Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_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: 1956684
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:992226 original size:18 final size:18
Alignment explanation
Indices: 992132--992229 Score: 101
Period size: 18 Copynumber: 5.2 Consensus size: 18
992122 ATAAAGTCAT
992132 ATATATTTT-AAAATATATA
1 ATAT-TTTTCAAAA-ATATA
*
992151 ATATATATTTCAAAACTATA
1 ATAT-T-TTTCAAAAATATA
*
992171 TATATTTTCCAAAACATAT-
1 -ATATTTTTCAAAA-ATATA
*
992190 ATATATTTCAAAAATATA
1 ATATTTTTCAAAAATATA
992208 ATATTTTTCAAAAATATA
1 ATATTTTTCAAAAATATA
992226 ATAT
1 ATAT
992230 ATATTTTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.06
18 32 0.47
19 13 0.19
20 11 0.16
21 8 0.12
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTTTTCAAAAATATA
Found at i:992228 original size:23 final size:22
Alignment explanation
Indices: 992202--992271 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
992192 ATATTTCAAA
992202 AATATAATATTTTTCAAAAATAT
1 AATATAATATTTTT-AAAAATAT
*
992225 AATAT-ATATTTTTTAAAACTAT
1 AATATAATA-TTTTTAAAAATAT
*
992247 ATATATATATATATTTAAAAATAT
1 A-ATATA-ATATTTTTAAAAATAT
992271 A
1 A
992272 CATTTCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 11 0.28
23 14 0.35
24 12 0.30
25 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATAATATTTTTAAAAATAT
Found at i:992254 original size:25 final size:24
Alignment explanation
Indices: 992203--992271 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 24
992193 TATTTCAAAA
*
992203 ATATA-ATATTTTTCAAAA-ATAT
1 ATATATATATTTTTTAAAATATAT
992225 A-ATATATATTTTTTAAAACTATAT
1 ATATATATATTTTTTAAAA-TATAT
* *
992249 ATATATATATATTTAAAAATATA
1 ATATATATATTTTTTAAAATATA
992272 CATTTCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.08
22 13 0.32
24 9 0.22
25 15 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATATATATTTTTTAAAATATAT
Found at i:994065 original size:4 final size:4
Alignment explanation
Indices: 994058--994169 Score: 109
Period size: 4 Copynumber: 28.2 Consensus size: 4
994048 CTTAGATAGA
* * * * * * *
994058 TAGG TAGG TAGG TAGG TGGG TGGG TGGG TGGG TGGG T-GG TGGG TGGG
1 TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG
* * * * *
994105 TGGG TAGG TGGG TGGG TAGG TGGG TAGG TAGG TGGG TAGG TAGG TAGG
1 TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG TAGG
994153 TAGG TAGG TAGG TAGG T
1 TAGG TAGG TAGG TAGG T
994170 TTACCTCTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 3 0.03
4 96 0.97
ACGTcount: A:0.13, C:0.00, G:0.61, T:0.26
Consensus pattern (4 bp):
TAGG
Found at i:994162 original size:12 final size:12
Alignment explanation
Indices: 994058--994169 Score: 136
Period size: 12 Copynumber: 9.4 Consensus size: 12
994048 CTTAGATAGA
*
994058 TAGGTAGGTAGG
1 TAGGTAGGTGGG
*
994070 TAGGTGGGTGGG
1 TAGGTAGGTGGG
* *
994082 TGGGTGGGTGGG
1 TAGGTAGGTGGG
*
994094 T-GGTGGGTGGG
1 TAGGTAGGTGGG
*
994105 TGGGTAGGTGGG
1 TAGGTAGGTGGG
*
994117 TGGGTAGGTGGG
1 TAGGTAGGTGGG
994129 TAGGTAGGTGGG
1 TAGGTAGGTGGG
*
994141 TAGGTAGGTAGG
1 TAGGTAGGTGGG
*
994153 TAGGTAGGTAGG
1 TAGGTAGGTGGG
994165 TAGGT
1 TAGGT
994170 TTACCTCTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
11 11 0.12
12 82 0.88
ACGTcount: A:0.13, C:0.00, G:0.61, T:0.26
Consensus pattern (12 bp):
TAGGTAGGTGGG
Found at i:994801 original size:29 final size:28
Alignment explanation
Indices: 994769--994832 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 28
994759 TTCAGCTAGA
*
994769 GAAATCTTGAAGTCTTCATTCTTGAAAGG
1 GAAATCGTGAAGTCTTCATTCTTGAAA-G
994798 GAAATCGTGAAGTCTTCATTCTTGAAAG
1 GAAATCGTGAAGTCTTCATTCTTGAAAG
994826 GAAATCG
1 GAAATCG
994833 GTTAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 8 0.24
29 26 0.76
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (28 bp):
GAAATCGTGAAGTCTTCATTCTTGAAAG
Found at i:1000928 original size:24 final size:24
Alignment explanation
Indices: 1000901--1000954 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
1000891 ATTCACCTAA
*
1000901 CTAAATTGATGTAAGCAATGACAT
1 CTAAATTGATGTAAGCAATGAAAT
1000925 CTAAATTGATGTAAGCAATGAAAT
1 CTAAATTGATGTAAGCAATGAAAT
1000949 C-AAATT
1 CTAAATT
1000955 AATTTAGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (24 bp):
CTAAATTGATGTAAGCAATGAAAT
Found at i:1001124 original size:30 final size:29
Alignment explanation
Indices: 1001040--1001179 Score: 140
Period size: 29 Copynumber: 4.7 Consensus size: 29
1001030 CTTATATCAC
*
1001040 AAATAAGTACCTAAAGTATATCATCTTTTTTC-
1 AAATAAGTACCTAAAGTAT-T--T-TTTTGTCA
** *
1001072 ATTTAAGTATCTAAAGTATTTTTTTGTCA
1 AAATAAGTACCTAAAGTATTTTTTTGTCA
* * *
1001101 AAATAAGTATCTAAACTTATTTTTTGGTCA
1 AAATAAGTACCTAAA-GTATTTTTTTGTCA
*
1001131 AAATAGGTACCTAAAGTATTTTTTTAGTCA
1 AAATAAGTACCTAAAGTATTTTTTT-GTCA
1001161 AAAT-AGTACCTAAAGTATT
1 AAATAAGTACCTAAAGTATT
1001180 CAAATTTTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
28 6 0.07
29 36 0.39
30 33 0.36
31 1 0.01
32 16 0.17
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (29 bp):
AAATAAGTACCTAAAGTATTTTTTTGTCA
Found at i:1002563 original size:12 final size:12
Alignment explanation
Indices: 1002543--1002618 Score: 62
Period size: 12 Copynumber: 6.3 Consensus size: 12
1002533 TTCCACCGAC
1002543 GGTTTCCTCATT
1 GGTTTCCTCATT
* **
1002555 GGTTCCCTCACC
1 GGTTTCCTCATT
1002567 GGTTTCCTCATT
1 GGTTTCCTCATT
* * **
1002579 AGTTTCCTTAGC
1 GGTTTCCTCATT
** *
1002591 AATTTCCTCATG
1 GGTTTCCTCATT
1002603 GGTTTCCTCATT
1 GGTTTCCTCATT
1002615 GGTT
1 GGTT
1002619 CCCTTGTCGG
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.12, C:0.28, G:0.17, T:0.43
Consensus pattern (12 bp):
GGTTTCCTCATT
Found at i:1002578 original size:24 final size:24
Alignment explanation
Indices: 1002493--1002578 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
1002483 GGTTTTCTTC
* * *
1002493 CCGGTTTCTTCATTTGTTCCCTCG
1 CCGGTTTCCTCATTGGTTCCCTCA
* * *
1002517 CTGGTTTCCTCATCGATTCCAC-CGA
1 CCGGTTTCCTCATTGGTTCC-CTC-A
1002542 -CGGTTTCCTCATTGGTTCCCTCA
1 CCGGTTTCCTCATTGGTTCCCTCA
1002565 CCGGTTTCCTCATT
1 CCGGTTTCCTCATT
1002579 AGTTTCCTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.04
24 46 0.94
25 1 0.02
ACGTcount: A:0.09, C:0.35, G:0.16, T:0.40
Consensus pattern (24 bp):
CCGGTTTCCTCATTGGTTCCCTCA
Found at i:1002630 original size:24 final size:24
Alignment explanation
Indices: 1002603--1002731 Score: 89
Period size: 24 Copynumber: 5.4 Consensus size: 24
1002593 TTTCCTCATG
*
1002603 GGTTTCCTCATTGGTTCCCTTGTC
1 GGTTTCCTCATTGGTTCCCTTGCC
* * * * * * *
1002627 GGTTCCCTCCTCGATTTCTTTGTC
1 GGTTTCCTCATTGGTTCCCTTGCC
* *
1002651 GGTTTCCTCATTAGTTTCCTTAG-C
1 GGTTTCCTCATTGGTTCCCTT-GCC
* *
1002675 GGTTTCCTCATTGCTTCCCTCGCC
1 GGTTTCCTCATTGGTTCCCTTGCC
* ** * *
1002699 GGTTCCCTCGGTAGTTCCCTCGCC
1 GGTTTCCTCATTGGTTCCCTTGCC
1002723 GGTTTCCTC
1 GGTTTCCTC
1002732 GTCAGTTTCC
Statistics
Matches: 81, Mismatches: 22, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
23 1 0.01
24 79 0.98
25 1 0.01
ACGTcount: A:0.05, C:0.34, G:0.19, T:0.41
Consensus pattern (24 bp):
GGTTTCCTCATTGGTTCCCTTGCC
Found at i:1002716 original size:84 final size:84
Alignment explanation
Indices: 1002566--1002719 Score: 202
Period size: 84 Copynumber: 1.8 Consensus size: 84
1002556 GTTCCCTCAC
* * ** * *
1002566 CGGTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGGTTTCCTCATTGGTTCCCTTGTCGGTT
1 CGGTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCTGGTCAGTT
1002631 CCCTCCTCGATTTCTTTGT
66 CCCTCCTCGATTTCTTTGT
** * *
1002650 CGGTTTCCTCATTAGTTTCCTTAGCGGTTTCCTCATTGCTTCCCTCGCCGGTTCCCTCGGT-AGT
1 CGGTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCT-GGTCAGT
1002714 TCCCTC
65 TCCCTC
1002720 GCCGGTTTCC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 57 0.97
85 2 0.03
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (84 bp):
CGGTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCTGGTCAGTT
CCCTCCTCGATTTCTTTGT
Found at i:1002732 original size:24 final size:24
Alignment explanation
Indices: 1002689--1002947 Score: 150
Period size: 24 Copynumber: 10.8 Consensus size: 24
1002679 TCCTCATTGC
* *
1002689 TTCCCTCGCCGGTTCCCTCGGTAG
1 TTCCCTCGCCGGTTTCCTCGCTAG
1002713 TTCCCTCGCCGGTTTCCTCG-TCAG
1 TTCCCTCGCCGGTTTCCTCGCT-AG
* ** * **
1002737 TTTCCTCGCTAG-TTCCATCACCGG
1 TTCCCTCGCCGGTTTCC-TCGCTAG
* ***
1002761 TTTCCTCGTTAGTTTCCTCGCTAG
1 TTCCCTCGCCGGTTTCCTCGCTAG
* * *
1002785 TTCCATCACCGGTTCCCTCG-TCAG
1 TTCCCTCGCCGGTTTCCTCGCT-AG
** * * **
1002809 TGT-CCTCGCTAGCTCCCTCGCCGG
1 T-TCCCTCGCCGGTTTCCTCGCTAG
* * * *
1002833 TTTCCTCGTCAGTTTCGTCGCTAG
1 TTCCCTCGCCGGTTTCCTCGCTAG
* * *
1002857 TTCCATCGACAGTTTCCTCGCTAG
1 TTCCCTCGCCGGTTTCCTCGCTAG
*
1002881 TTCCCTCGTCGGTTTCCTCGCTAG
1 TTCCCTCGCCGGTTTCCTCGCTAG
*
1002905 TTCCAC-CGCCGGTTTCCTCGCTAC
1 TTCC-CTCGCCGGTTTCCTCGCTAG
* *
1002929 TTCCGTCGTCGGTTTCCTC
1 TTCCCTCGCCGGTTTCCTC
1002948 ATCAGTTTCC
Statistics
Matches: 182, Mismatches: 43, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
23 7 0.04
24 169 0.93
25 6 0.03
ACGTcount: A:0.08, C:0.38, G:0.20, T:0.34
Consensus pattern (24 bp):
TTCCCTCGCCGGTTTCCTCGCTAG
Found at i:1002740 original size:84 final size:84
Alignment explanation
Indices: 1002568--1002743 Score: 192
Period size: 84 Copynumber: 2.1 Consensus size: 84
1002558 TCCCTCACCG
* * ** * *
1002568 GTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGGTTTCCTCATTGGTTCCCTTGTCGGTTCC
1 GTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCTGGTCAGTTCC
* * * *
1002633 CTCCTCGATTTCTTTGTCG
66 CTCCCCGATTTCCTCGTCA
** * *
1002652 GTTTCCTCATTAGTTTCCTTAGCGGTTTCCTCATTGCTTCCCTCGCCGGTTCCCTCGGT-AGTTC
1 GTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCT-GGTCAGTTC
* *
1002716 CCTCGCCGGTTTCCTCGTCA
65 CCTCCCCGATTTCCTCGTCA
1002736 GTTTCCTC
1 GTTTCCTC
1002744 GCTAGTTCCA
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 73 0.97
85 2 0.03
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (84 bp):
GTTTCCTCATTAGTTTCCTTAGCAATTTCCTCATGGCTTCCCTCACCGGTTCCCTGGTCAGTTCC
CTCCCCGATTTCCTCGTCA
Found at i:1002744 original size:36 final size:36
Alignment explanation
Indices: 1002704--1002876 Score: 238
Period size: 36 Copynumber: 4.8 Consensus size: 36
1002694 TCGCCGGTTC
* *
1002704 CCTCGGTAGTTCCCTCGCCGGTTTCCTCGTCAGTTT
1 CCTCGCTAGTTCCATCGCCGGTTTCCTCGTCAGTTT
* *
1002740 CCTCGCTAGTTCCATCACCGGTTTCCTCGTTAGTTT
1 CCTCGCTAGTTCCATCGCCGGTTTCCTCGTCAGTTT
* * *
1002776 CCTCGCTAGTTCCATCACCGGTTCCCTCGTCAGTGT
1 CCTCGCTAGTTCCATCGCCGGTTTCCTCGTCAGTTT
* *
1002812 CCTCGCTAGCTCCCTCGCCGGTTTCCTCGTCAGTTT
1 CCTCGCTAGTTCCATCGCCGGTTTCCTCGTCAGTTT
* * *
1002848 CGTCGCTAGTTCCATCGACAGTTTCCTCG
1 CCTCGCTAGTTCCATCGCCGGTTTCCTCG
1002877 CTAGTTCCCT
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 120 1.00
ACGTcount: A:0.09, C:0.37, G:0.20, T:0.34
Consensus pattern (36 bp):
CCTCGCTAGTTCCATCGCCGGTTTCCTCGTCAGTTT
Found at i:1004594 original size:13 final size:13
Alignment explanation
Indices: 1004576--1004601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1004566 CATTCTCGAA
1004576 TTTATTTTTTTCT
1 TTTATTTTTTTCT
1004589 TTTATTTTTTTCT
1 TTTATTTTTTTCT
1004602 CTATTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTTCT
Found at i:1010224 original size:93 final size:94
Alignment explanation
Indices: 1010064--1010247 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 94
1010054 ATGTGTACAT
1010064 AGAAATACAACAAACTCTTAAGTGTGAAAGGTTTTTTTCTTTCTTGCTCTAAACTTCCTCTGGTA
1 AGAAATACAACAAACTCTTAAGTGTGAAAGGTTTTTTTCTTTCTTGCTCTAAACTTCCTCTGGTA
1010129 TTCTGACATCCAAAGGAACTGAGGGCATA
66 TTCTGACATCCAAAGGAACTGAGGGCATA
1010158 AGAAATACAACCAAAC-CTTAAGTGTGAAAGG-TTTTTTCTTTCTTGCTCTAAACTTCCTCTGGT
1 AGAAATACAA-CAAACTCTTAAGTGTGAAAGGTTTTTTTCTTTCTTGCTCTAAACTTCCTCTGGT
1010221 ATTCTGACATCCAAAGGAACTGAGGGC
65 ATTCTGACATCCAAAGGAACTGAGGGC
1010248 CCACGGTTGA
Statistics
Matches: 89, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
93 59 0.66
94 25 0.28
95 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (94 bp):
AGAAATACAACAAACTCTTAAGTGTGAAAGGTTTTTTTCTTTCTTGCTCTAAACTTCCTCTGGTA
TTCTGACATCCAAAGGAACTGAGGGCATA
Found at i:1012191 original size:16 final size:16
Alignment explanation
Indices: 1012167--1012199 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1012157 TATCGCCGAC
*
1012167 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1012183 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1012199 C
1 C
1012200 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1023903 original size:21 final size:21
Alignment explanation
Indices: 1023877--1023916 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1023867 CCCCCTTTGA
*
1023877 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1023898 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1023917 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1024336 original size:16 final size:15
Alignment explanation
Indices: 1024301--1024329 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1024291 AAATTAAAAA
1024301 AAATTGTTGTTTTTC
1 AAATTGTTGTTTTTC
1024316 AAATTGTTGTTTTT
1 AAATTGTTGTTTTT
1024330 TGAAATTATT
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:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (15 bp):
AAATTGTTGTTTTTC
Found at i:1036505 original size:131 final size:133
Alignment explanation
Indices: 1036271--1036536 Score: 518
Period size: 131 Copynumber: 2.0 Consensus size: 133
1036261 AAAACTCACA
1036271 TGCAAACCTTAAATCAGCCGAAGGAATCAACCATCAACTCCCCGATGGCCACGACACCGGCGACA
1 TGCAAACCTTAAATCAGCCGAAGGAATCAACCATCAACTCCCCGATGGCCACGACACCGGCGACA
1036336 ATCCTCTCTTTTTAAGGTAAATGGACCACTCTTTTTTCATTT-AAAG-AAAAAGAAAAAAGGAAA
66 ATCCTCTCTTTTTAAGGTAAATGGACCACTCTTTTTTCATTTAAAAGAAAAAAGAAAAAAGGAAA
1036399 ACT
131 ACT
1036402 TGCAAACCTTAAATCAGCCGAAGGAATCAACCATCAACTCCCCGATGGCCACGACACCGGCGACA
1 TGCAAACCTTAAATCAGCCGAAGGAATCAACCATCAACTCCCCGATGGCCACGACACCGGCGACA
1036467 ATCCTCTCTTTTTAAGGTAAATGGACCACTCTTTTTTCATTTAAAAGAAAAAAGAAAAAAGGAAA
66 ATCCTCTCTTTTTAAGGTAAATGGACCACTCTTTTTTCATTTAAAAGAAAAAAGAAAAAAGGAAA
1036532 ACT
131 ACT
1036535 TG
1 TG
1036537 AATATGGAAG
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
131 107 0.80
132 4 0.03
133 22 0.17
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (133 bp):
TGCAAACCTTAAATCAGCCGAAGGAATCAACCATCAACTCCCCGATGGCCACGACACCGGCGACA
ATCCTCTCTTTTTAAGGTAAATGGACCACTCTTTTTTCATTTAAAAGAAAAAAGAAAAAAGGAAA
ACT
Found at i:1037745 original size:128 final size:128
Alignment explanation
Indices: 1037547--1038502 Score: 1103
Period size: 128 Copynumber: 7.5 Consensus size: 128
1037537 GATTGACATG
* * * * * * * * *
1037547 GCTCCTACGTGATGAGGAGATCAGGTGTCGGGCGATGACACGGCTCATACGTGATGA-AAAGTTC
1 GCTCCTACATAATGAGGAGATC-TG-GTCGGGTGATGACACGGTTCCTACGTGATGAGGACG-GC
* * *
1037611 TGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATAAGGACGACTGGTTATCTGGGTTGACAC
63 AGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACAC
1037676 A
128 A
* * * *
1037677 ACTCCTACATAATGAAGAGATCTGGTCGGGTGATGATACGGTTCCTACGTGATGAGGACGGCATG
1 GCTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGG
* * * *
1037742 CCATCTAAGGGTGATCACACGGTTTCTACGTGATGAGGATGGCTGGTTATCTGGGTTGATAC-
66 CCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
* * * ** * * * *
1037804 GACTCCTATATAATGAGGAGATCAGGTCGGGTGATGACATGACTCATACGTGATGAAGA-GTTCT
1 G-CTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACG-GCA
* ** * *
1037868 GGCCATCTAAGGGTGATAACATGGTTCCTATATGATGAGGACGACTGATTATCTGGGTTGACACA
64 GGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
* * * * *
1037933 GCTCCTACATAATGAGGAGATCAT-ATTGGGTGATGACATGGTTCCTACGTGATGAGGACAGTAG
1 GCTCCTACATAATGAGGAGATC-TGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAG
*
1037997 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGATTATCTGGGTTGACACA
65 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
* * * * *
1038061 GCTCCTACATAATGAGGAGATCAT-ATTGGGTGATGACATGGTTCCTACGTGATGAGGACAGTAG
1 GCTCCTACATAATGAGGAGATC-TGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAG
*
1038125 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGCTATCTGGGTTGACACA
65 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
* * * * * * *
1038189 GCTTCTACATAATGAGGAGATCAGATCGGGTGATGACACGGTTTCTACGTGATGATGATGGTAGG
1 GCTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGG
* * * * *
1038254 CCATTTAAGGGTGATAATAGGGTTCCTACGTAATGAGGACGGTTGGTTATCTGGGTTGACACA
66 CCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
** * * * * * *
1038317 GCTTATATATAATGGGGAGATCAGGTCAGGTGATGATACGGTTCCTATGTGATGAGGACGGCAGG
1 GCTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGG
* * * * * * *
1038382 CCATCTAAGGATTATAACACAGTTCCTACATGATAAGGACGACTGGTTATCTGAGTTGACACA
66 CCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
** * * * *
1038445 TTTTCTACATAATGAGGAGATCTTGTCAGGTGATGACACGGCTCCTACGTGATGAGGA
1 GCTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGA
1038503 GATCTGGTCG
Statistics
Matches: 712, Mismatches: 107, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
127 1 0.00
128 689 0.97
129 4 0.01
130 18 0.03
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (128 bp):
GCTCCTACATAATGAGGAGATCTGGTCGGGTGATGACACGGTTCCTACGTGATGAGGACGGCAGG
CCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTGGGTTGACACA
Found at i:1037948 original size:42 final size:43
Alignment explanation
Indices: 1037893--1038206 Score: 132
Period size: 46 Copynumber: 7.4 Consensus size: 43
1037883 ATAACATGGT
*
1037893 TCCTATATGATGAGGACGACTGATTATCTGGGT-TGACACAGC
1 TCCTACATGATGAGGACGACTGATTATCTGGGTATGACACAGC
* * ** *
1037935 TCCTACATAATGAGGA-GA-TCA-TAT-TGGGTGATGACATGGT
1 TCCTACATGATGAGGACGACTGATTATCTGGGT-ATGACACAGC
* * *** * * *
1037975 TCCTACGTGATGAGGAC-AGTAGGCCATCTAAGGGTGATAACACGGT
1 TCCTACATGATGAGGACGACT-GATTATCT--GGGT-ATGACACAGC
* *
1038021 TCCTACGTGATGAGGACGGCTGATTATCTGGGT-TGACACAGC
1 TCCTACATGATGAGGACGACTGATTATCTGGGTATGACACAGC
* * ** *
1038063 TCCTACATAATGAGGA-GA-TCA-TAT-TGGGTGATGACATGGT
1 TCCTACATGATGAGGACGACTGATTATCTGGGT-ATGACACAGC
* * *** * * *
1038103 TCCTACGTGATGAGGAC-AGTAGGCCATCTAAGGGTGATAACACGGT
1 TCCTACATGATGAGGACGACT-GATTATCT--GGGT-ATGACACAGC
* * **
1038149 TCCTACGTGATGAGGACGGCTGGCTATCTGGGT-TGACACAGC
1 TCCTACATGATGAGGACGACTGATTATCTGGGTATGACACAGC
* *
1038191 TTCTACATAATGAGGA
1 TCCTACATGATGAGGA
1038207 GATCAGATCG
Statistics
Matches: 208, Mismatches: 44, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
38 10 0.05
39 6 0.03
40 46 0.22
41 5 0.02
42 53 0.25
43 4 0.02
44 10 0.05
46 72 0.35
47 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TCCTACATGATGAGGACGACTGATTATCTGGGTATGACACAGC
Found at i:1038027 original size:46 final size:45
Alignment explanation
Indices: 1037960--1038293 Score: 195
Period size: 46 Copynumber: 7.7 Consensus size: 45
1037950 AGATCATATT
*
1037960 GGGTGATGACATGGTTCCTACGTGATGAGGACAGTAGGCCATCTAA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGTAGGCCATCT-A
* * ***
1038006 GGGTGATAACACGGTTCCTACGTGATGAGGACGGCT-GATTATCT-
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAG-TAGGCCATCTA
* * * * * * *
1038050 GGGT--TGACACAGCTCCTACATAATGAGG--AG-A--TCATATT
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGTAGGCCATCTA
*
1038088 GGGTGATGACATGGTTCCTACGTGATGAGGACAGTAGGCCATCTAA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGTAGGCCATCT-A
* * *
1038134 GGGTGATAACACGGTTCCTACGTGATGAGGACGGCT-GGCTATCT-
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAG-TAGGCCATCTA
* * * *
1038178 GGGT--TGACACAGCTT-CTACATAATGAGGAGA-TCA-G--ATC--
1 GGGTGATGACAC-GGTTCCTACGTGATGAGGACAGT-AGGCCATCTA
* * ** *
1038216 GGGTGATGACACGGTTTCTACGTGATGATGATGGTAGGCCATTTAA
1 GGGTGATGACACGGTTCCTACGTGATGAGGACAGTAGGCCATCT-A
* * * *
1038262 GGGTGATAATAGGGTTCCTACGTAATGAGGAC
1 GGGTGATGACACGGTTCCTACGTGATGAGGAC
1038294 GGTTGGTTAT
Statistics
Matches: 217, Mismatches: 46, Indels: 50
0.69 0.15 0.16
Matches are distributed among these distances:
37 4 0.02
38 8 0.04
39 6 0.03
40 39 0.18
41 3 0.01
42 38 0.18
43 6 0.03
44 8 0.04
45 4 0.02
46 99 0.46
47 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (45 bp):
GGGTGATGACACGGTTCCTACGTGATGAGGACAGTAGGCCATCTA
Found at i:1038500 original size:40 final size:40
Alignment explanation
Indices: 1038456--1038539 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
1038446 TTTCTACATA
* * ** *
1038456 ATGAGGAGATCTTGTC-AGGTGATGACACGGCTCCTACGTG
1 ATGAGGAGATCTGGTCGATG-GATGACACAACTCATACGTG
1038496 ATGAGGAGATCTGGTCGATGGATGACACAACTCATACGTG
1 ATGAGGAGATCTGGTCGATGGATGACACAACTCATACGTG
1038536 ATGA
1 ATGA
1038540 ATAATTCTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (40 bp):
ATGAGGAGATCTGGTCGATGGATGACACAACTCATACGTG
Found at i:1038843 original size:33 final size:32
Alignment explanation
Indices: 1038772--1038861 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
1038762 TTCACATCAG
* * *
1038772 GATGTTAAATCCCCAAAGATGCCCCAATATAT
1 GATGTTGAATCTCCAAAGATGCCCCAACATAT
*
1038804 GATGTTGATTGCTCCAAAGATGCCCCAACACT-T
1 GATGTTGAAT-CTCCAAAGATGCCCCAACA-TAT
* **
1038837 GTTGTTGAATCTTTAAAGATGCCCC
1 GATGTTGAATCTCCAAAGATGCCCC
1038862 CATTGTTCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 21 0.44
33 26 0.54
34 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATAT
Found at i:1042998 original size:19 final size:19
Alignment explanation
Indices: 1042952--1043012 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
1042942 AAATTTCTTA
*
1042952 AAAATG-AAATGCATATGC
1 AAAATGCAAATGCAGATGC
1042970 AAAGATGCAAATGCAGATGC
1 AAA-ATGCAAATGCAGATGC
*
1042990 AAAATGCAAATACAGATGC
1 AAAATGCAAATGCAGATGC
1043009 AAAA
1 AAAA
1043013 AATATTGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
18 3 0.08
19 22 0.56
20 14 0.36
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.16
Consensus pattern (19 bp):
AAAATGCAAATGCAGATGC
Found at i:1044408 original size:18 final size:18
Alignment explanation
Indices: 1044385--1044419 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1044375 TCGAATACCT
1044385 AAAAATGTCTTTTAAGAA
1 AAAAATGTCTTTTAAGAA
*
1044403 AAAAATGTTTTTTAAGA
1 AAAAATGTCTTTTAAGA
1044420 CAGAAGCTGG
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:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
AAAAATGTCTTTTAAGAA
Found at i:1047095 original size:2 final size:2
Alignment explanation
Indices: 1047088--1047119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1047078 AATACACGTG
1047088 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
1047120 AACTACAAAA
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:1048906 original size:3 final size:3
Alignment explanation
Indices: 1048898--1048945 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
1048888 CTATAAACAT
*
1048898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
1048944 TA
1 TA
1048946 TTTTTTTGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1049423 original size:119 final size:118
Alignment explanation
Indices: 1049269--1049665 Score: 354
Period size: 119 Copynumber: 3.3 Consensus size: 118
1049259 TGGTTATCTA
* * * * **
1049269 GGTTGACATAGCTCCTACATAATGAGGAAATCTAGTCGAGTGATGACACAATTCTTACGTGATGA
1 GGTTGACACAGCTCATACATAATGAAGAGATCTAGTC-AGTGATGACACTGTTCTTACGTGATGA
* * * * *
1049334 GGATAACAAGCCATTTAAAAGTAATAACACGGTTCTTACGTCATGAGGACGGTT
65 GGATAACAAGCCATATAAAGGTAATAACATGGTTCCTACGTGATGAGGACGGTT
* * *
1049388 GGTTGACACAGCTCATACATAATGAAGAGATCTAGTCAAGTGATGACACTGTTCATATGTTCATG
1 GGTTGACACAGCTCATACATAATGAAGAGATCTAGTC-AGTGATGACACTGTTCTTACG-TGATG
** * * * * *
1049453 A-G-T--CTTGACCATATAAGGGTGATAACATGGTTCCCACGTGATTAGGATGGCTCGTTATCT
64 AGGATAACAAG-CCATATAAAGGTAATAACATGGTTCCTACGTGA-T--GA-GG-ACG--GT-T
* * *
1049513 GAGTTGACACAGCTCCTTACATAAT-AAGGAGATCTGGTCATGTGATGACACTGCTCTTACGTGA
1 G-GTTGACACAGCT-CATACATAATGAA-GAGATCTAGTCA-GTGATGACACTGTTCTTACGTGA
* * * * *
1049577 TGAGGACAACAAGCCATCTAAAGGTAATAATATAGTTCCTACGTGATGAGGACGGCT
62 TGAGGATAACAAGCCATATAAAGGTAATAACATGGTTCCTACGTGATGAGGACGGTT
1049634 GGTTGACACAGCTCATACATAATGAAGAGATC
1 GGTTGACACAGCTCATACATAATGAAGAGATC
1049666 CGGTTAGGTG
Statistics
Matches: 218, Mismatches: 41, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
116 2 0.01
117 25 0.11
118 2 0.01
119 66 0.30
120 21 0.10
121 4 0.02
122 2 0.01
124 3 0.01
125 4 0.02
126 22 0.10
127 37 0.17
128 1 0.00
129 27 0.12
130 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (118 bp):
GGTTGACACAGCTCATACATAATGAAGAGATCTAGTCAGTGATGACACTGTTCTTACGTGATGAG
GATAACAAGCCATATAAAGGTAATAACATGGTTCCTACGTGATGAGGACGGTT
Found at i:1049591 original size:246 final size:245
Alignment explanation
Indices: 1049222--1049814 Score: 778
Period size: 246 Copynumber: 2.4 Consensus size: 245
1049212 CATCTTTAAG
* * *
1049222 AAGGGTGATAAC-TCGGTTCCTATGTGATGAGGACGGCTGGTTATCTAGGTTGACATAGCTCCTA
1 AAGGGTGATAACAT-GGTTCCTACGTGATGAGGATGGCTGGTTATCTAGGTTGACACAGCTCCTA
* * * * * *
1049286 CATAATGAGGAAATCTAGTCGA-GTGATGACACAATTCTTACGTGATGAGGATAACAAGCCATTT
65 CATAATGAGGAGATCTGGTC-ATGTGATGACACTACTCTTACGTGATGAGGACAACAAGCCATCT
* * *
1049350 AAAAGTAATAACACGGTTCTTACGTCATGAGGACGGTTGGTTGACACAGCTCATACATAATGAAG
129 AAAAGTAATAACACAGTTCCTACGTCATGAGGACGGCTGGTTGACACAGCTCATACATAATGAAG
* * *
1049415 AGATCTAGTCAAGTGATGACACTGTTCATATGTTCATGAGTCTTGACCATAT
194 AGATCCAGTCAAGTGACGACACTGCTCATATGTTCATGAGTCTTGACCATAT
* * *
1049467 AAGGGTGATAACATGGTTCCCACGTGATTAGGATGGCTCGTTATCT-GAGTTGACACAGCTCCTT
1 AAGGGTGATAACATGGTTCCTACGTGATGAGGATGGCTGGTTATCTAG-GTTGACACAGCTCC-T
* *
1049531 ACATAATAAGGAGATCTGGTCATGTGATGACACTGCTCTTACGTGATGAGGACAACAAGCCATCT
64 ACATAATGAGGAGATCTGGTCATGTGATGACACTACTCTTACGTGATGAGGACAACAAGCCATCT
* * * *
1049596 AAAGGTAATAATATAGTTCCTACGTGATGAGGACGGCTGGTTGACACAGCTCATACATAATGAAG
129 AAAAGTAATAACACAGTTCCTACGTCATGAGGACGGCTGGTTGACACAGCTCATACATAATGAAG
* * * * * *
1049661 AGATCCGGTTAGGTGACGACACTGCTCATTTGTTCATGAGTCTTGGCCATCT
194 AGATCCAGTCAAGTGACGACACTGCTCATATGTTCATGAGTCTTGACCATAT
* ** *
1049713 AAGGGTGATAACACGGTTCCTACGTGATGAGGATAACTGGTTATCTATGGTTGACACGGCTCCTA
1 AAGGGTGATAACATGGTTCCTACGTGATGAGGATGGCTGGTTATCTA-GGTTGACACAGCTCCTA
* * * *
1049778 CGTAATGAGGAGACCAGTTCATGTGATGACACTACTC
65 CATAATGAGGAGATCTGGTCATGTGATGACACTACTC
1049815 ATTTGTTCAT
Statistics
Matches: 299, Mismatches: 43, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
244 1 0.00
245 53 0.18
246 231 0.77
247 13 0.04
248 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (245 bp):
AAGGGTGATAACATGGTTCCTACGTGATGAGGATGGCTGGTTATCTAGGTTGACACAGCTCCTAC
ATAATGAGGAGATCTGGTCATGTGATGACACTACTCTTACGTGATGAGGACAACAAGCCATCTAA
AAGTAATAACACAGTTCCTACGTCATGAGGACGGCTGGTTGACACAGCTCATACATAATGAAGAG
ATCCAGTCAAGTGACGACACTGCTCATATGTTCATGAGTCTTGACCATAT
Found at i:1049742 original size:117 final size:117
Alignment explanation
Indices: 1049589--1049878 Score: 339
Period size: 127 Copynumber: 2.4 Consensus size: 117
1049579 AGGACAACAA
* * **
1049589 GCCATCTAAAGGTAATAATATAGTTCCTACGTGATGAGGACGGCTGGTTGACACAGCTCATACAT
1 GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTGACACAGCTCATACAT
* *
1049654 AATGAAGAGATCCGGTT-AGGTGACGACACTGCTCATTTGTTCATGAGTCTTG
66 AATGAAGAGA-CCAGTTCAGGTGACGACACTACTCATTTGTTCATGAGTCTTG
* *
1049706 GCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATAACTGGTTATCTATGGTTGACACG
1 GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGG---AC-GG----C--TGGTTGACACA
* * * * *
1049771 GCTCCTACGTAATGAGGAGACCAGTTCATGTGATGACACTACTCATTTGTTCATGAGTCTTG
56 GCTCATACATAATGAAGAGACCAGTTCAGGTGACGACACTACTCATTTGTTCATGAGTCTTG
* *
1049833 GCCATCTAAAGGTGATAACACGGTTCCTAAGTGATGAGGGCGGCTG
1 GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTG
1049879 ATTATCTGGG
Statistics
Matches: 146, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
117 36 0.25
119 1 0.01
120 2 0.01
121 2 0.01
123 2 0.01
124 1 0.01
125 1 0.01
126 5 0.03
127 96 0.66
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (117 bp):
GCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTGACACAGCTCATACAT
AATGAAGAGACCAGTTCAGGTGACGACACTACTCATTTGTTCATGAGTCTTG
Found at i:1049859 original size:127 final size:126
Alignment explanation
Indices: 1049633--1049935 Score: 401
Period size: 127 Copynumber: 2.4 Consensus size: 126
1049623 TGAGGACGGC
* * * * * *
1049633 TGGTTGACACAGCTCATACATAATGAAGAGATCCGGTT-AGGTGACGACACTGCTCATTTGTTCA
1 TGGTTGACAC-GCTCCTACGTAATGAGGAGA-CCAGTTCAGGTGATGACACTACTCATTTGTTCA
* * * *
1049697 TGAGTCTTGGCCATCTAAGGGTGATAACACGGTTCCTACGTGATGAGGATAACTGGTTATCTA
64 TGAGTCTTGGCCATCTAAAGGTGATAACACGGTTCCTAAGTGATGAGGACAACTGATTATCTA
*
1049760 TGGTTGACACGGCTCCTACGTAATGAGGAGACCAGTTCATGTGATGACACTACTCATTTGTTCAT
1 TGGTTGACAC-GCTCCTACGTAATGAGGAGACCAGTTCAGGTGATGACACTACTCATTTGTTCAT
* ** *
1049825 GAGTCTTGGCCATCTAAAGGTGATAACACGGTTCCTAAGTGATGAGGGCGGCTGATTATCTG
65 GAGTCTTGGCCATCTAAAGGTGATAACACGGTTCCTAAGTGATGAGGACAACTGATTATCTA
* * * *
1049887 GGGTTGACACGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATGACAC
1 TGGTTGACACGCTCCTACGTAATGAGGAGACCAGTTCAGGTGATGACAC
1049936 AGTTCCTATG
Statistics
Matches: 154, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
126 40 0.26
127 114 0.74
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (126 bp):
TGGTTGACACGCTCCTACGTAATGAGGAGACCAGTTCAGGTGATGACACTACTCATTTGTTCATG
AGTCTTGGCCATCTAAAGGTGATAACACGGTTCCTAAGTGATGAGGACAACTGATTATCTA
Found at i:1050114 original size:63 final size:66
Alignment explanation
Indices: 1050041--1050169 Score: 174
Period size: 68 Copynumber: 2.0 Consensus size: 66
1050031 AAAGAGACGA
* *
1050041 AATTCATTTCAAGGG-AATGA-CTCAAAGATG-GTTTTGTTTCAAGAGAAATAAACTCAAAGATT
1 AATTCATTTCAAGGGAAACGATCTCAAAGATGTGTTTTGTTTCAAGAGAAACAAACTCAAAGATT
1050103 T
66 T
* * *
1050104 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTTTGTTTCCAGGGAAACAAACTCAAAGA
1 AATTCATTTCAAGGGAAACGATCTCAAAGATG--TGTTTTGTTTCAAGAGAAACAAACTCAAAGA
1050169 T
64 T
1050170 GAGTATTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
63 14 0.25
64 4 0.07
65 10 0.18
68 28 0.50
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (66 bp):
AATTCATTTCAAGGGAAACGATCTCAAAGATGTGTTTTGTTTCAAGAGAAACAAACTCAAAGATT
T
Found at i:1050355 original size:33 final size:33
Alignment explanation
Indices: 1050280--1050359 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
1050270 ATAAGATGTG
* * *
1050280 TTTCCAGAGAAAC-GATATCAAAGATGGTTGTTT
1 TTTCCAGTGAAACAGA-CTCAAAGATGATTGTTT
1050313 TTTCCAGTGAAACAGACTCAAAGATGATT-TTT
1 TTTCCAGTGAAACAGACTCAAAGATGATTGTTT
*
1050345 ATTTCTAGTGAAACA
1 -TTTCCAGTGAAACA
1050360 ATTTCAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 3 0.07
33 36 0.88
34 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TTTCCAGTGAAACAGACTCAAAGATGATTGTTT
Found at i:1051868 original size:6 final size:6
Alignment explanation
Indices: 1051853--1052023 Score: 75
Period size: 6 Copynumber: 26.8 Consensus size: 6
1051843 TCGTCCTGTT
* *
1051853 TTTTTGC TTTTTC TTTTTGATC TTTTT- TCTTTTC TTTTTGC TCTTTG
1 TTTTT-C TTTTTC -TTTT--TC TTTTTC T-TTTTC TTTTT-C TTTTTC
** * * *
1051900 TTACTC TTTTTA TATTTTC TCTTTAC TTTTTTC TTTTT- TTATTTC CTTTTC
1 TTTTTC TTTTTC T-TTTTC T-TTTTC -TTTTTC TTTTTC TT-TTTC TTTTTC
*
1051951 -TTTTC TTTTTC TTTTTC TTTTTGC TTTTT- TTTTAT- TTTCTC TTTGATT-
1 TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTT-TC TTTTTC TTT--TTC
*
1051999 TTTCTC TTTTTC TCTTTTC TCTTTT
1 TTTTTC TTTTTC T-TTTTC T-TTTT
1052024 TGCTCTGATT
Statistics
Matches: 128, Mismatches: 18, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
5 14 0.11
6 57 0.45
7 49 0.38
8 6 0.05
9 2 0.02
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:1051870 original size:7 final size:7
Alignment explanation
Indices: 1051860--1052024 Score: 77
Period size: 7 Copynumber: 22.6 Consensus size: 7
1051850 GTTTTTTTGC
1051860 TTTTTCT
1 TTTTTCT
1051867 TTTTGATCT
1 TTTT--TCT
1051876 TTTTTC-
1 TTTTTCT
1051882 -TTTTCT
1 TTTTTCT
1051888 TTTTGCTCT
1 TTTT--TCT
*
1051897 TTGTTACT
1 TT-TTTCT
*
1051905 CTTTTTAT
1 -TTTTTCT
*
1051913 ATTTTCT
1 TTTTTCT
* *
1051920 CTTTACT
1 TTTTTCT
1051927 TTTTTCT
1 TTTTTCT
1051934 TTTTT-T
1 TTTTTCT
* *
1051940 ATTTCCT
1 TTTTTCT
*
1051947 TTTCTTTT
1 TTT-TTCT
1051955 CTTTTTC-
1 -TTTTTCT
1051962 TTTTTCT
1 TTTTTCT
*
1051969 TTTTGCT
1 TTTTTCT
*
1051976 TTTTTTT
1 TTTTTCT
1051983 TATTTTCT
1 T-TTTTCT
* **
1051991 CTTTGAT
1 TTTTTCT
1051998 TTTTCTCT
1 TTTT-TCT
1052006 TTTTCTCT
1 TTTT-TCT
*
1052014 TTTCTCT
1 TTTTTCT
1052021 TTTT
1 TTTT
1052025 GCTCTGATTG
Statistics
Matches: 117, Mismatches: 27, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
5 5 0.04
6 10 0.09
7 57 0.49
8 26 0.22
9 17 0.15
10 2 0.02
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTCT
Found at i:1051878 original size:21 final size:21
Alignment explanation
Indices: 1051861--1052008 Score: 60
Period size: 20 Copynumber: 7.2 Consensus size: 21
1051851 TTTTTTTGCT
*
1051861 TTTTCTTTTTGATCTTTTTTC
1 TTTTCTTTTTGATCTTTTCTC
* *
1051882 TTTTCTTTTTGCTC-TTTGT-
1 TTTTCTTTTTGATCTTTTCTC
** *
1051901 TACTCTTTTT-ATATTTTCTC
1 TTTTCTTTTTGATCTTTTCTC
* *
1051921 TTTACTTTTT--TCTTTT-TT
1 TTTTCTTTTTGATCTTTTCTC
**
1051939 TATTTCCTTTTCTTTTCTTTT-TC
1 T-TTT-CTTTT-TGATCTTTTCTC
* * * *
1051962 TTTTTCTTTTTGCTTTTTTTTTA
1 -TTTTCTTTTTG-ATCTTTTCTC
*
1051985 TTTTCTCTTTGAT-TTTTCTC
1 TTTTCTTTTTGATCTTTTCTC
1052005 TTTT
1 TTTT
1052009 TCTCTTTTCT
Statistics
Matches: 96, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.03
19 19 0.20
20 25 0.26
21 16 0.17
22 21 0.22
23 11 0.11
24 1 0.01
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTGATCTTTTCTC
Found at i:1051958 original size:23 final size:24
Alignment explanation
Indices: 1051928--1051988 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
1051918 CTCTTTACTT
1051928 TTTTCTTTTT-TTATTTCCTTTT-C
1 TTTTCTTTTTCTT-TTTCCTTTTGC
*
1051951 TTTTCTTTTTCTTTTTCTTTTTGC
1 TTTTCTTTTTCTTTTTCCTTTTGC
*
1051975 TTTT-TTTTTATTTT
1 TTTTCTTTTTCTTTT
1051989 CTCTTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 27 0.79
24 7 0.21
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTCTTTTTCTTTTTCCTTTTGC
Found at i:1051959 original size:30 final size:30
Alignment explanation
Indices: 1051914--1051994 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
1051904 TCTTTTTATA
1051914 TTTTCTCTTTACTTTTTTCTTTTT-TTATTTCC
1 TTTTCT-TTT-CTTTTTTCTTTTTCTT-TTTCC
*
1051946 TTTTCTTTTC-TTTTTCTTTTTCTTTTTGC
1 TTTTCTTTTCTTTTTTCTTTTTCTTTTTCC
* * *
1051975 TTTTTTTTTATTTTCTCTTT
1 TTTTCTTTTCTTTTTTCTTT
1051995 GATTTTTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 23 0.53
30 11 0.26
31 3 0.07
32 6 0.14
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTCTTTTCTTTTTTCTTTTTCTTTTTCC
Found at i:1055625 original size:2 final size:2
Alignment explanation
Indices: 1055620--1055652 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1055610 ACAGACACAC
1055620 AT 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 AT A
1055653 AACTACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1057114 original size:16 final size:16
Alignment explanation
Indices: 1057093--1057135 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
1057083 TCTAGAAACA
1057093 TTCGGCGGTGGCTTTG
1 TTCGGCGGTGGCTTTG
*
1057109 TTCGGCGGTGACTTTG
1 TTCGGCGGTGGCTTTG
*
1057125 CTCGGCGGTGG
1 TTCGGCGGTGG
1057136 GAATCTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.02, C:0.21, G:0.44, T:0.33
Consensus pattern (16 bp):
TTCGGCGGTGGCTTTG
Found at i:1063827 original size:28 final size:27
Alignment explanation
Indices: 1063796--1063873 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 27
1063786 GATAACCCAT
1063796 TTATTTAATATTAAAAAATAAATAAATA
1 TTATTT-ATATTAAAAAATAAATAAATA
* *
1063824 TTA-TTAT-TTAAACAAATATATATATA
1 TTATTTATATTAAA-AAATAAATAAATA
*
1063850 -TATTTATA-TAAAATAATAATTAAA
1 TTATTTATATTAAAA-AATAAATAAA
1063874 GTAATAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
25 8 0.20
26 28 0.68
27 2 0.05
28 3 0.07
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TTATTTATATTAAAAAATAAATAAATA
Found at i:1065337 original size:3 final size:3
Alignment explanation
Indices: 1065329--1065384 Score: 85
Period size: 3 Copynumber: 18.0 Consensus size: 3
1065319 AATATTTATT
*
1065329 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TGTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1065376 TAA TAA TAA
1 TAA TAA TAA
1065385 AAGTAAACTG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 44 0.90
4 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1065618 original size:45 final size:45
Alignment explanation
Indices: 1065510--1066173 Score: 1159
Period size: 45 Copynumber: 14.8 Consensus size: 45
1065500 GATGGAAATG
*
1065510 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
1065556 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1065601 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1065646 TTGAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1065691 TTGAAAACATCATGCACTGAAGGGCTTACAGATTACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1065736 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
1065781 TTAAAAATATCATGCACTGAAGGGCTTACAGATGA-CCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1065825 TTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1065870 TTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * * *
1065915 TTGAAAATATCATGCACAGAAGGGCTTACAGATAACCTGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1065960 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
1066005 TTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
1066050 TTGAAAACATCATGCACCGAAGGGCTTACAGATGACCTGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1066095 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
1066140 TTGAAAACATCATGCACTGAATGACTTACAGATG
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATG
1066174 TGGGAAATAG
Statistics
Matches: 588, Mismatches: 29, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
44 43 0.07
45 503 0.86
46 42 0.07
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:1067309 original size:54 final size:54
Alignment explanation
Indices: 1067247--1067363 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
1067237 ATGTGACAAT
* *
1067247 ACATTCATCCTTTCTCGTGGCTTCTACCCGGAT-TTTCGTAAAGCTTTTGAAAAC
1 ACATTCATCCTTTCTCGTGGCTTCTACCCAGATGTTT-GTAAAGCATTTGAAAAC
* ** *
1067301 ACATTCATCCTTTCTTGTGGCTTCTTGCCAGATGTTTGTAAAGCATTTGACAAC
1 ACATTCATCCTTTCTCGTGGCTTCTACCCAGATGTTTGTAAAGCATTTGAAAAC
1067355 ACATTCATC
1 ACATTCATC
1067364 ATTTTATGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 53 0.95
55 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (54 bp):
ACATTCATCCTTTCTCGTGGCTTCTACCCAGATGTTTGTAAAGCATTTGAAAAC
Found at i:1075858 original size:2 final size:2
Alignment explanation
Indices: 1075845--1075882 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1075835 TTTTAAGAAA
1075845 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT 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
1075883 TATTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1077669 original size:3 final size:3
Alignment explanation
Indices: 1077661--1077740 Score: 108
Period size: 3 Copynumber: 26.0 Consensus size: 3
1077651 AATATTTATT
*
1077661 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TGTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
1077708 AAA TAA -AA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
1077741 AAGCAAACTG
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 59 0.86
4 8 0.12
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1085118 original size:44 final size:44
Alignment explanation
Indices: 1085055--1085189 Score: 234
Period size: 44 Copynumber: 3.1 Consensus size: 44
1085045 AAAACTACCT
1085055 GCCAAGAGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
1 GCCAAGAGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
*
1085099 GCCAAGCGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
1 GCCAAGAGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
* * *
1085143 GCCAAGGGTCATGCTGCCTGTGTTTAAGTAAACTCTAAGAATAA
1 GCCAAGAGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
1085187 GCC
1 GCC
1085190 TGTAGAAATC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
GCCAAGAGTCATGCTGCTTGTGTTTAAGTAAGCTCTAAGAATAA
Found at i:1096541 original size:21 final size:21
Alignment explanation
Indices: 1096516--1096570 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1096506 GAATCAACAT
*
1096516 GTCAACATCATAGACCACCAC
1 GTCAACATCATAAACCACCAC
**
1096537 GTCAACATTTTAAACCACCAC
1 GTCAACATCATAAACCACCAC
*
1096558 GTCAGCATCATAA
1 GTCAACATCATAA
1096571 TTATCAACGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.38, C:0.33, G:0.09, T:0.20
Consensus pattern (21 bp):
GTCAACATCATAAACCACCAC
Found at i:1096992 original size:15 final size:15
Alignment explanation
Indices: 1096951--1096993 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1096941 CGGATTAGTC
*
1096951 AATAATAGATAAAAT
1 AATAATAGATAAAAA
*
1096966 ATTAAT-GATAAAAA
1 AATAATAGATAAAAA
*
1096980 AATAATAGTTAAAA
1 AATAATAGATAAAA
1096994 TCGAAACTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AATAATAGATAAAAA
Found at i:1101677 original size:36 final size:36
Alignment explanation
Indices: 1101637--1101739 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1101627 ACAGTGCTGG
* *
1101637 ACATTGATACACGGATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
1101673 ACATTGATACACGAATATATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1101709 ACATTGATACACGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
1101740 ATAGATAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:1104446 original size:18 final size:18
Alignment explanation
Indices: 1104423--1104458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1104413 CTGCAAACTC
1104423 AATGTCCTTACACTTTAA
1 AATGTCCTTACACTTTAA
1104441 AATGTCCTTACACTTTAA
1 AATGTCCTTACACTTTAA
1104459 GTTCGCGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (18 bp):
AATGTCCTTACACTTTAA
Found at i:1109438 original size:16 final size:16
Alignment explanation
Indices: 1109417--1109447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1109407 AGTATCAAAC
*
1109417 AAACCTAGTTTTATTT
1 AAACCTAGTTATATTT
1109433 AAACCTAGTTATATT
1 AAACCTAGTTATATT
1109448 ATGTTTCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
AAACCTAGTTATATTT
Found at i:1109734 original size:20 final size:20
Alignment explanation
Indices: 1109709--1109764 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1109699 TATGACCCGA
1109709 AGTATCCGTACTCTTGAAAG
1 AGTATCCGTACTCTTGAAAG
*
1109729 AGTAT-CGATACTCTTGAAAT
1 AGTATCCG-TACTCTTGAAAG
**
1109749 AGTATCAATACTCTTG
1 AGTATCCGTACTCTTG
1109765 CCCAAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTATCCGTACTCTTGAAAG
Found at i:1110130 original size:41 final size:41
Alignment explanation
Indices: 1110005--1110745 Score: 398
Period size: 41 Copynumber: 18.0 Consensus size: 41
1109995 ATGTAATATA
* *
1110005 TCATCATTCAATTTGATT-GATCATGGTAGCATGCAATAAT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
** * ** * **
1110045 TCACCACTCAATTCAATTCAATTCAATCAAGACATCATATAATAGT
1 T---CA-TC-ATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * *
1110091 TTATCATTCAATTTGATTCGATCATAGTAGCATGCAATAGA
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * * *
1110132 TCATCATTCAACTTGATTCGATCATGGTAACATGCGATAAT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
** ** * * * **
1110173 TCAAT-ATTTGATTCAATTAAATCAAGGTAGTATATAATAGGT
1 TC-ATCATTCAATTTGATTCAATCATGGTAGCATGCAATA-GT
* * *
1110215 T-ATGC-TTCAATTTGATTCGATCATGGTAGAATGCAATAAT
1 TCAT-CATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * ** * * ** *
1110255 TCAATTATTTAATTCAATTCAATCAAGGTAGCTTATAATAAT
1 TC-ATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * * *
1110297 TTATCCTTCAATTTGGTTCGATCATGGTAGCATGCAATAGA
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* ** * * * ** *
1110338 TCATCATTCGATTCAATTCAATCAGGGCATCATATAATAGC
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
*
1110379 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATA-A
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* ** * **
1110419 TCAGACATT-ATATTCAATTCAATCAAGGTAGCATATAATAGT
1 TCA-TCATTCA-ATTTGATTCAATCATGGTAGCATGCAATAGT
* * * *
1110461 TTATCCTTCAATTTGATTCGATCATGGTAGCATGCAATAGA
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
** ** * * * **
1110502 TCATCATTTGATTCAATTCAATCAAGGCATCATATAATAGT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * * *
1110543 TCATCATACAAATTGATTCAATCATGGTATCATGTAATAAT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * ** * **
1110584 TTAACATTCGATTCAATTCAATCAAGGTAGCATATAATAGT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* * * * *
1110625 TTATCCTTCAATTTTATTCGATCATGGTAGCATGCAATAGA
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* *** * * * **
1110666 TCATCATTCGATACAACTCAATCATGGCATCATATAATAGT
1 TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
* *
1110707 TCATCA-TCTAATTGGATTCAATCATGGTGGCATGCAATA
1 TCATCATTC-AATTTGATTCAATCATGGTAGCATGCAATA
1110746 ACCAATTTAT
Statistics
Matches: 499, Mismatches: 184, Indels: 35
0.69 0.26 0.05
Matches are distributed among these distances:
40 11 0.02
41 419 0.84
42 38 0.08
43 3 0.01
44 2 0.00
45 11 0.02
46 15 0.03
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (41 bp):
TCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAGT
Found at i:1110230 original size:82 final size:81
Alignment explanation
Indices: 1110138--1110751 Score: 625
Period size: 82 Copynumber: 7.5 Consensus size: 81
1110128 TAGATCATCA
* * * *
1110138 TTCAACTTGATTCGATCATGGTAACATGCGATAATTCAATATTTGATTCAATTAAATCAAGGTAG
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAA-TCAATATTTGATTCAATTCAATCAAGGTAG
* *
1110203 TATATAATAGGTTATGC
65 TATATAATAGTTTATCC
* *
1110220 TTCAATTTGATTCGATCATGGTAGAATGCAATAATTCAATTATTTAATTCAATTCAATCAAGGTA
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAA-TCAA-TATTTGATTCAATTCAATCAAGGTA
*
1110285 GCT-TATAATAATTTATCC
64 G-TATATAATAGTTTATCC
* * * *
1110303 TTCAATTTGGTTCGATCATGGTAGCATGCAATAGATC-ATCATTCGATTCAATTCAATCAGGGCA
1 TTCAATTTGATTCGATCATGGTAGCATGCAATA-ATCAAT-ATTTGATTCAATTCAATCAAGGTA
* * *
1110367 -TCATATAATAGCTCATCA
64 GT-ATATAATAGTTTATCC
* *
1110385 TTCAATTTGATTCAATCATGGTAGCATGCAATAATCAGACATTAT-ATTCAATTCAATCAAGGTA
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAATCA-ATATT-TGATTCAATTCAATCAAGGTA
*
1110449 GCATATAATAGTTTATCC
64 GTATATAATAGTTTATCC
*
1110467 TTCAATTTGATTCGATCATGGTAGCATGCAATAGATC-ATCATTTGATTCAATTCAATCAAGGCA
1 TTCAATTTGATTCGATCATGGTAGCATGCAATA-ATCAAT-ATTTGATTCAATTCAATCAAGGTA
* *
1110531 -TCATATAATAGTTCATCA
64 GT-ATATAATAGTTTATCC
* * * * * * * *
1110549 TACAAATTGATTCAATCATGGTATCATGTAATAATTTAACATTCGATTCAATTCAATCAAGGTAG
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAA-TCAATATTTGATTCAATTCAATCAAGGTAG
*
1110614 CATATAATAGTTTATCC
65 TATATAATAGTTTATCC
* * * * * *
1110631 TTCAATTTTATTCGATCATGGTAGCATGCAATAGATC-ATCATTCGATACAACTCAATCATGGCA
1 TTCAATTTGATTCGATCATGGTAGCATGCAATA-ATCAAT-ATTTGATTCAATTCAATCAAGGTA
*
1110695 -TCATATAATAGTTCAT-C
64 GT-ATATAATAGTTTATCC
* * * * *
1110712 ATCTAATTGGATTCAATCATGGTGGCATGCAATAACCAAT
1 TTC-AATTTGATTCGATCATGGTAGCATGCAATAATCAAT
1110752 TTATTAATTA
Statistics
Matches: 443, Mismatches: 67, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
80 1 0.00
81 13 0.03
82 352 0.79
83 75 0.17
84 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (81 bp):
TTCAATTTGATTCGATCATGGTAGCATGCAATAATCAATATTTGATTCAATTCAATCAAGGTAGT
ATATAATAGTTTATCC
Found at i:1110490 original size:164 final size:163
Alignment explanation
Indices: 1110138--1110746 Score: 827
Period size: 164 Copynumber: 3.7 Consensus size: 163
1110128 TAGATCATCA
* * * * * *
1110138 TTCAACTTGATTCGATCATGGTAACATGCGATA-ATTCAAT-ATTTGATTCAATTAAATCAAGGT
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAGA-TC-ATCATTCGATTCAATTCAATCAAGGC
* * *
1110201 AGT-ATATAATAGGTT-ATGC-TTCAATTTGATTCGATCATGGTAGAATGCAATAATTCAATTAT
64 A-TCATATAATA-GTTCAT-CATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCAA-CAT
* *
1110263 TTAATTCAATTCAATCAAGGTAGCTTATAATAATTTATCC
125 TT-ATTCAATTCAATCAAGGTAGCATATAATAGTTTATCC
* *
1110303 TTCAATTTGGTTCGATCATGGTAGCATGCAATAGATCATCATTCGATTCAATTCAATCAGGGCAT
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAGATCATCATTCGATTCAATTCAATCAAGGCAT
*
1110368 CATATAATAGCTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAA-TCAGACATTATAT
66 CATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCA-ACATT-TAT
1110432 TCAATTCAATCAAGGTAGCATATAATAGTTTATCC
129 TCAATTCAATCAAGGTAGCATATAATAGTTTATCC
*
1110467 TTCAATTTGATTCGATCATGGTAGCATGCAATAGATCATCATTTGATTCAATTCAATCAAGGCAT
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAGATCATCATTCGATTCAATTCAATCAAGGCAT
* * * * * *
1110532 CATATAATAGTTCATCATACAAATTGATTCAATCATGGTATCATGTAATAATTTAACATTCGATT
66 CATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCAACATT-TATT
1110597 CAATTCAATCAAGGTAGCATATAATAGTTTATCC
130 CAATTCAATCAAGGTAGCATATAATAGTTTATCC
* * * *
1110631 TTCAATTTTATTCGATCATGGTAGCATGCAATAGATCATCATTCGATACAACTCAATCATGGCAT
1 TTCAATTTGATTCGATCATGGTAGCATGCAATAGATCATCATTCGATTCAATTCAATCAAGGCAT
* *
1110696 CATATAATAGTTCATCA-TCTAATTGGATTCAATCATGGTGGCATGCAATAA
66 CATATAATAGTTCATCATTC-AATTTGATTCAATCATGGTAGCATGCAATAA
1110747 CCAATTTATT
Statistics
Matches: 399, Mismatches: 36, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
163 1 0.00
164 300 0.75
165 97 0.24
166 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (163 bp):
TTCAATTTGATTCGATCATGGTAGCATGCAATAGATCATCATTCGATTCAATTCAATCAAGGCAT
CATATAATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCAACATTTATTC
AATTCAATCAAGGTAGCATATAATAGTTTATCC
Found at i:1112477 original size:68 final size:68
Alignment explanation
Indices: 1112399--1112561 Score: 265
Period size: 68 Copynumber: 2.4 Consensus size: 68
1112389 TTTCTATTAA
*
1112399 GTCCTTATCTAATTCAATTAGTTTAAATTTTAATTCTAA-TTGATTTTTATCTTAGGCAATTCAA
1 GTCCTTATCTAATTCAATTAGTTTAAATTTTAATTC-AACTTGATTTTTATCTTAGACAATTCAA
1112463 TTGG
65 TTGG
* * *
1112467 GTCCTTATCTAATTCAATTAATTTAAATTTTAATTCAACTTGGTTTTTATCTTAGACAATTCGAT
1 GTCCTTATCTAATTCAATTAGTTTAAATTTTAATTCAACTTGATTTTTATCTTAGACAATTCAAT
1112532 TGG
66 TGG
*
1112535 TTCCTTATCTAATTCAATTAGTTTAAA
1 GTCCTTATCTAATTCAATTAGTTTAAA
1112562 CTCTATTCAA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
67 2 0.02
68 86 0.98
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (68 bp):
GTCCTTATCTAATTCAATTAGTTTAAATTTTAATTCAACTTGATTTTTATCTTAGACAATTCAAT
TGG
Found at i:1114738 original size:65 final size:65
Alignment explanation
Indices: 1114605--1114763 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
1114595 GGACCCTTAG
* *
1114605 TGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGAATCGATGCATGGCTGG
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGAATCGATGCATAGCTGA
*
1114669 TGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGT-ACATCGATGCATAG-
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGA-ATCGATGCATAGC
*
1114730 TATA
63 T-GA
*
1114734 TGCATCGATGCATGAAATGCATTCGATGTT
1 TGCATCGATGCATAAAATGCATTCGATGTT
1114764 CAATTTATTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
64 30 0.35
65 52 0.61
66 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGAATCGATGCATAGCTGA
Found at i:1114803 original size:65 final size:63
Alignment explanation
Indices: 1114604--1114811 Score: 199
Period size: 65 Copynumber: 3.2 Consensus size: 63
1114594 TGGACCCTTA
* * * *
1114604 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGAATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCTGAGTGCATCGATGCATGGTTG
* * * *
1114668 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTCTGAGTACATCGATGCATAGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAAC-CTGAGTGCATCGATGCATGGT-
1114732 T-
62 TG
* * *
1114733 ATGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACC-TGAGTGCATCGATGCATGG-T
1114796 TG
62 TG
*
1114798 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1114812 CACTTTGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
63 4 0.03
64 48 0.41
65 65 0.55
66 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCTGAGTGCATCGATGCATGGTTG
Found at i:1117484 original size:23 final size:22
Alignment explanation
Indices: 1117458--1117537 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
1117448 GCATGACCTT
*
1117458 GTGCATCGATCCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * * *
1117480 CGTGCATTGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
1117502 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
1117524 ATGCATCGATGCAC
1 GTGCATCGATGCAC
1117538 TGTTAGGTGT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 14 0.32
22 16 0.36
23 14 0.32
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1117517 original size:44 final size:42
Alignment explanation
Indices: 1117462--1117556 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
1117452 GACCTTGTGC
* * * *
1117462 ATCGATCCACATTCAAGGCGTGCATTGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGT
*
1117506 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
1117548 ATCGATGCA
1 ATCGATGCA
1117557 TTAAGCACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 16 0.36
43 12 0.27
44 17 0.38
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
Found at i:1117553 original size:20 final size:21
Alignment explanation
Indices: 1117462--1117556 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
1117452 GACCTTGTGC
* *
1117462 ATCGATCCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* * * *
1117485 ATTGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
1117506 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
1117528 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
1117548 ATCGATGCA
1 ATCGATGCA
1117557 TTAAGCACAA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 11 0.19
21 21 0.37
22 14 0.25
23 11 0.19
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:1121371 original size:22 final size:21
Alignment explanation
Indices: 1121329--1121368 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1121319 GAGCTTATTT
*
1121329 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1121350 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1121369 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1123448 original size:64 final size:65
Alignment explanation
Indices: 1123330--1123473 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 65
1123320 TTGATGTATA
* * *
1123330 AAATGCATTCGATG-TTTCAAAATAGCTTGAGTGCATCGATGCATGGCTGGTGCATCGATGCATC
1 AAATGCATTCGATGTTTTCAAAATAGCTTGAGTGCATCGATGCATAGCTAGTGCATCAATGCATC
* * * *
1123394 AAATGTATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGTATAG-TATTGCATCAATTCA
1 AAATGCATTCGATGTTTTCA-AAATAGCT-TGAGTGCATCGATGCATAGCTAGTGCATCAATGCA
*
1123456 TG
64 TC
*
1123458 AAATGCATTCTATGTT
1 AAATGCATTCGATGTT
1123474 CAATTTATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 41 0.61
65 23 0.34
66 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (65 bp):
AAATGCATTCGATGTTTTCAAAATAGCTTGAGTGCATCGATGCATAGCTAGTGCATCAATGCATC
Found at i:1136619 original size:17 final size:18
Alignment explanation
Indices: 1136589--1136622 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1136579 TTTATCTCAA
*
1136589 TTTATTTTATTATTTATT
1 TTTATTTTAATATTTATT
1136607 TTTA-TTTAATATTTAT
1 TTTATTTTAATATTTAT
1136623 ATCATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTAATATTTATT
Found at i:1137306 original size:96 final size:96
Alignment explanation
Indices: 1137143--1137334 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
1137133 TTCGAGTGGT
1137143 GTTCTTAAGCCAATACTCAGCTATTCGGATTTATCTTCATTAGAACCAGTAAAAGTAAATTCCTG
1 GTTCTTAAGCCAATACTCAGCTATTCGGATTTATCTTCATTAGAACCAGTAAAAGTAAATTCCTG
1137208 GTGTTGGGCCAGCTTGTCGATA-GAGCCTTG
66 GTGTTGGGCCAGCTTGTCGATAGGAGCCTTG
1137238 GTTCTTAAGCCAATACTCAGCCTATTCGGATTTATCTTCATTAGAACCAGTAAAAGTAAATTCCT
1 GTTCTTAAGCCAATACTCAG-CTATTCGGATTTATCTTCATTAGAACCAGTAAAAGTAAATTCCT
1137303 GGTGTTGGGCCAGCTTGTCGATAGGAGCCTTG
65 GGTGTTGGGCCAGCTTGTCGATAGGAGCCTTG
1137335 TTAGGTACAA
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 20 0.21
96 67 0.71
97 8 0.08
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (96 bp):
GTTCTTAAGCCAATACTCAGCTATTCGGATTTATCTTCATTAGAACCAGTAAAAGTAAATTCCTG
GTGTTGGGCCAGCTTGTCGATAGGAGCCTTG
Found at i:1137750 original size:40 final size:40
Alignment explanation
Indices: 1137706--1138405 Score: 221
Period size: 41 Copynumber: 17.7 Consensus size: 40
1137696 CCTAGACTCG
*
1137706 ATCATGGTACATGCAGTAGATCATCATTCAACTTGATTCA
1 ATCATGGTACATGCAATAGATCATCATTCAACTTGATTCA
* * *
1137746 ATCATGGTAACATGCAGTACATCATAATTCAACTTGATTC-
1 ATCATGGT-ACATGCAATAGATCATCATTCAACTTGATTCA
* *
1137786 ATCATGGTAACATGCAATAGATCATCA-TCGA-TTCAATTCA
1 ATCATGGT-ACATGCAATAGATCATCATTCAACTT-GATTCA
* * ** * * * *
1137826 ATCAAGATA-ATATAATA-TTCATCATTTAATTTGATTCG
1 ATCATGGTACATGCAATAGATCATCATTCAACTTGATTCA
* *
1137864 ATCATGGTAGCATGC-ATAGATAATCATTCAAATTGATTC-
1 ATCATGGTA-CATGCAATAGATCATCATTCAACTTGATTCA
* * *
1137903 A--ATGGTAACATGC-ATA-ATTCAACATTCGA-TTCAATTCA
1 ATCATGGT-ACATGCAATAGA-TCATCATTCAACTT-GATTCA
* ** * * * * *
1137941 ATCAAGGTAGCATATAATAGTTTATCCTTCAATTTGATTCG
1 ATCATGGTA-CATGCAATAGATCATCATTCAACTTGATTCA
* * * *
1137982 ATCATGGTAGCATGCAATA-ATTCAACATTCGATTTAATTC-
1 ATCATGGTA-CATGCAATAGA-TCATCATTCAACTTGATTCA
* * ** * * * * *
1138022 AT-AAGTTAGCATATAATAGTTTATCCTTCAATTTGATTCG
1 ATCATGGTA-CATGCAATAGATCATCATTCAACTTGATTCA
* ** *
1138062 ATCATGGT--A-GCATTCA-ATCATCATTTGA-TTCATTCA
1 ATCATGGTACATGCAAT-AGATCATCATTCAACTTGATTCA
* ** * * *
1138098 ATCAAGGCATA-ATATAATAGTTCATCATTCAATTTGATCCA
1 ATCATGG--TACATGCAATAGATCATCATTCAACTTGATTCA
* * ** *
1138139 ATCATGGTAGCATGCAATA-ATTAGACATTTGA-TTCAATTCA
1 ATCATGGTA-CATGCAATAGATCA-TCATTCAACTT-GATTCA
* * * *
1138180 ATCAAGGTATCAT--ATATAG-TTATCCTTCAATTTGATTCA
1 ATCATGGTA-CATGCA-ATAGATCATCATTCAACTTGATTCA
* *
1138219 ATCATGGTAACATGCAATAGATCATCATTCAA-TTCAAATCA
1 ATCATGGT-ACATGCAATAGATCATCATTCAACTT-GATTCA
* * * *
1138260 ATCAAGG--CAT-CAATATAGTTCATCATTCAATTTGTTTCA
1 ATCATGGTACATGC-A-ATAGATCATCATTCAACTTGATTCA
** *
1138299 ATCATGGTAGCATGCAATA-AT--TCATTTGA-TTCAATTCA
1 ATCATGGTA-CATGCAATAGATCATCATTCAACTT-GATTCA
** * * * * * *
1138337 ATCA--GTAGCATATAATAGTTTATCCTTCAATTTAATTCG
1 ATCATGGTA-CATGCAATAGATCATCATTCAACTTGATTCA
1138376 ATCATGGTATCATGCAATAGATCATCATTC
1 ATCATGGTA-CATGCAATAGATCATCATTC
1138406 GATTCAATTC
Statistics
Matches: 481, Mismatches: 124, Indels: 109
0.67 0.17 0.15
Matches are distributed among these distances:
36 26 0.05
37 44 0.09
38 44 0.09
39 103 0.21
40 102 0.21
41 155 0.32
42 6 0.01
43 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (40 bp):
ATCATGGTACATGCAATAGATCATCATTCAACTTGATTCA
Found at i:1137923 original size:77 final size:76
Alignment explanation
Indices: 1137703--1137929 Score: 196
Period size: 77 Copynumber: 2.9 Consensus size: 76
1137693 AGTCCTAGAC
* *
1137703 TCGATCATGGTACATGCAGTAGATCATCATTCAACTTGATTCAATCATGGTAACATGCAGTACA-
1 TCGATCATGGTACATGCA-TAGATAATCATTCAAATTGATTC-A--ATGGTAACATGCA-TA-AT
*
1137767 TCATAATTCAACTTGAT
60 TCATCATTCAACTTGAT
* * * * *
1137784 TC-ATCATGGTAACATGCAATAGATCATCATCGATTC-AATTCAATCAA-GATAATAT-AAT-AT
1 TCGATCATGGT-ACATGC-ATAGAT-A--ATC-ATTCAAATTGATTCAATGGTAACATGCATAAT
* *
1137844 TCATCATTTAATTTGAT
60 TCATCATTCAACTTGAT
*
1137861 TCGATCATGGTAGCATGCATAGATAATCATTCAAATTGATTCAATGGTAACATGCATAATTCAAC
1 TCGATCATGGTA-CATGCATAGATAATCATTCAAATTGATTCAATGGTAACATGCATAATTCATC
1137926 ATTC
65 ATTC
1137930 GATTCAATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
73 4 0.03
74 12 0.10
75 6 0.05
76 4 0.03
77 32 0.28
78 14 0.12
79 1 0.01
80 14 0.12
81 14 0.12
82 1 0.01
83 1 0.01
84 9 0.08
85 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (76 bp):
TCGATCATGGTACATGCATAGATAATCATTCAAATTGATTCAATGGTAACATGCATAATTCATCA
TTCAACTTGAT
Found at i:1137987 original size:118 final size:117
Alignment explanation
Indices: 1137726--1137997 Score: 354
Period size: 118 Copynumber: 2.3 Consensus size: 117
1137716 ATGCAGTAGA
* * * * *
1137726 TCATCATTCAACTTGATTCAATCATGGTAACATGCAGTACATCATAATTCAACTTGATTCATCAT
1 TCATCATTCAATTTGATTCGATCATGGTAGCATGCAGTACATAATAATTCAAATTGATTCA-CAT
*
1137791 GGTAACATGCAATAGATCATCATCGATTCAATTCAATCAAGATAATATAATAT
65 GGTAACATGCAATAGATCAACATCGATTCAATTCAATCAAGATAATATAATAT
* * *
1137844 TCATCATTTAATTTGATTCGATCATGGTAGCATGCA-TAGATAATCATTCAAATTGATTCA-ATG
1 TCATCATTCAATTTGATTCGATCATGGTAGCATGCAGTACATAATAATTCAAATTGATTCACATG
*
1137907 GTAACATGC-ATA-ATTCAACATTCGATTCAATTCAATCAAGGTAGCATATAATAGT
66 GTAACATGCAATAGA-TCAACA-TCGATTCAATTCAATCAAGATA--ATATAATA-T
* *
1137962 TTATCCTTCAATTTGATTCGATCATGGTAGCATGCA
1 TCATCATTCAATTTGATTCGATCATGGTAGCATGCA
1137998 ATAATTCAAC
Statistics
Matches: 136, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
113 1 0.01
114 8 0.06
115 33 0.24
117 28 0.21
118 66 0.49
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (117 bp):
TCATCATTCAATTTGATTCGATCATGGTAGCATGCAGTACATAATAATTCAAATTGATTCACATG
GTAACATGCAATAGATCAACATCGATTCAATTCAATCAAGATAATATAATAT
Found at i:1138051 original size:80 final size:82
Alignment explanation
Indices: 1137904--1138476 Score: 641
Period size: 80 Copynumber: 7.2 Consensus size: 82
1137894 AATTGATTCA
* *
1137904 ATGGTAACATGC-ATAATTCAACATTCGATTCAATTCAATCAAGGTAGCATATAATAGTTTATCC
1 ATGGTAGCATGCAATAATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATCC
*
1137968 TTCAATTTGATTCGATC
66 TTCAATTTGATTCAATC
* * *
1137985 ATGGTAGCATGCAATAATTCAACATTCGATTTAATTC-AT-AAGTTAGCATATAATAGTTTATCC
1 ATGGTAGCATGCAATAATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATCC
*
1138048 TTCAATTTGATTCGATC
66 TTCAATTTGATTCAATC
* * * * * * *
1138065 ATGGTAGCATTC---AA-TCATCATTTGATTC-ATTCAATCAAGGCATAATATAATAGTTCATCA
1 ATGGTAGCATGCAATAATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATCC
*
1138125 TTCAATTTGATCCAATC
66 TTCAATTTGATTCAATC
*
1138142 ATGGTAGCATGCAATAATT-AGACATTTGATTCAATTCAATCAAGGTATCATAT-ATAG-TTATC
1 ATGGTAGCATGCAATAATTCA-ACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATC
1138204 CTTCAATTTGATTCAATC
65 CTTCAATTTGATTCAATC
* * * * * *
1138222 ATGGTAACATGCAATAGA-TCATCATTCAATTCAAATCAATCAAGGCATCA-AT-ATAGTTCATC
1 ATGGTAGCATGCAATA-ATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATC
* *
1138284 ATTCAATTTGTTTCAATC
65 CTTCAATTTGATTCAATC
* *
1138302 ATGGTAGCATGCAATAATT---CATTTGATTCAATTCAATC-A-GTAGCATATAATAGTTTATCC
1 ATGGTAGCATGCAATAATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATCC
* *
1138362 TTCAATTTAATTCGATC
66 TTCAATTTGATTCAATC
* * * *
1138379 ATGGTATCATGCAATAGA-TCATCATTCGATTCAATTC-ATCAA-GTCATCATATAATAATTCAT
1 ATGGTAGCATGCAATA-ATTCAACATTCGATTCAATTCAATCAAGGT-ATCATATAATAGTTTAT
* * *
1138441 CATCCAATTGGATTCAATC
64 CCTTCAATTTGATTCAATC
1138460 ATGGTAGCATGCAATAA
1 ATGGTAGCATGCAATAA
1138477 CCAATTTATC
Statistics
Matches: 418, Mismatches: 53, Indels: 43
0.81 0.10 0.08
Matches are distributed among these distances:
75 8 0.02
76 16 0.04
77 101 0.24
78 1 0.00
79 10 0.02
80 168 0.40
81 73 0.17
82 41 0.10
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (82 bp):
ATGGTAGCATGCAATAATTCAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTTATCC
TTCAATTTGATTCAATC
Found at i:1138104 original size:157 final size:159
Alignment explanation
Indices: 1137904--1138476 Score: 738
Period size: 157 Copynumber: 3.6 Consensus size: 159
1137894 AATTGATTCA
* * * * *
1137904 ATGGTAACATGCATA-ATTCAACATTCGATTCAATTCAATCAAGGTAGCATATAATAGTTTATCC
1 ATGGTAACATGCA-AGA-TCATCATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATCA
* * *
1137968 TTCAATTTGATTCGATCATGGTAGCATGCAATAATTCAACATTCGATTTAATTC-ATAAGTTAGC
64 TTCAATTTGATTCAATCATGGTAGCATGCAATAATT-AACATTTGATTCAATTCAATAAG-TAGC
1138032 ATATAATAGTTTATCCTTCAATTTGATTCGATC
127 ATATAATAGTTTATCCTTCAATTTGATTCGATC
* * * *
1138065 ATGGTAGCATTC-A-ATCATCATTTGATTC-ATTCAATCAAGGCATAATATAATAGTTCATCATT
1 ATGGTAACATGCAAGATCATCATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATCATT
* *
1138127 CAATTTGATCCAATCATGGTAGCATGCAATAATTAGACATTTGATTCAATTCAATCAAGGTATCA
66 CAATTTGATTCAATCATGGTAGCATGCAATAATTA-ACATTTGATTCAATTCAAT-AA-GTAGCA
*
1138192 TAT-ATAG-TTATCCTTCAATTTGATTCAATC
128 TATAATAGTTTATCCTTCAATTTGATTCGATC
* *
1138222 ATGGTAACATGCAATAGATCATCATTCAATTCAAATCAATCAAGGCATCA-AT-ATAGTTCATCA
1 ATGGTAACATGC-A-AGATCATCATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATCA
* *
1138285 TTCAATTTGTTTCAATCATGGTAGCATGCAATAATT--CATTTGATTCAATTCAATCAGTAGCAT
64 TTCAATTTGATTCAATCATGGTAGCATGCAATAATTAACATTTGATTCAATTCAATAAGTAGCAT
*
1138348 ATAATAGTTTATCCTTCAATTTAATTCGATC
129 ATAATAGTTTATCCTTCAATTTGATTCGATC
* * *
1138379 ATGGTATCATGCAATAGATCATCATTCGATTCAATTC-ATCAAGTCATCATATAATAATTCATCA
1 ATGGTAACATGC-A-AGATCATCATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATCA
* *
1138443 TCCAATTGGATTCAATCATGGTAGCATGCAATAA
64 TTCAATTTGATTCAATCATGGTAGCATGCAATAA
1138477 CCAATTTATC
Statistics
Matches: 364, Mismatches: 35, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
155 8 0.02
156 17 0.05
157 182 0.50
158 59 0.16
159 11 0.03
160 47 0.13
161 25 0.07
162 15 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (159 bp):
ATGGTAACATGCAAGATCATCATTCGATTCAATTCAATCAAGGCATCATATAATAGTTCATCATT
CAATTTGATTCAATCATGGTAGCATGCAATAATTAACATTTGATTCAATTCAATAAGTAGCATAT
AATAGTTTATCCTTCAATTTGATTCGATC
Found at i:1138225 original size:237 final size:236
Alignment explanation
Indices: 1137904--1138476 Score: 685
Period size: 237 Copynumber: 2.4 Consensus size: 236
1137894 AATTGATTCA
*
1137904 ATGGTAACATGC-ATAATTCAACATTCGATTCAATTCAATCAAGGTAGCATATAATAGTTTATCC
1 ATGGTAACATGCAATAATT-AACATTCGATTCAATTCAATCAAGGTATCATATAATAG-TTATCC
* * * * **
1137968 TTCAATTTGATTCGATCATGGTAGCATGCAATAATTCAACATTCGATTTAATTC-AT-AAGTTAG
64 TTCAATTTGATTCAATCATGGTAGCATGCAATAA-TCAACATTCAATTCAAATCAATCAAGGCAG
* * * * *
1138031 CATATAATAGTTTATCCTTCAATTTGATTCGATCATGGTAGCATTCAATCA-TCATTTGATTC-A
128 CA-AT-ATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCATTTGATTCAA
* *
1138094 TTCAATCAAGGCATAATATAATAGTTCATCATTCAATTTGATCCAATC
191 TTCAATC-A-GCAGAATATAATAGTTCATCATTCAATTTAATCCAATC
* *
1138142 ATGGTAGCATGCAATAATTAGACATTTGATTCAATTCAATCAAGGTATCATAT-ATAGTTATCCT
1 ATGGTAACATGCAATAATTA-ACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTATCCT
* * *
1138206 TCAATTTGATTCAATCATGGTAACATGCAATAGATCATCATTCAATTCAAATCAATCAAGGCATC
65 TCAATTTGATTCAATCATGGTAGCATGCAATA-ATCAACATTCAATTCAAATCAATCAAGGCAGC
*
1138271 AATATAGTTCATCATTCAATTTGTTTCAATCATGGTAGCATGCAATAATTCATTTGATTCAATTC
129 AATATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCATTTGATTCAATTC
* * * * * *
1138336 AATCAGTAGCATATAATAGTTTATCCTTCAATTTAATTCGATC
194 AATCAGCAGAATATAATAGTTCATCATTCAATTTAATCCAATC
* * * *
1138379 ATGGTATCATGCAATAGATCATCATTCGATTCAATTC-ATCAA-GTCATCATATAATAATTCATC
1 ATGGTAACATGCAATA-ATTAACATTCGATTCAATTCAATCAAGGT-ATCATATAATAGTT-ATC
* * *
1138442 ATCCAATTGGATTCAATCATGGTAGCATGCAATAA
63 CTTCAATTTGATTCAATCATGGTAGCATGCAATAA
1138477 CCAATTTATC
Statistics
Matches: 289, Mismatches: 35, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
235 2 0.01
236 12 0.04
237 156 0.54
238 69 0.24
239 50 0.17
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (236 bp):
ATGGTAACATGCAATAATTAACATTCGATTCAATTCAATCAAGGTATCATATAATAGTTATCCTT
CAATTTGATTCAATCATGGTAGCATGCAATAATCAACATTCAATTCAAATCAATCAAGGCAGCAA
TATAGTTCATCATTCAATTTGATTCAATCATGGTAGCATGCAATAATTCATTTGATTCAATTCAA
TCAGCAGAATATAATAGTTCATCATTCAATTTAATCCAATC
Found at i:1138579 original size:20 final size:20
Alignment explanation
Indices: 1138554--1138599 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1138544 TTTTAAGACT
1138554 TAATTTCATTATTAACATAC
1 TAATTTCATTATTAACATAC
1138574 TAATTTCATTATTAACATAC
1 TAATTTCATTATTAACATAC
1138594 TAATTT
1 TAATTT
1138600 AATAAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATTTCATTATTAACATAC
Found at i:1140207 original size:68 final size:67
Alignment explanation
Indices: 1140094--1140250 Score: 244
Period size: 68 Copynumber: 2.3 Consensus size: 67
1140084 ATTCAATTAG
1140094 TTTAATTCAACTTGGTTTTTATCTTAGGCAATTCAATTGAGTCCTTATCTAATTCAATTAATTTA
1 TTTAATTCAACTTGGTTTTTATCTTAGGCAATTCAATTGAGTCCTTATCT-ATTCAATTAATTTA
1140159 AAT
65 AAT
* *
1140162 TTTAATTCAACCTGGTTTTTATCTTAGGCAATTCGATTG-GATCCTTATCTATTCAATTAATTTA
1 TTTAATTCAACTTGGTTTTTATCTTAGGCAATTCAATTGAG-TCCTTATCTATTCAATTAATTTA
1140226 AAT
65 AAT
* * *
1140229 CTCAATTCAATTTGGTTTTTAT
1 TTTAATTCAACTTGGTTTTTAT
1140251 ATCCTAGGAA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
67 36 0.44
68 46 0.56
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (67 bp):
TTTAATTCAACTTGGTTTTTATCTTAGGCAATTCAATTGAGTCCTTATCTATTCAATTAATTTAA
AT
Found at i:1141054 original size:22 final size:21
Alignment explanation
Indices: 1141029--1141069 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1141019 TTAAAAATTA
1141029 TAAAGGTAGTACCGATACTCAT
1 TAAAGG-AGTACCGATACTCAT
*
1141051 TAAAGGAGTACTGATACTC
1 TAAAGGAGTACCGATACTC
1141070 TCTCCTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGGAGTACCGATACTCAT
Found at i:1142240 original size:4 final size:4
Alignment explanation
Indices: 1142231--1142259 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1142221 GTCCACGTGA
1142231 AAAT AAAT AAAT -AAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1142260 GACAAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1142251 original size:15 final size:15
Alignment explanation
Indices: 1142231--1142259 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1142221 GTCCACGTGA
1142231 AAATAAATAAATAAT
1 AAATAAATAAATAAT
1142246 AAATAAATAAATAA
1 AAATAAATAAATAA
1142260 GACAAATTAG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:1146671 original size:25 final size:25
Alignment explanation
Indices: 1146640--1146690 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1146630 AAACCAACCC
1146640 TATGCTCCATTTTAATATAAAACTA
1 TATGCTCCATTTTAATATAAAACTA
1146665 TATGCTCCATTTTAATATAAAACTA
1 TATGCTCCATTTTAATATAAAACTA
1146690 T
1 T
1146691 CCTTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TATGCTCCATTTTAATATAAAACTA
Found at i:1146889 original size:2 final size:2
Alignment explanation
Indices: 1146882--1146909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1146872 TTAATAAGAA
1146882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1146910 TGCTATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1147465 original size:144 final size:146
Alignment explanation
Indices: 1147225--1147518 Score: 540
Period size: 144 Copynumber: 2.0 Consensus size: 146
1147215 GTGTGATTAC
1147225 AACATTAATATTTATTAAAAAAATTAATTATTAACAATGTTGAGATAGATTACATTTGAACATGA
1 AACATTAATATTTATTAAAAAAATTAATTATTAACAATGTT-AGA-AGATTACATTTGAACATGA
1147290 ATCTTATAAAGAGAACAACAATATCTTTTATAGTTGAAATAAATTTTCTTTC-TTTTTTTTAAAT
64 ATCTTATAAAGAGAACAACAATATCTTTTATAGTTGAAATAAATTTTCTTTCTTTTTTTTTAAAT
1147354 TTTTTCTTTAGTTATCTA
129 TTTTTCTTTAGTTATCTA
1147372 AACATTAATATTTATTAAAAAAATTAATTATTAACAATGTT-G-AGATTACATTTTGAACATGAA
1 AACATTAATATTTATTAAAAAAATTAATTATTAACAATGTTAGAAGATTACA-TTTGAACATGAA
1147435 TCTTATAAAGAGAACAACAATATCTTTTATAGTTGAAATAAATTTTCTTTCTTTTTTTTTAAATT
65 TCTTATAAAGAGAACAACAATATCTTTTATAGTTGAAATAAATTTTCTTTCTTTTTTTTTAAATT
1147500 TTTTCTTTAGTTATCTA
130 TTTTCTTTAGTTATCTA
1147517 AA
1 AA
1147519 TTATTAATGT
Statistics
Matches: 145, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
143 8 0.06
144 63 0.43
145 33 0.23
147 41 0.28
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (146 bp):
AACATTAATATTTATTAAAAAAATTAATTATTAACAATGTTAGAAGATTACATTTGAACATGAAT
CTTATAAAGAGAACAACAATATCTTTTATAGTTGAAATAAATTTTCTTTCTTTTTTTTTAAATTT
TTTCTTTAGTTATCTA
Found at i:1153235 original size:110 final size:110
Alignment explanation
Indices: 1153029--1153239 Score: 404
Period size: 110 Copynumber: 1.9 Consensus size: 110
1153019 ATCGAGCCTA
1153029 AAAATTGGTATCAGAGCGGGTCACAATCGACGGTTTAACAACCTTGTGAAGATCCTTGAAGATCT
1 AAAATTGGTATCAGAGCGGGTCACAATCGACGGTTTAACAACCTTGTGAAGATCCTTGAAGATCT
1153094 CTATCAATTTTAGCTCGAGAATATGGTTTTTTCTCTGAAGCTCCT
66 CTATCAATTTTAGCTCGAGAATATGGTTTTTTCTCTGAAGCTCCT
1153139 AAAATTGGTATCAGAGCGGGTCACAATCGACGGTTTAACAACCTTGTGAAGATCCTTGAAGATCT
1 AAAATTGGTATCAGAGCGGGTCACAATCGACGGTTTAACAACCTTGTGAAGATCCTTGAAGATCT
*
1153204 CTATCAATTTTTGGCTCGAGAATATGGTTTTTTCTC
66 CTATCAA-TTTTAGCTCGAGAATATGGTTTTTTCTC
1153240 CCGAGCTTAC
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 72 0.73
111 27 0.27
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (110 bp):
AAAATTGGTATCAGAGCGGGTCACAATCGACGGTTTAACAACCTTGTGAAGATCCTTGAAGATCT
CTATCAATTTTAGCTCGAGAATATGGTTTTTTCTCTGAAGCTCCT
Found at i:1157282 original size:31 final size:32
Alignment explanation
Indices: 1157231--1157318 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 32
1157221 CAGAGGTCAT
* *
1157231 AAAGAACCTCGG-CAACTGTCCATA-GGTCCC
1 AAAGAACCTAGGTAAACTGTCCATATGGTCCC
* *
1157261 AAAGAACCTAGGTAAACTGTCCATATGTTCCT
1 AAAGAACCTAGGTAAACTGTCCATATGGTCCC
* * *
1157293 TAA-AACATAGGTATACTGTCCATATG
1 AAAGAACCTAGGTAAACTGTCCATATG
1157319 TCTTGAAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 11 0.22
31 32 0.65
32 6 0.12
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (32 bp):
AAAGAACCTAGGTAAACTGTCCATATGGTCCC
Found at i:1157319 original size:31 final size:31
Alignment explanation
Indices: 1157269--1157338 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
1157259 CCAAAGAACC
1157269 TAGGTAAACTGTCCATATGTTCCTT-AAA-ACA
1 TAGGTAAACTGTCCATATG-T-CTTGAAAGACA
*
1157300 TAGGTATACTGTCCATATGTCTTGAAAGACA
1 TAGGTAAACTGTCCATATGTCTTGAAAGACA
1157331 TAGGTAAA
1 TAGGTAAA
1157339 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.09
30 4 0.11
31 28 0.80
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (31 bp):
TAGGTAAACTGTCCATATGTCTTGAAAGACA
Found at i:1158104 original size:64 final size:65
Alignment explanation
Indices: 1157993--1158141 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
1157983 TCTTTCAATG
* * * *
1157993 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
1158057 A
65 A
* * *
1158058 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
1158121 A
65 A
1158122 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
1158142 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:1161431 original size:30 final size:30
Alignment explanation
Indices: 1161372--1161460 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
1161362 CCCGAAGGAC
* *
1161372 CTATCCAGAGGTCACACAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
* *
1161401 CTATCCAGAGGTTATAAAGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
* * * *
1161431 CTGTCCATAGGTCCCAAAGAACCTAGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGTAA
1161461 ACTGTCCATA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGTAA
Found at i:1161467 original size:31 final size:31
Alignment explanation
Indices: 1161416--1161523 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
1161406 CAGAGGTTAT
* * *
1161416 AAAGAACCTCGGT-AACTGTCCATAGGTCCC
1 AAAGAACATAGGTAAACTGTCCATATGTCCC
* *
1161446 AAAGAACCTAGGTAAACTGTCCATATGTTCC
1 AAAGAACATAGGTAAACTGTCCATATGTCCC
** * *
1161477 TTAGAACATAGGTATACTGTCCATATGTCTCG
1 AAAGAACATAGGTAAACTGTCCATATGTC-CC
1161509 AAAG-ACATAGGTAAA
1 AAAGAACATAGGTAAA
1161524 ACCCTCGACT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 12 0.19
31 49 0.77
32 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGAACATAGGTAAACTGTCCATATGTCCC
Found at i:1162289 original size:64 final size:65
Alignment explanation
Indices: 1162178--1162326 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
1162168 TCTTTCAATG
* * * *
1162178 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
1162242 A
65 A
* * *
1162243 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
1162306 A
65 A
1162307 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
1162327 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:1165340 original size:15 final size:15
Alignment explanation
Indices: 1165316--1165367 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
1165306 TTTTTTTTTC
1165316 TTTTTCTTTCGAACAG
1 TTTTT-TTTCGAACAG
*
1165332 TTTTTTTTCGAACTG
1 TTTTTTTTCGAACAG
*
1165347 CTATTTTTTC-AACA-
1 -TTTTTTTTCGAACAG
1165361 TTTTTTT
1 TTTTTTT
1165368 GTGATGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 6 0.19
15 12 0.39
16 13 0.42
ACGTcount: A:0.17, C:0.15, G:0.08, T:0.60
Consensus pattern (15 bp):
TTTTTTTTCGAACAG
Found at i:1175118 original size:29 final size:30
Alignment explanation
Indices: 1175042--1175119 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
1175032 TCGGATTTAG
* *
1175042 AAAGTTAAATTGAA-ATTTTATCTAAAATTC
1 AAAGTCAAATT-AATATTTCATCTAAAATTC
*
1175072 AAGAGTCAAATTAGTATTTCATCTAAAATT-
1 AA-AGTCAAATTAATATTTCATCTAAAATTC
*
1175102 TAAGTCAAATTAATATTT
1 AAAGTCAAATTAATATTT
1175120 TTTTTAAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 15 0.37
30 4 0.10
31 22 0.54
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (30 bp):
AAAGTCAAATTAATATTTCATCTAAAATTC
Found at i:1176978 original size:22 final size:22
Alignment explanation
Indices: 1176937--1176979 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1176927 CACGATAACA
***
1176937 ATATTTTAAAATTTTTATTAAG
1 ATATTTTAAAATTAAGATTAAG
1176959 ATATTTTAAAATTAAGATTAA
1 ATATTTTAAAATTAAGATTAA
1176980 TTTAAGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATATTTTAAAATTAAGATTAAG
Found at i:1181953 original size:29 final size:28
Alignment explanation
Indices: 1181920--1181976 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
1181910 TTTGGGTTTG
*
1181920 AATTTAGTAAAAATTCAATTTAGTTCCCA
1 AATTTAATAAAAATTCAATTTAG-TCCCA
*
1181949 AATTTAATATAAATTCAATTTAGTCCCA
1 AATTTAATAAAAATTCAATTTAGTCCCA
1181977 TAATAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (28 bp):
AATTTAATAAAAATTCAATTTAGTCCCA
Found at i:1184936 original size:32 final size:32
Alignment explanation
Indices: 1184891--1185012 Score: 165
Period size: 32 Copynumber: 3.8 Consensus size: 32
1184881 ACCAGATACT
**
1184891 AGTCAAGT-TTACATTCAGATAATGCACAAAAG
1 AGTC-AGTGTTACATTCAGATAATGCACAGTAG
* * *
1184923 AGTTAGTGTTACATTCAAATAATGCACAGTAT
1 AGTCAGTGTTACATTCAGATAATGCACAGTAG
*
1184955 AGTCAGTGTTGCATTCAGATAATGCACAGTAG
1 AGTCAGTGTTACATTCAGATAATGCACAGTAG
*
1184987 AGTCAGTGTTGCATTCAGATAATGCA
1 AGTCAGTGTTACATTCAGATAATGCA
1185013 TAAGAGTTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 3 0.04
32 77 0.96
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (32 bp):
AGTCAGTGTTACATTCAGATAATGCACAGTAG
Found at i:1185025 original size:32 final size:30
Alignment explanation
Indices: 1184902--1185033 Score: 108
Period size: 32 Copynumber: 4.1 Consensus size: 30
1184892 GTCAAGTTTA
*
1184902 CATTCAGATAATGCACAAAAGAGTT-AGTGTTA
1 CATTCAGATAATG--C-AAAGAGTTCAGTGTTG
* *
1184934 CATTCAAATAATGCACAGTA-TAGTCAGTGTTG
1 CATTCAGATAATGCAAAG-AGT--TCAGTGTTG
1184966 CATTCAGATAATGCACAGTAGAG-TCAGTGTTG
1 CATTCAGATAATGCA-A--AGAGTTCAGTGTTG
*
1184998 CATTCAGATAATGCATAAGAGTTTCAGTGTCG
1 CATTCAGATAATGCA-AAGAG-TTCAGTGTTG
1185030 CATT
1 CATT
1185034 TAAAGAATCC
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
29 4 0.05
30 6 0.07
31 1 0.01
32 69 0.83
34 1 0.01
35 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (30 bp):
CATTCAGATAATGCAAAGAGTTCAGTGTTG
Found at i:1185025 original size:64 final size:64
Alignment explanation
Indices: 1184902--1185033 Score: 160
Period size: 64 Copynumber: 2.1 Consensus size: 64
1184892 GTCAAGTTTA
* * *
1184902 CATTCAGATAATGCACAAAAGAGTTAGTGTTACATTCAAATAATGCACAGTATAGTCAGTGTTG
1 CATTCAGATAATGCACAAAAGAGTCAGTGTTACATTCAAATAATGCAAAGTATAGTCAGTGTCG
** * * *
1184966 CATTCAGATAATGCACAGTAGAGTCAGTGTTGCATTCAGATAATGCATAAG-AGT-TTCAGTGTC
1 CATTCAGATAATGCACAAAAGAGTCAGTGTTACATTCAAATAATGCA-AAGTA-TAGTCAGTGTC
1185029 G
64 G
1185030 CATT
1 CATT
1185034 TAAAGAATCC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 55 0.95
65 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (64 bp):
CATTCAGATAATGCACAAAAGAGTCAGTGTTACATTCAAATAATGCAAAGTATAGTCAGTGTCG
Found at i:1197685 original size:3 final size:3
Alignment explanation
Indices: 1197677--1197719 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
1197667 TTTGATTATT
1197677 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC
1197720 CTTTTGAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1199054 original size:2 final size:2
Alignment explanation
Indices: 1199047--1199073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1199037 ATGCCATCTC
1199047 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 A
1199074 ATTTAGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1203226 original size:10 final size:10
Alignment explanation
Indices: 1203207--1203239 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
1203197 TTTTGTCCCA
1203207 TTCCTTTCAT
1 TTCCTTTCAT
*
1203217 TTCCTCTCAT
1 TTCCTTTCAT
1203227 TTCCTTTCAT
1 TTCCTTTCAT
1203237 TTC
1 TTC
1203240 AATCCAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (10 bp):
TTCCTTTCAT
Found at i:1203453 original size:21 final size:21
Alignment explanation
Indices: 1203423--1203479 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1203413 GATTCTGACT
**
1203423 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATAGTCCAAA
* *
1203444 TTCGCGTTGCGATAGTCCAAA
1 ATCGCATTGCGATAGTCCAAA
1203465 ATCGCATTGCGATAG
1 ATCGCATTGCGATAG
1203480 CACTGTTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCCAAA
Found at i:1203495 original size:21 final size:21
Alignment explanation
Indices: 1203471--1203510 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1203461 CAAAATCGCA
1203471 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
1203492 TTGCGATAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
1203511 ATTGCGAATT
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:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:1204227 original size:21 final size:21
Alignment explanation
Indices: 1204193--1204264 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
1204183 ATTTTGATCA
*
1204193 CTATCGCAATGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
*
1204214 CTATCACAACGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
*
1204235 CTATCGCAACGCTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
1204256 CTATCGCAA
1 CTATCGCAA
1204265 TGCGATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.21
Consensus pattern (21 bp):
CTATCGCAACGGTGAACAGTG
Found at i:1206249 original size:25 final size:27
Alignment explanation
Indices: 1206214--1206278 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 27
1206204 AGATAAGTAC
1206214 AAAATATATATTTTATATTACATTAATAA
1 AAAATATATATTTTATATTACATT-A-AA
*
1206243 AAAATATATATTTTTATATTATATTAAA
1 AAAATATATA-TTTTATATTACATTAAA
1206271 AAAA-ATAT
1 AAAATATAT
1206279 TTAAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 11 0.32
30 13 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATATTTTATATTACATTAAA
Found at i:1206254 original size:29 final size:29
Alignment explanation
Indices: 1206214--1206278 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 29
1206204 AGATAAGTAC
1206214 AAAATATATA-TTTTATATTACATTAATAA
1 AAAATATATATTTTTATATTACATTAA-AA
*
1206243 AAAATATATATTTTTATATTATATTAAAA
1 AAAATATATATTTTTATATTACATTAAAA
1206272 AAAATAT
1 AAAATAT
1206279 TTAAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAATATATATTTTTATATTACATTAAAA
Found at i:1206313 original size:14 final size:13
Alignment explanation
Indices: 1206281--1206323 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1206271 AAAAATATTT
*
1206281 AAATATATTTAAA
1 AAATATTTTTAAA
*
1206294 TTAATATGTTTTAAA
1 -AAATAT-TTTTAAA
1206309 AAATATTTTTAAA
1 AAATATTTTTAAA
1206322 AA
1 AA
1206324 TTAAGATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.36
14 10 0.40
15 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
AAATATTTTTAAA
Found at i:1206393 original size:31 final size:30
Alignment explanation
Indices: 1206340--1206408 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
1206330 TAAGAACAAG
* *
1206340 ATATATTTTTAAGTGAAGATAAAGATAAAAT
1 ATATATTTTTAAGTGAAAATAAAAAT-AAAT
*
1206371 ATATATTTTTACA-TTAAAATAAAAATAAAT
1 ATATATTTTTA-AGTGAAAATAAAAATAAAT
1206401 -TATATTTT
1 ATATATTTT
1206409 ATAGGCTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.24
30 4 0.12
31 21 0.62
32 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (30 bp):
ATATATTTTTAAGTGAAAATAAAAATAAAT
Found at i:1206574 original size:43 final size:42
Alignment explanation
Indices: 1206481--1206580 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
1206471 TTAAGAATTT
*
1206481 AGATATAT-AAAATTTATTAAGTTTGAGTAACATATTTATTA
1 AGATATATAAAAATTTATTAAGTTTGAGTAAAATATTTATTA
* ** *
1206522 CGAGGTATAAAAATATTATTAATTTTGAGTAAAATATTTATTA
1 AGATATATAAAAAT-TTATTAAGTTTGAGTAAAATATTTATTA
1206565 AGATATAT-AAAATTTA
1 AGATATATAAAAATTTA
1206581 AATAAGATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 8 0.16
42 10 0.20
43 31 0.63
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (42 bp):
AGATATATAAAAATTTATTAAGTTTGAGTAAAATATTTATTA
Found at i:1207397 original size:18 final size:18
Alignment explanation
Indices: 1207350--1207404 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
1207340 TTATAACATA
1207350 AAAAATTAATTCAAATAT
1 AAAAATTAATTCAAATAT
1207368 ---AA-T-ATT-AAATAT
1 AAAAATTAATTCAAATAT
1207380 AAAAATTAATTCAAATAT
1 AAAAATTAATTCAAATAT
*
1207398 ATAAATT
1 AAAAATT
1207405 TTTTTTAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
12 6 0.20
13 3 0.10
14 1 0.03
15 4 0.13
16 1 0.03
17 3 0.10
18 12 0.40
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTAATTCAAATAT
Found at i:1207525 original size:50 final size:50
Alignment explanation
Indices: 1207466--1207566 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
1207456 TTTAAAAAGA
1207466 TAAAATTATACAAACTAACAATATTTTCTTCGTGAATGTGTTCTACATGG
1 TAAAATTATACAAACTAACAATATTTTCTTCGTGAATGTGTTCTACATGG
*
1207516 TAAAATTATACAAACTAATAATATTTTCTTCGTGAATGTGTTCTACATGG
1 TAAAATTATACAAACTAACAATATTTTCTTCGTGAATGTGTTCTACATGG
1207566 T
1 T
1207567 TGTGGTTGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (50 bp):
TAAAATTATACAAACTAACAATATTTTCTTCGTGAATGTGTTCTACATGG
Found at i:1210556 original size:27 final size:28
Alignment explanation
Indices: 1210526--1210578 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
1210516 ATAACGCTAG
* *
1210526 GTGAAAATGTTCTACGTGAA-ATGTTAT
1 GTGAAAATGTGCTAAGTGAATATGTTAT
*
1210553 GTGAATATGTGCTAAGTGAATATGTT
1 GTGAAAATGTGCTAAGTGAATATGTT
1210579 CTATGGAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.38
Consensus pattern (28 bp):
GTGAAAATGTGCTAAGTGAATATGTTAT
Found at i:1210825 original size:23 final size:23
Alignment explanation
Indices: 1210799--1210924 Score: 137
Period size: 23 Copynumber: 5.4 Consensus size: 23
1210789 GGTTCTACAC
* *
1210799 GGTCCTTCGAGACAAATCTATGT
1 GGTCCTTCGGGACAAATCTACGT
* * **
1210822 GGTCCTTCGGGACAATTATAAAT
1 GGTCCTTCGGGACAAATCTACGT
* *
1210845 GGTCTTTCGGGACAATTCTACGT
1 GGTCCTTCGGGACAAATCTACGT
* *
1210868 GGTCCTTCGGGACAAATTCTATGC
1 GGTCCTTCGGGACAAA-TCTACGT
1210892 GGTCCTTCGGGACAAATCTACGT
1 GGTCCTTCGGGACAAATCTACGT
1210915 GG-CACTTCGG
1 GGTC-CTTCGG
1210925 TGTAAATTCT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 1 0.01
23 64 0.74
24 21 0.24
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (23 bp):
GGTCCTTCGGGACAAATCTACGT
Found at i:1210914 original size:47 final size:47
Alignment explanation
Indices: 1210798--1210964 Score: 162
Period size: 47 Copynumber: 3.6 Consensus size: 47
1210788 GGGTTCTACA
* * * *
1210798 CGGTCCTTCGAGACAAATCTATGTGGTCCTTCGGGAC-AATTATAAA
1 CGGTCCTTCGGGACAAATCTACGTGGTCCTTCGGGACAAATTCTAAG
* * * *
1210844 TGGTCTTTCGGGACAATTCTACGTGGTCCTTCGGGACAAATTCTATG
1 CGGTCCTTCGGGACAAATCTACGTGGTCCTTCGGGACAAATTCTAAG
* *
1210891 CGGTCCTTCGGGACAAATCTACGTGG-CACTTCGGTG-TAAATTCTACG
1 CGGTCCTTCGGGACAAATCTACGTGGTC-CTTCGG-GACAAATTCTAAG
* *
1210938 CGGTACTTTGGTG-CAAATTCTACGTGG
1 CGGTCCTTCGG-GACAAA-TCTACGTGG
1210965 CACTTCGATG
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
46 33 0.33
47 57 0.56
48 11 0.11
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (47 bp):
CGGTCCTTCGGGACAAATCTACGTGGTCCTTCGGGACAAATTCTAAG
Found at i:1210945 original size:24 final size:24
Alignment explanation
Indices: 1210858--1210980 Score: 117
Period size: 24 Copynumber: 5.2 Consensus size: 24
1210848 CTTTCGGGAC
*
1210858 AATTCTACGTGGTCCTTCGG-GACA
1 AATTCTACGTGGTACTTCGGTG-CA
* * *
1210882 AATTCTATGCGGTCCTTCGG-GACA
1 AATTCTACGTGGTACTTCGGTG-CA
* *
1210906 AA-TCTACGTGGCACTTCGGTGTA
1 AATTCTACGTGGTACTTCGGTGCA
* *
1210929 AATTCTACGCGGTACTTTGGTGCA
1 AATTCTACGTGGTACTTCGGTGCA
* *
1210953 AATTCTACGTGGCACTTCGATGCA
1 AATTCTACGTGGTACTTCGGTGCA
1210977 AATT
1 AATT
1210981 ATATGAGCAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
23 16 0.20
24 66 0.80
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (24 bp):
AATTCTACGTGGTACTTCGGTGCA
Found at i:1211116 original size:19 final size:19
Alignment explanation
Indices: 1211061--1211105 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1211051 ACATTGTGTT
* *
1211061 AATTAAATAAATGTATATA
1 AATTAAACAAATGGATATA
1211080 AATTAAACAAATGGATATA
1 AATTAAACAAATGGATATA
*
1211099 TATTAAA
1 AATTAAA
1211106 AATATTGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (19 bp):
AATTAAACAAATGGATATA
Found at i:1212630 original size:28 final size:27
Alignment explanation
Indices: 1212597--1212752 Score: 99
Period size: 28 Copynumber: 5.6 Consensus size: 27
1212587 TTTTCTTTGC
1212597 ATTTTTATTATTACTATTATATTTTATT
1 ATTTTTATTATTA-TATTATATTTTATT
* * *
1212625 ATTTTTACTATTATATTTTCCTTTTATTCT
1 ATTTTTATTATTATATTAT-ATTTTA-T-T
1212655 ACTTATTTA-TATTATATGTATATTTT-TT
1 A-TT-TTTATTATTATAT-TATATTTTATT
* *
1212683 ATATTTTATTATTATATTTTTATTTTCTCT
1 AT-TTTTATTATTATA-TTATATTTTAT-T
* *
1212713 -TTCTTT-TTATTAT-TTA-CTTGTATT
1 ATT-TTTATTATTATATTATATTTTATT
*
1212737 ATTTTTATTGTTATAT
1 ATTTTTATTATTATAT
1212753 ATTATATATA
Statistics
Matches: 102, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
24 4 0.04
25 12 0.12
26 3 0.03
27 10 0.10
28 42 0.41
29 8 0.08
30 3 0.03
31 14 0.14
32 6 0.06
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (27 bp):
ATTTTTATTATTATATTATATTTTATT
Found at i:1212632 original size:22 final size:22
Alignment explanation
Indices: 1212601--1212643 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1212591 CTTTGCATTT
1212601 TTATTATTACTATTATATTTTA
1 TTATTATTACTATTATATTTTA
*
1212623 TTATTTTTACTATTATATTTT
1 TTATTATTACTATTATATTTT
1212644 CCTTTTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTATTACTATTATATTTTA
Found at i:1212643 original size:13 final size:13
Alignment explanation
Indices: 1212602--1212702 Score: 55
Period size: 13 Copynumber: 8.5 Consensus size: 13
1212592 TTTGCATTTT
1212602 TATTATTACTATTA
1 TATT-TTACTATTA
1212616 TA-TTT--TATTA
1 TATTTTACTATTA
1212626 T-TTTTACTATTA
1 TATTTTACTATTA
*
1212638 TATTTTCCT-TT-
1 TATTTTACTATTA
*
1212649 TATTCTACTTATT-
1 TATTTTAC-TATTA
*
1212662 TATATTA-TATGTA
1 TATTTTACTAT-TA
1212675 TA-TTT--T-TTA
1 TATTTTACTATTA
*
1212684 TATTTTATTATTA
1 TATTTTACTATTA
1212697 TATTTT
1 TATTTT
1212703 TATTTTCTCT
Statistics
Matches: 69, Mismatches: 6, Indels: 25
0.69 0.06 0.25
Matches are distributed among these distances:
9 4 0.06
10 13 0.19
11 10 0.14
12 15 0.22
13 25 0.36
14 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (13 bp):
TATTTTACTATTA
Found at i:1212760 original size:2 final size:2
Alignment explanation
Indices: 1212748--1212792 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
1212738 TTTTTATTGT
1212748 TA TA TA T- TA TA TA TA TA T- 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 TA TA TA TA TA
1212788 TA TA T
1 TA TA T
1212793 GCGTATGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1212970 original size:2 final size:2
Alignment explanation
Indices: 1212963--1213008 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
1212953 TTATTGTTGT
* *
1212963 TA TA TA TA CA TT TA CTA T- TA T- 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 TA TA TA TA TA
1213004 TA TA T
1 TA TA T
1213009 CTACACAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 2 0.05
2 33 0.89
3 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.