Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 192 of 199
Found at i:60988643 original size:20 final size:19
Alignment explanation
Indices: 60988620--60988672 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
60988610 GAGTTTAGGG
60988620 TTTTT-TATATTTTTAAGTT
1 TTTTTATATATTTTTAA-TT
*
60988639 TTTTTATATATCCTTTAATT
1 TTTTTATATAT-TTTTAATT
60988659 TTTTTATA-ATTTTT
1 TTTTTATATATTTTT
60988673 TTAGATGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 15 0.50
21 5 0.17
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTATATATTTTTAATT
Found at i:60992663 original size:29 final size:28
Alignment explanation
Indices: 60992631--60992705 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 28
60992621 AAAATTCATT
*
60992631 AAAAATTCTAAAAATATCTAAAT-ATTATA
1 AAAAATTATAAAAAT-TC-AAATAATTATA
*
60992660 AAAACTTATAAAAATTCAAATAAATTATAAA
1 AAAAATTATAAAAATTCAAAT-AATTAT--A
60992691 AAAAATTATAAAAAT
1 AAAAATTATAAAAAT
60992706 AGAATTAGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 18 0.46
31 15 0.38
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATTATAAAAATTCAAATAATTATA
Found at i:60992671 original size:19 final size:18
Alignment explanation
Indices: 60992558--60992692 Score: 80
Period size: 19 Copynumber: 7.2 Consensus size: 18
60992548 TTTTTCAAAT
*
60992558 AAAATCATAAAAATTAT-
1 AAAATTATAAAAATTATA
*
60992575 GAAATTATGAAAATATTA-A
1 AAAATTAT-AAAA-ATTATA
** * *
60992594 AATCTTATATAAACTTAAA
1 AAAATTATA-AAAATTATA
60992613 AAAATTAT-AAAATTCATTA
1 AAAATTATAAAAATT-A-TA
* *
60992632 AAAATTCTAAAAATATCTA
1 AAAATTATAAAAAT-TATA
*
60992651 AATATTATAAAAACTTATA
1 AAAATTATAAAAA-TTATA
60992670 AAAATTCA-AATAAATTATA
1 AAAATT-ATAA-AAATTATA
60992689 AAAA
1 AAAA
60992693 AAATTATAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
17 11 0.12
18 9 0.10
19 59 0.66
20 10 0.11
21 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAATTATA
Found at i:60992691 original size:57 final size:57
Alignment explanation
Indices: 60992584--60992693 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
60992574 TGAAATTATG
* * *
60992584 AAAATATTAAAATCTTATATAAACTTAAAAAAATTATAAAATTCATTAAAAATTCTA
1 AAAATATTAAAATATTATAAAAACTTAAAAAAATTAAAAAATTCATTAAAAATTCTA
* *
60992641 AAAATATCT-AAATATTATAAAAACTTATAAAAATTCAAATAAATT-ATAAAAAA
1 AAAATAT-TAAAATATTATAAAAACTTAAAAAAATT-AAA-AAATTCATTAAAAA
60992694 AATTATAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 30 0.67
58 10 0.22
59 5 0.11
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (57 bp):
AAAATATTAAAATATTATAAAAACTTAAAAAAATTAAAAAATTCATTAAAAATTCTA
Found at i:60993328 original size:86 final size:86
Alignment explanation
Indices: 60993183--60993344 Score: 279
Period size: 86 Copynumber: 1.9 Consensus size: 86
60993173 ATGTGATGTA
* *
60993183 TTTATCTTTCTTTTTGTCATATGCTATAGTATTTAATTTCACCACCGTCGTTGTTTTTACACTAA
1 TTTATCTTTCTTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTGTTTTTACACTAA
*
60993248 CCATAGGTAAACGCATCGTTG
66 CCATAGATAAACGCATCGTTG
* *
60993269 TTTATCTTTCTTTTTGTCATATGCTATAGTATCTAATTTCACCGCTATCGTTGTTTTTACACTAA
1 TTTATCTTTCTTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTGTTTTTACACTAA
60993334 CCATAGATAAA
66 CCATAGATAAA
60993345 TGCACCGTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (86 bp):
TTTATCTTTCTTTTTGTCATATGCTATAGTATCTAATTTCACCACCATCGTTGTTTTTACACTAA
CCATAGATAAACGCATCGTTG
Found at i:60993634 original size:17 final size:18
Alignment explanation
Indices: 60993609--60993643 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
60993599 AGGTTAAAAA
*
60993609 AAATTTAAG-TACCAAAT
1 AAATATAAGTTACCAAAT
60993626 AAATATAAGTTACCAAAT
1 AAATATAAGTTACCAAAT
60993644 TCAGATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATATAAGTTACCAAAT
Found at i:61019797 original size:22 final size:22
Alignment explanation
Indices: 61019772--61019814 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
61019762 ATCGATATTA
*
61019772 TAATATTTTAATTATTTATTTT
1 TAATATTTTAATAATTTATTTT
*
61019794 TAATTTTTTAATAATTTATTT
1 TAATATTTTAATAATTTATTT
61019815 ACTTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TAATATTTTAATAATTTATTTT
Found at i:61020443 original size:28 final size:27
Alignment explanation
Indices: 61020411--61020483 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
61020401 CTAAACCCTT
61020411 AAACCATAAATCCTAAACTATAAAACTC
1 AAACCAT-AATCCTAAACTATAAAACTC
* * *
61020439 AAACCCTGAA-CTCTAAACTATAAACCTT
1 AAACCAT-AATC-CTAAACTATAAAACTC
*
61020467 TAACCATAATCCTAAAC
1 AAACCATAATCCTAAAC
61020484 CATATCTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
27 9 0.24
28 28 0.76
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (27 bp):
AAACCATAATCCTAAACTATAAAACTC
Found at i:61028159 original size:13 final size:13
Alignment explanation
Indices: 61028141--61028168 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61028131 GAATCATAAA
61028141 ATATAAAATACAT
1 ATATAAAATACAT
61028154 ATATAAAATACAT
1 ATATAAAATACAT
61028167 AT
1 AT
61028169 TTTAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:61029998 original size:132 final size:132
Alignment explanation
Indices: 61029805--61030192 Score: 611
Period size: 132 Copynumber: 2.9 Consensus size: 132
61029795 GGTTTGTGGT
* * * *
61029805 TTAAATTTACTTC-CCTACTACCTTAGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACT
1 TTAAATCTACTTCTCC-ACTATCTTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACT
* * * *
61029869 GCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTTAGGGAGATAGGGCTAAT
65 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAAT
61029934 GGC
130 GGC
*
61029937 TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTC-CCGACCTTCGATCTGCTCCACTACT
1 TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACC-ATCTTCGATCTGCTCCACTACT
61030001 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAAT
65 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAAT
61030066 GGC
130 GGC
*
61030069 TTAAATCTACTTCTCCACTATCTT-GAGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACT
1 TTAAATCTACTTCTCCACTATCTTAG-GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACT
* * *
61030133 ACTTAAGGTGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA
65 GCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA
61030193 TCTGCAATCT
Statistics
Matches: 238, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
131 3 0.01
132 232 0.97
133 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
TTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTG
CTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATG
GC
Found at i:61030233 original size:132 final size:132
Alignment explanation
Indices: 61029826--61030497 Score: 466
Period size: 132 Copynumber: 5.1 Consensus size: 132
61029816 TCCCTACTAC
* * * * * * *
61029826 CTTAGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAGAATTTGCA
1 CTTAGGAAGATAAGATTCACCAGCTTAGATCTGCTCCACTACTACTTAAGGTGACAGAATCTGCA
* * * * *
61029891 ATCTTCAACCTACTCCATTGCTGCTTAGGGAGATAGG-GCT--AATGGCTTAAATCTACTTCTCC
66 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAAT--CTTCAA-C--CTACTCC
61029953 ACTA-T-
126 ACTACTG
* * * * *
61029958 CTTAGGAAGATAAGATTC-CCGACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGC
1 CTTAGGAAGATAAGATTCACC-AGCTTAGATCTGCTCCACTACTACTTAAGGTGACAGAATCTGC
* *
61030022 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTACTTCTC
65 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAAT--CTTCAA-C--CTACTC
61030084 CACTA-T-
125 CACTACTG
* * *
61030090 CTT-GAGAAGATAAGATTCATCATCTTCGATCTGCTCCACTACTACTTAAGGTGACAGAATCTGC
1 CTTAG-GAAGATAAGATTCACCAGCTTAGATCTGCTCCACTACTACTTAAGGTGACAGAATCTGC
61030154 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTA
65 AATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTA
61030219 CTG
130 CTG
* * * * * * * * * * * * *
61030222 CTTAGGGAGATAGGACT-AACGGCTTAAATCTACTTCTCCATTATCTTGGGAAGAT-A-AGATTC
1 CTTAGGAAGATAAGATTCACCAGCTTAGATCTGCTCCACTACTA-CTT---AAGGTGACAGAATC
* * * * * * *
61030284 -ACCATCTTCGATCTATTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCA
62 TGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCA
61030348 CTACTG
127 CTACTG
* * *** * * * * * *
61030354 CTTAGGGAGATAAGACT-AATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGAT-A-AGATTC
1 CTTAGGAAGATAAGATTCACCAGCTTAGATCTGCTCCACTACTA-CTT---AAGGTGACAGAATC
* * * * * * * *
61030416 -ACCATCTTCGATCTGCTCCACTATTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTCCA
62 TGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCA
61030480 CTACTG
127 CTACTG
*
61030486 CTTAGGGAGATA
1 CTTAGGAAGATA
61030498 GGACTAACGG
Statistics
Matches: 482, Mismatches: 44, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
130 10 0.02
131 20 0.04
132 430 0.89
133 14 0.03
134 1 0.00
135 7 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
CTTAGGAAGATAAGATTCACCAGCTTAGATCTGCTCCACTACTACTTAAGGTGACAGAATCTGCA
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTAC
TG
Found at i:61030364 original size:176 final size:176
Alignment explanation
Indices: 61029991--61030365 Score: 651
Period size: 176 Copynumber: 2.1 Consensus size: 176
61029981 CTTCGATCTG
*
61029991 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
* *
61030056 TAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCATCATCTTCGATC
66 TAGGACTAACGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
* *
61030121 TGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTA
131 TACTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTA
*
61030167 CTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
* *
61030232 TAGGACTAACGGCTTAAATCTACTTCTCCATTATCTTGGGAAGATAAGATTCACCATCTTCGATC
66 TAGGACTAACGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
* * *
61030297 TATTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
131 TACTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTA
61030343 CTCCACTACTGCTTAGGGAGATA
1 CTCCACTACTGCTTAGGGAGATA
61030366 AGACTAATGG
Statistics
Matches: 188, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 188 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (176 bp):
CTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
TAGGACTAACGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
TACTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTA
Found at i:61030424 original size:308 final size:308
Alignment explanation
Indices: 61029860--61030500 Score: 1086
Period size: 308 Copynumber: 2.1 Consensus size: 308
61029850 TTTGATCTGT
* * * * *
61029860 TCCACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT
* *
61029925 AGGGCTAATGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCCCGACCTTCGATCT
66 AGGACTAACGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCCCGACCTTCGATCT
*
61029990 GCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
131 ACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
* *
61030055 ATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCATCATCTTCGAT
196 ATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGAT
61030120 CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
261 CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
61030168 TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT
* * *
61030233 AGGACTAACGGCTTAAATCTACTTCTCCATTATCTTGGGAAGATAAGATTCACC-ATCTTCGATC
66 AGGACTAACGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTC-CCGACCTTCGATC
*
61030297 TATTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGA
130 TACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGA
* *
61030362 GATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA
195 GATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGA
* * * *
61030427 TCTGCTCCACTATTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTAC
260 TCTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
61030476 TCCACTACTGCTTAGGGAGATAGGA
1 TCCACTACTGCTTAGGGAGATAGGA
61030501 CTAACGGCTT
Statistics
Matches: 312, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
308 310 0.99
309 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (308 bp):
TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT
AGGACTAACGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCCCGACCTTCGATCT
ACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
ATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGAT
CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
Found at i:61030503 original size:132 final size:132
Alignment explanation
Indices: 61030167--61030991 Score: 1309
Period size: 132 Copynumber: 6.3 Consensus size: 132
61030157 CTTCAACCTA
* *
61030167 CTCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
* * *
61030232 TAGGACTAACGGCTTAAATCTACTTCTCCATTATCTTGGGAAGATAAGATTCACCATCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
*
61030297 TA
131 TG
*
61030299 TTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
*
61030364 TAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
61030429 TG
131 TG
* * *
61030431 CTCCACTATTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
*
61030496 TAGGACTAACGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
61030561 TG
131 TG
* * * * *
61030563 CTCCACTACTGCTTAGGG-GAACATAATATGCAATATTCGACCTACTCCACTATTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAG-ACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
* *
61030627 ATAGGACTAATGGCTTAAATTTGCTTCACCACTATCTTGGGAAGATAAGATTCACCATCTTCGAT
65 ATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGAT
61030692 CTG
130 CTG
* * * * *
61030695 CTCCACTACTGCTTAGGGGGACAGAATATGCAATCTTCGACCTACT-TACTACTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
* *
61030759 TAGGACTACTGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGCTC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
61030824 TG
131 TG
* * *
61030826 CTCCACTACTGCTTAGGGGGACAGAATATGCAATCTTCGACCTACTCCACTA---CTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
* * *
61030888 TAGGACTAATGGCTTAAATCTCCTTCTCCACTATCTTAGGAAGATAAGATTCACCACCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
61030953 TG
131 TG
*
61030955 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTT
61030992 TGATCTACTT
Statistics
Matches: 649, Mismatches: 41, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
129 107 0.16
131 125 0.19
132 416 0.64
133 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
TG
Found at i:61030614 original size:308 final size:305
Alignment explanation
Indices: 61029860--61030627 Score: 913
Period size: 308 Copynumber: 2.5 Consensus size: 305
61029850 TTTGATCTGT
* * * * * * *
61029860 TCCACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCATTGCTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAGGATCT-CAAGCTTAAACCTACTCCACTACTGCTTAGGGAGAT
* * ** * * * * * **
61029925 AGGGCTAATGGCTTAAATCTACTTCTCCACTATCTTAGGAAGATAAGATTCCCGACCTTCGATCT
65 AAGACTAACAGCTTAAA-CTACTGCTCCACTATCTTGGGAACATAAGATGCAC-ATATTCGATCT
*
61029990 GCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
128 ACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
* *
61030055 ATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCATCATCTTCGAT
193 ATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGAT
61030120 CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
258 CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
* *
61030168 TCCACTACTGCTTAGGGAGATAGGATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAGGATCT-CAAGCTTAAACCTACTCCACTACTGCTTAGGGAGAT
* * * * * * *
61030233 AGGACTAACGGCTTAAATCTACTTCTCCATTATCTTGGGAAGATAAGATTCACCATCTTCGATCT
65 AAGACTAACAGCTTAAA-CTACTGCTCCACTATCTTGGGAACATAAGATGCA-CATATTCGATCT
*
61030298 ATTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
128 ACTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAG
* *
61030363 ATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGAT
193 ATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGAT
* * * *
61030428 CTGCTCCACTATTGCTTAGGGTGATAGAATCTGCAATCTTCAACCTAC
258 CTGCTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
*
61030476 TCCACTACTGCTTAGGGAGATAGGA-CT-AACGGCTTAAATCTGCTTCTCCACTA-T-CTT-GGG
1 TCCACTACTGCTTAGGGAGATAGGATCTCAA--GCTTAAA-C--CTACTCCACTACTGCTTAGGG
* * * ** *
61030536 AAGATAAGATTCACCATCTTCGA-T-CTGCTCCACTACTGCTTAGGGGAACATAATATGCA-ATA
61 -AGATAAGACT-AACAGCTTAAACTACTGCTCCACTA-T-CTT--GGGAACATAAGATGCACATA
* *
61030598 TTCGACCTACTCCACTATTGCTTAGGGAGA
120 TTCGATCTACTCCACTACTGCTTAGGGAGA
61030628 TAGGACTAAT
Statistics
Matches: 408, Mismatches: 40, Indels: 24
0.86 0.08 0.05
Matches are distributed among these distances:
305 2 0.00
306 9 0.02
307 12 0.03
308 354 0.87
309 8 0.02
310 23 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (305 bp):
TCCACTACTGCTTAGGGAGATAGGATCTCAAGCTTAAACCTACTCCACTACTGCTTAGGGAGATA
AGACTAACAGCTTAAACTACTGCTCCACTATCTTGGGAACATAAGATGCACATATTCGATCTACT
CCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATA
AGACTAATGGCTTAAATCTACTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTG
CTCCACTACTACTTAAGGTGACAGAATCTGCAATCTTCAACCTAC
Found at i:61030699 original size:88 final size:87
Alignment explanation
Indices: 61030343--61030712 Score: 233
Period size: 88 Copynumber: 4.2 Consensus size: 87
61030333 CTTCAACCTA
* * *
61030343 CTCCACTACTGCTTAGGGAGATAAGACT-AATGGCTTAAATCTGCTTCTCCACTATCTT-GGGAA
1 CTCCACTACTGCTTAGGGAGATAAGACTCAAT--CTTAAATCTGCTCCACCACT-GCTTAGGGAA
61030406 GATAAGATTCACCATCTTCGATCTG
63 GATAAGATTCACCATCTTCGATCTG
* * * * * *
61030431 CTCCACTATTGCTTAGGGTGAT-AGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGG-A
1 CTCCACTACTGCTTAGGGAGATAAG-A-CT-CAATCTTAAATCTGCTCCACCACTGCTTAGGGAA
* * * ** **
61030494 GATAGGACT-AACGGCTTAAATCTG
63 GATAAGATTCACCATCTTCGATCTG
* ** *
61030518 CTTCTCCACTA-T-CTT-GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGG
1 ---CTCCACTACTGCTTAGGG-AGATAAGACTCA--ATCTTAAATCTGCTCCACCACTGCTTA-G
* * * * * *
61030580 GGAACATAATATGCA--ATATTCGACCTA
59 GGAAGATAAGATTCACCATCTTCGATCTG
* * * * *
61030607 CTCCACTATTGCTTAGGGAGATAGGACT-AATGGCTTAAATTTGCTTCACCACTATCTT-GGGAA
1 CTCCACTACTGCTTAGGGAGATAAGACTCAAT--CTTAAATCTGCTCCACCACT-GCTTAGGGAA
61030670 GATAAGATTCACCATCTTCGATCTG
63 GATAAGATTCACCATCTTCGATCTG
61030695 CTCCACTACTGCTTAGGG
1 CTCCACTACTGCTTAGGG
61030713 GGACAGAATA
Statistics
Matches: 211, Mismatches: 48, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
85 2 0.01
86 23 0.11
87 33 0.16
88 103 0.49
89 33 0.16
90 13 0.06
91 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGACTCAATCTTAAATCTGCTCCACCACTGCTTAGGGAAGAT
AAGATTCACCATCTTCGATCTG
Found at i:61030874 original size:44 final size:44
Alignment explanation
Indices: 61030683--61030879 Score: 117
Period size: 44 Copynumber: 4.5 Consensus size: 44
61030673 AAGATTCACC
* *
61030683 ATCTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATATGCA
1 ATCTTCGACCTACTCCACTACTGCTTAGGGGGACAGAATATGCA
* * * * *
61030727 ATCTTCGACCTACT-TACTACTACTTAGGGAGATAGGACTACTGGCTTAA
1 ATCTTCGACCTACTCCACTACTGCTTAGGGGGACA-GAATA-T-GC---A
* * * * * *
61030776 ATC-T-G--CTTCTCCACTA-T-CTT--GGGAAGATAAGATTCA
1 ATCTTCGACCTACTCCACTACTGCTTAGGGGGACAGAATATGCA
*
61030812 CCATCTTCG-CTCTGCTCCACTACTGCTTAGGGGGACAGAATATGCA
1 --ATCTTCGAC-CTACTCCACTACTGCTTAGGGGGACAGAATATGCA
61030858 ATCTTCGACCTACTCCACTACT
1 ATCTTCGACCTACTCCACTACT
61030880 TAGGGAGATA
Statistics
Matches: 112, Mismatches: 23, Indels: 36
0.65 0.13 0.21
Matches are distributed among these distances:
36 1 0.01
38 3 0.03
39 2 0.02
40 2 0.02
41 2 0.02
42 14 0.12
43 17 0.15
44 41 0.37
45 7 0.06
46 17 0.15
47 1 0.01
48 1 0.01
49 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCGACCTACTCCACTACTGCTTAGGGGGACAGAATATGCA
Found at i:61031037 original size:46 final size:46
Alignment explanation
Indices: 61030980--61031273 Score: 471
Period size: 46 Copynumber: 6.4 Consensus size: 46
61030970 GGGTGACAGA
* * *
61030980 ATCTGCAATCTTTGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
61031026 ATCTGCTATCTTCGATCTACTCCACTACCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
61031072 ATCTGCTATCTTTGATCTACTCCGCTGCCAAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* * *
61031118 ATTTGCTATCTTCGATCTACTCTGCTGCAAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
*
61031164 ATCTGCTATCTTCAATCTACTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
* *
61031210 ATCTGCTATCTTCGATCTACTCTGCTGTCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
61031256 ATCTGCTATCTTCGATCT
1 ATCTGCTATCTTCGATCT
61031274 GTTCTCTGGG
Statistics
Matches: 227, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 227 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG
Found at i:61032487 original size:6 final size:6
Alignment explanation
Indices: 61032478--61032531 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
61032468 TTGACCTCTC
* *
61032478 CTTTTT CTTTTTT CTTTTT CTTTTCT CTTCTT CTTTCTT -TTCTT CTTTTT
1 CTTTTT C-TTTTT CTTTTT CTTTT-T CTTTTT CTTT-TT CTTTTT CTTTTT
61032528 CTTT
1 CTTT
61032532 CTTTCCCCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.05
6 25 0.62
7 13 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:61032496 original size:13 final size:15
Alignment explanation
Indices: 61032473--61032533 Score: 74
Period size: 14 Copynumber: 4.1 Consensus size: 15
61032463 TCACCTTGAC
*
61032473 CTCTCCTTTTTCTTT
1 CTCTTCTTTTTCTTT
61032488 -T-TTCTTTTTCTTTT
1 CTCTTCTTTTTC-TTT
61032502 CTCTTCTTCTTTCTTT
1 CTCTTCTT-TTTCTTT
61032518 -TCTTCTTTTTCTTT
1 CTCTTCTTTTTCTTT
61032532 CT
1 CT
61032534 TTCCCCCCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 11 0.28
15 9 0.22
16 8 0.20
17 4 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTCTTTTTCTTT
Found at i:61032503 original size:18 final size:17
Alignment explanation
Indices: 61032479--61032535 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 17
61032469 TGACCTCTCC
61032479 TTTTTCTTTTTTCTTT-T
1 TTTTTC-TTTTTCTTTCT
61032496 TCTTTTCTCTTCTTCTTTCT
1 T-TTTTCT-TT-TTCTTTCT
61032516 TTTCTTCTTTTTCTTTCT
1 TTT-TTCTTTTTCTTTCT
61032534 TT
1 TT
61032536 CCCCCCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.06
18 17 0.49
19 10 0.29
20 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTCT
Found at i:61032527 original size:31 final size:29
Alignment explanation
Indices: 61032473--61032531 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
61032463 TCACCTTGAC
61032473 CTCTCCTTTTTCTTTTTTCTTTTTCTTTT
1 CTCTCCTTTTTCTTTTTTCTTTTTCTTTT
*
61032502 CTCTTCTTCTTTCTTTTCTTCTTTTTCTTT
1 CTCTCCTT-TTTCTTTT-TTCTTTTTCTTT
61032532 CTTTCCCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.26
30 8 0.30
31 12 0.44
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (29 bp):
CTCTCCTTTTTCTTTTTTCTTTTTCTTTT
Found at i:61037136 original size:6 final size:6
Alignment explanation
Indices: 61037125--61037158 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
61037115 AATATGCAAA
61037125 ATGTAT ATGTAT ATGTAT ATGTAAGT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGT-A-T ATGTAT AT
61037159 ACATATTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.73
7 2 0.08
8 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (6 bp):
ATGTAT
Found at i:61039580 original size:61 final size:61
Alignment explanation
Indices: 61039505--61039621 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
61039495 TGCACCAGTG
* * *
61039505 TAGTTCGCCTGTGTGTCTCAAA-TTTCAACTCAGTCAGTTACACGGCCTGCCACACGCCGTA
1 TAGTTCGCCAGTGTGTCTCAAACTTT-AACTCAGTAAGTTACACGGCCTACCACACGCCGTA
* * *
61039566 TAGTTCGTCAGTGTGTTTCAAACTTTAACTCATTAAGTTACACGGCCTACCACACG
1 TAGTTCGCCAGTGTGTCTCAAACTTTAACTCAGTAAGTTACACGGCCTACCACACG
61039622 ACCCACCACA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 46 0.94
62 3 0.06
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (61 bp):
TAGTTCGCCAGTGTGTCTCAAACTTTAACTCAGTAAGTTACACGGCCTACCACACGCCGTA
Found at i:61040931 original size:2 final size:2
Alignment explanation
Indices: 61040924--61040952 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61040914 TACAACTTTA
61040924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61040953 AAAACATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61042793 original size:45 final size:44
Alignment explanation
Indices: 61042727--61042932 Score: 179
Period size: 45 Copynumber: 4.6 Consensus size: 44
61042717 ACCTCAAAAT
61042727 TAATGCCATAGTATCTTTCAACTATGGTCTTGATCGTTACCGATG
1 TAATGCCATAGTATCTTTCAACTATGGTCTT-ATCGTTACCGATG
* * * *
61042772 TGATGCCATAGTATCTTTCAACTATGGTCTTAT-TTGTATCGAATT
1 TAATGCCATAGTATCTTTCAACTATGGTCTTATCGT-TACCG-ATG
* * * * * *
61042817 TAATACCATAATATCTTTCAATTATGGTCTTA-CATAGTCCCGATT
1 TAATGCCATAGTATCTTTCAACTATGGTCTTATCGT--TACCGATG
* * * *
61042862 TAGTTCCATACTATCTTTCAACTATGGTCTTATTCATT-CC-A-G
1 TAATGCCATAGTATCTTTCAACTATGGTCTTA-TCGTTACCGATG
61042904 TAAAATGCCATAGTATCTTTCAACTATGG
1 T--AATGCCATAGTATCTTTCAACTATGG
61042933 CCTTTCTCAT
Statistics
Matches: 134, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 31 0.23
45 93 0.69
46 4 0.03
47 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (44 bp):
TAATGCCATAGTATCTTTCAACTATGGTCTTATCGTTACCGATG
Found at i:61046591 original size:49 final size:49
Alignment explanation
Indices: 61046536--61046693 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
61046526 TACGTTATGG
* ** ** *
61046536 ATGAACCATTGGTTGTTGCAGATAAACTATTGACTGAAATATGTTGTGA
1 ATGAACCACTGGTCATTGCAGATAAACTACCGACTAAAATATGTTGTGA
* * * *
61046585 ATGAACCACTGGTCATTTCAGATAAATTGCCGACTAAAATATGTTGTGG
1 ATGAACCACTGGTCATTGCAGATAAACTACCGACTAAAATATGTTGTGA
* * * ** ** *
61046634 ATGAACCACTAGTCATTGCAGACAAACTGCTAACTAAAATACATTGTGG
1 ATGAACCACTGGTCATTGCAGATAAACTACCGACTAAAATATGTTGTGA
*
61046683 ATAAACCACTG
1 ATGAACCACTG
61046694 TCGTCGCAAA
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 89 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGAACCACTGGTCATTGCAGATAAACTACCGACTAAAATATGTTGTGA
Found at i:61046854 original size:34 final size:33
Alignment explanation
Indices: 61046759--61046902 Score: 132
Period size: 34 Copynumber: 4.3 Consensus size: 33
61046749 ATGCAACATG
* *
61046759 ACATGCTTATAATAGATCAATACGATAGCAATA
1 ACATGCTTATAATAGATCAATAAGGTAGCAATA
* * *
61046792 ACATTCTTATAGAAAG-TCGATACA-GTAGCATATA
1 ACATGCTTATA-ATAGATCAATA-AGGTAGCA-ATA
*
61046826 TCATGCTTATAATAGATCAATAAGGTAGCAATTA
1 ACATGCTTATAATAGATCAATAAGGTAGCAA-TA
* *
61046860 ACATGCTTATAACAGATCATTATA-GTAGCAATAA
1 ACATGCTTATAATAGATCAATA-AGGTAGCAAT-A
*
61046894 ACCTGCTTA
1 ACATGCTTA
61046903 ACATGTATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
33 26 0.29
34 63 0.70
35 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (33 bp):
ACATGCTTATAATAGATCAATAAGGTAGCAATA
Found at i:61047985 original size:14 final size:15
Alignment explanation
Indices: 61047966--61047994 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61047956 CCTAGGTTGC
61047966 TAAAAATTAA-AGGA
1 TAAAAATTAAGAGGA
61047980 TAAAAATTAAGAGGA
1 TAAAAATTAAGAGGA
61047995 AAGTAATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (15 bp):
TAAAAATTAAGAGGA
Found at i:61049457 original size:9 final size:9
Alignment explanation
Indices: 61049438--61049474 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
61049428 TGAGTTTTCG
*
61049438 AATTTGAAT
1 AATTCGAAT
*
61049447 AACTCGAAT
1 AATTCGAAT
61049456 AATTCGAAT
1 AATTCGAAT
61049465 AATTCGAAT
1 AATTCGAAT
61049474 A
1 A
61049475 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:61052127 original size:107 final size:106
Alignment explanation
Indices: 61051933--61052149 Score: 346
Period size: 107 Copynumber: 2.0 Consensus size: 106
61051923 CATTCAAAAG
* * * *
61051933 TAAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAAATCGAGAAAATATGCCCTAATGTGCTG
1 TAAAATTTCAAAGTAAAGCAATATTTAGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTG
* *
61051998 GGTTTCGATTTCCCGTTTGACCAAATAAGCCAAATATCCTTT
66 GGTTTCGATTTCCCGTTCGACCAAAT-AGCCAAATATCCTCT
*
61052040 TAAAATTTCAAAGTAAAGCAATATTTAGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTG
1 TAAAATTTCAAAGTAAAGCAATATTTAGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTG
61052105 GGTTTCGA-TTCCTCGTTCGACCAAATAGCCAAATATCCTCT
66 GGTTTCGATTTCC-CGTTCGACCAAATAGCCAAATATCCTCT
61052146 TAAA
1 TAAA
61052150 TCTAAATCCA
Statistics
Matches: 102, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 22 0.22
107 80 0.78
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
TAAAATTTCAAAGTAAAGCAATATTTAGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTG
GGTTTCGATTTCCCGTTCGACCAAATAGCCAAATATCCTCT
Found at i:61052651 original size:31 final size:29
Alignment explanation
Indices: 61052584--61052689 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
61052574 TCCAAAAAAT
* * *
61052584 TTAAAATTACAATTTGACTCTCAAATTTC
1 TTAAAATTACATTTTGACCCTCAACTTTC
* *
61052613 TTAAAATTACATTTTAGCCCCTCTAACTTTT
1 TTAAAATTACATTTT-GACCCTC-AACTTTC
* *
61052644 TTAAAATTACATTTTGACCATAAACTTTC
1 TTAAAATTACATTTTGACCCTCAACTTTC
*
61052673 TTAAAATTATATTTTGA
1 TTAAAATTACATTTTGA
61052690 GCCCAAATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 36 0.55
30 9 0.14
31 20 0.31
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (29 bp):
TTAAAATTACATTTTGACCCTCAACTTTC
Found at i:61053425 original size:25 final size:24
Alignment explanation
Indices: 61053397--61053469 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
61053387 GCATTATTAT
61053397 TATTTTAATTATTTATTTATCTAAA
1 TATTTTAATTATTTATTTAT-TAAA
**
61053422 TATTTTAAATATATTTATTTTATTATG
1 TATTTT-AAT-TATTTA-TTTATTAAA
61053449 TCATTTTAA-TATTTATTTATT
1 T-ATTTTAATTATTTATTTATT
61053470 TCTATCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 6 0.14
25 12 0.29
26 3 0.07
27 11 0.26
28 10 0.24
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (24 bp):
TATTTTAATTATTTATTTATTAAA
Found at i:61053505 original size:3 final size:3
Alignment explanation
Indices: 61053497--61053528 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61053487 CAAAACCCTG
61053497 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
61053529 CACTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:61057312 original size:11 final size:11
Alignment explanation
Indices: 61057296--61057326 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61057286 AAGTATGGGT
61057296 AGGTATGGGAA
1 AGGTATGGGAA
*
61057307 AGGTATGGGCA
1 AGGTATGGGAA
61057318 AGGTATGGG
1 AGGTATGGG
61057327 TATGGGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:61061389 original size:18 final size:18
Alignment explanation
Indices: 61061366--61061458 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
61061356 CCCAACTACT
*
61061366 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
61061384 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
61061402 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
61061420 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
61061438 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
61061456 GTA
1 GTA
61061459 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:61061411 original size:36 final size:36
Alignment explanation
Indices: 61061364--61061458 Score: 163
Period size: 36 Copynumber: 2.6 Consensus size: 36
61061354 ATCCCAACTA
*
61061364 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
61061400 CTGTATACGTGAATAGTACTGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
61061436 CCGTATACGTGAATAGTACCGTA
1 CTGTATACGTGAATAGTACCGTA
61061459 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
Found at i:61062018 original size:11 final size:11
Alignment explanation
Indices: 61062002--61062032 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
61061992 AAGTATGGGT
61062002 AGGTATGGGAA
1 AGGTATGGGAA
*
61062013 AGGTATGGGCA
1 AGGTATGGGAA
61062024 AGGTATGGG
1 AGGTATGGG
61062033 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:61064423 original size:12 final size:13
Alignment explanation
Indices: 61064400--61064426 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61064390 ATTCGACTAA
61064400 ATTTTTCAAAAAC
1 ATTTTTCAAAAAC
61064413 ATTTTTCAAAAAC
1 ATTTTTCAAAAAC
61064426 A
1 A
61064427 ATGCTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTTTCAAAAAC
Found at i:61072296 original size:20 final size:19
Alignment explanation
Indices: 61072260--61072309 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
61072250 TTTCCATGTG
*
61072260 CTTTCCATTTTTCTTCTTT
1 CTTTTCATTTTTCTTCTTT
*
61072279 CTTTTCATTTCTTTTTCTTT
1 CTTTTCATTT-TTCTTCTTT
61072299 CTTTTCCATTT
1 CTTTT-CATTT
61072310 GATTTGCTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 9 0.33
20 13 0.48
21 5 0.19
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTCATTTTTCTTCTTT
Found at i:61075141 original size:10 final size:9
Alignment explanation
Indices: 61075127--61075190 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
61075117 CAAAATTCAT
61075127 TAAAAATTC
1 TAAAAATTC
61075136 TAAAAATATC
1 TAAAAAT-TC
* *
61075146 TAAATATTA
1 TAAAAATTC
*
61075155 TAAAAACTTA
1 TAAAAA-TTC
61075165 TAAAAATTC
1 TAAAAATTC
* *
61075174 AAATAAATTA
1 TAA-AAATTC
61075184 TAAAAAT
1 TAAAAAT
61075191 AGAATTAAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 21 0.47
10 24 0.53
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATTC
Found at i:61075149 original size:19 final size:19
Alignment explanation
Indices: 61075127--61075190 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
61075117 CAAAATTCAT
*
61075127 TAAAAATTCTAAAAA-TATC
1 TAAAAATTCTAAAAACT-TA
* *
61075146 TAAATATTATAAAAACTTA
1 TAAAAATTCTAAAAACTTA
*
61075165 TAAAAATTC-AAATAAATTA
1 TAAAAATTCTAAA-AACTTA
61075184 TAAAAAT
1 TAAAAAT
61075191 AGAATTAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 3 0.08
19 33 0.89
20 1 0.03
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATTCTAAAAACTTA
Found at i:61075160 original size:29 final size:28
Alignment explanation
Indices: 61075128--61075189 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
61075118 AAAATTCATT
*
61075128 AAAAATTCTAAAAATATCTAAAT-ATTATA
1 AAAAATTATAAAAAT-TC-AAATAATTATA
*
61075157 AAAACTTATAAAAATTCAAATAAATTATA
1 AAAAATTATAAAAATTCAAAT-AATTATA
61075186 AAAA
1 AAAA
61075190 TAGAATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 2 0.07
29 23 0.79
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATTATAAAAATTCAAATAATTATA
Found at i:61075188 original size:57 final size:57
Alignment explanation
Indices: 61075081--61075190 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
61075071 TAAAACTATG
* * *
61075081 AAAATATTAAAATCTTATATAAACTTAAAAAAATTACAAAATTCATTAAAAATTCTA
1 AAAATATTAAAATATTATAAAAACTTAAAAAAATTAAAAAATTCATTAAAAATTCTA
*
61075138 AAAATATCT-AAATATTATAAAAACTTATAAAAATTCAAATAAATT-A-TAAAAAT
1 AAAATAT-TAAAATATTATAAAAACTTAAAAAAATT-AAA-AAATTCATTAAAAAT
61075191 AGAATTAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 37 0.80
58 4 0.09
59 5 0.11
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (57 bp):
AAAATATTAAAATATTATAAAAACTTAAAAAAATTAAAAAATTCATTAAAAATTCTA
Found at i:61076834 original size:7 final size:7
Alignment explanation
Indices: 61076822--61076869 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
61076812 CTTAGTCCCC
61076822 TCTAACA
1 TCTAACA
61076829 TCTAACAA
1 TCTAAC-A
61076837 TCCT--CA
1 T-CTAACA
61076843 TTCTAACA
1 -TCTAACA
61076851 TCTAACA
1 TCTAACA
61076858 TCTAACA
1 TCTAACA
61076865 TCTAA
1 TCTAA
61076870 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
6 3 0.08
7 27 0.75
8 4 0.11
9 2 0.06
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (7 bp):
TCTAACA
Found at i:61081307 original size:15 final size:16
Alignment explanation
Indices: 61081277--61081310 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61081267 AAAATTTAAT
61081277 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
61081293 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
61081308 TTT
1 TTT
61081311 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:61082994 original size:6 final size:6
Alignment explanation
Indices: 61082983--61083009 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61082973 TATTTATTTA
61082983 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
61083010 TAACTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:61083424 original size:16 final size:16
Alignment explanation
Indices: 61083403--61083443 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
61083393 TTGATTTATA
*
61083403 TATATATACTTAT-TTT
1 TATATATA-TTATAATT
61083419 TATATATATTATAATT
1 TATATATATTATAATT
61083435 TATATATAT
1 TATATATAT
61083444 ACATATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATATATTATAATT
Found at i:61083435 original size:18 final size:20
Alignment explanation
Indices: 61083397--61083444 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
61083387 ATATCTTTGA
*
61083397 TTTATATATATATACTTATT
1 TTTATATATATATACTAATT
61083417 TTTATATATAT-TA-TAATT
1 TTTATATATATATACTAATT
*
61083435 TATATATATA
1 TTTATATATA
61083445 CATATATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 13 0.50
19 2 0.08
20 11 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATATATATATACTAATT
Found at i:61083457 original size:18 final size:18
Alignment explanation
Indices: 61083401--61083469 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 18
61083391 CTTTGATTTA
* *
61083401 TATATATATACTTATTTT
1 TATATATATACATATATT
*
61083419 TATATATAT-TATA-ATT
1 TATATATATACATATATT
61083435 TATATATATACATATATT
1 TATATATATACATATATT
*
61083453 CATATCTATATACATAT
1 --TATATATATACATAT
61083470 TTTCTAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
16 11 0.26
17 5 0.12
18 12 0.29
20 14 0.33
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATATATACATATATT
Found at i:61083503 original size:18 final size:18
Alignment explanation
Indices: 61083480--61083515 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61083470 TTTCTAAATT
*
61083480 TTTATAAGTATATACATA
1 TTTATAAGTACATACATA
*
61083498 TTTATATGTACATACATA
1 TTTATAAGTACATACATA
61083516 CTTACATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTATAAGTACATACATA
Found at i:61083735 original size:4 final size:4
Alignment explanation
Indices: 61083728--61083754 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61083718 TATTTATTTA
61083728 TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT
61083755 TTGCTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:61086118 original size:70 final size:70
Alignment explanation
Indices: 61086036--61086174 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
61086026 TTCCAGTCAT
* *
61086036 TTATTTTATTCAAAATATCCTGATTCCTAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC
1 TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC
61086101 AACAA
66 AACAA
* *
61086106 TTATTTTATTCAAAATATCCAGGTTCATAAAGTACTTGTATGTCCATTTGCTCCCTAAACCATTC
1 TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC
61086171 AACA
66 AACA
61086175 CTTCTTTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (70 bp):
TTATTTTATTCAAAATATCCAGATTCATAAAGTACTTGCATGTCCATTTGCTCCCTAAACCATTC
AACAA
Found at i:61086802 original size:20 final size:20
Alignment explanation
Indices: 61086777--61086818 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61086767 TTGGCCATAT
61086777 GACCAACAACCTTATTTTGA
1 GACCAACAACCTTATTTTGA
61086797 GACCAACAACCTTATTTTGA
1 GACCAACAACCTTATTTTGA
61086817 GA
1 GA
61086819 TCTCGGAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
GACCAACAACCTTATTTTGA
Found at i:61088974 original size:18 final size:19
Alignment explanation
Indices: 61088926--61088974 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
61088916 ACTTAAGTGC
* *
61088926 TTTAATTTTTATTTGTTTA
1 TTTACTTTTTATTTGTTGA
*
61088945 TTTAC-TTATATTTGTTGA
1 TTTACTTTTTATTTGTTGA
61088963 TTT-CTTTTTATT
1 TTTACTTTTTATT
61088975 ATATATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTACTTTTTATTTGTTGA
Found at i:61092986 original size:11 final size:11
Alignment explanation
Indices: 61092970--61092998 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
61092960 ACAAACAAAC
61092970 GAAAAGAAAAA
1 GAAAAGAAAAA
61092981 GAAAAG-AAAA
1 GAAAAGAAAAA
61092991 GAAAAGAA
1 GAAAAGAA
61092999 GAATGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:61093471 original size:97 final size:100
Alignment explanation
Indices: 61093305--61093603 Score: 388
Period size: 97 Copynumber: 2.9 Consensus size: 100
61093295 ATTCATTTCG
* * * *
61093305 TATCTTAGCAAAATTTGTTATCTTAATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAATTTT
1 TATCTTAGCAAAATTTGTTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
*
61093370 CATCTTATCCATTGTGATAATCTTTTTCA-TC-T-
66 CATCTTGTCCATTGTGATAATCTTTTTCATTCGTC
* *
61093402 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAAAAAAATTT
1 TATCTTAGCAAAATTTGTTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
*
61093467 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTC
66 CATCTTGTCCATTGTGATAA-TCTTTT--TC--ATTC-G-TC
* * * *
61093509 GTATCTTAGCAAAATTTGTTATTTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATT
1 -TATCTTAGCAAAATTTGTTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
*
61093574 TCATCTTGTCCATTTTGATAATCTTTTTCA
65 TCATCTTGTCCATTGTGATAATCTTTTTCA
61093604 AGTATTTTTC
Statistics
Matches: 175, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
97 78 0.45
98 5 0.03
100 2 0.01
102 1 0.01
103 3 0.02
105 2 0.01
106 1 0.01
107 5 0.03
108 78 0.45
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.48
Consensus pattern (100 bp):
TATCTTAGCAAAATTTGTTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTGTCCATTGTGATAATCTTTTTCATTCGTC
Found at i:61093593 original size:108 final size:108
Alignment explanation
Indices: 61093402--61093603 Score: 323
Period size: 108 Copynumber: 1.9 Consensus size: 108
61093392 TTTTTCATCT
* *
61093402 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAAAAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAAAAAAATTT
61093467 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
66 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
* * * *
61093510 TATCTTAGCAAAATTTGTTATTTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAAAAAAATTT
* * *
61093575 CATCTTGTCCATTTTGATAATCTTTTTCA
66 CATCTTGTCCATTGTGATAACCCTTTTCA
61093604 AGTATTTTTC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.48
Consensus pattern (108 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAAAAAAATTT
CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
Found at i:61094560 original size:46 final size:46
Alignment explanation
Indices: 61094489--61095381 Score: 1214
Period size: 46 Copynumber: 19.4 Consensus size: 46
61094479 AATGGACTAA
* *
61094489 AAGA-AGCAGATCTTGTCTTCCTGTATTTGGTAGCGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61094534 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGG-GAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAGATCG
*
61094580 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61094626 AAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* ** *
61094672 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCAAAAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * **
61094718 AAGATAACAGATCTTATCTTTTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * *
61094764 AAGATAGAAGAACTTGTCTTCCTGTATTTAGCAGCGAAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* ** **
61094810 AAGATAGCAGATCTTGTCTTCATGTATTTGGCAGTAGAATAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61094856 AAGATAGCACATCTTGTCTTCCTGTATTTTGTAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * **
61094902 AAGATAGCAGATCTTGTCTTCCTGTATTTGGTAGCGAAGGAGATTA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61094948 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGATATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61094994 AAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61095040 AAGATAGCAGATCTTGTCTTCCTGTATTTCGCAGCGGAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61095086 AAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61095132 AAGATAGCAGATTTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61095178 AAGATGGAAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * **
61095224 AAGATAGAAGATCTTGTCTTCCTGTATTTGGGCAGTGGAGTTGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGGAGATCG
* * * *
61095271 AAGATAGAAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGACCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61095317 AAGATAGCAGATCTTGTATTCCTGTATTTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61095363 AAGATTGCAGATCCTGTCT
1 AAGATAGCAGATCTTGTCT
61095382 CCCTAAGCAG
Statistics
Matches: 751, Mismatches: 93, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
45 5 0.01
46 701 0.93
47 45 0.06
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:61097377 original size:18 final size:19
Alignment explanation
Indices: 61097329--61097377 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
61097319 ACTTAAGTGC
* *
61097329 TTTAATTTTTATTTGTTTA
1 TTTACTTTTTATTTGTTGA
*
61097348 TTTAC-TTATATTTGTTGA
1 TTTACTTTTTATTTGTTGA
61097366 TTT-CTTTTTATT
1 TTTACTTTTTATT
61097378 ATATATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTACTTTTTATTTGTTGA
Found at i:61101755 original size:16 final size:16
Alignment explanation
Indices: 61101727--61101769 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
61101717 TCAATCAAAG
61101727 AATGTAAAA-AAAAACA
1 AATG-AAAAGAAAAACA
*
61101743 AATGAAAAGAAAAAGA
1 AATGAAAAGAAAAACA
*
61101759 AAAGAAAAGAA
1 AATGAAAAGAA
61101770 GAATGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (16 bp):
AATGAAAAGAAAAACA
Found at i:61102242 original size:97 final size:100
Alignment explanation
Indices: 61102069--61102367 Score: 345
Period size: 97 Copynumber: 2.9 Consensus size: 100
61102059 ATTCATTTCG
* * * * *
61102069 TATCTTAGCAAAATTTGCTATCTTAATTCATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTCGAGCTTTGTTCTCAATAAAATTT
* *
61102134 CATTTTATCCATTGTGATAATCCTTTTCA-TC-T-
66 CATCTTGTCCATTGTGATAATCCTTTTCATTCGTC
*
61102166 TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCCTTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTCGAGCTTTGTTCTCAATAAAATTT
*
61102231 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTC
66 CATCTTGTCCATTGTGATAATCC-TTT--TC--ATTC-G-TC
* * * * *
61102273 GTATCTTAGCAAAATTTGTTATTTTGATTAATTTATTT-ATTTTGAGCCTTATTCTCAATAAAAT
1 -TATCTTAGCAAAATTTGCTATCTTGATTAATTT-TTTCATTTCGAGCTTTGTTCTCAATAAAAT
* *
61102337 TTCATCTTGTCCATTTTGATAATCTTTTTCA
64 TTCATCTTGTCCATTGTGATAATCCTTTTCA
61102368 AGCATTTTTC
Statistics
Matches: 172, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
97 79 0.46
98 3 0.02
100 2 0.01
102 1 0.01
103 3 0.02
105 2 0.01
106 1 0.01
107 3 0.02
108 75 0.44
109 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.48
Consensus pattern (100 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTGTCCATTGTGATAATCCTTTTCATTCGTC
Found at i:61102357 original size:108 final size:108
Alignment explanation
Indices: 61102166--61102367 Score: 307
Period size: 108 Copynumber: 1.9 Consensus size: 108
61102156 CTTTTCATCT
* * *
61102166 TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCCTTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTCGAGCCTTATTCTCAATAAAATTT
61102231 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
66 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
* * *
61102274 TATCTTAGCAAAATTTGTTATTTTGATTAATTTATTT-ATTTTGAGCCTTATTCTCAATAAAATT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTT-TTTCATTTCGAGCCTTATTCTCAATAAAATT
* * *
61102338 TCATCTTGTCCATTTTGATAATCTTTTTCA
65 TCATCTTGTCCATTGTGATAACCCTTTTCA
61102368 AGCATTTTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
108 81 0.96
109 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (108 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTCGAGCCTTATTCTCAATAAAATTT
CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
Found at i:61103307 original size:46 final size:46
Alignment explanation
Indices: 61103253--61104465 Score: 1714
Period size: 46 Copynumber: 26.4 Consensus size: 46
61103243 AATGGACTAA
*
61103253 AAGA-AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61103298 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
61103344 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCA-CGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61103389 AAGATAGCAGATCTTGTCTTCTTGTATTTGACAACGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61103435 AAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61103481 AAGGTAGCAGGTCTTGTTTTCCTGTATTTGGCAGCGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61103527 AAGATAGCAGCTCTTGTCTTCTTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61103573 AAGATAG-ATGATCTTGTCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCA-GATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61103619 AAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGAAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61103665 AAGATAGCAGACCTTATCTTCCTGTATTTGGTAGTGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61103711 AAGATAGCAAATCTTATCTTCCTGTATTTGGCA-CGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61103756 AAGATAGCAGATCTTGTCTTCCTGTATTTGACAACGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61103802 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
** *
61103848 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCATTGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61103894 AAGATAGCAGATCTTGTCTTCTTGTATTTGACAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61103940 AAGATAGAAGATCTTGTCTTCCTGTATTTGGTAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61103986 AAGATAGCAGATCTTGTCTTCTTATATTTGGCAGCGGAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61104032 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61104078 AAGATAGAAGATCTTGTCTTCCTCTATTTGGCAGCGAAAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61104124 AAGATAGGAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * *
61104170 AAGATAGCAGATCTTGTCTTTCTGTATTTTGCAGTGAAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61104216 AAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * * *
61104262 AAGATGGAAGATCTTGTCTTCCTGTATTTCGCAGTGGAGTAGAACG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61104308 AAGATAGAAGATCTTGTCTTCCTGTATTTGGGCAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGGAGATCG
* * *
61104355 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * * * *
61104401 AAGATAGCGGATCTTGTCTTCCTGTATTTGGTAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61104447 AAGATTGCAGATCCTGTCT
1 AAGATAGCAGATCTTGTCT
61104466 CCCTAAGCAG
Statistics
Matches: 1048, Mismatches: 114, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
45 88 0.08
46 915 0.87
47 45 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:61108694 original size:12 final size:12
Alignment explanation
Indices: 61108677--61108710 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61108667 TTAGAGCAAT
61108677 TGCAAGAACAGA
1 TGCAAGAACAGA
**
61108689 TGCAAGCCCAGA
1 TGCAAGAACAGA
61108701 TGCAAGAACA
1 TGCAAGAACA
61108711 ACTAAAAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (12 bp):
TGCAAGAACAGA
Found at i:61111491 original size:45 final size:44
Alignment explanation
Indices: 61111440--61111572 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 44
61111430 AGGATTTTCG
*
61111440 ATATGTGTTCTCGTGTAGGACCATGTCTGGGAC-GATGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGAT
* * * *
61111485 ATATGTGATTACGTGTAAGACCATGTCTAGGAAATTGGCATCG-T
1 ATATGTG-TTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
* * *
61111529 AT-T-TGATTCGTCTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGTGTTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
61111571 AT
1 AT
61111573 GAGATAGCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
41 28 0.38
42 5 0.07
43 1 0.01
44 3 0.04
45 34 0.47
46 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGAT
Found at i:61111565 original size:41 final size:45
Alignment explanation
Indices: 61111458--61111609 Score: 142
Period size: 41 Copynumber: 3.5 Consensus size: 45
61111448 TCTCGTGTAG
*
61111458 GACCATGTCTGGGAC-GATGGCATCGATATATGTGATTACGTGTAA
1 GACCATGTCTGGGACAG-TGGCATCGATATATGTGATTACGTCTAA
* * *
61111503 GACCATGTCTAGGAAATTGGCATCG-TAT-T-TGATT-CGTCTAA
1 GACCATGTCTGGGACAGTGGCATCGATATATGTGATTACGTCTAA
* * * *
61111544 GACCCTGTCTGGGACAGTGGCATCG--ATATGAGA-TAGCATGTAA
1 GACCATGTCTGGGACAGTGGCATCGATATATGTGATTA-CGTCTAA
61111587 GACCATGTCTGGGAC-GTTGGCAT
1 GACCATGTCTGGGACAG-TGGCAT
61111610 TGTTTGATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.33
42 8 0.09
43 26 0.29
44 3 0.03
45 21 0.24
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (45 bp):
GACCATGTCTGGGACAGTGGCATCGATATATGTGATTACGTCTAA
Found at i:61113926 original size:14 final size:14
Alignment explanation
Indices: 61113902--61113935 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
61113892 GTTATAATTA
61113902 TATGAACATTTGAGT
1 TATG-ACATTTGAGT
61113917 TATGACATTTGAGT
1 TATGACATTTGAGT
61113931 TATGA
1 TATGA
61113936 TGCTATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (14 bp):
TATGACATTTGAGT
Found at i:61118130 original size:97 final size:100
Alignment explanation
Indices: 61117964--61118262 Score: 397
Period size: 97 Copynumber: 2.9 Consensus size: 100
61117954 ATTCATTTTG
* * *
61117964 TATCTTAGCAAAATTTGCTATCTTAATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
61118029 CATCTTATCCATTGTGATAATCTTTTTCA-TC-T-
66 CATCTTATCCATTGTGATAATCTTTTTCATTCGTC
61118061 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* *
61118126 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTC
66 CATCTTATCCATTGTGATAA-TCTTTT--TC--ATTC-G-TC
* * * * *
61118168 GTATCTTAGCAAAATTTGTTATTTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATT
1 -TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
* *
61118233 TCATCTTTTCCATTTTGATAATCTTTTTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
61118263 AGCATTTTTC
Statistics
Matches: 178, Mismatches: 13, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
97 81 0.46
98 5 0.03
100 2 0.01
102 1 0.01
103 3 0.02
105 2 0.01
106 1 0.01
107 5 0.03
108 78 0.44
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (100 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATTCGTC
Found at i:61118252 original size:108 final size:108
Alignment explanation
Indices: 61118061--61118262 Score: 323
Period size: 108 Copynumber: 1.9 Consensus size: 108
61118051 TTTTTCATCT
* *
61118061 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
61118126 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
66 CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
* * *
61118169 TATCTTAGCAAAATTTGTTATTTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
* * * *
61118234 CATCTTTTCCATTTTGATAATCTTTTTCA
66 CATCTTGTCCATTGTGATAACCCTTTTCA
61118263 AGCATTTTTC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 85 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (108 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTT
CATCTTGTCCATTGTGATAACCCTTTTCATCTTATTCGGTTCG
Found at i:61119200 original size:46 final size:46
Alignment explanation
Indices: 61119146--61119946 Score: 1142
Period size: 46 Copynumber: 17.4 Consensus size: 46
61119136 AATGGACTAA
* *
61119146 AAGA-AGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119191 AAGATAGCAGATCTTGTCTTCCTGTATTTGGAACCGGAAGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61119237 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61119283 AATATAGCAGATCTTGTCTTCCTGTATTTGGCAG-GAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG-GAGGAGATCG
* * *
61119329 AAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61119375 AAGATAGTAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61119421 AATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119467 AAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAGGAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61119513 AAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61119559 AATATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119605 AAGATAGCAGATCTTGTCTTCATGTATTTGGTAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119651 AAGATAGCAGATCTTGTCTTTCTGTATTTGGTAACGGAGGAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* *
61119697 AAGATAGCAGATTTTGTCTTCCTATATTTGGCAGCGG-GGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGG-AGATCG
* * * * * * *
61119743 AAGATGGAAGATCTTATCTTCCTGTATTTGGCGGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119789 AAGATAGAAGATCTTGTCTTCCTGTATTTGGGCAGTGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTT-GGCAGCGGAGGAGATCG
* *
61119836 AAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
* * *
61119882 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
*
61119928 AAGATTA-CAGATCCTGTCT
1 AAGA-TAGCAGATCTTGTCT
61119947 CCCTAAGCAG
Statistics
Matches: 682, Mismatches: 67, Indels: 13
0.90 0.09 0.02
Matches are distributed among these distances:
45 7 0.01
46 627 0.92
47 48 0.07
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCG
Found at i:61121948 original size:18 final size:19
Alignment explanation
Indices: 61121903--61121951 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
61121893 ACTTAAGTGC
* *
61121903 TTTAATTTTTATTTGTTTA
1 TTTACTTTTTATTTGTTGA
61121922 TTTAC-TTTTATTTGTTGA
1 TTTACTTTTTATTTGTTGA
61121940 TTT-CTTTTTATT
1 TTTACTTTTTATT
61121952 ATATATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 22 0.81
19 4 0.15
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (19 bp):
TTTACTTTTTATTTGTTGA
Found at i:61124514 original size:62 final size:62
Alignment explanation
Indices: 61124435--61124554 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
61124425 CACACACCCA
* * * *
61124435 TGTAGTTCGCCTATGTGTCTCAAATTTTAGCTCAGTCAGTTACACGGCTTGCCACACGCCTG
1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACGGCCTACCACACGCCTG
* * * * *
61124497 TGTAGTTCGTCTGTGTGTTTCAAATTTCAACTCATTCGGTTACACGGCCTACCACACG
1 TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACGGCCTACCACACG
61124555 GCCCACCACA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (62 bp):
TGTAGTTCGCCTATGTGTCTCAAATTTCAACTCAGTCAGTTACACGGCCTACCACACGCCTG
Found at i:61125699 original size:34 final size:34
Alignment explanation
Indices: 61125661--61125734 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
61125651 TCGGTTGGAT
61125661 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
1 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
* *
61125695 TAAAAATCTACCAAGGTATCGATCTAATGAGAGG
1 TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
61125729 TAAAAA
1 TAAAAA
61125735 GTACTATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (34 bp):
TAAAAATCTACCAAGGGATCGATCTAATAAGAGG
Found at i:61126165 original size:17 final size:17
Alignment explanation
Indices: 61126143--61126178 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
61126133 CTAATCTATA
*
61126143 TGCAATAGGGACTAAAT
1 TGCAATAAGGACTAAAT
61126160 TGCAATAAGGACTAAAT
1 TGCAATAAGGACTAAAT
61126177 TG
1 TG
61126179 AAAAAAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (17 bp):
TGCAATAAGGACTAAAT
Found at i:61127688 original size:45 final size:45
Alignment explanation
Indices: 61127624--61127710 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
61127614 GTTGGACATA
61127624 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
1 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
* *
61127669 TATATATATATGTATGCATTTGGCATATGTGGATTATAAGTA
1 TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTA
61127711 TATGTATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (45 bp):
TATACATATATGTATGCATTCGGCATATGTGGATTATAAGTAAAG
Found at i:61127718 original size:34 final size:35
Alignment explanation
Indices: 61127675--61127748 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
61127665 AAAGTATATA
* *
61127675 TATATGTATG-CATTTGGCATATGTGGATT-ATAAG
1 TATATGTATGACATTTGGCACAAGTGG-TTGATAAG
61127709 TATATGTATGTACATTTGGCACAAGTGGTTGATAAG
1 TATATGTATG-ACATTTGGCACAAGTGGTTGATAAG
61127745 TATA
1 TATA
61127749 AAAATATGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 10 0.29
35 2 0.06
36 23 0.66
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (35 bp):
TATATGTATGACATTTGGCACAAGTGGTTGATAAG
Found at i:61132248 original size:49 final size:49
Alignment explanation
Indices: 61132176--61132292 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 49
61132166 GTTATGGATA
* ** *
61132176 AACCACTGGTCGTTGTAGATAAATTATTGACTGAAATATGTTGTGAACG
1 AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
* * * * *
61132225 AACCACTGGTCATTTTAGTTAAATTGTCAACTAAAATATGTTGTGGATG
1 AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
*
61132274 AACCACTAGTCATTGTAGA
1 AACCACTGGTCATTGTAGA
61132293 AAAACTGCTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (49 bp):
AACCACTGGTCATTGTAGATAAATTATCAACTAAAATATGTTGTGAACG
Found at i:61132306 original size:49 final size:49
Alignment explanation
Indices: 61132209--61132329 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 49
61132199 TTATTGACTG
* * * * ** *
61132209 AAATATGTTGTGAACGAACCACTGGTCATTTTAGTTAAATTGTCAACTA
1 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTCAACTA
61132258 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTG-CTAACTA
1 AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTC-AACTA
** *
61132307 AAATACATTGTGGGTGAACCACT
1 AAATATGTTGTGGATGAACCACT
61132330 TTCATCGCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (49 bp):
AAATATGTTGTGGATGAACCACTAGTCATTGTAGAAAAACTGTCAACTA
Found at i:61132491 original size:34 final size:33
Alignment explanation
Indices: 61132396--61132539 Score: 123
Period size: 34 Copynumber: 4.3 Consensus size: 33
61132386 ATACAACATG
* *
61132396 ACATGCTTATAATAGATCAATACGATAGCAATA
1 ACATGCTTATAATAGATCAATAAGGTAGCAATA
* * * *
61132429 ACATTCCTATAGAAAG-TCGATATA-GTAGCATATA
1 ACATGCTTATA-ATAGATCAATA-AGGTAGCA-ATA
*
61132463 TCATGCTTATAATAGATCAATAAGGTAGCAATTA
1 ACATGCTTATAATAGATCAATAAGGTAGCAA-TA
* *
61132497 ACATGCTTATAATAGATTATTATA-GTAGCAATAA
1 ACATGCTTATAATAGATCAATA-AGGTAGCAAT-A
*
61132531 ACTTGCTTA
1 ACATGCTTA
61132540 ACATGTATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
33 25 0.28
34 62 0.70
35 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (33 bp):
ACATGCTTATAATAGATCAATAAGGTAGCAATA
Found at i:61136474 original size:23 final size:24
Alignment explanation
Indices: 61136426--61136471 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
61136416 AAACTAAAAG
61136426 ATTTCCTAAAAATAATAACGAAAC
1 ATTTCCTAAAAATAATAACGAAAC
61136450 ATTTCCTAAAAATAATAACGAA
1 ATTTCCTAAAAATAATAACGAA
61136472 CATATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.26
Consensus pattern (24 bp):
ATTTCCTAAAAATAATAACGAAAC
Found at i:61136483 original size:24 final size:24
Alignment explanation
Indices: 61136432--61136483 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
61136422 AAAGATTTCC
***
61136432 TAAAAATAATAACGAAACATTTCC
1 TAAAAATAATAACGAAACATTGAA
61136456 TAAAAATAATAACG-AACATATGAA
1 TAAAAATAATAACGAAACAT-TGAA
61136480 TAAA
1 TAAA
61136484 TAAATGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.23
Consensus pattern (24 bp):
TAAAAATAATAACGAAACATTGAA
Found at i:61142803 original size:11 final size:11
Alignment explanation
Indices: 61142730--61142805 Score: 93
Period size: 11 Copynumber: 6.9 Consensus size: 11
61142720 TAAATCCTTT
61142730 CTCTCAAATT-
1 CTCTCAAATTC
* *
61142740 CTCTCATATTT
1 CTCTCAAATTC
61142751 CTCTCCAATATT-
1 CTCT-CAA-ATTC
*
61142763 CTCTCAATTTC
1 CTCTCAAATTC
61142774 CTCTCAAATTC
1 CTCTCAAATTC
61142785 CTCTCAAATTC
1 CTCTCAAATTC
61142796 CTCTCAAATT
1 CTCTCAAATT
61142806 ACTTTTAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
10 11 0.19
11 38 0.66
12 6 0.10
13 3 0.05
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:61144636 original size:18 final size:18
Alignment explanation
Indices: 61144613--61144654 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61144603 GCCAGGTGCA
* *
61144613 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
61144631 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
61144649 TTTCCT
1 TATCCT
61144655 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:61144930 original size:21 final size:21
Alignment explanation
Indices: 61144906--61144945 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61144896 CTATCAGAAG
* * *
61144906 AACCAGAATCCCTGTCGGAGC
1 AACCACAACCCCTGCCGGAGC
61144927 AACCACAACCCCTGCCGGA
1 AACCACAACCCCTGCCGGA
61144946 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.40, G:0.20, T:0.10
Consensus pattern (21 bp):
AACCACAACCCCTGCCGGAGC
Found at i:61145104 original size:34 final size:36
Alignment explanation
Indices: 61145063--61145141 Score: 135
Period size: 34 Copynumber: 2.2 Consensus size: 36
61145053 TTTTGAATAT
61145063 TTTTATATTATTTCATGTAATAAAATA-AAAATTA-
1 TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
*
61145097 TTTTATATTATTTCATGTAATAAAATAGAAATTTAC
1 TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
61145133 TTTTATATT
1 TTTTATATT
61145142 TTTAATAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 27 0.64
35 6 0.14
36 9 0.21
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (36 bp):
TTTTATATTATTTCATGTAATAAAATAGAAAATTAC
Found at i:61145200 original size:58 final size:57
Alignment explanation
Indices: 61145138--61145451 Score: 220
Period size: 58 Copynumber: 5.4 Consensus size: 57
61145128 TTTACTTTTA
61145138 TATTTTTAATAAAATAGAAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
1 TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
* * * * *
61145196 TATTTCATGTAATAAAATAAAATGTTGTTTTGAAT-A--AAGTA-ATTGAA-ATTTACT-TTT
1 TATTT--T-TAATAAAATAAAA--TTCTTTTAAATAAGGAAATATTTTGAATATTT-CTATAT
*
61145253 ATATTTTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATTTCTATAT
1 -TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
* * * * * *
61145312 TATTTCATGTAATAAAATAAAAGGTTGTTCTGAAT-A--AAGTA-ATTGAA-ATTTACTGT-T
1 TATTT--T-TAATAAAATAAAA--TTCTTTTAAATAAGGAAATATTTTGAATATTT-CTATAT
* * *
61145369 ATATTTTTACTAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATTTCTATAT
1 -TATTTTTAATAAAATA-AAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
61145428 TATTTCATTTAATAAAATATAAAT
1 TA-TT--TTTAATAAAATA-AAAT
61145452 AATACAACAT
Statistics
Matches: 196, Mismatches: 29, Indels: 59
0.69 0.10 0.21
Matches are distributed among these distances:
54 17 0.09
55 21 0.11
56 8 0.04
57 17 0.09
58 51 0.26
59 20 0.10
60 8 0.04
61 37 0.19
62 17 0.09
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (57 bp):
TATTTTTAATAAAATAAAATTCTTTTAAATAAGGAAATATTTTGAATATTTCTATAT
Found at i:61145244 original size:116 final size:116
Alignment explanation
Indices: 61145124--61145451 Score: 575
Period size: 116 Copynumber: 2.8 Consensus size: 116
61145114 TAATAAAATA
*
61145124 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGAAATATTTTGAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
61145189 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTTTGAATAAAGTAATT
66 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
*
61145240 GAAATTTACTTTTATATTTTTAATAAAATATAAATTCTTTTAAATAAGGTAATATTTTGAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
61145305 TCTATATTATTTCATGTAATAAAATAAAAGGTTGTTCTGAATAAAGTAATT
66 TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
* * *
61145356 GAAATTTACTGTTATATTTTTACTAAAATAGAAATTCTTTTAAATAAGGTAATATTTTAAATATT
1 GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
*
61145421 TCTATATTATTTCATTTAATAAAATATAAAT
66 TCTATATTATTTCATGTAATAAAATA-AAAT
61145452 AATACAACAT
Statistics
Matches: 201, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
116 198 0.99
117 3 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (116 bp):
GAAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGTAATATTTTGAATATT
TCTATATTATTTCATGTAATAAAATAAAATGTTGTTCTGAATAAAGTAATT
Found at i:61148629 original size:126 final size:126
Alignment explanation
Indices: 61148404--61148817 Score: 600
Period size: 126 Copynumber: 3.3 Consensus size: 126
61148394 GCCAAATAGA
* * * *
61148404 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGGATCC
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
* ** *
61148469 TGCTTAAAGCATTTTTCACATTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTTTAGG
66 TGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTTTAGG
*
61148530 AACTACTGTAGCAAAAGAACGTCCACATGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
* * *
61148595 TGCTTAAAGCGTTTTTTGCACTATTTTCTTAGAAAC-TTCTTCTCAAAATTATTTTTTCAGG
66 TGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTT-TTCTCAAAATTATTTTTTTAGG
* * * * *
61148656 AACTACTGTAGCAAAA-AAGCATCCACGCGGGAGTTTCTTTTAGTACTTTTGCTGACAATGCATT
1 AACTACTGTAGCAAAAGAA-CGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATC
*
61148720 CTGCTTAAAGCG-TTTTTGCCACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTTAGG
65 CTGCTTAAAGCGTTTTTTG-CACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTTTAGG
* *
61148782 AACTACTGTAGCAAAATATCGTCCACGTGGGAGCTT
1 AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTT
61148818 TTTTAAATTA
Statistics
Matches: 257, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
125 10 0.04
126 245 0.95
127 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCC
TGCTTAAAGCGTTTTTTGCACTATTTGCTCAGAAACGTTTTCTCAAAATTATTTTTTTAGG
Found at i:61148949 original size:102 final size:96
Alignment explanation
Indices: 61148816--61149182 Score: 314
Period size: 102 Copynumber: 3.8 Consensus size: 96
61148806 ACGTGGGAGC
* * * * *
61148816 TTTTTT-AAATTAACAAATAATTTAATTAAGTAACCCTAAACCCCAAATCCTAATTTATTTGAGT
1 TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAA-CCC-AATCCTAATTTATTTGATT
61148880 TTTTCCTTAAATACCTTACACTAAACCCTGATCTA
64 TTTTCCTTAAA-ACCTTACACTAAACCCT-ATCTA
*
61148915 GTTTTTTTAAAATTTATAATTGATTTAATCAAGTAACCCTAAA--C---CCTAATTTATTTGATT
1 --TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAATCCTAATTTATTTGATT
*
61148975 TTTTCCTTAAAACCCTTAACACTAAACTCTA---A
64 TTTTCCTTAAAA-CCTT-ACACTAAACCCTATCTA
* * *
61149007 TTTTTTAAAATTTTATAATTAATTTAATC-AG---CCCTAAACCTAAACCCTAATTTATTTTATT
1 TTTTTTAAAA-TTTATAATTAATTTAATCAAGTAACCCTAAACC-CAATCCTAATTTATTTGATT
* *
61149068 TTTTCCTTAAAAACCATAAACACAAAACCCTAGTCTA
64 TTTTCCTT-AAAACC-T-TACACTAAACCCTA-TCTA
* * * * * *
61149105 ATTTTGAAAATTCTATAATTAATTTAATTAAGAAACCCTAAACCCCAATCCTTTATTTATTTAAT
1 TTTTTTAAAATT-TATAATTAATTTAATCAAGTAACCCTAAA-CCCAATCC-TAATTTATTTGAT
61149170 TTTTT--TTAAAACC
63 TTTTTCCTTAAAACC
61149183 CTAAACCCTA
Statistics
Matches: 222, Mismatches: 20, Indels: 49
0.76 0.07 0.17
Matches are distributed among these distances:
87 7 0.03
90 12 0.05
91 17 0.08
92 1 0.00
93 25 0.11
94 17 0.08
95 31 0.14
96 11 0.05
97 2 0.01
98 24 0.11
99 3 0.01
100 6 0.03
101 8 0.04
102 40 0.18
103 18 0.08
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (96 bp):
TTTTTTAAAATTTATAATTAATTTAATCAAGTAACCCTAAACCCAATCCTAATTTATTTGATTTT
TTCCTTAAAACCTTACACTAAACCCTATCTA
Found at i:61149069 original size:93 final size:94
Alignment explanation
Indices: 61148849--61149199 Score: 290
Period size: 95 Copynumber: 3.7 Consensus size: 94
61148839 AATTAAGTAA
* * *
61148849 CCCTAAACCCCAAATCCTAATTTATTTGAGTTTTTCCTTAAATA-CCTT-ACACTAAACCCTGAT
1 CCCTAAA-CCTAAACCCTAATTTATTTGATTTTTTCCTTAAA-ACCCTTAACACTAAA--C---T
* *
61148912 CTAGTTTTTTTAAAA-TTTATAATTGATTTAATCAAG
59 CTA-ATTTTTTAAAATTTTATAATTAATTTAATCAAG
*
61148948 ---TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTAACACTAAACTCTAATTT
1 CCCTAAACCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTAACACTAAACTCTAATTT
61149010 TTTAAAATTTTATAATTAATTTAATC-AG
66 TTTAAAATTTTATAATTAATTTAATCAAG
* * * * * *
61149038 CCCTAAACCTAAACCCTAATTTATTTTATTTTTTCCTTAAAAACCATAAACACAAAACCCTAGTC
1 CCCTAAACCTAAACCCTAATTTATTTGATTTTTTCCTT-AAAACCCTTAACACTAAACTCTAAT-
* *
61149103 TAATTTTGAAAATTCTATAATTAATTTAATTAAG
64 T--TTTT-AAAATTTTATAATTAATTTAATCAAG
* * * * * * *
61149137 AAACCCTAAACCCCAATCCTTTATTTATTTAATTTTTT--TTAAAACCCTAAACCCTAAA-TCTA
1 ---CCCTAAA-CCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTAACACTAAACTCTA
61149199 A
62 A
61149200 AACCCCCCAA
Statistics
Matches: 211, Mismatches: 25, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
90 12 0.06
91 21 0.10
93 33 0.16
94 22 0.10
95 36 0.17
96 11 0.05
97 4 0.02
98 21 0.10
99 5 0.02
100 15 0.07
101 2 0.01
102 7 0.03
103 22 0.10
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (94 bp):
CCCTAAACCTAAACCCTAATTTATTTGATTTTTTCCTTAAAACCCTTAACACTAAACTCTAATTT
TTTAAAATTTTATAATTAATTTAATCAAG
Found at i:61150464 original size:29 final size:30
Alignment explanation
Indices: 61150392--61150464 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 30
61150382 ATACTTCAAG
61150392 TTCCTATATTTTTCATATGTTTGGAATTTA
1 TTCCTATATTTTTCATATGTTTGGAATTTA
* * *
61150422 GTCCGTCTACTTTT-AT-T-TTTAGGAATTTAA
1 TTCC-TATATTTTTCATATGTTT-GGAATTT-A
61150452 TTCCTATATTTTT
1 TTCCTATATTTTT
61150465 TAGATTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 3 0.09
29 15 0.44
30 9 0.26
31 7 0.21
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (30 bp):
TTCCTATATTTTTCATATGTTTGGAATTTA
Found at i:61162840 original size:12 final size:13
Alignment explanation
Indices: 61162807--61162895 Score: 67
Period size: 12 Copynumber: 6.7 Consensus size: 13
61162797 AAAACAATTA
*
61162807 TATATATAATTAT
1 TATATATAAATAT
*
61162820 GA-ATATAAATAT
1 TATATATAAATAT
61162832 TATAT-TAAATAT
1 TATATATAAATAT
*
61162844 GA-ATATAAATATT
1 TATATATAAATA-T
*
61162857 TATATGTACAATAT
1 TATATATA-AATAT
*
61162871 ATAAATATAAAATAAT
1 -TATATAT-AAAT-AT
61162887 TATATATAA
1 TATATATAA
61162896 TTATGAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
11 2 0.03
12 24 0.41
13 5 0.08
14 7 0.12
15 18 0.31
16 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (13 bp):
TATATATAAATAT
Found at i:61162843 original size:82 final size:79
Alignment explanation
Indices: 61162744--61162905 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 79
61162734 CAGTTTATTT
*
61162744 TAAATATTATAAAAATATGAATAAAAATATTTATGTATACAATATATAAACATAAAACAATTATA
1 TAAATATTATAAAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAA-T-TA
61162809 TATATAATTATGAATA
64 TATATAATTATGAATA
* * * * *
61162825 TAAATATTATATTAAATATGAATATAAATATTTATATGTACAATATATAAATATAAAATAATTAT
1 TAAATATTATA-AAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAATTAT
61162890 ATATAATTATGAATA
65 ATATAATTATGAATA
61162905 T
1 T
61162906 TGAATTAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 19 0.26
81 12 0.16
82 43 0.58
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (79 bp):
TAAATATTATAAAAATATGAATAAAAATATTTATATATACAATATATAAACATAAAACAATTATA
TATAATTATGAATA
Found at i:61162884 original size:30 final size:30
Alignment explanation
Indices: 61162758--61162905 Score: 131
Period size: 30 Copynumber: 5.3 Consensus size: 30
61162748 TATTATAAAA
* *
61162758 ATATGAATA-AAAATATTTATGTATACAAT
1 ATATGAATATAAAATAATTATATATACAAT
* * * *
61162787 ATATAAACATAAAACAATTATATATATAAT
1 ATATGAATATAAAATAATTATATATACAAT
61162817 -TATGAATAT-AAAT-ATTATAT-T--AA-
1 ATATGAATATAAAATAATTATATATACAAT
* *
61162840 ATATGAATAT-AAATATTTATATGTACAAT
1 ATATGAATATAAAATAATTATATATACAAT
*
61162869 ATATAAATATAAAATAATTATATAT--AAT
1 ATATGAATATAAAATAATTATATATACAAT
61162897 -TATGAATAT
1 ATATGAATAT
61162906 TGAATTAAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
24 15 0.15
25 6 0.06
26 2 0.02
27 15 0.15
28 8 0.08
29 23 0.24
30 28 0.29
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (30 bp):
ATATGAATATAAAATAATTATATATACAAT
Found at i:61162892 original size:42 final size:42
Alignment explanation
Indices: 61162768--61162892 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
61162758 ATATGAATAA
* * *
61162768 AAATATTTATGTATACAATATATAAACATAAAACAATTATAT
1 AAATATTTATATATACAATATATAAATATAAAATAATTATAT
* * * *
61162810 ATATAATTATGAATATA-AATAT-T--ATATTAAAT-ATGAATAT
1 AAATATTTAT--ATATACAATATATAAATATAAAATAAT-TATAT
*
61162850 AAATATTTATATGTACAATATATAAATATAAAATAATTATAT
1 AAATATTTATATATACAATATATAAATATAAAATAATTATAT
61162892 A
1 A
61162893 TAATTATGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
38 4 0.06
39 7 0.11
40 19 0.30
42 22 0.35
43 7 0.11
44 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (42 bp):
AAATATTTATATATACAATATATAAATATAAAATAATTATAT
Found at i:61165224 original size:18 final size:16
Alignment explanation
Indices: 61165177--61165229 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 16
61165167 TTAAATCGAG
61165177 TTAAATTGTT-ATTTT
1 TTAAATTGTTAATTTT
**
61165192 TTAAA-TGAAAATTTT
1 TTAAATTGTTAATTTT
61165207 GATTAAATTGTTAATTTT
1 --TTAAATTGTTAATTTT
61165225 TTAAA
1 TTAAA
61165230 CATTATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.33
16 5 0.17
17 5 0.17
18 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (16 bp):
TTAAATTGTTAATTTT
Found at i:61165343 original size:19 final size:20
Alignment explanation
Indices: 61165319--61165359 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
61165309 AGTTTTATGA
*
61165319 TTTTATATTTTTTAAA-TAT
1 TTTTATAATTTTTAAATTAT
61165338 TTTTATAATTTTTAAATTAT
1 TTTTATAATTTTTAAATTAT
61165358 TT
1 TT
61165360 ATTGATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTAAATTAT
Found at i:61166396 original size:20 final size:19
Alignment explanation
Indices: 61166363--61166418 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
61166353 TTTTATTAAT
* *
61166363 TTTTTAAATTTTTTTAAAA
1 TTTTAAAATGTTTTTAAAA
61166382 TTTTAATAATG-TTTTACAAA
1 TTTTAA-AATGTTTTTA-AAA
*
61166402 TTTTAAAATTTTTTTAA
1 TTTTAAAATGTTTTTAA
61166419 TTTAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAAATGTTTTTAAAA
Found at i:61167212 original size:50 final size:52
Alignment explanation
Indices: 61167125--61167226 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 52
61167115 AATCCAACCG
* *
61167125 GTAACACGCCTCAACACCAAGTGCCTAGCCCATAGGC-TAACATCC-CTCCT
1 GTAACACACCTCAACACCAAGTGCCAAGCCCATAGGCTTAACATCCGCTCCT
* * *
61167175 GTAACACACCTCGACACTAAGTGCCAAGCCCGA-AGGCTTTACATCCGCTCCT
1 GTAACACACCTCAACACCAAGTGCCAAGCCC-ATAGGCTTAACATCCGCTCCT
61167227 ATTAACACGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
50 31 0.70
51 8 0.18
52 5 0.11
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (52 bp):
GTAACACACCTCAACACCAAGTGCCAAGCCCATAGGCTTAACATCCGCTCCT
Found at i:61168226 original size:3 final size:3
Alignment explanation
Indices: 61168218--61168259 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
61168208 ATTGTTTCTT
61168218 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61168260 AATACCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61170186 original size:85 final size:86
Alignment explanation
Indices: 61170084--61170244 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 86
61170074 TACAATAAAC
* *
61170084 GCCGCTATAAACAATGGTCTTTAGCGGCGCTGT-TGCATCAATA-GCCGCCATAGACCGTGGTCT
1 GCCGCTATAAACAATGGTCTTTAGCGGCGCT-TCTGCATCAAAACGCCGCCATAGACCATGGTCT
* *
61170147 TTAGCGGTGCTTTGCATCAAAT
65 TTAACGGCGCTTTGCATCAAAT
* * *
61170169 GCCGCTATAAACCATGGTCTTTAGCTGCGCTTCTGCATCAAAACGCCGCTATAGACCATGGTCTT
1 GCCGCTATAAACAATGGTCTTTAGCGGCGCTTCTGCATCAAAACGCCGCCATAGACCATGGTCTT
61170234 TAACGGCGCTT
66 TAACGGCGCTT
61170245 ACCCGTCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.01
85 38 0.57
86 28 0.42
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (86 bp):
GCCGCTATAAACAATGGTCTTTAGCGGCGCTTCTGCATCAAAACGCCGCCATAGACCATGGTCTT
TAACGGCGCTTTGCATCAAAT
Found at i:61170187 original size:42 final size:42
Alignment explanation
Indices: 61170084--61170457 Score: 222
Period size: 43 Copynumber: 8.8 Consensus size: 42
61170074 TACAATAAAC
*
61170084 GCCGCTATAAACAATGGTCTTTAGCGGCGCTGTTGCATC-AAT
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCT-TTGCATCAAAT
* * * *
61170126 AGCCGCCATAGACCGTGGTCTTTAGCGGTGCTTTGCATCAAAT
1 -GCCGCTATAAACCATGGTCTTTAGCGGCGCTTTGCATCAAAT
* *
61170169 GCCGCTATAAACCATGGTCTTTAGCTGCGCTTCTGCATCAAAAC
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT-TGCATC-AAAT
* * ** * *
61170213 GCCGCTATAGACCATGGTCTTTAACGGCGCTTACCCGTCAAAC
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT-TGCATCAAAT
* * * * * *
61170256 GCCGTTATAGACCA-GGATATTTCGC-GCGCTTTTCCAT-AAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGC-TTTGCATCAAAT
* * * * *
61170297 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATAAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * * * *
61170340 GCCGCTATAGACCA-GGATCTTTTGCGGCGTTTTCCCATAAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * * * *
61170383 GCCGCTATAGACTA-GGATCTTTCGCGGTGCTTTCCCATCAAAC
1 GCCGCTATAAACCATGG-TCTTTAGCGGCGCTTT-GCATCAAAT
* * * *
61170426 GCCGCTAGAGACCTTGGTCTCTAGCGGCGCTT
1 GCCGCTATAAACCATGGTCTTTAGCGGCGCTT
61170458 AAAAACAAAC
Statistics
Matches: 283, Mismatches: 39, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
41 30 0.11
42 51 0.18
43 165 0.58
44 37 0.13
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (42 bp):
GCCGCTATAAACCATGGTCTTTAGCGGCGCTTTGCATCAAAT
Found at i:61170285 original size:86 final size:85
Alignment explanation
Indices: 61170080--61170438 Score: 338
Period size: 86 Copynumber: 4.2 Consensus size: 85
61170070 TTTTTACAAT
* * * * * *
61170080 AAACGCCGCTATAAACAATGG-TCTTTAGCGGCGCTGTTGCATCAATA-GCCGCCATAGACC-GT
1 AAACGCCGCTATAGACCA-GGATCTTTAGC-GCGCTTTTCCAT-AAAACGCCGCTATAGACCAG-
* * *
61170142 GGTCTTTAGCGGTGCTTT-GCATC
62 GATCTTTAGCGGCGCTTTCCCATC
* * * *
61170165 AAATGCCGCTATAAACCATGG-TCTTTAGCTGCGCTTCTGCATCAAAACGCCGCTATAGACCATG
1 AAACGCCGCTATAGACCA-GGATCTTTAGC-GCGCTTTTCCAT-AAAACGCCGCTATAGACCA-G
* * *
61170229 G-TCTTTAACGGCGCTTACCCGTC
62 GATCTTTAGCGGCGCTTTCCCATC
* * *
61170252 AAACGCCGTTATAGACCAGGATATTTCGCGCGCTTTTCCAT-AAACGCCGCTATAGACCAGGATC
1 AAACGCCGCTATAGACCAGGATCTTTAGCGCGCTTTTCCATAAAACGCCGCTATAGACCAGGATC
* *
61170316 TTTCGCGGCGCTTTCCCATA
66 TTTAGCGGCGCTTTCCCATC
* *
61170336 AAACGCCGCTATAGACCAGGATCTTTTGCG-GCGTTTTCCCATAAAACGCCGCTATAGACTAGGA
1 AAACGCCGCTATAGACCAGGATCTTTAGCGCGC-TTTT-CCATAAAACGCCGCTATAGACCAGGA
* *
61170400 TCTTTCGCGGTGCTTTCCCATC
64 TCTTTAGCGGCGCTTTCCCATC
*
61170422 AAACGCCGCTAGAGACC
1 AAACGCCGCTATAGACC
61170439 TTGGTCTCTA
Statistics
Matches: 234, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
83 4 0.02
84 66 0.28
85 45 0.19
86 93 0.40
87 25 0.11
88 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (85 bp):
AAACGCCGCTATAGACCAGGATCTTTAGCGCGCTTTTCCATAAAACGCCGCTATAGACCAGGATC
TTTAGCGGCGCTTTCCCATC
Found at i:61170318 original size:84 final size:86
Alignment explanation
Indices: 61170208--61170438 Score: 317
Period size: 84 Copynumber: 2.7 Consensus size: 86
61170198 CTTCTGCATC
** * * *
61170208 AAAACGCCGCTATAGACCATGG-TCTTTAACGGCGCTTACCCGTCAAACGCCGTTATAGACCAGG
1 AAAACGCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGG
61170272 ATATTTCGC-GCGCTTTT-CCAT
65 ATATTTCGCGGCG-TTTTCCCAT
*
61170293 -AAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAACGCCGCTATAGACCAGGA
1 AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGGA
* *
61170357 TCTTTTGCGGCGTTTTCCCAT
66 TATTTCGCGGCGTTTTCCCAT
* * *
61170378 AAAACGCCGCTATAGACTAGGATCTTTCGCGGTGCTTTCCCATCAAACGCCGCTAGAGACC
1 AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACC
61170439 TTGGTCTCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
83 2 0.02
84 65 0.50
85 7 0.05
86 56 0.43
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (86 bp):
AAAACGCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATCAAACGCCGCTATAGACCAGGA
TATTTCGCGGCGTTTTCCCAT
Found at i:61170354 original size:43 final size:43
Alignment explanation
Indices: 61170169--61170438 Score: 307
Period size: 43 Copynumber: 6.3 Consensus size: 43
61170159 TGCATCAAAT
* * * *
61170169 GCCGCTATAAACCATGG-TCTTTAGCTGCGC-TTCTGCATCAAAAC
1 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTC-CCAT-AAAAC
** * * *
61170213 GCCGCTATAGACCATGG-TCTTTAACGGCGCTTACCCGTCAAAC
1 GCCGCTATAGACCA-GGATCTTTCGCGGCGCTTTCCCATAAAAC
* * *
61170256 GCCGTTATAGACCAGGATATTTCGC-GCGCTTTTCCAT-AAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
61170297 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
* *
61170340 GCCGCTATAGACCAGGATCTTTTGCGGCGTTTTCCCATAAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
* * *
61170383 GCCGCTATAGACTAGGATCTTTCGCGGTGCTTTCCCATCAAAC
1 GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
*
61170426 GCCGCTAGAGACC
1 GCCGCTATAGACC
61170439 TTGGTCTCTA
Statistics
Matches: 196, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
41 27 0.14
42 22 0.11
43 116 0.59
44 29 0.15
45 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGACCAGGATCTTTCGCGGCGCTTTCCCATAAAAC
Found at i:61170588 original size:14 final size:14
Alignment explanation
Indices: 61170571--61170600 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61170561 AATCAGAAGA
61170571 AACCAAATCTAACC
1 AACCAAATCTAACC
61170585 AACCAAATCTAACC
1 AACCAAATCTAACC
61170599 AA
1 AA
61170601 ATCTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:61170861 original size:21 final size:21
Alignment explanation
Indices: 61170808--61170862 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
61170798 TTAAGCTGTT
* * *
61170808 CTGCTTCCCTCGCTGTAGCCT
1 CTGCTTCTCTCGCAGTAGCCG
*
61170829 CTACTT-TCCTCGCAGTAGCCG
1 CTGCTTCT-CTCGCAGTAGCCG
61170850 CTGCTTCTCTCGC
1 CTGCTTCTCTCGC
61170863 TGCCACATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.07, C:0.42, G:0.18, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCTCGCAGTAGCCG
Found at i:61170942 original size:21 final size:21
Alignment explanation
Indices: 61170913--61170963 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
61170903 TTTCGTTGAA
* * *
61170913 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTATCGCTGCCG
61170934 CCTCTGCTTCTATCGCTGCCG
1 CCTCTGCTTCTATCGCTGCCG
*
61170955 CATCTGCTT
1 CCTCTGCTT
61170964 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.41, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTATCGCTGCCG
Found at i:61170987 original size:87 final size:87
Alignment explanation
Indices: 61170850--61171029 Score: 265
Period size: 87 Copynumber: 2.1 Consensus size: 87
61170840 GCAGTAGCCG
* *
61170850 CTGCTTCTCTCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTGTTCATA-CTTTCGTTGAAC
1 CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTGAAC
*
61170914 CTCAGCTTCTCTCGCTGCTGCCT
65 CTCAGCTTCTCTCGATGCTGCCT
* * *
61170937 CTGCTTCTATCGCTGCCGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTGAAC
1 CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTGTTGAAC
*
61171001 CTCAGCTTCTCTCGATGTTGCCT
65 CTCAGCTTCTCTCGATGCTGCCT
61171024 CTGCTT
1 CTGCTT
61171030 TAAGTTGTGT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 79 0.94
88 4 0.05
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.39
Consensus pattern (87 bp):
CTGCTTCTATCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACC
TCAGCTTCTCTCGATGCTGCCT
Found at i:61172392 original size:18 final size:17
Alignment explanation
Indices: 61172366--61172400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61172356 AAAGTATTGT
*
61172366 AATATAATAAATTAATAA
1 AATAAAATAAA-TAATAA
61172384 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
61172401 GCCAACACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:61176950 original size:14 final size:14
Alignment explanation
Indices: 61176912--61176951 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
61176902 GTGTTTAAAA
*
61176912 TTAAAATTTAATGT
1 TTAAAATTTATTGT
61176926 TTAAAATTTATTGT
1 TTAAAATTTATTGT
61176940 TTAAAATTTATT
1 TTAAAATTTATT
61176952 TGGTGTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTAAAATTTATTGT
Found at i:61178488 original size:16 final size:16
Alignment explanation
Indices: 61178467--61178497 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61178457 GAAAATGGAG
61178467 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
61178483 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
61178498 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:61179120 original size:14 final size:15
Alignment explanation
Indices: 61179088--61179129 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
61179078 TTTGTGCAGT
61179088 ATATATAATATATAAC
1 ATATAT-ATATATAAC
*
61179104 ATATATATATAT-GC
1 ATATATATATATAAC
*
61179118 ATAGATATATAT
1 ATATATATATAT
61179130 CGTGGCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (15 bp):
ATATATATATATAAC
Found at i:61179493 original size:20 final size:20
Alignment explanation
Indices: 61179470--61179523 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
61179460 AACATGTAAA
**
61179470 CTCAAACCCTAAACCCATTC
1 CTCAAACCCTAAACCCAAAC
* * *
61179490 CTCAAGCCGTAAACCTAAAC
1 CTCAAACCCTAAACCCAAAC
*
61179510 CTAAAACCCTAAAC
1 CTCAAACCCTAAAC
61179524 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.39, G:0.04, T:0.17
Consensus pattern (20 bp):
CTCAAACCCTAAACCCAAAC
Found at i:61181360 original size:113 final size:113
Alignment explanation
Indices: 61181173--61181404 Score: 383
Period size: 113 Copynumber: 2.1 Consensus size: 113
61181163 GCTTAACGCC
* * *
61181173 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGTTTGGGCAAAACCGCCACAAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
*
61181238 TATGAAAACGGCGTCGTTCTATGTTACTCAATTACGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTATGTTACTCAATTACAGCGCTTTTTATA
*
61181286 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
* * * *
61181351 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCAGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTATGTTACTCAATTACAGCGCTTTTTATA
61181399 AAACGC
1 AAACGC
61181405 TGCTAATGCT
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGAAAAACCGCCACAAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTATGTTACTCAATTACAGCGCTTTTTATA
Found at i:61181528 original size:41 final size:40
Alignment explanation
Indices: 61181391--61181531 Score: 119
Period size: 40 Copynumber: 3.5 Consensus size: 40
61181381 ATTGCAGCGC
* * *
61181391 TTTTT-GTAAAACGCTGCTAATGCTTGGT-TTTAGCGGCG
1 TTTTTCGTAAAACGCCGCTAATGCTCGATATTTAGCGGCG
* * * *
61181429 TTTTT-TTATGTAGCGCCGCTAATGCTCGATATTTTGCGGCG
1 TTTTTCGTA--AAACGCCGCTAATGCTCGATATTTAGCGGCG
* *
61181470 TTTTTCGTAAAATGCCGCTAATGCTCGAT-TGTTAGTGGCG
1 TTTTTCGTAAAACGCCGCTAATGCTCGATAT-TTAGCGGCG
* *
61181510 TTTTTTGTCCAAACGCCGCTAA
1 TTTTTCGT-AAAACGCCGCTAA
61181532 AAGCACCGCT
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
38 7 0.09
39 1 0.01
40 46 0.57
41 25 0.31
42 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTTCGTAAAACGCCGCTAATGCTCGATATTTAGCGGCG
Found at i:61182287 original size:21 final size:21
Alignment explanation
Indices: 61182263--61182315 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
61182253 TATTGTTTCC
*
61182263 AATCTCACCGCTACAGTATCT
1 AATCTCACCGCTACAGTAACT
61182284 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACT
61182305 AATCTCACCGC
1 AATCTCACCGC
61182316 CACCACTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACT
Found at i:61183833 original size:19 final size:18
Alignment explanation
Indices: 61183808--61183849 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
61183798 AATTTTTTTA
61183808 TAAATTTATAAAAAATAT
1 TAAATTTATAAAAAATAT
*
61183826 TGAAATTTATAAAAAGTAT
1 T-AAATTTATAAAAAATAT
61183845 TAAAT
1 TAAAT
61183850 AAAATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAATTTATAAAAAATAT
Found at i:61183879 original size:25 final size:23
Alignment explanation
Indices: 61183849--61183908 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 23
61183839 AAGTATTAAA
61183849 TAAAATTCAAATATT-TCAAAAAAAT
1 TAAAATT-AAA-ATTAT-AAAAAAAT
61183874 TAAAATTAAAATTAATAAAAAAAT
1 TAAAATTAAAATT-ATAAAAAAAT
61183898 TAAAAATTAAA
1 T-AAAATTAAA
61183909 TCTTTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.09
24 12 0.38
25 17 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAATTAAAATTATAAAAAAAT
Done.