Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 209 of 213
Found at i:62625634 original size:98 final size:97
Alignment explanation
Indices: 62625460--62625655 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 97
62625450 GTACAATAAA
* *
62625460 ACTTTAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTACGATTC
1 ACTTTAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
62625525 CTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
62625557 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTT-AAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
62625622 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
65 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
62625655 A
1 A
62625656 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 5 0.05
98 88 0.95
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (97 bp):
ACTTTAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:62627155 original size:19 final size:19
Alignment explanation
Indices: 62627131--62627243 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
62627121 AATCATATAT
62627131 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
62627150 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
62627169 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
62627190 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
62627209 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
62627228 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
62627244 CTCAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
19 65 0.78
21 18 0.22
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:62627196 original size:40 final size:38
Alignment explanation
Indices: 62627131--62627236 Score: 167
Period size: 40 Copynumber: 2.7 Consensus size: 38
62627121 AATCATATAT
62627131 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
62627169 TCTAAGATTGCATATATCATATCTAAGATTGTATATCATA
1 TCTAAGATTGC--ATATCATATCTAAGATTATATATCATA
* *
62627209 TCTAGGATTGCATATCATATATAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
62627237 GCATATCCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
38 27 0.43
40 36 0.57
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:62627198 original size:59 final size:59
Alignment explanation
Indices: 62627131--62627242 Score: 179
Period size: 59 Copynumber: 1.9 Consensus size: 59
62627121 AATCATATAT
* *
62627131 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATATAAGATTGCATATATCATA
* * *
62627190 TCTAAGATTGTATATCATATCTAGGATTGCATATCATATATAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATATAAGATTGCATAT
62627243 CCTCAAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (59 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATATAAGATTGCATATATCATA
Found at i:62631098 original size:63 final size:63
Alignment explanation
Indices: 62631021--62631174 Score: 308
Period size: 63 Copynumber: 2.4 Consensus size: 63
62631011 GGTAAGTTAA
62631021 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
62631084 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
1 TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
62631147 TGTAAAAGCAGATTCCTCCTTATCTGCT
1 TGTAAAAGCAGATTCCTCCTTATCTGCT
62631175 CACTTCTACT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (63 bp):
TGTAAAAGCAGATTCCTCCTTATCTGCTTATGTCCTTTATGTATGAGTCATGTCCTTTATGTT
Found at i:62637503 original size:6 final size:6
Alignment explanation
Indices: 62637489--62637518 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
62637479 CCCCGCAACA
*
62637489 AATAAT AATAGT AATAGT AATAGT AATAGT
1 AATAGT AATAGT AATAGT AATAGT AATAGT
62637519 CAAGCGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:62638610 original size:133 final size:133
Alignment explanation
Indices: 62638450--62638803 Score: 389
Period size: 133 Copynumber: 2.6 Consensus size: 133
62638440 GGTGTTTTCT
* * * * * *
62638450 GAGAAATGCCGATAATGATAACGAATTTAAGGAAAAAATCTGAGCAAAACTGTACCGTTTTGTTG
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTG
*
62638515 TTTCATTTTATTTCTTTAGTGGCGCA-TTTAAAAAAACGCCGGAAAAGAAT-GCAT-TAGCGGCG
65 TTTCATTTTATTTCTTTAGTGGCGCACTGT-AAAAAACGCC-GAAAAGAATGGCATATAGCGGCG
62638577 TT-TTCAG
128 TTATT--G
* *
62638584 G-GAAACGCCGGTAAAGATATCTAATTTGAGGAAAAAATTTG-GACAAAACGCTACCGTTTTATT
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAG-CAAAACG-TACCGTTTTGTT
* * * * * * * *
62638647 GCTTCATTTTATTTCCTTACTGGCGCACTGTAAAAAACGCCGCAAATATTGGGATATAGTGGCGT
64 GTTTCATTTTATTTCTTTAGTGGCGCACTGTAAAAAACGCCGAAAAGAATGGCATATAGCGGCGT
62638712 TATTG
129 TATTG
**
62638717 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAATTTTTGAGCAAAACGGTACCGTTTTGTTG
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTG
* *
62638782 TTTCCTTTT-TATGCTTTAGTGG
65 TTTCATTTTAT-TTCTTTAGTGG
62638804 TGAAATGTTA
Statistics
Matches: 184, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
132 8 0.04
133 90 0.49
134 82 0.45
135 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (133 bp):
GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAACGTACCGTTTTGTTGT
TTCATTTTATTTCTTTAGTGGCGCACTGTAAAAAACGCCGAAAAGAATGGCATATAGCGGCGTTA
TTG
Found at i:62638817 original size:134 final size:132
Alignment explanation
Indices: 62638450--62638817 Score: 370
Period size: 134 Copynumber: 2.8 Consensus size: 132
62638440 GGTGTTTTCT
* * * * * * *
62638450 GAGAAATGCCGATAATGATAACGAATTTAAGGAAAAAATCTGAGCAAAACTGTACCGTTTTGTTG
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTG
*
62638515 TTTCATTTTATTTCTTTAGTGGCGCAT-TTAAAAAAACGCCGGAAAAGAATGCATTAGCGGCGTT
66 TTTCATTTTATTTCTTTAGTGGCGAATGTT--AAAAACGCCGGAAAAGAATGCATTAGCGGCGTT
62638579 TTCAG
129 TT-AG
* * *
62638584 G-GAAACGCCGGTAAAGATATCTAATTTGAGGAAAAAATTTG-GACAAAACGCTACCGTTTTATT
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAG-CAAAACGGTACCGTTTTGTT
* * * * * * * * * *
62638647 GCTTCATTTTATTTCCTTACTGGCGCACTGTAAAAAACGCC-GCAAATATTGGGATATAGTGGCG
65 GTTTCATTTTATTTCTTTAGTGGCG-AATGTTAAAAACGCCGGAAAAGAAT-GCAT-TAGCGGCG
62638711 TTATT-G
127 TT-TTAG
**
62638717 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAATTTTTGAGCAAAACGGTACCGTTTTGTTG
1 GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTG
* * *
62638782 TTTCCTTTT-TATGCTTTAGTGGTGAAATGTTAAAAA
66 TTTCATTTTAT-TTCTTTAGTGGCG-AATGTTAAAAA
62638818 ACTCCAGAAA
Statistics
Matches: 190, Mismatches: 35, Indels: 18
0.78 0.14 0.07
Matches are distributed among these distances:
132 7 0.04
133 87 0.46
134 92 0.48
135 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (132 bp):
GAGAAACGCCGATAAAGATATCTAATTTGAGGAAAAAATTTGAGCAAAACGGTACCGTTTTGTTG
TTTCATTTTATTTCTTTAGTGGCGAATGTTAAAAACGCCGGAAAAGAATGCATTAGCGGCGTTTT
AG
Found at i:62639194 original size:20 final size:21
Alignment explanation
Indices: 62639169--62639208 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
62639159 TTTGTGATCT
*
62639169 GGGCTTAGAG-TTTAGGTTTA
1 GGGCTTAGAGATTGAGGTTTA
*
62639189 GGGCTTGGAGATTGAGGTTT
1 GGGCTTAGAGATTGAGGTTT
62639209 CAGGTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.17, C:0.05, G:0.40, T:0.38
Consensus pattern (21 bp):
GGGCTTAGAGATTGAGGTTTA
Found at i:62645379 original size:29 final size:28
Alignment explanation
Indices: 62645346--62645440 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 28
62645336 AATTTCAAAA
62645346 AAAATTACATTTTGACCCCTAAAATTTTT
1 AAAATTACATTTT-ACCCCTAAAATTTTT
* * * * *
62645375 GAAATTTCACTTTAACCCCTTAACTTTTT
1 AAAATTACA-TTTTACCCCTAAAATTTTT
*
62645404 AAAATTACATTTTAACCCTAAAATTTTCT
1 AAAATTACATTTTACCCCTAAAATTTT-T
62645433 CAAAATTA
1 -AAAATTA
62645441 TACTTTGGCC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
28 14 0.27
29 28 0.54
30 10 0.19
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (28 bp):
AAAATTACATTTTACCCCTAAAATTTTT
Found at i:62645945 original size:14 final size:14
Alignment explanation
Indices: 62645909--62645991 Score: 64
Period size: 14 Copynumber: 6.0 Consensus size: 14
62645899 GGCTGATCAG
*
62645909 GAAAGAAAGAA-AG
1 GAAAGAAAGAAGAA
*
62645922 GAAGGAAAGAAGAA
1 GAAAGAAAGAAGAA
62645936 GAAAGAAAGAAGAA
1 GAAAGAAAGAAGAA
* *
62645950 -AATGGGAAGAAGAA
1 GAA-AGAAAGAAGAA
* *
62645964 GGAAGAAAAAAAGAA
1 GAAAG-AAAGAAGAA
*
62645979 -AAAGAAAAAAGAA
1 GAAAGAAAGAAGAA
62645992 AATAATTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
13 21 0.38
14 27 0.48
15 8 0.14
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (14 bp):
GAAAGAAAGAAGAA
Found at i:62652013 original size:11 final size:11
Alignment explanation
Indices: 62651997--62652024 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62651987 ACGCTGAGGT
62651997 ATTTCTTTTAA
1 ATTTCTTTTAA
62652008 ATTTCTTTTAA
1 ATTTCTTTTAA
62652019 ATTTCT
1 ATTTCT
62652025 GTTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTCTTTTAA
Found at i:62652206 original size:77 final size:76
Alignment explanation
Indices: 62652013--62652801 Score: 971
Period size: 77 Copynumber: 10.3 Consensus size: 76
62652003 TTTAAATTTC
* *
62652013 TTTTAAATTTCTG-TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGT--CA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
62652075 CG-TCGAGGTAT
66 CGCT-GAGGTAT
* * *
62652086 TTTTAAATTTCTATTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAGGTCG
1 TTTTAAATTTC--TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
*
62652151 CACGCTGAGTTAT
64 CACGCTGAGGTAT
62652164 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
62652229 ACGCTGAGGTAT
65 ACGCTGAGGTAT
* *
62652241 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGATGTGAATTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
62652306 ACGCTGAGGTATTT
65 ACGCTGAGGTA--T
*
62652320 CTTTTAAATTTCTGTTTTTCAAAAAAGCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
1 -TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
*
62652385 CACGCTGAGGTGTTT
64 CACGCTGA-G-GTAT
* *
62652400 CTTTTAAATTTCTG-TTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT--C
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
62652462 ACGTTGAGGTAT
65 ACGCTGAGGTAT
* * * *
62652474 TTTTCAATTTCTGTTTTTCGAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
*
62652539 CGTTGAGGTATTT
66 CGCTGAGGTA--T
*
62652552 TTTTAAAAATTTCTGTTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCGGG
1 TTTT--AAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
62652617 T--CACGCTGAGGTA-
61 TCGCACGCTGAGGTAT
* * * * *
62652630 TTTTAAATTGT-T-TTTTT--TAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACCC
1 TTTTAAATT-TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
* *
62652690 ATGCCGAGGTATTT
65 ACGCTGAGGTA--T
* * * *
62652704 CTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGTCTCGGGCCAC
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
62652769 ACGCCGAGGTA-
65 ACGCTGAGGTAT
*
62652780 TTTTCAATTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
62652802 TAAAAAGAAA
Statistics
Matches: 633, Mismatches: 49, Indels: 66
0.85 0.07 0.09
Matches are distributed among these distances:
69 1 0.00
70 34 0.05
71 10 0.02
72 5 0.01
73 23 0.04
74 46 0.07
75 33 0.05
76 80 0.13
77 129 0.20
78 102 0.16
79 20 0.03
80 92 0.15
81 12 0.02
82 2 0.00
83 44 0.07
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (76 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
CGCTGAGGTAT
Found at i:62652795 original size:153 final size:154
Alignment explanation
Indices: 62652013--62652801 Score: 972
Period size: 157 Copynumber: 5.1 Consensus size: 154
62652003 TTTAAATTTC
* *
62652013 TTTTAAATTTCTG-TTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGT--C
1 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
62652074 ACG-TCGAGGTA--TTTTTAAATTTCTATTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
66 ACGCT-GAGGTATTTTTTTAAATTTC--TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
62652136 TTGAGCCGCAGGTCGCACGCTGAGTTAT
128 TTGAGCCTC-GGGCGCACGCTGAGGTAT
62652164 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
* *
62652229 ACGCTGAGGTA--TTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGATGTGAATT
66 ACGCTGAGGTATTTTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTT
62652292 GAGCCTCGGGTCGCACGCTGAGGTATTT
130 GAGCCTCGGG-CGCACGCTGAGGTA--T
*
62652320 CTTTTAAATTTCTGTTTTTCAAAAAAGCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
1 -TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
* *
62652385 CACGCTGAGGTGTTTCTTTTAAATTTCTG-TTTTCAAAAATAAACTCATATTGCGAGAGGTGAGT
65 CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
62652449 TGAGCCTCGAG-TCACGTTGAGGTAT
129 TGAGCCTCGGGCGCACGCTGAGGTAT
* * * *
62652474 TTTTCAATTTCTGTTTTTC-GAAAATCAACTCATATTGTGATAGGTGAGTTGAGCCTCGGGTCGC
1 TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
*
62652538 ACGTTGAGGTATTTTTTTAAAAATTTCTGTTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
66 ACGCTGAGGTATTTTTTT--AAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTG
* *
62652603 AATTGAGCCTCGGG-TCACGCTGAGGTA-
126 AGTTGAGCCTCGGGCGCACGCTGAGGTAT
* * * * *
62652630 TTTTAAATTGT-T-TTTTT---TAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACC
1 TTTTAAATT-TCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
* * *
62652689 CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGT
65 CACGCTGAGGTATTT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
62652754 TGAGTCTCGGGCCACACGCCGAGGTA-
129 TGAGCCTCGGG-CGCACGCTGAGGTAT
*
62652780 TTTTCAATTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
62652802 TAAAAAGAAA
Statistics
Matches: 565, Mismatches: 45, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
148 44 0.08
149 1 0.00
150 20 0.04
151 31 0.05
152 72 0.13
153 113 0.20
154 49 0.09
155 27 0.05
156 22 0.04
157 130 0.23
158 37 0.07
159 6 0.01
160 13 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (154 bp):
TTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGC
ACGCTGAGGTATTTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCGGGCGCACGCTGAGGTAT
Found at i:62652996 original size:29 final size:29
Alignment explanation
Indices: 62652962--62653078 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
62652952 AAAAAATAAA
62652962 AAAATTACATTTTGACCCCTAAAATTTTT
1 AAAATTACATTTTGACCCCTAAAATTTTT
** * * * * * *
62652991 GGAATTTCACTTTAACCCGTTAACTTTTT
1 AAAATTACATTTTGACCCCTAAAATTTTT
**
62653020 AAAATTACATTTTGA-CCCTAATTTTTTCT
1 AAAATTACATTTTGACCCCTAAAATTTT-T
* * *
62653049 CAAAATTACACTTTGGCCCC-AAAAGTTTT
1 -AAAATTACATTTTGACCCCTAAAATTTTT
62653078 A
1 A
62653079 CTGTGTTTGC
Statistics
Matches: 63, Mismatches: 22, Indels: 7
0.68 0.24 0.08
Matches are distributed among these distances:
28 9 0.14
29 33 0.52
30 18 0.29
31 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAAAATTTTT
Found at i:62653416 original size:23 final size:24
Alignment explanation
Indices: 62653390--62653452 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
62653380 AAGCAAAGAT
* *
62653390 ACAAAAAAGTA-AAAAAATAGCAA
1 ACAAAAAAGAAGAAAAAAGAGCAA
*
62653413 ACAAAGAAGAAGAAAAAAGAGCAA
1 ACAAAAAAGAAGAAAAAAGAGCAA
* *
62653437 AGAAAGAA-AAGAAAAA
1 ACAAAAAAGAAGAAAAA
62653453 GAAGAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 17 0.49
24 18 0.51
ACGTcount: A:0.75, C:0.06, G:0.16, T:0.03
Consensus pattern (24 bp):
ACAAAAAAGAAGAAAAAAGAGCAA
Found at i:62653435 original size:24 final size:23
Alignment explanation
Indices: 62653401--62653452 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
62653391 CAAAAAAGTA
*
62653401 AAAAAATAGCAAACAAAGAAGAAG
1 AAAAAAGAGCAAACAAAGAA-AAG
*
62653425 AAAAAAGAGCAAAGAAAGAAAAG
1 AAAAAAGAGCAAACAAAGAAAAG
62653448 AAAAA
1 AAAAA
62653453 GAAGAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (23 bp):
AAAAAAGAGCAAACAAAGAAAAG
Found at i:62653546 original size:4 final size:4
Alignment explanation
Indices: 62653537--62653591 Score: 55
Period size: 4 Copynumber: 14.0 Consensus size: 4
62653527 GGCTGATCGG
62653537 GAAA GAAA GAAAA GATGAA -AAA GAAA G-AA GAAA GAAA G-AA GAAA GAAA
1 GAAA GAAA G-AAA GA--AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
62653585 G-AA GAAA
1 GAAA GAAA
62653592 ATGGGAAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
3 11 0.25
4 26 0.59
5 5 0.11
6 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:62653561 original size:18 final size:16
Alignment explanation
Indices: 62653538--62653628 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 16
62653528 GCTGATCGGG
62653538 AAAGAAAGAAAAGATGAA
1 AAAGAAAGAAAA-A-GAA
62653556 AAAGAAAGAAGAAAGAA
1 AAAGAAAGAA-AAAGAA
62653573 AGAAGAAAGAAAGAAGAA
1 A-AAGAAAGAAA-AAGAA
* *
62653591 AATGGGAAGAAAAAG--
1 AA-AGAAAGAAAAAGAA
* *
62653606 GAAGAAAAAAAAAGAA
1 AAAGAAAGAAAAAGAA
62653622 AAAGAAA
1 AAAGAAA
62653629 AAAGAAAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 6 0.10
17 9 0.15
18 33 0.55
19 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:62653569 original size:7 final size:7
Alignment explanation
Indices: 62653537--62653634 Score: 55
Period size: 7 Copynumber: 14.0 Consensus size: 7
62653527 GGCTGATCGG
62653537 GAAAGAAA
1 GAAAG-AA
*
62653545 GAAAAGAT
1 G-AAAGAA
62653553 GAAA-AA
1 GAAAGAA
62653559 GAAAGAA
1 GAAAGAA
62653566 GAAAGAA
1 GAAAGAA
62653573 -AGAAGAAA
1 GA-AAG-AA
62653581 GAAAGAA
1 GAAAGAA
*
62653588 GAAA-ATG
1 GAAAGA-A
*
62653595 GGAAGAA
1 GAAAGAA
62653602 -AAAGGAA
1 GAAA-GAA
62653609 GAAA-AA
1 GAAAGAA
*
62653615 AAAAGAA
1 GAAAGAA
62653622 -AAAGAA
1 GAAAGAA
*
62653628 AAAAGAA
1 GAAAGAA
62653635 AATAATTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 23
0.71 0.07 0.23
Matches are distributed among these distances:
6 20 0.28
7 35 0.49
8 12 0.17
9 5 0.07
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (7 bp):
GAAAGAA
Found at i:62653629 original size:11 final size:10
Alignment explanation
Indices: 62653538--62653628 Score: 78
Period size: 10 Copynumber: 8.7 Consensus size: 10
62653528 GCTGATCGGG
62653538 AAAGAAAG-A
1 AAAGAAAGAA
*
62653547 AAAG-ATGAA
1 AAAGAAAGAA
62653556 AAAGAAAGAA
1 AAAGAAAGAA
62653566 GAAAGAAAGAA
1 -AAAGAAAGAA
62653577 GAAAGAAAGAAGA
1 -AAAGAAAG-A-A
*
62653590 AAATGGGAAGAA
1 AAA--GAAAGAA
*
62653602 AAAGGAAGAA
1 AAAGAAAGAA
*
62653612 AAAAAAAGAA
1 AAAGAAAGAA
62653622 AAAGAAA
1 AAAGAAA
62653629 AAAGAAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
8 2 0.03
9 9 0.13
10 25 0.36
11 19 0.28
12 8 0.12
13 2 0.03
14 4 0.06
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:62653635 original size:7 final size:7
Alignment explanation
Indices: 62653554--62653636 Score: 62
Period size: 7 Copynumber: 11.4 Consensus size: 7
62653544 AGAAAAGATG
62653554 AAAAAGA
1 AAAAAGA
*
62653561 AAGAAGA
1 AAAAAGA
62653568 AAGAAAGA
1 AA-AAAGA
*
62653576 AGAAAGA
1 AAAAAGA
*
62653583 AAGAAGA
1 AAAAAGA
62653590 AAATGGGAAGA
1 AAA----AAGA
*
62653601 AAAAGGA
1 AAAAAGA
*
62653608 AGAAA-A
1 AAAAAGA
62653614 AAAAAG-
1 AAAAAGA
62653620 AAAAAGA
1 AAAAAGA
62653627 AAAAAGA
1 AAAAAGA
62653634 AAA
1 AAA
62653637 TAATTTTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
6 11 0.19
7 36 0.61
8 5 0.08
11 7 0.12
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:62653982 original size:16 final size:16
Alignment explanation
Indices: 62653961--62654004 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 16
62653951 CCAACTAGAA
62653961 AAAAAAAAGAAGAAAG
1 AAAAAAAAGAAGAAAG
62653977 AAAAAAAAG-A-AAAG
1 AAAAAAAAGAAGAAAG
*
62653991 GAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
62654005 GAAGAGGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 12 0.48
15 2 0.08
16 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAGAAAG
Found at i:62654334 original size:17 final size:17
Alignment explanation
Indices: 62654314--62654346 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62654304 TGAGAAATTT
62654314 AAAAATTCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
*
62654331 AAAAATTTTCGTGTTT
1 AAAAATTCTCGTGTTT
62654347 TTTTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:62654392 original size:16 final size:17
Alignment explanation
Indices: 62654357--62654393 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
62654347 TTTTTTTGTA
62654357 TTTATGTTTTCTTAAAT
1 TTTATGTTTTCTTAAAT
*
62654374 TTTAT-TTTTTTTAAAT
1 TTTATGTTTTCTTAAAT
62654390 TTTA
1 TTTA
62654394 ATAAATAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATGTTTTCTTAAAT
Found at i:62654556 original size:18 final size:18
Alignment explanation
Indices: 62654535--62654577 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
62654525 TCAAAAAAAA
*
62654535 TTCGTGTTTTCACAAATT
1 TTCGTGTTTTCAAAAATT
62654553 TTCGTGTTTTCAAAAATT
1 TTCGTGTTTTCAAAAATT
62654571 TTCGTGT
1 TTCGTGT
62654578 AAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAATT
Found at i:62656234 original size:21 final size:21
Alignment explanation
Indices: 62656208--62656247 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62656198 CTACAACTTA
62656208 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGACGCGGCAGCGAGGG
* *
62656229 AAGCAGAGGCTGCAGCGAG
1 AAGCAGACGCGGCAGCGAG
62656248 AGAGACAGAG
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:0.30, C:0.23, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGACGCGGCAGCGAGGG
Found at i:62656256 original size:21 final size:21
Alignment explanation
Indices: 62656208--62656258 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
62656198 CTACAACTTA
* * *
62656208 AAGCAGACGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
62656229 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
62656250 -AGACAGAGG
1 AAG-CAGAGG
62656259 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.33, C:0.20, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:62656693 original size:43 final size:42
Alignment explanation
Indices: 62656633--62656977 Score: 262
Period size: 42 Copynumber: 8.1 Consensus size: 42
62656623 TAGTGGCATT
* * *
62656633 TTTGTACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCG
1 TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* ** * *
62656675 TTTGTAAAAAAAGCGCCGCTAAAGATTATGATCTATAGCGGCG
1 TTTGTAGAAAAA-CGCCGCTAAAGAACATGTTCTTTAGCGGCG
* * * * *
62656718 TTTTTATACAAAGCGCCGTTAAAGAACATGTTCTTTAGCAGCG
1 TTTGTAGA-AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* * * * *
62656761 CTTATAGAAAAACGCTGCTGAAGAACATGTTCTTCAGTCAGCAGCG
1 TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTT---T-AGCGGCG
* * *
62656807 CTTATAGAAAAACGCCGCTAAAGAACATGTTCTTCAGCGGCG
1 TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* * *
62656849 CTTAG-AGAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCG
1 -TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* * * * * *
62656891 CTTAG-ATAAAAACGTCGCTAAAGATCATGTTCTTCAGTGGCG
1 -TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
* **** * * *
62656933 TTTTTTTCTAAGCGCTGCTAAAGAACATGATCTTTAGCGGCG
1 TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
62656975 TTT
1 TTT
62656978 TTAGTTGTAA
Statistics
Matches: 245, Mismatches: 50, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
42 138 0.56
43 62 0.25
44 3 0.01
45 1 0.00
46 39 0.16
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
TTTGTAGAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
Found at i:62656834 original size:88 final size:84
Alignment explanation
Indices: 62656731--62656927 Score: 241
Period size: 88 Copynumber: 2.3 Consensus size: 84
62656721 TTATACAAAG
* * * ** *
62656731 CGCCGTTAAAGAACATGTTCTTTAGCAGCGCTTATAGAAAAACGCTGCTGAAGAACATGTTCTTC
1 CGCCGCTAAAGAACATGTTCTTCAGCAGCGCTTAGAGAAAAACGCCACTAAAGAACATGTTCTT-
*
62656796 AGTCAGCAGCGCTTATAGAAAAA
65 --T-AGCAGCGCTTAGAGAAAAA
* *
62656819 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTAGAGAAAAACGCCACTAAAGACCATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTCAGCAGCGCTTAGAGAAAAACGCCACTAAAGAACATGTTCTTT
* *
62656884 AGCGGCGCTTAGATAAAAA
66 AGCAGCGCTTAGAGAAAAA
* *
62656903 CGTCGCTAAAGATCATGTTCTTCAG
1 CGCCGCTAAAGAACATGTTCTTCAG
62656928 TGGCGTTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
84 39 0.41
85 1 0.01
88 56 0.58
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGTTCTTCAGCAGCGCTTAGAGAAAAACGCCACTAAAGAACATGTTCTTT
AGCAGCGCTTAGAGAAAAA
Found at i:62657212 original size:43 final size:42
Alignment explanation
Indices: 62657151--62657334 Score: 260
Period size: 43 Copynumber: 4.3 Consensus size: 42
62657141 TATAAAAAAT
62657151 GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCCAACAAAC
1 GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCC-ACAAAC
* *
62657194 GCCGCTAAAGACCACGATCTATAGCGACACTTCTCCCACAAAC
1 GCCGCTAAAGACCACGATCTATAGCGACGCTT-TTCCACAAAC
62657237 GCCGCTAAAGACCACGATCTATAGCGACGCTTATTCCACAAAC
1 GCCGCTAAAGACCACGATCTATAGCGACGCTT-TTCCACAAAC
* * * * *
62657280 GCCGCTAAAAACCACGACCTTTAACGGCGCTTTTTGCCACAAAC
1 GCCGCTAAAGACCACGATCTATAGCGACGC-TTTT-CCACAAAC
62657324 GCCGCTAAAGA
1 GCCGCTAAAGA
62657335 ACAAACCTTT
Statistics
Matches: 127, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
43 104 0.82
44 23 0.18
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (42 bp):
GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCCACAAAC
Found at i:62657296 original size:86 final size:87
Alignment explanation
Indices: 62657151--62657377 Score: 273
Period size: 86 Copynumber: 2.6 Consensus size: 87
62657141 TATAAAAAAT
* *
62657151 GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCCAACAAACGCCGCTAAAGACCACGATCTAT
1 GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCCAACAAACGCCGCTAAAAACCACGACCTAT
*
62657216 AGCGACAC-TTCTCCCACAAAC
66 AACGACACTTTCTCCCACAAAC
*
62657237 GCCGCTAAAGACCACGATCTATAGCGACGCTTATTCC-ACAAACGCCGCTAAAAACCACGACCTT
1 GCCGCTAAAGACCACGATCTATAGCGACGCTT-TTCCAACAAACGCCGCTAAAAACCACGACCTA
* * * *
62657301 TAACGGCGCTTTTTGCCACAAAC
65 TAACGACACTTTCTCCCACAAAC
* * * * ** *
62657324 GCCGCTAAAGAACA-AACCTTTAGCGACGCTTCTAGCAA-AAACGCCACTAAAAAC
1 GCCGCTAAAGACCACGATCTATAGCGACGCTT-TTCCAACAAACGCCGCTAAAAAC
62657378 ATAATCTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
86 93 0.76
87 29 0.24
ACGTcount: A:0.34, C:0.33, G:0.15, T:0.18
Consensus pattern (87 bp):
GCCGCTAAAGACCACGATCTATAGCGACGCTTTTCCAACAAACGCCGCTAAAAACCACGACCTAT
AACGACACTTTCTCCCACAAAC
Found at i:62657440 original size:25 final size:23
Alignment explanation
Indices: 62657403--62657449 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
62657393 ATATATTTTA
*
62657403 ATAAAATAATATTTATTTTTTATG
1 ATAAAATAATA-TTATGTTTTATG
*
62657427 ATAAATATTATATTATGTTTTAT
1 ATAAA-ATAATATTATGTTTTAT
62657450 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
ATAAAATAATATTATGTTTTATG
Found at i:62661915 original size:15 final size:15
Alignment explanation
Indices: 62661894--62661925 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
62661884 ATAAATGAAA
62661894 AATATATA-T-AATT
1 AATATATATTAAATT
62661907 AATATATATTAAATT
1 AATATATATTAAATT
62661922 AATA
1 AATA
62661926 ATAATACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATATTAAATT
Found at i:62662533 original size:19 final size:20
Alignment explanation
Indices: 62662494--62662533 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62662484 ATGCAGCTTT
*
62662494 AACGATTTTAAATACACCAA
1 AACGATTTTAAAGACACCAA
*
62662514 AACGATTTTGAAGA-ACCAA
1 AACGATTTTAAAGACACCAA
62662533 A
1 A
62662534 TCTTCACACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (20 bp):
AACGATTTTAAAGACACCAA
Found at i:62662612 original size:7 final size:7
Alignment explanation
Indices: 62662600--62662641 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
62662590 ACTAGTTAAT
62662600 CTAAACC
1 CTAAACC
62662607 CTAAACC
1 CTAAACC
*
62662614 ATAAA-C
1 CTAAACC
62662620 CTAAACC
1 CTAAACC
62662627 CTAAAACC
1 CT-AAACC
62662635 CTAAACC
1 CTAAACC
62662642 TTTAACACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 19 0.61
8 7 0.23
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:62662620 original size:14 final size:14
Alignment explanation
Indices: 62662601--62662641 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
62662591 CTAGTTAATC
62662601 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
62662615 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
62662628 TAAAACCCTAAACC
1 T-AAACCCTAAACC
62662642 TTTAACACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 8 0.33
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:62663155 original size:41 final size:41
Alignment explanation
Indices: 62663086--62663284 Score: 310
Period size: 41 Copynumber: 4.9 Consensus size: 41
62663076 AATATTTTTT
* *
62663086 GCGGCGCTT-TTCCAAAAACGCCGCTAAAGATCCAAGCATTA
1 GCGGCGCTTCTT-CAAAAGCGCCGCTAAAGACCCAAGCATTA
*
62663127 GCGGTGCTTCTTCAAAAGCGCCGCTAAAGACCCAAGCATTA
1 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCCAAGCATTA
*
62663168 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGATCCAAGCATTA
1 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCCAAGCATTA
* *
62663209 GCGACGCTTCTTCAAAAGTGCCGCTAAAGACCCAAGCATTA
1 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCCAAGCATTA
* *
62663250 GCGGCGCTTCTTCAAAAACGCCGCTAAAGTCCCAA
1 GCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCCAA
62663285 AAATAACAAA
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 143 0.99
42 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAGCGCCGCTAAAGACCCAAGCATTA
Found at i:62666120 original size:31 final size:31
Alignment explanation
Indices: 62666045--62666169 Score: 135
Period size: 31 Copynumber: 3.9 Consensus size: 31
62666035 CAAATTGTTT
*
62666045 ATTGACGATATAAAATGTAAAATGTGCAAACTATCC
1 ATTGGCGATATAAAATGTAAAATGTG----CTAT-C
62666081 ATTGGCGATATAAAATGTAAAATGTGCTATC
1 ATTGGCGATATAAAATGTAAAATGTGCTATC
* *
62666112 GTTGGCGATGTAAAATGTAAAATGTG-TGATC
1 ATTGGCGATATAAAATGTAAAATGTGCT-ATC
* * *
62666143 ATTGGTGATGTAAAATGTAAAAGGTGC
1 ATTGGCGATATAAAATGTAAAATGTGC
62666170 AAACTATCCG
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
30 1 0.01
31 51 0.63
32 4 0.05
36 25 0.31
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (31 bp):
ATTGGCGATATAAAATGTAAAATGTGCTATC
Found at i:62666446 original size:59 final size:59
Alignment explanation
Indices: 62666383--62666541 Score: 156
Period size: 60 Copynumber: 2.7 Consensus size: 59
62666373 TCACTTTCGT
* * **
62666383 GGAGAGCCACAAAGAGTTCACGGAGGAGCCCGAATATTGAATATATGCCTCACCTCCAC
1 GGAGAGCCACAAAGAGTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCTCCAC
* * * * * ***
62666442 GGAGAGCCATAAAAAGGTTCACGGAGGGGCCTGAATACTGAAGATACATCTCACCTCTGT
1 GGAGAGCCACAAAGA-GTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCTCCAC
* * * * *
62666502 GGAGAGCCACAATGGGTTCATGGAGGAACCCAAATACTGA
1 GGAGAGCCACAAAGAGTTCACGGAGGAGCCCGAATACTGA
62666542 TCATAGGTCA
Statistics
Matches: 78, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
59 33 0.42
60 45 0.58
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (59 bp):
GGAGAGCCACAAAGAGTTCACGGAGGAGCCCGAATACTGAAGATACACCTCACCTCCAC
Found at i:62668109 original size:35 final size:34
Alignment explanation
Indices: 62668022--62668109 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
62668012 AGTAACAAAT
*
62668022 GTCCTACTCCCACATATGGGGGTAGGCTTACGAG
1 GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
* *
62668056 GTTCTTGCTCCCACACATGGGGG-AGGCTTACGGGAG
1 G-TCCTACTCCCACACATGGGGGTAGGCTTAC--GAG
* *
62668092 GTCCTACTCTCATACATG
1 GTCCTACTCCCACACATG
62668110 AAGCGTAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 9 0.20
35 31 0.70
36 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (34 bp):
GTCCTACTCCCACACATGGGGGTAGGCTTACGAG
Found at i:62670506 original size:18 final size:18
Alignment explanation
Indices: 62670483--62670517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62670473 GTTTTATTCA
62670483 AAGATTTCTAGGTTTTCT
1 AAGATTTCTAGGTTTTCT
* *
62670501 AAGATTTTTGGGTTTTC
1 AAGATTTCTAGGTTTTC
62670518 CCATTCAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.51
Consensus pattern (18 bp):
AAGATTTCTAGGTTTTCT
Found at i:62670797 original size:20 final size:18
Alignment explanation
Indices: 62670765--62670808 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
62670755 TAATTATTTC
*
62670765 TTATATATATTTTAGAGT
1 TTATATATATTTTAGAAT
*
62670783 TTATATATAATTTTTATAAT
1 TTATATAT-A-TTTTAGAAT
62670803 TTATAT
1 TTATAT
62670809 TTAGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATATATATTTTAGAAT
Found at i:62672467 original size:31 final size:29
Alignment explanation
Indices: 62672412--62672478 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
62672402 TTTGATATAA
62672412 TTTTTTTTATAACTTTCCTATTTTCTAAC
1 TTTTTTTTATAACTTTCCTATTTTCTAAC
* *
62672441 TTTTTTATTATATATTTTTCTATTTTCTAA-
1 TTTTTT-TTATA-ACTTTCCTATTTTCTAAC
*
62672471 TTATTTTT
1 TTTTTTTT
62672479 CCATTTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.24
30 10 0.30
31 15 0.45
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTTTTATAACTTTCCTATTTTCTAAC
Found at i:62686071 original size:16 final size:16
Alignment explanation
Indices: 62686050--62686104 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
62686040 TAGGGTACAG
*
62686050 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAGC
* *
62686066 TGTAATTGAATAAAAC
1 TGTAATTGAATAGAGC
*
62686082 TGTAATTAAATAGAGC
1 TGTAATTGAATAGAGC
62686098 TGTAATT
1 TGTAATT
62686105 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:62694906 original size:21 final size:21
Alignment explanation
Indices: 62694865--62694906 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62694855 CAAAGGGGAG
**
62694865 TCAAATACCATGAAAGTTGCA
1 TCAAATACCATGAAACCTGCA
62694886 TCAAATACCATGAAACCTGCA
1 TCAAATACCATGAAACCTGCA
62694907 AGGCAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.21
Consensus pattern (21 bp):
TCAAATACCATGAAACCTGCA
Found at i:62704285 original size:22 final size:21
Alignment explanation
Indices: 62704243--62704286 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
62704233 TGATACATGC
*
62704243 TGTATGGAACCTTTTGTATAT
1 TGTATGGAAACTTTTGTATAT
62704264 TGTATGGAGAACTTTATG-ATAT
1 TGTATGGA-AACTTT-TGTATAT
62704286 T
1 T
62704287 AGATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 10 0.50
23 2 0.10
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (21 bp):
TGTATGGAAACTTTTGTATAT
Found at i:62705924 original size:23 final size:23
Alignment explanation
Indices: 62705879--62705924 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62705869 CTTGTTTCCT
* * *
62705879 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
*
62705902 TTTGTCTTCTCGTTTGATAGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
62705925 ATGCCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCGTTTGATAGAAA
Found at i:62711260 original size:2 final size:2
Alignment explanation
Indices: 62711253--62711278 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62711243 TAGACTCTAA
62711253 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
62711279 GGGTAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62724322 original size:20 final size:20
Alignment explanation
Indices: 62724297--62724342 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
62724287 TATTATTTCA
62724297 AAAAATAATT-TAAAAATTAT
1 AAAAAT-ATTATAAAAATTAT
*
62724317 AAAAATATTCATAAAAATTCT
1 AAAAATATT-ATAAAAATTAT
62724338 AAAAA
1 AAAAA
62724343 AAAGCATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATATTATAAAAATTAT
Found at i:62730075 original size:31 final size:31
Alignment explanation
Indices: 62730040--62730117 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
62730030 TTAGAAAAAA
*
62730040 AAACTTATGTACCAAACTAAACATTAAAATC
1 AAACTTAAGTACCAAACTAAACATTAAAATC
* * * * *
62730071 AAACTCAAATATCAAATTAGACATTAAAATC
1 AAACTTAAGTACCAAACTAAACATTAAAATC
62730102 AAA-TATAAGTACCAAA
1 AAACT-TAAGTACCAAA
62730118 TAACGTATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.55, C:0.17, G:0.04, T:0.24
Consensus pattern (31 bp):
AAACTTAAGTACCAAACTAAACATTAAAATC
Found at i:62756705 original size:22 final size:22
Alignment explanation
Indices: 62756680--62756721 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
62756670 GGGGTCAAAA
62756680 TATAAATTTAT-TATTATTAATT
1 TATAAATTTATATATT-TTAATT
*
62756702 TATAATTTTATATATTTTAA
1 TATAAATTTATATATTTTAA
62756722 AAACAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAAATTTATATATTTTAATT
Found at i:62758006 original size:21 final size:21
Alignment explanation
Indices: 62757980--62758030 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
62757970 AGTGGTGGCG
*
62757980 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
62758001 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
62758022 GTGAGATTA
1 GTGAGATTA
62758031 AAAACAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:62762905 original size:23 final size:23
Alignment explanation
Indices: 62762847--62762910 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
62762837 TAATTCTTTA
* *
62762847 AAAATTATAAAAATATAGATTATT
1 AAAATCATAAAAAT-TATATTATT
* *
62762871 AAAATGAT-AAAATTATATTTTT
1 AAAATCATAAAAATTATATTATT
*
62762893 AATATCATAAAAATTATA
1 AAAATCATAAAAATTATA
62762911 ATTTAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 13 0.38
23 14 0.41
24 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (23 bp):
AAAATCATAAAAATTATATTATT
Found at i:62771408 original size:21 final size:22
Alignment explanation
Indices: 62771368--62771408 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62771358 TTATTTTTAT
*
62771368 TTTTATGATGTAAAAATAAATA
1 TTTTATGATCTAAAAATAAATA
*
62771390 TTTTAT-ATCTAAAATTAAA
1 TTTTATGATCTAAAAATAAA
62771409 AATAACTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
TTTTATGATCTAAAAATAAATA
Found at i:62789179 original size:37 final size:37
Alignment explanation
Indices: 62789138--62789277 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
62789128 TTTGAGTACT
62789138 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
62789175 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
* *
62789212 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
62789249 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
62789278 AGCTTCAGCT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:62789348 original size:45 final size:46
Alignment explanation
Indices: 62789239--62789362 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
62789229 GTGATAAGTG
* *
62789239 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
62789285 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
62789330 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
62789363 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:62793575 original size:89 final size:89
Alignment explanation
Indices: 62793482--62793660 Score: 252
Period size: 89 Copynumber: 2.0 Consensus size: 89
62793472 CAGGTGGTGG
* *
62793482 AGTAGATCGA-AGAAAGCAGATCCTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAG
1 AGTAGAT-GAGAGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAG
**
62793546 ATCTTGTCTTCATGTATTGGCGTGA
65 ATCTTGTCTTCATGTACCGGCGTGA
* * * * *
62793571 AGTAGATTAGAGATACCAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGA
1 AGTAGATGAGAGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGA
*
62793636 TCTTGTTTTCATGTACCGGCGTGA
66 TCTTGTCTTCATGTACCGGCGTGA
62793660 A
1 A
62793661 ACAGATCAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 78 0.99
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AGTAGATGAGAGAAACCAAATCCTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGA
TCTTGTCTTCATGTACCGGCGTGA
Found at i:62793639 original size:45 final size:45
Alignment explanation
Indices: 62793453--62793641 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 45
62793443 TCATAGATAC
* * * * * * *
62793453 CAGATCTTGTCTCCCCGTACAGGTGGTGGAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
* * *
62793498 CAGATCCTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
*** * * * * * * * *
62793543 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATTAGAGATAC
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
*
62793587 CAAATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
62793632 CAGATCTTGT
1 CAGATCTTGT
62793642 TTTCATGTAC
Statistics
Matches: 106, Mismatches: 37, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
44 31 0.29
45 75 0.71
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAG
Found at i:62793674 original size:89 final size:89
Alignment explanation
Indices: 62793508--62793674 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
62793498 CAGATCCTGC
** *
62793508 CTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 CTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
* * *
62793573 TAGATTAGAGATACCAAATCTTGT
66 CAGATCAAAGATACCAAATCTTGT
* *
62793597 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTTTTCATGTACCGGCGTGAAA
1 CTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
62793662 CAGATCAAAGATA
66 CAGATCAAAGATA
62793675 GTAGGTCATG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (89 bp):
CTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
CAGATCAAAGATACCAAATCTTGT
Found at i:62793705 original size:89 final size:89
Alignment explanation
Indices: 62793508--62793712 Score: 241
Period size: 89 Copynumber: 2.3 Consensus size: 89
62793498 CAGATCCTGC
* * ** *
62793508 CTTCCCATACTGGTGGCGAAGCAGATCAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 CTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
* * * *
62793573 TAGATTAGAGATACCAAATCTTGT
66 CAGATCAAAGATACCAAATCATGT
* *
62793597 CTTCCCATACTGGTGGCGAAGTAGATCAAAAAAAGCAGATCTTGTTTTCATGTACCGGCGTGAAA
1 CTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
** **
62793662 CAGATCAAAGATAGTAGGTCATGT
66 CAGATCAAAGATACCAAATCATGT
* *
62793686 CTTCCTATA-TCGGTAGCGAAGTGGATC
1 CTTCCCATACT-GGTAGCGAAGTAGATC
62793713 GAATATACAG
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 98 0.99
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (89 bp):
CTTCCCATACTGGTAGCGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCATGTACCGGCGTGAAA
CAGATCAAAGATACCAAATCATGT
Found at i:62810456 original size:15 final size:13
Alignment explanation
Indices: 62810447--62810502 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
62810437 AATATTATTA
62810447 AATTATATATTTT
1 AATTATATATTTT
62810460 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
62810475 AATAATAATTATGTT
1 AATTAT-A-TATTTT
62810490 AATT-TATATTTT
1 AATTATATATTTT
62810502 A
1 A
62810503 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:62810472 original size:16 final size:16
Alignment explanation
Indices: 62810451--62810493 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
62810441 TTATTAAATT
62810451 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
62810467 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
62810482 AT-TATGTTAATT
1 ATATATTTTAATT
62810494 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:62810575 original size:61 final size:60
Alignment explanation
Indices: 62810390--62810577 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 60
62810380 AATAACAGTC
*
62810390 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATATTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA-AATTTTATTAAATT
* * * * * * * * * *
62810451 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTATATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAAATTTTATTA-AATT
62810510 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA-AATTTTATTAAATT
62810571 ATATATT
1 ATATATT
62810578 TTAATATTTT
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 28 0.29
60 26 0.27
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAAATTTTATTAAATT
Found at i:62810762 original size:16 final size:16
Alignment explanation
Indices: 62810741--62810803 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
62810731 GTTGATTGCT
*
62810741 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
62810757 ATTACACCTCTAA-CC
1 ATTACACCTCTAATCC
62810772 ATT-CACCTCTAATCC
1 ATTACACCTCTAATCC
* *
62810787 AATACAGCTCTAATCC
1 ATTACACCTCTAATCC
62810803 A
1 A
62810804 ATAAGCGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
14 9 0.21
15 9 0.21
16 24 0.57
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:62811726 original size:16 final size:16
Alignment explanation
Indices: 62811685--62811727 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
62811675 ATTTAATCAT
*
62811685 ATTAAACATA-ATTATT
1 ATTAAA-ATATATTATA
62811701 ATT-AAATATATTATA
1 ATTAAAATATATTATA
62811716 ATTAAAATATAT
1 ATTAAAATATAT
62811728 AATTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAAATATATTATA
Found at i:62811734 original size:14 final size:15
Alignment explanation
Indices: 62811685--62811736 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
62811675 ATTTAATCAT
* *
62811685 ATTAAACATAATTATT
1 ATTAAATAT-ATTATA
62811701 ATTAAATATATTATA
1 ATTAAATATATTATA
62811716 ATTAAA-ATA-TATA
1 ATTAAATATATTATA
*
62811729 ATTTAATA
1 ATTAAATA
62811737 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATATTATA
Found at i:62811827 original size:120 final size:123
Alignment explanation
Indices: 62811689--62811913 Score: 411
Period size: 120 Copynumber: 1.9 Consensus size: 123
62811679 AATCATATTA
*
62811689 AACATAATTATTATTAAATATATTATAATTAAAATATA-TAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATTAATTTAATAAAATTATTAATAATCA
62811753 ATATTC-TTATATGAATTTACTCAAATCATAA-TATATGATACTATAAAATATAAATT
66 ATATTCTTTATATGAATTTACTCAAATCATAACTATATGATACTATAAAATATAAATT
*
62811809 AACATAATTATTATTAAATATATTATAATTAAAATATATTAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATTAATTTAATAAAATTATTAATAATCA
62811874 ATATTCTTTATATGAATTTACTCAAATCATAACTATATGA
66 ATATTCTTTATATGAATTTACTCAAATCATAACTATATGA
62811914 CTGTTATTGC
Statistics
Matches: 100, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
120 38 0.38
121 30 0.30
122 25 0.25
123 7 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (123 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATTAATTTAATAAAATTATTAATAATCA
ATATTCTTTATATGAATTTACTCAAATCATAACTATATGATACTATAAAATATAAATT
Found at i:62811844 original size:42 final size:42
Alignment explanation
Indices: 62811782--62811867 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 42
62811772 CTCAAATCAT
*
62811782 AATATATGATACTATAAAATATA-AATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATATAATTAA-ATAA-TATTATTA
* *
62811825 AATATATTATAAT-TAAAATATATTAATTTAATAATATTATTA
1 AATATATGATAATATAAAATATA-TAATTAAATAATATTATTA
62811867 A
1 A
62811868 TAATCAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 18 0.47
43 15 0.39
44 5 0.13
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (42 bp):
AATATATGATAATATAAAATATATAATTAAATAATATTATTA
Found at i:62819532 original size:12 final size:11
Alignment explanation
Indices: 62819514--62819546 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
62819504 CATTTAATAA
62819514 TAAAATATTAC
1 TAAAATATTAC
62819525 TAAAAATATTAC
1 T-AAAATATTAC
62819537 TAAAATATTA
1 TAAAATATTA
62819547 ATTAAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAATATTAC
Found at i:62819553 original size:11 final size:11
Alignment explanation
Indices: 62819511--62819554 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
62819501 AATCATTTAA
62819511 TAATAAAATAT
1 TAATAAAATAT
*
62819522 TACTAAAAATAT
1 TAAT-AAAATAT
*
62819534 TACTAAAATAT
1 TAATAAAATAT
*
62819545 TAATTAAATA
1 TAATAAAATA
62819555 ACATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:62823556 original size:84 final size:83
Alignment explanation
Indices: 62823323--62823615 Score: 300
Period size: 79 Copynumber: 3.6 Consensus size: 83
62823313 GAATTGTTAG
* *
62823323 GGAAATT-AGGGGTTTGTATGAAAAAGTTT-AACCTTTTGGCCTTGATTGAAACAAAGTCCTGAT
1 GGAAATTGA-GGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATTGAAACCAAGTTCTGAT
*
62823386 TGTTTATTTGAATCGTGAA
65 TGTTTATTTGGATCGTGAA
* * * * * * *
62823405 GGAAATTGTGGG-TTGTAT-TAGAAGTTCAAA-C-TTTGGCTTTGATTGAAACCAAATTTTGATT
1 GGAAATTGAGGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATTGAAACCAAGTTCTGATT
62823466 GTTTATTTGGATCGTGAA
66 GTTTATTTGGATCGTGAA
* *
62823484 GGAAATTGAGGGTTTGTATGAAAAAATTTTAAACCTTTTGGCCTTGATTGAGACCAAGTTCTGAT
1 GGAAATTGAGGGTTTGTATG-AAAAAGTTTAAACCTTTTGGCCTTGATTGAAACCAAGTTCTGAT
* * *
62823549 T-TGTTA-TTGGAATTGTTAG
65 TGT-TTATTTGG-ATCGTGAA
* * * *
62823568 GGAAATTGGGGGGTTTGTATG-AAATGTTT-AACCTTTTGGTCTTAATTG
1 GGAAATT-GAGGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATTG
62823616 TTAGGGAAAT
Statistics
Matches: 174, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
79 53 0.30
80 13 0.07
81 8 0.05
82 35 0.20
83 12 0.07
84 41 0.24
85 12 0.07
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (83 bp):
GGAAATTGAGGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATTGAAACCAAGTTCTGATT
GTTTATTTGGATCGTGAA
Found at i:62823867 original size:299 final size:300
Alignment explanation
Indices: 62823314--62823909 Score: 696
Period size: 299 Copynumber: 2.0 Consensus size: 300
62823304 GGTTCATTTG
* * *
62823314 AATTGTTAGGGAAATTAGGGGTTTGTATGAAAAAGTTTAACCTTTTGGCCTTGATTGAAACAAAG
1 AATTGTTAGGGAAATTAGGGGTTTGTATGAAAAAGTTTAAACTTTTGGCCTTGAATAAAACAAAG
* * * * * *
62823379 TCCTGATTGTTTATTTGAATCGTGAAGGAAATTGTGGGTTGTATTAGAAGTTCAAACTTTGGCTT
66 TCCTGATTGTTTATTCGAATCGTGAAGGAAATTGTGGGTTGAATAACAAGTTCAAACTTTAGCCT
* *
62823444 TGATTGAAACCAAATTTTGATTGTTTATTTGGATCGTGAAGGAAATTGAGGGTTTGTATGAAAAA
131 TGATTGAAACCAAATTCTGATTGTTTATTTGAATCGTGAAGGAAATTGAGGGTTTGTATG-AAAA
* * *
62823509 ATTTTAAACCTTTTGGCCTTGATTGAGACCAAGTTCTGATTTGTTATTGGAATTGTTAGGGAAAT
195 AGTTTAAACCTTTGGGCCTTGATTAAGACCAAGTTCTGATTTGTTATTGGAATTGTTAGGGAAAT
*
62823574 T-GGGGGGTTTGTATG-A-AATGTTT-AACCTTTTGGTCTT
260 TGGGGGGGTTTGTATGAATAAAGTTTAAACCTTTTGGTCTT
* * *
62823611 AATTGTTAGGGAAATTGTGGGGTTTGTATGAAAAAAGTTTAAAC-TTTGGCTTTGAATAAAACCA
1 AATTGTTAGGGAAATT-AGGGGTTTGTATG-AAAAAGTTTAAACTTTTGGCCTTGAATAAAACAA
** * * * *
62823675 AGTTTTGATTGTTTATTCGAATTGTTATGGAAATTGTGGGTTTGAATGAACAA-TGT-AAGCTTT
64 AGTCCTGATTGTTTATTCGAATCGTGAAGGAAATTGTGGG-TTGAAT-AACAAGT-TCAAAC--T
* * *
62823738 TTAGCCTTGATT-AAGACCAAAGTTCTGATT-TGTTATTTGAATTGTTAGGGAAATTTG-GGGTT
124 TTAGCCTTGATTGAA-ACCAAA-TTCTGATTGT-TTATTTGAATCGTGAAGGAAA-TTGAGGGTT
* * * * *
62823800 TGTATG-AAAAGTTT-AACCTTTGGGTCTTGATTAAGATCAAGTTTTTATTTGTTATT-TAATTT
185 TGTATGAAAAAGTTTAAACCTTTGGGCCTTGATTAAGACCAAGTTCTGATTTGTTATTGGAA-TT
62823862 GTTAGGGAAATTGGGGGGGTTTGTATGAATAAAGTTTAAACCTTTTGG
249 GTTAGGGAAATTGGGGGGGTTTGTATGAATAAAGTTTAAACCTTTTGG
62823910 CCTTGAATCA
Statistics
Matches: 251, Mismatches: 32, Indels: 26
0.81 0.10 0.08
Matches are distributed among these distances:
297 16 0.06
298 64 0.25
299 71 0.28
300 27 0.11
301 19 0.08
302 41 0.16
303 13 0.05
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.40
Consensus pattern (300 bp):
AATTGTTAGGGAAATTAGGGGTTTGTATGAAAAAGTTTAAACTTTTGGCCTTGAATAAAACAAAG
TCCTGATTGTTTATTCGAATCGTGAAGGAAATTGTGGGTTGAATAACAAGTTCAAACTTTAGCCT
TGATTGAAACCAAATTCTGATTGTTTATTTGAATCGTGAAGGAAATTGAGGGTTTGTATGAAAAA
GTTTAAACCTTTGGGCCTTGATTAAGACCAAGTTCTGATTTGTTATTGGAATTGTTAGGGAAATT
GGGGGGGTTTGTATGAATAAAGTTTAAACCTTTTGGTCTT
Found at i:62829022 original size:15 final size:15
Alignment explanation
Indices: 62829002--62829032 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62828992 GACATTAAAT
*
62829002 CAATTAATCTACGAA
1 CAATTAACCTACGAA
62829017 CAATTAACCTACGAA
1 CAATTAACCTACGAA
62829032 C
1 C
62829033 CGATACGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (15 bp):
CAATTAACCTACGAA
Found at i:62836470 original size:19 final size:19
Alignment explanation
Indices: 62836433--62836469 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
62836423 ACCAAAAATT
62836433 TATTTTAAAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
62836452 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
62836470 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTTTAAAAATTAAAAAA
Found at i:62836479 original size:18 final size:18
Alignment explanation
Indices: 62836439--62836479 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
62836429 AATTTATTTT
* *
62836439 AAAAATTAAAAAATATTT
1 AAAAATTAAAAAAAATTA
*
62836457 TAAAATTAAAAAAAATTA
1 AAAAATTAAAAAAAATTA
62836475 AAAAA
1 AAAAA
62836480 GTATTTTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTAAAAAAAATTA
Found at i:62836485 original size:48 final size:47
Alignment explanation
Indices: 62836433--62836567 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 47
62836423 ACCAAAAATT
*
62836433 TATTTTAAAAATTAAAAAATATTTTAAAATTAAAAAAAATTAAAAAAG
1 TATTTTAAAAATT-AAAAATATTTAAAAATTAAAAAAAATTAAAAAAG
* ***
62836481 TATTTTAAAAAAAGTTAAAAAT-TTTAAAAATTTTAAAAAAGTATTTTTAAAG
1 TATTTT--AAAAA-TTAAAAATATTTAAAAA--TTAAAAAA-AATTAAAAAAG
*
62836533 TATTTT-AAAATTAAAAA-ATTAAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAATATTTAAAAATTAAAAAAA
62836568 TTATTATATT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
46 8 0.11
48 20 0.27
49 11 0.15
50 11 0.15
51 10 0.14
52 13 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (47 bp):
TATTTTAAAAATTAAAAATATTTAAAAATTAAAAAAAATTAAAAAAG
Found at i:62836489 original size:41 final size:40
Alignment explanation
Indices: 62836444--62836558 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 40
62836434 ATTTTAAAAA
62836444 TTAAAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATT
1 TTAAAAAATATTTTAAAATT-AAAAAAATTAAAAAAGTATT
* * **
62836485 TTAAAAAA-AGTTAAAAATTTTAAAAATTTTAAAAAAGTATT
1 TTAAAAAATATTTTAAAA--TTAAAAAAATTAAAAAAGTATT
* *
62836526 TT-TAAAGTATTTTAAAATT-AAAAAATTAAAAAA
1 TTAAAAAATATTTTAAAATTAAAAAAATTAAAAAA
62836559 TTAAAAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
38 12 0.20
39 2 0.03
40 10 0.16
41 35 0.57
42 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
TTAAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATT
Found at i:62836509 original size:8 final size:9
Alignment explanation
Indices: 62836495--62836519 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62836485 TTAAAAAAAG
62836495 TTAAAAATT
1 TTAAAAATT
62836504 TTAAAAATT
1 TTAAAAATT
62836513 TTAAAAA
1 TTAAAAA
62836520 AGTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAAAAATT
Found at i:62836570 original size:9 final size:8
Alignment explanation
Indices: 62836539--62836566 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
62836529 AAAGTATTTT
62836539 AAAATTAA
1 AAAATTAA
62836547 AAAATTAA
1 AAAATTAA
62836555 AAAATTAA
1 AAAATTAA
62836563 AAAA
1 AAAA
62836567 ATTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATTAA
Found at i:62850738 original size:14 final size:14
Alignment explanation
Indices: 62850719--62850747 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62850709 TGGAACAAAC
62850719 TTTGTAATATAAAT
1 TTTGTAATATAAAT
62850733 TTTGTAATATAAAT
1 TTTGTAATATAAAT
62850747 T
1 T
62850748 AAATACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTGTAATATAAAT
Found at i:62873143 original size:5 final size:5
Alignment explanation
Indices: 62873133--62873160 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62873123 CTGTTTGGAT
62873133 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
62873161 TTTGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:62874227 original size:21 final size:20
Alignment explanation
Indices: 62874168--62874234 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
62874158 TTATCAAGTG
*
62874168 TATATAAAAATTTAAA-AAA
1 TATATAAAAATTAAAATAAA
* *
62874187 TATAAAAAAAATATGGAAATAAA
1 TAT-ATAAAAAT-T-AAAATAAA
*
62874210 TATATAAAAATTCAAAATATA
1 TATATAAAAATT-AAAATAAA
62874231 TATA
1 TATA
62874235 ATCAAGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 12 0.32
22 10 0.26
23 6 0.16
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (20 bp):
TATATAAAAATTAAAATAAA
Found at i:62875863 original size:56 final size:56
Alignment explanation
Indices: 62875803--62875934 Score: 158
Period size: 56 Copynumber: 2.4 Consensus size: 56
62875793 TATATTGTAA
** *
62875803 AATAAACTCTTTATTAT-TAAATTTTAATTTTCTTAATAGTAAATAAATTGATATAT
1 AATAAACTCTAAATAATATAAATTTT-ATTTTCTTAATAGTAAATAAATTGATATAT
** * *
62875859 AATAATTTGTAAATAATATATATTTTATTTTCTTAATAGTAAATAAATTGATATAT
1 AATAAACTCTAAATAATATAAATTTTATTTTCTTAATAGTAAATAAATTGATATAT
** *
62875915 AATAATTTGTAAATAATATA
1 AATAAACTCTAAATAATATA
62875935 TATTGAGAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 61 0.90
57 7 0.10
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (56 bp):
AATAAACTCTAAATAATATAAATTTTATTTTCTTAATAGTAAATAAATTGATATAT
Found at i:62875870 original size:26 final size:26
Alignment explanation
Indices: 62875841--62875930 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
62875831 TTTCTTAATA
62875841 GTAAATAAATTGATATATAATAATTT
1 GTAAATAAATTGATATATAATAATTT
* ** *
62875867 GTAAATAATATAT-ATTTTATTTTCTTAA-TA
1 GTAAATAA-AT-TGA---TA-TATAATAATTT
62875897 GTAAATAAATTGATATATAATAATTT
1 GTAAATAAATTGATATATAATAATTT
62875923 GTAAATAA
1 GTAAATAA
62875931 TATATATTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 5 0.10
26 19 0.40
27 3 0.06
28 2 0.04
29 3 0.06
30 11 0.23
31 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (26 bp):
GTAAATAAATTGATATATAATAATTT
Found at i:62875935 original size:56 final size:57
Alignment explanation
Indices: 62875823--62875938 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 57
62875813 TTATTATTAA
62875823 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
1 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
62875880 ATTTT-ATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
1 ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
62875936 ATT
1 ATT
62875939 GAGAGTAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 54 0.92
57 5 0.08
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (57 bp):
ATTTTAATTTTCTTAATAGTAAATAAATTGATATATAATAATTTGTAAATAATATAT
Found at i:62876181 original size:9 final size:9
Alignment explanation
Indices: 62876159--62876267 Score: 53
Period size: 9 Copynumber: 11.4 Consensus size: 9
62876149 CCGAATATAA
*
62876159 TAAATATTT
1 TAAATTTTT
62876168 T-AATTTTT
1 TAAATTTTT
62876176 TAAATTTTT
1 TAAATTTTT
*
62876185 TAAACACTTTTA
1 T-AA-A-TTTTT
*
62876197 AAATACTTTTT
1 TAA-A-TTTTT
*
62876208 TAAAATTTT
1 TAAATTTTT
*
62876217 TAATTTTTT
1 TAAATTTTT
62876226 TAAAATACTTTT
1 T-AAAT--TTTT
*
62876238 TAAAATTTT
1 TAAATTTTT
62876247 T-AA-TTTT
1 TAAATTTTT
*
62876254 AAAATATTTT
1 TAAAT-TTTT
62876264 TAAA
1 TAAA
62876268 ATACTTTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
7 4 0.05
8 11 0.14
9 26 0.34
10 13 0.17
11 14 0.18
12 9 0.12
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (9 bp):
TAAATTTTT
Found at i:62876227 original size:31 final size:30
Alignment explanation
Indices: 62876192--62876269 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
62876182 TTTTAAACAC
62876192 TTTTAAAATACTTTTTTAAAATTTTTAATTT
1 TTTTAAAATAC-TTTTTAAAATTTTTAATTT
62876223 TTTTAAAATACTTTTTAAAATTTTTAA---
1 TTTTAAAATACTTTTTAAAATTTTTAATTT
62876250 TTTTAAAATA-TTTTTAAAAT
1 TTTTAAAATACTTTTTAAAAT
62876270 ACTTTTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
26 10 0.21
27 10 0.21
30 16 0.34
31 11 0.23
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATTTTTAATTT
Found at i:62876266 original size:11 final size:11
Alignment explanation
Indices: 62876170--62876276 Score: 62
Period size: 12 Copynumber: 9.5 Consensus size: 11
62876160 AAATATTTTA
*
62876170 ATTTTTTAAAT
1 ATTTTTAAAAT
*
62876181 -TTTTT-AAAC
1 ATTTTTAAAAT
*
62876190 ACTTTTAAAAT
1 ATTTTTAAAAT
*
62876201 ACTTTTTTAAA-
1 A-TTTTTAAAAT
62876212 ATTTTT--AAT
1 ATTTTTAAAAT
*
62876221 TTTTTTAAAAT
1 ATTTTTAAAAT
62876232 ACTTTTTAAAATTTTT
1 A-TTTTTAAAA----T
*
62876248 AATTTTAAAAT
1 ATTTTTAAAAT
62876259 ATTTTTAAAAT
1 ATTTTTAAAAT
62876270 ACTTTTT
1 A-TTTTT
62876277 TAATTTTTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
8 2 0.03
9 8 0.11
10 14 0.19
11 20 0.27
12 21 0.28
15 8 0.11
16 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:62876965 original size:14 final size:13
Alignment explanation
Indices: 62876928--62876966 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
62876918 TTAACATATA
62876928 TAATTAATATAAT
1 TAATTAATATAAT
**
62876941 TAATTTTTATAACT
1 TAATTAATATAA-T
62876955 TAATTAATATAA
1 TAATTAATATAA
62876967 ATATGTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:62886712 original size:27 final size:27
Alignment explanation
Indices: 62886658--62886712 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
62886648 ACCAGTGACC
* * *
62886658 CCTATTTGATAGGCGGCACTGGTTGTG
1 CCTATCTGATAGGCGGCACTAGTGGTG
62886685 CCTATCTGATAGGCGGCACTAGTGGTG
1 CCTATCTGATAGGCGGCACTAGTGGTG
62886712 C
1 C
62886713 AATTATTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGGTG
Found at i:62887820 original size:19 final size:19
Alignment explanation
Indices: 62887792--62887828 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62887782 CTCCTTCTCC
*
62887792 TTTTCTTCTTCTTCTCTTA
1 TTTTCATCTTCTTCTCTTA
*
62887811 TTTTCATCTTTTTCTCTT
1 TTTTCATCTTCTTCTCTT
62887829 TCTTCCCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCATCTTCTTCTCTTA
Found at i:62902809 original size:3 final size:3
Alignment explanation
Indices: 62902803--62902829 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62902793 TTCTTACCAA
62902803 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
62902830 TCCACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62903274 original size:20 final size:19
Alignment explanation
Indices: 62903249--62903290 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62903239 CATAATAATG
* *
62903249 TATATAATATATATTTTTAT
1 TATATAAT-TACATATTTAT
62903269 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
62903288 TAT
1 TAT
62903291 TTTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:62911588 original size:13 final size:13
Alignment explanation
Indices: 62911570--62911595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62911560 TTAACTGACA
62911570 AAATATAAACATT
1 AAATATAAACATT
62911583 AAATATAAACATT
1 AAATATAAACATT
62911596 TAAGGTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAAACATT
Found at i:62916665 original size:19 final size:17
Alignment explanation
Indices: 62916638--62916681 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
62916628 AATTTTGTAT
*
62916638 TCATATTAAATTACACTTA
1 TCATTTTAAATTA-AC-TA
62916657 TCATTTTAAATTAACTA
1 TCATTTTAAATTAACTA
*
62916674 TCACTTTA
1 TCATTTTA
62916682 TTATTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 12 0.52
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (17 bp):
TCATTTTAAATTAACTA
Found at i:62916681 original size:17 final size:19
Alignment explanation
Indices: 62916643--62916681 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
62916633 TGTATTCATA
*
62916643 TTAAATTACACTTATCATT
1 TTAAATTACACTTATCACT
62916662 TTAAATTA-AC-TATCACT
1 TTAAATTACACTTATCACT
62916679 TTA
1 TTA
62916682 TTATTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTACACTTATCACT
Found at i:62923350 original size:25 final size:25
Alignment explanation
Indices: 62923322--62923370 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62923312 ATTTTATTTT
62923322 ATTTTAATATTTAAT-AATTTTTTAC
1 ATTTT-ATATTTAATGAATTTTTTAC
* *
62923347 ATTTTTTATTTATTGAATTTTTTA
1 ATTTTATATTTAATGAATTTTTTA
62923371 TATAGTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTATATTTAATGAATTTTTTAC
Found at i:62925817 original size:24 final size:24
Alignment explanation
Indices: 62925788--62925834 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
62925778 TTAATGATGC
62925788 ATTTTATGTTATTAATTTTCTAAT
1 ATTTTATGTTATTAATTTTCTAAT
62925812 ATTTTATGTTATTAATTTTCTAA
1 ATTTTATGTTATTAATTTTCTAA
62925835 GAATTGAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTTATGTTATTAATTTTCTAAT
Found at i:62926129 original size:29 final size:29
Alignment explanation
Indices: 62926065--62926145 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
62926055 AATATCAAAA
* *
62926065 TTATACATGAACTTTGATCTAATGTGTAATG
1 TTATACATGAACTTTGAT-T-TTGTGGAATG
*
62926096 TTATACATGAACTTTGATTTTGTGGAATT
1 TTATACATGAACTTTGATTTTGTGGAATG
* *
62926125 TTATATATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
62926146 GATTCAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (29 bp):
TTATACATGAACTTTGATTTTGTGGAATG
Found at i:62927138 original size:23 final size:22
Alignment explanation
Indices: 62927107--62927171 Score: 53
Period size: 23 Copynumber: 2.8 Consensus size: 22
62927097 GTGTTATTTA
*
62927107 AGTACATTTATTTTAATATTTTT
1 AGTAAATTTATTTT-ATATTTTT
*
62927130 AGTATATTTGATGTATTATATTTTT
1 AGTAAATTT-AT-T-TTATATTTTT
62927155 --TAAATTTATTTTTATAT
1 AGTAAATTTA-TTTTATAT
62927172 AAAGAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 6 0.17
22 2 0.06
23 15 0.42
24 2 0.06
25 9 0.25
26 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (22 bp):
AGTAAATTTATTTTATATTTTT
Found at i:62929516 original size:21 final size:21
Alignment explanation
Indices: 62929475--62929516 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62929465 TATATTGTAA
*
62929475 TTGGTAACTGTTTTCGGTTGT
1 TTGGTAACTGTTTTCGATTGT
*
62929496 TTGG-AACTGATTTTTGATTGT
1 TTGGTAACTG-TTTTCGATTGT
62929517 CATTTGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.14, C:0.07, G:0.26, T:0.52
Consensus pattern (21 bp):
TTGGTAACTGTTTTCGATTGT
Found at i:62932159 original size:5 final size:5
Alignment explanation
Indices: 62932149--62932173 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62932139 GTGTATAACA
62932149 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
62932174 TGCTTCCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:62937519 original size:14 final size:14
Alignment explanation
Indices: 62937489--62937546 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
62937479 ATTTTTTAAA
62937489 TTTTAAAATAA---
1 TTTTAAAATAATTT
*
62937500 TTTTAAAATACTTT
1 TTTTAAAATAATTT
**
62937514 TTTTAAAATTTTTAAT
1 TTTTAAAATAATT--T
62937530 TTTTAAAATAATTT
1 TTTTAAAATAATTT
62937544 TTT
1 TTT
62937547 GGTATTTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.27
14 15 0.41
16 12 0.32
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAATAATTT
Found at i:62941792 original size:29 final size:29
Alignment explanation
Indices: 62941741--62941799 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
62941731 TGTATATGAG
*
62941741 TGCATCTAAATTAAAGCTTATGTATTAAAT
1 TGCATCTAAATCAAAGCTTATGTA-TAAAT
62941771 TGCAT-TAAATCAAAG-TTCATGTATAAAT
1 TGCATCTAAATCAAAGCTT-ATGTATAAAT
62941799 T
1 T
62941800 TAAAATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (29 bp):
TGCATCTAAATCAAAGCTTATGTATAAAT
Found at i:62943476 original size:114 final size:112
Alignment explanation
Indices: 62943262--62943476 Score: 331
Period size: 114 Copynumber: 1.9 Consensus size: 112
62943252 ACAAAGGCTG
* * *
62943262 TATTGCTTTGGGTTCTTTGAATATATTTACCCTAGTTTTCTTCCGGCCATTGCACCTTGTCTCGC
1 TATTGCTTTGGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
* ***
62943327 AAGCAATTTCATCTAAACAATGTTCTTTTGTGAGCTTTTGCTTCGGT
66 AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
*
62943374 TATTGCATTTAGGGTTCTTTGAATACATTTACCTTAGTTCTCTTCCGGCCATTGCACCTTGTATC
1 TATTGC-TTT-GGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATC
*
62943439 GTAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
64 GCAAACAATTTCATCTAAACAATGTTCTTTCACGAGCT
62943477 ACGCATGAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 6 0.07
113 3 0.03
114 83 0.90
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (112 bp):
TATTGCTTTGGGTTCTTTGAATACATTTACCCTAGTTCTCTTCCGGCCATTGCACCTTGTATCGC
AAACAATTTCATCTAAACAATGTTCTTTCACGAGCTTTTGCTTCGGT
Found at i:62955892 original size:12 final size:12
Alignment explanation
Indices: 62955875--62955912 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
62955865 TATTTCACTT
*
62955875 TACATATACATA
1 TACATATATATA
62955887 TACATATATATA
1 TACATATATATA
*
62955899 TAAATATATATA
1 TACATATATATA
62955911 TA
1 TA
62955913 TATAACACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (12 bp):
TACATATATATA
Found at i:62955897 original size:2 final size:2
Alignment explanation
Indices: 62955878--62955916 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
62955868 TTCACTTTAC
* * *
62955878 AT AT AC AT AT AC AT AT AT AT AT AA 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
62955917 ACACTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:62958489 original size:30 final size:29
Alignment explanation
Indices: 62958418--62958489 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
62958408 TAGAAATTTG
* * *
62958418 ATCAAATTAGTCCCTCTATTATTAAATGA
1 ATCAAATTAGTCTCTATATTATTAAAAGA
*
62958447 ATCAATTTAGTCTCTATATTATTAAAAAGA
1 ATCAAATTAGTCTCTATATTATT-AAAAGA
*
62958477 ATCAAATAAGTCT
1 ATCAAATTAGTCT
62958490 AAATTGCAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (29 bp):
ATCAAATTAGTCTCTATATTATTAAAAGA
Found at i:62958701 original size:29 final size:29
Alignment explanation
Indices: 62958667--62958722 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
62958657 TTTGATTCTT
*
62958667 TTTAATAATATAGAGACTAAATTGATCCA
1 TTTAATAATAGAGAGACTAAATTGATCCA
* *
62958696 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGAGACTAAATTGATC
62958723 AGGTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGAGACTAAATTGATCCA
Found at i:62963807 original size:18 final size:18
Alignment explanation
Indices: 62963784--62963822 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
62963774 TACTTGAATG
62963784 AAACCTTACAATATATTT
1 AAACCTTACAATATATTT
62963802 AAACCTTACAATATATTT
1 AAACCTTACAATATATTT
62963820 AAA
1 AAA
62963823 TTGTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (18 bp):
AAACCTTACAATATATTT
Found at i:62978500 original size:42 final size:42
Alignment explanation
Indices: 62978416--62978514 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
62978406 TAACCTTAAT
** * *
62978416 GGGTTTCTGTTTAATTCTTTTGAGCTTCTGTTCAACCATTAC
1 GGGTTTCTGTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
* * * *
62978458 GTGTTT-TCGTTTAGCTCTTTCGAGCTTATTTTTAACCCTTAC
1 GGGTTTCT-GTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
62978500 GGGTTTCTGTTTAGC
1 GGGTTTCTGTTTAGC
62978515 ACTTATGTGC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.18, T:0.48
Consensus pattern (42 bp):
GGGTTTCTGTTTAGCTCTTTCGAGCTTATGTTCAACCATTAC
Found at i:62986256 original size:50 final size:50
Alignment explanation
Indices: 62986132--62986380 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
62986122 GATAATAACA
* * ** * *
62986132 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
62986183 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
62986233 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
62986283 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
62986338 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
62986381 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:62986310 original size:100 final size:104
Alignment explanation
Indices: 62986131--62986380 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
62986121 TGATAATAAC
**
62986131 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
62986196 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
62986233 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
62986296 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
62986338 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
62986381 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:62986496 original size:13 final size:13
Alignment explanation
Indices: 62986474--62986506 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
62986464 TGCTTGGATC
*
62986474 TTCATCAAATAAA
1 TTCATAAAATAAA
62986487 TTCATAAAATAAA
1 TTCATAAAATAAA
62986500 TTCATAA
1 TTCATAA
62986507 TTGCTGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCATAAAATAAA
Found at i:62986752 original size:30 final size:30
Alignment explanation
Indices: 62986718--62986775 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62986708 CCTCGACTCT
*
62986718 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
62986748 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
62986776 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:62993850 original size:50 final size:50
Alignment explanation
Indices: 62993726--62993974 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
62993716 GATAATAACA
* * ** * *
62993726 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
62993777 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
62993827 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
62993877 TGCCTATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
62993932 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
62993975 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:62993905 original size:100 final size:104
Alignment explanation
Indices: 62993725--62993974 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
62993715 TGATAATAAC
**
62993725 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
62993790 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
62993827 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCTATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
62993890 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
62993932 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
62993975 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:62994090 original size:13 final size:13
Alignment explanation
Indices: 62994069--62994100 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62994059 GCTTGGATCA
*
62994069 TCATCAAATAAAT
1 TCATAAAATAAAT
62994082 TCATAAAATAAAT
1 TCATAAAATAAAT
62994095 TCATAA
1 TCATAA
62994101 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:62994347 original size:30 final size:30
Alignment explanation
Indices: 62994312--62994369 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
62994302 CCTCGACTCT
*
62994312 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
62994342 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
62994370 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Done.