTGAGT
*
31311652 CTTATCTTTCTGTGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTACCTCCCTAAGCAGTAG
1 CTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTACCTCCCTAAGCAGTAG
* *
31311717 TGGAGCAGATCGAATATAGTGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGGCAATAGT
66 TGGAGCAGATCGAATATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGCCAATAGT
31311782 AG
131 AG
* * * *
31311784 TCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGGAA-TTTGTAGATCTTATCTCCCTAGGCAGT
1 -CTTATCTTTCTGAGGTAGCAAGGAAGCAGACT-GAAGATTGAAGATCTTACCTCCCTAAGCAGT
* * * * *
31311848 AGTGGGGCAGATTG-ATCATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCC
64 AGTGGAGCAGATCGAAT-ATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGA--CT-GCC
*
31311912 ACT-G-A-
125 AATAGTAG
* * **
31311917 CATTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAAG-TCTTA
1 C-TTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTA
31311966 TCTTCCTGAG
Statistics
Matches: 155, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
132 11 0.07
133 134 0.86
134 4 0.03
135 2 0.01
136 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
CTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTACCTCCCTAAGCAGTAG
TGGAGCAGATCGAATATAGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGACTGCCAATAGT
AG
Found at i:31311967 original size:44 final size:44
Alignment explanation
Indices: 31311919--31312004 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
31311909 GCCACTGACA
**
31311919 TTATC-TCTCTGAGGTAGCAA-GAAAGCAGGTTGAAGATTGAAGTC
1 TTATCTTC-CTGAGGTAGCAAGGAAA-CAGACTGAAGATTGAAGTC
31311963 TTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTGAAG
1 TTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTGAAG
31312005 ATTGGAGGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 32 0.84
45 6 0.16
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (44 bp):
TTATCTTCCTGAGGTAGCAAGGAAACAGACTGAAGATTGAAGTC
Found at i:31312332 original size:176 final size:175
Alignment explanation
Indices: 31312018--31312936 Score: 786
Period size: 176 Copynumber: 5.2 Consensus size: 175
31312008 GGAGGAGGCA
* * * * * * * *
31312018 AATCTTATCACCATGTATCGGCAATAGAGTAGATTTAAGCCCCAAACCTTATCTCTCTGAAGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACGAGCCTTATCTCTCTGAGGTAG
* * * * * * * * * *
31312083 TAAGAGAGGATGTTGAAGATTGAAGTCTTATCTTTCTGAGATTGC-AGTGGAGCAGAATGAAAAT
66 CAAGAGAGCAAGTTGAAGAATG-AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAGAT
*** * * *
31312147 CCCAGATCTTATCTTCCTAAGCAGTAGCGGAACAGATCGAAGATGGCA
129 TGAAGATCTTATCTCCCTAAG-AGTAGCGGAGCAGATCGAAGATGGCG
* * *
31312195 AATCTTATCTCCATGTATTGGCAAT-GAGCGGATTTTAGCCACTGA-CCTTATCTCTCTAAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC-GAGCCTTATCTCTCTGAGGTA
* * * * * * *
31312258 ACAAGAGAGTAGGTTGAAGATAAT-AGTCTTATCGTCCTGATGTAGCAAGGAAGTAGACTAAAGA
65 GCAAGAGAGCAAGTTGAAG--AATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGA
* * *
31312322 TTGAAGATCTTATCTCCCTGAGCAGTAGCGGAGCTGA-CGGAGGATGGCG
128 TTGAAGATCTTATCTCCCTAAG-AGTAGCGGAGCAGATC-GAAGATGGCG
* ** * *
31312371 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTGAAGCCGCAAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACGAGCCTTATCTCTCTGAGGTAG
* * * * * * *
31312436 CAAAAGAGCAGGTTAAAGAATGAGTCTTATCTTTCTAAGGTAGC-AGGAAAGAAGACTGGAGATT
66 CAAGAGAGCAAGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGG-AAGCAGACTGAAGATT
* * * * * * *
31312500 AAAGATCTTATCTCCCCAA-AGTTGCAGAGGAGTGCATCGAATATGGTG
130 GAAGATCTTATCTCCCTAAGAGTAGCGGAGCA--G-ATCGAAGATGGCG
* * * ** * * * *
31312548 AATTTTATCTCCATGTATCGACAATGGAGAAGATTTTA-CCACCCGTCTCACCTCTTTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACGAGCCTTATCTCTCTGAGGTAG
* * *
31312612 CAAGAGAGCAAGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGTAAGAAAGCAGACTGAAGATTG
66 CAAGAGAGCAAGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * * * * * *
31312677 AAGATCTTACCTCCATGAAGTTGCAGTGGAGTAGATCAAAAATGGTG
131 AAGATCTTATCTCCCT-AAG-AGTAGCGGAGCAGATCGAAGATGGCG
* *
31312724 AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACGAGCCTTATCTCTCTGAGGTAG
* * * * *
31312788 CAAGAGAACAAATTGAAGAATAAGTCTTATCTTCCTGAGGTATCAAGGGAGCAGACTGAAGATTG
66 CAAGAGAGCAAGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
* * * * *
31312853 AAGATCTTAAT-TCCCTGAG-GTTGC--AGTAGATCGAAGAGGGCA
131 AAGATCTT-ATCTCCCTAAGAGTAGCGGAGCAGATCGAAGATGGCG
*
31312895 AATCTTATCTCCATGTA-CAGGCAATGGAGCAGATTTAAGCCA
1 AATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCA
31312937 GTCTTATCTC
Statistics
Matches: 598, Mismatches: 124, Indels: 45
0.78 0.16 0.06
Matches are distributed among these distances:
170 1 0.00
171 47 0.08
172 3 0.01
173 2 0.00
174 8 0.01
175 9 0.02
176 402 0.67
177 117 0.20
178 3 0.01
179 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACGAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAAGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG
AAGATCTTATCTCCCTAAGAGTAGCGGAGCAGATCGAAGATGGCG
Found at i:31313095 original size:13 final size:13
Alignment explanation
Indices: 31313077--31313119 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
31313067 GGCCCACAAC
31313077 CAAAAAAATAAAA
1 CAAAAAAATAAAA
31313090 CAAAAAAAT-AAA
1 CAAAAAAATAAAA
*
31313102 -AATAAAATAAAA
1 CAAAAAAATAAAA
31313114 CCAAAA
1 -CAAAA
31313120 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 6 0.24
13 9 0.36
14 3 0.12
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (13 bp):
CAAAAAAATAAAA
Found at i:31323632 original size:52 final size:52
Alignment explanation
Indices: 31323575--31323738 Score: 129
Period size: 52 Copynumber: 3.1 Consensus size: 52
31323565 AAATATTTTT
*
31323575 TTTGGGTGTTGGCACATTGATGGTCGGCACTCACTTTATCAGATAAATAAAA
1 TTTGGGTGTTGGCACATTGATGGTCGGCACTCACTTTATCAGATAAAAAAAA
* * * * ** *
31323627 TTTGGGT-TGGGAATACTAGATGGTCATCA-TCAGCTTT-TCGGATTAAAAAATAA
1 TTTGGGTGTTGGCACA-TTGATGGTCGGCACTCA-CTTTATCAGA-TAAAAAA-AA
** * *
31323680 TTTTTTTGTGTTGGCACAGTAATGGTCGGCAC-CTACTTTATCAGATAAAAAAAA
1 --TTTGGGTGTTGGCACATTGATGGTCGGCACTC-ACTTTATCAGATAAAAAAAA
31323734 TTTGG
1 TTTGG
31323739 ATTTGGGGAA
Statistics
Matches: 81, Mismatches: 21, Indels: 20
0.66 0.17 0.16
Matches are distributed among these distances:
51 12 0.15
52 30 0.37
53 2 0.02
54 2 0.02
55 25 0.31
56 10 0.12
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (52 bp):
TTTGGGTGTTGGCACATTGATGGTCGGCACTCACTTTATCAGATAAAAAAAA
Found at i:31323705 original size:107 final size:108
Alignment explanation
Indices: 31323560--31323755 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 108
31323550 TTTATAATTT
* * * *
31323560 TTAAAAAATATTTTTTTTGGGTGTTGGCACATTGATGGTCGGCA-CTCACTTTATCAGATAAATA
1 TTAAAAAATAATTTTTTT-GGTGTTGGCACAGTAATGGTCGGCACCT-ACTTTATCAGATAAAAA
31323624 AAATTTGG-GTTGGGAATACTAGATGGTCATCATCAGCTTTTCGGA
64 AAATTTGGAGTTGGGAA-ACTAGATGGTCATCATCAGCTTTTCGGA
31323669 TTAAAAAATAATTTTTTT-GTGTTGGCACAGTAATGGTCGGCACCTACTTTATCAGATAAAAAAA
1 TTAAAAAATAATTTTTTTGGTGTTGGCACAGTAATGGTCGGCACCTACTTTATCAGATAAAAAAA
* *
31323733 ATTTGGATTTGGGGAACTAGATG
66 ATTTGGAGTTGGGAAACTAGATG
31323756 ACCGACATCA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
107 54 0.68
108 8 0.10
109 17 0.22
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (108 bp):
TTAAAAAATAATTTTTTTGGTGTTGGCACAGTAATGGTCGGCACCTACTTTATCAGATAAAAAAA
ATTTGGAGTTGGGAAACTAGATGGTCATCATCAGCTTTTCGGA
Found at i:31324539 original size:15 final size:16
Alignment explanation
Indices: 31324489--31324539 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
31324479 GAAGATGGTG
31324489 ATGAAGGG-TCTGATA
1 ATGAAGGGTTCTGATA
31324504 ATGAA-GGTTCTGATA
1 ATGAAGGGTTCTGATA
*
31324519 AAGAAGGGTTC-GATA
1 ATGAAGGGTTCTGATA
*
31324534 GTGAAG
1 ATGAAG
31324540 ATTTGAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 2 0.06
15 24 0.77
16 5 0.16
ACGTcount: A:0.35, C:0.06, G:0.33, T:0.25
Consensus pattern (16 bp):
ATGAAGGGTTCTGATA
Found at i:31327324 original size:3 final size:3
Alignment explanation
Indices: 31327318--31327419 Score: 61
Period size: 3 Copynumber: 35.7 Consensus size: 3
31327308 CTAATATCAC
* ** * *
31327318 TAT TAT TAT T-T TTT TAT TGC TAT TAT TAT TA- TCT TAT T-T TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
31327363 TAT TA- TGT TAT TTT TAT TTT TAC TAT TAT TAC TAT TAT CAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31327410 TA- TAT TAT TA
1 TAT TAT TAT TA
31327420 GCATATTATC
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
2 8 0.11
3 64 0.89
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:31327364 original size:19 final size:19
Alignment explanation
Indices: 31327340--31327377 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31327330 TTTATTGCTA
31327340 TTATTATTATCTTATTTTT
1 TTATTATTATCTTATTTTT
*
31327359 TTATTATTATGTTATTTTT
1 TTATTATTATCTTATTTTT
31327378 ATTTTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (19 bp):
TTATTATTATCTTATTTTT
Found at i:31339548 original size:43 final size:44
Alignment explanation
Indices: 31339494--31339585 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
31339484 GCCTCAGCGA
* * *
31339494 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
* * *
31339537 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
31339581 AGCAG
1 AGCAG
31339586 GCTAAATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 30 0.71
44 12 0.29
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
Found at i:31339973 original size:43 final size:42
Alignment explanation
Indices: 31339916--31340020 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 42
31339906 GATATTATTG
* *
31339916 CCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAAC
1 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACC-TAAAC
* *** * *
31339959 CCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAAATCTAAAC
1 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAAC
*
31340001 CCCTAAGCAGTAGGGAAACA
1 CCCTAAGCAGTAGGGTAACA
31340021 GATCAATGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAACCTAAAC
Found at i:31340168 original size:42 final size:42
Alignment explanation
Indices: 31340121--31340238 Score: 193
Period size: 41 Copynumber: 2.8 Consensus size: 42
31340111 AAGCCACAAT
31340121 AGATCTCCTTGAAGTTTCAGTGGAATTGATCGAAGCTACAGC
1 AGATCTCCTTGAAGTTTCAGTGGAATTGATCGAAGCTACAGC
* *
31340163 AGATCTCCTTGAAGTTTCAGTGG-ATTAATCGAAGCTACAGT
1 AGATCTCCTTGAAGTTTCAGTGGAATTGATCGAAGCTACAGC
* *
31340204 AGATTTCCTTGAAGTTTCAGTGGAATTGATTGAAG
1 AGATCTCCTTGAAGTTTCAGTGGAATTGATCGAAG
31340239 TCACGTGTCT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 38 0.54
42 32 0.46
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
AGATCTCCTTGAAGTTTCAGTGGAATTGATCGAAGCTACAGC
Found at i:31340236 original size:21 final size:21
Alignment explanation
Indices: 31340129--31340239 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 21
31340119 ATAGATCTCC
*
31340129 TTGAAGTTTCAGTGGAATTGA
1 TTGAAGTTTCAGTGGAATTCA
* * * ** *
31340150 TCGAAGCTACAGCAG-ATCTCC
1 TTGAAGTTTCAGTGGAAT-TCA
*
31340171 TTGAAGTTTCAGTGG-ATTAA
1 TTGAAGTTTCAGTGGAATTCA
* * * * * *
31340191 TCGAAGCTACAGTAGATTTCC
1 TTGAAGTTTCAGTGGAATTCA
*
31340212 TTGAAGTTTCAGTGGAATTGA
1 TTGAAGTTTCAGTGGAATTCA
31340233 TTGAAGT
1 TTGAAGT
31340240 CACGTGTCTT
Statistics
Matches: 60, Mismatches: 28, Indels: 4
0.65 0.30 0.04
Matches are distributed among these distances:
20 14 0.23
21 46 0.77
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGAAGTTTCAGTGGAATTCA
Found at i:31342236 original size:3 final size:3
Alignment explanation
Indices: 31342230--31342331 Score: 52
Period size: 3 Copynumber: 35.7 Consensus size: 3
31342220 CTAATATCAC
* ** * * *
31342230 TAT TAT TAT T-T TTT TAT TGC TAT TAT TAT TA- TCT TAT T-T TTT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
31342275 TAT TA- TGT TAT TTT TAT TTT TAC TAT TAT TAC TAT TAT CAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31342322 TA- TAT TAT TA
1 TAT TAT TAT TA
31342332 GCATATTATC
Statistics
Matches: 72, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
2 8 0.11
3 64 0.89
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31342266 original size:20 final size:20
Alignment explanation
Indices: 31342229--31342267 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31342219 ACTAATATCA
* *
31342229 CTATTATTATTTTTTTATTG
1 CTATTATTATTATCTTATTG
31342249 CTATTATTATTATCTTATT
1 CTATTATTATTATCTTATT
31342268 TTTTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (20 bp):
CTATTATTATTATCTTATTG
Found at i:31342279 original size:19 final size:20
Alignment explanation
Indices: 31342250--31342296 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
31342240 TTTTTATTGC
*
31342250 TATTATTATTATCTTATTTT
1 TATTTTTATTATCTTATTTT
*
31342270 T-TTTTTATTATGTTATTTT
1 TATTTTTATTATCTTATTTT
31342289 TATTTTTA
1 TATTTTTA
31342297 CTATTATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TATTTTTATTATCTTATTTT
Found at i:31344787 original size:19 final size:19
Alignment explanation
Indices: 31344737--31344789 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
31344727 AAAAATAAAA
31344737 AAATTAAATACATT-AAGTTT
1 AAATTAAA-A-ATTAAAGTTT
* * *
31344757 AACTTGATAATTAAAGTTT
1 AAATTAAAAATTAAAGTTT
31344776 AAATTAAAAATTAA
1 AAATTAAAAATTAA
31344790 TTGGATTTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 18 0.69
20 5 0.19
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (19 bp):
AAATTAAAAATTAAAGTTT
Found at i:31344941 original size:19 final size:19
Alignment explanation
Indices: 31344919--31344959 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31344909 ATTAAATACA
* *
31344919 TAAACTTTAACTTAATAAT
1 TAAACTTTAAATTAAAAAT
*
31344938 TAAAGTTTAAATTAAAAAT
1 TAAACTTTAAATTAAAAAT
31344957 TAA
1 TAA
31344960 TTGAATTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAACTTTAAATTAAAAAT
Found at i:31345028 original size:173 final size:172
Alignment explanation
Indices: 31344698--31345036 Score: 556
Period size: 170 Copynumber: 2.0 Consensus size: 172
31344688 CAACTAATAT
* * *
31344698 ACCAATTAAAGTATAGATAATTTCAATTAAAAAATAAAAAAATTAAATACATTAAGTTTAACTTG
1 ACCAATTAAAGTATAGATAATTTCAATTAAAAAAT-AAAAAATTAAATACATAAACTTTAACTTA
* *
31344763 ATAATTAAAGTTTAAATTAAAAATTAATTGGATTTCTTAATTTTAATTAAAACTCAATTTAAAGA
65 ATAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTAAAAATCAATTTAAAGA
*
31344828 TTAAATAAAAATATTTTAATACATTTCAATTGAATATATTTTA
130 TTAAATAAAAATAATTTAATACATTTCAATTGAATATATTTTA
31344871 ACCAATTAAAGTATAGATAATTTCAATT-AAAAAT-AAAAATTAAATACATAAACTTTAACTTAA
1 ACCAATTAAAGTATAGATAATTTCAATTAAAAAATAAAAAATTAAATACATAAACTTTAACTTAA
*
31344934 TAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTTATTTAAAAAATCAATTTAAAG
66 TAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAA-TTTTAATT-AAAAATCAATTTAAAG
*
31344999 ATTAAATAAAAAATAATTTAATCCATTTCAATTGAATA
129 ATTAAAT-AAAAATAATTTAATACATTTCAATTGAATA
31345037 GATTATAGAT
Statistics
Matches: 155, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
170 64 0.41
171 7 0.05
172 28 0.18
173 56 0.36
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (172 bp):
ACCAATTAAAGTATAGATAATTTCAATTAAAAAATAAAAAATTAAATACATAAACTTTAACTTAA
TAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTAAAAATCAATTTAAAGAT
TAAATAAAAATAATTTAATACATTTCAATTGAATATATTTTA
Found at i:31345087 original size:140 final size:140
Alignment explanation
Indices: 31344932--31345183 Score: 459
Period size: 140 Copynumber: 1.8 Consensus size: 140
31344922 ACTTTAACTT
* *
31344932 AATAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTTATTTAAAAAATCAATTTAA
1 AATAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAA
*
31344997 AGATTAAATAAAAAATAATTTAATCCATTTCAATTGAATAGATTATAGATAACTTCAATTAAAAA
66 AGATTAAATAAAAAATAATTTAATACATTTCAATTGAATAGATTATAGATAACTTCAATTAAAAA
31345062 ATAAAAATTA
131 ATAAAAATTA
* *
31345072 AATACTTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATTAATTTAA
1 AATAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAA
31345137 AGATTAAATAAAAAATAATTTAATACATTTCAATTGAATAGATTATA
66 AGATTAAATAAAAAATAATTTAATACATTTCAATTGAATAGATTATA
31345184 ACTAATTAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 107 1.00
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (140 bp):
AATAATTAAAGTTTAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAA
AGATTAAATAAAAAATAATTTAATACATTTCAATTGAATAGATTATAGATAACTTCAATTAAAAA
ATAAAAATTA
Found at i:31345229 original size:140 final size:140
Alignment explanation
Indices: 31344945--31345229 Score: 396
Period size: 140 Copynumber: 2.0 Consensus size: 140
31344935 AATTAAAGTT
* *
31344945 TAAATTAAAAATTAATTGAATTTCTTAATTTTTATTTAAAAAATCAATTTAAAGATTAAATAAAA
1 TAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAAAGATTAAATAAAA
* *
31345010 AATAATTTAATCCATTTCAATTGAATAGATTATAGATAACTTCAATTAAAAAATAAAAATTAAAT
66 AATAATTTAATACATTTCAATTGAATAGATTATAGATAACTTAAATTAAAAAATAAAAATTAAAT
** ***
31345075 ACTTAAAGTT
131 AAATAAAAAA
*
31345085 TAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATTAATTTAAAGATTAAATAAAA
1 TAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAAAGATTAAATAAAA
* ***
31345150 AATAATTTAATACATTTCAATTGAATAGATTATA-ACTAA-TTAAATTATAGATAATTTCAATTA
66 AATAATTTAATACATTTCAATTGAATAGATTATAGA-TAACTTAAATTA-A-AAAATAAAAATTA
31345213 AA-AAATAAAAAA
128 AATAAATAAAAAA
31345225 TAAAT
1 TAAAT
31345230 ACATAGAGTT
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
139 8 0.06
140 109 0.85
141 11 0.09
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (140 bp):
TAAATTAAAAATTAATTGAATTTCTTAATTTTAATTGAAAAAATCAATTTAAAGATTAAATAAAA
AATAATTTAATACATTTCAATTGAATAGATTATAGATAACTTAAATTAAAAAATAAAAATTAAAT
AAATAAAAAA
Found at i:31346655 original size:213 final size:214
Alignment explanation
Indices: 31346281--31346710 Score: 709
Period size: 213 Copynumber: 2.0 Consensus size: 214
31346271 CTGTCTCAAA
* * *
31346281 CCCCGATCCTGAGCATGAATATGAATCATCCGAGGAAACCTCACAAACCCCCCATCCGAATCCTT
1 CCCCGATCCCGAGCATGAATATGAATCATCCGAAGAAACCTCACAAACCCCCCATCCGAATCCTC
*
31346346 CTTCATTCGAGGACATATTTGGCAACGACCTTGAGCCTCAATACTCAACAAACTCTGGATCATTC
66 CTTCATTCGAGGACATATTTGGCAACGACCTTGAGCCTCAACACTCAACAAACTCTGGATCATTC
* *
31346411 TCATACCACCCAAAGCCCCATCGGCAAGCACCTACACCTAATATTAAGGATATTTTTGGCTCAGC
131 TCATACCACCCAAAGCCCCATCAGCAAGCACCTACACCTAATATTAAGGATATTTTTGGCTCAAC
31346476 ACCTCTGGACTAACAATAC
196 ACCTCTGGACTAACAATAC
* *
31346495 CCCCGATCCCGAGCATGAATATGAATCATCTGAAGAAGCCTCACAAA-CCCCCATCCGAATCCTC
1 CCCCGATCCCGAGCATGAATATGAATCATCCGAAGAAACCTCACAAACCCCCCATCCGAATCCTC
* * * *
31346559 CTTCGTTCGAGGACATATTTGGCAACGACCTTGAGCCTCAACACTCAGCATACTCTGGATCGTTC
66 CTTCATTCGAGGACATATTTGGCAACGACCTTGAGCCTCAACACTCAACAAACTCTGGATCATTC
* * * *
31346624 TCATACCACCCAGAGCTCCATCAGTAAGCACCTACACCTAATATTGAGGATATTTTTGGCTCAAC
131 TCATACCACCCAAAGCCCCATCAGCAAGCACCTACACCTAATATTAAGGATATTTTTGGCTCAAC
31346689 ACCTCTGGACTAACAATAC
196 ACCTCTGGACTAACAATAC
31346708 CCC
1 CCC
31346711 TTCACCCCGA
Statistics
Matches: 200, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
213 157 0.79
214 43 0.22
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.23
Consensus pattern (214 bp):
CCCCGATCCCGAGCATGAATATGAATCATCCGAAGAAACCTCACAAACCCCCCATCCGAATCCTC
CTTCATTCGAGGACATATTTGGCAACGACCTTGAGCCTCAACACTCAACAAACTCTGGATCATTC
TCATACCACCCAAAGCCCCATCAGCAAGCACCTACACCTAATATTAAGGATATTTTTGGCTCAAC
ACCTCTGGACTAACAATAC
Found at i:31347186 original size:90 final size:89
Alignment explanation
Indices: 31347015--31347195 Score: 213
Period size: 90 Copynumber: 2.0 Consensus size: 89
31347005 CCAACAAAAA
* *** *
31347015 TTACATATACAAGAAAATACGAACATCTTAGAAAATTGATATACGGCAATATATAATTCGACCAA
1 TTACATATACAAGAAAATAAGAACATCTTAGAAAATTGATATACAAAAATATAAAATTCGACCAA
* *
31347080 CAAATAACACCGACTAATTTTTAT
66 CAAATAACACCGACTAAATTTCAT
* *
31347104 TTACATATACAA-AATTAATAAGAACATTTTAGAAACTTGATATACAAAAATATAAAATTCGACC
1 TTACATATACAAGAA--AATAAGAACATCTTAGAAAATTGATATACAAAAATATAAAATTCGACC
** *
31347168 GGCAAATAATA-CGAACTAAATTTCAT
64 AACAAATAACACCG-ACTAAATTTCAT
31347194 TT
1 TT
31347196 GTGGATACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
88 2 0.03
89 14 0.18
90 61 0.79
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (89 bp):
TTACATATACAAGAAAATAAGAACATCTTAGAAAATTGATATACAAAAATATAAAATTCGACCAA
CAAATAACACCGACTAAATTTCAT
Found at i:31352799 original size:19 final size:17
Alignment explanation
Indices: 31352775--31352809 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
31352765 AGTATGAAAT
31352775 CTAAACATACTAAAAAAAC
1 CTAAAC-TA-TAAAAAAAC
31352794 CTAAACTATAAAAAAA
1 CTAAACTATAAAAAAA
31352810 TATCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (17 bp):
CTAAACTATAAAAAAAC
Found at i:31366052 original size:37 final size:37
Alignment explanation
Indices: 31365999--31366072 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
31365989 AGTACTCCTT
*
31365999 CCAACTGCCTCAAAAATCTATAATGCAACCCCTCAAC
1 CCAACTACCTCAAAAATCTATAATGCAACCCCTCAAC
* *
31366036 CCAACTACCTCGAAAATCTATAATGCAGCCCCTCAAC
1 CCAACTACCTCAAAAATCTATAATGCAACCCCTCAAC
31366073 ATGTCCTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.38, G:0.07, T:0.19
Consensus pattern (37 bp):
CCAACTACCTCAAAAATCTATAATGCAACCCCTCAAC
Found at i:31371495 original size:13 final size:13
Alignment explanation
Indices: 31371477--31371501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31371467 CCACATGCCC
31371477 ATGTGGTTCACCT
1 ATGTGGTTCACCT
31371490 ATGTGGTTCACC
1 ATGTGGTTCACC
31371502 CGTGTAGGCC
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:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
ATGTGGTTCACCT
Found at i:31373101 original size:15 final size:15
Alignment explanation
Indices: 31373081--31373125 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31373071 ATATATTATA
31373081 TAATAATTATAAATT
1 TAATAATTATAAATT
31373096 TAATAATTATGAAAATT
1 TAATAATTAT--AAATT
* *
31373113 TTATTATTATAAA
1 TAATAATTATAAA
31373126 AATGACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 13 0.50
17 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAATAATTATAAATT
Found at i:31373113 original size:17 final size:16
Alignment explanation
Indices: 31373081--31373126 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
31373071 ATATATTATA
31373081 TAATAATTAT-AAATT
1 TAATAATTATAAAATT
31373096 TAATAATTATGAAAATT
1 TAATAATTAT-AAAATT
* *
31373113 TTATTATTATAAAA
1 TAATAATTATAAAA
31373127 ATGACATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATAATTATAAAATT
Found at i:31373294 original size:17 final size:18
Alignment explanation
Indices: 31373261--31373296 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31373251 ATATAAAAAA
*
31373261 ATTTTATAATAATTTATT
1 ATTTTATAATAAATTATT
31373279 ATTTTAT-ATAAATTATT
1 ATTTTATAATAAATTATT
31373296 A
1 A
31373297 CAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATAATAAATTATT
Found at i:31378548 original size:33 final size:33
Alignment explanation
Indices: 31378506--31378581 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
31378496 AAAGGACCTG
*
31378506 AATCTTTCCTCCCCTTACTCTAAGCTCTCTCTC
1 AATCTTTCCTCCCCTTACTCTAAGCTCTCTCAC
* *
31378539 AATCTTTCCTCCCTTTACTCTGAGCTCTCTCAC
1 AATCTTTCCTCCCCTTACTCTAAGCTCTCTCAC
31378572 AATCTTTCCT
1 AATCTTTCCT
31378582 TTCACGCTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.16, C:0.39, G:0.04, T:0.41
Consensus pattern (33 bp):
AATCTTTCCTCCCCTTACTCTAAGCTCTCTCAC
Found at i:31395009 original size:44 final size:43
Alignment explanation
Indices: 31394959--31395720 Score: 407
Period size: 44 Copynumber: 17.0 Consensus size: 43
31394949 TAAAGCCATT
* * *
31394959 AATCTTATCTCTCTGAAGATGCAGTGGAGTAGTTTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * * * *
31395002 AAGTCTTATCTCCCTGAAGTTACAGTGGGGCAGACTGAATAGGGT-G
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-A-A-GTTAC
* * * * * ** *
31395048 AATCTTATCACCCTAAAGTTGCAGTGGAGCATATCGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-C
* * * *
31395092 AACCCTATC-CCTCTGAAGATGCAGTGGAGTAGGTTGAAGTTAC
1 AATCTTATCTCC-CTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * **
31395135 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TTAC
* * **
31395180 GAATCTTATCTTCCTGAAGTTGCAGTGAAGCT-GATTGAAGCCAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAG-TAGATTGAAGTTAC
* * * *
31395224 TAACCTTATCTCCCTAAAGATGCAGTGGAGTAGGTTGAAGTTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* *
31395268 AAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGTA-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG-T--TAC
* * ** **
31395314 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGCCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * * * * *
31395357 TAACCTTATCTCCCTGAAGTTACGGTAGAGCAGGTTAAAGTTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * *
31395401 AAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-C
* * * * *
31395446 AAATCTTATTTCCCTGAAGTTACAGTGGAATAGGTTGGAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT---G----AAGTTAC
** * * * * *
31395497 AGATCTTATCTCTATGAAGTTACAGTAGAGCAGACTGAAGATAGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-C
* ** *
31395542 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTCAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * * * * *
31395586 TAACCTTATTTCCCCGAAGTTACAGTGGAGCAGGTTAAAGTTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
* * * * **
31395630 AAGTCTTATCTCCCTGAAGATACAATGGAGTAGACTGAAGACATC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA-C
* * * * * *
31395675 GGATCTTATTTCCTTGAAGTTGCAGTGGAATAGATTAAAGATAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
31395719 AA
1 AA
31395721 GTCACCAATC
Statistics
Matches: 538, Mismatches: 146, Indels: 70
0.71 0.19 0.09
Matches are distributed among these distances:
42 2 0.00
43 15 0.03
44 285 0.53
45 187 0.35
46 11 0.02
47 4 0.01
48 2 0.00
50 1 0.00
51 27 0.05
52 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
Found at i:31395365 original size:89 final size:89
Alignment explanation
Indices: 31395006--31395377 Score: 272
Period size: 89 Copynumber: 4.2 Consensus size: 89
31394996 AGTTACAAGT
* * * * ** * *
31395006 CTTATCTCCCTGAAGTTACAGTGGGGCAGACTGAATAGGGTGAATCTTATCACCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTAAAGTTGCA
* * *
31395071 GTGGAGCATATCGAAGCCATTAAC
66 GTGGAGCAAATCAAAGCCACTAAC
* * ** * * *
31395095 CCTATC-CCTCTGAAGATGCAGTGGAGTAGGTTGAAGTTA-CAAGTCTTATCTCCCTAAAGTTGC
1 CTTATCTCC-CTGAAGTTGCAGTGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTAAAGTTGC
* * * * *
31395158 AGTGGAGCAGACTGAAGATG--GCGAAT
65 AGTGGAGCA-AATCAA-A-GCCACTAAC
* * * ** * * *
31395184 CTTATCTTCCTGAAGTTGCAGTGAAGCT-GATTGAAGCCACT-AACCTTATCTCCCTAAAGATGC
1 CTTATCTCCCTGAAGTTGCAGTGGAG-TAGACTGAAGATAGTAAATCTTATCTCCCTAAAGTTGC
* ** ** ** *
31395247 AGTGGAGTAGGTTGAAGTTAC-AAGT
65 AGTGGAGCAAATCAAAGCCACTAA-C
* *
31395272 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTAAAGTTGCA
31395337 GTGGAGCAAATCAAAGCCACTAAC
66 GTGGAGCAAATCAAAGCCACTAAC
31395361 CTTATCTCCCTGAAGTT
1 CTTATCTCCCTGAAGTT
31395378 ACGGTAGAGC
Statistics
Matches: 212, Mismatches: 58, Indels: 26
0.72 0.20 0.09
Matches are distributed among these distances:
86 1 0.00
87 4 0.02
88 67 0.32
89 134 0.63
90 5 0.02
91 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTAAAGTTGCA
GTGGAGCAAATCAAAGCCACTAAC
Found at i:31395400 original size:266 final size:266
Alignment explanation
Indices: 31394909--31395472 Score: 790
Period size: 266 Copynumber: 2.1 Consensus size: 266
31394899 GCTACGAATT
* * * * *
31394909 ATGGCAAATCTTATCTTCCTAAAGTTGCAGTGAAACAGATTAAAGCCATTAATCTTATCTCTCTG
1 ATGGCAAATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACTAACCTTATCTCCCTA
* * *
31394974 AAGATGCAGTGGAGTAGTTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGGGCAGACTG
66 AAGATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTG
* * * * * *
31395039 AATAGGGTGAATCTTATCACCCTAAAGTTGCAGTGGAGCATATCGAAGCCATTAACCCTATCCCT
131 AAGAGAGTAAATCTTATCACCCTAAAGTTGCAGTGGAGCAAATCAAAGCCACTAACCCTATCCCT
* * * * *
31395104 CTGAAGATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
196 CTGAAGATACAGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGCAGCAGA
31395169 CTGAAG
261 CTGAAG
* * * *
31395175 ATGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTA
1 ATGGCAAATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACTAACCTTATCTCCCTA
* *
31395240 AAGATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTG
66 AAGATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTG
* * * *
31395305 AAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGCCACTAACCTTATCTCC
131 AAGAGAGTAAATCTTATCACCCTAAAGTTGCAGTGGAGCAAATCAAAGCCACTAACCCTATC-CC
* * *
31395370 -CTGAAGTTACGGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAG
195 TCTGAAGATACAGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGCAGCAG
31395434 ACTGAAG
260 ACTGAAG
* *
31395441 ATAGCAAATCTTAT-TTCCCTGAAGTTACAGTG
1 ATGGCAAATCTTATCTT-CCTGAAGTTGCAGTG
31395473 GAATAGGTTG
Statistics
Matches: 261, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
265 2 0.01
266 257 0.98
267 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (266 bp):
ATGGCAAATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACTAACCTTATCTCCCTA
AAGATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTG
AAGAGAGTAAATCTTATCACCCTAAAGTTGCAGTGGAGCAAATCAAAGCCACTAACCCTATCCCT
CTGAAGATACAGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGCAGCAGA
CTGAAG
Found at i:31395460 original size:89 final size:90
Alignment explanation
Indices: 31395125--31395653 Score: 351
Period size: 89 Copynumber: 5.9 Consensus size: 90
31395115 GTGGAGTAGG
* * *
31395125 TTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGCGAATCTTATC
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATC
* * *
31395190 TTCCTGAAGTTGCAGT-GAAGCTGA
66 TCCCTGAAGTTACAGTAGAAGCAGA
** * * * * ** * *
31395214 TTGAAGCCACTAA-CCTTATCTCCCTAAAGATGCAGTGGAGTAGGTTGAAGTTA-CAAGTCTTAT
1 TTGAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTAT
* * * *
31395277 CTCCCTGAAGTTGCAG-CGGAGTAGA
65 CTCCCTGAAGTTACAGTAGAAGCAGA
* * * * * * ** * *
31395302 CTGAAGATAGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATCAAAGCCA-CTAACCTTA
1 TTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAAATCTTA
* *
31395365 TCTCCCTGAAGTTACGGTAG-AGCAGG
64 TCTCCCTGAAGTTACAGTAGAAGCAGA
* * *
31395391 TTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAAATCTTATT
1 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATC
* * *
31395456 TCCCTGAAGTTACAGTGGAA-TAGG
66 TCCCTGAAGTTACAGTAGAAGCAGA
* * ** * *
31395480 TTGGAGCTATAAATTACAGATCTTATCTCTATGAAGTTACAGTAGAGCAGACTGAAGATAGCAAA
1 TTGAAG-T-T--A-CA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* *
31395545 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGA
59 TCTTATCTCCCTGAAGTTACAGTAGAAGCAGA
** * * * * * ** * * *
31395576 TCAAAGTCACTAA-CCTTATTTCCCCGAAGTTACAGTGGAGCAGGTTAAAGTTA-CAAGTCTTAT
1 TTGAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTAT
*
31395639 CTCCCTGAAGATACA
65 CTCCCTGAAGTTACA
31395654 ATGGAGTAGA
Statistics
Matches: 339, Mismatches: 83, Indels: 37
0.74 0.18 0.08
Matches are distributed among these distances:
88 93 0.27
89 164 0.48
90 5 0.01
91 2 0.01
92 2 0.01
93 1 0.00
94 1 0.00
95 5 0.01
96 66 0.19
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (90 bp):
TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATC
TCCCTGAAGTTACAGTAGAAGCAGA
Found at i:31395473 original size:133 final size:133
Alignment explanation
Indices: 31394912--31395474 Score: 691
Period size: 133 Copynumber: 4.2 Consensus size: 133
31394902 ACGAATTATG
* * * * * * *
31394912 GCAAATCTTATCTT-CCTAAAGTTGCAGTGAAACAGATTAAAGCCATTAATCTTATCTCTCTGAA
1 GCAAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACTAACCTTATCTCCCTGAA
* * *
31394976 GATGCAGTGGAGTAGTTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGGGCAGACTGAA
65 GATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
* **
31395041 TAGG
130 GATA
** ** * * * * *
31395045 GTGAATCTTATCACCCTAAAGTTGCAGTGGAGCATATCGAAGCCATTAACCCTATC-CCTCTGAA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACTAACCTTATCTCC-CTGAA
*
31395109 GATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
65 GATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
*
31395174 GATG
130 GATA
* * * ** *
31395178 GCGAATCTTATCTT-CCTGAAGTTGCAGTGAAGCTGATTGAAGCCACTAACCTTATCTCCCTAAA
1 GCAAATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACTAACCTTATCTCCCTGAA
* *
31395242 GATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAA
65 GATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
31395307 GATA
130 GATA
* * *
31395311 GTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATCAAAGCCACTAACCTTATCTCCCTGAAG
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACTAACCTTATCTCCCTGAAG
* * * * * * *
31395376 TTACGGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAG
66 ATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
31395441 ATA
131 ATA
*
31395444 GCAAATCTTATTTCCCTGAAGTTACAGTGGA
1 GCAAATCTTATTTCCCTGAAGTTGCAGTGGA
31395475 ATAGGTTGGA
Statistics
Matches: 371, Mismatches: 54, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
132 2 0.01
133 367 0.99
134 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (133 bp):
GCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGCCACTAACCTTATCTCCCTGAAG
ATGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
ATA
Found at i:31395548 original size:229 final size:229
Alignment explanation
Indices: 31395271--31395707 Score: 658
Period size: 229 Copynumber: 1.9 Consensus size: 229
31395261 AAGTTACAAG
* * * * *
31395271 TCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGTAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCATGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* *
31395336 AGTGGAGCAAATCAAAGCCACTAACCTTATCTCCCTGAAGTTACGGTAGAGCAGGTTAAAGTTAC
66 AGTGGAGCAAATCAAAGCCACTAACCTTATCTCCCCGAAGTTACAGTAGAGCAGGTTAAAGTTAC
* * * *
31395401 AAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGT
131 AAGTCTTATCTCCCTGAAGATACAATGCAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGT
31395466 TACAGTGGAATAGGTTGGAGCTATAAATTACAGA
196 TACAGTGGAATAGGTTGGAGCTATAAATTACAGA
* *
31395500 TCTTATCTCTATGAAGTTACAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCATGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * * *
31395565 AGTGGAGCAGATCAAAGTCACTAACCTTATTTCCCCGAAGTTACAGTGGAGCAGGTTAAAGTTAC
66 AGTGGAGCAAATCAAAGCCACTAACCTTATCTCCCCGAAGTTACAGTAGAGCAGGTTAAAGTTAC
* * * ** *
31395630 AAGTCTTATCTCCCTGAAGATACAATGGAGTAGACTGAAGACATCGGATCTTATTTCCTTGAAGT
131 AAGTCTTATCTCCCTGAAGATACAATGCAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGT
*
31395695 TGCAGTGGAATAG
196 TACAGTGGAATAG
31395708 ATTAAAGATA
Statistics
Matches: 184, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
229 184 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (229 bp):
TCTTATCTCCATGAAGTTACAGCAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAAATCAAAGCCACTAACCTTATCTCCCCGAAGTTACAGTAGAGCAGGTTAAAGTTAC
AAGTCTTATCTCCCTGAAGATACAATGCAGCAGACTGAAGACAGCAAATCTTATTTCCCTGAAGT
TACAGTGGAATAGGTTGGAGCTATAAATTACAGA
Found at i:31395594 original size:140 final size:140
Alignment explanation
Indices: 31395361--31395614 Score: 343
Period size: 140 Copynumber: 1.8 Consensus size: 140
31395351 AGCCACTAAC
* * ** * *
31395361 CTTATCTCCCTGAAGTTACGGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCATGAAGTTACAGTAGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* * *
31395426 TGCAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAATAGGTTGGAGCTATA
66 TGCAGCAGACTAAAGATAGCAAACCTTATTTCCCCGAAGTTACAGTGGAATAGGTTGGAGCTATA
31395491 AATTACAGAT
131 AATTACAGAT
* *
31395501 CTTATCTCTATGAAGTTACAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCATGAAGTTACAGTAGAGCAGACTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCA
* *
31395566 GTGGAGCAGA-TCAAAG-TCA-CTAACCTTATTTCCCCGAAGTTACAGTGGA
65 GTGCAGCAGACT-AAAGAT-AGCAAACCTTATTTCCCCGAAGTTACAGTGGA
31395615 GCAGGTTAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
140 61 0.62
141 37 0.38
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (140 bp):
CTTATCTCCATGAAGTTACAGTAGAGCAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAG
TGCAGCAGACTAAAGATAGCAAACCTTATTTCCCCGAAGTTACAGTGGAATAGGTTGGAGCTATA
AATTACAGAT
Found at i:31397315 original size:3 final size:3
Alignment explanation
Indices: 31397307--31397332 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31397297 TCACATTCTT
31397307 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
31397333 TATATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31398418 original size:253 final size:257
Alignment explanation
Indices: 31398032--31398501 Score: 653
Period size: 253 Copynumber: 1.8 Consensus size: 257
31398022 GTTTTGTTCA
** * * * * *
31398032 AAACAAGGTAATATTTCGTGTTTGGAAATTTCGAGAGATATATTGTGCCTTACGTGTTGGGTTTC
1 AAACAAGACAATATTTCGTGTTCGGAAATTTC-AGAGATATATTGTGCCCTACATGCTGGGTATC
* * *
31398097 GATTTATCGTTTGACCAAACAACCAAATATCTTTTTTAAAATTTCAAAACATGAGTTTCGGAAAT
65 GATTTATCGTTTGACCAAACAACCAAATATCCTTTTTAAAATTTCAAAACATAAATTTCGGAAAT
* * * *
31398162 TATGAGATGATTTTGGTATCGAATGTTTGAAATATCGTGTCCTACGTGTTGGATGTGATATTTTA
130 TATGAGATGATTTTGATATCAAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTA
31398227 TTTCTTCGAAACAAGAGAATCTTAATCGTTTCATAGTATTACATTTTTATTCAAGATTTTTTT
195 TTTCTTCGAAACAAGAGAATCTTAATCGTTTCATAGTATTACATTTTTATTCAAGATTTTTTT
31398290 AAACAAGACAATATTTCGTGTTCGGAAATTTC-GAGA-A-ATTGTGCCCTACATGCTGGGTATCG
1 AAACAAGACAATATTTCGTGTTCGGAAATTTCAGAGATATATTGTGCCCTACATGCTGGGTATCG
* * ** * ** *
31398352 A-TTATCGTTTGACCGAACAACCGAATATCCTTTTTAACTTTTGAATGCATAAA-TTCTGGGAAT
66 ATTTATCGTTTGACCAAACAACCAAATATCCTTTTTAAAATTTCAAAACATAAATTTC-GGAAAT
* * *
31398415 TATGAGATGATTTTGATATCAAAGGTTTGAAATGTTGTGTCCTACGTGCTGGATGTGATGTTTTA
130 TATGAGATGATTTTGATATCAAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTA
*
31398480 TTTCTTCGAAATAAGAGAATCT
195 TTTCTTCGAAACAAGAGAATCT
31398502 CAATATTCAC
Statistics
Matches: 185, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
252 3 0.02
253 126 0.68
254 22 0.12
255 1 0.01
256 4 0.02
258 29 0.16
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (257 bp):
AAACAAGACAATATTTCGTGTTCGGAAATTTCAGAGATATATTGTGCCCTACATGCTGGGTATCG
ATTTATCGTTTGACCAAACAACCAAATATCCTTTTTAAAATTTCAAAACATAAATTTCGGAAATT
ATGAGATGATTTTGATATCAAAGGTTTGAAATATCGTGTCCTACGTGCTGGATGTGATATTTTAT
TTCTTCGAAACAAGAGAATCTTAATCGTTTCATAGTATTACATTTTTATTCAAGATTTTTTT
Found at i:31402319 original size:3 final size:3
Alignment explanation
Indices: 31402311--31402338 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31402301 CAATTGTTGC
31402311 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31402339 GAGTGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31402634 original size:31 final size:29
Alignment explanation
Indices: 31402570--31402634 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
31402560 AATACTAGTT
*
31402570 ATATATTTATTAATATTTTTGTGATAATT
1 ATATATTTATTAATATTTTTGTGATAATA
31402599 ATATA-TTATATAATTATTTTATGT-ATTAATA
1 ATATATTTAT-TAA-TATTTT-TGTGA-TAATA
31402630 ATATA
1 ATATA
31402635 CTAATTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 4 0.13
29 8 0.26
30 7 0.23
31 12 0.39
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (29 bp):
ATATATTTATTAATATTTTTGTGATAATA
Found at i:31407711 original size:3 final size:3
Alignment explanation
Indices: 31407705--31408325 Score: 172
Period size: 3 Copynumber: 205.0 Consensus size: 3
31407695 AAATTATTGC
* * * * * * * * *
31407705 TAT TAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TGT TGT TGT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
31407753 TAT TAC TATT TAT TAT TAT TACCG TAT TAT TAC TAT TAT TTT TAT TTT
1 TAT TAT TA-T TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*** * * *
31407801 TAT GGC TAT TAC TAT TAC TA- TAT TAT TAT TAT CT-T T-T TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
31407844 CTAT TAC TAT TAT CAT TAT TAT TAT TAT TAT TAT TAA TCT TTT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * **
31407890 TAT T-T CTAT TAT TAT TTT TAC TATT TAG TAT TAT TATT TAT TAT CGT
1 TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* ** ** * * * *
31407937 TAT TAC CCT TAT TAT TGC TAC TAT TCT TAT TAT CT-T T-T TAC AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * ** * *
31407981 TAT TAT TAT T-T TAT ATAT TAG CAT TAT CAT TCC TA- CAT T-T TTT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * * *
31408024 TAT TGT CGT TAT CAT TAT TAA GAC TAT CAT TAT TAT TATT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T
* * * ** * * * *
31408071 TAT AAT ATAGT TGT GAT TAT GGT TACT CA- TAT T-T TCAT CAT CAT CAT
1 TAT TAT -TA-T TAT TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT
* * *
31408118 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * **
31408166 TCTT TAT TGT CAT TGT TAT TAT TTT TAT TTT TAT TTT TAT TGC TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
31408212 TAT TTT TAT TAT TAA TAT TAC TAT TGT TA- TATT TAG TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * **
31408257 TAC TAT TA- TAT TTT TAT TAT TAC TAC TAC GGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31408304 TAACT TAT T-T TAT TAT TAT TAT
1 T-A-T TAT TAT TAT TAT TAT TAT
31408326 CATTTTTGTA
Statistics
Matches: 445, Mismatches: 141, Indels: 64
0.68 0.22 0.10
Matches are distributed among these distances:
2 23 0.05
3 385 0.87
4 32 0.07
5 5 0.01
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:31408424 original size:17 final size:17
Alignment explanation
Indices: 31408404--31408448 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
31408394 ATTACTCATC
31408404 TATTTATATTTC-TTATT
1 TATTTATATTTCTTTA-T
31408421 TATTTATACTTTCTTTAT
1 TATTTATA-TTTCTTTAT
31408439 T-TTTATATTT
1 TATTTATATTT
31408449 TAGGTATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 6 0.23
19 3 0.12
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATATTTCTTTAT
Found at i:31408601 original size:17 final size:18
Alignment explanation
Indices: 31408563--31408600 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
31408553 GTAATATTTA
31408563 TTTACAACTAGTTTTTTT
1 TTTACAACTAGTTTTTTT
31408581 TTTACAACTAGTTTTTTT
1 TTTACAACTAGTTTTTTT
31408599 TT
1 TT
31408601 ATTTCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTACAACTAGTTTTTTT
Found at i:31418228 original size:17 final size:16
Alignment explanation
Indices: 31418201--31418239 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
31418191 ACCACCTTTC
31418201 AATTC-AAATCTAAAAT
1 AATTCAAAATCT-AAAT
31418217 AATTCAAAATCTAAAT
1 AATTCAAAATCTAAAT
31418233 AATTCAA
1 AATTCAA
31418240 TCCACTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTCAAAATCTAAAT
Found at i:31421452 original size:87 final size:89
Alignment explanation
Indices: 31421285--31421456 Score: 215
Period size: 87 Copynumber: 2.0 Consensus size: 89
31421275 ATATATATAT
* * * * *
31421285 ATTATAAAATCATGAGTTTAAAAAAGTATTTGAATCGACGAGAATACTCTTTATTTTTCATCATA
1 ATTATAAAATCATGAGTTTAAAAAAGTATTTGAACCAACAACAATACTCTTTATTTTCCATCATA
** *
31421350 TTACTAAGTTGACATTTAAATTTA
66 TTACTAAACTAACATTTAAATTTA
* *
31421374 ATTATAAAAT-ATGAGTTTAGAAAA-TATTTGAACCAACAACAATAC-CTTATATTTTCCATCTT
1 ATTATAAAATCATGAGTTTAAAAAAGTATTTGAACCAACAACAATACTCTT-TATTTTCCATCAT
*
31421436 ATTTCTAAACTAACATTTAAA
65 ATTACTAAACTAACATTTAAA
31421457 ATTATTTGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
86 3 0.04
87 45 0.63
88 13 0.18
89 10 0.14
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (89 bp):
ATTATAAAATCATGAGTTTAAAAAAGTATTTGAACCAACAACAATACTCTTTATTTTCCATCATA
TTACTAAACTAACATTTAAATTTA
Found at i:31421528 original size:17 final size:19
Alignment explanation
Indices: 31421496--31421537 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
31421486 AAAAGGTGTG
*
31421496 ATAATTATATATTTAA-AA
1 ATAATTACATATTTAATAA
31421514 ATAATTACA-ATTTAATAA
1 ATAATTACATATTTAATAA
31421532 A-AATTA
1 ATAATTA
31421538 TGATGATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATTACATATTTAATAA
Found at i:31423812 original size:13 final size:14
Alignment explanation
Indices: 31423782--31423814 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
31423772 AATTTATGAT
31423782 AATAATATTATAAA
1 AATAATATTATAAA
*
31423796 AATAATATT-TGAA
1 AATAATATTATAAA
31423809 AATAAT
1 AATAAT
31423815 TAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AATAATATTATAAA
Found at i:31427530 original size:23 final size:20
Alignment explanation
Indices: 31427482--31427542 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
31427472 TAACTTATCT
31427482 TATTAAATTTATATTTTTAA
1 TATTAAATTTATATTTTTAA
* *
31427502 TGTTAATATTTATATATTTTTA
1 TATTAA-ATTTATAT-TTTTAA
*
31427524 TAATTAAA-TTCTATTTTTA
1 T-ATTAAATTTATATTTTTA
31427543 TTTCATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.27
21 13 0.39
22 7 0.21
23 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTAAATTTATATTTTTAA
Found at i:31428728 original size:23 final size:23
Alignment explanation
Indices: 31428701--31428744 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
31428691 ACATTTTACT
*
31428701 TTAATTAATAAAGAAAAGAAACC
1 TTAATAAATAAAGAAAAGAAACC
**
31428724 TTAATAAATGGAGAAAAGAAA
1 TTAATAAATAAAGAAAAGAAA
31428745 AGATTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (23 bp):
TTAATAAATAAAGAAAAGAAACC
Found at i:31432908 original size:12 final size:11
Alignment explanation
Indices: 31432825--31432916 Score: 67
Period size: 11 Copynumber: 8.1 Consensus size: 11
31432815 TATTGTTTCG
*
31432825 TTATCATTTTA
1 TTATTATTTTA
* *
31432836 TTATTATGTTG
1 TTATTATTTTA
31432847 TTATTATTTTA
1 TTATTATTTTA
* *
31432858 TTGTTAGTATTGA
1 TTATTA-T-TTTA
* * *
31432871 ATATTATATAA
1 TTATTATTTTA
*
31432882 TTCTTATTTTA
1 TTATTATTTTA
*
31432893 TTATTAATTTTG
1 TTATT-ATTTTA
31432905 TTATTATTTTA
1 TTATTATTTTA
31432916 T
1 T
31432917 ATATATTTGC
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
11 41 0.68
12 12 0.20
13 7 0.12
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:31434132 original size:60 final size:60
Alignment explanation
Indices: 31434006--31434125 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
31433996 GGGTCAAAAA
* * * * *
31434006 ATAATTTATT-TATTGTTTTGGAATTAGAACTAAATTGAAAATTATTGTAAATTTTAAGGG
1 ATAATTTATTGAATT-TTTTAGAATTAGAACTAAAATGAAAATTATTGTAAAATTGAAGGG
*
31434066 ATAATTTATTGAATTTTTTAGAATTCGAACTAAAATGACAAATT-TTGTAAACATTGAAGG
1 ATAATTTATTGAATTTTTTAGAATTAGAACTAAAATGA-AAATTATTGTAAA-ATTGAAGG
31434126 CTAATTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 37 0.73
61 14 0.27
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (60 bp):
ATAATTTATTGAATTTTTTAGAATTAGAACTAAAATGAAAATTATTGTAAAATTGAAGGG
Found at i:31439351 original size:3 final size:3
Alignment explanation
Indices: 31439343--31439379 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
31439333 TACTTTAATT
* *
31439343 TTA TTA TTA TCA TCA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31439380 GTGTTGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:31439955 original size:23 final size:22
Alignment explanation
Indices: 31439929--31439974 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31439919 GCTATGTTTA
*
31439929 TTATTAATATTAGTACATATATT
1 TTATTAATATT-GTACACATATT
* *
31439952 TTATTATTCTTGTACACATATT
1 TTATTAATATTGTACACATATT
31439974 T
1 T
31439975 CTTATCTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (22 bp):
TTATTAATATTGTACACATATT
Found at i:31443807 original size:22 final size:22
Alignment explanation
Indices: 31443781--31443832 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
31443771 TCGCTTCATG
*
31443781 TATTATTCATTTTAAATTGTTT
1 TATTATTCACTTTAAATTGTTT
* *
31443803 TATTATTTACTTTAAATTTTTT
1 TATTATTCACTTTAAATTGTTT
31443825 TATATATT
1 TAT-TATT
31443833 ATCAATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTCACTTTAAATTGTTT
Found at i:31452927 original size:23 final size:23
Alignment explanation
Indices: 31452875--31452930 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
31452865 CTAACTGCTG
* *
31452875 CTAGTTTTTCTTTCTATACTCAA
1 CTAGTTTTTTTTTCTAAACTCAA
*
31452898 C-ACTTTTTTTTTCTCAAACTC-A
1 CTAGTTTTTTTTTCT-AAACTCAA
31452920 CTAGTTTTTTT
1 CTAGTTTTTTT
31452931 CAGCACTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.20, C:0.21, G:0.04, T:0.55
Consensus pattern (23 bp):
CTAGTTTTTTTTTCTAAACTCAA
Found at i:31460431 original size:21 final size:20
Alignment explanation
Indices: 31460397--31460436 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
31460387 ATTCTTTTCT
31460397 TTTTAATTTTTCCA-TTTAA
1 TTTTAATTTTTCCACTTTAA
31460416 TTTTAATTTGTTTCCACTTTA
1 TTTTAA-TT-TTTCCACTTTA
31460437 GTCCTCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 6 0.33
22 4 0.22
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAATTTTTCCACTTTAA
Found at i:31460991 original size:20 final size:20
Alignment explanation
Indices: 31460966--31461004 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31460956 TAGTTATGAC
31460966 ATCATATAAAACATTTAAAT
1 ATCATATAAAACATTTAAAT
31460986 ATCATATAAAACATTTAAA
1 ATCATATAAAACATTTAAA
31461005 CATACTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCATATAAAACATTTAAAT
Found at i:31468051 original size:12 final size:12
Alignment explanation
Indices: 31468034--31468075 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
31468024 TAACCCAATT
31468034 TTTATTTTATTA
1 TTTATTTTATTA
31468046 TTTA-TTTATTA
1 TTTATTTTATTA
31468057 CTTTATTTTATTA
1 -TTTATTTTATTA
31468070 TTTATT
1 TTTATT
31468076 ACTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.25
12 14 0.50
13 7 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:31468072 original size:20 final size:20
Alignment explanation
Indices: 31468047--31468085 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31468037 ATTTTATTAT
31468047 TTATTTATTACTTTATTTTA
1 TTATTTATTACTTTATTTTA
31468067 TTATTTATTACTTTATTTT
1 TTATTTATTACTTTATTTT
31468086 GTTTGGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTATTACTTTATTTTA
Found at i:31470070 original size:10 final size:10
Alignment explanation
Indices: 31470055--31470114 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
31470045 TAATCTTAGG
31470055 ATTTAT-TTT
1 ATTTATCTTT
31470064 CATTTATCTTT
1 -ATTTATCTTT
31470075 ATTTATCTTT
1 ATTTATCTTT
*
31470085 AATTATCTTT
1 ATTTATCTTT
31470095 ATTTAT-TTGT
1 ATTTATCTT-T
31470105 ATTTATCTTT
1 ATTTATCTTT
31470115 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31471957 original size:68 final size:67
Alignment explanation
Indices: 31471885--31472034 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
31471875 CATCATGTGT
* * * *
31471885 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
31471947 ATGTAG
62 ATGTAG
** * *
31471953 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
31472018 AG
66 AG
31472020 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
31472035 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:31471990 original size:64 final size:64
Alignment explanation
Indices: 31471909--31472092 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
31471899 AGACATTATG
* *
31471909 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
31471973 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
31472038 AA
63 AA
* * * *
31472040 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
31472093 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:31475621 original size:65 final size:65
Alignment explanation
Indices: 31475512--31475649 Score: 240
Period size: 65 Copynumber: 2.1 Consensus size: 65
31475502 AAGGTAACAG
* * *
31475512 AGAGTTGCTTTTGTGTCTGCACTATATTCAGGATCACAACCGATTATATGTCAGGAAGCTTATAA
1 AGAGCTGCTTTTGTGTCTGCACTATATTCAGGATCACAACCGATTATATGTCAGGAAGCTCACAA
*
31475577 AGAGCTGCTTTTGTGTCTGCACTATATTCAGGATCACAACCGATTATATGTCAGGACGCTCACAA
1 AGAGCTGCTTTTGTGTCTGCACTATATTCAGGATCACAACCGATTATATGTCAGGAAGCTCACAA
31475642 AGAGCTGC
1 AGAGCTGC
31475650 GGTAGTGCTC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (65 bp):
AGAGCTGCTTTTGTGTCTGCACTATATTCAGGATCACAACCGATTATATGTCAGGAAGCTCACAA
Found at i:31483746 original size:21 final size:21
Alignment explanation
Indices: 31483700--31483747 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
31483690 GTTTAAAAAC
*
31483700 ATTTATTTATTATTATTTTAT
1 ATTTTTTTATTATTATTTTAT
* *
31483721 GTTTTTTTATTTTTATCTTTA-
1 ATTTTTTTATTATTAT-TTTAT
31483742 ATTTTT
1 ATTTTT
31483748 GTTAGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (21 bp):
ATTTTTTTATTATTATTTTAT
Found at i:31489043 original size:19 final size:19
Alignment explanation
Indices: 31489019--31489057 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31489009 AAAGATTAAT
31489019 CGGTTTTGCATAGCTCTTG
1 CGGTTTTGCATAGCTCTTG
31489038 CGGTTTTGCATAGCTCTTG
1 CGGTTTTGCATAGCTCTTG
31489057 C
1 C
31489058 TAGTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.41
Consensus pattern (19 bp):
CGGTTTTGCATAGCTCTTG
Found at i:31489064 original size:19 final size:19
Alignment explanation
Indices: 31489021--31489063 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
31489011 AGATTAATCG
*
31489021 GTTTTGCATAGCTCTTGCG
1 GTTTTGCATAGCTCTTGCA
31489040 GTTTTGCATAGCTCTTGCTA
1 GTTTTGCATAGCTCTTGC-A
31489060 GTTT
1 GTTT
31489064 GGTTCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
GTTTTGCATAGCTCTTGCA
Found at i:31493143 original size:13 final size:14
Alignment explanation
Indices: 31493101--31493145 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
31493091 TAATAATGAT
31493101 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
31493116 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
31493129 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
31493142 TAAA
1 TAAA
31493146 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:31493160 original size:18 final size:18
Alignment explanation
Indices: 31493139--31493177 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31493129 TAAAGTAATT
31493139 AAATAAAATA-AAAGAAAG
1 AAATAAAA-AGAAAGAAAG
*
31493157 AAATAAAAAGAAAGAATG
1 AAATAAAAAGAAAGAAAG
31493175 AAA
1 AAA
31493178 ACGAAACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (18 bp):
AAATAAAAAGAAAGAAAG
Found at i:31493178 original size:14 final size:14
Alignment explanation
Indices: 31493144--31493172 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31493134 TAATTAAATA
31493144 AAAT-AAAAGAAAG
1 AAATAAAAAGAAAG
31493157 AAATAAAAAGAAAG
1 AAATAAAAAGAAAG
31493171 AA
1 AA
31493173 TGAAAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAATAAAAAGAAAG
Found at i:31493988 original size:17 final size:17
Alignment explanation
Indices: 31493962--31494000 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
31493952 GGCATGGCAT
31493962 AGGG-TTGGAAGTGTTC
1 AGGGATTGGAAGTGTTC
31493978 AGGGATTGGAAGTGTTC
1 AGGGATTGGAAGTGTTC
31493995 AGGGAT
1 AGGGAT
31494001 ATTCCGACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.23, C:0.05, G:0.44, T:0.28
Consensus pattern (17 bp):
AGGGATTGGAAGTGTTC
Found at i:31500602 original size:197 final size:197
Alignment explanation
Indices: 31500267--31500661 Score: 790
Period size: 197 Copynumber: 2.0 Consensus size: 197
31500257 TGTATATATT
31500267 AAAGTATGGCATGTATAGGCTAGAAGTTGTGGAATTATGTTTTGTGATGTACATATGTAGCCATG
1 AAAGTATGGCATGTATAGGCTAGAAGTTGTGGAATTATGTTTTGTGATGTACATATGTAGCCATG
31500332 TGATACGGCTAGTTTGGGTTTGAACTTATAGTTTTATAATGGTATATGATATGTGATGCTAATGT
66 TGATACGGCTAGTTTGGGTTTGAACTTATAGTTTTATAATGGTATATGATATGTGATGCTAATGT
31500397 GAAATTGTGGTATGTTTTGGCTGGCCAAAAGAAATGGTCAATGTTGAGAAGTTTTAGTGAGTTTT
131 GAAATTGTGGTATGTTTTGGCTGGCCAAAAGAAATGGTCAATGTTGAGAAGTTTTAGTGAGTTTT
31500462 GA
196 GA
31500464 AAAGTATGGCATGTATAGGCTAGAAGTTGTGGAATTATGTTTTGTGATGTACATATGTAGCCATG
1 AAAGTATGGCATGTATAGGCTAGAAGTTGTGGAATTATGTTTTGTGATGTACATATGTAGCCATG
31500529 TGATACGGCTAGTTTGGGTTTGAACTTATAGTTTTATAATGGTATATGATATGTGATGCTAATGT
66 TGATACGGCTAGTTTGGGTTTGAACTTATAGTTTTATAATGGTATATGATATGTGATGCTAATGT
31500594 GAAATTGTGGTATGTTTTGGCTGGCCAAAAGAAATGGTCAATGTTGAGAAGTTTTAGTGAGTTTT
131 GAAATTGTGGTATGTTTTGGCTGGCCAAAAGAAATGGTCAATGTTGAGAAGTTTTAGTGAGTTTT
31500659 GA
196 GA
31500661 A
1 A
31500662 CATTTGATTG
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.28, C:0.07, G:0.27, T:0.38
Consensus pattern (197 bp):
AAAGTATGGCATGTATAGGCTAGAAGTTGTGGAATTATGTTTTGTGATGTACATATGTAGCCATG
TGATACGGCTAGTTTGGGTTTGAACTTATAGTTTTATAATGGTATATGATATGTGATGCTAATGT
GAAATTGTGGTATGTTTTGGCTGGCCAAAAGAAATGGTCAATGTTGAGAAGTTTTAGTGAGTTTT
GA
Found at i:31504064 original size:188 final size:188
Alignment explanation
Indices: 31503729--31504121 Score: 438
Period size: 188 Copynumber: 2.1 Consensus size: 188
31503719 AGTGACTCCC
* * * * * * *
31503729 ATATCCTTGAAGATGCAGTGGATTGGATCAAAGTTGCAATGACAAATCTTATCTCCTTGAAGTTG
1 ATATCCTTAAAGATGCAATGGATTAGATCAAAGTTACAATGACAAATATTATCTCCCTAAAGTTG
* * ** * *
31503794 TAGTGGAGCAAGATAAAGCTACAAATTCTATACCACTGAAGTTGTAGTGGGTCAGAATAAAGTTA
66 TAGTGGAGCAAGATAAAGCTACAAATCCTATACCACTGAAGATAAAGTGGATCAGAATAAAGCTA
* *
31503859 CTATAACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAA-CTACAAATCCT
131 CTATAACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGAT-AAAGCTACAAATCCG
* *
31503917 ATATCCTTAAAGATGCAATGGATTAGATCAAAGTTATAAT-ATCAAATATTATTTCCCTAAAGTT
1 ATATCCTTAAAGATGCAATGGATTAGATCAAAGTTACAATGA-CAAATATTATCTCCCTAAAGTT
* * * *
31503981 -TCAGTGGAGCAAGATGAAGCTACAAATCCTATATCC-TTGAAGATAAAGTGGAT-TGGATAGAA
65 GT-AGTGGAGCAAGATAAAGCTACAAATCCTATA-CCACTGAAGATAAAGTGGATCAGAATA-AA
* * * *
31504043 GCTA-TCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCG
127 GCTACT-ATAACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCG
* * *
31504105 ATACCCATAAAGTTGCA
1 ATATCCTTAAAGATGCA
31504122 GTGGGCTGGA
Statistics
Matches: 171, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
187 10 0.06
188 159 0.93
189 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (188 bp):
ATATCCTTAAAGATGCAATGGATTAGATCAAAGTTACAATGACAAATATTATCTCCCTAAAGTTG
TAGTGGAGCAAGATAAAGCTACAAATCCTATACCACTGAAGATAAAGTGGATCAGAATAAAGCTA
CTATAACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCG
Found at i:31504125 original size:94 final size:93
Alignment explanation
Indices: 31503729--31504125 Score: 370
Period size: 94 Copynumber: 4.2 Consensus size: 93
31503719 AGTGACTCCC
* * * * * *
31503729 ATATCCTTGAAGATGCAGTGGATTGGATCAAAGTT-GCAATGACAAATCTTATCTCCTTGAAGTT
1 ATATCCATAAAGATGCAGTGGATTGGAT-AAAGTTATC-ATAACAAATCTTATCTCCCTAAAGTT
* *
31503793 GTAGTGGAGCAAGATAAAGCTACAAATTCT
64 GCAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * * * *
31503823 ATA-CCACTGAAGTTGTAGTGGGTCAGAATAAAGTTA-CTATAACAAACCTTATCTCCCTAAAGT
1 ATATCCA-TAAAGATGCAGTGGAT-TGGATAAAGTTATC-ATAACAAATCTTATCTCCCTAAAGT
*
31503886 TGTAGTGGAGCAAGATGAAA-CTACAAATCCT
63 TGCAGTGGAGCAAGAT-AAAGCTACAAATCCT
* * * * * * * *
31503917 ATATCCTTAAAGATGCAATGGATTAGATCAAAGTTATAATATCAAATATTATTTCCCTAAAGTTT
1 ATATCCATAAAGATGCAGTGGATTGGAT-AAAGTTATCATAACAAATCTTATCTCCCTAAAGTTG
*
31503982 CAGTGGAGCAAGATGAAGCTACAAATCCT
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
* * ** * * * *
31504011 ATATCCTTGAAGATAAAGTGGATTGGATAGAAGCTATCATAGCGAATCTTATCTCCCTGAAGTTG
1 ATATCCATAAAGATGCAGTGGATTGGATA-AAGTTATCATAACAAATCTTATCTCCCTAAAGTTG
*
31504076 CAGTGGAGCAAGATAAAGCTACAAATCCG
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
* *
31504105 ATACCCATAAAGTTGCAGTGG
1 ATATCCATAAAGATGCAGTGG
31504126 GCTGGAATGA
Statistics
Matches: 244, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
93 7 0.03
94 229 0.94
95 8 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (93 bp):
ATATCCATAAAGATGCAGTGGATTGGATAAAGTTATCATAACAAATCTTATCTCCCTAAAGTTGC
AGTGGAGCAAGATAAAGCTACAAATCCT
Found at i:31504139 original size:44 final size:44
Alignment explanation
Indices: 31504091--31504187 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
31504081 GAGCAAGATA
* **
31504091 AAGCTACAAATCCGATA-CCCATAAAGTTGCAGTGGGCTGGAATG
1 AAGCTACAAATCCGATATACC-TAAAGTTGCAGTGGAATGGAATG
* * *
31504135 AAGCTACAAATCCTATATACCTGAAGTTGCAGTGGAATGGATTG
1 AAGCTACAAATCCGATATACCTAAAGTTGCAGTGGAATGGAATG
*
31504179 AAACTACAA
1 AAGCTACAA
31504188 CAAATCTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 43 0.96
45 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (44 bp):
AAGCTACAAATCCGATATACCTAAAGTTGCAGTGGAATGGAATG
Found at i:31515012 original size:40 final size:40
Alignment explanation
Indices: 31514949--31515026 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
31514939 TGCGGTACCT
* * *
31514949 TATGGTGTGTAGGGTTGGATGGGTCAATTATATTCCCATA
1 TATGGTGTGCAGGGATGGATGGGTCAATTATATCCCCATA
* *
31514989 TATGGTGTGCAGGGATGGGTGGGTCAATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGGGTCAATTATATCCCCA
31515027 CATGGTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.35
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGGGTCAATTATATCCCCATA
Found at i:31520256 original size:14 final size:14
Alignment explanation
Indices: 31520237--31520264 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31520227 ATATTAAGAT
31520237 TAGACCGGATCTGA
1 TAGACCGGATCTGA
31520251 TAGACCGGATCTGA
1 TAGACCGGATCTGA
31520265 CGTTCGAGGA
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:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
TAGACCGGATCTGA
Found at i:31523920 original size:8 final size:8
Alignment explanation
Indices: 31523907--31523946 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
31523897 CAGAACAGGG
31523907 AAAGAAAA
1 AAAGAAAA
31523915 AAAGAAAA
1 AAAGAAAA
*
31523923 AAAGAAAG
1 AAAGAAAA
*
31523931 AAA-AAGA
1 AAAGAAAA
31523938 AAAGAAAA
1 AAAGAAAA
31523946 A
1 A
31523947 TAAGGTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.19
8 22 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:31525669 original size:40 final size:39
Alignment explanation
Indices: 31525638--31525847 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
31525628 GGACTAAGAT
* *
31525638 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
31525678 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
31525718 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
31525758 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
31525798 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
31525837 CCGAAGGCATT
1 CCGAAGGCATT
31525848 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:31525801 original size:120 final size:120
Alignment explanation
Indices: 31525585--31525847 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
31525575 TTGAATGCTG
* *
31525585 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
31525649 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
31525705 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
31525768 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
31525824 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
31525848 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:31525867 original size:79 final size:80
Alignment explanation
Indices: 31525638--31525882 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
31525628 GGACTAAGAT
* * * * * * * ** *
31525638 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
31525701 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
31525718 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
31525783 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
31525798 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
31525862 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
31525876 CCGAAGG
1 CCGAAGG
31525883 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:31528895 original size:20 final size:20
Alignment explanation
Indices: 31528855--31528895 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31528845 ACCTCAAGGG
*
31528855 CAGGCCACACAGCCATGTGC
1 CAGGCCACACAGCCATATGC
* *
31528875 CAGGCCACACGGGCATATGC
1 CAGGCCACACAGCCATATGC
31528895 C
1 C
31528896 CCTATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (20 bp):
CAGGCCACACAGCCATATGC
Found at i:31534292 original size:12 final size:12
Alignment explanation
Indices: 31534275--31534299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31534265 TATATGTTAT
31534275 AATAATAAAAGA
1 AATAATAAAAGA
31534287 AATAATAAAAGA
1 AATAATAAAAGA
31534299 A
1 A
31534300 TAAAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AATAATAAAAGA
Found at i:31535447 original size:38 final size:40
Alignment explanation
Indices: 31535403--31535595 Score: 159
Period size: 39 Copynumber: 5.0 Consensus size: 40
31535393 TGAAACCAAT
* *
31535403 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * *
31535441 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
31535480 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
31535519 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
31535558 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATA
31535596 CATCACTGAA
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.15
39 117 0.85
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:31535518 original size:78 final size:78
Alignment explanation
Indices: 31535432--31535595 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
31535422 GAATTTAAAC
* * * * *
31535432 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
31535494 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
31535509 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
31535574 GCGGACCCTAAGT
66 GCGGACCCTAAGT
31535587 CCGGATATA
1 CCGGATATA
31535596 CATCACTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 8 0.11
78 67 0.89
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:31535578 original size:39 final size:39
Alignment explanation
Indices: 31535470--31535595 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
31535460 GGACTTTAGC
* * * *
31535470 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
31535509 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
31535548 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
31535587 CCGGATATA
1 CCGGATATA
31535596 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:31543300 original size:39 final size:39
Alignment explanation
Indices: 31543248--31543372 Score: 223
Period size: 39 Copynumber: 3.2 Consensus size: 39
31543238 GACTTTAGCT
* * *
31543248 CGGACATATTTCCAGCACATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
31543287 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
31543326 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
31543365 CGGATATA
1 CGGATATA
31543373 CATCACTGAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:31544196 original size:156 final size:156
Alignment explanation
Indices: 31543912--31544232 Score: 626
Period size: 156 Copynumber: 2.1 Consensus size: 156
31543902 GCAACTCCTT
31543912 AACAAATTTTTATCAATGATTGCCTCATAATCACAAATTCACAATAAGTTGTCTTCCTGAGCAAC
1 AACAAATTTTTATCAATGATTGCCTCATAATCACAAATTCACAATAAGTTGTCTTCCTGAGCAAC
31543977 AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTACCGTAAAATTTCTCTGA
66 AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTACCGTAAAATTTCTCTGA
31544042 AAATAGACTCATATATCTTTTATCCG
131 AAATAGACTCATATATCTTTTATCCG
31544068 AACAAATTTTTATCAATGATTGCCTCATAATCACAAATTCACAATAAGTTGTCTTCCTGAGCAAC
1 AACAAATTTTTATCAATGATTGCCTCATAATCACAAATTCACAATAAGTTGTCTTCCTGAGCAAC
31544133 AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTACCGTAAAATTTCTCTGA
66 AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTACCGTAAAATTTCTCTGA
31544198 AAATAGACTCATATATCTTTTATCCG
131 AAATAGACTCATATATCTTTTATCCG
*
31544224 TA-AAATTTT
1 AACAAATTTT
31544233 CAGAATTTTT
Statistics
Matches: 164, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
155 7 0.04
156 157 0.96
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (156 bp):
AACAAATTTTTATCAATGATTGCCTCATAATCACAAATTCACAATAAGTTGTCTTCCTGAGCAAC
AGTCACTAAATTATTTATAACTGGAGCTACGAAACTCCAAATCAATTACCGTAAAATTTCTCTGA
AAATAGACTCATATATCTTTTATCCG
Found at i:31551566 original size:37 final size:37
Alignment explanation
Indices: 31551459--31551804 Score: 311
Period size: 37 Copynumber: 9.3 Consensus size: 37
31551449 TTGAGCATGA
* * *
31551459 ATTCCGTATAATCAGTGGATATCGCTCGTTTGAGCAAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-AC
* * **
31551497 TTTCAGTATAATCAGTAGACATTGCTTTTTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
* * * *
31551534 GTTTACTATATTCAGTAGATATTGCTCGTTTGAGTC-C
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAG-CAC
* * * **
31551571 ATTCGGTATAATTAGTGGATATTGCTCGTTTGATTAAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGA-GCAC
* * * *
31551609 TTTCAGTATAATGAATAGACATTGCTC-TTTCGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTT-GAGCAC
* * * * *
31551646 GTTCAGTAGATTTAGTAGATATTGCTCGTTTGAGTAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
* * *
31551683 ATTCAGTATAATCATTAGACATTGCTCGTTTGAGCCC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
31551720 ATTCAGTATAATCAG-AGGATATTGCTCGTTTGAGCAAC
1 ATTCAGTATAATCAGTA-GATATTGCTCGTTTGAGC-AC
* * * * *
31551758 TTTTAGTATAATCAGTAGACATTACTCTTTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
*
31551795 GTTCAGTATA
1 ATTCAGTATA
31551805 TTTAGTATTC
Statistics
Matches: 244, Mismatches: 56, Indels: 17
0.77 0.18 0.05
Matches are distributed among these distances:
36 1 0.00
37 157 0.64
38 85 0.35
39 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (37 bp):
ATTCAGTATAATCAGTAGATATTGCTCGTTTGAGCAC
Found at i:31551768 original size:149 final size:149
Alignment explanation
Indices: 31551540--31551811 Score: 409
Period size: 149 Copynumber: 1.8 Consensus size: 149
31551530 GCACGTTTAC
* * * * * * *
31551540 TATATTCAGTAGATATTGCTCGTTTGAGTCCATTCGGTATAATTAGTGGATATTGCTCGTTTGAT
1 TATAATCAGTAGACATTGCTCGTTTGAGCCCATTCAGTATAATCAGAGGATATTGCTCGTTTGAG
* * *
31551605 TAACTTTCAGTATAATGAATAGACATTGCTCTTTCGAGCACGTTCAGTAGATTTAGTAGATATTG
66 CAACTTTCAGTATAATCAATAGACATTACTCTTTCGAGCACGTTCAGTAGATTTAGTAGATATTG
31551670 CTCGTTTGAGTACATTCAG
131 CTCGTTTGAGTACATTCAG
*
31551689 TATAATCATTAGACATTGCTCGTTTGAGCCCATTCAGTATAATCAGAGGATATTGCTCGTTTGAG
1 TATAATCAGTAGACATTGCTCGTTTGAGCCCATTCAGTATAATCAGAGGATATTGCTCGTTTGAG
* * * *
31551754 CAACTTTTAGTATAATCAGTAGACATTACTCTTTTGAGCACGTTCAGTATATTTAGTA
66 CAACTTTCAGTATAATCAATAGACATTACTCTTTCGAGCACGTTCAGTAGATTTAGTA
31551812 TTCCATTTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
149 108 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (149 bp):
TATAATCAGTAGACATTGCTCGTTTGAGCCCATTCAGTATAATCAGAGGATATTGCTCGTTTGAG
CAACTTTCAGTATAATCAATAGACATTACTCTTTCGAGCACGTTCAGTAGATTTAGTAGATATTG
CTCGTTTGAGTACATTCAG
Found at i:31551775 original size:112 final size:109
Alignment explanation
Indices: 31551459--31551804 Score: 368
Period size: 112 Copynumber: 3.1 Consensus size: 109
31551449 TTGAGCATGA
* *
31551459 ATTCCGTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTCAGTATAATCAGTAGACATTGCTT
1 ATTCAGTATAATCAGTGGATATTGCTCGTTTGAGC-ACTTTCAGTATAATCAG-AGACATTGC-T
* * *
31551524 TTTTGAGCACGTTTACTATATTCAGTAGATATTGCTCGTTTGAGTCC
63 CTTTGAGCACGTTTAGTATATTCAGTAGATATTGCTCGTTTGAGTAC
* * ** * *
31551571 ATTCGGTATAATTAGTGGATATTGCTCGTTTGATTAACTTTCAGTATAATGAATAGACATTGCTC
1 ATTCAGTATAATCAGTGGATATTGCTCGTTTGA-GCACTTTCAGTATAAT-CAGAGACATTGCTC
* * *
31551636 TTTCGAGCACGTTCAGTAGATTTAGTAGATATTGCTCGTTTGAGTAC
64 TTT-GAGCACGTTTAGTATATTCAGTAGATATTGCTCGTTTGAGTAC
* * * * * *
31551683 ATTCAGTATAATCATTAGACATTGCTCGTTTGAGCCCATTCAGTATAATCAGAGGATATTGCTCG
1 ATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCACTTTCAGTATAATCAGA-GACATTGCTC-
* * * * * *
31551748 TTTGAGCAACTTTTAGTATAATCAGTAGACATTACTCTTTTGAGCAC
64 TTTGAGC-ACGTTTAGTATATTCAGTAGATATTGCTCGTTTGAGTAC
*
31551795 GTTCAGTATA
1 ATTCAGTATA
31551805 TTTAGTATTC
Statistics
Matches: 193, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
110 2 0.01
111 29 0.15
112 161 0.83
113 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (109 bp):
ATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCACTTTCAGTATAATCAGAGACATTGCTCTT
TGAGCACGTTTAGTATATTCAGTAGATATTGCTCGTTTGAGTAC
Found at i:31555044 original size:17 final size:17
Alignment explanation
Indices: 31555024--31555061 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
31555014 TAAGTTTGTA
*
31555024 ATGTTTTATTT-TATGTT
1 ATGTTTT-TTTATATATT
31555041 ATGTTTTTTTATATATT
1 ATGTTTTTTTATATATT
31555058 ATGT
1 ATGT
31555062 AGTTAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (17 bp):
ATGTTTTTTTATATATT
Found at i:31555228 original size:23 final size:22
Alignment explanation
Indices: 31555178--31555233 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
31555168 ATATAAATTT
*
31555178 ATTAAATAT-TCATTTAAAATA
1 ATTAAATATATCATTTAAAAAA
31555199 ATATAAATATAT-ATTTTAAGAAAA
1 AT-TAAATATATCA-TTTAA-AAAA
*
31555223 ATTAAAAATAT
1 ATTAAATATAT
31555234 GAGACGGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 2 0.07
22 8 0.28
23 14 0.48
24 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAAATATATCATTTAAAAAA
Found at i:31564115 original size:21 final size:21
Alignment explanation
Indices: 31564091--31564136 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31564081 ACAGCTTGAG
**
31564091 ACACGGGTGTGTCCCAAGGCC
1 ACACGGGCATGTCCCAAGGCC
**
31564112 ACACGGGCATGTCCCTTGGCC
1 ACACGGGCATGTCCCAAGGCC
31564133 ACAC
1 ACAC
31564137 AGACGTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (21 bp):
ACACGGGCATGTCCCAAGGCC
Found at i:31568081 original size:34 final size:35
Alignment explanation
Indices: 31568000--31568161 Score: 184
Period size: 35 Copynumber: 4.7 Consensus size: 35
31567990 ATGGCAAAGC
* * *
31568000 TGTGAAACGTAGGTATGGTATCATCCATGCTGCGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
* *
31568035 TGTGAAATGTAGGTAT-GTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
* *
31568069 TGTGATACGTAGGTATGGTATTATCTATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
** * *
31568104 TAAGAAACGTAGGTATGGCATT-TCCTATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCC-ATACTGAGT
* *
31568139 TGTAAAATGTAGGTATGGTATTA
1 TGTGAAACGTAGGTATGGTATTA
31568162 CAATGAGGAA
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
34 30 0.29
35 74 0.71
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
Found at i:31568116 original size:69 final size:70
Alignment explanation
Indices: 31568000--31568161 Score: 184
Period size: 69 Copynumber: 2.3 Consensus size: 70
31567990 ATGGCAAAGC
* * * ** * *
31568000 TGTGAAACGTAGGTATGGTATCATCCATGCTGCGTTGTGAAATGTAGGTAT-GTATTAACC-ATA
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAGGTATGGCATT-ACCTATA
*
31568063 CTGAGT
65 CCGAGT
* * *
31568069 TGTGATACGTAGGTATGGTATTATCTATACTGAGTTAAGAAACGTAGGTATGGCATTTCCTATAC
1 TGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAGGTATGGCATTACCTATAC
31568134 CGAGT
66 CGAGT
* *
31568139 TGTAAAATGTAGGTATGGTATTA
1 TGTGAAACGTAGGTATGGTATTA
31568162 CAATGAGGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
69 45 0.58
70 32 0.42
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAACGTAGGTATGGCATTACCTATAC
CGAGT
Found at i:31570279 original size:32 final size:32
Alignment explanation
Indices: 31570243--31570373 Score: 165
Period size: 32 Copynumber: 4.1 Consensus size: 32
31570233 CACATCAGCT
* * * *
31570243 TGTGGACCCACATGTGCAGGCCTACATGGGCG
1 TGTGGACCCACATGTGCAAGCCCATATGGGCA
*
31570275 TGTGGACCCACATGTGTAAGCCCATATGGGCA
1 TGTGGACCCACATGTGCAAGCCCATATGGGCA
*
31570307 TGTGGACCCACATGTGTAAGCCCATATGGGCA
1 TGTGGACCCACATGTGCAAGCCCATATGGGCA
* * * *
31570339 TGTGGACCCACACGTGC-GGGCCATATGGGCG
1 TGTGGACCCACATGTGCAAGCCCATATGGGCA
31570370 TGTG
1 TGTG
31570374 AGCCCATTGT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 15 0.17
32 74 0.83
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (32 bp):
TGTGGACCCACATGTGCAAGCCCATATGGGCA
Found at i:31572674 original size:26 final size:27
Alignment explanation
Indices: 31572645--31572696 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
31572635 AAGAGGTCGG
* *
31572645 ATGTTGGGTTG-TCTAGCTTGGTCTGA
1 ATGTTAGGTTGTTCTAGCTTGATCTGA
31572671 ATGTTAGGTTGTTCTAGCTTGATCTG
1 ATGTTAGGTTGTTCTAGCTTGATCTG
31572697 TGTTTCTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.13, C:0.12, G:0.31, T:0.44
Consensus pattern (27 bp):
ATGTTAGGTTGTTCTAGCTTGATCTGA
Found at i:31574211 original size:20 final size:20
Alignment explanation
Indices: 31574186--31574226 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
31574176 GTTACCGCTA
31574186 TTTATTTATTTTT-CTTTCTT
1 TTTATTT-TTTTTACTTTCTT
31574206 TTTATTTTTTTTACTTTCTT
1 TTTATTTTTTTTACTTTCTT
31574226 T
1 T
31574227 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTATTTTTTTTACTTTCTT
Found at i:31575854 original size:27 final size:28
Alignment explanation
Indices: 31575824--31575882 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
31575814 GTATTGTTTT
31575824 AATTT-ATTTAACATATTA-TTTATTTAA
1 AATTTGATTT-ACATATTACTTTATTTAA
* * *
31575851 AATTTGCTTTATATATTACTTTATTTCA
1 AATTTGATTTACATATTACTTTATTTAA
31575879 AATT
1 AATT
31575883 GTTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTTGATTTACATATTACTTTATTTAA
Found at i:31575889 original size:24 final size:26
Alignment explanation
Indices: 31575836--31575899 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
31575826 TTTATTTAAC
31575836 ATATTATTTATTTAAAATTTGCTTTAT
1 ATATTATTTATTTAAAATTTGC-TTAT
* *
31575863 ATATTACTTTATTTCAAA-TTGTTTAT
1 ATATTA-TTTATTTAAAATTTGCTTAT
*
31575889 ATTTTATTTAT
1 ATATTATTTAT
31575900 GTTGAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.27
27 9 0.27
28 10 0.30
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTAAAATTTGCTTAT
Found at i:31576898 original size:13 final size:13
Alignment explanation
Indices: 31576877--31576920 Score: 56
Period size: 12 Copynumber: 3.4 Consensus size: 13
31576867 CAATCCCCGT
31576877 TTTCAAAAAAATGG
1 TTTC-AAAAAATGG
31576891 TTTC-AAAAATGG
1 TTTCAAAAAATGG
31576903 TTTCAATAAAA-GG
1 TTTCAA-AAAATGG
31576916 TTTCA
1 TTTCA
31576921 TAGATTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.43
13 8 0.29
14 8 0.29
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (13 bp):
TTTCAAAAAATGG
Found at i:31576900 original size:12 final size:12
Alignment explanation
Indices: 31576883--31576920 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
31576873 CCGTTTTCAA
31576883 AAAAATGGTTTC
1 AAAAATGGTTTC
31576895 AAAAATGGTTTC
1 AAAAATGGTTTC
*
31576907 AATAAAAGGTTTC
1 AA-AAATGGTTTC
31576920 A
1 A
31576921 TAGATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAAAATGGTTTC
Found at i:31577216 original size:9 final size:8
Alignment explanation
Indices: 31577180--31577213 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
31577170 AACTAAGTTC
31577180 TTATTTTT
1 TTATTTTT
31577188 TTATTTTT
1 TTATTTTT
31577196 TTATTTTT
1 TTATTTTT
31577204 TTATTTTT
1 TTATTTTT
31577212 TT
1 TT
31577214 TATAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:31579697 original size:6 final size:6
Alignment explanation
Indices: 31579686--31579774 Score: 97
Period size: 6 Copynumber: 14.8 Consensus size: 6
31579676 AGCAAATGAT
* * * *
31579686 GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GACGGA GACAGA GGCAGA
1 GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA
* * * * *
31579734 GGTGGA GGCGTA GGCCGA GGCAGA GGCCGA GGCGGA GGCGG
1 GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGGA GGCGG
31579775 TGGGGGCGGA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.21, C:0.18, G:0.58, T:0.02
Consensus pattern (6 bp):
GGCGGA
Found at i:31581467 original size:22 final size:22
Alignment explanation
Indices: 31581441--31581487 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31581431 ACTTTTTAAT
* *
31581441 CCATAATTGTTGTCTTATTTTA
1 CCATAATTATTGTCATATTTTA
*
31581463 CCATAATTATTTTCATATTTTA
1 CCATAATTATTGTCATATTTTA
31581485 CCA
1 CCA
31581488 GCAAAATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (22 bp):
CCATAATTATTGTCATATTTTA
Found at i:31582408 original size:31 final size:31
Alignment explanation
Indices: 31582373--31582433 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
31582363 TAAATTCAAC
*
31582373 TGTAGCAGAGGGATCAAAATTGAAATTTGAT
1 TGTAGCAGAGAGATCAAAATTGAAATTTGAT
* *
31582404 TGTAGCATAGAGATTAAAATTGAAATTTGA
1 TGTAGCAGAGAGATCAAAATTGAAATTTGA
31582434 CCTTGGCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (31 bp):
TGTAGCAGAGAGATCAAAATTGAAATTTGAT
Found at i:31583135 original size:18 final size:18
Alignment explanation
Indices: 31583103--31583137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31583093 TTATTTAGGT
**
31583103 TTTTAAATTTTTAAAAAA
1 TTTTAAATTAGTAAAAAA
31583121 TTTTAAATTAGTAAAAA
1 TTTTAAATTAGTAAAAA
31583138 TAAAATTATA
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:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTTAAATTAGTAAAAAA
Found at i:31583757 original size:22 final size:23
Alignment explanation
Indices: 31583731--31583785 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
31583721 GGATCAAAAT
**
31583731 AAATTTTATCATTATT-AATTTA
1 AAATTTTATCATTATTAAATGGA
31583753 AAATTTTAT-A-TATTAAATGGA
1 AAATTTTATCATTATTAAATGGA
31583774 AAATTTT-TCATT
1 AAATTTTATCATT
31583786 TTAGGGGCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
AAATTTTATCATTATTAAATGGA
Found at i:31595588 original size:36 final size:36
Alignment explanation
Indices: 31595548--31595632 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
31595538 TATTTTTTTG
*
31595548 ACAATTTAATCCTTGAAATC-CAAATTTTAC-TATTCT
1 ACAATTTAATCCTTCAAA-CACAAATTTT-CTTATTCT
31595584 ACAATTTAATTCC-TCAAACACAAATTTTCTTATTCT
1 ACAATTTAA-TCCTTCAAACACAAATTTTCTTATTCT
*
31595620 ACAATTAAATCCT
1 ACAATTTAATCCT
31595633 AAACCTCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 5 0.12
36 35 0.81
37 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (36 bp):
ACAATTTAATCCTTCAAACACAAATTTTCTTATTCT
Found at i:31601509 original size:19 final size:19
Alignment explanation
Indices: 31601485--31601523 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31601475 CGAAACACCG
31601485 GAAAAGTAAATCATTTCCA
1 GAAAAGTAAATCATTTCCA
31601504 GAAAAGTAAATCATTTCCA
1 GAAAAGTAAATCATTTCCA
31601523 G
1 G
31601524 GATTAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
GAAAAGTAAATCATTTCCA
Found at i:31601699 original size:19 final size:19
Alignment explanation
Indices: 31601675--31601718 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
31601665 GGGACTAAAT
*
31601675 TGAAAAGTTATAAAATTTA
1 TGAAAAATTATAAAATTTA
* *
31601694 TGAAAAAATTCTAAATTTTA
1 TG-AAAAATTATAAAATTTA
31601714 TGAAA
1 TGAAA
31601719 TACATGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (19 bp):
TGAAAAATTATAAAATTTA
Found at i:31608635 original size:30 final size:30
Alignment explanation
Indices: 31608601--31608660 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31608591 CCCTAGTACG
31608601 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
31608631 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
31608661 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:31611066 original size:35 final size:35
Alignment explanation
Indices: 31611020--31611090 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
31611010 TATCAAGTGA
*
31611020 TACTTCCGATCAATGTGTTTCGTTCTCTTGTGACT
1 TACTTCCGATCAATGTGTTTCATTCTCTTGTGACT
31611055 TACTTCCGATCAATGTGTTTCATTCTCTTGTGACT
1 TACTTCCGATCAATGTGTTTCATTCTCTTGTGACT
31611090 T
1 T
31611091 CTCATTTCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (35 bp):
TACTTCCGATCAATGTGTTTCATTCTCTTGTGACT
Found at i:31612522 original size:22 final size:22
Alignment explanation
Indices: 31612483--31612528 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
31612473 TTAAAAATTA
* *
31612483 ACAAAATTTTATAAAAATACAT
1 ACAAAATTATATAAAAATAAAT
31612505 ACAAAATTATA-AATAAATAAAT
1 ACAAAATTATATAA-AAATAAAT
31612527 AC
1 AC
31612529 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
ACAAAATTATATAAAAATAAAT
Found at i:31614118 original size:31 final size:31
Alignment explanation
Indices: 31614046--31614119 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
31614036 CTTGTTATAT
* *
31614046 TATTTTTATTTATATAAATTTTGATAGGTTTA
1 TATTTTTATAT-TATAAATTTTGAGAGGTTTA
* * * *
31614078 TA-ATTTATATTATAGATTTTGAGATGTTTG
1 TATTTTTATATTATAAATTTTGAGAGGTTTA
31614108 TATTTTTATATT
1 TATTTTTATATT
31614120 GTTTTATGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 18 0.53
31 14 0.41
32 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (31 bp):
TATTTTTATATTATAAATTTTGAGAGGTTTA
Done.