Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
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: 2329927
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:570552 original size:43 final size:43
Alignment explanation
Indices: 570375--570626 Score: 233
Period size: 42 Copynumber: 5.9 Consensus size: 43
570365 GTAATTAGCG
* *
570375 GCGTTTGTATCCAAAAACGCCGCTATAGAT-ATGACC-TTTGCG
1 GCGTTTGT-TCCAAAAACGCCGCTATAGATCTTGACCTTTTGCA
*** * **
570417 GCGTTTCCCCCCCAAAAAATGCCATTATAGATCTTGACCTTTTGCA
1 GCGTTT--GTTCC-AAAAACGCCGCTATAGATCTTGACCTTTTGCA
* ** * *
570463 GCGTTTATTCCAAAAACGCTACTATAGAT-ATGACCTTTTACA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCA
* *
570505 GCGTTTGTTCCAAAAATGCCGCTATAGTTCTTGACCTTTTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCA
* * * * *
570548 GCGTTTGTTCCAGAAACGCTGCTATAGAT-ATAACCTTTTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCA
** *
570590 GCGTTTGTTTAAAAAACGCCGCTATATATCTTGACCT
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCT
570627 ATGGCGGCGT
Statistics
Matches: 166, Mismatches: 37, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
42 75 0.45
43 58 0.35
44 17 0.10
45 5 0.03
46 11 0.07
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (43 bp):
GCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCA
Found at i:570638 original size:85 final size:85
Alignment explanation
Indices: 570375--570626 Score: 301
Period size: 85 Copynumber: 2.9 Consensus size: 85
570365 GTAATTAGCG
* ***
570375 GCGTTTGTATCCAAAAACGCCGCTATAGATATGACC-TTTGCGGCGTTTCCCCCCCAAAAAATGC
1 GCGTTTGT-TCCAAAAACGCTGCTATAGATATGACCTTTTGCGGCGTTT---GTTCAAAAAATGC
** *
570439 CATTATAGATCTTGACCTTTTGCA
62 CGCTATATATCTTGACCTTTTGCA
* * * * *
570463 GCGTTTATTCCAAAAACGCTACTATAGATATGACCTTTTACAGCGTTTGTTCCAAAAATGCCGCT
1 GCGTTTGTTCCAAAAACGCTGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCT
570528 ATAGT-TCTTGACCTTTTGCA
66 ATA-TATCTTGACCTTTTGCA
* * * *
570548 GCGTTTGTTCCAGAAACGCTGCTATAGATATAACCTTTTGCGGCGTTTGTTTAAAAAACGCCGCT
1 GCGTTTGTTCCAAAAACGCTGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCT
570613 ATATATCTTGACCT
66 ATATATCTTGACCT
570627 ATGGCGGCGT
Statistics
Matches: 140, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 97 0.69
87 25 0.18
88 17 0.12
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (85 bp):
GCGTTTGTTCCAAAAACGCTGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCT
ATATATCTTGACCTTTTGCA
Found at i:572430 original size:18 final size:18
Alignment explanation
Indices: 572407--572455 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
572397 GGTCTACGTA
572407 GTCCTTCGGGACACAGTG
1 GTCCTTCGGGACACAGTG
*
572425 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACACAGTG
* *
572443 ATCATTCGGGACA
1 GTCCTTCGGGACA
572456 TTTTATAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.24
Consensus pattern (18 bp):
GTCCTTCGGGACACAGTG
Found at i:578203 original size:2 final size:2
Alignment explanation
Indices: 578198--578226 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
578188 TGTGTGTGTG
578198 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
578227 CAGAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:588574 original size:16 final size:16
Alignment explanation
Indices: 588544--588574 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
588534 TGAAACTCGA
*
588544 CTCGAACTCGAAAAAG
1 CTCGAACTCAAAAAAG
588560 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
588575 AATTCAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:591139 original size:21 final size:21
Alignment explanation
Indices: 591094--591160 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
591084 GGATTTAGGG
591094 TTTATGGTTTAGGATTCAT-A
1 TTTATGGTTTAGGATTCATGA
591114 GTTTATGGTTTAGGATTCATGA
1 -TTTATGGTTTAGGATTCATGA
** * *
591136 TTTATAATTTAGGGTTTATGA
1 TTTATGGTTTAGGATTCATGA
591157 TTTA
1 TTTA
591161 AAATTTAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 40 0.98
22 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTATGGTTTAGGATTCATGA
Found at i:591153 original size:14 final size:14
Alignment explanation
Indices: 591085--591160 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
591075 CATATAATCG
591085 GATTTAGGGTTTAT
1 GATTTAGGGTTTAT
* * *
591099 GGTTTAGGATTCAT
1 GATTTAGGGTTTAT
* *
591113 -AGTTTATGGTTTAG
1 GA-TTTAGGGTTTAT
* * *
591127 GATTCATGATTTAT
1 GATTTAGGGTTTAT
*
591141 AATTTAGGGTTTAT
1 GATTTAGGGTTTAT
591155 GATTTA
1 GATTTA
591161 AAATTTAGGA
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 43 0.98
15 1 0.02
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (14 bp):
GATTTAGGGTTTAT
Found at i:591165 original size:21 final size:21
Alignment explanation
Indices: 591122--591179 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
591112 TAGTTTATGG
* *
591122 TTTAGGATTCATGATTTATAA
1 TTTAGGATTTATGATTTAAAA
*
591143 TTTAGGGTTTATGATTTAAAA
1 TTTAGGATTTATGATTTAAAA
*
591164 TTTAGGATTTAGGATT
1 TTTAGGATTTATGATT
591180 CATTACAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (21 bp):
TTTAGGATTTATGATTTAAAA
Found at i:591166 original size:28 final size:28
Alignment explanation
Indices: 591086--591176 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
591076 ATATAATCGG
* * *
591086 ATTTAGGGTTTATGGTTTAGGATTCATA
1 ATTTAGGGTTTATGATTTAAGATTTATA
* * * * *
591114 GTTTATGGTTTAGGATTCATGATTTATA
1 ATTTAGGGTTTATGATTTAAGATTTATA
* **
591142 ATTTAGGGTTTATGATTTAAAATTTAGG
1 ATTTAGGGTTTATGATTTAAGATTTATA
591170 ATTTAGG
1 ATTTAGG
591177 ATTCATTACA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.47
Consensus pattern (28 bp):
ATTTAGGGTTTATGATTTAAGATTTATA
Found at i:591302 original size:11 final size:11
Alignment explanation
Indices: 591281--591348 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
591271 TAGTTGTATT
591281 ATATAATTTTTA
1 ATAT-ATTTTTA
591293 ATATATTTTTA
1 ATATATTTTTA
591304 A-A-ATTTTATA
1 ATATATTTT-TA
***
591314 AT-TATCAATA
1 ATATATTTTTA
*
591324 ATGTATTTTTA
1 ATATATTTTTA
591335 ATATATTTTTA
1 ATATATTTTTA
591346 ATA
1 ATA
591349 ATGTAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
9 5 0.11
10 8 0.18
11 28 0.62
12 4 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:594237 original size:13 final size:12
Alignment explanation
Indices: 594219--594274 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 12
594209 ACTTTGTTAC
594219 TTAAATTTTTTAA
1 TTAAA-TTTTTAA
*
594232 TTAAATATTTAA
1 TTAAATTTTTAA
594244 TTTTAAA-TTTTAA
1 --TTAAATTTTTAA
594257 TTTAATATTTTTAA
1 -TTAA-ATTTTTAA
594271 TTAA
1 TTAA
594275 GTACATGAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 11 0.30
13 15 0.41
14 11 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTTTAA
Found at i:594730 original size:34 final size:35
Alignment explanation
Indices: 594687--594755 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
594677 GCTGAACGAG
*
594687 CTACTTGATATTCGACT-AAAAAAATCGCAAACAA
1 CTACTTGATACTCGACTCAAAAAAATCGCAAACAA
*
594721 CTACTTGATACTCGACTCAAAAAACTCGCAAACAA
1 CTACTTGATACTCGACTCAAAAAAATCGCAAACAA
594756 TTCGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.22
Consensus pattern (35 bp):
CTACTTGATACTCGACTCAAAAAAATCGCAAACAA
Found at i:603003 original size:100 final size:99
Alignment explanation
Indices: 602827--603028 Score: 316
Period size: 100 Copynumber: 2.0 Consensus size: 99
602817 AATTAAAGTA
* *
602827 AAAATATAAATTCCACGTACGTGGATTGGTGGCAACTTTCGATAGTCAATGGCAAAGACAGTCAC
1 AAAATATAAATTCCACGTACGTGGATTGGTGGAAACTTTCCATAGTCAATGGCAAAGACAGTCAC
602892 GCGCTTGAGGAAATTGTACGAAAATGCTACTTGCG
66 GCGCTTGAGGAAATTGTACGAAAATGCTACTTG-G
*
602927 AAAATATAAATTCCACGTACGTGGATTGGTGGAAAAC-TTCCATAGTCAATGGCAATGACAGTCA
1 AAAATATAAATTCCACGTACGTGGATTGGTGG-AAACTTTCCATAGTCAATGGCAAAGACAGTCA
* * * *
602991 CGCGCTTTAGGAAATTGTATGAAATTGGTACTTGG
65 CGCGCTTGAGGAAATTGTACGAAAATGCTACTTGG
603026 AAA
1 AAA
603029 TTGTTGGACT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 4 0.04
100 87 0.93
101 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (99 bp):
AAAATATAAATTCCACGTACGTGGATTGGTGGAAACTTTCCATAGTCAATGGCAAAGACAGTCAC
GCGCTTGAGGAAATTGTACGAAAATGCTACTTGG
Found at i:615100 original size:46 final size:48
Alignment explanation
Indices: 615048--615143 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
615038 ATTATTTACT
615048 TTAAATTAAT-AAAAAA-TTATTTATCTAATGACAAATATTTAATATA
1 TTAAATTAATAAAAAAATTTATTTATCTAATGACAAATATTTAATATA
615094 TTAAATTAATAAAAAAATTTATTTATCTAATGACAAATATTTAATATA
1 TTAAATTAATAAAAAAATTTATTTATCTAATGACAAATATTTAATATA
615142 TT
1 TT
615144 TCTAATGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 10 0.21
47 6 0.12
48 32 0.67
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (48 bp):
TTAAATTAATAAAAAAATTTATTTATCTAATGACAAATATTTAATATA
Found at i:615103 original size:27 final size:27
Alignment explanation
Indices: 615065--615159 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
615055 AATAAAAAAT
*
615065 TATTTATCTAATGACAAATATTTAATA
1 TATTAATCTAATGACAAATATTTAATA
*
615092 TATTAAAT-TAAT-A-AAA-A---AATT
1 TATT-AATCTAATGACAAATATTTAATA
*
615113 TATTTATCTAATGACAAATATTTAATA
1 TATTAATCTAATGACAAATATTTAATA
*
615140 TATT--TCTAATGA-TAATATTT
1 TATTAATCTAATGACAAATATTT
615160 CTAATAACTA
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
20 2 0.04
21 11 0.20
22 1 0.02
23 3 0.05
24 9 0.16
25 11 0.20
26 1 0.02
27 15 0.27
28 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (27 bp):
TATTAATCTAATGACAAATATTTAATA
Found at i:615148 original size:25 final size:25
Alignment explanation
Indices: 615071--615159 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
615061 AAATTATTTA
615071 TCTAATGACAAATATTTAATATATT
1 TCTAATGACAAATATTTAATATATT
* * *
615096 AAAT-TAAT-AAAAAAATTT-AT-T-TA
1 ---TCTAATGACAAATATTTAATATATT
615119 TCTAATGACAAATATTTAATATATT
1 TCTAATGACAAATATTTAATATATT
*
615144 TCTAATGA-TAATATTT
1 TCTAATGACAAATATTT
615160 CTAATAACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 1 0.02
21 4 0.08
22 8 0.16
23 3 0.06
24 9 0.18
25 11 0.22
26 8 0.16
27 4 0.08
28 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (25 bp):
TCTAATGACAAATATTTAATATATT
Found at i:615304 original size:7 final size:7
Alignment explanation
Indices: 615290--615337 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
615280 TATGTGATAA
615290 GGTTTAG
1 GGTTTAG
*
615297 GATTTAG
1 GGTTTAG
615304 GGTTTAG
1 GGTTTAG
615311 GGTTTA-
1 GGTTTAG
*
615317 TGTGTTAG
1 GGT-TTAG
*
615325 GTTTTAG
1 GGTTTAG
615332 GGTTTA
1 GGTTTA
615338 TATGTTAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 2 0.06
7 30 0.91
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:615316 original size:21 final size:21
Alignment explanation
Indices: 615290--615359 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
615280 TATGTGATAA
615290 GGTTTAGGAT-TTAGGGTTTAG
1 GGTTTAGG-TGTTAGGGTTTAG
* *
615311 GGTTTATGTGTTAGGTTTTAG
1 GGTTTAGGTGTTAGGGTTTAG
**
615332 GGTTTATATGTTA-GG-TTAG
1 GGTTTAGGTGTTAGGGTTTAG
*
615351 AGTTTAGGT
1 GGTTTAGGT
615360 TTAAGTTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 29 0.71
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (21 bp):
GGTTTAGGTGTTAGGGTTTAG
Found at i:616776 original size:23 final size:23
Alignment explanation
Indices: 616750--616805 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
616740 AACTATTTTC
616750 AATTGAGCTTGAATCGAGCTCAA
1 AATTGAGCTTGAATCGAGCTCAA
*
616773 AATTGAGCTTGAATCGAGCTCGA
1 AATTGAGCTTGAATCGAGCTCAA
616796 AATTGAGCTT
1 AATTGAGCTT
616806 AGTTTCGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (23 bp):
AATTGAGCTTGAATCGAGCTCAA
Found at i:616826 original size:23 final size:23
Alignment explanation
Indices: 616800--617035 Score: 411
Period size: 23 Copynumber: 10.3 Consensus size: 23
616790 GCTCGAAATT
616800 GAGCTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
616823 GAGCTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
*
616846 GAGTTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
616869 GAGCTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
*
616892 GAGCTTAGTTTCGAGCTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
*
616915 GAGCTTAGTTTCGAGCTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
*
616938 GAGCTTAGTTTTGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
616961 GAGCTTAGTTAT-GAGTTTTAATC
1 GAGCTTAGTT-TCGAGTTTTAATC
616984 GAGCTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
617007 GAGCTTAGTTTCGAGTTTTAATC
1 GAGCTTAGTTTCGAGTTTTAATC
*
617030 AAGCTT
1 GAGCTT
617036 TTAATTTTTT
Statistics
Matches: 205, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
22 1 0.00
23 203 0.99
24 1 0.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (23 bp):
GAGCTTAGTTTCGAGTTTTAATC
Found at i:618479 original size:207 final size:209
Alignment explanation
Indices: 618124--618539 Score: 809
Period size: 207 Copynumber: 2.0 Consensus size: 209
618114 TGGTCGTCGG
618124 GTCATGGGACAACCCCTCCTAGCATGGTCCAGAAATATTCCATCAGACAAGCTAATGAACTCCAT
1 GTCATGGGACAACCCCTCCTAGCATGGTCCAGAAATATTCCATCAGACAAGCTAATGAACTCCAT
618189 GGCATACCTTTGGCTTAAGGCATCAGCAACGAAATTCACTTTCCCCCGCTTGTACTCTAAGGAAA
66 GGCATACCTTTGGCTTAAGGCATCAGCAACGAAATTCACTTTCCCCCGCTTGTACTCTAAGGAAA
618254 AATCAAACTCTGTAAGAAATTCCTGCTAACGAGCCTGCTT-GGAGACAC-TTTTTCTGTGTTAGA
131 AATCAAACTCTGTAAGAAATTCCTGCTAACGAGCCTGCTTGGGAGACACTTTTTTCTGTGTTAGA
618317 AAATAACTATTGGC
196 AAATAACTATTGGC
*
618331 GTCATGGGACAACCCTTCCTAGCATGGTCCAGAAATATTCCATCAGACAAGCTAATGAACTCCAT
1 GTCATGGGACAACCCCTCCTAGCATGGTCCAGAAATATTCCATCAGACAAGCTAATGAACTCCAT
618396 GGCATACCTTTGGCTTAAGGCATCAGCAACGAAATTCACTTTCCCCCGCTTGTACTCTAAGGAAA
66 GGCATACCTTTGGCTTAAGGCATCAGCAACGAAATTCACTTTCCCCCGCTTGTACTCTAAGGAAA
618461 AATCAAACTCTGTAAGAAATTCCTGCTAACGAGCCTGCTTGGGAGACACTTTTTTCTGTGTTAGA
131 AATCAAACTCTGTAAGAAATTCCTGCTAACGAGCCTGCTTGGGAGACACTTTTTTCTGTGTTAGA
618526 AAATAACTATTGGC
196 AAATAACTATTGGC
618540 AGTATTATCA
Statistics
Matches: 206, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
207 169 0.82
208 8 0.04
209 29 0.14
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (209 bp):
GTCATGGGACAACCCCTCCTAGCATGGTCCAGAAATATTCCATCAGACAAGCTAATGAACTCCAT
GGCATACCTTTGGCTTAAGGCATCAGCAACGAAATTCACTTTCCCCCGCTTGTACTCTAAGGAAA
AATCAAACTCTGTAAGAAATTCCTGCTAACGAGCCTGCTTGGGAGACACTTTTTTCTGTGTTAGA
AAATAACTATTGGC
Found at i:620029 original size:31 final size:31
Alignment explanation
Indices: 619984--620082 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
619974 TCTCATATAA
* *
619984 TAATATATACATATGTCCCGAAGAACATAGG
1 TAATCTATCCATATGTCCCGAAGAACATAGG
* *
620015 TAATTTATCTATATGTCCCGAAGAACATAGG
1 TAATCTATCCATATGTCCCGAAGAACATAGG
* *
620046 TAAACTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTATCCATATGTCCCGAAGAACATAGG
620077 TAATCT
1 TAATCT
620083 GTAACATATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (31 bp):
TAATCTATCCATATGTCCCGAAGAACATAGG
Found at i:620415 original size:93 final size:93
Alignment explanation
Indices: 620251--620429 Score: 277
Period size: 93 Copynumber: 1.9 Consensus size: 93
620241 TATAATAATA
* * ** *
620251 TGTCCATATGTCCCGAAGAACATAAGTAATTTATCCATATGTTCCGAAGAACATAGGTAAACTGT
1 TGTCAATATGTCCCAAAGAACATAAGTAAACTATCCATATGTCCCGAAGAACATAGGTAAACTGT
620316 CCATATGTCCCGAAGAACATATGCAAAC
66 CCATATGTCCCGAAGAACATATGCAAAC
* * * *
620344 TGTCAATATGTCCCAAAGAACATAGGTAAACTATCTATTTGTCCCGAAGAACATAGGTAACCTGT
1 TGTCAATATGTCCCAAAGAACATAAGTAAACTATCCATATGTCCCGAAGAACATAGGTAAACTGT
620409 CCATATGTCCCGAAGAACATA
66 CCATATGTCCCGAAGAACATA
620430 GGTAACCCTC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (93 bp):
TGTCAATATGTCCCAAAGAACATAAGTAAACTATCCATATGTCCCGAAGAACATAGGTAAACTGT
CCATATGTCCCGAAGAACATATGCAAAC
Found at i:620436 original size:31 final size:31
Alignment explanation
Indices: 620251--620434 Score: 251
Period size: 31 Copynumber: 5.9 Consensus size: 31
620241 TATAATAATA
* **
620251 TGTCCATATGTCCCGAAGAACATAAGTAATT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
620282 TATCCATATGTTCCGAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
620313 TGTCCATATGTCCCGAAGAACATATGCAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* *
620344 TGTCAATATGTCCCAAAGAACATAGGTAAAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
* * * *
620375 TATCTATTTGTCCCGAAGAACATAGGTAACC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAC
620406 TGTCCATATGTCCCGAAGAACATAGGTAA
1 TGTCCATATGTCCCGAAGAACATAGGTAA
620435 CCCTCGACTC
Statistics
Matches: 132, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAC
Found at i:621605 original size:2 final size:2
Alignment explanation
Indices: 621598--621641 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
621588 GTCCGTGACA
621598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
621637 AT AT A
1 AT AT A
621642 CATTTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:624139 original size:35 final size:35
Alignment explanation
Indices: 624100--624207 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
624090 CAACTTTGAA
*
624100 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAGATGTTTCTTTG
624135 AAAATGGTTTTCAAA-TTTGGTAGATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAGATGTTTCTTTG
*
624169 AAAAATAGTTTTCAAAG-TTGGTAGATG-TT-TTTG
1 -AAAATGGTTTTCAAAGTTTGGTAGATGTTTCTTTG
624202 AAAATG
1 AAAATG
624208 ATAATGGATA
Statistics
Matches: 68, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
32 5 0.07
33 4 0.06
34 20 0.29
35 39 0.57
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAGATGTTTCTTTG
Found at i:624525 original size:16 final size:16
Alignment explanation
Indices: 624499--624537 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
624489 TCGGGTCACT
624499 ATTTACGTGAATAGTGA
1 ATTT-CGTGAATAGTGA
624516 ATTTCGTGAATAGTGA
1 ATTTCGTGAATAGTGA
*
624532 AATTCG
1 ATTTCG
624538 GTCGGCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (16 bp):
ATTTCGTGAATAGTGA
Found at i:624535 original size:17 final size:17
Alignment explanation
Indices: 624499--624532 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
624489 TCGGGTCACT
624499 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
624516 ATTT-CGTGAATAGTGA
1 ATTTACGTGAATAGTGA
624532 A
1 A
624533 ATTCGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:628649 original size:37 final size:37
Alignment explanation
Indices: 628550--628668 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
628540 TGGTAACCAA
*
628550 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAGATGTTT
628587 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAGATGTTT
*
628622 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAGATGTTT
*
628659 -GTTGAAAAAT
1 CTTTGAAAAAT
628669 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 29 0.38
36 18 0.24
37 29 0.38
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAGATGTTT
Found at i:637263 original size:18 final size:19
Alignment explanation
Indices: 637240--637275 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
637230 CCCGGGAATT
637240 TTTAAAA-AAAAAACTTTG
1 TTTAAAACAAAAAACTTTG
*
637258 TTTAAAACAAAATACTTT
1 TTTAAAACAAAAAACTTT
637276 AATTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTAAAACAAAAAACTTTG
Found at i:637612 original size:22 final size:20
Alignment explanation
Indices: 637573--637613 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
637563 TTTCAATATG
*
637573 CATATATATATATTTCATGA
1 CATATATATATATGTCATGA
637593 CATATATATAATCATGTCATG
1 CATATATAT-AT-ATGTCATG
637614 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (20 bp):
CATATATATATATGTCATGA
Found at i:638135 original size:14 final size:15
Alignment explanation
Indices: 638108--638136 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
638098 ATATCATATA
638108 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
638123 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
638137 ATATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:638516 original size:20 final size:21
Alignment explanation
Indices: 638479--638518 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
638469 TTTTTCATTT
638479 AGGGGGAATCGATAACCCCCC
1 AGGGGGAATCGATAACCCCCC
638500 AGGGGGAATCGAT-ACCCCC
1 AGGGGGAATCGATAACCCCC
638519 TGGACATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.28, C:0.33, G:0.30, T:0.10
Consensus pattern (21 bp):
AGGGGGAATCGATAACCCCCC
Found at i:643272 original size:22 final size:22
Alignment explanation
Indices: 643232--643273 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
643222 ATATATATAT
*
643232 ATATATATATATATTTCATGAC
1 ATATATATATATATGTCATGAC
643254 ATATATATA-ATCATGTCATG
1 ATATATATATAT-ATGTCATG
643274 CACACATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATATATATATATGTCATGAC
Found at i:644177 original size:21 final size:21
Alignment explanation
Indices: 644151--644190 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
644141 TTTTTCATTT
644151 AGGGGGAATCGATACCCCCCC
1 AGGGGGAATCGATACCCCCCC
644172 AGGGGGAATCGATACCCCC
1 AGGGGGAATCGATACCCCC
644191 TGGCCATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.35, G:0.30, T:0.10
Consensus pattern (21 bp):
AGGGGGAATCGATACCCCCCC
Found at i:648038 original size:19 final size:19
Alignment explanation
Indices: 647978--648038 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
647968 TTGGTACAGA
* *
647978 GGGAATCGATACCCTCATG
1 GGGAATCGATACCCCCCTG
* *
647997 AGGGAACCGAT-TCCCCCTAG
1 -GGGAATCGATACCCCCCT-G
648017 GGGAATCGATACCCCCCTG
1 GGGAATCGATACCCCCCTG
648036 GGG
1 GGG
648039 TTCTGGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.16
Consensus pattern (19 bp):
GGGAATCGATACCCCCCTG
Found at i:650013 original size:18 final size:18
Alignment explanation
Indices: 649990--650027 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
649980 GTTTCAACAT
649990 TTTGAATATTT-TGGAATG
1 TTTGAAT-TTTGTGGAATG
*
650008 TTTGAATTTTGTGGATTG
1 TTTGAATTTTGTGGAATG
650026 TT
1 TT
650028 AAACTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (18 bp):
TTTGAATTTTGTGGAATG
Found at i:656986 original size:52 final size:51
Alignment explanation
Indices: 656870--657047 Score: 268
Period size: 51 Copynumber: 3.5 Consensus size: 51
656860 TGATAAGTCT
* * *
656870 GCTCCCTATTTCTGT-AGAGAGTATAAGACTTGATCTTCAACAAACGTGTCC
1 GCTCCCTATTCCT-TCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
* * *
656921 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAATAAAATGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAT-AAACGTGTCC
656973 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
*
657024 GCTCCCTATTGCTTCAGAGAGTAT
1 GCTCCCTATTCCTTCAGAGAGTAT
657048 GGAACTCAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.01
51 66 0.57
52 48 0.42
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCC
Found at i:657084 original size:54 final size:54
Alignment explanation
Indices: 657042--657446 Score: 684
Period size: 54 Copynumber: 7.5 Consensus size: 54
657032 TTGCTTCAGA
* *
657042 GAGTATGGAACTCAAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTATCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * *
657096 GAGTATGGAACTTGAACATCTTCTTCTTACGGATTTGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
*
657150 GAGTATGGAACTCGAGCATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * ** *
657204 GAGTATGAAACTCGAATATCTTCTTCTTACATGTTTGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* *
657258 GAGTATGGAATTCGAATATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
657312 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
657366 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
*
657420 GAGTATGGAACTCGAACATATTCTTCT
1 GAGTATGGAACTCGAACATCTTCTTCT
657447 GCTTTACTAC
Statistics
Matches: 328, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 328 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (54 bp):
GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:657898 original size:36 final size:37
Alignment explanation
Indices: 657823--657946 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
657813 TTGCTCCAAC
* * * *
657823 ACTCTTCCGAGAAGGCTTAAAAAGGATATGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
*
657860 ACTCTTCGGTGAAGGCTTAAGATGG-TTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
* * * *
657896 ACTCTTTGGTGAATGATCAAAATGGATTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
*
657933 ACTCTTTGGTGAAG
1 ACTCTTCGGTGAAG
657947 ACTTGGCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
36 30 0.40
37 45 0.60
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (37 bp):
ACTCTTCGGTGAAGGCTTAAAATGGATTTGCTTCACT
Found at i:662630 original size:72 final size:72
Alignment explanation
Indices: 662513--662651 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 72
662503 CCCCTAACAG
* * *
662513 GTTCTTGATCAGTTGTTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACTCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
662578 TTCATCT
66 TTCATCT
*
662585 GTTCTTGATCATTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
662650 TT
66 TT
662652 TATATTTTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (72 bp):
GTTCTTGATCAGTTGCTATCATCACATTGACTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATCT
Found at i:663766 original size:44 final size:45
Alignment explanation
Indices: 663713--663832 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 45
663703 AAAAAAATTT
* * * *
663713 CTAACCGCATGATATCTAATTTGCATGC-T-TCGAGAAAAATAAAC
1 CTAACCGCATGATTTCTAATTCGCATACATCTC-AAAAAAATAAAC
* *
663757 CTAGCCGCATGATTTCTAGTTCGCATACATGCTCAAAAAAATAAAC
1 CTAACCGCATGATTTCTAATTCGCATACAT-CTCAAAAAAATAAAC
* *
663803 CTAACCGCATGATTTCTAGTTCACATACAT
1 CTAACCGCATGATTTCTAATTCGCATACAT
663833 TTATTCAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
44 23 0.35
45 1 0.02
46 39 0.60
47 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (45 bp):
CTAACCGCATGATTTCTAATTCGCATACATCTCAAAAAAATAAAC
Found at i:676913 original size:89 final size:89
Alignment explanation
Indices: 676793--677021 Score: 386
Period size: 89 Copynumber: 2.6 Consensus size: 89
676783 ATCCGGGAGT
* * * *
676793 CTTTTCTCTCACATCACTACAAATAATTCAAAATGAACTTCCAAGGTACAACTTAAATCACCTTT
1 CTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGGTACAACTTAAATCACCTTT
676858 GACAATCACCACTATCCAGTAACC
66 GACAATCACCACTATCCAGTAACC
* *
676882 CTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGGTACAAGTTAAATCACTTTT
1 CTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGGTACAACTTAAATCACCTTT
676947 GACAATCACCACTATCCAGTAACC
66 GACAATCACCACTATCCAGTAACC
* *
676971 TTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGTTACAA
1 CTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGGTACAA
677022 TCATAGCAAG
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 132 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (89 bp):
CTTTTCTCTCACCTTAATACAAATCATTCAAAATGAACTTCCAAGGTACAACTTAAATCACCTTT
GACAATCACCACTATCCAGTAACC
Found at i:680366 original size:34 final size:34
Alignment explanation
Indices: 680319--680419 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
680309 GAATTTAATG
* * *
680319 TTAAATTTGGAATACTATCATTTATATTTTAAAT
1 TTAAATTTCGAATACTATAATTTGTATTTTAAAT
* * * *
680353 TTATATTTCGAATAATATTATTTGTATTTTAATT
1 TTAAATTTCGAATACTATAATTTGTATTTTAAAT
680387 TTAAATTTCGAATACTATAATTTGTATTTTAAA
1 TTAAATTTCGAATACTATAATTTGTATTTTAAA
680420 AACATTTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (34 bp):
TTAAATTTCGAATACTATAATTTGTATTTTAAAT
Found at i:680991 original size:21 final size:21
Alignment explanation
Indices: 680940--680991 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
680930 TATGGTATAA
680940 AACCCTGCGGGCTAGACATGT
1 AACCCTGCGGGCTAGACATGT
680961 AA-CCTGGCGGGCTAGGA-ATGT
1 AACCCT-GCGGGCTA-GACATGT
680982 AACCCTGCGG
1 AACCCTGCGG
680992 AGATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.11
21 20 0.71
22 5 0.18
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGACATGT
Found at i:682780 original size:28 final size:27
Alignment explanation
Indices: 682756--682826 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 27
682746 AATAATTAGC
682756 ATAAAAAATAATTAATTAATCAATTTAA
1 ATAAAAAATAATTAATTAAT-AATTTAA
* * *
682784 ATAAATAATAATTATATAAATATTATTTTA
1 ATAAAAAATAATTA-ATTAATA--ATTTAA
682814 ATAAAAAAATAAT
1 AT-AAAAAATAAT
682827 ATTTATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 14 0.40
29 5 0.14
30 7 0.20
31 9 0.26
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
ATAAAAAATAATTAATTAATAATTTAA
Found at i:682840 original size:31 final size:33
Alignment explanation
Indices: 682781--682859 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
682771 TTAATCAATT
* *
682781 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAAT-ATTATATAAATATTATATTAA
*
682815 TAAAAAAATAATATT-TATATA-ATTATATTAA
1 TAAAAAAATAATATTATATAAATATTATATTAA
*
682846 TATAAAATATAATA
1 TA-AAAAAATAATA
682860 ACTATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 11 0.28
32 15 0.38
33 3 0.08
34 11 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAAAAAATAATATTATATAAATATTATATTAA
Found at i:683136 original size:59 final size:60
Alignment explanation
Indices: 683063--683207 Score: 170
Period size: 59 Copynumber: 2.4 Consensus size: 60
683053 TTAATGAAAG
* * * *
683063 GCGCGTCCCCGGGGATGCGTCTTTCATACTTGGCAACTGAA-TCAGC-AAATA-AAGGTAAA
1 GCGCGTCCCCGGGGATGCGCCTTTCACACGTGGCAAC-CAACTCAGCGAAA-ACAAGGTAAA
* * * *
683122 GCGCGTCCCTGGGGATGAGCCTTTCACACGTGGCATCCAACTCAGCGTAAAACCAGGTAAA
1 GCGCGTCCCCGGGGATGCGCCTTTCACACGTGGCAACCAACTCAGCG-AAAACAAGGTAAA
683183 GCGCGTCCCCGGGGATGCGCCTTTC
1 GCGCGTCCCCGGGGATGCGCCTTTC
683208 GCCACCTCAG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.03
59 36 0.50
60 1 0.01
61 33 0.46
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (60 bp):
GCGCGTCCCCGGGGATGCGCCTTTCACACGTGGCAACCAACTCAGCGAAAACAAGGTAAA
Found at i:686788 original size:2 final size:2
Alignment explanation
Indices: 686783--687108 Score: 67
Period size: 2 Copynumber: 170.0 Consensus size: 2
686773 AATTGAAAAA
* * *
686783 AT AT AT AT A- AT AT AT AT AT AT A- AG AT A- AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * *
686823 ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A- AG CT
1 A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
686862 AT AT AT AT AT AT AT AT -T AT GT TT AT GT GA- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * * * * * *
686902 AA ACT AT AT AT GT AT AA ACT AT AA AA AGT AT AT AGT TT AT A- AA
1 AT A-T AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT AT AT
* * * *
686945 AT AT -T AT TT AT AT -T A- AT AT AG A- AT AT AT AT AT GT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
686983 AT AT AA ACT AT AC AT GT AT AA AT -T AT AT A- AA AT AT AT AGT TT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
687025 AT AT AT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
687064 GT AT A- ACT A- AT AT A- AGT A- AT AT AT AG A- AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
687103 AT AT AT
1 AT AT AT
687109 TAAAGAAACA
Statistics
Matches: 231, Mismatches: 53, Indels: 80
0.63 0.15 0.22
Matches are distributed among these distances:
1 27 0.12
2 192 0.83
3 12 0.05
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:686848 original size:20 final size:20
Alignment explanation
Indices: 686814--686873 Score: 76
Period size: 18 Copynumber: 3.2 Consensus size: 20
686804 AAGATAAGTT
686814 TATA-TATAAACTATAT-T-
1 TATATTATAAACTATATATA
686831 TATATTATAAACTATATA-A
1 TATATTATAAACTATATATA
*
686850 T-TATTATAAGCTATATATA
1 TATATTATAAACTATATATA
686869 TATAT
1 TATAT
686874 ATATTATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 4 0.11
18 27 0.73
19 3 0.08
20 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
TATATTATAAACTATATATA
Found at i:686990 original size:85 final size:83
Alignment explanation
Indices: 686897--687068 Score: 265
Period size: 85 Copynumber: 2.0 Consensus size: 83
686887 GTGAATTATA
* *
686897 TATATAAACTATATATGTATAAACTATA-AAAAGTATATAGTTTATAAAATATTATTTATATTAA
1 TATATAAACTATACATGTATAAACTATATAAAA-TATATAGTTTATAAAATATAATTTATATTAA
686961 TATAGAATATATATATGTATG
65 TATAG--TATATATATGTATG
* * *
686982 TATATAAACTATACATGTATAAATTATATAAAATATATAGTTTATATATTATAATTTATATTAAT
1 TATATAAACTATACATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
687047 ATAGTATATATATGTATG
66 ATAGTATATATATGTATG
687065 TATA
1 TATA
687069 ACTAATATAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
83 18 0.22
85 59 0.73
86 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.44
Consensus pattern (83 bp):
TATATAAACTATACATGTATAAACTATATAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAGTATATATATGTATG
Found at i:687387 original size:35 final size:36
Alignment explanation
Indices: 687317--687390 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
687307 ACAATAGTTA
* *
687317 ATATATGTAACTTATAGTATATGTATACATGTAAACT
1 ATATATGTAACTTATAGTACATGTATA-ATATAAACT
* *
687354 ATATATGTACCTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACTTATAGTACATGTATAATATAAACT
687389 AT
1 AT
687391 GTATAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACTTATAGTACATGTATAATATAAACT
Found at i:687622 original size:20 final size:19
Alignment explanation
Indices: 687597--687687 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 19
687587 TACATTTATG
*
687597 TATAAATTATGTATAGTATA
1 TATAAACTATGTATA-TATA
687617 TATAAACTATG--TATATA
1 TATAAACTATGTATATATA
*
687634 TATAACCTATAGTATATGTATA
1 TATAAACTAT-GTATA--TATA
* *
687656 TATACAATCTATTTATATGTTA
1 TATA-AA-CTATGTATAT-ATA
687678 TATAAACTAT
1 TATAAACTAT
687688 ATATGTAACC
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
17 13 0.22
18 3 0.05
20 16 0.28
21 3 0.05
22 14 0.24
23 5 0.09
24 4 0.07
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (19 bp):
TATAAACTATGTATATATA
Found at i:687632 original size:15 final size:18
Alignment explanation
Indices: 687608--687655 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
687598 ATAAATTATG
687608 TATAGTATATATA-AA-C
1 TATAGTATATATATAACC
687624 TAT-GTATATATATAACC
1 TATAGTATATATATAACC
*
687641 TATAGTATATGTATA
1 TATAGTATATATATA
687656 TATACAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 4 0.14
18 10 0.36
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (18 bp):
TATAGTATATATATAACC
Found at i:687635 original size:17 final size:18
Alignment explanation
Indices: 687613--687655 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
687603 TTATGTATAG
687613 TATATATAAACTAT-GTA
1 TATATATAAACTATAGTA
*
687630 TATATATAACCTATAGTA
1 TATATATAAACTATAGTA
*
687648 TATGTATA
1 TATATATA
687656 TATACAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
TATATATAAACTATAGTA
Found at i:687667 original size:24 final size:22
Alignment explanation
Indices: 687624--687688 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
687614 ATATATAAAC
687624 TATGTATATATATAACCTATAGTA
1 TATGTATATATA-AA-CTATAGTA
*
687648 TATGTATATATACAATCTAT-TTA
1 TATGTATATATA-AA-CTATAGTA
687671 TATGT-TATATAAACTATA
1 TATGTATATATAAACTATA
687689 TATGTAACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.11
21 2 0.05
22 6 0.16
23 7 0.19
24 18 0.49
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (22 bp):
TATGTATATATAAACTATAGTA
Found at i:687682 original size:61 final size:59
Alignment explanation
Indices: 687569--687687 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 59
687559 ACATGTAAAC
* * * *
687569 TATATATGTAACTTATAGTACATTTATGTATAAATTATGTATAGTATATATAAACTATG
1 TATATATATAACCTATAGTACATGTATATATAAATTATGTATAGTATATATAAACTATG
* *
687628 TATATATATAACCTATAGTATATGTATATATACAATCTATTTATATGT-TATATAAACTAT
1 TATATATATAACCTATAGTACATGTATATATA-AAT-TATGTATA-GTATATATAAACTAT
687688 ATATGTAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
59 27 0.53
60 3 0.06
61 19 0.37
62 2 0.04
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (59 bp):
TATATATATAACCTATAGTACATGTATATATAAATTATGTATAGTATATATAAACTATG
Found at i:687786 original size:21 final size:21
Alignment explanation
Indices: 687734--687808 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
687724 TAGTGTACTA
* *
687734 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* *
687755 TATAATATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
* *
687776 TATAGTTTAT-ATTAATATAC
1 TATAGTTTATAATTTATAAAC
687796 TATATAGTTTATA
1 --TATAGTTTATA
687809 TTAATGTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 8 0.19
21 25 0.58
22 10 0.23
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:687847 original size:15 final size:15
Alignment explanation
Indices: 687797--688060 Score: 71
Period size: 15 Copynumber: 16.5 Consensus size: 15
687787 TTAATATACT
*
687797 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
687812 ATGTTAA-TTATCTTA
1 AT-ATAATTTATATTA
*
687827 ACTATAATTTATGTTA
1 A-TATAATTTATATTA
* *
687843 ATATAGTTTATAGTTT
1 ATATAATTTATA-TTA
*
687859 ATA-AACTACACTATATTA
1 ATATAA-T---TTATATTA
687877 ATATTAA-TTATATTA
1 ATA-TAATTTATATTA
*
687892 ACTATAGTTTATAAACTATA
1 A-TATAATTTAT--A-T-TA
687912 CTATATAATTTATA--A
1 --ATATAATTTATATTA
*
687927 CATATATTTTATATTA
1 -ATATAATTTATATTA
*
687943 ATATTAACTTTATA-GA
1 ATA-TAA-TTTATATTA
* *
687959 CTATATTTTATATTA
1 ATATAATTTATATTA
* *
687974 ATATTAATTACAAATT-
1 ATA-TAATT-TATATTA
*
687990 ATAAAATATATTATATTA
1 AT-ATA-AT-TTATATTA
688008 ATATAATTTAATATTA
1 ATATAATTT-ATATTA
*
688024 ATATTAA-TTATACTA
1 ATA-TAATTTATATTA
*
688039 ATATTAA-TTATAAT-
1 ATA-TAATTTATATTA
688053 ATATAATT
1 ATATAATT
688061 ATAAATAGTT
Statistics
Matches: 186, Mismatches: 31, Indels: 65
0.66 0.11 0.23
Matches are distributed among these distances:
13 3 0.02
14 21 0.11
15 62 0.33
16 49 0.26
17 22 0.12
18 9 0.05
19 6 0.03
20 4 0.02
21 9 0.05
22 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:687964 original size:31 final size:31
Alignment explanation
Indices: 687920--687980 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
687910 TACTATATAA
687920 TTTATAACATATATTTTATATTAATATTAAC
1 TTTATAACATATATTTTATATTAATATTAAC
687951 TTTATAGAC-TATATTTTATATTAATATTAA
1 TTTATA-ACATATATTTTATATTAATATTAA
687981 TTACAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (31 bp):
TTTATAACATATATTTTATATTAATATTAAC
Found at i:687992 original size:131 final size:133
Alignment explanation
Indices: 687762--688032 Score: 288
Period size: 131 Copynumber: 2.1 Consensus size: 133
687752 ACCTATAATA
* * * *
687762 TATAATTTATAAACTATAGTTTATATTAATATACTATATAGTTTATATTAATGTTAATTATCTTA
1 TATAATTTATAAACTATACTATATATTAATATACTATATAGTTTATATTAATATTAATTATCATA
* * * ** *
687827 ACTATAATTTATGTTAATATAGTTTATAGTTTATAAACTACACTATATTAATATTAA-TT-ATAT
66 ACTATAATTTATATTAATATAGATTACAAATTATAAAATACACTATATTAATA-TAATTTAATAT
687890 TAAC
130 TAAC
* * *
687894 TATAGTTTATAAACTATACTATATAATTTATA-AC-ATATATTTTATATTAATATTAACTT-T-A
1 TATAATTTATAAACTATACTATAT-ATTAATATACTATATAGTTTATATTAATATTAA-TTATCA
* * *
687955 TAGACTATATTTTATATTAATATTA-ATTACAAATTATAAAATATATTATATTAATATAATTTAA
64 TA-ACTATAATTTATATTAATA-TAGATTACAAATTATAAAATACACTATATTAATATAATTTAA
688019 TATTAA-
127 TATTAAC
688025 TATTAATT
1 TA-TAATT
688033 ATACTAATAT
Statistics
Matches: 115, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
130 5 0.04
131 66 0.57
132 38 0.33
133 6 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (133 bp):
TATAATTTATAAACTATACTATATATTAATATACTATATAGTTTATATTAATATTAATTATCATA
ACTATAATTTATATTAATATAGATTACAAATTATAAAATACACTATATTAATATAATTTAATATT
AAC
Found at i:688009 original size:34 final size:32
Alignment explanation
Indices: 687961--688048 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
687951 TTTATAGACT
*
687961 ATATTTTATATTAATATTAATTACAAATTATAAA
1 ATATATTATATTAATATTAATTA-AAATTA-AAA
* *
687995 ATATATTATATTAATA-TAATTTAATATTAATA
1 ATATATTATATTAATATTAA-TTAAAATTAAAA
* *
688027 TTA-ATTATACTAATATTAATTA
1 ATATATTATATTAATATTAATTA
688049 TAATATATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
31 14 0.30
32 7 0.15
33 8 0.17
34 18 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATATTATATTAATATTAATTAAAATTAAAA
Found at i:688012 original size:13 final size:14
Alignment explanation
Indices: 687994--688063 Score: 72
Period size: 15 Copynumber: 4.9 Consensus size: 14
687984 CAAATTATAA
687994 AATAT-ATTATATT
1 AATATAATTATATT
688007 AATATAATTTAATATT
1 AATATAA-TT-ATATT
*
688023 AATATTAATTATACT
1 AATA-TAATTATATT
*
688038 AATATTAATTATAAT
1 AATA-TAATTATATT
688053 -ATATAATTATA
1 AATATAATTATA
688064 AATAGTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
13 13 0.25
14 4 0.08
15 20 0.39
16 11 0.22
17 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATAATTATATT
Found at i:688024 original size:6 final size:6
Alignment explanation
Indices: 687997--688059 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
687987 ATTATAAAAT
687997 ATATT- ATATTA ATA-TA AT-TTA ATATTA ATATTA ATTATACTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A-TAT--TA ATATTA
688045 AT-TATA ATATATA AT
1 ATAT-TA ATAT-TA AT
688060 TATAAATAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
5 14 0.28
6 21 0.42
7 9 0.18
8 3 0.06
9 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:688052 original size:21 final size:22
Alignment explanation
Indices: 687997--688057 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
687987 ATTATAAAAT
*
687997 ATATT-ATATTAATATA-ATTTA
1 ATATTAATATTAATATATA-CTA
688018 ATATTAATATTAAT-TATACTA
1 ATATTAATATTAATATATACTA
688039 ATATTAAT-TATAATATATA
1 ATATTAATAT-TAATATATA
688058 ATTATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.60
22 13 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTAATATTAATATATACTA
Found at i:688058 original size:65 final size:67
Alignment explanation
Indices: 687870--688089 Score: 158
Period size: 65 Copynumber: 3.3 Consensus size: 67
687860 TAAACTACAC
* * *
687870 TATATTAATATTAA-TTATATTA-ACTATAGTTTATA--AACTA-TACTATATAATTTATAACAT
1 TATATTAATATTAACTT-TA-TAGACTATATTTTATACTAA-TATTAAT-TATAATATATAACAT
*
687930 ATATTT
62 ATATAT
* *
687936 TATATTAATATTAACTTTATAGACTATATTTTATATTAATATTAATTACAA-ATTATAA-A-ATA
1 TATATTAATATTAACTTTATAGACTATATTTTATACTAATATTAATTATAATA-TATAACATATA
687998 TAT
65 TAT
* * *
688001 TATATTAATA-TAA-TTTA-ATATTAATATTAATTATACTAATATTAATTATAATATATAATTAT
1 TATATTAATATTAACTTTATAGACT-ATATT--TTATACTAATATTAATTATAATATATAA-CAT
*
688063 AAATAGT
62 ATATA-T
* *
688070 T-TATTAATATAAATTTTATA
1 TATATTAATATTAACTTTATA
688090 AAGATAAGAT
Statistics
Matches: 126, Mismatches: 11, Indels: 29
0.76 0.07 0.17
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 3 0.02
65 41 0.33
66 30 0.24
67 14 0.11
68 17 0.13
69 4 0.03
70 4 0.03
71 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (67 bp):
TATATTAATATTAACTTTATAGACTATATTTTATACTAATATTAATTATAATATATAACATATAT
AT
Found at i:690462 original size:19 final size:19
Alignment explanation
Indices: 690438--690482 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
690428 CCCCGTAGTC
690438 TGTGCATGGTTACAATGCT
1 TGTGCATGGTTACAATGCT
690457 TGTGCATGGTTACAATGCT
1 TGTGCATGGTTACAATGCT
690476 TGTGCAT
1 TGTGCAT
690483 TGTTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.38
Consensus pattern (19 bp):
TGTGCATGGTTACAATGCT
Found at i:691044 original size:23 final size:23
Alignment explanation
Indices: 691014--691075 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
691004 TTTAATGTAG
691014 GATGGTTGCTGAATTGATGCAAT
1 GATGGTTGCTGAATTGATGCAAT
691037 GATGGTTGCTGAATTGATGCAAT
1 GATGGTTGCTGAATTGATGCAAT
**
691060 GATACTTGCTGAATTG
1 GATGGTTGCTGAATTG
691076 GTACATTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (23 bp):
GATGGTTGCTGAATTGATGCAAT
Found at i:691656 original size:13 final size:13
Alignment explanation
Indices: 691637--691674 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
691627 TAATTTGGTG
691637 ATTATAAATAA-A
1 ATTATAAATAAGA
691649 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
691664 ATTATAAATAA
1 ATTATAAATAA
691675 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:691684 original size:19 final size:19
Alignment explanation
Indices: 691653--691770 Score: 67
Period size: 19 Copynumber: 6.5 Consensus size: 19
691643 AATAAAATTT
691653 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTATAA
691671 ATAATATAAAGAATT-TGAA
1 ATAATATAAAGAATTAT-AA
* *
691690 TTAATATAAA-AATCA-AA
1 ATAATATAAAGAATTATAA
*
691707 TTTATAATATACA-AA-T-T--
1 ---ATAATATAAAGAATTATAA
691724 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTATAA
* *
691742 AAAATATAAAGAATTGTAA
1 ATAATATAAAGAATTATAA
* *
691761 TTATTATAAA
1 ATAATATAAA
691771 AACTAAATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
15 1 0.01
16 1 0.01
17 2 0.03
18 17 0.22
19 35 0.46
20 10 0.13
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAATATAAAGAATTATAA
Found at i:691727 original size:14 final size:14
Alignment explanation
Indices: 691703--691741 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
691693 ATATAAAAAT
691703 CAAATTTATAATATA
1 CAAA-TTATAATATA
691718 CAAATTATAATATA
1 CAAATTATAATATA
691732 -AGAATTATAA
1 CA-AATTATAA
691742 AAAATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 18 0.78
15 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (14 bp):
CAAATTATAATATA
Found at i:691732 original size:71 final size:70
Alignment explanation
Indices: 691638--691781 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 70
691628 AATTTGGTGA
*
691638 TTATAAATAAAATTTATAATATAAGAATTATAAATAATATAAAGAATT-TGAATTAATATAAAAA
1 TTATAAATAAAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGT-AATTAATATAAAAA
691702 -TCAAAT
65 CT-AAAT
*
691708 TTATAATATACAAA-TTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTATTATAAAA
1 TTATAA-ATA-AAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTAATATAAAA
691772 ACTAAAT
64 ACTAAAT
691779 TTA
1 TTA
691782 ATTATCATAA
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
70 6 0.09
71 57 0.84
72 5 0.07
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (70 bp):
TTATAAATAAAATTTATAATATAAGAATTATAAAAAATATAAAGAATTGTAATTAATATAAAAAC
TAAAT
Found at i:691924 original size:16 final size:16
Alignment explanation
Indices: 691905--691935 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
691895 GGTTGAATCA
691905 ATTACATATTAGGTTC
1 ATTACATATTAGGTTC
*
691921 ATTACATGTTAGGTT
1 ATTACATATTAGGTT
691936 GAAAATAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (16 bp):
ATTACATATTAGGTTC
Found at i:693118 original size:29 final size:29
Alignment explanation
Indices: 693059--693118 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
693049 CAGTGATCGA
* *
693059 TATATTTATCGATCTAACACCGATCAGAT
1 TATATTTATCGATCTAACACCGATAACAT
*
693088 TATATTTCTCGATCTAACACCCG-TAACAT
1 TATATTTATCGATCTAACA-CCGATAACAT
693117 TA
1 TA
693119 AAGCGCGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.35
Consensus pattern (29 bp):
TATATTTATCGATCTAACACCGATAACAT
Found at i:693405 original size:17 final size:18
Alignment explanation
Indices: 693368--693408 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
693358 ATATTATGTA
*
693368 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
693386 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
693403 TTTACT
1 TTTACT
693409 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:695109 original size:18 final size:18
Alignment explanation
Indices: 695086--695120 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
695076 ACATCAGCCA
*
695086 CCGCAGCCATTTATGATG
1 CCGCAGCCATATATGATG
695104 CCGCAGCCATATATGAT
1 CCGCAGCCATATATGAT
695121 ACCGTCATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:700555 original size:27 final size:28
Alignment explanation
Indices: 700525--700600 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 28
700515 TTTTCTCCAG
*
700525 ATAAATATCTAAAATA-TTTTTATAG-AA
1 ATAAGTATCTAAAATATTTTTTA-AGAAA
* *
700552 ATAAGTATTTAAATTTATTTTTTAAGTAAA
1 ATAAGTATCTAAA-ATATTTTTTAAG-AAA
*
700582 ATAAGTAACTAAAATATTT
1 ATAAGTATCTAAAATATTT
700601 ATTTTTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.28
28 4 0.10
29 11 0.28
30 13 0.33
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (28 bp):
ATAAGTATCTAAAATATTTTTTAAGAAA
Found at i:712375 original size:23 final size:23
Alignment explanation
Indices: 712343--712445 Score: 91
Period size: 23 Copynumber: 4.4 Consensus size: 23
712333 TGTTCGCTTT
*
712343 TGTTTATTTATTGTTCGCGAACA
1 TGTTCATTTATTGTTCGCGAACA
* *
712366 TGTT-AGTTTAATGTTTGCGAACA
1 TGTTCA-TTTATTGTTCGCGAACA
* * *
712389 TATTCATTTATATGTTCACAAACA
1 TGTTCATTTAT-TGTTCGCGAACA
** *
712413 TGTTCATTTAACGTTCACGAACA
1 TGTTCATTTATTGTTCGCGAACA
*
712436 TATTCATTTA
1 TGTTCATTTA
712446 GTTTTCGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.69
24 19 0.29
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (23 bp):
TGTTCATTTATTGTTCGCGAACA
Found at i:712414 original size:47 final size:46
Alignment explanation
Indices: 712348--712445 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
712338 GCTTTTGTTT
* * * **
712348 ATTTATTGTTCGCGAACATGTT-AGTTTAATGTTTGCGAACATATTC
1 ATTTATTGTTCACAAACATGTTCA-TTTAACGTTCACGAACATATTC
712394 ATTTATATGTTCACAAACATGTTCATTTAACGTTCACGAACATATTC
1 ATTTAT-TGTTCACAAACATGTTCATTTAACGTTCACGAACATATTC
712441 ATTTA
1 ATTTA
712446 GTTTTCGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 6 0.13
47 38 0.84
48 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (46 bp):
ATTTATTGTTCACAAACATGTTCATTTAACGTTCACGAACATATTC
Found at i:716869 original size:166 final size:166
Alignment explanation
Indices: 716595--716896 Score: 577
Period size: 166 Copynumber: 1.8 Consensus size: 166
716585 GGAATGGATT
*
716595 CCAATGTCCATCTTGCACAGGCTCTAGATTCCAGTCGTCTATTATCAACATGATAGTCCATGTTT
1 CCAATGTCCATCTTGCACAGGCTCTAGATTCCAGCCGTCTATTATCAACATGATAGTCCATGTTT
716660 GTAGAATGCTGCTGAACTGAATGACCTTCAGGACCGTAAGATGATGCACCATGAGAATCAAAAGA
66 GTAGAATGCTGCTGAACTGAATGACCTTCAGGACCGTAAGATGATGCACCATGAGAATCAAAAGA
716725 ATTAAGAGGTGGTGTACCAAATGGTGGGCCTTGATC
131 ATTAAGAGGTGGTGTACCAAATGGTGGGCCTTGATC
716761 CCAATGTCCATCTTGCACAGGCTCTAGATTCCAGCCGTCTATTATCAACATGATAGTCCATGTTT
1 CCAATGTCCATCTTGCACAGGCTCTAGATTCCAGCCGTCTATTATCAACATGATAGTCCATGTTT
* *
716826 GTGGAATGCTGCTGAACTGAATGACCTTCAGGACTGTAAGATGATGCACCATGAGAATCAAAAGA
66 GTAGAATGCTGCTGAACTGAATGACCTTCAGGACCGTAAGATGATGCACCATGAGAATCAAAAGA
716891 ATTAAG
131 ATTAAG
716897 GCGAGTAAGA
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 133 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (166 bp):
CCAATGTCCATCTTGCACAGGCTCTAGATTCCAGCCGTCTATTATCAACATGATAGTCCATGTTT
GTAGAATGCTGCTGAACTGAATGACCTTCAGGACCGTAAGATGATGCACCATGAGAATCAAAAGA
ATTAAGAGGTGGTGTACCAAATGGTGGGCCTTGATC
Found at i:720514 original size:35 final size:35
Alignment explanation
Indices: 720435--720549 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
720425 ACCCATTCCT
* * *
720435 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
720469 ATTTTCCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTT-CAAAGAAACATTTACCAAACTTTGAAAACC
720505 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
720540 ATTTTCAAAG
1 ATTTTCAAAG
720550 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
34 5 0.07
35 41 0.54
36 30 0.39
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:725028 original size:36 final size:34
Alignment explanation
Indices: 724964--725033 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
724954 AACATCTACC
* *
724964 AAACTTTACTAAACTTTGAAAAATATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACA-TTTTCAAAG
*
724999 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTCAAAG
725034 TTGGTTGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.33
Consensus pattern (34 bp):
AAACTTTACCAAACTTTGAAAAACATTTTCAAAG
Found at i:735307 original size:67 final size:64
Alignment explanation
Indices: 735227--735357 Score: 201
Period size: 65 Copynumber: 2.0 Consensus size: 64
735217 TTTTGTATAA
*
735227 CCATATAATATATATATATATATTTCTTCATATTATTTTTCATATGTGATATACATGTGTCATAC
1 CCATATAATATATATATATATA--TCTTCATATTATTTTTCATACGTG-TATACATGTGTCATAC
735292 AT
63 AT
*
735294 CCATATACA-ATATATATATATATCTTCATATTGTTTTTCATACGTGTATACATGTGTCATACAT
1 CCATATA-ATATATATATATATATCTTCATATTATTTTTCATACGTGTATACATGTGTCATACAT
735358 AATAGAGAGA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
64 18 0.30
65 22 0.36
67 20 0.33
68 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.46
Consensus pattern (64 bp):
CCATATAATATATATATATATATCTTCATATTATTTTTCATACGTGTATACATGTGTCATACAT
Found at i:735746 original size:23 final size:23
Alignment explanation
Indices: 735718--735766 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
735708 CATGTCCTTT
*
735718 TAATGATTTATTTTTTGAATTTA
1 TAATGATTTATTTTTTGAATGTA
*
735741 TAATGATTTGTTTTTTGAATGTA
1 TAATGATTTATTTTTTGAATGTA
735764 TAA
1 TAA
735767 ATCATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (23 bp):
TAATGATTTATTTTTTGAATGTA
Found at i:735773 original size:24 final size:23
Alignment explanation
Indices: 735718--735774 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
735708 CATGTCCTTT
* *
735718 TAATGATTTATTTTTTGAATTTA
1 TAATCATTTATTTTTTGAATGTA
* *
735741 TAATGATTTGTTTTTTGAATGTA
1 TAATCATTTATTTTTTGAATGTA
735764 TAAATCATTTA
1 T-AATCATTTA
735775 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
TAATCATTTATTTTTTGAATGTA
Found at i:743177 original size:18 final size:18
Alignment explanation
Indices: 743143--743176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
743133 AAAAGGAATA
743143 AAAATACAAAAATAAAAT
1 AAAATACAAAAATAAAAT
*
743161 AAAATA-ACAAATAAAA
1 AAAATACAAAAATAAAA
743177 AAGTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATACAAAAATAAAAT
Found at i:743441 original size:16 final size:17
Alignment explanation
Indices: 743420--743517 Score: 73
Period size: 16 Copynumber: 5.9 Consensus size: 17
743410 TGTAGATTAA
743420 AATAATAATAAA-AAAC
1 AATAATAATAAATAAAC
743436 AATAATAATAAATAAAC
1 AATAATAATAAATAAAC
* * * *
743453 AAGAATGGA-AAATATAT
1 AATAAT-AATAAATAAAC
*
743470 ATATAATAATAATATATAC
1 A-ATAATAATAA-ATAAAC
*
743489 -AT-ATAAAAAATAAA-
1 AATAATAATAAATAAAC
743503 AATAATAA-AAATAAA
1 AATAATAATAAATAAA
743518 AGATTAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
15 13 0.20
16 22 0.33
17 19 0.29
18 7 0.11
19 5 0.08
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAATAATAAATAAAC
Found at i:756574 original size:26 final size:26
Alignment explanation
Indices: 756522--756574 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
756512 GGTATGTTTT
* * *
756522 TAAAATTATAACAATAAGTGAATTTA
1 TAAAATTATAAAAATAAATGAAATTA
756548 TAAAATTATAAAAATTAAAT-AAATTA
1 TAAAATTATAAAAA-TAAATGAAATTA
756574 T
1 T
756575 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (26 bp):
TAAAATTATAAAAATAAATGAAATTA
Found at i:757309 original size:32 final size:32
Alignment explanation
Indices: 757272--757358 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
757262 TTGTTTATAA
* *
757272 TTTTAACGAATGAACACGAACATGCTATATTT
1 TTTTAACGAATGAACACGAACAAGCTACATTT
** * * *
757304 TTTTAATAAATAAACATGAACAAGTTACATTT
1 TTTTAACGAATGAACACGAACAAGCTACATTT
*
757336 CTTTAACGAATGAACACGAACAA
1 TTTTAACGAATGAACACGAACAA
757359 AAAATTCATC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (32 bp):
TTTTAACGAATGAACACGAACAAGCTACATTT
Found at i:758273 original size:21 final size:21
Alignment explanation
Indices: 758206--758320 Score: 99
Period size: 21 Copynumber: 5.6 Consensus size: 21
758196 ATTTTCCATT
758206 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * * ** **
758227 TCACGTTACGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
758247 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
758268 CCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
758288 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
758309 TCGCGTTGCGAT
1 TCGCGTTGCGAT
758321 TTTCCATTTC
Statistics
Matches: 66, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 27 0.41
21 39 0.59
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:758391 original size:41 final size:41
Alignment explanation
Indices: 758186--758384 Score: 328
Period size: 41 Copynumber: 4.9 Consensus size: 41
758176 GCGTTGCATT
758186 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
758227 TCACGTTACGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
758268 CCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
758309 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
*
758350 TCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
758385 CTACAGTTGT
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 147 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:758418 original size:19 final size:19
Alignment explanation
Indices: 758394--758464 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
758384 TCTACAGTTG
758394 TCGTTGCGATATTCCAAAT
1 TCGTTGCGATATTCCAAAT
* **
758413 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGATA-T-TCCAAAT
*
758434 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATATTCCAAAT
*
758454 TCGTTGTGATA
1 TCGTTGCGATA
758465 GTTAAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 20 0.50
20 5 0.12
21 5 0.12
22 10 0.25
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATATTCCAAAT
Found at i:758418 original size:41 final size:41
Alignment explanation
Indices: 758312--758466 Score: 199
Period size: 41 Copynumber: 3.8 Consensus size: 41
758302 TTGAAAATCG
* *
758312 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAGTCG-
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
**
758353 CGTTGCGATTTTCC-GTTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
*
758395 CGTTGCGATATTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
758436 CGTTGCGATTTTCCAAATTCGTTGTGATAGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGT
758467 TAAAAAAAAG
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 90 0.86
42 13 0.12
43 2 0.02
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:758418 original size:82 final size:80
Alignment explanation
Indices: 758186--758450 Score: 311
Period size: 82 Copynumber: 3.2 Consensus size: 80
758176 GCGTTGCATT
** *
758186 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTACGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG-AAATTGCGTTGCGATTTTCCATTTC-C
* *
758251 GTTGCGATAGT-TGAAAA
64 GTTGCGATAGTCT-ACAG
* *
758268 CCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG-AAATTGCGTTGCGATTTTCCATTTC-C
758333 GTTGCGATAGTCTACAG
64 GTTGCGATAGTCTACAG
* * * *
758350 TCGCGTTGCGATTTTCCGTTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATATTCCAAATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGA-AATTG-CGTTGCGATTTTCC-ATTT
758414 -CGTTGCGATAGTCTACAG
62 CCGTTGCGATAGTCTACAG
*
758432 TTGTCGTTGCGATTTTCCA
1 TCG-CGTTGCGATTTTCCA
758451 AATTCGTTGT
Statistics
Matches: 164, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
81 1 0.01
82 131 0.80
83 29 0.18
84 3 0.02
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (80 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAATTGCGTTGCGATTTTCCATTTCCGT
TGCGATAGTCTACAG
Found at i:758418 original size:123 final size:122
Alignment explanation
Indices: 758186--758425 Score: 315
Period size: 123 Copynumber: 2.0 Consensus size: 122
758176 GCGTTGCATT
758186 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTACGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTACGATTTTCCATTTCGC
* *
758251 GTTGCGATAGTTGAAAACCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
66 GTTGCGATAGTTGAAAACCGCGTTGCGATATTCCAATTC-CGTTGCGATAGTTGAAAA
* * * * *
758309 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCGTTTCG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCACGTTACGATTTTCCATTTCG
* ***
758373 CGTTGCGATAGTCT-ACAGTTGTCGTTGCGATATTCCAAATT-CGTTGCGATAGT
65 CGTTGCGATAGT-TGAAAACCG-CGTTGCGATATTCC-AATTCCGTTGCGATAGT
758426 CTACAGTTGT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
123 84 0.82
124 15 0.15
125 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (122 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTACGATTTTCCATTTCGC
GTTGCGATAGTTGAAAACCGCGTTGCGATATTCCAATTCCGTTGCGATAGTTGAAAA
Found at i:758554 original size:6 final size:6
Alignment explanation
Indices: 758543--758585 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
758533 GACACGTATT
758543 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
758586 CGAGACGGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.30, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:759089 original size:6 final size:6
Alignment explanation
Indices: 759078--759122 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
759068 TCTCGTCTCG
759078 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
759123 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:759230 original size:19 final size:19
Alignment explanation
Indices: 759206--759271 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
759196 TTAACTATCA
759206 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
759225 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
759247 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
759266 CAACGA
1 CAACGA
759272 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:759248 original size:22 final size:22
Alignment explanation
Indices: 759221--759292 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
759211 AATTTGGAAA
759221 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
759243 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
759262 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
759284 ATCGCAACG
1 ATCGCAACG
759293 CGAAACGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:759256 original size:41 final size:41
Alignment explanation
Indices: 759199--759292 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
759189 CTTTTTTTTA
*
759199 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
759240 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
759281 ACTATCGCAACG
1 ACTATCGCAACG
759293 CGAAACGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:767297 original size:2 final size:2
Alignment explanation
Indices: 767290--767314 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
767280 TTATTTAACT
767290 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
767315 GCGCACATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:772895 original size:12 final size:12
Alignment explanation
Indices: 772878--772922 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
772868 AGATTGTATG
772878 TAGTTTAAGATT
1 TAGTTTAAGATT
* *
772890 TAGTTTAGGGTATG
1 TAGTTTA-AG-ATT
772904 TAGTTTAAGATT
1 TAGTTTAAGATT
772916 TAGTTTA
1 TAGTTTA
772923 GGGTATCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 16 0.59
13 2 0.07
14 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (12 bp):
TAGTTTAAGATT
Found at i:772902 original size:26 final size:26
Alignment explanation
Indices: 772873--772928 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
772863 CTGCTAGATT
772873 GTATGTAGTTTAAGATTTAGTTTAGG
1 GTATGTAGTTTAAGATTTAGTTTAGG
772899 GTATGTAGTTTAAGATTTAGTTTAGG
1 GTATGTAGTTTAAGATTTAGTTTAGG
772925 GTAT
1 GTAT
772929 CTTCTTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (26 bp):
GTATGTAGTTTAAGATTTAGTTTAGG
Found at i:779861 original size:36 final size:36
Alignment explanation
Indices: 779804--779873 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
779794 CTAACCTATG
*
779804 ATCCCCAAGCAAAGGTCTAATGATCCCCTCATCTGT
1 ATCCCCAAGCAAAGGTATAATGATCCCCTCATCTGT
*
779840 ATCCTCAAGCAAAGGTATAATGATCCCCTCATCT
1 ATCCCCAAGCAAAGGTATAATGATCCCCTCATCT
779874 TGAACTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (36 bp):
ATCCCCAAGCAAAGGTATAATGATCCCCTCATCTGT
Found at i:781346 original size:15 final size:15
Alignment explanation
Indices: 781326--781354 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
781316 GGCTGCGCTT
781326 TTCAATTATCATATG
1 TTCAATTATCATATG
781341 TTCAATTATCATAT
1 TTCAATTATCATAT
781355 ATGCATAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.48
Consensus pattern (15 bp):
TTCAATTATCATATG
Found at i:784829 original size:24 final size:24
Alignment explanation
Indices: 784809--784858 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
784799 TATAATTTTT
784809 TATCAAAATAATAATCTAATTATA
1 TATCAAAATAATAATCTAATTATA
784833 TATCAAAATAATAATCTAATTATA
1 TATCAAAATAATAATCTAATTATA
784857 TA
1 TA
784859 ACTATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (24 bp):
TATCAAAATAATAATCTAATTATA
Found at i:785970 original size:15 final size:15
Alignment explanation
Indices: 785950--785996 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
785940 TATCTGCAAA
*
785950 AAATATTAATTAAAT
1 AAATATTAAATAAAT
785965 AAATATTAAATAAATT
1 AAATATTAAATAAA-T
785981 AAATACTTAAATAAAT
1 AAATA-TTAAATAAAT
785997 TAAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.45
16 7 0.24
17 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTAAATAAAT
Found at i:785983 original size:9 final size:9
Alignment explanation
Indices: 785957--786000 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
785947 AAAAAATATT
785957 AATTAAATAA
1 AATTAAAT-A
785967 ATATTAAATA
1 A-ATTAAATA
785977 AATTAAAT-
1 AATTAAATA
*
785985 ACTTAAATA
1 AATTAAATA
785994 AATTAAA
1 AATTAAA
786001 AACAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.23
9 13 0.43
10 3 0.10
11 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAAATA
Found at i:785992 original size:17 final size:16
Alignment explanation
Indices: 785950--786000 Score: 77
Period size: 17 Copynumber: 3.2 Consensus size: 16
785940 TATCTGCAAA
*
785950 AAATATTAATTAAA-T
1 AAATATTAAATAAATT
785965 AAATATTAAATAAATT
1 AAATATTAAATAAATT
785981 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
785998 AAA
1 AAA
786001 AACAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 13 0.39
16 6 0.18
17 14 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATTAAATAAATT
Found at i:787300 original size:29 final size:29
Alignment explanation
Indices: 787258--787323 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
787248 TCCGTCACTG
787258 CTACCGACGTGCGATCTTGTTCCTATCAA
1 CTACCGACGTGCGATCTTGTTCCTATCAA
787287 CTACCGACGTGCGATCTTGTTCCTATCAA
1 CTACCGACGTGCGATCTTGTTCCTATCAA
787316 CTACCGAC
1 CTACCGAC
787324 ATGCTGCTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (29 bp):
CTACCGACGTGCGATCTTGTTCCTATCAA
Found at i:787387 original size:12 final size:12
Alignment explanation
Indices: 787370--787394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
787360 TTGGTGGCAA
787370 TATATCTTACTC
1 TATATCTTACTC
787382 TATATCTTACTC
1 TATATCTTACTC
787394 T
1 T
787395 GATACTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATCTTACTC
Found at i:789755 original size:2 final size:2
Alignment explanation
Indices: 789748--789778 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
789738 TGATACATAC
789748 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
789779 ACTATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:794670 original size:21 final size:21
Alignment explanation
Indices: 794646--794706 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
794636 TTCAAAGAAA
794646 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
794667 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
794681 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
794702 CATTT
1 CATTT
794707 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:794673 original size:35 final size:35
Alignment explanation
Indices: 794613--794712 Score: 182
Period size: 35 Copynumber: 2.8 Consensus size: 35
794603 CTACCAAACC
*
794613 TTACCAAACTTTGAAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAACCA-TTTTCAAAGAAACAT
794649 TTACCAAACTTTGAAAACCATTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAACCATTTTCAAAGAAACAT
794684 TTACCAAACTTTGAAAACCATTTTCAAAG
1 TTACCAAACTTTGAAAACCATTTTCAAAG
794713 TTGGTTGCCA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
35 44 0.70
36 19 0.30
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
TTACCAAACTTTGAAAACCATTTTCAAAGAAACAT
Found at i:799271 original size:35 final size:36
Alignment explanation
Indices: 799204--799317 Score: 162
Period size: 35 Copynumber: 3.2 Consensus size: 36
799194 TCCATTCCTA
* * *
799204 TTTTC-AACAAACATCTACCAAACTTTGAAAAACAT
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
*
799239 TTTTCAAAGAAACATTTACTAAACTTTGAAAACCAT
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
*
799275 TTTT-AAAGAAACATTTACCAAACTTTGAAAATCA-
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
799309 TTTTCAAAG
1 TTTTCAAAG
799318 TTGGTTGCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 4 0.06
35 37 0.52
36 30 0.42
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (36 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
Found at i:801399 original size:59 final size:59
Alignment explanation
Indices: 801282--801411 Score: 181
Period size: 60 Copynumber: 2.2 Consensus size: 59
801272 CATAGACTCT
*
801282 AATATTTATTTTCACGGTAAATAAATTAAAATAAACTTTTAACTGTAGTACAAAGACAAA
1 AATATTTCTTTTCACGGTAAATAAATTAAAATAAACTTTTAACTGTAGTACAAAGAC-AA
* * * * *
801342 AATATTTCTTTTCATGGTAGATAAATTAAAA-CAACTTTTAAGTGTAGTACCAAGACAA
1 AATATTTCTTTTCACGGTAAATAAATTAAAATAAACTTTTAACTGTAGTACAAAGACAA
*
801400 ATTATTTCTTTT
1 AATATTTCTTTT
801412 TATAATAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
58 13 0.21
59 22 0.35
60 28 0.44
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (59 bp):
AATATTTCTTTTCACGGTAAATAAATTAAAATAAACTTTTAACTGTAGTACAAAGACAA
Found at i:801437 original size:59 final size:59
Alignment explanation
Indices: 801302--801438 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
801292 TTCACGGTAA
**
801302 ATAAATTAAAATAAACTTTTAACTGTAGTACAAAGACAAAAATATTTCTTTTCATGGTAG
1 ATAAATT-AAATAAACTTTTAACTGTAGTACAAAGACAAAAATATTTCTTTTCATAATAG
* * * *
801362 ATAAATTAAA-ACAACTTTTAAGTGTAGTACCAAGAC-AAATTATTTCTTTTTATAATAG
1 ATAAATTAAATA-AACTTTTAACTGTAGTACAAAGACAAAAATATTTCTTTTCATAATAG
* *
801420 ATAGATTGAAATGAACTTT
1 ATAAATT-AAATAAACTTT
801439 CACTTTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
58 25 0.38
59 34 0.52
60 7 0.11
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.36
Consensus pattern (59 bp):
ATAAATTAAATAAACTTTTAACTGTAGTACAAAGACAAAAATATTTCTTTTCATAATAG
Found at i:801577 original size:73 final size:73
Alignment explanation
Indices: 801458--801613 Score: 303
Period size: 73 Copynumber: 2.1 Consensus size: 73
801448 ATCGGATCAA
*
801458 ATTTTAAGTTTAATCACGTAACTTACTGAGTTAATTTTATCAGAAGTATGATAAAATTTTGCAGT
1 ATTTTAAGTTTAATCACGTAACTTACTGAATTAATTTTATCAGAAGTATGATAAAATTTTGCAGT
801523 TATTATAT
66 TATTATAT
801531 ATTTTAAGTTTAATCACGTAACTTACTGAATTAATTTTATCAGAAGTATGATAAAATTTTGCAGT
1 ATTTTAAGTTTAATCACGTAACTTACTGAATTAATTTTATCAGAAGTATGATAAAATTTTGCAGT
801596 TATTATAT
66 TATTATAT
801604 ATTTTAAGTT
1 ATTTTAAGTT
801614 ATTTTCAATT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 82 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.45
Consensus pattern (73 bp):
ATTTTAAGTTTAATCACGTAACTTACTGAATTAATTTTATCAGAAGTATGATAAAATTTTGCAGT
TATTATAT
Found at i:804472 original size:24 final size:23
Alignment explanation
Indices: 804445--804492 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
804435 ACATTATTAT
804445 TTAACAATAATTATAATATAAAAA
1 TTAACAATAATTA-AATATAAAAA
***
804469 TTAATTCTAATTAAATATAAAAA
1 TTAACAATAATTAAATATAAAAA
804492 T
1 T
804493 ATTTATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAACAATAATTAAATATAAAAA
Found at i:809585 original size:37 final size:35
Alignment explanation
Indices: 809523--809600 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
809513 TTGTTTCTTT
809523 AAAATTTCAAAAATGCATTTCTTTATTTTAAAACTA
1 AAAATTTCAAAAATGCATTTCTTTA-TTTAAAACTA
**
809559 AAAATTTCATAAAAT-CATAATT-TTTATTTAAATGTA
1 AAAATTTCA-AAAATGCAT--TTCTTTATTTAAAACTA
809595 AAAATT
1 AAAATT
809601 AAAACCGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 26 0.70
37 9 0.24
38 2 0.05
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (35 bp):
AAAATTTCAAAAATGCATTTCTTTATTTAAAACTA
Done.