Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_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: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 12
Found at i:1573153 original size:21 final size:21
Alignment explanation
Indices: 1573127--1573166 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1573117 TCTGCTGAAA
* *
1573127 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGCTGTGGAGTATG
1573148 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
1573167 CTACTTGTCT
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:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTATG
Found at i:1584410 original size:252 final size:246
Alignment explanation
Indices: 1583958--1584474 Score: 728
Period size: 255 Copynumber: 2.1 Consensus size: 246
1583948 ATATTTTTTA
* * *
1583958 TTATTTTGGGTTGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGT
1 TTATTTTTGGTCGGGTCGGTTTTTTAAATGTGATATTCGGGTCGGG-CGAGTTCGGGTTTAGGGT
*
1584023 GAAAAATACCCGACTCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAAT
65 GAAAAATACCCGACTCCAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAAT
* * *
1584088 ACCCCTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTTAT
130 ACCCCTATATATATAATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTAT
* *
1584153 TATTTCGGGTCGGTCGAGTCGGATTTCTAATTCATATATTCGGGTCGGGTCAGGTTAAACT
195 TATTTCGGG-C---C--G--GG-TTTCTAATTCATATATTCGGGTCAGGTCAGGTGAAACT
* *
1584214 TTATTTTTGGTCGGGTTGGTTTTTTTAAATGTGATATTCGGGTC-GG-G-G-TCGGGTTTTGGGT
1 TTATTTTTGGTCGGGTCGG-TTTTTTAAATGTGATATTCGGGTCGGGCGAGTTCGGGTTTAGGGT
1584275 GAAAAATACCTGCCCGAC-CCAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAA
65 GAAAAATA----CCCGACTCCAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAA
1584339 TAATACCCCTATATATAT-A-TTTTTCCAATTAAGTCACTG-TTTTATTGAATAAAAATAATTTT
126 TAATACCCCTATATATATAATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTT
*
1584401 TTATTATTTCGGGCCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACT
191 TTATTATTTCGGGCCGGGTTTCTAATTCATATATTCGGGTCAGGTCAGGTGAAACT
1584457 TTA-TTTTGGTCGGGTCGG
1 TTATTTTTGGTCGGGTCGG
1584475 GTCTCGGATG
Statistics
Matches: 243, Mismatches: 13, Indels: 24
0.87 0.05 0.09
Matches are distributed among these distances:
242 14 0.06
243 38 0.16
244 2 0.01
246 1 0.00
248 1 0.00
251 1 0.00
252 55 0.23
253 20 0.08
254 2 0.01
255 62 0.26
256 24 0.10
257 23 0.09
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.41
Consensus pattern (246 bp):
TTATTTTTGGTCGGGTCGGTTTTTTAAATGTGATATTCGGGTCGGGCGAGTTCGGGTTTAGGGTG
AAAAATACCCGACTCCAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA
CCCCTATATATATAATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTATT
ATTTCGGGCCGGGTTTCTAATTCATATATTCGGGTCAGGTCAGGTGAAACT
Found at i:1584870 original size:17 final size:18
Alignment explanation
Indices: 1584848--1584889 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1584838 AATTGAATTT
*
1584848 CAATTCC-TGACAGATTC
1 CAATTCCTTCACAGATTC
1584865 CAATTCCTTCACAGATTC
1 CAATTCCTTCACAGATTC
1584883 CAATTCC
1 CAATTCC
1584890 CTCATAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (18 bp):
CAATTCCTTCACAGATTC
Found at i:1585188 original size:18 final size:16
Alignment explanation
Indices: 1585157--1585200 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
1585147 TTTCATTTTG
1585157 AAATTTTAAAATAAATTAA
1 AAATTTT-AAAT-AA-TAA
1585176 AAATTTTAAATAATAA
1 AAATTTTAAATAATAA
*
1585192 TAATTTTAA
1 AAATTTTAA
1585201 GTTTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 2 0.08
18 4 0.17
19 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTTAAATAATAA
Found at i:1590723 original size:12 final size:12
Alignment explanation
Indices: 1590694--1590726 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1590684 GATGAGTATC
1590694 AAAATATAA-AT
1 AAAATATAATAT
1590705 AAAATATAATAT
1 AAAATATAATAT
*
1590717 TAAATATAAT
1 AAAATATAAT
1590727 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:1591018 original size:20 final size:20
Alignment explanation
Indices: 1590995--1591046 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1590985 AACGCGATCC
1590995 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1591015 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1591035 CCAAAATCGCAA
1 CCAGAATCGCAA
1591047 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1591127 original size:20 final size:20
Alignment explanation
Indices: 1591102--1591295 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
1591092 GATTTTCCAT
* *
1591102 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1591122 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1591142 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1591162 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
1591182 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
1591202 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1591222 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1591242 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
1591263 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1591283 AATCGCAACGCGA
1 AATCGCAACGCGA
1591296 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1591147 original size:40 final size:39
Alignment explanation
Indices: 1591098--1591295 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
1591088 TTGCGATTTT
* ** *
1591098 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
1591136 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
1591177 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
1591217 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
1591256 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1591296 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:1591185 original size:60 final size:60
Alignment explanation
Indices: 1591102--1591294 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1591092 GATTTTCCAT
* ** * *
1591102 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
1591162 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
1591222 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
1591283 AATCGCAACGCG
1 AATCGCAACGCG
1591295 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:1591715 original size:33 final size:33
Alignment explanation
Indices: 1591676--1591746 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1591666 TTCACTTAGA
*
1591676 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1591709 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1591742 TTTCA
1 TTTCA
1591747 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1591904 original size:33 final size:33
Alignment explanation
Indices: 1591867--1591937 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1591857 AGAATGACTG
**
1591867 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
*
1591900 TCGCAACGAGATAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1591933 TCGCA
1 TCGCA
1591938 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.10
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:1591955 original size:19 final size:19
Alignment explanation
Indices: 1591933--1592030 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1591923 GAAACCAAAA
*
1591933 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1591952 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1591966 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1591985 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1591999 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1592018 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1592031 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1591974 original size:14 final size:14
Alignment explanation
Indices: 1591955--1592044 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1591945 TTTCATTTCG
1591955 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1591969 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1591988 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1592002 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1592019 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1592035 CGTTGCGATT
1 CGTTGCGATT
1592045 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1591980 original size:33 final size:33
Alignment explanation
Indices: 1591938--1592052 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1591928 CAAAATCGCA
1591938 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1591971 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1592004 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1592037 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1592053 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1594045 original size:93 final size:93
Alignment explanation
Indices: 1593749--1594127 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
1593739 TAGATTGCTT
*
1593749 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1593814 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1593842 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1593906 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1593933 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1593998 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1594026 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1594091 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1594119 AGTAAATTT
1 AGTAAATTT
1594128 ATCTATTCAA
Statistics
Matches: 281, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 71 0.25
92 38 0.14
93 172 0.61
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1594058 original size:184 final size:186
Alignment explanation
Indices: 1593749--1594129 Score: 730
Period size: 184 Copynumber: 2.1 Consensus size: 186
1593739 TAGATTGCTT
1593749 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1593814 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1593879 GTATATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTC-TTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1593933 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1593998 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
1594063 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1594119 AGTAAATTTAT
1 AGTAAATTTAT
1594130 CTATTCAAGT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 153 0.80
185 19 0.10
186 20 0.10
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTATATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1594211 original size:19 final size:19
Alignment explanation
Indices: 1594171--1594299 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1594161 TAGTTTACTT
* *
1594171 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1594191 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1594210 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1594229 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1594243 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1594262 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1594276 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1594295 TCGCA
1 TCGCA
1594300 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1594250 original size:33 final size:32
Alignment explanation
Indices: 1594207--1594299 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1594197 CGCGAAACCA
**
1594207 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1594239 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1594272 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1594300 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1594297 original size:52 final size:52
Alignment explanation
Indices: 1594171--1594299 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1594161 TAGTTTACTT
**
1594171 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1594223 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1594276 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1594300 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1594317 original size:19 final size:19
Alignment explanation
Indices: 1594295--1594429 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1594285 GAAACCAAAA
*
1594295 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1594314 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1594330 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1594347 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1594363 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1594380 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1594399 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1594419 TCGTGTTGCGA
1 TCGCGTTGCGA
1594430 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1594336 original size:14 final size:14
Alignment explanation
Indices: 1594317--1594373 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1594307 TTTCATTTCG
1594317 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1594331 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1594348 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1594364 CGTTGCGATT
1 CGTTGCGATT
1594374 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1594342 original size:33 final size:33
Alignment explanation
Indices: 1594300--1594392 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1594290 CAAAATCGCA
*
1594300 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1594333 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1594366 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1594393 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1596351 original size:14 final size:14
Alignment explanation
Indices: 1596332--1596367 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1596322 ATTGTTTAAT
1596332 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1596346 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1596360 TGATTTGT
1 TGATTTGT
1596368 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1596490 original size:19 final size:19
Alignment explanation
Indices: 1596474--1596575 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1596464 AAAAATGACT
1596474 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1596493 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1596512 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1596526 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1596545 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1596565 ATCGCAATGCG
1 ATCGCAATGCG
1596576 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1596628 original size:19 final size:19
Alignment explanation
Indices: 1596604--1596877 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
1596594 GATTATCTCG
1596604 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596623 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596642 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1596656 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596675 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596694 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596713 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1596732 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1596751 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
1596765 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1596784 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1596803 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1596817 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1596837 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1596851 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1596870 TTGCGATT
1 TTGCGATT
1596878 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 20 0.09
18 3 0.01
19 138 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1596644 original size:52 final size:52
Alignment explanation
Indices: 1596582--1596849 Score: 437
Period size: 52 Copynumber: 5.0 Consensus size: 52
1596572 TGCGTTTATA
*
1596582 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1596634 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
1596686 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
1596743 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1596795 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1596848 AT
1 AT
1596850 GTTGGGATTT
Statistics
Matches: 204, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
52 129 0.63
53 17 0.08
54 7 0.03
55 8 0.04
57 43 0.21
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1596733 original size:109 final size:102
Alignment explanation
Indices: 1596604--1596844 Score: 176
Period size: 109 Copynumber: 2.3 Consensus size: 102
1596594 GATTATCTCG
1596604 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
1596666 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
1596713 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * * * *
1596775 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1596817 TTGCGATTTTCATTTCCGCATTGCGATT
1 TTGCGATTTTCATTT-CGCATTGCGATT
1596845 TTCATGTTGG
Statistics
Matches: 120, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
102 7 0.06
103 6 0.05
104 20 0.17
105 11 0.09
107 2 0.02
109 74 0.62
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (102 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:1599173 original size:12 final size:12
Alignment explanation
Indices: 1599156--1599180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1599146 TTCTTCGGGA
1599156 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1599168 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1599180 C
1 C
1599181 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1599389 original size:24 final size:24
Alignment explanation
Indices: 1599355--1599401 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1599345 CTGAAACATC
1599355 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1599379 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1599402 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1600112 original size:20 final size:20
Alignment explanation
Indices: 1600084--1600452 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
1600074 AAATTTAAGT
* * * *
1600084 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1600104 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1600124 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1600144 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1600164 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1600184 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1600204 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1600224 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1600244 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1600264 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1600284 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
1600304 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1600324 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1600344 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1600364 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1600384 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1600404 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1600424 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1600444 GTTGCGATT
1 GTTGCGATT
1600453 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1614401 original size:21 final size:20
Alignment explanation
Indices: 1614358--1614400 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1614348 AAGAAGATTG
*
1614358 AAAGTTTAAATTAGTAAAAA
1 AAAGCTTAAATTAGTAAAAA
1614378 AAAGCTTAAATTAGTAAAAA
1 AAAGCTTAAATTAGTAAAAA
1614398 AAA
1 AAA
1614401 AAACTAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
AAAGCTTAAATTAGTAAAAA
Found at i:1619219 original size:90 final size:91
Alignment explanation
Indices: 1619062--1619257 Score: 272
Period size: 90 Copynumber: 2.2 Consensus size: 91
1619052 CCAGAACTGC
* ** * *
1619062 GTCCGT-GGGCTTACCCTAAGCACACAGCAAAAGGGAGTCAACCTAAGTATATTCCTTGGGGCCT
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT
*
1619126 ATGGGCCTACCCAAGGGTATTCTTTAG
66 ATGGGCCTACCCAAGGGTA-TCCTTAG
* *
1619153 GTCCGTAGGG-TTACCCTAAGCATACAAC-AAAGGGAACCAACCTAAGGATATGCCTTGGGGCTT
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT
1619216 ATGGGCCTACCCAAGGGTATCCTTAG
66 ATGGGCCTACCCAAGGGTATCCTTAG
*
1619242 GTCCGTAAGGTCTTAC
1 GTCCGT-AGGGCTTAC
1619258 AAGCTGGATC
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
89 12 0.13
90 52 0.56
91 26 0.28
92 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (91 bp):
GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCT
ATGGGCCTACCCAAGGGTATCCTTAG
Found at i:1621873 original size:30 final size:30
Alignment explanation
Indices: 1621837--1621910 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
1621827 AAAAAAATTT
1621837 GGTCAAAGTCAACGGCCAAC-GGTTTGACTC
1 GGTCAAAGTCAACGGCCAACAGG-TTGACTC
*
1621867 GGTCAAAGTCAACGGTCAACAGGTTGACTC
1 GGTCAAAGTCAACGGCCAACAGGTTGACTC
1621897 GGTCAAAGTCAACG
1 GGTCAAAGTCAACG
1621911 AGTTGACCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (30 bp):
GGTCAAAGTCAACGGCCAACAGGTTGACTC
Found at i:1623250 original size:37 final size:36
Alignment explanation
Indices: 1623191--1623310 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
1623181 ATCCCATTAT
* *
1623191 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
1623227 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1623263 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1623298 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
1623311 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:1623266 original size:21 final size:21
Alignment explanation
Indices: 1623242--1623302 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1623232 TTCAAAGAAA
1623242 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1623263 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
1623277 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1623298 CATTT
1 CATTT
1623303 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1623319 original size:35 final size:36
Alignment explanation
Indices: 1623193--1623337 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
1623183 CCCATTATCA
*
1623193 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
1623228 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
1623265 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
1623301 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
1623335 TTT
1 TTT
1623338 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:1626887 original size:16 final size:16
Alignment explanation
Indices: 1626863--1626894 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1626853 TATCGTCGAC
*
1626863 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1626879 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1626895 TATGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1627364 original size:37 final size:36
Alignment explanation
Indices: 1627305--1627424 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
1627295 ATCCCATTAT
* *
1627305 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
1627341 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1627377 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1627412 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
1627425 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:1627380 original size:21 final size:21
Alignment explanation
Indices: 1627356--1627416 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1627346 TTCAAAGAAA
1627356 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1627377 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
1627391 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1627412 CATTT
1 CATTT
1627417 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1627433 original size:35 final size:36
Alignment explanation
Indices: 1627307--1627451 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
1627297 CCCATTATCA
*
1627307 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
1627342 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
1627379 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
1627415 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
1627449 TTT
1 TTT
1627452 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:1635985 original size:43 final size:43
Alignment explanation
Indices: 1635924--1636013 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1635914 GGAAGTTACC
* *
1635924 TGTATGTTATTTAAGAATTTTACGGTTTGGCTTGTAACTTTAG
1 TGTATGTTATTTAAGAATTTTACAGTTTGGCTTGTAACTATAG
*
1635967 TGTATGTTATTTAAGAATTTTACAGTTTGGCTTGTTACTATAG
1 TGTATGTTATTTAAGAATTTTACAGTTTGGCTTGTAACTATAG
1636010 TGTA
1 TGTA
1636014 ATGCCGTCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (43 bp):
TGTATGTTATTTAAGAATTTTACAGTTTGGCTTGTAACTATAG
Found at i:1639519 original size:95 final size:95
Alignment explanation
Indices: 1639356--1639542 Score: 356
Period size: 95 Copynumber: 2.0 Consensus size: 95
1639346 CCCCAAACAA
*
1639356 TCCACAATTTCCAGTAGAGCAGAGTTCTATGAAACCTCTCAAAGCTATAGCAACTACTGCAGTTG
1 TCCACAATTTCCAGTAGAGCAGAGTTCTATGAAACCTCTCAAAACTATAGCAACTACTGCAGTTG
1639421 TGAAGAAGGTTCTCCAAAGAAGAGCACTCC
66 TGAAGAAGGTTCTCCAAAGAAGAGCACTCC
*
1639451 TCCACAATTTCCAGTAGAGCAGAGTTCTATGAAACCTCTCAAAACTATAGCAACTACTGTAGTTG
1 TCCACAATTTCCAGTAGAGCAGAGTTCTATGAAACCTCTCAAAACTATAGCAACTACTGCAGTTG
1639516 TGAAGAAGGTTCTCCAAAGAAGAGCAC
66 TGAAGAAGGTTCTCCAAAGAAGAGCAC
1639543 CCCACCTGTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (95 bp):
TCCACAATTTCCAGTAGAGCAGAGTTCTATGAAACCTCTCAAAACTATAGCAACTACTGCAGTTG
TGAAGAAGGTTCTCCAAAGAAGAGCACTCC
Found at i:1649905 original size:29 final size:29
Alignment explanation
Indices: 1649871--1649929 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1649861 CCTAAATTAA
1649871 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1649900 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1649929 T
1 T
1649930 ATGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:1652135 original size:23 final size:23
Alignment explanation
Indices: 1652109--1652154 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1652099 TTAAATCGAT
1652109 GATTTAAATATGAATAGTTCTAA
1 GATTTAAATATGAATAGTTCTAA
1652132 GATTTAAATATGAATAGTTCTAA
1 GATTTAAATATGAATAGTTCTAA
1652155 AATACATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (23 bp):
GATTTAAATATGAATAGTTCTAA
Found at i:1655160 original size:40 final size:38
Alignment explanation
Indices: 1655110--1655185 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
1655100 TTTTGACAAA
1655110 ATATAATATATAATTTTCAGAAAATGATTTTTGAAAATTT
1 ATATAATATATAATTTTCAGAAAAT-ATTTTT-AAAATTT
* * **
1655150 ATATATTATATAGTTTTTTGAAAATATTTTTAAAAT
1 ATATAATATATAATTTTCAGAAAATATTTTTAAAAT
1655186 ATAATATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.16
39 6 0.19
40 21 0.66
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (38 bp):
ATATAATATATAATTTTCAGAAAATATTTTTAAAATTT
Found at i:1655214 original size:27 final size:27
Alignment explanation
Indices: 1655184--1655237 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1655174 TATTTTTAAA
*
1655184 ATATAATATGTAGTTTTGAAAACATTT
1 ATATAATATATAGTTTTGAAAACATTT
* * *
1655211 ATATACTGTATAGTTTTTAAAACATTT
1 ATATAATATATAGTTTTGAAAACATTT
1655238 TGAAAACTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (27 bp):
ATATAATATATAGTTTTGAAAACATTT
Found at i:1655351 original size:37 final size:36
Alignment explanation
Indices: 1655197--1655499 Score: 232
Period size: 37 Copynumber: 8.6 Consensus size: 36
1655187 TAATATGTAG
* *
1655197 TTTTGAAAACATTTATATACTGTATAGTTTTTAAAACA-
1 TTTTGAAAA-A-TTATATA-TATATAGTTTTAAAAACAT
* * *
1655235 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACGT
1 TTTTGAAAAATTATATA-TATATAGTTTTAAAAACAT
1655272 TTTT---AAA-TATA-ATATATAGTTTTAAAAACATAT
1 TTTTGAAAAATTATATATATATAGTTTTAAAAAC--AT
* *
1655305 TTTTAAAAAATTATATAGTATATAGTTTTAAAAATAT
1 TTTTGAAAAATTATATA-TATATAGTTTTAAAAACAT
*
1655342 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAGT
1 TTTTGAAAAATTATAT-ATATATAGTTTTAAAAACA-T
*
1655380 TTTTGAAAACTTATATA-ATAT--TTTT-AAAACA-
1 TTTTGAAAAATTATATATATATAGTTTTAAAAACAT
* * *
1655411 TTTTG-AAAACTATATAACATATAGTTTTGAAAAC-T
1 TTTTGAAAAATTATAT-ATATATAGTTTTAAAAACAT
*
1655446 TTTT---AAA-TATA-ATATATAG-TTTAAAAAAAT
1 TTTTGAAAAATTATATATATATAGTTTTAAAAACAT
*
1655476 ATTTTGAAATA-TATATATTATATA
1 -TTTTGAAAAATTATATA-TATATA
1655500 AATTATATTT
Statistics
Matches: 224, Mismatches: 17, Indels: 50
0.77 0.06 0.17
Matches are distributed among these distances:
29 7 0.03
30 16 0.07
31 26 0.12
32 9 0.04
33 17 0.08
34 16 0.07
35 10 0.04
36 36 0.16
37 44 0.20
38 27 0.12
39 16 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTGAAAAATTATATATATATAGTTTTAAAAACAT
Found at i:1655414 original size:107 final size:105
Alignment explanation
Indices: 1655197--1655493 Score: 262
Period size: 107 Copynumber: 2.9 Consensus size: 105
1655187 TAATATGTAG
* * * * *
1655197 TTTTGAAAACATTTATATACTGTATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAGTT
1 TTTTGAAAA-AATTATATACTATATAGTTTTAAAAACATTTTGAAAAATTATATAATATATAGTT
* *
1655262 TTTAAAACGTTTTTAAATATAATATATAGTTTTAAAAACATA
65 TTAAAAAAGTTTTTAAATATAATATATAGTTTTAAAAACA-A
* * *
1655304 TTTTTAAAAAATTATATAGTATATAGTTTTAAAAATATTTTTGAAAAATTATATAATATATAGTT
1 TTTTGAAAAAATTATATACTATATAGTTTTAAAAACA-TTTTGAAAAATTATATAATATATAGTT
* *
1655369 TTAAAAATAGTTTTTGAAA-ACTTATATAATA-TTTTTAAAAC-A
65 TTAAAAA-AGTTTTT-AAATA-TAATAT-ATAGTTTTAAAAACAA
* * *
1655411 TTTTG--AAAACTATATAAC-ATATAGTTTTGAAAAC-TTTT---TAA--ATATAATATATAG-T
1 TTTTGAAAAAATTATAT-ACTATATAGTTTTAAAAACATTTTGAAAAATTATATAATATATAGTT
*
1655466 TTAAAAAAATATTTTGAAATAT-ATATAT
65 TTAAAAAAGT-TTTT-AAATATAATATAT
1655494 TATATAAATT
Statistics
Matches: 163, Mismatches: 19, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
95 2 0.01
96 6 0.04
97 17 0.10
98 14 0.09
100 2 0.01
103 4 0.02
105 23 0.14
106 24 0.15
107 44 0.27
108 7 0.04
109 17 0.10
110 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (105 bp):
TTTTGAAAAAATTATATACTATATAGTTTTAAAAACATTTTGAAAAATTATATAATATATAGTTT
TAAAAAAGTTTTTAAATATAATATATAGTTTTAAAAACAA
Found at i:1655493 original size:68 final size:68
Alignment explanation
Indices: 1655317--1655493 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
1655307 TTAAAAAATT
* * *
1655317 ATATAGTATATAGTTTTAAAAATATTTTTGAAAAATTATATAATATATAGTTTTAAAAATAGTTT
1 ATATAATATATAGTTTTAAAAATA-TTTTG-AAAATTATATAACATATAGTTTTAAAAATACTTT
1655382 TTGAA
64 TTGAA
* * * * *
1655387 A-ACTTATATAATA-TTTTTAAAACATTTTGAAAACTATATAACATATAGTTTT-GAAA-ACTTT
1 ATA-TAATAT-ATAGTTTTAAAAATATTTTGAAAATTATATAACATATAGTTTTAAAAATACTTT
1655448 TT-AA
64 TTGAA
*
1655452 ATATAATATATAGTTTAAAAAAATATTTTGAAATATATATAT
1 ATATAATATATAGTTT-TAAAAATATTTTGAAA-AT-TATAT
1655494 TATATAAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
64 3 0.03
65 11 0.13
66 20 0.23
67 4 0.05
68 26 0.30
69 6 0.07
70 14 0.16
71 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (68 bp):
ATATAATATATAGTTTTAAAAATATTTTGAAAATTATATAACATATAGTTTTAAAAATACTTTTT
GAA
Found at i:1655527 original size:23 final size:23
Alignment explanation
Indices: 1655488--1655554 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
1655478 TTTGAAATAT
*
1655488 ATATATTA-TATAAATTATATTTA
1 ATATATTATTAT-TATTATATTTA
*
1655511 ATATATTATTATTATTATTTTTA
1 ATATATTATTATTATTATATTTA
* *
1655534 TTTTATTCATT-TTATT-TATTT
1 ATATATT-ATTATTATTATATTT
1655555 TAATTCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.11
23 27 0.73
24 6 0.16
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATTATTATTATTATATTTA
Found at i:1655562 original size:19 final size:18
Alignment explanation
Indices: 1655530--1655569 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1655520 TATTATTATT
*
1655530 TTTATTTTATTCATTTTA
1 TTTATTTTATTCATTTCA
1655548 TTTATTTTAATTCATTTCA
1 TTTATTTT-ATTCATTTCA
1655567 TTT
1 TTT
1655570 TTCTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTTATTCATTTCA
Found at i:1656049 original size:26 final size:26
Alignment explanation
Indices: 1656018--1656078 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
1656008 CAAAAACGGT
1656018 GCCGTTTTGGTGCCAAACGAAGCTAC
1 GCCGTTTTGGTGCCAAACGAAGCTAC
*
1656044 GCCGTTTTGGTGCCAAATGAAGCTAC
1 GCCGTTTTGGTGCCAAACGAAGCTAC
1656070 GCCGTTTTG
1 GCCGTTTTG
1656079 CACTCCCCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (26 bp):
GCCGTTTTGGTGCCAAACGAAGCTAC
Found at i:1660207 original size:57 final size:57
Alignment explanation
Indices: 1660047--1660210 Score: 211
Period size: 57 Copynumber: 2.9 Consensus size: 57
1660037 TTGCAAGTAT
* * * * **
1660047 GAACAGTAAGGCTCTCAGCACAAAGCCGATGAGCCTGCAATTATTCAACCCCGTCAC
1 GAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTCAC
** *
1660104 GAATTATAAGGCTCTCAGCACAAATCCGAGGAACCTGCAAGTATTCTTCCCCGTCAC
1 GAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTCAC
* * * *
1660161 GAACAATAAGGCTCTCAGTACAAAGCTGGGGAACCTACAAGTATTCTTCC
1 GAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCC
1660211 TCCAACTATA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 91 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (57 bp):
GAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATTCTTCCCCGTCAC
Found at i:1666880 original size:20 final size:20
Alignment explanation
Indices: 1666852--1666892 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1666842 AATCAAGAAG
*
1666852 ACTAAATATTTTATTATTCT
1 ACTAAATATTTGATTATTCT
*
1666872 ACTAGATATTTGATTATTCT
1 ACTAAATATTTGATTATTCT
1666892 A
1 A
1666893 AGGCAAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (20 bp):
ACTAAATATTTGATTATTCT
Found at i:1667266 original size:34 final size:34
Alignment explanation
Indices: 1667228--1667294 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
1667218 CGTGTATACA
1667228 TAGCTATGTAAACATAAACATGCATGTTTGTATG
1 TAGCTATGTAAACATAAACATGCATGTTTGTATG
*
1667262 TAGCTATGTAAACATACACATGCATGTTTGTAT
1 TAGCTATGTAAACATAAACATGCATGTTTGTAT
1667295 CTCTCTAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (34 bp):
TAGCTATGTAAACATAAACATGCATGTTTGTATG
Found at i:1687516 original size:31 final size:31
Alignment explanation
Indices: 1687478--1687566 Score: 133
Period size: 31 Copynumber: 2.9 Consensus size: 31
1687468 GTTAAAATTG
*
1687478 AGTGACCAATTTGTTACAAATCGATTATGTT
1 AGTGACCAATTTGTTACAAATCGATAATGTT
* *
1687509 AGTGACCAATCTATTACAAATCGATAATGTT
1 AGTGACCAATTTGTTACAAATCGATAATGTT
* *
1687540 AGTGATCAATTTGTTTCAAATCGATAA
1 AGTGACCAATTTGTTACAAATCGATAA
1687567 CATTAATGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (31 bp):
AGTGACCAATTTGTTACAAATCGATAATGTT
Found at i:1687583 original size:31 final size:31
Alignment explanation
Indices: 1687484--1687585 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 31
1687474 ATTGAGTGAC
* * ** * *
1687484 CAATTTGTTACAAATCGATTATGTTAGTGAC
1 CAATTTGTTTCAAATCGATAACATTAATGAT
* * * ** *
1687515 CAATCTATTACAAATCGATAATGTTAGTGAT
1 CAATTTGTTTCAAATCGATAACATTAATGAT
1687546 CAATTTGTTTCAAATCGATAACATTAATGAT
1 CAATTTGTTTCAAATCGATAACATTAATGAT
**
1687577 TGATTTGTT
1 CAATTTGTT
1687586 ATTATTGAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (31 bp):
CAATTTGTTTCAAATCGATAACATTAATGAT
Found at i:1692803 original size:101 final size:99
Alignment explanation
Indices: 1692621--1692894 Score: 377
Period size: 101 Copynumber: 2.7 Consensus size: 99
1692611 TGAATATATG
* * * * * *
1692621 GAATATATGGGAAGTACAATTGATGATAGGTTGTGCAATGATATTTACTCAAAAGACTAGATTTG
1 GAATTTATGGGAAGAACAATTGATGATTGGTTGTGCAATGATATTT-CCCCAAAGACTAGCTTTG
* *
1692686 TGCTTTCTTTTGTGCTTCACATAGTCACAATCTTT
65 TGCTTTCTTATGTGCTTAACATAGTCACAATCTTT
*
1692721 GAATTTATGGGAAGAACAATTGATGATTGGTTGTGCAATGAATATTTCCCCCTAAGACTAGCTTT
1 GAATTTATGGGAAGAACAATTGATGATTGGTTGTGCAATG-ATATTT-CCCCAAAGACTAGCTTT
**
1692786 GTGCTTTCTTATGTGCTTAACATAGTCATGATCTTT
64 GTGCTTTCTTATGTGCTTAACATAGTCACAATCTTT
* * *
1692822 GAATTTATGGGAACAACAATTGATGATTGGTTGTGCAATGCATATTTACTCAAACGACTAGCTTT
1 GAATTTATGGGAAGAACAATTGATGATTGGTTGTGCAATG-ATATTTCCCCAAA-GACTAGCTTT
1692887 GTGCTTTC
64 GTGCTTTC
1692895 ATTTTTGCCA
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
100 41 0.26
101 114 0.74
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (99 bp):
GAATTTATGGGAAGAACAATTGATGATTGGTTGTGCAATGATATTTCCCCAAAGACTAGCTTTGT
GCTTTCTTATGTGCTTAACATAGTCACAATCTTT
Found at i:1699137 original size:111 final size:111
Alignment explanation
Indices: 1698932--1699325 Score: 635
Period size: 111 Copynumber: 3.5 Consensus size: 111
1698922 CACCTCTAGG
* *
1698932 GTAGGGGATAGTGTTGCTATAAATGTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTC
1 GTAGGGAATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTC
1698997 TATCCAATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
66 TATCCAATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
** * *
1699043 GGGGGGAATATTGTTGCTATAAATCTGGATAAAAGTACAACCAAACTCTCTGTCCCCAATAACTC
1 GTAGGGAATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTC
*
1699108 TATCCTATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
66 TATCCAATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
* * *
1699154 GTAGGGAATAGTGTTACTATAAATCTGGATAAAATTACAACCAAGCTCTCTGTCCCCAATAACTG
1 GTAGGGAATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTC
* * *
1699219 TATCGAATTAACAGAAGACCTCAAAGGAGCAGAAACCCAGTCCAAT
66 TATCCAATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
* * * *
1699265 GTAGGGAATAGTGTTGTTATAAATCTGGATAAAAGTAAAACCAAGCTTTCTGTCTCCAATA
1 GTAGGGAATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATA
1699326 GCTCCAACCA
Statistics
Matches: 259, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 259 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (111 bp):
GTAGGGAATAGTGTTGCTATAAATCTGGATAAAAGTACAACCAAGCTCTCTGTCCCCAATAACTC
TATCCAATTAACAGAAGACCTAAAAGGAGCAGAAACCCAGTCCAGT
Found at i:1699673 original size:111 final size:110
Alignment explanation
Indices: 1699540--1699758 Score: 314
Period size: 111 Copynumber: 2.0 Consensus size: 110
1699530 TTGAGGAACA
* * **
1699540 CCTTAAACCTCTACCAAGCATTCACTGGAAAGGGAAAGATCCGGAGGCTAAAAGGAAGGAATGGC
1 CCTTAAACCTCTACCAAGCATTCAATGGAAAGGGAAAGATCCAGAGAATAAAAGGAAGGAATGG-
*
1699605 ATAAA-TTTGGTGAAAGTAGGGGTCATTTATCCACTCATTTTGTACC
65 A-AAATTTTGGTGAAAATAGGGGTCATTTATCCACTCATTTTGTACC
* ** * *
1699651 CCTTAAACCTCTACCAAGCATTCAATGGGAAGGGAAAGATCCAGAGAATAGCAGGAGGGACTGGA
1 CCTTAAACCTCTACCAAGCATTCAATGGAAAGGGAAAGATCCAGAGAATAAAAGGAAGGAATGGA
1699716 AAATTTTTGGTGAAAATAGGGGTCATTTATCCACTCATTTTGT
66 AAA-TTTTGGTGAAAATAGGGGTCATTTATCCACTCATTTTGT
1699759 TCCACGACCA
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
109 3 0.03
110 1 0.01
111 92 0.96
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (110 bp):
CCTTAAACCTCTACCAAGCATTCAATGGAAAGGGAAAGATCCAGAGAATAAAAGGAAGGAATGGA
AAATTTTGGTGAAAATAGGGGTCATTTATCCACTCATTTTGTACC
Found at i:1701458 original size:28 final size:29
Alignment explanation
Indices: 1701434--1701494 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
1701424 ATTATTAGTT
1701434 TATTAATA-TTTTTTTAGAAGTATTAGGA
1 TATTAATATTTTTTTTAGAAGTATTAGGA
1701462 TATTAATATTTTTTTTAGAAGTATTAGGA
1 TATTAATATTTTTTTTAGAAGTATTAGGA
1701491 TATT
1 TATT
1701495 TTTTTATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (29 bp):
TATTAATATTTTTTTTAGAAGTATTAGGA
Found at i:1710039 original size:2 final size:2
Alignment explanation
Indices: 1710032--1710059 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1710022 CTTTGTGAGT
1710032 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
1710060 CCCTTTATGG
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):
TA
Found at i:1717473 original size:22 final size:22
Alignment explanation
Indices: 1717426--1717473 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1717416 CTGGTAAAAA
*
1717426 TTTACCTAAAACATTATTTTTC
1 TTTACCTAAAACATTATGTTTC
*
1717448 TTTACCTGAAACATTAATGTTT-
1 TTTACCTAAAACATT-ATGTTTC
1717470 TTTA
1 TTTA
1717474 ATATTTCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTACCTAAAACATTATGTTTC
Found at i:1717775 original size:2 final size:2
Alignment explanation
Indices: 1717768--1717806 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1717758 ACTGTACTTG
1717768 AT AT AT 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 AT AT AT A
1717807 GAGAGAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1717811 original size:2 final size:2
Alignment explanation
Indices: 1717806--1717841 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1717796 ATATATATAT
1717806 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1717842 TATAAGCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1719125 original size:2 final size:2
Alignment explanation
Indices: 1719120--1719151 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1719110 ATTGTTATTA
1719120 AT 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
1719152 TCTAAAAAAT
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):
AT
Found at i:1719952 original size:16 final size:16
Alignment explanation
Indices: 1719931--1719962 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1719921 ACTATTCACA
*
1719931 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
1719947 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
1719963 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:1726637 original size:21 final size:21
Alignment explanation
Indices: 1726613--1726653 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1726603 GAAATTTTAG
*
1726613 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
1726634 TGCATCGATGCACTGTAGCA
1 TGCATCGATGCACTGTAGCA
1726654 CTGTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:1729212 original size:12 final size:13
Alignment explanation
Indices: 1729186--1729215 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1729176 CTTTTCTTCG
1729186 ATATTAAAAACAA
1 ATATTAAAAACAA
1729199 ATATTAAAAA-AA
1 ATATTAAAAACAA
1729211 ATATT
1 ATATT
1729216 TATTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATTAAAAACAA
Found at i:1730211 original size:20 final size:21
Alignment explanation
Indices: 1730169--1730212 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1730159 TCTATGTGTT
*
1730169 TGTTTTTTCTTTTCCGTTCTC
1 TGTTTTTTCTTCTCCGTTCTC
* *
1730190 TGTTTTTTC-TCTCTGTTTTC
1 TGTTTTTTCTTCTCCGTTCTC
1730210 TGT
1 TGT
1730213 CCCTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.00, C:0.20, G:0.11, T:0.68
Consensus pattern (21 bp):
TGTTTTTTCTTCTCCGTTCTC
Found at i:1730703 original size:3 final size:3
Alignment explanation
Indices: 1730695--1730774 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
1730685 TAATATAAAT
*
1730695 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** *
1730743 TAA GGA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1730775 TGGATAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1731391 original size:113 final size:113
Alignment explanation
Indices: 1731023--1731782 Score: 1141
Period size: 113 Copynumber: 6.7 Consensus size: 113
1731013 TCTTGATGAG
1731023 TTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-C
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTC
* * *
1731086 TGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
64 TGGAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
1731136 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1731201 G-AAAGATGATTCA-CCAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1731247 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
1731312 GCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1731360 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
1731425 GAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1731473 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1731538 GAAAAGATGATTCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
1731586 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
1731651 GCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1731699 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1731764 GAAAAGAATGATCCATCAA
66 GAAAAG-ATGATCCATCAA
1731783 GTGGATTTGA
Statistics
Matches: 584, Mismatches: 58, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
111 92 0.16
112 19 0.03
113 461 0.79
114 12 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:1731715 original size:339 final size:337
Alignment explanation
Indices: 1731021--1731782 Score: 1393
Period size: 339 Copynumber: 2.3 Consensus size: 337
1731011 GCTCTTGATG
1731021 AGTTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC
1 AGTTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-C
* * * *
1731085 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
64 TCTGGAAAAGATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
*
1731149 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTCTCTGGAAAGATGATTCA
129 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGATGATTCA
1731214 CCAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
194 CCAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
1731279 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAA
259 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAA
1731344 CAAAAAGTTGAACA
324 CAAAAAGTTGAACA
1731358 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
1731423 TGGAAAAGCTGATCCATCAAATGACGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
1731488 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATTCAC
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAGATGATTCAC
1731553 CAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
195 C-AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTT
1731618 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAA
259 CAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAA
1731683 CAAAAAGTTGAACA
324 CAAAAAGTTGAACA
1731697 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1731762 TGGAAAAGAATGATCCATCAA
66 TGGAAAAG-ATGATCCATCAA
1731783 GTGGATTTGA
Statistics
Matches: 412, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
336 1 0.00
337 170 0.41
338 15 0.04
339 215 0.52
340 11 0.03
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (337 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGATGATCCATCAAATGACGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGATGATTCACC
AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACA
AAAAGTTGAACA
Found at i:1732651 original size:82 final size:82
Alignment explanation
Indices: 1732315--1732679 Score: 563
Period size: 83 Copynumber: 4.4 Consensus size: 82
1732305 TTTACTATGA
* *
1732315 GCAAATTCATCTTCCAAATTCAATGATTGTTCT-ATCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGCT-AAACCAGATCAGATAACTCAAAGAACAC
1732379 TTCCAGAAGATGCTATTG
65 TTCCAGAAGATGCTATTG
* * * *
1732397 GCAAATTCATCTTCCAAATTCAATGCTTGGTTCT-ATATAATCAGATCAAATAACTCAAAGAACA
1 GCAAATTCATCTTCCAAATTCAATGATT-GTTCTGCTA-AACCAGATCAGATAACTCAAAGAACA
1732461 CTTCCAGAAGATGCTATTG
64 CTTCCAGAAGATGCTATTG
* *
1732480 GCAAATTCATCTTCCAAATTCAATGCTTGGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATT-GTTCTGCTAAACCAGATCAGATAACTCAAAGAACAC
1732545 TTCCAGAAGATGCTATTG
65 TTCCAGAAGATGCTATTG
* *
1732563 GCAAATTCATCTTCCAAATTCAATGAATGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACT
1732628 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
* **
1732645 GTAAATTCATCTTCCATTTTCAATGATTGTTCTGC
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGC
1732680 GATATCACAG
Statistics
Matches: 266, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
82 112 0.42
83 152 0.57
84 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (82 bp):
GCAAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTG
Found at i:1733453 original size:16 final size:18
Alignment explanation
Indices: 1733415--1733459 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
1733405 CATGGAAAAG
*
1733415 AATAAATTGAATTTCCAA
1 AATAAATTGAATCTCCAA
1733433 AATAAATTGAATCT-C-A
1 AATAAATTGAATCTCCAA
1733449 AATAAATTGAA
1 AATAAATTGAA
1733460 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 13 0.50
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (18 bp):
AATAAATTGAATCTCCAA
Found at i:1733813 original size:7 final size:7
Alignment explanation
Indices: 1733797--1733865 Score: 90
Period size: 7 Copynumber: 10.1 Consensus size: 7
1733787 CTTTTTCTTC
1733797 TCTTTTT
1 TCTTTTT
*
1733804 TCTATTT
1 TCTTTTT
*
1733811 TCTATTT
1 TCTTTTT
1733818 T-TTTTT
1 TCTTTTT
1733824 TCTTTTCT
1 TCTTTT-T
1733832 T-TTTTT
1 TCTTTTT
1733838 TCTTTTT
1 TCTTTTT
1733845 TC-TTTT
1 TCTTTTT
1733851 TCTTTTT
1 TCTTTTT
1733858 TCTTTTT
1 TCTTTTT
1733865 T
1 T
1733866 GTTCAAGCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
6 13 0.23
7 41 0.73
8 2 0.04
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (7 bp):
TCTTTTT
Found at i:1733826 original size:13 final size:13
Alignment explanation
Indices: 1733783--1733864 Score: 98
Period size: 13 Copynumber: 6.3 Consensus size: 13
1733773 CTTGACCCCC
1733783 TTTTC-TTTTTC-
1 TTTTCTTTTTTCT
*
1733794 TTCTCTTTTTTCT
1 TTTTCTTTTTTCT
1733807 ATTTTCTATTTTT-T
1 -TTTTCT-TTTTTCT
*
1733821 TTTTCTTTTCTTTT
1 TTTTCTTTT-TTCT
1733835 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
1733848 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
1733861 TTTT
1 TTTT
1733865 TGTTCAAGCA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
11 4 0.06
12 9 0.15
13 28 0.45
14 16 0.26
15 5 0.08
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:1733827 original size:27 final size:26
Alignment explanation
Indices: 1733783--1733865 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
1733773 CTTGACCCCC
* * *
1733783 TTTTC-TTTTTCTTCTCTTTTTTCTA
1 TTTTCTTTTTTTTTTTCTTTTTTCTT
1733808 TTTTCTATTTTTTTTTTCTTTTCTT-TT
1 TTTTCT-TTTTTTTTTTCTTTT-TTCTT
1733835 TTTTCTTTTTTCTTTTTCTTTTTTCTT
1 TTTTCTTTTTT-TTTTTCTTTTTTCTT
1733862 TTTT
1 TTTT
1733866 GTTCAAGCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 5 0.10
26 7 0.14
27 36 0.72
28 2 0.04
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (26 bp):
TTTTCTTTTTTTTTTTCTTTTTTCTT
Found at i:1733846 original size:34 final size:34
Alignment explanation
Indices: 1733783--1733863 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
1733773 CTTGACCCCC
1733783 TTTTC-TTTTTC--TTCTCTTTTTTCTATTTTCT
1 TTTTCTTTTTTCTTTTCTCTTTTTTCTATTTTCT
* *
1733814 ATTTT-TTTTTTCTTTTCTTTTTTTTCTTTTTTCT
1 -TTTTCTTTTTTCTTTTCTCTTTTTTCTATTTTCT
1733848 TTTTCTTTTTTCTTTT
1 TTTTCTTTTTTCTTTT
1733864 TTGTTCAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 10 0.23
33 4 0.09
34 29 0.67
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (34 bp):
TTTTCTTTTTTCTTTTCTCTTTTTTCTATTTTCT
Found at i:1744507 original size:17 final size:17
Alignment explanation
Indices: 1744467--1744508 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
1744457 ATACTTGCAA
*
1744467 ATAAAACATATAAATATT
1 ATAAAA-ATATAAATATC
1744485 ATAAAAATAATAAATA-C
1 ATAAAAAT-ATAAATATC
1744502 ATAAAAA
1 ATAAAAA
1744509 ATTTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATAAATATC
Found at i:1745193 original size:12 final size:13
Alignment explanation
Indices: 1745167--1745196 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1745157 CTTTTCTTCG
1745167 ATATTAAAAACAA
1 ATATTAAAAACAA
1745180 ATATTAAAAA-AA
1 ATATTAAAAACAA
1745192 ATATT
1 ATATT
1745197 TATTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATTAAAAACAA
Found at i:1746688 original size:3 final size:3
Alignment explanation
Indices: 1746680--1746798 Score: 193
Period size: 3 Copynumber: 39.7 Consensus size: 3
1746670 TAATATAAAT
1746680 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1746728 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1746776 TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
1746799 TGGATAAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 106 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1753276 original size:9 final size:9
Alignment explanation
Indices: 1753264--1753297 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1753254 GAATTCGGTT
*
1753264 AATTAATCG
1 AATTAACCG
1753273 AATTAACCG
1 AATTAACCG
1753282 AATTAACCG
1 AATTAACCG
1753291 AAATTAA
1 -AATTAA
1753298 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:1754832 original size:25 final size:25
Alignment explanation
Indices: 1754784--1754834 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1754774 TGGCTAAGAT
* *
1754784 GTATGAATGTCGGCTTTATGGATAA
1 GTATGAATGTCGGCTTCATAGATAA
1754809 GTATGAATGTCGGCGTTCA-AGATAA
1 GTATGAATGTCGGC-TTCATAGATAA
1754834 G
1 G
1754835 CATTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (25 bp):
GTATGAATGTCGGCTTCATAGATAA
Found at i:1766453 original size:20 final size:20
Alignment explanation
Indices: 1766428--1766486 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
1766418 ATTTGGTGCA
*
1766428 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
* *
1766448 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATCCCCCCTT
1766468 GAAGGGGAACCGATTCCCC
1 G-A-GGGAACCGA-TCCCC
1766487 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 18 0.56
21 1 0.03
22 9 0.28
23 4 0.12
ACGTcount: A:0.22, C:0.32, G:0.27, T:0.19
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:1769064 original size:22 final size:23
Alignment explanation
Indices: 1769039--1769082 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1769029 AATTAAGTTT
1769039 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
1769061 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
1769083 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:1772240 original size:24 final size:24
Alignment explanation
Indices: 1772213--1772293 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
1772203 ACACTTAACA
1772213 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
1772237 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
1772259 -TGCACCGATGCA-CTCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
1772281 GTGCATCGATGCA
1 GTGCATCGATGCA
1772294 CACGGTCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:1777586 original size:20 final size:19
Alignment explanation
Indices: 1777561--1777648 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 19
1777551 CTGAATTTCA
1777561 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTT-TG
*
1777581 AATTCGCAACGCGAATTTTG
1 AATTCGCAACTCG-ATTTTG
**
1777601 TTTTCGCAACTCGATTTTCG
1 AATTCGCAACTCGATTTT-G
*
1777621 AATTCGCAACACGAATTTT-
1 AATTCGCAACTCG-ATTTTG
1777640 AATTTCGCA
1 AA-TTCGCA
1777649 CTAGGTTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 7 0.12
20 41 0.72
21 9 0.16
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (19 bp):
AATTCGCAACTCGATTTTG
Found at i:1777608 original size:40 final size:40
Alignment explanation
Indices: 1777540--1777648 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
1777530 ATAGTTTCCA
* * *
1777540 AATTCGCAATACTGAATTTCAAATTCGCAACTCGA-TTTCTG
1 AATTCGCAACAC-GAATTTTAATTTCGCAACTCGATTTTC-G
* **
1777581 AATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTTTCG
1 AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
1777621 AATTCGCAACACGAATTTTAATTTCGCA
1 AATTCGCAACACGAATTTTAATTTCGCA
1777649 CTAGGTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 44 0.76
41 14 0.24
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (40 bp):
AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
Found at i:1778594 original size:24 final size:24
Alignment explanation
Indices: 1778577--1778647 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
1778567 AGTCAGTATT
1778577 TGAAATTTGATCTTAGTCAATACC
1 TGAAATTTGATCTTAGTCAATACC
* *
1778601 TGGAATTTGATCTTGGTCAATACC
1 TGAAATTTGATCTTAGTCAATACC
* * *
1778625 CGAAATTTGATCTTGGCCAATAC
1 TGAAATTTGATCTTAGTCAATAC
1778648 TCATATTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (24 bp):
TGAAATTTGATCTTAGTCAATACC
Found at i:1779283 original size:17 final size:16
Alignment explanation
Indices: 1779261--1779294 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1779251 TAAAAACAGT
1779261 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1779278 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1779294 A
1 A
1779295 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1785872 original size:17 final size:16
Alignment explanation
Indices: 1785850--1785883 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1785840 TAAAAACAAT
1785850 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1785867 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1785883 A
1 A
1785884 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1786401 original size:24 final size:24
Alignment explanation
Indices: 1786357--1786403 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1786347 ATAAAGAACC
*
1786357 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
1786381 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
1786404 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:1787916 original size:207 final size:207
Alignment explanation
Indices: 1787558--1787955 Score: 649
Period size: 207 Copynumber: 1.9 Consensus size: 207
1787548 TCCAAATATA
* * * *
1787558 TTCACGCAGGTCACTTCAGGATTAACTTGCATAAACCAAACATTTGCTCGAACAACACTTTCTAC
1 TTCACGCAGCTCACTTCAGGATTAACCTGCACAAACCAAACATTTGCTCAAACAACACTTTCTAC
* *
1787623 ACATCTAAAACCAACAAACAGCAAATTATTGAATTATAGGTACTTAAACCAAACACTTTCAAACC
66 ACATCTAAAACCAACAAACAACAAATTATTGAATTATAGGTACTTAAACCAAACAATTTCAAACC
* *
1787688 AACAAGTATATAACAGTTAACAACACTTGCACAAACTTACCAATAACAACTGGTTGTTTATGCAC
131 AACAAGTATATAACAGTTAACAACACTTGCACAAACTTACCAATAACAAATGGTTGATTATGCAC
1787753 AAATACATCAAT
196 AAATACATCAAT
1787765 TTCACGCAGCTCACTTCAGGATTAACCTGCACAAACCAAACATTTGCTCAAACAACACTTTCTAC
1 TTCACGCAGCTCACTTCAGGATTAACCTGCACAAACCAAACATTTGCTCAAACAACACTTTCTAC
*
1787830 ACATCTAAAACCAACAAACAACAAATTATTGAATTCTAGGTACTT-AACCAAACAATTTCAAACC
66 ACATCTAAAACCAACAAACAACAAATTATTGAATTATAGGTACTTAAACCAAACAATTTCAAACC
* *
1787894 AACAAAG-AGTATATA-TGTTAACAACACTTGCTCAAACTTACCAATAACAAATGGTTGATTAT
131 AAC-AAGTA-TATA-ACAGTTAACAACACTTGCACAAACTTACCAATAACAAATGGTTGATTAT
1787956 ACATACTTTT
Statistics
Matches: 177, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
206 22 0.12
207 154 0.87
208 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.26
Consensus pattern (207 bp):
TTCACGCAGCTCACTTCAGGATTAACCTGCACAAACCAAACATTTGCTCAAACAACACTTTCTAC
ACATCTAAAACCAACAAACAACAAATTATTGAATTATAGGTACTTAAACCAAACAATTTCAAACC
AACAAGTATATAACAGTTAACAACACTTGCACAAACTTACCAATAACAAATGGTTGATTATGCAC
AAATACATCAAT
Found at i:1789091 original size:21 final size:21
Alignment explanation
Indices: 1789065--1789179 Score: 104
Period size: 21 Copynumber: 5.5 Consensus size: 21
1789055 GTGAATCAGG
* **
1789065 CTCTTGAATGGTGGGAGGTAC
1 CTCTTGAACGGTGGGAGGGGC
* **
1789086 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
1789107 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
* **
1789128 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
* * * *
1789149 CTCTTGAATGATAGAAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
1789170 TTCTTGAACG
1 CTCTTGAACG
1789180 ATGACAGGTG
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:1789124 original size:42 final size:42
Alignment explanation
Indices: 1789065--1789187 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
1789055 GTGAATCAGG
* *
1789065 CTCTTGAATGGTGGGAGGTACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
*
1789107 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
* * * * * *
1789149 CTCTTGAATGATAGAAGGGGCTTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGG
1789188 TGAATCAGGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:1789503 original size:21 final size:21
Alignment explanation
Indices: 1789479--1789537 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
1789469 GTAGAGCGGC
*
1789479 TACCTCATCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
1789500 TACCTCACCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
1789521 TACCTCACCACGTAAAG
1 TACCTCACCACGTAAAG
1789538 CACCATTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (21 bp):
TACCTCACCACGTAAAGTAGA
Found at i:1789595 original size:21 final size:22
Alignment explanation
Indices: 1789479--1789619 Score: 84
Period size: 21 Copynumber: 6.7 Consensus size: 22
1789469 GTAGAGCGGC
*
1789479 TACCTCATCACGTAAAGTA--G
1 TACCTCATCACGTAAAGCACCG
* *
1789499 ATACCTCACCACGTAAAGTA--G
1 -TACCTCATCACGTAAAGCACCG
* *
1789520 ATACCTCACCACGTAAAGCACCAT
1 -TACCTCATCACGTAAAGCACC-G
* * *
1789544 TA--TCATCGCGTAAAACATC-
1 TACCTCATCACGTAAAGCACCG
**
1789563 TACCTCGCCACGTAAAG-ACCG
1 TACCTCATCACGTAAAGCACCG
* *
1789584 TACCTCATCACGCAAAGCACTG
1 TACCTCATCACGTAAAGCACCG
1789606 -ACCTCATCACGTAA
1 TACCTCATCACGTAA
1789620 CTCCCCTAAC
Statistics
Matches: 96, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 87 0.91
22 3 0.03
23 2 0.02
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.20
Consensus pattern (22 bp):
TACCTCATCACGTAAAGCACCG
Found at i:1791188 original size:20 final size:20
Alignment explanation
Indices: 1791147--1791188 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1791137 AAAATGAAAA
* *
1791147 TCGTGTTGCGAATTTCATTT
1 TCGTGTTGCGAATTTAAGTT
1791167 TCGTGTTGCGAATTTAAGTT
1 TCGTGTTGCGAATTTAAGTT
1791187 TC
1 TC
1791189 AAAAACTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (20 bp):
TCGTGTTGCGAATTTAAGTT
Found at i:1791690 original size:20 final size:20
Alignment explanation
Indices: 1791667--1791704 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1791657 AATTTGACTT
*
1791667 CTGTGTTGCGAATTTGGAAA
1 CTGTGTTGCGAAATTGGAAA
1791687 CTGTGTTGCGAAATTGGA
1 CTGTGTTGCGAAATTGGA
1791705 GTTCGCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.34
Consensus pattern (20 bp):
CTGTGTTGCGAAATTGGAAA
Found at i:1794139 original size:14 final size:15
Alignment explanation
Indices: 1794115--1794144 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1794105 GCCTGAAGTC
1794115 ATTGAATTAAATTAA
1 ATTGAATTAAATTAA
1794130 ATTG-ATTAAATTAA
1 ATTGAATTAAATTAA
1794144 A
1 A
1794145 ATATATAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTGAATTAAATTAA
Found at i:1801192 original size:23 final size:23
Alignment explanation
Indices: 1801166--1801209 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1801156 TTTAAATAAA
*
1801166 ATTTTACATTTTATTAATTTTCC
1 ATTTTACAATTTATTAATTTTCC
* *
1801189 ATTTTATAATTTCTTAATTTT
1 ATTTTACAATTTATTAATTTT
1801210 TTTTAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTACAATTTATTAATTTTCC
Found at i:1801200 original size:15 final size:16
Alignment explanation
Indices: 1801165--1801200 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1801155 TTTTAAATAA
1801165 AATTTTACATTTTATT
1 AATTTTACATTTTATT
*
1801181 AATTTTCCATTTTA-T
1 AATTTTACATTTTATT
1801196 AATTT
1 AATTT
1801201 CTTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTACATTTTATT
Found at i:1807906 original size:2 final size:2
Alignment explanation
Indices: 1807899--1807932 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1807889 GACTTCAAAA
1807899 AT AT 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
1807933 GTATGTTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1808232 original size:17 final size:17
Alignment explanation
Indices: 1808210--1808245 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1808200 AAGATACGCT
1808210 AACATCAATTTAAATCA
1 AACATCAATTTAAATCA
1808227 AACATCAATTTAAATCA
1 AACATCAATTTAAATCA
1808244 AA
1 AA
1808246 GTTAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
AACATCAATTTAAATCA
Found at i:1812655 original size:13 final size:13
Alignment explanation
Indices: 1812637--1812661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1812627 TACAGACGCA
1812637 CATATGAAGACTG
1 CATATGAAGACTG
1812650 CATATGAAGACT
1 CATATGAAGACT
1812662 AGGAGTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
CATATGAAGACTG
Found at i:1813378 original size:21 final size:22
Alignment explanation
Indices: 1813340--1813380 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1813330 TTGTTGTTGT
1813340 TAATTTTACATCTTAAATTTTA
1 TAATTTTACATCTTAAATTTTA
*
1813362 TAATTTTACCT-TTAAATTT
1 TAATTTTACATCTTAAATTT
1813381 GTAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTTTACATCTTAAATTTTA
Found at i:1814822 original size:20 final size:20
Alignment explanation
Indices: 1814784--1814839 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
1814774 ATGCATAGAT
1814784 AGTGCATCGATGCACACTG-AG
1 AGTGCATCGAT--ACACTGTAG
*
1814805 GGATGCATCGATACACTGTAG
1 AG-TGCATCGATACACTGTAG
1814826 AGTGCATCGATACA
1 AGTGCATCGATACA
1814840 TACCTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 18 0.58
21 4 0.13
22 9 0.29
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (20 bp):
AGTGCATCGATACACTGTAG
Found at i:1815373 original size:21 final size:20
Alignment explanation
Indices: 1815324--1815386 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
1815314 GTCGAGGGAT
**
1815324 TATCAGTGGTCCTTCGGGGA
1 TATCAGTGGTCCTTCGGACA
1815344 TAT-AGTGGTCCTTCGAGACA
1 TATCAGTGGTCCTTCG-GACA
1815364 TATCAGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTC-GGACA
1815385 TA
1 TA
1815387 GTGGTCTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 12 0.32
20 8 0.21
21 17 0.45
22 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (20 bp):
TATCAGTGGTCCTTCGGACA
Found at i:1815391 original size:18 final size:18
Alignment explanation
Indices: 1815328--1815420 Score: 123
Period size: 18 Copynumber: 4.9 Consensus size: 18
1815318 AGGGATTATC
*
1815328 AGTGGTCCTTCGGGGATAT
1 AGTGGTCCTTC-GGGACAT
*
1815347 AGTGGTCCTTCGAGACATAT
1 AGTGGTCCTTCGGGAC--AT
1815367 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
1815386 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
1815404 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1815421 AATATTCAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
18 36 0.55
19 13 0.20
20 2 0.03
21 15 0.23
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1815403 original size:39 final size:38
Alignment explanation
Indices: 1815324--1815420 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 38
1815314 GTCGAGGGAT
*
1815324 TATCAGTGGTCCTTCGGGGATATAGTGGTCCTTCGAGAC
1 TATCAGTGGTCCTTC-GGGACATAGTGGTCCTTCGAGAC
* *
1815363 ATATCAGTGGTCCTTCGGGACATAGTGGTCTTTCGGGAC
1 -TATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGAGAC
1815402 -AT-AGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTCGGGACA
1815421 AATATTCAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
36 17 0.31
37 2 0.04
39 20 0.37
40 15 0.28
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (38 bp):
TATCAGTGGTCCTTCGGGACATAGTGGTCCTTCGAGAC
Found at i:1821979 original size:85 final size:87
Alignment explanation
Indices: 1821826--1821986 Score: 256
Period size: 85 Copynumber: 1.9 Consensus size: 87
1821816 TTTTTTTTTT
* *
1821826 GGTAAACTACTCGTTTAGATATTTAAACTATTAATTTTGACTTATTTTAGTATCTAAAC-TTTTA
1 GGTAAACTACTAGTTTAGATATTTAAACTATCAATTTTGACTTATTTTAGTATCTAAACTTTTTA
1821890 TTTTTTTCAAACCATACCCAAA
66 TTTTTTTCAAACCATACCCAAA
* *
1821912 GGTAAACTACTAGTTTAG-TATTTAAACTATCAATTTTGACTTATTTTAGTTTCTAAAGTTTATT
1 GGTAAACTACTAGTTTAGATATTTAAACTATCAATTTTGACTTATTTTAGTATCTAAACTTT-TT
1821976 -TTTTTTTCAAA
65 ATTTTTTTCAAA
1821987 ATCATACTCA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
85 37 0.54
86 30 0.43
87 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.47
Consensus pattern (87 bp):
GGTAAACTACTAGTTTAGATATTTAAACTATCAATTTTGACTTATTTTAGTATCTAAACTTTTTA
TTTTTTTCAAACCATACCCAAA
Found at i:1823420 original size:20 final size:20
Alignment explanation
Indices: 1823326--1823694 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
1823316 GATTTTCCAT
* ** *
1823326 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1823346 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1823366 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1823386 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
1823406 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1823426 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1823446 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1823466 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1823486 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1823506 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1823526 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1823546 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1823566 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1823586 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1823606 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1823626 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1823646 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1823666 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1823686 AATCACAAC
1 AATCGCAAC
1823695 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1824406 original size:24 final size:24
Alignment explanation
Indices: 1824367--1824413 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1824357 AAATTTGGTC
1824367 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1824391 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1824414 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1826935 original size:19 final size:19
Alignment explanation
Indices: 1826913--1827237 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
1826903 CGGAAAATAC
*
1826913 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1826932 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1826946 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1826966 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1826980 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1826999 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1827018 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1827032 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1827051 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1827070 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1827084 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
1827102 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1827121 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
1827140 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1827159 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1827178 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1827192 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1827211 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1827230 AATCGCAA
1 AATCGCAA
1827238 CGAGATAATC
Statistics
Matches: 267, Mismatches: 12, Indels: 54
0.80 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 20 0.07
19 156 0.58
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1827000 original size:33 final size:34
Alignment explanation
Indices: 1826913--1827237 Score: 312
Period size: 33 Copynumber: 9.2 Consensus size: 34
1826903 CGGAAAATAC
* *
1826913 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
1826946 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
1826980 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
1827018 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
1827051 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
1827084 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
1827121 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
1827159 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
1827191 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
1827230 AATCGCAA
1 AATCGCAA
1827238 CGAGATAATC
Statistics
Matches: 255, Mismatches: 12, Indels: 45
0.82 0.04 0.14
Matches are distributed among these distances:
32 11 0.04
33 101 0.40
34 34 0.13
35 7 0.03
36 7 0.03
37 20 0.08
38 73 0.29
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:1827156 original size:160 final size:156
Alignment explanation
Indices: 1826945--1827259 Score: 542
Period size: 160 Copynumber: 2.0 Consensus size: 156
1826935 CCCAACATGA
*
1826945 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGC
1 AAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGC
*
1827010 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
66 GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1827075 CAACGAGAGAATCGCAATGCGAAATG
131 CAACGAGAGAATCGCAATGCGAAATG
*
1827101 AAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGC
1 AAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAATCGC
1827165 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1827230 AATCGCAACGAGATAATCGCAATGCGAAAT
126 AATCGCAACGAGAGAATCGCAATGCGAAAT
1827260 TATAAACGCA
Statistics
Matches: 150, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
155 13 0.09
156 13 0.09
157 3 0.02
159 1 0.01
160 120 0.80
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (156 bp):
AAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
CAACGAGAGAATCGCAATGCGAAATG
Found at i:1827275 original size:52 final size:52
Alignment explanation
Indices: 1826941--1827259 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
1826931 AAATCCCAAC
1826941 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1826994 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1827046 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
1827098 ATG-AAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
1827154 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
1827206 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1827258 AT
1 AT
1827260 TATAAACGCA
Statistics
Matches: 253, Mismatches: 7, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
51 25 0.10
52 159 0.63
53 20 0.08
55 4 0.02
56 20 0.08
57 25 0.10
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:1827374 original size:19 final size:19
Alignment explanation
Indices: 1827266--1827366 Score: 142
Period size: 20 Copynumber: 5.6 Consensus size: 19
1827256 AAATTATAAA
1827266 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1827285 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1827305 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1827321 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1827338 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
1827356 CGCATTGCGAT
1 CGCATTGCGAT
1827367 AGTCATTTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
18 18 0.25
19 16 0.22
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1827488 original size:13 final size:13
Alignment explanation
Indices: 1827472--1827506 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1827462 CATCAATTAC
1827472 ACAAATCAACTTT
1 ACAAATCAACTTT
*
1827485 ACAAATCATCTTT
1 ACAAATCAACTTT
1827498 ACAAATCAA
1 ACAAATCAA
1827507 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (13 bp):
ACAAATCAACTTT
Done.