Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 125 of 190
Found at i:37391900 original size:14 final size:15
Alignment explanation
Indices: 37391871--37391904 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37391861 AAATTTTAAA
37391871 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
37391886 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
37391900 TTTTA
1 TTTTA
37391905 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:37392873 original size:7 final size:7
Alignment explanation
Indices: 37392861--37392885 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37392851 AGTGGATTGA
37392861 TATTTAG
1 TATTTAG
37392868 TATTTAG
1 TATTTAG
37392875 TATTTAG
1 TATTTAG
37392882 TATT
1 TATT
37392886 ATGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:37394070 original size:23 final size:23
Alignment explanation
Indices: 37394040--37394093 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
37394030 ATATTATTTG
*
37394040 ATTTAATTAAAAATCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
37394063 ATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
37394086 ATTTAATT
1 ATTTAATT
37394094 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTTAATTAAAAACCCTAACCTA
Found at i:37394108 original size:23 final size:23
Alignment explanation
Indices: 37394035--37394109 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 23
37394025 TTTTGATATT
* *
37394035 ATTTGATTTAATTAAAAATCCTA
1 ATTTAATTTAATTAAAAACCCTA
**
37394058 ACCTAATTTAATTAAAAACCCTAACCTA
1 ATTTAATTTAATTAAAAA--C---CCTA
37394086 ATTTAATTTAATTAAAAACCCTA
1 ATTTAATTTAATTAAAAACCCTA
37394109 A
1 A
37394110 CCCTAACCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
23 20 0.49
26 1 0.02
28 20 0.49
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (23 bp):
ATTTAATTTAATTAAAAACCCTA
Found at i:37394115 original size:29 final size:29
Alignment explanation
Indices: 37394054--37394231 Score: 216
Period size: 29 Copynumber: 6.0 Consensus size: 29
37394044 AATTAAAAAT
*
37394054 CCTAACCTAATTTAATTAAAAACCCTAA-
1 CCTAATCTAATTTAATTAAAAACCCTAAC
*
37394082 CCTAATTTAATTTAATTAAAAACCCTAAC
1 CCTAATCTAATTTAATTAAAAACCCTAAC
37394111 CCTAACCCTAAGCTAATTTAATTAAAAACCCTAA-
1 CCTAA---T---CTAATTTAATTAAAAACCCTAAC
* *
37394145 CCTAATTTAATTTAATTAAAGACCCTAAC
1 CCTAATCTAATTTAATTAAAAACCCTAAC
* *
37394174 CCTAACCTAATTTAATTAACAACCCTAAC
1 CCTAATCTAATTTAATTAAAAACCCTAAC
* *
37394203 CATAACCTAATTTAATTAAAAACCCTAAC
1 CCTAATCTAATTTAATTAAAAACCCTAAC
37394232 AAAAATTGAT
Statistics
Matches: 131, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
28 46 0.35
29 57 0.44
31 1 0.01
32 1 0.01
34 5 0.04
35 21 0.16
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (29 bp):
CCTAATCTAATTTAATTAAAAACCCTAAC
Found at i:37394153 original size:63 final size:61
Alignment explanation
Indices: 37394054--37394231 Score: 256
Period size: 63 Copynumber: 2.9 Consensus size: 61
37394044 AATTAAAAAT
37394054 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAA-CTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAA
*
37394116 CCCTAAGCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAGACCCTAACCCTAA
1 -CCTAA-CTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAA
* **
37394179 -C---CTAATTTAATTAACAACCCTAACCATAACCTAATTTAATTAAAAACCCTAAC
1 CCTAACTAATTTAATTAAAAACCCTAACC-TAATTTAATTTAATTAAAAACCCTAAC
37394232 AAAAATTGAT
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
57 23 0.21
58 24 0.22
61 1 0.01
63 60 0.56
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (61 bp):
CCTAACTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAA
Found at i:37394198 original size:86 final size:83
Alignment explanation
Indices: 37394040--37394231 Score: 237
Period size: 86 Copynumber: 2.2 Consensus size: 83
37394030 ATATTATTTG
* **
37394040 ATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAAC
1 ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATT--AAA-
* *
37394105 CCTAACCCTAACCCTAAGCTA
63 CCTAACCCTAACCATAACCTA
37394126 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAGACCCTAACCCTAACCTAATTTAATT
1 ATTTAATTAAAAACCCTAACCTAATTTAA-TT-A--AAA-ACCCTAA-CCTAACCTAATTTAATT
37394191 -AA-C-AACCCTAACCATAACCTA
60 AAACCTAACCCTAACCATAACCTA
37394212 ATTTAATTAAAAACCCTAAC
1 ATTTAATTAAAAACCCTAAC
37394232 AAAAATTGAT
Statistics
Matches: 95, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
86 64 0.67
87 3 0.03
88 1 0.01
89 2 0.02
90 3 0.03
91 7 0.07
92 15 0.16
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (83 bp):
ATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAACCT
AACCCTAACCATAACCTA
Found at i:37397696 original size:126 final size:125
Alignment explanation
Indices: 37397471--37397702 Score: 369
Period size: 126 Copynumber: 1.8 Consensus size: 125
37397461 AACCCCAACT
* * *
37397471 TGACCAACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATC
1 TGACCAACTGTACCGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTACTCATATAGCATC
**
37397536 CTGGTATCAGCGATTTTATACTATTTGCTCAGAAAATGTCAAAAAAAAATTATTTCTTACA
66 CTGGTAGAAGCGATTTTATACTATTTGCTCAG-AAATGTCAAAAAAAAATTATTTCTTACA
*
37397597 TGACCAACTGTACCGAAATCGCGTTCACGAGGGCACGATTTCACAATTTCTACTC-TAATAGCAT
1 TGACCAACTGTACCGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTACTCAT-ATAGCAT
37397661 CCTGGTAGAAGCGATTTTATACTATTTGAC-CAGAAATGTCAA
65 CCTGGTAGAAGCGATTTTATACTATTTG-CTCAGAAATGTCAA
37397703 CTCGAAATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
125 10 0.10
126 87 0.89
127 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
TGACCAACTGTACCGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTACTCATATAGCATC
CTGGTAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAAATTATTTCTTACA
Found at i:37397924 original size:28 final size:27
Alignment explanation
Indices: 37397864--37397923 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 27
37397854 CGATTTCGGG
* *
37397864 AAAAATGGCTCATTTCGGTAAATAATTA
1 AAAAATGGCCCATTTCGATAAAT-ATTA
37397892 AAAAATCGGCCCATTTCGATAAAT-TTA
1 AAAAAT-GGCCCATTTCGATAAATATTA
37397919 AAAAA
1 AAAAA
37397924 AAAAGGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.28
28 6 0.21
29 15 0.52
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAAATGGCCCATTTCGATAAATATTA
Found at i:37400269 original size:5 final size:5
Alignment explanation
Indices: 37400259--37400291 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
37400249 AATAAGGAAA
*
37400259 GATAT GATAT GATGT GATAT GATAT GATAT GAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GAT
37400292 TAATTATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:37401366 original size:27 final size:26
Alignment explanation
Indices: 37401323--37401428 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
37401313 CACATTAGTA
*
37401323 TTTAATTATTTTTTAATTTAAAAAATAT
1 TTTAA-TAATTTTTAATTT-AAAAATAT
* * ***
37401351 TTTAAAAATTTATAATTTTTTAATAAT
1 TTTAATAATTTTTAATTTAAAAAT-AT
*
37401378 TTTAATGATTTTTAATTTAAAAATAGT
1 TTTAATAATTTTTAATTTAAAAATA-T
*
37401405 TTTTATAATTTTTAAATTTAAAAA
1 TTTAATAATTTTT-AATTTAAAAA
37401429 ATTAATTAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
26 4 0.07
27 42 0.69
28 15 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTAATAATTTTTAATTTAAAAATAT
Found at i:37401389 original size:19 final size:18
Alignment explanation
Indices: 37401350--37401393 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
37401340 TTAAAAAATA
*
37401350 TTTTAAAAATTTATAATT
1 TTTTAATAATTTATAATT
37401368 TTTTAATAATTT-TAATGAT
1 TTTTAATAATTTATAAT--T
37401387 TTTTAAT
1 TTTTAAT
37401394 TTAAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTAATAATTTATAATT
Found at i:37405000 original size:25 final size:24
Alignment explanation
Indices: 37404972--37405022 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
37404962 TAGATATTTA
*
37404972 TTTT-AAATTGTAAAAATATTAATAT
1 TTTTCAAATTATAAAAA-ATTAA-AT
*
37404997 TTTTCAAATTATATAAAATTAAAT
1 TTTTCAAATTATAAAAAATTAAAT
37405021 TT
1 TT
37405023 AATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 9 0.39
26 10 0.43
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTCAAATTATAAAAAATTAAAT
Found at i:37405020 original size:15 final size:14
Alignment explanation
Indices: 37405002--37405039 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
37404992 AATATTTTTC
37405002 AAATTATATAAAATT
1 AAATT-TATAAAATT
*
37405017 AAATTTA-ATAATT
1 AAATTTATAAAATT
37405030 AAATTTATAA
1 AAATTTATAA
37405040 TAAACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.60
14 3 0.15
15 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTTATAAAATT
Found at i:37405040 original size:15 final size:15
Alignment explanation
Indices: 37405002--37405042 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37404992 AATATTTTTC
37405002 AAATTATATAA-AATT
1 AAATT-TATAATAATT
37405017 AAA-TT-TAATAATT
1 AAATTTATAATAATT
37405030 AAATTTATAATAA
1 AAATTTATAATAA
37405043 ACTTTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 3 0.13
15 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTTATAATAATT
Found at i:37420147 original size:43 final size:43
Alignment explanation
Indices: 37420086--37420172 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
37420076 GCAGTCTTAG
37420086 TATCACCAAATGGAGATCATTATCCTGTTGCAAGCAAGTTGGA
1 TATCACCAAATGGAGATCATTATCCTGTTGCAAGCAAGTTGGA
37420129 TATCACCAAATGGAGATCATTATCCTGTTGCAAGCAAGTTGGA
1 TATCACCAAATGGAGATCATTATCCTGTTGCAAGCAAGTTGGA
37420172 T
1 T
37420173 TTTGATTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
TATCACCAAATGGAGATCATTATCCTGTTGCAAGCAAGTTGGA
Found at i:37422979 original size:15 final size:15
Alignment explanation
Indices: 37422959--37422999 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
37422949 TGACATTCTG
*
37422959 CATTCATACAAATAT
1 CATTCATACAAATAC
*
37422974 CATTCAATGCAAATAC
1 CATTC-ATACAAATAC
37422990 CATTCATACA
1 CATTCATACA
37423000 CACCTAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (15 bp):
CATTCATACAAATAC
Found at i:37423301 original size:44 final size:44
Alignment explanation
Indices: 37423076--37423369 Score: 203
Period size: 41 Copynumber: 6.8 Consensus size: 44
37423066 ATTATACAGG
* * * *
37423076 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC-AGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * * *
37423119 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG-CATC--AGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * **
37423160 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAAC--AAAGA
* * * *
37423206 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * *
37423249 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAA-GA
* * * * *
37423293 TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCG--CAC-CAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* *
37423334 TCTTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAA
1 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGATCGAA
37423370 GACTTTCAGA
Statistics
Matches: 196, Mismatches: 44, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
40 2 0.01
41 59 0.30
42 8 0.04
43 59 0.30
44 30 0.15
46 38 0.19
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
Found at i:37423368 original size:174 final size:174
Alignment explanation
Indices: 37423079--37423632 Score: 575
Period size: 173 Copynumber: 3.2 Consensus size: 174
37423069 ATACAGGTCT
* * ** * *
37423079 TATCTCCCTGAGGTTACAGCGGAGCAGA-TCGAAGACAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
37423143 GAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATC
66 GAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATC
37423208 TTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCC
131 TTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCC
*
37423252 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
37423317 GAGCAGATCGCACCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATC
66 GAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATC
* * * * *
37423382 TTATCTCCCTTATTGTTCAAACATG-AGAGCTTAG-TACGTGAA-ACATGAGAGCT
131 TTATCTCCCTGA-GGTT---ACA-GCGGAGC--AGAT-C--GAAGACAT-A-ATCC
* * * * * * * * * * * **
37423435 TA-GTACGT-TAG--CCATG-AGAGC---TT--AGT-ACGTTAGC-CATGACTCTGAAGTTACAG
1 TATCTCCCTGAAGTTACA-GCGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAGTTACAG
* *
37423488 TAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGAATTTCAGA
64 TAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
*
37423553 TCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACACT-ATCC
129 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-TAATCC
37423599 TATCTCCCTGAAGTTACAGCGGAGCGGATTAAAA
1 TATCTCCCTGAAGTTACAGCGGAGCGGATTAAAA
37423633 CCACAGATCT
Statistics
Matches: 308, Mismatches: 44, Indels: 58
0.75 0.11 0.14
Matches are distributed among these distances:
164 4 0.01
165 6 0.02
166 5 0.02
167 5 0.02
168 8 0.03
169 7 0.02
171 2 0.01
172 3 0.01
173 118 0.38
174 109 0.35
175 3 0.01
176 2 0.01
178 7 0.02
179 8 0.03
180 4 0.01
181 6 0.02
182 7 0.02
183 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (174 bp):
TATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATC
TTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCC
Found at i:37423382 original size:87 final size:87
Alignment explanation
Indices: 37423071--37423388 Score: 328
Period size: 87 Copynumber: 3.7 Consensus size: 87
37423061 GGTTCATTAT
* * *
37423071 ACAGGTCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA---CAGGATCTTATCTCTCTGA
1 ACAGGTCTTATCTCCCTAAGGTTACAGTGGAGCAGACCGAAGATTTCAGGATCTTATCTCTCTGA
*
37423133 AGTTACAGTAGAGTAGATCGCA
66 AGTTACAGTAGAGCAGATCGCA
* * * *
37423155 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCA-GATCTTATCTCCCTG
1 ACAGGTCTTATCTCCCTAAGGTTACAGTGGAGCAGACCGAAGA-TTTCAGGATCTTATCTCTCTG
* ** *
37423219 AGGTTACAGCGGAGCAGATCGAA
65 AAGTTACAGTAGAGCAGATCGCA
** * * ** * **
37423242 GACATAATCCTATCTCCCTGAA-GTTACAGTGGAGCGGA-TTAA-AATAAAGGATCTTATCTCTC
1 -ACA-GGTCTTATCTCCCT-AAGGTTACAGTGGAGCAGACCGAAGATTTCAGGATCTTATCTCTC
37423304 TGAAGTTACAGTAGAGCAGATCGCA
63 TGAAGTTACAGTAGAGCAGATCGCA
* *
37423329 CCAGGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGACTTTCA-GATCTTATCTC
1 ACAGGTCTTATCTCCCTAAGGTTACAGTGGAGCAGACCGAAGA-TTTCAGGATCTTATCTC
37423389 CCTTATTGTT
Statistics
Matches: 184, Mismatches: 38, Indels: 21
0.76 0.16 0.09
Matches are distributed among these distances:
84 41 0.22
85 25 0.14
86 6 0.03
87 78 0.42
88 8 0.04
89 25 0.14
90 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (87 bp):
ACAGGTCTTATCTCCCTAAGGTTACAGTGGAGCAGACCGAAGATTTCAGGATCTTATCTCTCTGA
AGTTACAGTAGAGCAGATCGCA
Found at i:37423465 original size:22 final size:22
Alignment explanation
Indices: 37423403--37423473 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
37423393 ATTGTTCAAA
* **
37423403 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
37423425 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
37423447 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
37423469 CATGA
1 CATGA
37423474 CTCTGAAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:37423669 original size:173 final size:172
Alignment explanation
Indices: 37423117--37423649 Score: 552
Period size: 174 Copynumber: 3.1 Consensus size: 172
37423107 TCGAAGACAG
* *
37423117 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTC-CTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAG
37423182 TGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-
65 TGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAC
*
37423246 TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-TAAA
130 T-ATCCTATCTCCCTGAAGTTACAG-GGAGCGGATTAAAACCAAA
*
37423290 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTAAGGTTACA
1 -GATCTTATCTC-CTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACA
* * *
37423355 GTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTTATTGTTCAAACATG-AGAGCTTAG-TA
64 GTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGA-GGTT---ACA-GCGGAGC--AGAT-
* * *** * *** * * ** ***
37423418 CG-TGAAAC-ATGAGAGCTTAGT-ACGTTAGCCATGAGAGC---TTAGTACGTTA
121 CGAAGACACTATCCTATCTCCCTGAAGTTA--CA-GGGAGCGGATTAAAACCAAA
* *
37423467 G-CCATGA-CT-CTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAG
1 GATC-TTATCTCCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAG
* * *
37423529 TAGAGTAGACCGAAGAATTTCAGATCTTATCCCCCTGAGGTTACAGCGGAGCAGATCGAAGACAC
65 TGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAC
*
37423594 TATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACCACA
130 TATCCTATCTCCCTGAAGTTACAG-GGAGCGGATTAAAACCAAA
37423638 GATCTTATCTCC
1 GATCTTATCTCC
37423650 CTAAGCAGTA
Statistics
Matches: 284, Mismatches: 49, Indels: 53
0.74 0.13 0.14
Matches are distributed among these distances:
167 5 0.02
168 12 0.04
169 13 0.05
170 5 0.02
171 9 0.03
172 6 0.02
173 87 0.31
174 99 0.35
175 6 0.02
176 7 0.02
177 6 0.02
178 13 0.05
179 11 0.04
180 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (172 bp):
GATCTTATCTCCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTACAGT
GGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACACT
ATCCTATCTCCCTGAAGTTACAGGGAGCGGATTAAAACCAAA
Found at i:37423684 original size:44 final size:41
Alignment explanation
Indices: 37423636--37423755 Score: 163
Period size: 44 Copynumber: 2.9 Consensus size: 41
37423626 ATTAAAACCA
37423636 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAAC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAAAC
* *
37423680 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAC
*
37423721 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
37423756 ACAGCAAGTC
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
40 32 0.44
41 5 0.07
44 34 0.47
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAC
Found at i:37423739 original size:40 final size:40
Alignment explanation
Indices: 37423640--37423775 Score: 175
Period size: 40 Copynumber: 3.3 Consensus size: 40
37423630 AAACCACAGA
* *
37423640 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GCAACAAG
*
37423683 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAACAAG
* *
37423724 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAGCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAACAAG
37423764 TCTTATCTCCCT
1 TCTTATCTCCCT
37423776 GACGTTGTAG
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
40 50 0.58
41 5 0.06
44 30 0.35
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAACAAG
Found at i:37425589 original size:16 final size:15
Alignment explanation
Indices: 37425564--37425598 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37425554 NNNNNNNNAC
*
37425564 ATATATACATACTTTT
1 ATATACACAT-CTTTT
37425580 ATATACACATCTTTT
1 ATATACACATCTTTT
37425595 ATAT
1 ATAT
37425599 TTCCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATACACATCTTTT
Found at i:37426057 original size:109 final size:109
Alignment explanation
Indices: 37425861--37426078 Score: 382
Period size: 109 Copynumber: 2.0 Consensus size: 109
37425851 TTAAAAAAGG
* *
37425861 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
1 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
*
37425926 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATACCCTTT
*
37425970 AAAAAATTTCAAAATATGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
1 AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
* *
37426035 GGGTGTTGATTTTTCTCGTTCAACCAAATGGCTTAATACCCTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATACCCTTT
37426079 TTTAAAATAT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (109 bp):
AAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACACGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTTAATACCCTTT
Found at i:37427570 original size:17 final size:17
Alignment explanation
Indices: 37427525--37427586 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
37427515 TATGGGTCAA
*
37427525 TTGTGAATTTAGAAGAATT
1 TTGTG-ATTTAG-TGAATT
*
37427544 TT-TGAATTAGTGAATT
1 TTGTGATTTAGTGAATT
37427560 TTGTGATTTAGTGAATT
1 TTGTGATTTAGTGAATT
*
37427577 TTGCGATTTA
1 TTGTGATTTA
37427587 AAAAGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.18
17 27 0.71
18 2 0.05
19 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (17 bp):
TTGTGATTTAGTGAATT
Found at i:37428866 original size:46 final size:46
Alignment explanation
Indices: 37428813--37428949 Score: 247
Period size: 46 Copynumber: 3.0 Consensus size: 46
37428803 TGAAAAATTA
37428813 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
37428859 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
* * *
37428905 TGAAAAGTAGGTATAGTATTTCAGTGAAGGAAACCATACTGAGTT
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTT
37428950 ATAGCATTGT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
Found at i:37435153 original size:2 final size:2
Alignment explanation
Indices: 37435146--37435174 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37435136 ATTATAGGCG
37435146 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37435175 TTTATAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37435302 original size:12 final size:12
Alignment explanation
Indices: 37435287--37435317 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37435277 ATATAATAAG
37435287 ATATAAAGATAT
1 ATATAAAGATAT
37435299 ATATAAAGATAT
1 ATATAAAGATAT
37435311 ATATAAA
1 ATATAAA
37435318 TAGTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (12 bp):
ATATAAAGATAT
Found at i:37435473 original size:15 final size:16
Alignment explanation
Indices: 37435445--37435488 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
37435435 AATATACATA
*
37435445 TATATATAAAAATAA-G
1 TATA-ATAATAATAACG
37435461 TATAATAATAATAACG
1 TATAATAATAATAACG
37435477 -ATAATAATAATA
1 TATAATAATAATA
37435489 TTATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
TATAATAATAATAACG
Found at i:37436053 original size:100 final size:100
Alignment explanation
Indices: 37435857--37436316 Score: 533
Period size: 100 Copynumber: 4.6 Consensus size: 100
37435847 GGATTGGCTT
* * * * * * * *
37435857 CTTCAATCTGTTTGACTGCAATGTCAGGGAAGTAACATTCGCCGTCGTAGCTTCAATCTATTCTA
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCA
* ** * * * *
37435922 CTACACCATCAGGGAAAGTAAGATTCGCCGTTGTGA
65 CTGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
* * *
37435958 CCTCAATCTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCAC
37436023 TGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
66 TGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
** *
37436058 CTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTATTCCAT
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCAC
* *
37436123 TGCACCGCTTGGGAAAGTAAGATCCGCCGTTGTGG
66 TGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
* * * *
37436158 CTTCAATATTTTAATTGCAATGCCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCAC
** * *
37436223 TGCATTGCCTGGGAAAGTAAGATTCACCGTTGTAG
66 TGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
** * ** * ** * *
37436258 CTTCAATCTGTTCCACTGCACCGCCTAGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
37436317 TTTTAATTGC
Statistics
Matches: 310, Mismatches: 48, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 263 0.85
101 47 0.15
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCAC
TGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
Found at i:37436216 original size:200 final size:201
Alignment explanation
Indices: 37435857--37436316 Score: 620
Period size: 200 Copynumber: 2.3 Consensus size: 201
37435847 GGATTGGCTT
* * * * *
37435857 CTTCAATCTGTTTGACTGCAATGTCAGGGAAGTAACATTCGCCGTCGTAGCTTCAATCTATTCTA
1 CTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCA
* * *
37435922 CTACACCATCAGGGAAAGTAAGATTCGCCGTTGTGACCTCAATCTTTTAATTACAATGTCGGGGA
66 CTACACCATCAGGGAAAGTAAGATCCGCCGTTGTGACCTCAATATTTTAATTACAATGCCGGGGA
37435987 AGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCACCG
131 AGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCACCG
*
37436052 TTGTGG
196 TTGTAG
* * *
37436058 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTATTCCA
1 CTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCA
* * * * * * *
37436122 TTGCACC-GCTTGGGAAAGTAAGATCCGCCGTTGTGGCTTCAATATTTTAATTGCAATGCCGGGG
66 CTACACCATC-AGGGAAAGTAAGATCCGCCGTTGTGACCTCAATATTTTAATTACAATGCCGGGG
* ** *
37436186 AAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAAGTAAGATTCACC
130 AAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCACC
37436251 GTTGTAG
195 GTTGTAG
** ** * *
37436258 CTTCAATCTGTTCCACTGCACCGCCTA-GGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 CTTCAATCTGTTTAACTGCAATGTC-AGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
37436317 TTTTAATTGC
Statistics
Matches: 224, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
199 1 0.00
200 175 0.78
201 48 0.21
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (201 bp):
CTTCAATCTGTTTAACTGCAATGTCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCCA
CTACACCATCAGGGAAAGTAAGATCCGCCGTTGTGACCTCAATATTTTAATTACAATGCCGGGGA
AGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCACCG
TTGTAG
Found at i:37436321 original size:151 final size:149
Alignment explanation
Indices: 37435984--37436416 Score: 512
Period size: 151 Copynumber: 2.9 Consensus size: 149
37435974 ACAATGTCGG
* * * ** * ** * * *
37435984 GGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCA
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCC-GGGGAAGTGAGATTCA
* ** * * * *
37436049 CCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAA
65 CCGTTGTAGCTTCAATCTGTTCCACTGCATTG-CCGGGAAGTAAGATTCACCGTTGTAGCTTCAA
* * *
37436113 TCTATTCCATTGCACCGCTTG
129 TCTATTCCACTGCACCGCCTA
* * * *
37436134 GGAAAGTAAGATCCGCCGTTGTGGCTTCAAT-ATTTTAATTGCAATGCCGGGGAAGCGAGATTCA
1 GG-AAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGGGAAGTGAGATTCA
37436198 CCGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAAAGTAAGATTCACCGTTGTAGCTTCA
65 CCGTTGTAGCTTCAATCTGTTCCACTGCATTGCC-GGG-AAGTAAGATTCACCGTTGTAGCTTCA
*
37436263 ATCTGTTCCACTGCACCGCCTA
128 ATCTATTCCACTGCACCGCCTA
*
37436285 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTGAGATTCAC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGGGAAGTGAGATTCAC
* * *
37436350 TGTTGTAGCTTCAATCTGTTCCACTGCATCT-CCAGAGAAGTAAGATTCGCCGTTGTAGCTTCAA
66 CGTTGTAGCTTCAATCTGTTCCACTGCAT-TGCC-GGGAAGTAAGATTCACCGTTGTAGCTTCAA
37436414 TCT
129 TCT
37436417 TTTTAATTGC
Statistics
Matches: 242, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
149 30 0.12
150 79 0.33
151 132 0.55
152 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (149 bp):
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCGGGGAAGTGAGATTCAC
CGTTGTAGCTTCAATCTGTTCCACTGCATTGCCGGGAAGTAAGATTCACCGTTGTAGCTTCAATC
TATTCCACTGCACCGCCTA
Found at i:37436339 original size:50 final size:50
Alignment explanation
Indices: 37435857--37436428 Score: 409
Period size: 50 Copynumber: 11.4 Consensus size: 50
37435847 GGATTGGCTT
* * * * * *
37435857 CTTCAATCTGTTTGACTGCAATGTCAGGGAAGTAACATTCGCCGTCGTAG
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* * *** * *
37435907 CTTCAATCTATTCT-ACTACACCATCAGGGAAAGTAAGATTCGCCGTTGT-G
1 CTTCAATCT-TTTTAACTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTAG
* * * *
37435957 ACCTCAATC-TTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTGTAG
1 -CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* ** ** * * * *
37436007 CTTCAATCTGTTCCACTGCACCGCCTGGGAAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTAG
* *
37436058 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* ** * ** * * * * *
37436107 CTTCAATCTATTCCATTGCACCGCTTGGGAAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATG-TCGGGGAAGTAAGATTCACCGTTGTAG
* * * **
37436158 CTTCAAT-ATTTTAATTGCAATGCCGGGGAAGCGAGATTCACCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* ** * * *
37436207 CTTCAATCTGTTCCACTGCATTGCCTGGGAAAGTAAGATTCACCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTAG
* ** ** * ** *
37436258 CTTCAATCTGTTCCACTGCACCGCCTAGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* * *
37436308 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGTGAGATTCACTGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
* ** * * * *
37436358 CTTCAATCTGTTCCACTGC-ATCTCCAGAGAAGTAAGATTCGCCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGT-CGGGGAAGTAAGATTCACCGTTGTAG
*
37436408 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAACTGCAA
37436429 ACTATGGTGT
Statistics
Matches: 400, Mismatches: 109, Indels: 25
0.75 0.20 0.05
Matches are distributed among these distances:
49 88 0.22
50 181 0.45
51 131 0.33
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
CTTCAATCTTTTTAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAG
Found at i:37437893 original size:23 final size:22
Alignment explanation
Indices: 37437867--37437912 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
37437857 CTGGCCTCTC
*
37437867 TTTTCTTGTTCTTCTTTCTTTTT
1 TTTTCTTCTTCTTC-TTCTTTTT
37437890 TTTTCTTCTTCTTCTTCTTTTT
1 TTTTCTTCTTCTTCTTCTTTTT
37437912 T
1 T
37437913 ACATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTCTTCTTCTTCTTTTT
Found at i:37437897 original size:17 final size:18
Alignment explanation
Indices: 37437865--37437908 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
37437855 CCCTGGCCTC
37437865 TCTTTTCTTGTTCTTCTT
1 TCTTTTCTTGTTCTTCTT
*
37437883 TCTTTT-TTTTTCTTC-T
1 TCTTTTCTTGTTCTTCTT
37437899 TCTTCTTCTT
1 TCTT-TTCTT
37437909 TTTTACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (18 bp):
TCTTTTCTTGTTCTTCTT
Found at i:37437898 original size:20 final size:20
Alignment explanation
Indices: 37437865--37437912 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
37437855 CCCTGGCCTC
* *
37437865 TCTTTTCTTGTTCTTCTTTCT
1 TCTTTTTTTCTTCTTC-TTCT
37437886 T-TTTTTTTCTTCTTCTTCT
1 TCTTTTTTTCTTCTTCTTCT
37437905 TCTTTTTT
1 TCTTTTTT
37437913 ACATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 18 0.75
21 1 0.04
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (20 bp):
TCTTTTTTTCTTCTTCTTCT
Found at i:37440610 original size:12 final size:12
Alignment explanation
Indices: 37440577--37440610 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
37440567 TCTAGTTGTT
*
37440577 CTTGCATCTAGG
1 CTTGCATCTGGG
37440589 CTTGCATCTGGG
1 CTTGCATCTGGG
37440601 CTTGCATCTG
1 CTTGCATCTG
37440611 TTCTTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.35
Consensus pattern (12 bp):
CTTGCATCTGGG
Found at i:37440616 original size:12 final size:12
Alignment explanation
Indices: 37440577--37440618 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
37440567 TCTAGTTGTT
37440577 CTTGCATCTAG-G
1 CTTGCATCT-GTG
*
37440589 CTTGCATCTGGG
1 CTTGCATCTGTG
*
37440601 CTTGCATCTGTT
1 CTTGCATCTGTG
37440613 CTTGCA
1 CTTGCA
37440619 ATTTCTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (12 bp):
CTTGCATCTGTG
Found at i:37452498 original size:30 final size:30
Alignment explanation
Indices: 37452464--37452525 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
37452454 ACTTATTTTA
37452464 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
37452494 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
37452524 TT
1 TT
37452526 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:37452681 original size:12 final size:12
Alignment explanation
Indices: 37452651--37452683 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
37452641 TATATATTTT
37452651 AAAATT-ATATA
1 AAAATTAATATA
37452662 AAAA-TAATATA
1 AAAATTAATATA
37452673 AAAATTAATAT
1 AAAATTAATAT
37452684 GGGTGGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:37456907 original size:6 final size:6
Alignment explanation
Indices: 37456887--37456922 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
37456877 AAACTTCAAG
*
37456887 TTTTTA CTTTT- TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
37456923 ATGTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:37456919 original size:18 final size:17
Alignment explanation
Indices: 37456887--37456922 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37456877 AAACTTCAAG
37456887 TTTTTACTTTTTTTTTA
1 TTTTTACTTTTTTTTTA
*
37456904 TTTTTATTTTTATTTTTA
1 TTTTTACTTTT-TTTTTA
37456922 T
1 T
37456923 ATGTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTACTTTTTTTTTA
Found at i:37457374 original size:21 final size:22
Alignment explanation
Indices: 37457331--37457388 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
37457321 ACATATGAAC
37457331 ATACTTACAT-TTTATTTTATA
1 ATACTTACATATTTATTTTATA
37457352 ATACTTACATATTT-TTATT-TA
1 ATACTTACATATTTATT-TTATA
37457373 ATA-TATACATATTTAT
1 ATACT-TACATATTTAT
37457389 ATATATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 26 0.79
22 6 0.18
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (22 bp):
ATACTTACATATTTATTTTATA
Found at i:37457904 original size:105 final size:105
Alignment explanation
Indices: 37457715--37457904 Score: 274
Period size: 105 Copynumber: 1.8 Consensus size: 105
37457705 AAAGAAAATT
*
37457715 TTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTC
1 TTCTAAATAAGGCAATGTTTTGCGTCTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTC
**
37457780 GATTACTCGTTTGGCCAAATAGTCGAATATCCTTTCGAAA
66 GATTACTCGTTTAACCAAATAGTCGAATATCCTTTCGAAA
* * *
37457820 TTCTAAAATAAGGCAATGTTTTGCGTCTGGAAATTCGAG-GAACGTGCCCTAAGGTGTTGGGTTT
1 TTCT-AAATAAGGCAATGTTTTGCGTCTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTT
* * * *
37457884 TGGTTTCTCGTTTAATCAAAT
65 CGATTACTCGTTTAACCAAAT
37457905 TGCCAAATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 42 0.57
106 32 0.43
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (105 bp):
TTCTAAATAAGGCAATGTTTTGCGTCTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTC
GATTACTCGTTTAACCAAATAGTCGAATATCCTTTCGAAA
Found at i:37461015 original size:43 final size:42
Alignment explanation
Indices: 37460956--37461163 Score: 280
Period size: 42 Copynumber: 5.0 Consensus size: 42
37460946 GCGCTTACAT
37460956 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTGA
*
37460999 AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTT-A
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA
* * *
37461040 AAAAAAATGCCCCTAAAGATCATGTTCTTTAGCGGCGCCT-A
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA
* *
37461081 GAAACAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGT
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA
**
37461124 TCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTT
1 AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTT
37461164 ATTTCACAAA
Statistics
Matches: 150, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
41 42 0.28
42 71 0.47
43 37 0.25
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGA
Found at i:37461601 original size:12 final size:12
Alignment explanation
Indices: 37461584--37461622 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37461574 TTTTGAACCT
*
37461584 CTGCTTCTATTG
1 CTGCTTCTATCG
*
37461596 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
37461608 CTGCTTCTCTCG
1 CTGCTTCTATCG
37461620 CTG
1 CTG
37461623 TGGCCTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.03, C:0.36, G:0.18, T:0.44
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:37461634 original size:21 final size:21
Alignment explanation
Indices: 37461608--37461676 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
37461598 GCTTCTCTCG
*
37461608 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCCT
* * *
37461629 CTGCTTGTCTCGCTATAACCT
1 CTGCTTCTCTCGCTGTAGCCT
* **
37461650 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGTAGCCT
37461671 CTGCTT
1 CTGCTT
37461677 TAAGTTGCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.04, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:37467200 original size:9 final size:9
Alignment explanation
Indices: 37467186--37467633 Score: 251
Period size: 9 Copynumber: 49.9 Consensus size: 9
37467176 TTTTTATGTA
37467186 TTATGTAAG
1 TTATGTAAG
37467195 TTATGTAAG
1 TTATGTAAG
*
37467204 TTCTGT-A-
1 TTATGTAAG
37467211 TTATGT-A-
1 TTATGTAAG
*
37467218 TTATGTATG
1 TTATGTAAG
**
37467227 CCCCATGTAAG
1 --TTATGTAAG
*
37467238 TAATGTAAG
1 TTATGTAAG
*
37467247 CTATGTAAG
1 TTATGTAAG
*
37467256 TAATGTAAG
1 TTATGTAAG
* * *
37467265 ATATTTAAT
1 TTATGTAAG
37467274 TTATGTAAG
1 TTATGTAAG
37467283 TTATGTAAG
1 TTATGTAAG
* * *
37467292 ATATTTAAT
1 TTATGTAAG
*
37467301 TTATGTAAA
1 TTATGTAAG
*
37467310 TTATGCAAG
1 TTATGTAAG
* * *
37467319 ATATTTAAT
1 TTATGTAAG
*
37467328 TTACT-TAAT
1 TTA-TGTAAG
37467337 TTATGTAAG
1 TTATGTAAG
*
37467346 TTATTTAA-
1 TTATGTAAG
*
37467354 TTAACT-TAAT
1 TT-A-TGTAAG
37467364 TTATGTAAG
1 TTATGTAAG
*
37467373 TTATGCAAG
1 TTATGTAAG
* * *
37467382 ATATTTAAT
1 TTATGTAAG
37467391 TTATGTAAG
1 TTATGTAAG
*
37467400 TTATGTAAA
1 TTATGTAAG
*
37467409 TTACT-TAAT
1 TTA-TGTAAG
37467418 TTATGTAAG
1 TTATGTAAG
37467427 TTAT-TCAAG
1 TTATGT-AAG
* *
37467436 ATATTTAAG
1 TTATGTAAG
37467445 TTATGTAAG
1 TTATGTAAG
*
37467454 TTATGTAAA
1 TTATGTAAG
*
37467463 TTACT-TAAT
1 TTA-TGTAAG
37467472 TTATGTAAG
1 TTATGTAAG
37467481 TTATGTAAG
1 TTATGTAAG
* *
37467490 TTATTTAAT
1 TTATGTAAG
*
37467499 TTACT-TAAT
1 TTA-TGTAAG
37467508 TTATGTAAG
1 TTATGTAAG
*
37467517 TTATTTAA-
1 TTATGTAAG
*
37467525 TTAACT-TAAT
1 TT-A-TGTAAG
37467535 TTATGTAAG
1 TTATGTAAG
*
37467544 TTATGCAAG
1 TTATGTAAG
* * *
37467553 ATATTTAAT
1 TTATGTAAG
37467562 TTATGTAAG
1 TTATGTAAG
**
37467571 TTA-CCAAG
1 TTATGTAAG
*
37467579 AATTACT-TAAT
1 --TTA-TGTAAG
37467590 TTATGTAAG
1 TTATGTAAG
37467599 TTATGTAAG
1 TTATGTAAG
* *
37467608 TTATTTAAT
1 TTATGTAAG
*
37467617 TTCTGTAAG
1 TTATGTAAG
37467626 TTATGTAA
1 TTATGTAA
37467634 TTAACCAAAT
Statistics
Matches: 336, Mismatches: 76, Indels: 54
0.72 0.16 0.12
Matches are distributed among these distances:
7 12 0.04
8 16 0.05
9 286 0.85
10 14 0.04
11 8 0.02
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:37467306 original size:54 final size:56
Alignment explanation
Indices: 37467248--37467633 Score: 414
Period size: 54 Copynumber: 6.8 Consensus size: 56
37467238 TAATGTAAGC
* *
37467248 TATGTAAGTAATGTAAGATATTTAATTTATGTAAGTTATGTAAG-A-TATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTATTACTTAATT
* * *
37467302 TATGTAAATTATGCAAGATATTTAATTTACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATTTA-TGTAAGTTATGTAAG-----T-ATT-ACTTAATT
*
37467365 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAA--ATTACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTATTACTTAATT
*
37467419 TATGTAAGTTAT-TCAAGATATTTAAGTTATGTAAGTTATGTAA--ATTACTTAATT
1 TATGTAAGTTATGT-AAGATATTTAATTTATGTAAGTTATGTAAGTATTACTTAATT
* *
37467473 TATGTAAGTTATGTAAGTTATTTAATTTACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATTTA-TGTAAGTTATGTAAG-----T-ATT-ACTTAATT
* ** *
37467536 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTA-CCAAGAATTACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTATTACTTAATT
* *
37467591 TATGTAAGTTATGTAAGTTATTTAATTTCTGTAAGTTATGTAA
1 TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAA
37467634 TTAACCAAAT
Statistics
Matches: 284, Mismatches: 23, Indels: 48
0.80 0.06 0.14
Matches are distributed among these distances:
54 133 0.47
55 49 0.17
56 5 0.02
61 1 0.00
62 9 0.03
63 87 0.31
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (56 bp):
TATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTATTACTTAATT
Found at i:37467323 original size:27 final size:27
Alignment explanation
Indices: 37467248--37467633 Score: 361
Period size: 27 Copynumber: 13.6 Consensus size: 27
37467238 TAATGTAAGC
*
37467248 TATGTAAGTAATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
37467275 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
37467302 TATGTAAATTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
37467329 TACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TA-TGTAAGTTATGTAAG--A--T-A-T---TTAATT
*
37467365 TATGTAAGTTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
37467392 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
*
37467419 TATGTAAGTTAT-TCAAGATATTTAAGT
1 TATGTAAGTTATGT-AAGATATTTAATT
*
37467446 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
*
37467473 TATGTAAGTTATGTAAGTTATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
37467500 TACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TA-TGTAAGTTATGTAAG--A--T-A-T---TTAATT
*
37467536 TATGTAAGTTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
** *
37467563 TATGTAAGTTA-CCAAGAATTACTTAATT
1 TATGTAAGTTATGTAAG-A-TATTTAATT
*
37467591 TATGTAAGTTATGTAAGTTATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
37467618 TCTGTAAGTTATGTAA
1 TATGTAAGTTATGTAA
37467634 TTAACCAAAT
Statistics
Matches: 302, Mismatches: 26, Indels: 62
0.77 0.07 0.16
Matches are distributed among these distances:
26 7 0.02
27 214 0.71
28 23 0.08
29 4 0.01
30 2 0.01
31 4 0.01
32 4 0.01
33 2 0.01
34 2 0.01
35 2 0.01
36 38 0.13
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (27 bp):
TATGTAAGTTATGTAAGATATTTAATT
Found at i:37467336 original size:63 final size:61
Alignment explanation
Indices: 37467269--37467565 Score: 329
Period size: 63 Copynumber: 5.0 Consensus size: 61
37467259 TGTAAGATAT
* *
37467269 TTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAATTATGCAAGATATTTAATTTA
1 TTAATTTATGTAAGTTATGTAA-ATACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
* *
37467331 CTTAATTTATGTAAGTTATTTAATTAACTTAATTTATGTAAGTTATGCAAG--A--T-A--T-
1 -TTAATTTATGTAAGTTATGTAAAT-ACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
*
37467386 TTAATTTATGTAAGTTATGTAAATTACTTAATTTATGTAAGTTATTCAAG--A--T-A--T-
1 TTAATTTATGTAAGTTATGTAAA-TACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
* * *
37467440 TTAAGTTATGTAAGTTATGTAAATTACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTA
1 TTAATTTATGTAAGTTATGTAAA-TACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
* *
37467502 CTTAATTTATGTAAGTTATTTAATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
1 -TTAATTTATGTAAGTTATGTAAAT-ACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
37467565 T
1 T
37467566 GTAAGTTACC
Statistics
Matches: 207, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
54 96 0.46
55 1 0.00
56 2 0.01
58 2 0.01
59 2 0.01
61 2 0.01
62 3 0.01
63 99 0.48
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (61 bp):
TTAATTTATGTAAGTTATGTAAATACTTAATTTATGTAAGTTATGCAAGATATTTAATTTA
Found at i:37467601 original size:55 final size:56
Alignment explanation
Indices: 37467523--37467628 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 56
37467513 TAAGTTATTT
37467523 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
* * *
37467579 AATT-ACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTCTGTAAGTTA
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTA
37467629 TGTAATTAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 43 0.91
56 4 0.09
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (56 bp):
AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
Found at i:37471267 original size:39 final size:38
Alignment explanation
Indices: 37471212--37471289 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
37471202 GCGTTTTTGT
* * *
37471212 TAATATCTTTTGCGGCGCTTAT-AAAAAAGCGCCGCTAA
1 TAATATCTTTAGCGGCG-ATATCAAAAAAGCGCCACTAA
*
37471250 TAATATACTTTAGCGGCGATATCCAAAAAGCGCCACTAA
1 TAATAT-CTTTAGCGGCGATATCAAAAAAGCGCCACTAA
37471289 T
1 T
37471290 TCTAATATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 9 0.26
39 25 0.74
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (38 bp):
TAATATCTTTAGCGGCGATATCAAAAAAGCGCCACTAA
Found at i:37473027 original size:29 final size:31
Alignment explanation
Indices: 37472982--37473039 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
37472972 GATGGAGAAG
*
37472982 AAAAAGTATAAACATATTGGGTCATTTATGC
1 AAAAAGTATAAACATATTGAGTCATTTATGC
37473013 AAAAAGTA-AAA-ATATTGAGTCATTTAT
1 AAAAAGTATAAACATATTGAGTCATTTAT
37473040 TAAAAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 15 0.58
30 3 0.12
31 8 0.31
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (31 bp):
AAAAAGTATAAACATATTGAGTCATTTATGC
Found at i:37473045 original size:29 final size:31
Alignment explanation
Indices: 37472982--37473046 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
37472972 GATGGAGAAG
* *
37472982 AAAAAGTATAAACATATTGGGTCATTTATGC
1 AAAAAGTATAAACATATTGAGTCATTTATGA
*
37473013 AAAAAGTA-AAA-ATATTGAGTCATTTATTA
1 AAAAAGTATAAACATATTGAGTCATTTATGA
37473042 AAAAA
1 AAAAA
37473047 TAGAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 20 0.65
30 3 0.10
31 8 0.26
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (31 bp):
AAAAAGTATAAACATATTGAGTCATTTATGA
Found at i:37473053 original size:29 final size:29
Alignment explanation
Indices: 37472989--37473053 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
37472979 AAGAAAAAGT
* *
37472989 ATAAACATATTGGGTCATTTATGCAAAAA
1 ATAAAAATATTGAGTCATTTATGCAAAAA
* *
37473018 GTAAAAATATTGAGTCATTTAT-TAAAAA
1 ATAAAAATATTGAGTCATTTATGCAAAAA
37473046 ATAGAAAA
1 ATA-AAAA
37473054 GGAAGTATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (29 bp):
ATAAAAATATTGAGTCATTTATGCAAAAA
Found at i:37475350 original size:12 final size:12
Alignment explanation
Indices: 37475333--37475358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37475323 CAAAACAGGA
37475333 TTTTAGCGGCGT
1 TTTTAGCGGCGT
37475345 TTTTAGCGGCGT
1 TTTTAGCGGCGT
37475357 TT
1 TT
37475359 GAATAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:37477255 original size:147 final size:147
Alignment explanation
Indices: 37476988--37477270 Score: 530
Period size: 147 Copynumber: 1.9 Consensus size: 147
37476978 NNNNNNNNNN
*
37476988 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTCGTTTTGTCAATGGTATTAGTGGCGTTTGTT
1 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTAGTTTTGTCAATGGTATTAGTGGCGTTTGTT
*
37477053 TGGAAACGCCACAAGATTGAGTTAAATGTTGGGGAAACGACATCGTTTGATCTTATATTTAGTGG
66 TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
37477118 CGCTTTACATGAAGCGC
131 CGCTTTACATGAAGCGC
37477135 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTAGTTTTGTCAATGGTATTAGTGGCGTTTGTT
1 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTAGTTTTGTCAATGGTATTAGTGGCGTTTGTT
* *
37477200 TGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTGATCTTATATTTAGTGG
66 TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
37477265 CGCTTT
131 CGCTTT
37477271 GCTTAAAACG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 132 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (147 bp):
CGCAAAATTGTATTTATGTTTATCGAAATGTTGTAGTTTTGTCAATGGTATTAGTGGCGTTTGTT
TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
CGCTTTACATGAAGCGC
Found at i:37477280 original size:73 final size:73
Alignment explanation
Indices: 37477038--37477282 Score: 205
Period size: 73 Copynumber: 3.3 Consensus size: 73
37477028 GTCAATGGTA
* * *
37477038 TTAGTGGCGTTTGTTTGGAAACGCCACAAGATTGAGTTAAATGTTGGGGAAACGACATCGTTTGA
1 TTAGTGGCGTTTGCTTGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAATGACATCGTTTGA
37477103 TCTTATAT
66 TCTTATAT
* * * * * * ** *** *
37477111 TTAGTGGCGCTTTACAT-GAAGCGCCGCAAAATTGTA-TT-TATGTTTATCGAAATGTTGTAGTT
1 TTAGTGGCG-TTTGCTTGGAAACGCCACAAGATTG-AGTTAAATG-TTAGGGAAATGACATCG-T
* *
37477173 TTG-TC-AATGGT
62 TTGATCTTAT-AT
* *
37477184 ATTAGTGGCGTTTGTTTGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTG
1 -TTAGTGGCGTTTGCTTGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAATGACATCGTTTG
37477249 ATCTTATAT
65 ATCTTATAT
*
37477258 TTAGTGGCGCTTTGCTT-AAAACGCC
1 TTAGTGGCG-TTTGCTTGGAAACGCC
37477283 GCAACATTAT
Statistics
Matches: 125, Mismatches: 35, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
72 5 0.04
73 62 0.50
74 53 0.42
75 5 0.04
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (73 bp):
TTAGTGGCGTTTGCTTGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAATGACATCGTTTGA
TCTTATAT
Found at i:37477321 original size:147 final size:147
Alignment explanation
Indices: 37476988--37477340 Score: 440
Period size: 147 Copynumber: 2.4 Consensus size: 147
37476978 NNNNNNNNNN
** ** * * *
37476988 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTCGTTTTGTCAATGGTATTAGTGGCGTTTGTT
1 CGCAAAATTGTATTTACATTTATAAAAACGCTGCCGTTTTGTCAATGGTATTAGTGGCGTTTGTT
*
37477053 TGGAAACGCCACAAGATTGAGTTAAATGTTGGGGAAACGACATCGTTTGATCTTATATTTAGTGG
66 TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
* *
37477118 CGCTTTACATGAAGCGC
131 CGCTTTACATAAAACGC
** ** * * **
37477135 CGCAAAATTGTATTTATGTTTATCGAAATGTTGTAGTTTTGTCAATGGTATTAGTGGCGTTTGTT
1 CGCAAAATTGTATTTACATTTATAAAAACGCTGCCGTTTTGTCAATGGTATTAGTGGCGTTTGTT
* *
37477200 TGGAAACGCCACAAGCTTGAGTTAAATGTTAGGGAAATGACATCGTTTGATCTTATATTTAGTGG
66 TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
* *
37477265 CGCTTTGCTTAAAACGC
131 CGCTTTACATAAAACGC
* * * *
37477282 CGCAACA-T-TATTCTAACATTTATAAAAACGCTGCCGTTTTTTAAATGTTATTAGTGGCG
1 CGCAAAATTGTATT-T-ACATTTATAAAAACGCTGCCGTTTTGTCAATGGTATTAGTGGCG
37477341 ATTTTTTTTA
Statistics
Matches: 184, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
145 4 0.02
146 2 0.01
147 178 0.97
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (147 bp):
CGCAAAATTGTATTTACATTTATAAAAACGCTGCCGTTTTGTCAATGGTATTAGTGGCGTTTGTT
TGGAAACGCCACAAGATTGAGTTAAATGTTAGGGAAACGACATCGTTTGATCTTATATTTAGTGG
CGCTTTACATAAAACGC
Found at i:37479897 original size:26 final size:26
Alignment explanation
Indices: 37479868--37479925 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
37479858 CATTAAATTT
** *
37479868 ATTACTCAAATATGTTACTTAAATAC
1 ATTACTCAAATAACTTACATAAATAC
* *
37479894 ATTACTTACATAACTTACATAAATAC
1 ATTACTCAAATAACTTACATAAATAC
37479920 ATTACT
1 ATTACT
37479926 TACTAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (26 bp):
ATTACTCAAATAACTTACATAAATAC
Found at i:37479898 original size:13 final size:13
Alignment explanation
Indices: 37479868--37479927 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
37479858 CATTAAATTT
* *
37479868 ATTACTCAAATAT
1 ATTACTTAAATAC
*
37479881 GTTACTTAAATAC
1 ATTACTTAAATAC
*
37479894 ATTACTTACATA-
1 ATTACTTAAATAC
*
37479906 ACTTACATAAATAC
1 A-TTACTTAAATAC
37479920 ATTACTTA
1 ATTACTTA
37479928 CTAAAATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 1 0.03
13 35 0.95
14 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (13 bp):
ATTACTTAAATAC
Found at i:37479934 original size:17 final size:17
Alignment explanation
Indices: 37479900--37479932 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37479890 ATACATTACT
37479900 TACATAACTTACATAAA
1 TACATAACTTACATAAA
*
37479917 TACATTACTTAC-TAAA
1 TACATAACTTACATAAA
37479933 ATTTAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TACATAACTTACATAAA
Found at i:37479966 original size:40 final size:40
Alignment explanation
Indices: 37479920--37479997 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
37479910 ACATAAATAC
* *
37479920 ATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTATT
1 ATTACTTACTAAAATTTAAGCAAATTTACTTATATGTATT
37479960 ATTACTTACTAAAATTTAAGCAAATTTACTTATATGTA
1 ATTACTTACTAAAATTTAAGCAAATTTACTTATATGTA
37479998 AAATTTAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (40 bp):
ATTACTTACTAAAATTTAAGCAAATTTACTTATATGTATT
Found at i:37480002 original size:27 final size:26
Alignment explanation
Indices: 37479969--37480059 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
37479959 TATTACTTAC
37479969 TAAAATTTAAGCAAATTTACTTATATG
1 TAAAATTTAAG-AAATTTACTTATATG
*
37479996 TAAAATTTAAGTAAGTTTACTTATATG
1 TAAAATTTAAG-AAATTTACTTATATG
* * *
37480023 TAAAATTTAAG-TATGTTACTTAAAAG
1 TAAAATTTAAGAAAT-TTACTTATATG
37480049 TAAAATTTAAG
1 TAAAATTTAAG
37480060 TATGTTACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.02
26 20 0.35
27 36 0.63
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (26 bp):
TAAAATTTAAGAAATTTACTTATATG
Found at i:37480051 original size:26 final size:26
Alignment explanation
Indices: 37479985--37480073 Score: 124
Period size: 26 Copynumber: 3.4 Consensus size: 26
37479975 TTAAGCAAAT
* * *
37479985 TTACTTATATGTAAAATTTAAGTAAG
1 TTACTTAAAAGTAAAATTTAAGTATG
* *
37480011 TTTACTTATATGTAAAATTTAAGTATG
1 -TTACTTAAAAGTAAAATTTAAGTATG
37480038 TTACTTAAAAGTAAAATTTAAGTATG
1 TTACTTAAAAGTAAAATTTAAGTATG
37480064 TTACTTAAAA
1 TTACTTAAAA
37480074 TTATTACTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
26 34 0.58
27 25 0.42
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (26 bp):
TTACTTAAAAGTAAAATTTAAGTATG
Found at i:37480160 original size:38 final size:39
Alignment explanation
Indices: 37480112--37480214 Score: 163
Period size: 38 Copynumber: 2.6 Consensus size: 39
37480102 TACATATATG
*
37480112 TAAATTTACATAATACATAACTTATAA-TTTTTTTAATA
1 TAAACTTACATAATACATAACTTATAATTTTTTTTAATA
*
37480150 TAAACTTACATAATACATAACTTATAATTTTTTTTTATA
1 TAAACTTACATAATACATAACTTATAATTTTTTTTAATA
37480189 TAAACTTACATAACTTACATAACTTA
1 TAAACTTACATAA--TACATAACTTA
37480215 CATAAATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 26 0.43
39 23 0.38
41 11 0.18
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.45
Consensus pattern (39 bp):
TAAACTTACATAATACATAACTTATAATTTTTTTTAATA
Found at i:37480205 original size:9 final size:9
Alignment explanation
Indices: 37480191--37480332 Score: 191
Period size: 9 Copynumber: 16.0 Consensus size: 9
37480181 TTTTTATATA
37480191 AACTTACAT
1 AACTTACAT
37480200 AACTTACAT
1 AACTTACAT
37480209 AACTTACAT
1 AACTTACAT
* *
37480218 AAATTAAAT
1 AACTTACAT
37480227 AACTTACAT
1 AACTTACAT
*
37480236 ATCTTACAT
1 AACTTACAT
*
37480245 ATCTTACAT
1 AACTTACAT
37480254 AACTTACAT
1 AACTTACAT
* *
37480263 AAATTAAAT
1 AACTTACAT
37480272 AACTTACAT
1 AACTTACAT
37480281 AACTTACAT
1 AACTTACAT
37480290 AACTTACAT
1 AACTTACAT
37480299 AACTTACAT
1 AACTTACAT
37480308 AA--TACAT
1 AACTTACAT
*
37480315 AACCTT-CCT
1 AA-CTTACAT
37480324 AACTTACAT
1 AACTTACAT
37480333 TATTGTTTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.06
8 3 0.03
9 106 0.91
10 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:37485838 original size:21 final size:21
Alignment explanation
Indices: 37485813--37485881 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
37485803 CAGCAACTTA
* * *
37485813 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
37485834 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
37485855 AAGCAGATGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
37485876 AAGCAG
1 AAGCAG
37485882 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:37485883 original size:12 final size:12
Alignment explanation
Indices: 37485866--37485926 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 12
37485856 AGCAGATGCC
37485866 GCAGCGAGAGAA
1 GCAGCGAGAGAA
37485878 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
37485890 GCA--GAG-GCC
1 GCAGCGAGAGAA
37485899 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
37485911 GCAACGAGAGAA
1 GCAGCGAGAGAA
37485923 GCAG
1 GCAG
37485927 AGATTCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 30 0.75
ACGTcount: A:0.39, C:0.20, G:0.41, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:37485888 original size:33 final size:33
Alignment explanation
Indices: 37485846--37485928 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
37485836 GCAGAGGCTA
*
37485846 CAGCGAGAGAAGCAGATGCCGCAGCGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
37485879 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
1 CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
*
37485912 CAACGAGAGAAGCAGAG
1 CAGCGAGAGAAGCAGAG
37485929 ATTCAAAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.40, T:0.01
Consensus pattern (33 bp):
CAGCGAGAGAAGCAGAGGCCGCAGCGAGAGAAG
Found at i:37486406 original size:42 final size:43
Alignment explanation
Indices: 37486331--37486426 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
37486321 ATATCAAAAC
* *
37486331 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTT
1 AGTGGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTT
* *
37486374 AGTGGCGTTTTTG-AAGAAGCGCCGCTATAGAACATTACTTTT
1 AGTGGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTT
*
37486416 AGAGGCGTTTT
1 AGTGGCGTTTT
37486427 CTTCCAAAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 36 0.75
43 12 0.25
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
AGTGGCGTTTTTGAAAGAAGCGCCGCTAAAGAACACTACTTTT
Found at i:37486526 original size:84 final size:82
Alignment explanation
Indices: 37486347--37486639 Score: 338
Period size: 84 Copynumber: 3.5 Consensus size: 82
37486337 GTTTGTGAAA
* * ** * *
37486347 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAAGAAGCGCCGCTATAGAACATT
1 TAAGCACCGCTAAAGAACA-TGAGC-TTTAGCGGCGTTTTT--TTAAGCGCCGCTAAAGAACATG
* * * *
37486410 ACTTTTAGAGGCGTTTTCTTCC
62 ATTTTTAGGGGC-TTTTTTTTC
*
37486432 AAAGCACCGCTAAAGAACATGAGCTTTAGCGGCGTTTATTTTAAGCGCCGCTAAAGAACATGATT
1 TAAGCACCGCTAAAGAACATGAGCTTTAGCGGCGTTT-TTTTAAGCGCCGCTAAAGAACATGATT
37486497 TTTAGGGGCATTTTTTTTC
65 TTTAGGGGC-TTTTTTTTC
* * * * *
37486516 TAAGCTCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTAAGTGCCGCTAAAGAACATGATCT
1 TAAGCACCGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGATTT
*
37486581 TTAGGGGCGTTTTTTTC
66 TTAGGGGCTTTTTTTTC
* *
37486598 TAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTA
1 TAAGCACCGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTA
37486640 TGTAAGCGCC
Statistics
Matches: 182, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
82 46 0.25
83 34 0.19
84 69 0.38
85 30 0.16
86 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (82 bp):
TAAGCACCGCTAAAGAACATGAGCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGATTT
TTAGGGGCTTTTTTTTC
Found at i:37486596 original size:42 final size:42
Alignment explanation
Indices: 37486347--37486656 Score: 299
Period size: 42 Copynumber: 7.4 Consensus size: 42
37486337 GTTTGTGAAA
* ***
37486347 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAA
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGGGGCGTTTTTTTT
* * * * **
37486389 GAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGGGGCGTTTT-TTTT
* * * * *
37486432 AAAGCACCGCTAAAGAACATGAGCTTTAGCGGCG-TTTATTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTT
* *
37486473 TAAGCGCCGCTAAAGAACATGATTTTTAGGGGCATTTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTT
*
37486515 CTAAGCTCCGCTAAAGAACATGATCTTTAGGGGCG--TTTTTT
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTT
* *
37486556 TAAGTGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTT
* * *
37486598 TAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTCTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTT-TTT-TT
*
37486642 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
37486657 TTAGCGATGT
Statistics
Matches: 227, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
40 32 0.14
41 36 0.16
42 81 0.36
43 62 0.27
44 16 0.07
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTTT
Found at i:37488018 original size:3 final size:3
Alignment explanation
Indices: 37488012--37488073 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
37488002 TGATGATGTG
37488012 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37488060 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
37488074 TTTGTGTAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37490658 original size:312 final size:312
Alignment explanation
Indices: 37490093--37490718 Score: 1243
Period size: 312 Copynumber: 2.0 Consensus size: 312
37490083 AATATTAAGG
37490093 TGTCTCTCCATTCGTTTTTGAGAAGGCATATTGATATAATGATATATGAAGATTTGGAAGGAAAT
1 TGTCTCTCCATTCGTTTTTGAGAAGGCATATTGATATAATGATATATGAAGATTTGGAAGGAAAT
*
37490158 GTGTGGAGGTGTACTAGTTTCTATGACACACCCTAGGAGAATCATAGGAAGGCTTCATGGGTTTG
66 GTGTGGAGGTGTACTAGTTTCTATGACACACCCTAGGAGAATCATAGGAAGGCTTCATGGATTTG
37490223 TTGTGTTCATTAAATGACTGTCCACATGTCCTCTGGCTAGTTTTAGAGGATTTTAATGAGGTTGT
131 TTGTGTTCATTAAATGACTGTCCACATGTCCTCTGGCTAGTTTTAGAGGATTTTAATGAGGTTGT
37490288 GTTTTCATCAAATAAAAAAGGACTTGACCATTATTATGGGCAATGGTTTACTTAGGAGAAGGGTT
196 GTTTTCATCAAATAAAAAAGGACTTGACCATTATTATGGGCAATGGTTTACTTAGGAGAAGGGTT
37490353 GTAGTCAAGCAAACAACATTCGAGAACGACTTGATCGAGGTGTTGCAAATGA
261 GTAGTCAAGCAAACAACATTCGAGAACGACTTGATCGAGGTGTTGCAAATGA
37490405 TGTCTCTCCATTCGTTTTTGAGAAGGCATATTGATATAATGATATATGAAGATTTGGAAGGAAAT
1 TGTCTCTCCATTCGTTTTTGAGAAGGCATATTGATATAATGATATATGAAGATTTGGAAGGAAAT
37490470 GTGTGGAGGTGTACTAGTTTCTATGACACACCCTAGGAGAATCATAGGAAGGCTTCATGGATTTG
66 GTGTGGAGGTGTACTAGTTTCTATGACACACCCTAGGAGAATCATAGGAAGGCTTCATGGATTTG
37490535 TTGTGTTCATTAAATGACTGTCCACATGTCCTCTGGCTAGTTTTAGAGGATTTTAATGAGGTTGT
131 TTGTGTTCATTAAATGACTGTCCACATGTCCTCTGGCTAGTTTTAGAGGATTTTAATGAGGTTGT
37490600 GTTTTCATCAAATAAAAAAGGACTTGACCATTATTATGGGCAATGGTTTACTTAGGAGAAGGGTT
196 GTTTTCATCAAATAAAAAAGGACTTGACCATTATTATGGGCAATGGTTTACTTAGGAGAAGGGTT
37490665 GTAGTCAAGCAAACAACATTCGAGAACGACTTGATCGAGGTGTTGCAAATGA
261 GTAGTCAAGCAAACAACATTCGAGAACGACTTGATCGAGGTGTTGCAAATGA
37490717 TG
1 TG
37490719 AATGGTGGAG
Statistics
Matches: 313, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
312 313 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (312 bp):
TGTCTCTCCATTCGTTTTTGAGAAGGCATATTGATATAATGATATATGAAGATTTGGAAGGAAAT
GTGTGGAGGTGTACTAGTTTCTATGACACACCCTAGGAGAATCATAGGAAGGCTTCATGGATTTG
TTGTGTTCATTAAATGACTGTCCACATGTCCTCTGGCTAGTTTTAGAGGATTTTAATGAGGTTGT
GTTTTCATCAAATAAAAAAGGACTTGACCATTATTATGGGCAATGGTTTACTTAGGAGAAGGGTT
GTAGTCAAGCAAACAACATTCGAGAACGACTTGATCGAGGTGTTGCAAATGA
Found at i:37492339 original size:19 final size:19
Alignment explanation
Indices: 37492310--37492401 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
37492300 AATATTCAAG
*
37492310 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
* *
37492329 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37492348 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
37492367 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37492386 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37492402 AGATATGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37492400 original size:38 final size:38
Alignment explanation
Indices: 37492310--37492408 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
37492300 AATATTCAAG
* *
37492310 GATATGCAATCTTAAATATAATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
37492348 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
37492386 GATATGCAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
37492409 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 52 0.88
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:37492652 original size:23 final size:24
Alignment explanation
Indices: 37492602--37492654 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
37492592 TTGTGTTCTT
* *
37492602 ATTTCATTGATTTGTGTATAATTT
1 ATTTCATTGATTTGTATATAATTG
**
37492626 ATTT-ATTGATTTGTATATTGTTG
1 ATTTCATTGATTTGTATATAATTG
37492649 ATTTCA
1 ATTTCA
37492655 AATCTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (24 bp):
ATTTCATTGATTTGTATATAATTG
Found at i:37498170 original size:22 final size:23
Alignment explanation
Indices: 37498153--37498213 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 23
37498143 TTGAAAATAT
37498153 AAAAAAAATA-AGA-AGAAAAAG
1 AAAAAAAATAGAGAGAGAAAAAG
*
37498174 CAAAAAAATAGAGAGAGAAAAGAAG
1 AAAAAAAATAGAGAGAG-AAA-AAG
* *
37498199 AAAGAAAATGGAGAG
1 AAAAAAAATAGAGAG
37498214 GCCAAGGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.28
22 3 0.09
23 2 0.06
24 3 0.09
25 15 0.47
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (23 bp):
AAAAAAAATAGAGAGAGAAAAAG
Found at i:37499509 original size:88 final size:88
Alignment explanation
Indices: 37499289--37499768 Score: 683
Period size: 88 Copynumber: 5.4 Consensus size: 88
37499279 GTGAAGATAA
* * * *
37499289 CAGATCTTACCTTCCTGCACGGACATCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
* *
37499354 GTAGCAGAACAGGTTAAAAAATAG
66 GTAGCGGAGCAGGTT-AAAAATAG
* * *
37499378 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACTAACCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
*
37499443 GCAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * * * * *
37499466 CAGATCTTGTCTTCCTACATCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCTCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
* *
37499531 GCAGCGGAGCAGGTTAAAAGTTA-
66 GTAGCGGAGCAGGTTAAAA-ATAG
* * * * * *
37499554 CAGATCTTGCCTTCTTGCACCGATAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGCTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
37499619 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
37499642 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAGGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
37499707 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* *
37499730 TAGATCTTGCCTTCCTGCACCGAAAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
37499769 TGACCCCAGC
Statistics
Matches: 349, Mismatches: 40, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
87 2 0.01
88 274 0.79
89 73 0.21
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:37499651 original size:44 final size:43
Alignment explanation
Indices: 37499603--37499747 Score: 103
Period size: 44 Copynumber: 3.3 Consensus size: 43
37499593 AGACACCAGC
37499603 CTTGCCTCCCTAGCTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCT-GCTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
* ** * * * ** ** * * *
37499647 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAGGACACCA-AC
1 CTTGCCTCCCTGC-TTG-TAGCGGAGCAGGTTAAAAATAGCAGAT
* *
37499691 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCT-GCTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
*
37499735 CTTGCCTTCCTGC
1 CTTGCCTCCCTGC
37499748 ACCGAAAGCG
Statistics
Matches: 67, Mismatches: 30, Indels: 9
0.63 0.28 0.08
Matches are distributed among these distances:
43 17 0.25
44 34 0.51
45 16 0.24
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (43 bp):
CTTGCCTCCCTGCTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:37499760 original size:264 final size:265
Alignment explanation
Indices: 37499288--37499781 Score: 765
Period size: 264 Copynumber: 1.9 Consensus size: 265
37499278 AGTGAAGATA
* * * * *
37499288 ACAGATCTTACCTTCCTGCACGGACATCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGT
1 ACAGATCTTACCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGCT
37499353 TGTAGCAGAACAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAA
66 TGTAGCAGAACAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAA
* * *
37499418 GACACTAACCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTA
131 GACACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTA
* * *
37499483 CATCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCTCTAGGTTGCAGCGGAGCAGGTTAA
196 CACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTAGGTTGCAGCGGAGCAGGTTAA
37499548 AAGTT
261 AAGTT
* * * *
37499553 ACAGATCTTGCCTTCTTGCACCGATAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGCT
1 ACAGATCTTACCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGCT
* * * *
37499618 TGTAGCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAG
66 TGTAGCAGAACAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAA
* * *
37499682 GACACCAACCTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTG
131 GACACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTA
* *
37499747 CACCGAAAGCGAAGCAGATCGATGACCCCAGCCTT
196 CACCGAAAGCGAAGCAGATCGAAGACACCAGCCTT
37499782 ATCTCTCTTG
Statistics
Matches: 205, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
264 135 0.66
265 70 0.34
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (265 bp):
ACAGATCTTACCTTCCTGCACCGACAACGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGCT
TGTAGCAGAACAGGTTAAAAAATAGCAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCGAA
GACACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTA
CACCGAAAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTAGGTTGCAGCGGAGCAGGTTAA
AAGTT
Found at i:37499844 original size:44 final size:44
Alignment explanation
Indices: 37499793--37499900 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
37499783 TCTCTCTTGA
37499793 CAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTG-G
1 CAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGAG
*
37499836 TCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCTCTGAG
1 -CAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAG
* *
37499881 CAACAGTGGAGTAGGTTGAA
1 CAGCAGTGGAATAGGTTGAA
37499901 AATAGCAGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 56 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (44 bp):
CAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAG
Found at i:37500624 original size:217 final size:218
Alignment explanation
Indices: 37500249--37500693 Score: 705
Period size: 217 Copynumber: 2.0 Consensus size: 218
37500239 GCAATTTAAA
*
37500249 AGACTGAAGATGACGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGACGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAAAATCCT
*
37500314 ATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* * * * *
37500379 GCAGATCGTATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCAAGCCTTA
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
* *
37500443 TC-CTTCTGAAGTTGTAGTGAAGC
196 TCTCCT-TGAAGTTGCAGTGAAGC
* *
37500466 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAAAATTCT
1 AGACTGAAGATGACGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAAAATCCT
* *
37500531 ATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
66 ATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* * *
37500596 GCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAGTCTTA
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
*
37500661 TCTCCTTGAAGTTGCAGTGGAGC
196 TCTCCTTGAAGTTGCAGTGAAGC
*
37500684 AGACTCAAGA
1 AGACTGAAGA
37500694 AATCAAGTCT
Statistics
Matches: 208, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 166 0.80
218 40 0.19
219 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (218 bp):
AGACTGAAGATGACGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAAAATCCT
ATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
TCTCCTTGAAGTTGCAGTGAAGC
Found at i:37500661 original size:45 final size:44
Alignment explanation
Indices: 37500266--37500725 Score: 231
Period size: 44 Copynumber: 10.6 Consensus size: 44
37500256 AGATGACGAA
* * * *
37500266 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG-AAAGCAAG
* * * * * *
37500310 TCCTATCTCTCTGAAGTCGCAGTGGAGCGGAT-TA-AAATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAAAGCA-AG
* * * * *
37500353 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC--G-TATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAAAGCAAG
* *
37500394 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-AAGAAAGCAAG
* * * * * **
37500438 CCTTATC-CTTCTGAAGTTGTAGTGAAGCAGACTGAAGATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TCAAGAAAGC-AAG
* * *
37500483 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAA--AAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG--AAAGCAAG
* ** * *
37500528 TC-TATCTCTCTGAAGTTGCAGTGGAGTGGAT-TA-AAATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAAAGCA-AG
* ** * * **
37500570 ATCTTATCTCTCTGAAGTTGCA-AAGAGCAGATC--G-CATCGGG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAAAGCAAG
* *
37500611 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGAAAGCAAG
* *
37500656 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGAAAGCAAG
* * *
37500701 TCTTATCCCCCTGAAATTGTAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
37500726 GAAACTAAAT
Statistics
Matches: 323, Mismatches: 62, Indels: 61
0.72 0.14 0.14
Matches are distributed among these distances:
39 3 0.01
40 43 0.13
41 19 0.06
42 11 0.03
43 19 0.06
44 123 0.38
45 101 0.31
46 3 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAAAGCAAG
Found at i:37501305 original size:19 final size:19
Alignment explanation
Indices: 37501281--37501372 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
37501271 AATCTTCAAG
37501281 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
37501300 GATATGTATTCTTAGATAT
1 GATATGCAATCTTAGATAT
37501319 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
37501338 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
37501357 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
37501373 AGATATGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37501323 original size:38 final size:38
Alignment explanation
Indices: 37501281--37501395 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
37501271 AATCTTCAAG
*
37501281 GATATGCAATCTTAGATATGATATGTATTCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
37501319 GATATGCAATCTTAGATATAATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
37501357 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
37501396 GATTTAATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 49 0.71
41 7 0.10
42 13 0.19
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:37501398 original size:22 final size:21
Alignment explanation
Indices: 37501281--37501398 Score: 108
Period size: 19 Copynumber: 5.9 Consensus size: 21
37501271 AATCTTCAAG
*
37501281 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
37501300 GATATGTATTCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
37501319 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
37501338 AATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
37501357 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
37501379 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
37501399 TTAATTTGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
19 62 0.73
22 12 0.14
23 11 0.13
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:37501744 original size:13 final size:13
Alignment explanation
Indices: 37501726--37501762 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
37501716 TAATCTTGTA
37501726 TTATTATTATTAT
1 TTATTATTATTAT
37501739 TTATTATTATT-T
1 TTATTATTATTAT
*
37501751 TT-TTATTTTTAT
1 TTATTATTATTAT
37501763 ATTCATGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:37501823 original size:23 final size:22
Alignment explanation
Indices: 37501792--37501851 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
37501782 TTTTATGTAA
*
37501792 TATATATATTGTTTTATATATAG
1 TATACATA-TGTTTTATATATAG
* **
37501815 TATACATATGCTTATATATATTT
1 TATACATATG-TTTTATATATAG
37501838 TATACATATGTTTT
1 TATACATATGTTTT
37501852 TATTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TATACATATGTTTTATATATAG
Found at i:37503942 original size:19 final size:19
Alignment explanation
Indices: 37503918--37503963 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
37503908 TAGATGTAGT
37503918 TATTAAATTGTGATTGCAG
1 TATTAAATTGTGATTGCAG
*
37503937 TATTAAATTGTGATTGTAG
1 TATTAAATTGTGATTGCAG
37503956 TATTAAAT
1 TATTAAAT
37503964 ACGATTCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (19 bp):
TATTAAATTGTGATTGCAG
Found at i:37505026 original size:25 final size:24
Alignment explanation
Indices: 37504981--37505027 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
37504971 GCTTTTAGAC
* * *
37504981 TAAATTGAATGTTTATGTATATTA
1 TAAATTGAATATGTATATATATTA
37505005 TAAATTCGAATATGTATATATAT
1 TAAATT-GAATATGTATATATAT
37505028 ACGTACAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
TAAATTGAATATGTATATATATTA
Found at i:37505486 original size:42 final size:42
Alignment explanation
Indices: 37505434--37505595 Score: 236
Period size: 42 Copynumber: 3.9 Consensus size: 42
37505424 CAGTGAAACC
*
37505434 ATTCAGACTTTACGTCTAGCAGGCTTCATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
*
37505476 ATTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
* *
37505518 ATTCAGACTTCACGTCTAGCAGGCTTAATGCCAGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
* * * *
37505560 ATTCTGACTATAAGTCTAGCAAGCTTAGA-GCCGGTG
1 ATTCAGACTTTACGTCTAGCAGGCTTA-ATGCCGGTG
37505596 TACTGAATCA
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 107 0.99
43 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
Found at i:37513113 original size:2 final size:2
Alignment explanation
Indices: 37513106--37513137 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37513096 AGTATAGAAT
37513106 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37513138 AGATCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37513667 original size:41 final size:42
Alignment explanation
Indices: 37513632--37513736 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
37513622 AGGCTTGTTT
* *
37513632 CCAGTGAAA-CCATTCAGACTTTACGTCTAGCAGGCTCAATG
1 CCAGTGAAATCAATTCAGACTTTACGTCTAGCAGGCTTAATG
*
37513673 CCAGTGAAATGAATTCAGACTTTACGTCTAGCAGGCTTAATG
1 CCAGTGAAATCAATTCAGACTTTACGTCTAGCAGGCTTAATG
* *
37513715 CCGGTGAAATAAATTCAGACTT
1 CCAGTGAAATCAATTCAGACTT
37513737 CATTCAGACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
41 9 0.16
42 49 0.84
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
CCAGTGAAATCAATTCAGACTTTACGTCTAGCAGGCTTAATG
Found at i:37513698 original size:42 final size:42
Alignment explanation
Indices: 37513643--37513736 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
37513633 CAGTGAAACC
*
37513643 ATTCAGACTTTACGTCTAGCAGGCTCAATGCCAGTGAAATGA
1 ATTCAGACTTTACGTCTAGCAGGCTCAATGCCAGTGAAATAA
* *
37513685 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAA
1 ATTCAGACTTTACGTCTAGCAGGCTCAATGCCAGTGAAATAA
37513727 ATTCAGACTT
1 ATTCAGACTT
37513737 CATTCAGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
ATTCAGACTTTACGTCTAGCAGGCTCAATGCCAGTGAAATAA
Found at i:37513765 original size:53 final size:53
Alignment explanation
Indices: 37513685--37513788 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
37513675 AGTGAAATGA
*
37513685 ATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTCAGACTTC
1 ATTCAGACTTCACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTCAGACTTC
*
37513738 ATTCAGACTTCACGTTTAGCAGGCTTAATGCCGGTGAAATAAATTCAGACT
1 ATTCAGACTTCACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTCAGACT
37513789 ATAAATCTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (53 bp):
ATTCAGACTTCACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTCAGACTTC
Found at i:37529261 original size:24 final size:25
Alignment explanation
Indices: 37529199--37529251 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
37529189 ATTATATTTA
*
37529199 TAAT-AAATATATAAAATTAAAAAT
1 TAATAAAATCTATAAAATTAAAAAT
* *
37529223 TATTAAAATCTATAAAATTAAAATT
1 TAATAAAATCTATAAAATTAAAAAT
37529248 TAAT
1 TAAT
37529252 GATACTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATCTATAAAATTAAAAAT
Found at i:37529381 original size:28 final size:30
Alignment explanation
Indices: 37529332--37529404 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
37529322 ATACTAAATT
* *
37529332 CATATATTACTAATACATAAAATAAT-ATA
1 CATATATAACTATTACATAAAATAATAATA
*
37529361 -ATATATAACTATTAC-TGAAAATATTAATA
1 CATATATAACTATTACAT-AAAATAATAATA
37529390 CATATATAACTATTA
1 CATATATAACTATTA
37529405 TTATAACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 20 0.53
29 3 0.08
30 14 0.37
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (30 bp):
CATATATAACTATTACATAAAATAATAATA
Found at i:37530265 original size:24 final size:26
Alignment explanation
Indices: 37530211--37530266 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
37530201 ATTGTTATCG
*
37530211 TATAAAAATAAAATGACTTATTACAT
1 TATAAAAATAAAATGACTTATAACAT
*
37530237 T-TAAAAATAAAAT-ATTTATAAC-T
1 TATAAAAATAAAATGACTTATAACAT
37530260 TATAAAA
1 TATAAAA
37530267 TTCAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 12 0.44
26 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAAAATAAAATGACTTATAACAT
Found at i:37541925 original size:23 final size:24
Alignment explanation
Indices: 37541837--37541953 Score: 125
Period size: 23 Copynumber: 4.8 Consensus size: 24
37541827 AGCCATGATC
*
37541837 GGTAAGCTCATTCCGAGCTGAAGAAT
1 GGTAAGCTCA-TACGAGCTGAA-AAT
37541863 GGTAAGCTC-TATCGAGCT-AAAAT
1 GGTAAGCTCATA-CGAGCTGAAAAT
37541886 GGTAAGCTC-TATCGAGCT-AAAAT
1 GGTAAGCTCATA-CGAGCTGAAAAT
* *
37541909 GGTAAGCTCATAAGAGCTGATATAT
1 GGTAAGCTCATACGAGCTGA-AAAT
37541934 CGGTAAGCTCATACGAGCTG
1 -GGTAAGCTCATACGAGCTG
37541954 TGGTGAGTCT
Statistics
Matches: 82, Mismatches: 4, Indels: 10
0.85 0.04 0.10
Matches are distributed among these distances:
23 40 0.49
24 6 0.07
25 9 0.11
26 27 0.33
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (24 bp):
GGTAAGCTCATACGAGCTGAAAAT
Found at i:37549820 original size:20 final size:21
Alignment explanation
Indices: 37549781--37549835 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
37549771 AACTCTAAAA
37549781 AAATAT-TTAAAAACAATACAT
1 AAATATATT-AAAACAATACAT
37549802 AAATATATTAAAA-AATACAT
1 AAATATATTAAAACAATACAT
*
37549822 AAAAATATTTAAAA
1 AAATATA-TTAAAA
37549836 TTTCAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.42
21 16 0.52
22 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATATTAAAACAATACAT
Found at i:37550780 original size:19 final size:18
Alignment explanation
Indices: 37550758--37550808 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
37550748 TAAAAAATTG
37550758 AAAATGATATAAAGAATAT
1 AAAAT-ATATAAAGAATAT
* *
37550777 AAAATTATAAAAAGATTAT
1 AAAA-TATATAAAGAATAT
37550796 AAATATATATAAA
1 AAA-ATATATAAA
37550809 TACATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATATATAAAGAATAT
Found at i:37555158 original size:3 final size:3
Alignment explanation
Indices: 37555145--37555204 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
37555135 ATTTTCTCCC
* * *
37555145 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
37555191 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
37555205 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:37555189 original size:24 final size:21
Alignment explanation
Indices: 37555145--37555207 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
37555135 ATTTTCTCCC
*
37555145 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
37555166 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
37555185 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
37555205 ATT
1 ATT
37555208 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:37555207 original size:8 final size:9
Alignment explanation
Indices: 37555145--37555208 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
37555135 ATTTTCTCCC
37555145 ATTATTTATT
1 ATTATTT-TT
37555155 ATTATTGTTAT
1 ATTATT-TT-T
37555166 ATTATTTATT
1 ATTATTT-TT
* **
37555176 ATCATCATT
1 ATTATTTTT
37555185 ATTATTTTT
1 ATTATTTTT
37555194 ATTATTTTT
1 ATTATTTTT
37555203 A-TATTT
1 ATTATTT
37555209 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:37556497 original size:26 final size:26
Alignment explanation
Indices: 37556460--37556509 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
37556450 AGCAGTTTCG
*
37556460 ACAATAAGTATTAAATTAAAAAAACA
1 ACAATAAATATTAAATTAAAAAAACA
37556486 ACAATAAATATTAAATTAAAAAAA
1 ACAATAAATATTAAATTAAAAAAA
37556510 AAGTATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (26 bp):
ACAATAAATATTAAATTAAAAAAACA
Found at i:37564273 original size:15 final size:15
Alignment explanation
Indices: 37564229--37564275 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
37564219 GTGTCAATCC
37564229 TGTACATGTTCATGT
1 TGTACATGTTCATGT
* * *
37564244 TGCACATATCCATGT
1 TGTACATGTTCATGT
*
37564259 TGTACATGTTGATGT
1 TGTACATGTTCATGT
37564274 TG
1 TG
37564276 CATATATTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (15 bp):
TGTACATGTTCATGT
Found at i:37564296 original size:30 final size:30
Alignment explanation
Indices: 37564222--37564298 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
37564212 GCAGTTAGTG
* *
37564222 TCAATCCTGTACATGTTCATGTTGCACATA
1 TCAATCTTGGACATGTTCATGTTGCACATA
* * * * *
37564252 TCCATGTTGTACATGTTGATGTTGCATATA
1 TCAATCTTGGACATGTTCATGTTGCACATA
*
37564282 TTAATCTTGGACATGTT
1 TCAATCTTGGACATGTT
37564299 ACTCTTCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (30 bp):
TCAATCTTGGACATGTTCATGTTGCACATA
Found at i:37568984 original size:15 final size:14
Alignment explanation
Indices: 37568963--37568998 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
37568953 ATAATCCTTA
*
37568963 ATAATTATCTTAAT
1 ATAATTATCCTAAT
37568977 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
37568992 ATAATTA
1 ATAATTA
37568999 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:37571853 original size:16 final size:18
Alignment explanation
Indices: 37571819--37571871 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
37571809 GTTGAATTGG
37571819 ATTTTATATTTTTTAAAT
1 ATTTTATATTTTTTAAAT
37571837 ATTTTATA-TTTTT-AAT
1 ATTTTATATTTTTTAAAT
*
37571853 AATTTAT-TTATTTTAAAT
1 ATTTTATATT-TTTTAAAT
37571871 A
1 A
37571872 AATAAACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 10 0.32
17 9 0.29
18 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTATATTTTTTAAAT
Found at i:37573270 original size:13 final size:13
Alignment explanation
Indices: 37573243--37573275 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37573233 GATGAAAACG
*
37573243 TAAAT-AAGTAAA
1 TAAATAAAGAAAA
37573255 TAAATAAAGAAAA
1 TAAATAAAGAAAA
37573268 TAAATAAA
1 TAAATAAA
37573276 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (13 bp):
TAAATAAAGAAAA
Found at i:37575420 original size:44 final size:45
Alignment explanation
Indices: 37575350--37575468 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 45
37575340 ATCCACTCTG
* ** * *
37575350 CTGCAACTTCAGGGGGACGAGATTGG-TATCTTCAACCTGCTCCC
1 CTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTGATCCA
* **
37575394 CTGCAACTTCAGGGAGATAAGGTTGGTTATCTTCAGTCTGATCCA
1 CTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTGATCCA
37575439 CTGCAACTTCAGGGAGATAAGACTT-GTTAT
1 CTGCAACTTCAGGGAGATAAGA-TTGGTTAT
37575469 GGTAGATTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.34
45 40 0.62
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTGATCCA
Found at i:37575973 original size:45 final size:44
Alignment explanation
Indices: 37575922--37576040 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
37575912 TTCAGTCTTT
* * * **
37575922 TCCACTGCAACTTTAGAGAAATAAGATTCGTTGTCTTCGGTCTAC
1 TCCACTGCAACTTTAGGGAGATAAGATTCG-TGGCTTCAATCTAC
* *
37575967 TCCACTGCAACTTTAGGGAGATAAGACTAGTGGCTTCAATCTAC
1 TCCACTGCAACTTTAGGGAGATAAGATTCGTGGCTTCAATCTAC
*
37576011 TCCACTGTAA-TTTCAGGGAGATAAGATTCG
1 TCCACTGCAACTTT-AGGGAGATAAGATTCG
37576041 CCATGATGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 34 0.54
45 26 0.41
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGAGATAAGATTCGTGGCTTCAATCTAC
Found at i:37576977 original size:14 final size:14
Alignment explanation
Indices: 37576958--37576989 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37576948 TGACCTCTTT
37576958 TTTTTATTCTTTTA
1 TTTTTATTCTTTTA
*
37576972 TTTTTATTTTTTTA
1 TTTTTATTCTTTTA
37576986 TTTT
1 TTTT
37576990 CTTTTCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTATTCTTTTA
Found at i:37577439 original size:7 final size:7
Alignment explanation
Indices: 37577427--37577478 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
37577417 GGTAGAGGTT
37577427 TTTTTTG
1 TTTTTTG
*
37577434 TTTTTTA
1 TTTTTTG
37577441 TTTTCTTG
1 TTTT-TTG
37577449 --TTTT-
1 TTTTTTG
37577453 TTTTTTG
1 TTTTTTG
37577460 -TTTTTG
1 TTTTTTG
37577466 TTTTTTG
1 TTTTTTG
37577473 TTTTTT
1 TTTTTT
37577479 CTCCACTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 2 0.05
6 12 0.32
7 22 0.58
8 2 0.05
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:37577449 original size:15 final size:14
Alignment explanation
Indices: 37577425--37577478 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
37577415 CCGGTAGAGG
37577425 TTTTTT-TTGTTTT
1 TTTTTTCTTGTTTT
37577438 TTATTTTCTTG--TT
1 TT-TTTTCTTGTTTT
37577451 TTTTTT-TTGTTTT
1 TTTTTTCTTGTTTT
*
37577464 TGTTTT-TTGTTTT
1 TTTTTTCTTGTTTT
37577477 TT
1 TT
37577479 CTCCACTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.09
12 4 0.11
13 21 0.60
14 4 0.11
15 3 0.09
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (14 bp):
TTTTTTCTTGTTTT
Done.