Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008802.1 Hibiscus syriacus cultivar Beakdansim tig00111952_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: 1147353
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:918867 original size:30 final size:30
Alignment explanation
Indices: 918831--918894 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
918821 ATTTTATACG
*
918831 ATTTTTCAACGTTGAATACTTAAAATCATA
1 ATTTTTCAAAGTTGAATACTTAAAATCATA
918861 ATTTTTCAAAGTTGAATACTTAAAATCATA
1 ATTTTTCAAAGTTGAATACTTAAAATCATA
918891 ATTT
1 ATTT
918895 AAGTATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (30 bp):
ATTTTTCAAAGTTGAATACTTAAAATCATA
Found at i:920337 original size:12 final size:12
Alignment explanation
Indices: 920320--920344 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
920310 TTTCTAAAAG
920320 AAATAAAAAATA
1 AAATAAAAAATA
920332 AAATAAAAAATA
1 AAATAAAAAATA
920344 A
1 A
920345 TTTACATTAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:921838 original size:80 final size:80
Alignment explanation
Indices: 921527--923028 Score: 1656
Period size: 80 Copynumber: 18.4 Consensus size: 80
921517 TGACATGTCC
* * * * **
921527 TTGAGCTGAATGTAATTGAACTCGAAGGTTTCATTGTTGACAAATAACCCTTCTCACCTTGAGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGG--TC--T-TTGGCAGATAACCCTTCTTGCCTTGAGCT
* * *
921592 ATGTTGTAAATTTGATATGCCT
61 ATGCTGCAAA--TGATGTGCCT
* * * * *
921614 CTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGATGACAAATAACCCCTCTCT-CCTTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCT-TGCCTTGAGCTA
** * *
921678 TGCTATAAATTTAATATGCCT
62 TGCTGCAAA--TGATGTGCCT
* * * * * * * * * * *
921699 TTGCGTTGAATATAATCGAA-TTGAAATGACTTTGATGAGAGATAACCCTTCTCGCCTTGAGTTT
1 TTGAGCTGAGTGTAATCGAACTCG-AAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTA
** *
921763 TAATGAAAATGATGTGCCT
62 TGCTGCAAATGATGTGCCT
* * * ** *
921782 TTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTGACAGATAAACCTTCTTTTCTTGAGCTATACT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
921847 GCAAATGATGTGCCT
66 GCAAATGATGTGCCT
* * * * *
921862 TTGAGCTGATTGTAATCGAACTCGAAGGTCTTTGTTGACAGATGACACTTCTAGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTAT
* *
921927 GCTGTAAATGACGTGCCT
63 GCTGCAAATGATGTGCCT
* * *
921945 TTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGACAGATAACCCTTCTTGCCTTGAGTTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922010 ACAAATGATGTGCCT
66 GCAAATGATGTGCCT
* ** * *
922025 TTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTG-ATGGATAACCCTTCTAACATTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GCA--GATAACCCTTCTTGCCTTGAGCTA
* * *
922089 TGCTGTAAATGGTGTTCCT
62 TGCTGCAAATGATGTGCCT
*
922108 TTGAGCTGAGTG-AATCGAACTCGATGGT-TTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922171 ACAAATGATGTGCCT
66 GCAAATGATGTGCCT
* * *
922186 TTGAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGCTA
*
922251 TGCTGCAAATGATATGCCT
62 TGCTGCAAATGATGTGCCT
* *
922270 TTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGCTA
* * *
922335 TGTTGCAAATGATATGCAT
62 TGCTGCAAATGATGTGCCT
* *
922354 TTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGCTA
922419 TGCTGCAAATGATGTGCCT
62 TGCTGCAAATGATGTGCCT
*
922438 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG--AGCCCTTCTTGCCTTGAGCTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922501 GCAAATGATGTGCAT
66 GCAAATGATGTGCCT
* * *
922516 TTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTAT
*
922581 GCTGTAAATGATGTGCCT
63 GCTGCAAATGATGTGCCT
* *
922599 TTGAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGACAACCCTTCTTGCCTTGAGCTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922664 GCAAATGATGTGTCT
66 GCAAATGATGTGCCT
* * *
922679 TTGAGCTGAATGGAATCGAACTCG-AGGTCTTTGGCAG--AGCCCTTCTTGCCTTGAGCTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922741 GCAAATGATGTGTCT
66 GCAAATGATGTGCCT
* * * * * *
922756 TTGAGCTGAGCGTAATCGAACTCGAAGATCTTTGGCAGATAGCCTTTCTTGCCTTGAGTTATGTT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
922821 GCAAATGATGTGCCT
66 GCAAATGATGTGCCT
* **
922836 TTGAACTGAGCATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
*
922901 GCAAATGATATGCCT
66 GCAAATGATGTGCCT
* * * * *
922916 TTGAGCTGAGTATAATCGAACTCGAAGGTCTTTTGTTGGCATATAGCCCTTCTTTCCTTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTGAGCTA
*
922981 TGTTGCAAATGATGTGCCT
62 TGCTGCAAATGATGTGCCT
923000 TTGAGCTGAGTGTAATCGAACTCGAAGGT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGT
923029 TTTTTGTTGA
Statistics
Matches: 1237, Mismatches: 145, Indels: 69
0.85 0.10 0.05
Matches are distributed among these distances:
77 60 0.05
78 131 0.11
79 26 0.02
80 346 0.28
81 10 0.01
82 18 0.01
83 215 0.17
84 310 0.25
85 95 0.08
87 26 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (80 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
GCAAATGATGTGCCT
Found at i:921924 original size:163 final size:163
Alignment explanation
Indices: 921527--923038 Score: 1776
Period size: 163 Copynumber: 9.2 Consensus size: 163
921517 TGACATGTCC
* * * * **
921527 TTGAGCTGAATGTAATTGAACTCGAAGGTTTCATTGTTGACAAATAACCCTTCTCACCTTGAGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGG--TCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCT
* * * * * *
921592 ATGTTGTAAATTTGATATGCCTCTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGATGACAAAT
64 ATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGAT
* * ** * *
921657 AACCCCTCTCT-CCTTGAGTTATGCTATAAATTTAATATGCCT
124 AACCCTTCT-TGCCTTGAGCTATGCTGCAAA--TGATGTGCCT
* * * * * * * * * * * *
921699 TTGCGTTGAATATAATCGAA-TTGAAATGACTTTGATGAGAGATAACCCTTCTCGCCTTGAGTTT
1 TTGAGCTGAGTGTAATCGAACTCG-AAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTA
** * * * *
921763 TAATGAAAATGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTGACAGATAAACCT
65 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCT
** *
921828 TCTTTTCTTGAGCTATACTGCAAATGATGTGCCT
130 TCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * * * *
921862 TTGAGCTGATTGTAATCGAACTCGAAGGTCTTTGTTGACAGATGACACTTCTAGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
* * * *
921927 GCTGTAAATGACGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGACAGATAACCCTT
66 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
* *
921992 CTTGCCTTGAGTTATGCTACAAATGATGTGCCT
131 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* ** ** * *
922025 TTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGATGGATAACCCTTCTAACATTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
* * * *
922090 GCTGTAAATGGTGTTCCTTTGAGCTGAGTG-AATCGAACTCGATGGT-TTTGGCAGATAACCCTT
66 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
*
922153 CTTGCCTTGAGCTATGCTACAAATGATGTGCCT
131 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * * *
922186 TTGAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTA
* * *
922251 TGCTGCAAATGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTGTTGGCAGATAG
65 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAA
* * *
922316 CCCTTCTTGCCTTGAGCTATGTTGCAAATGATATGCAT
126 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
922354 TTGAGATGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTA
*
922419 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG--AGCCCT
65 TGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCT
*
922482 TCTTGCCTTGAGCTATGCTGCAAATGATGTGCAT
130 TCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
922516 TTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
* * *
922581 GCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTGGCAGACAACCCTT
66 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
*
922646 CTTGCCTTGAGCTATGCTGCAAATGATGTGTCT
131 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
922679 TTGAGCTGAATGGAATCGAACTCG-AGGTCTTTG--G-CAG--AGCCCTTCTTGCCTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
* * * * *
922738 GCTGCAAATGATGTGTCTTTGAGCTGAGCGTAATCGAACTCGAAGATCTTTGGCAGATAGCCTTT
66 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
* *
922803 CTTGCCTTGAGTTATGTTGCAAATGATGTGCCT
131 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
* **
922836 TTGAACTGAGCATAATCGAACTCGAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
* * * *
922898 GCTGCAAATGATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTTGTTGGCATATAGC
66 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAAC
* * *
922963 CCTTCTTTCCTTGAGTTATGTTGCAAATGATGTGCCT
127 CCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
*
923000 TTGAGCTGAGTGTAATCGAACTCGAAGGTTTTTTGTTGA
1 TTGAGCTGAGTGTAATCGAACTCGAAGG-TCTTTGTTGA
923039 GGTTTTTTTT
Statistics
Matches: 1170, Mismatches: 147, Indels: 50
0.86 0.11 0.04
Matches are distributed among these distances:
157 125 0.11
158 13 0.01
159 3 0.00
160 65 0.06
161 160 0.14
162 142 0.12
163 300 0.26
164 81 0.07
165 31 0.03
167 2 0.00
168 193 0.16
170 34 0.03
171 2 0.00
172 19 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (163 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTT
CTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
Found at i:924332 original size:28 final size:29
Alignment explanation
Indices: 924296--924351 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
924286 TCTTGTCTTG
*
924296 TTTTTTCTTCAC-TTTTTCCTTTGTTTTA
1 TTTTCTCTTCACTTTTTTCCTTTGTTTTA
* *
924324 TTTTCTCTTTACTTTTTTTCTTTGTTTT
1 TTTTCTCTTCACTTTTTTCCTTTGTTTT
924352 TCTCTCTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTCTCTTCACTTTTTTCCTTTGTTTTA
Found at i:924362 original size:24 final size:24
Alignment explanation
Indices: 924319--924374 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
924309 TTTTCCTTTG
* *
924319 TTTTATTTTCTCTTTACTTTTTTTC
1 TTTT-TTTTCTCTCTACTTTTTTCC
924344 TTTGTTTTTCTCTCT-CTTTTTTCC
1 TTT-TTTTTCTCTCTACTTTTTTCC
924368 TTTTTTT
1 TTTTTTT
924375 CTTTTTGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 12 0.43
26 1 0.04
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTTTCTCTCTACTTTTTTCC
Found at i:927162 original size:23 final size:23
Alignment explanation
Indices: 927132--927201 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
927122 ACTTACCTGA
927132 CCCCAGTGGAATCGCCAAACTGT
1 CCCCAGTGGAATCGCCAAACTGT
*
927155 CCCCAGT-GAAGTCGCCAAACTAT
1 CCCCAGTGGAA-TCGCCAAACTGT
* * *
927178 CCCTAGTGGAGTCACCAAACTGT
1 CCCCAGTGGAATCGCCAAACTGT
927201 C
1 C
927202 ATAACCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.08
23 35 0.88
24 2 0.05
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.19
Consensus pattern (23 bp):
CCCCAGTGGAATCGCCAAACTGT
Found at i:927373 original size:15 final size:16
Alignment explanation
Indices: 927355--927392 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
927345 TGTCTTTTTT
927355 AAAAA-CAATTTTAAG
1 AAAAATCAATTTTAAG
*
927370 AAAAATCATTTTTAAG
1 AAAAATCAATTTTAAG
927386 ACAAAAT
1 A-AAAAT
927393 TGATCTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAAATCAATTTTAAG
Found at i:927764 original size:12 final size:12
Alignment explanation
Indices: 927747--927771 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
927737 TTTCTAAAAG
927747 AAATAAAAAATA
1 AAATAAAAAATA
927759 AAATAAAAAATA
1 AAATAAAAAATA
927771 A
1 A
927772 TTTACACTAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:928496 original size:20 final size:19
Alignment explanation
Indices: 928473--928512 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
928463 TCTTTCGGGA
*
928473 TTTATTTTTGACTTTGATTT
1 TTTATTGTTGAC-TTGATTT
*
928493 TTTATTGTTGGCTTGATTT
1 TTTATTGTTGACTTGATTT
928512 T
1 T
928513 GTCGACTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.12, C:0.05, G:0.15, T:0.68
Consensus pattern (19 bp):
TTTATTGTTGACTTGATTT
Found at i:930192 original size:3 final size:3
Alignment explanation
Indices: 930184--930224 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
930174 ATTATCAGAT
930184 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
930225 GACACCAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:931163 original size:17 final size:16
Alignment explanation
Indices: 931141--931183 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
931131 TTATCCCACT
*
931141 AATATTTTATTCTAAAA
1 AATATTTTATT-AAAAA
*
931158 AATATTTAATTAAAAA
1 AATATTTTATTAAAAA
931174 AATAATTTTA
1 AAT-ATTTTA
931184 AATATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTTTATTAAAAA
Found at i:934387 original size:25 final size:24
Alignment explanation
Indices: 934351--934442 Score: 132
Period size: 24 Copynumber: 3.7 Consensus size: 24
934341 TTTTAATTTT
934351 AATATTAATTTTTTAAATAAATTA
1 AATATTAATTTTTTAAATAAATTA
934375 AATATTAA-TTTTTAATATAAAATTA
1 AATATTAATTTTTTAA-AT-AAATTA
934400 TAGATATTAATTTTTTTAAATAAATTA
1 -A-ATATTAA-TTTTTTAAATAAATTA
934427 AATATTAATTTTTTAA
1 AATATTAATTTTTTAA
934443 TATTATATTA
Statistics
Matches: 62, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.11
24 18 0.29
25 13 0.21
26 2 0.03
27 13 0.21
28 2 0.03
29 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
AATATTAATTTTTTAAATAAATTA
Found at i:934391 original size:13 final size:13
Alignment explanation
Indices: 934343--934414 Score: 53
Period size: 14 Copynumber: 5.7 Consensus size: 13
934333 ATATTTGATT
934343 TTAA-TTTTAATA
1 TTAATTTTTAATA
934355 TTAATTTTTTAA-A
1 TTAA-TTTTTAATA
* *
934368 -TAA-ATTAAATA
1 TTAATTTTTAATA
934379 TTAATTTTTAATA
1 TTAATTTTTAATA
* * *
934392 TAAAATTATAGATA
1 TTAATTTTTA-ATA
934406 TTAATTTTT
1 TTAATTTTT
934415 TTAAATAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
10 4 0.09
11 1 0.02
12 10 0.23
13 14 0.32
14 15 0.34
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (13 bp):
TTAATTTTTAATA
Found at i:934423 original size:52 final size:53
Alignment explanation
Indices: 934352--934467 Score: 191
Period size: 52 Copynumber: 2.2 Consensus size: 53
934342 TTTAATTTTA
934352 ATATTAA-TTTTTTAAATAAATTAAATATTAA-TTTTTAATATAAAATTATAG
1 ATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATAAAATTATAG
* *
934403 ATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATAAAATTATAG
934456 ATATTTAATTTT
1 ATA-TTAATTTT
934468 AATTATTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 7 0.12
52 24 0.40
53 21 0.35
54 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (53 bp):
ATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATAAAATTATAG
Found at i:934999 original size:31 final size:31
Alignment explanation
Indices: 934964--935023 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
934954 TAGTTGTATG
* *
934964 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
934995 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
935024 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:938814 original size:23 final size:22
Alignment explanation
Indices: 938787--938833 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
938777 AACCCTAAAC
938787 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCC-AAAATCGTATCTGCTA
* * *
938810 AAGCCCAGAATTGTATCTTCTA
1 AAGCCCAAAATCGTATCTGCTA
938832 AA
1 AA
938834 CTCGCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (22 bp):
AAGCCCAAAATCGTATCTGCTA
Found at i:943396 original size:22 final size:22
Alignment explanation
Indices: 943366--943407 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
943356 GATCCTTAGA
*
943366 AAAGAGATCGATCCTTTTTTGC
1 AAAGAGATCGATCATTTTTTGC
*
943388 AAAGGGATCGATCATTTTTT
1 AAAGAGATCGATCATTTTTT
943408 CTGGAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (22 bp):
AAAGAGATCGATCATTTTTTGC
Found at i:944960 original size:34 final size:33
Alignment explanation
Indices: 944899--944969 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
944889 ACCTTACAAC
* *
944899 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
*
944932 TCCCTAGATTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
944966 TCCC
1 TCCC
944970 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 7 0.21
34 27 0.79
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:945378 original size:21 final size:21
Alignment explanation
Indices: 945334--945409 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
945324 TTGCAGCCTT
*
945334 GATGCATGGATGCATGGC-AG
1 GATGCATCGATGCATGGCAAG
945354 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
*
945375 GATGCATGGATGCATGGCAAG
1 GATGCATCGATGCATGGCAAG
945396 GATGCATCGATGCA
1 GATGCATCGATGCA
945410 CTAATTGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.20
Consensus pattern (21 bp):
GATGCATCGATGCATGGCAAG
Found at i:945498 original size:21 final size:21
Alignment explanation
Indices: 945472--945529 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
945462 CATTAGTGCA
*
945472 GATGCATGGATGTACTGCAAG
1 GATGCATGGATGCACTGCAAG
*
945493 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAAG
945514 GATGCATGGATGCACT
1 GATGCATGGATGCACT
945530 TTGACACCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.22
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAAG
Found at i:945667 original size:30 final size:30
Alignment explanation
Indices: 945610--945669 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
945600 AACTTTGAAT
945610 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
* *
945640 AAATTCAATTCAAGTCCAAAAATATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
945670 CTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:946984 original size:19 final size:20
Alignment explanation
Indices: 946941--946988 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
946931 TCTAAATCCT
*
946941 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
946961 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
946980 TTTTCAAAA
1 TTTTCAAAA
946989 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:947892 original size:34 final size:33
Alignment explanation
Indices: 947830--947900 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
947820 ACCTTACAAC
* *
947830 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
* *
947863 TCCCTAGCTTTTACAGGGGCTATACTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
947897 TCCC
1 TCCC
947901 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:948278 original size:8 final size:8
Alignment explanation
Indices: 948265--948458 Score: 50
Period size: 8 Copynumber: 25.8 Consensus size: 8
948255 TTGCAGCCTT
948265 GATGCATG
1 GATGCATG
948273 GATGCAT-
1 GATGCATG
948280 G--GCA-G
1 GATGCATG
*
948285 GATGCATC
1 GATGCATG
948293 GATGCAT-
1 GATGCATG
*
948300 G--GCAAG
1 GATGCATG
948306 GATGCATG
1 GATGCATG
948314 GATGCAT-
1 GATGCATG
*
948321 G--GCAAG
1 GATGCATG
*
948327 GATGCATA
1 GATGCATG
948335 GATGCACT-
1 GATGCA-TG
* *
948343 AATTGCATTC
1 GA-TGCA-TG
**
948353 GATGTTTG
1 GATGCATG
948361 GATGCATG
1 GATGCATG
948369 GATGCATTG
1 GATGCA-TG
*
948378 CCTGATGCATC
1 ---GATGCATG
948389 GATGCAT-
1 GATGCATG
*
948396 TAGTGCA--
1 GA-TGCATG
948403 GATGCATG
1 GATGCATG
948411 GATGCA--
1 GATGCATG
* *
948417 -CTGCAAG
1 GATGCATG
948424 GATGCATG
1 GATGCATG
948432 GATGCA--
1 GATGCATG
* *
948438 -CTGCAGG
1 GATGCATG
948445 GATGCATG
1 GATGCATG
948453 GATGCA
1 GATGCA
948459 CTTTGACACC
Statistics
Matches: 137, Mismatches: 23, Indels: 52
0.65 0.11 0.25
Matches are distributed among these distances:
5 18 0.13
6 6 0.04
7 8 0.06
8 87 0.64
9 10 0.07
10 1 0.01
11 1 0.01
12 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (8 bp):
GATGCATG
Found at i:948309 original size:21 final size:21
Alignment explanation
Indices: 948265--948340 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
948255 TTGCAGCCTT
948265 GATGCATGGATGCATGGC-AG
1 GATGCATGGATGCATGGCAAG
*
948285 GATGCATCGATGCATGGCAAG
1 GATGCATGGATGCATGGCAAG
948306 GATGCATGGATGCATGGCAAG
1 GATGCATGGATGCATGGCAAG
*
948327 GATGCATAGATGCA
1 GATGCATGGATGCA
948341 CTAATTGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.29, C:0.16, G:0.36, T:0.20
Consensus pattern (21 bp):
GATGCATGGATGCATGGCAAG
Found at i:948429 original size:21 final size:21
Alignment explanation
Indices: 948403--948460 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
948393 CATTAGTGCA
948403 GATGCATGGATGCACTGCAAG
1 GATGCATGGATGCACTGCAAG
*
948424 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAAG
948445 GATGCATGGATGCACT
1 GATGCATGGATGCACT
948461 TTGACACCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAAG
Found at i:948599 original size:30 final size:30
Alignment explanation
Indices: 948542--948601 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
948532 AACTTTGAAT
948542 AAATTCAATTCAAATCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
*
948572 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAATCCAAAAACATTTTGC
948602 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAATCCAAAAACATTTTGC
Found at i:949010 original size:26 final size:25
Alignment explanation
Indices: 948956--949010 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
948946 CACAAACTTG
* * *
948956 TTTTTTTGTTTTCTTTCTTCTATTA
1 TTTTTTTCTTTTCTTGCTCCTATTA
948981 TTTTTTTCTTCTTCTTGCTCCTCATT-
1 TTTTTTTCTT-TTCTTGCTCCT-ATTA
949007 TTTT
1 TTTT
949011 ACCATCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 9 0.36
26 13 0.52
27 3 0.12
ACGTcount: A:0.05, C:0.18, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTTTCTTTTCTTGCTCCTATTA
Found at i:950928 original size:81 final size:81
Alignment explanation
Indices: 950793--951132 Score: 545
Period size: 81 Copynumber: 4.2 Consensus size: 81
950783 AATACATTGT
* * * *
950793 TAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTCTCATCTAACTTGCAATATTTGCATCTTT
1 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
* *
950858 TTGCCAAATGCACAGC
66 CTGCCAAATGCACAAC
*
950874 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCTTTTCATCTAACTTGCAATATTGGCACCTTT
1 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
* *
950939 CTGTCAAATGTACAAC
66 CTGCCAAATGCACAAC
* *
950955 TAGGTAATTATTCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
1 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
*
951020 CTGCCAAATGCACAGC
66 CTGCCAAATGCACAAC
*
951036 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTAGCAATATTGGCACCTTT
1 TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
*
951101 CTGTCAAATGCACAAC
66 CTGCCAAATGCACAAC
*
951117 TAGGCATTTAATCTTT
1 TAGGCAATTAATCTTT
951133 CATTTTAAAA
Statistics
Matches: 238, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 238 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (81 bp):
TAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTT
CTGCCAAATGCACAAC
Found at i:953556 original size:19 final size:20
Alignment explanation
Indices: 953505--953557 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
953495 TACTGATACT
*
953505 AGGGGAAGTATCGATACCCT
1 AGGGGAAGTATCGATACCCA
953525 AGGAAGGAAAGTATCGATACCCA
1 AGG--GG-AAGTATCGATACCCA
953548 AGGGG-AGTAT
1 AGGGGAAGTAT
953558 TAGTACCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 2 0.07
22 2 0.07
23 17 0.59
ACGTcount: A:0.36, C:0.15, G:0.32, T:0.17
Consensus pattern (20 bp):
AGGGGAAGTATCGATACCCA
Found at i:958374 original size:34 final size:35
Alignment explanation
Indices: 958331--958400 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
958321 CCACTTGCTA
*
958331 TATTTTCTTTATATTTCTTTTGGGAT-TAAGGAAT
1 TATTTTCTTTATAATTCTTTTGGGATATAAGGAAT
*
958365 TATTTTCTTTATAATTCTTTTGGGATATTAGGAAT
1 TATTTTCTTTATAATTCTTTTGGGATATAAGGAAT
958400 T
1 T
958401 GATTGGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (35 bp):
TATTTTCTTTATAATTCTTTTGGGATATAAGGAAT
Found at i:961803 original size:57 final size:57
Alignment explanation
Indices: 961719--962196 Score: 724
Period size: 57 Copynumber: 8.4 Consensus size: 57
961709 GTGCAAAATA
* * * * *
961719 TAAGAAATCATACTAAGTGTATTAATTTAAGATATGGCGTTTCTTACGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
961776 TAAGAAAACATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
961833 T-AGTAAATCATACTAAGTGTATGAATTTTAGATAGTGCGTTTCGTATGTTAAAATGT
1 TAAG-AAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * **
961890 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGTGTTTCGTATACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
961947 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGTGCGTTCCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
962004 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGGATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
962061 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
962118 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
962175 TAGGAAATCATACTAAGTGTAT
1 TAAGAAATCATACTAAGTGTAT
962197 TATTTTCTGT
Statistics
Matches: 381, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
56 2 0.01
57 377 0.99
58 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.34
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:962238 original size:171 final size:170
Alignment explanation
Indices: 961713--962261 Score: 723
Period size: 171 Copynumber: 3.2 Consensus size: 170
961703 CTAAATGTGC
* * * *
961713 AAAAT-ATAAGAAATCATACTAAGTGTATTAATTTAAGATATGGCGTTTCTTACGCTAAAAT-AT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGA-
* * *
961776 TAAGAAAACATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAGTAAAT
65 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAGGAAAT
* *
961841 CATACTAAGTGTATGAATTTT-AGATAGTGCGTTTCGTATGTT
130 CATACTAAGTGTAT-AATTTTCAGATAG-GCGTTTCGGATGCT
* * * ** *
961883 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCATATAGGGTGTTTCGTATACTAAAATGTT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGAT
* * * *
961948 AAGAAATCATATTAAGTGTATGAATTTCAGATAGTGCGTTCCATACGCTAAAATGTTAAGAAATC
66 AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAGGAAATC
962013 ATACTAAGTGTATGAA-TTTCAGATAGGGCGTTTCGGATGCT
131 ATACTAAGTGTAT-AATTTTCAGATA-GGCGTTTCGGATGCT
*
962054 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGAT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGAT
*
962119 AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAGGAAATC
66 AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAGGAAATC
* * * * *
962184 ATACTAAGTGTATTATTTTCTGTATTGGACATCTT-GGGTGCT
131 ATACTAAGTGTATAATTTTCAG-ATAGG-CGT-TTCGGATGCT
* *
962226 -AAAGGATAAGAAATTCATACTATGTGTATGAATTTC
1 AAAATGATAAGAAA-TCATACTAAGTGTATGAATTTC
962262 CATATGGGAA
Statistics
Matches: 333, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
170 9 0.03
171 290 0.87
172 32 0.10
173 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (170 bp):
AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGAT
AAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGTTAGGAAATC
ATACTAAGTGTATAATTTTCAGATAGGCGTTTCGGATGCT
Found at i:963034 original size:45 final size:45
Alignment explanation
Indices: 962935--963049 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
962925 GCATAATTGT
*
962935 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATGAAACGC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATGAAAAGC
962980 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTAT-AAAAGAC
1 ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATGAAAAG-C
* * *
963025 AT-ATGAGGATGACATAATTGAAATG
1 ATGA-AAGGATGCCATAAATGAAATG
963050 CATATAGGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
44 5 0.08
45 59 0.92
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATGAAAAGC
Found at i:966352 original size:19 final size:19
Alignment explanation
Indices: 966328--966364 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
966318 ATGCCTACCT
966328 CTTTCTTC-TCTTCTCTTCC
1 CTTTCTTCATCTTC-CTTCC
966347 CTTTCTTCATCTTCCTTC
1 CTTTCTTCATCTTCCTTC
966365 ACCATCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTTCTTCATCTTCCTTCC
Found at i:967781 original size:19 final size:19
Alignment explanation
Indices: 967757--967861 Score: 96
Period size: 19 Copynumber: 5.7 Consensus size: 19
967747 ATTGCAGCCA
967757 GGGGTATAGATACCCCTGG
1 GGGGTATAGATACCCCTGG
* *
967776 GGGGTATCGATACCCAT--
1 GGGGTATAGATACCCCTGG
967793 --GGTATAGATACCCCTGTAG
1 GGGGTATAGATACCCCTG--G
*
967812 GGGGTATGGATA-CCCT-G
1 GGGGTATAGATACCCCTGG
* *
967829 GGGGTATGGATACCTCTGG
1 GGGGTATAGATACCCCTGG
*
967848 GGGGTATCGATACC
1 GGGGTATAGATACC
967862 AACCGAGCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
15 13 0.18
17 13 0.18
18 3 0.04
19 29 0.41
20 4 0.06
21 9 0.13
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (19 bp):
GGGGTATAGATACCCCTGG
Found at i:967824 original size:36 final size:34
Alignment explanation
Indices: 967759--967861 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 34
967749 TGCAGCCAGG
967759 GGTATAGATACCCCTGGGGGGTATCGATACCCAT
1 GGTATAGATACCCCTGGGGGGTATCGATACCCAT
*
967793 GGTATAGATACCCCTGTAGGGGGTATGGATACCC-T
1 GGTATAGATACCCCTG--GGGGGTATCGATACCCAT
* *
967828 GGGGGTATGGATACCTCTGGGGGGTATCGATACC
1 ---GGTATAGATACCCCTGGGGGGTATCGATACC
967862 AACCGAGCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
34 16 0.27
35 1 0.02
36 29 0.48
38 14 0.23
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (34 bp):
GGTATAGATACCCCTGGGGGGTATCGATACCCAT
Found at i:967833 original size:17 final size:19
Alignment explanation
Indices: 967811--967861 Score: 79
Period size: 17 Copynumber: 2.8 Consensus size: 19
967801 TACCCCTGTA
967811 GGGGGTATGGATACC-CT-
1 GGGGGTATGGATACCTCTG
967828 GGGGGTATGGATACCTCTG
1 GGGGGTATGGATACCTCTG
*
967847 GGGGGTATCGATACC
1 GGGGGTATGGATACC
967862 AACCGAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.48
18 2 0.06
19 14 0.45
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.24
Consensus pattern (19 bp):
GGGGGTATGGATACCTCTG
Found at i:970375 original size:21 final size:21
Alignment explanation
Indices: 970351--970419 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
970341 TTTTAAGGGA
*
970351 AGGGATTGATTATTTTCATCG
1 AGGGATTGATCATTTTCATCG
*
970372 AGGGATTGATCATTTTGAT-G
1 AGGGATTGATCATTTTCATCG
* * *
970392 AAGGGATCGATCCTTTTCCTCG
1 -AGGGATTGATCATTTTCATCG
970414 AGGGAT
1 AGGGAT
970420 CAATCCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (21 bp):
AGGGATTGATCATTTTCATCG
Found at i:970430 original size:42 final size:42
Alignment explanation
Indices: 970349--970448 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
970339 TCTTTTAAGG
* ** **
970349 GAAGGGATTGATTATTTTCATCGAGGGATTGATCATTTTGAT
1 GAAGGGATCGATCCTTTTCATCGAGGGATCAATCATTTTGAT
* * *
970391 GAAGGGATCGATCCTTTTCCTCGAGGGATCAATCCTTTTGCT
1 GAAGGGATCGATCCTTTTCATCGAGGGATCAATCATTTTGAT
**
970433 -AAAAGATCGATCCTTT
1 GAAGGGATCGATCCTTT
970449 GAGCCAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 14 0.29
42 34 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
GAAGGGATCGATCCTTTTCATCGAGGGATCAATCATTTTGAT
Found at i:972060 original size:30 final size:30
Alignment explanation
Indices: 972017--972091 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
972007 GCATGATTTT
*
972017 TTATTAGGGAACAAACTTAAACTTATAAAA
1 TTATAAGGGAACAAACTTAAACTTATAAAA
* *
972047 TTCT-AGAGGAACAAACTTTAACTTATAAAA
1 TTATAAG-GGAACAAACTTAAACTTATAAAA
972077 TTATAAGGGAACAAA
1 TTATAAGGGAACAAA
972092 GATAAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.05
30 36 0.90
31 2 0.05
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (30 bp):
TTATAAGGGAACAAACTTAAACTTATAAAA
Found at i:987273 original size:2 final size:2
Alignment explanation
Indices: 987241--987438 Score: 148
Period size: 2 Copynumber: 100.5 Consensus size: 2
987231 ACTTTGGGTA
* * * *
987241 AT AT AA AT AT AC AT AT A- AT A- AT AT AT A- AT AT AT AT TT GAA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
*
987281 AA AT A- AT AT AT AT ACT AT A- AT AT AT AT A- AT AT ACT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
987322 AT AT AT AT AT -T A- AA AA ACT AT AT AT AT AT TT CT AA AT AT A-
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
*
987362 AT AT AT ACT AT A- AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
987404 AT AT AT AT AT AT AT AT CAT A- AT ACT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT -AT AT AT A-T AT AT -AT AT A
987439 AAATAATATA
Statistics
Matches: 162, Mismatches: 15, Indels: 38
0.75 0.07 0.18
Matches are distributed among these distances:
1 11 0.07
2 138 0.85
3 13 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:987902 original size:13 final size:13
Alignment explanation
Indices: 987884--987922 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
987874 ATCATAAATC
*
987884 TATGACGCGCATT
1 TATGACGCACATT
* *
987897 TATGACACTCATT
1 TATGACGCACATT
987910 TATGACGCACATT
1 TATGACGCACATT
987923 GCGCGTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:989468 original size:30 final size:30
Alignment explanation
Indices: 989432--989498 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
989422 AGTTGCCTAC
989432 ATAAAGCCTAAAAAGCTTGAAAGTAAGAAA
1 ATAAAGCCTAAAAAGCTTGAAAGTAAGAAA
989462 ATAAAGCCTAAAAAGCTTGAAAGTAAGAAA
1 ATAAAGCCTAAAAAGCTTGAAAGTAAGAAA
989492 ATAAAGC
1 ATAAAGC
989499 AGGGTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.16
Consensus pattern (30 bp):
ATAAAGCCTAAAAAGCTTGAAAGTAAGAAA
Found at i:993522 original size:41 final size:40
Alignment explanation
Indices: 993477--993596 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 40
993467 AGCAAAAATG
993477 CCGCTAAATATTCATACTTTAGTGGCGTTTTTATACAAACA
1 CCGCTAAA-ATTCATACTTTAGTGGCGTTTTTATACAAACA
* * ** *
993518 CCGCTATAAACTCATACTTTAATGATGTCTTTATACAAACA
1 CCGCTA-AAATTCATACTTTAGTGGCGTTTTTATACAAACA
* * * * *
993559 CCACTAACGACTT-GTATTTTAGTGGCTTTTTTATACAA
1 CCGCTAA--AATTCATACTTTAGTGGCGTTTTTATACAA
993597 TCGCCGTAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
40 1 0.02
41 56 0.92
42 4 0.07
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (40 bp):
CCGCTAAAATTCATACTTTAGTGGCGTTTTTATACAAACA
Found at i:993761 original size:41 final size:41
Alignment explanation
Indices: 993700--993917 Score: 287
Period size: 41 Copynumber: 5.3 Consensus size: 41
993690 TTATCAATAC
* * *
993700 ATACAAACGCCACTAAAGACTCGTATTTTAGTGGCGTTTTT
1 ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTT
* * * *
993741 ATACAAACGTCGCTATAGACTTATACTTTAGTAGCGTTTTT
1 ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTT
** *
993782 ATACAAACATCGCTATAA-ACTCATACTTTAGTGGCATTTTT
1 ATACAAACGCCGCTA-AAGACTCATACTTTAGTGGCGTTTTT
* *
993823 ATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTT
1 ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTT
*
993864 ATACAAACGCCGCTAAATACTCATACTTTAGTGGCGTTTGTT
1 ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTT-TT
993906 -TACAAACGCCGC
1 ATACAAACGCCGC
993918 AAGTTTACAA
Statistics
Matches: 156, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.01
41 151 0.97
42 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (41 bp):
ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTT
Found at i:995987 original size:19 final size:20
Alignment explanation
Indices: 995945--995995 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
995935 GAAATGCCTT
995945 TGAAAATACATGAATTTGAA
1 TGAAAATACATGAATTTGAA
*
995965 TGAAAATACATGACTTT-AA
1 TGAAAATACATGAATTTGAA
*
995984 TGAACATACATG
1 TGAAAATACATG
995996 CTCTTGGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (20 bp):
TGAAAATACATGAATTTGAA
Found at i:996705 original size:21 final size:20
Alignment explanation
Indices: 996681--996719 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
996671 CTATGAATGA
* *
996681 TTGTCTATAAGCTAAGATAAT
1 TTGTATATAAACT-AGATAAT
996702 TTGTATATAAACTAGATA
1 TTGTATATAAACTAGATA
996720 TAAGGAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGTATATAAACTAGATAAT
Found at i:1006925 original size:44 final size:42
Alignment explanation
Indices: 1006876--1006967 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 42
1006866 GTTTTACATT
*
1006876 GACAAACGA-CACTATATGAC-ATAACATTTAGCGGTATTTTTGG
1 GACAAAC-ACCACTATATG-CTAGAACATTTAGCGGT-TTTTTGG
1006919 GAACAAACACCACTATATGCTAGAACATTTAGCGGTTTTTTGG
1 G-ACAAACACCACTATATGCTAGAACATTTAGCGGTTTTTTGG
1006962 GACAAA
1 GACAAA
1006968 ACGCCACAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
42 5 0.11
43 11 0.24
44 29 0.64
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (42 bp):
GACAAACACCACTATATGCTAGAACATTTAGCGGTTTTTTGG
Found at i:1007060 original size:41 final size:41
Alignment explanation
Indices: 1006999--1007208 Score: 307
Period size: 41 Copynumber: 5.1 Consensus size: 41
1006989 ATAGAGGTGT
* * * ** *
1006999 TTTG-AAAAAACGCCGTTAAATATCATAACCTTTAGTAGTG
1 TTTGTAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
*
1007039 TTTGTAAAAAATGTCGCTAAATATCATTA-CTTTAGCGGCG
1 TTTGTAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
*
1007079 TTTGTAAAAAATGCCGATAAATATCATTACCTTTAGCGGCG
1 TTTGTAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
*
1007120 TTTGTAAAAAATGCTGCTAAATATCATTACCTTTAGCGGCG
1 TTTGTAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
1007161 TTTGTAAAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
1 TTTGT--AAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
1007204 TTTGT
1 TTTGT
1007209 TTCAGCGATG
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
40 39 0.25
41 75 0.49
43 40 0.26
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (41 bp):
TTTGTAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCG
Found at i:1007103 original size:81 final size:82
Alignment explanation
Indices: 1006999--1007208 Score: 300
Period size: 81 Copynumber: 2.6 Consensus size: 82
1006989 ATAGAGGTGT
* * * * *
1006999 TTTG-AAAAAACGCCGTTAAATATCATAACCTTTAGTAGTGTTTGTAAAAAATG-TCGCTAAATA
1 TTTGTAAAAAATGCCGATAAATATCATTACCTTTAGCAGCGTTTGTAAAAAATGCT-GCTAAATA
1007062 TCATTA-CTTTAGCGGCG
65 TCATTACCTTTAGCGGCG
*
1007079 TTTGTAAAAAATGCCGATAAATATCATTACCTTTAGCGGCGTTTGTAAAAAATGCTGCTAAATAT
1 TTTGTAAAAAATGCCGATAAATATCATTACCTTTAGCAGCGTTTGTAAAAAATGCTGCTAAATAT
1007144 CATTACCTTTAGCGGCG
66 CATTACCTTTAGCGGCG
* *
1007161 TTTGTAAAAAAAATGCCGCTAAATATCATTACCTTTAGCGGCGTTTGT
1 TTTGT--AAAAAATGCCGATAAATATCATTACCTTTAGCAGCGTTTGT
1007209 TTCAGCGATG
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
80 4 0.03
81 57 0.48
82 17 0.14
84 40 0.34
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (82 bp):
TTTGTAAAAAATGCCGATAAATATCATTACCTTTAGCAGCGTTTGTAAAAAATGCTGCTAAATAT
CATTACCTTTAGCGGCG
Found at i:1009702 original size:2 final size:2
Alignment explanation
Indices: 1009695--1009728 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1009685 TTTATCAAAT
*
1009695 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1009729 AAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1009729 original size:8 final size:8
Alignment explanation
Indices: 1009698--1009738 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
1009688 ATCAAATTAT
*
1009698 ATATATAT
1 ATATATAA
*
1009706 ATATATAT
1 ATATATAA
1009714 ATATATAA
1 ATATATAA
1009722 ATATATAA
1 ATATATAA
1009730 A-ATA-AA
1 ATATATAA
1009736 ATA
1 ATA
1009739 ACATAAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
6 3 0.10
7 4 0.13
8 24 0.77
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAA
Found at i:1011299 original size:3 final size:3
Alignment explanation
Indices: 1011286--1011327 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
1011276 TGTAAAAATG
*
1011286 TAA TAA TTAA TAA TTAA AAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1011328 TATTTTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1011303 original size:22 final size:22
Alignment explanation
Indices: 1011278--1011321 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1011268 CAACAATTTG
*
1011278 TAAAAAT-GTAATAATTAATAAT
1 TAAAAATAATAATAA-TAATAAT
1011300 TAAAAATAATAATAATAATAAT
1 TAAAAATAATAATAATAATAAT
1011322 ATAATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAATAATAATAATAATAAT
Found at i:1011325 original size:17 final size:15
Alignment explanation
Indices: 1011286--1011327 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1011276 TGTAAAAATG
1011286 TAATAAT-TAATAAT
1 TAATAATATAATAAT
*
1011300 TAAAAATAATAATAA-
1 TAATAAT-ATAATAAT
1011315 TAATAATATAATA
1 TAATAATATAATA
1011328 TATTTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATAATATAATAAT
Found at i:1011873 original size:136 final size:136
Alignment explanation
Indices: 1011675--1012027 Score: 593
Period size: 136 Copynumber: 2.6 Consensus size: 136
1011665 TCTTTAAGAC
* *
1011675 GAGTTCTTCTCATTATGAACTCTTC--TAGAAATGTTAATTCCTCAAGCAAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCAAGGCATCACTGATTC
*
1011738 GAAATACCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
66 GAAATGCCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
*
1011803 TCGGAT
131 TCGAAT
* **
1011809 GAGTTATTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGTGAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCAAGGCATCACTGATTC
*
1011874 GAAATGCCGTGAATCAAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
66 GAAATGCCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
1011939 TCGAAT
131 TCGAAT
* * *
1011945 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATTCCTTAAGCAAGGCGTCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCAAGGCATCACTGATTC
1012010 GAAATGCCGTGAATCGAG
66 GAAATGCCGTGAATCGAG
1012028 CAACGAAAAT
Statistics
Matches: 202, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
134 24 0.12
136 178 0.88
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (136 bp):
GAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCAAGGCATCACTGATTC
GAAATGCCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
TCGAAT
Found at i:1012208 original size:90 final size:90
Alignment explanation
Indices: 1012039--1012480 Score: 676
Period size: 90 Copynumber: 4.9 Consensus size: 90
1012029 AACGAAAATG
* * * **
1012039 TTGAAAGCATCTTGC-C-GAAGGTCTTATGG-TGGTCTAAAGGACTTAAACAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAA-AATCAAGAAACCCC
1012101 CGAAGGCTCAGTTTCTTAAATCTCAT
65 CGAAGGCTCAGTTTCTTAAATCTCAT
* *** *
1012127 TTGAAAACATCATGCACTGAAGGTCTTATGGATGGATTGAAGGACTTAGAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
*
1012192 GAAGGCTCAGTTTCTTAGATCTCAT
66 GAAGGCTCAGTTTCTTAAATCTCAT
*
1012217 TTGAAAACATCCTGGACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCC
*
1012282 CGAAGGCTCAGTTTCTTAAATGTCAT
65 CGAAGGCTCAGTTTCTTAAATCTCAT
*
1012308 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
* *
1012373 GAAGGCTCAGTTTCTTAGATTTCAT
66 GAAGGCTCAGTTTCTTAAATCTCAT
*
1012398 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAA-GAGCTTAAAAATCAAGAAACCGC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA-CTTAAAAATCAAGAAACCCC
1012462 CGAAGGCTCAGTTTCTTAA
65 CGAAGGCTCAGTTTCTTAA
1012481 TTGTCACCAA
Statistics
Matches: 327, Mismatches: 22, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
88 13 0.04
89 3 0.01
90 211 0.65
91 100 0.31
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (90 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
GAAGGCTCAGTTTCTTAAATCTCAT
Found at i:1012379 original size:181 final size:181
Alignment explanation
Indices: 1012039--1012486 Score: 717
Period size: 181 Copynumber: 2.5 Consensus size: 181
1012029 AACGAAAATG
* * * ** *
1012039 TTGAAAGCATCTTGC-C-GAAGGTCTTATGG-TGGTCTAAAGGACTTAAACAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
* **
1012101 CGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGATTG
66 CGAAGGCTCAGTTTCTTAAATGTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGACCG
1012166 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAT
131 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAT
*
1012217 TTGAAAACATCCTGGACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
* *
1012282 CGAAGGCTCAGTTTCTTAAATGTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCG
66 CGAAGGCTCAGTTTCTTAAATGTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGACCG
*
1012347 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATTTCAT
131 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAT
*
1012398 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAA-GAGCTT-AAAAATCAAGAAACCG
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA-CTTAAAAAATCAAGAAACCC
*
1012461 CCGAAGGCTCAGTTTCTTAATTGTCA
65 CCGAAGGCTCAGTTTCTTAAATGTCA
1012487 CCAAGGAACC
Statistics
Matches: 250, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
178 12 0.05
179 1 0.00
180 55 0.22
181 182 0.73
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (181 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
CGAAGGCTCAGTTTCTTAAATGTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGACCG
AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAT
Found at i:1012594 original size:43 final size:43
Alignment explanation
Indices: 1012529--1012932 Score: 445
Period size: 43 Copynumber: 9.1 Consensus size: 43
1012519 CAAGTGTTCA
* * * *
1012529 TCAAGTTTGTCATCAAGTAACCCCTACATATCACGATGGCCCC
1 TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
* * * *
1012572 TCAAGTTTTTTATCAAGAAACCCCTACATATCACGATGGTTTC
1 TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
1012615 TCAAGCTTGTCATCAA-AGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTC
1 TCAAGCTTGTCATCAAGA-AACCCCTACATATCACGATGG----T----C---TC
*
1012669 ATCAAGTTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
1 -TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
*
1012713 TCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTC
1 TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
*
1012756 TCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTC
1 TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
* * *
1012799 TCAAGCATGTCATCAA-AGAACCCCTACATATCATGATGGTCTT
1 TCAAGCTTGTCATCAAGA-AACCCCTACATATCACGATGGTCTC
* * * *
1012842 TTAAGTTTGTTATCAAAGGAACCCCTACATATCACGATGGTC-C
1 TCAAGCTTGTCATC-AAGAAACCCCTACATATCACGATGGTCTC
* * * *
1012885 TTCAAGCTTTTCATCAAGAAACCCCTGCATATCGCGATGGTTTC
1 -TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
1012929 TCAA
1 TCAA
1012933 AATATTGTGT
Statistics
Matches: 312, Mismatches: 30, Indels: 38
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 231 0.74
44 37 0.12
47 2 0.01
51 1 0.00
54 2 0.01
55 36 0.12
56 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (43 bp):
TCAAGCTTGTCATCAAGAAACCCCTACATATCACGATGGTCTC
Found at i:1012698 original size:141 final size:140
Alignment explanation
Indices: 1012481--1012814 Score: 485
Period size: 141 Copynumber: 2.4 Consensus size: 140
1012471 AGTTTCTTAA
* * * *
1012481 TTGTCACCAAGGAACCCCTACATATCACGATAGTCCCTCAAG-TGTTCATCAAGTTTGTCATCAA
1 TTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTG-TCATCAAGTTTGTCATCAA
* ** * *
1012545 GTAACCCCTACATATCACGATGGCCCCTCAAGTTTTTTATCAAGAAACCCCTACATATCACGATG
65 GAAACCCCTACATATCACGATGGCCCCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATG
*
1012610 GTTTCTCAAGC
130 GTCTCTCAAGC
1012621 TTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTTGTCATCAAGTTTGTCATCAA
1 TTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGC-TGTCATCAAGTTTGTCATCAA
* *
1012686 GAAACCCCTACATATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATG
65 GAAACCCCTACATATCACGATGGCCCCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATG
1012751 GTCTCTCAAGC
130 GTCTCTCAAGC
*
1012762 ATGTCATC-AAGAAACCCCTACATATCACGATGGT-CTCTCAAGCATGTCATCAA
1 TTGTCATCAAAG-AACCCCTACATATCACGATGGTCCT-TCAAGC-TGTCATCAA
1012815 AGAACCCCTA
Statistics
Matches: 176, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
140 43 0.24
141 131 0.74
142 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (140 bp):
TTGTCATCAAAGAACCCCTACATATCACGATGGTCCTTCAAGCTGTCATCAAGTTTGTCATCAAG
AAACCCCTACATATCACGATGGCCCCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATGG
TCTCTCAAGC
Found at i:1012902 original size:130 final size:129
Alignment explanation
Indices: 1012677--1012932 Score: 363
Period size: 130 Copynumber: 2.0 Consensus size: 129
1012667 TCATCAAGTT
1012677 TGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACAT
1 TGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACAT
1012742 ATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCA
66 ATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCA
* * * ** * *
1012806 TGTCATCAA-AGAACCCCTACATATCATGATGGTCTTTTAAGTTTGTTATCAAAGGAACCCCTAC
1 TGTCATCAAGA-AACCCCTACATATCACGATGGTCTCTCAAGCATGTCATC-AAGAAACCCCTAC
* * * * *
1012870 ATATCACGATGGTC-CTTCAAGCTTTTCATCAAGAAACCCCTGCATATCGCGATGGTTTCTCAA
64 ATATCACGATGGTCTC-TCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAA
1012933 AATATTGTGT
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
128 1 0.01
129 43 0.38
130 68 0.61
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (129 bp):
TGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACAT
ATCACGATGGTCTCTCAAGCATGTCATCAAGAAACCCCTACATATCACGATGGTCTCTCAAGCA
Found at i:1013036 original size:36 final size:36
Alignment explanation
Indices: 1012991--1013272 Score: 333
Period size: 36 Copynumber: 8.0 Consensus size: 36
1012981 TCAAGTGAAA
* * * *
1012991 TTGTCTCAAGGGAGACTGTCTCAATGGAGATAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
*
1013027 TTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
*
1013063 TTGTTTCTAGGGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* * *
1013099 TTTTTTCAAGGGAAACCGTCTCATGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1013135 TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC-----
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* * * *
1013166 -TATCTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* * *
1013201 TCGTTTCTAGGGAAACTGTCTCAAGGGAGACAAAAC
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* * * * *
1013237 TCGTTTCTAGGGAAACTATCTCAAGAGAGATAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1013273 CTTATGTTTC
Statistics
Matches: 214, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
30 27 0.13
36 187 0.87
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
Found at i:1013160 original size:15 final size:15
Alignment explanation
Indices: 1013140--1013228 Score: 88
Period size: 15 Copynumber: 5.5 Consensus size: 15
1013130 AAAATTTGTT
1013140 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
* *
1013155 TCAAGGGAGACTATC
1 TCAAGGGAAACTGTC
1013170 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
*
1013185 TCAAGAGAGACAAAACTCGTT
1 TCAAG-G-G---AAACT-GTC
*
1013206 TCTAGGGAAACTGTC
1 TCAAGGGAAACTGTC
1013221 TCAAGGGA
1 TCAAGGGA
1013229 GACAAAACTC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
15 40 0.67
16 6 0.10
17 1 0.02
19 1 0.02
20 6 0.10
21 6 0.10
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:1013249 original size:21 final size:21
Alignment explanation
Indices: 1013191--1013249 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
1013181 TGTCTCAAGA
1013191 GAGACAAAACTCGTTTCTA-G
1 GAGACAAAACTCGTTTCTAGG
* *
1013211 G-G---AAACT-GTCTCAAGG
1 GAGACAAAACTCGTTTCTAGG
1013227 GAGACAAAACTCGTTTCTAGG
1 GAGACAAAACTCGTTTCTAGG
1013248 GA
1 GA
1013250 AACTATCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 11
0.66 0.09 0.25
Matches are distributed among these distances:
15 5 0.17
16 7 0.24
17 1 0.03
19 1 0.03
20 6 0.21
21 9 0.31
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (21 bp):
GAGACAAAACTCGTTTCTAGG
Found at i:1013391 original size:39 final size:39
Alignment explanation
Indices: 1013173--1013433 Score: 230
Period size: 39 Copynumber: 6.8 Consensus size: 39
1013163 GACTATCTCA
* * * *
1013173 AGGGAAACTGTCTCAAGAGAGACAAAA-C--TCGTTTCT
1 AGGGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
* * * * *
1013209 AGGGAAACTGTCTCAAGGGAGACAAAA-C--TCGTTTCT
1 AGGGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
* *
1013245 AGGGAAACTATCTCAAGAGAGATAAAATCTTATGTTTCA
1 AGGGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
** * ** * *
1013284 ATGAAAAACGATCTTGAGTGAAAT-AAATCTTATTGTTTCG
1 A-GGGAAACTATCTCAAGAGAGATAAAATCTT-TTGTTTCG
** * * *
1013324 AGCAAAAACTGTCTCAAGTGAGACAAAATCTTTTGTTTCG
1 AG-GGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
*
1013364 AGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCG
1 AGGGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
1013403 AGGGAAACTATCTCAAGAGAGATAAAATCTT
1 AGGGAAACTATCTCAAGAGAGATAAAATCTT
1013434 CTTTAAAAGC
Statistics
Matches: 190, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
36 59 0.31
37 1 0.01
39 76 0.40
40 47 0.25
41 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (39 bp):
AGGGAAACTATCTCAAGAGAGATAAAATCTTTTGTTTCG
Found at i:1013431 original size:119 final size:116
Alignment explanation
Indices: 1013213--1013433 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 116
1013203 GTTTCTAGGG
*
1013213 AAACTGTCTCAAGGGAGACAAAACTCGTTTCTAGGGAAACTATCTCAAGAGAGATAAAATCTTAT
1 AAACTGTCTCAAGGGAGACAAAACTCGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTAT
** *
1013278 GTTTCAATGAAAAACGATCTTGAGTGAAATAAATCTTATTGTTTCGAGCAA
66 GTTTCAATGAAAAACGATCTCAAGAGAAATAAATCTTATTGTTTCGAGCAA
* * *
1013329 AAACTGTCTCAAGTGAGACAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCT
1 AAACTGTCTCAAGGGAGACAAAA-C--TCGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCT
* * ** * *
1013394 TTTGTTTCGA-GGGAAACTATCTCAAGAGAGATAAAATCTT
63 TATGTTTCAATGAAAAACGATCTCAAGAGAAAT-AAATCTT
1013434 CTTTAAAAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
116 22 0.25
117 1 0.01
118 15 0.17
119 50 0.57
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (116 bp):
AAACTGTCTCAAGGGAGACAAAACTCGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTAT
GTTTCAATGAAAAACGATCTCAAGAGAAATAAATCTTATTGTTTCGAGCAA
Found at i:1013924 original size:34 final size:34
Alignment explanation
Indices: 1013810--1013925 Score: 169
Period size: 34 Copynumber: 3.4 Consensus size: 34
1013800 AAAAAATTGC
* ** *
1013810 CTCAACTGAGACGGAATTTGTTTTGAGAAATTGT
1 CTCAAGTGAGACAAAATTTGTTTTGAGAAATTAT
* * *
1013844 CTCAAGCGATACGAAATTTGTTTTGAGAAATTAT
1 CTCAAGTGAGACAAAATTTGTTTTGAGAAATTAT
1013878 CTCAAGTGAGACAAAATTTGTTTTGAGAAATTAT
1 CTCAAGTGAGACAAAATTTGTTTTGAGAAATTAT
1013912 CTCAAGTGAGACAA
1 CTCAAGTGAGACAA
1013926 TTTTTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 74 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (34 bp):
CTCAAGTGAGACAAAATTTGTTTTGAGAAATTAT
Found at i:1014096 original size:33 final size:32
Alignment explanation
Indices: 1014032--1014131 Score: 146
Period size: 32 Copynumber: 3.1 Consensus size: 32
1014022 AGGATATTGA
* ** * *
1014032 ATGCCCCAATATTCAATATTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTTCAAAG
1014064 ATGCCCCAACATTTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTTCAAAG
1014097 ATGCCCCAACATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTTCAAAG
1014129 ATG
1 ATG
1014132 TCCTCTATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 34 0.55
33 28 0.45
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTTCAAAG
Found at i:1015968 original size:16 final size:14
Alignment explanation
Indices: 1015955--1015990 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1015945 CTGATCTTTG
1015955 CTTTTTTTTTTCTT
1 CTTTTTTTTTTCTT
*
1015969 CTTTTTTTTTT-TA
1 CTTTTTTTTTTCTT
1015982 CTTTTTTTT
1 CTTTTTTTT
1015991 ATACTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (14 bp):
CTTTTTTTTTTCTT
Found at i:1015975 original size:13 final size:13
Alignment explanation
Indices: 1015955--1016001 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
1015945 CTGATCTTTG
*
1015955 CTTTTTTTTTTCTT
1 CTTTTTTTTTT-TA
1015969 CTTTTTTTTTTTA
1 CTTTTTTTTTTTA
*
1015982 C-TTTTTTTTATA
1 CTTTTTTTTTTTA
1015994 CTTTTTTT
1 CTTTTTTT
1016002 ACAAAATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 11 0.37
13 8 0.27
14 11 0.37
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTTTTTTTTTA
Found at i:1018441 original size:27 final size:27
Alignment explanation
Indices: 1018411--1018468 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
1018401 GTTTTTTATG
*
1018411 AAAATGCAAAGATGCAAATGTAGATGC
1 AAAATGCAAAGATGCAAATGCAGATGC
1018438 AAAATGCAAAGATGCAAATGCAGATGC
1 AAAATGCAAAGATGCAAATGCAGATGC
1018465 AAAA
1 AAAA
1018469 ATGTTGATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.16
Consensus pattern (27 bp):
AAAATGCAAAGATGCAAATGCAGATGC
Found at i:1018471 original size:14 final size:13
Alignment explanation
Indices: 1018420--1018468 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
1018410 GAAAATGCAA
*
1018420 AGATGC-AAATGT
1 AGATGCAAAATGC
1018432 AGATGCAAAATGC
1 AGATGCAAAATGC
1018445 AAAGATGC-AAATGC
1 --AGATGCAAAATGC
1018459 AGATGCAAAA
1 AGATGCAAAA
1018469 ATGTTGATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 12 0.38
13 8 0.25
14 6 0.19
15 6 0.19
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.16
Consensus pattern (13 bp):
AGATGCAAAATGC
Found at i:1019968 original size:27 final size:28
Alignment explanation
Indices: 1019938--1019990 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
1019928 GTGAAAAATA
*
1019938 ACACAAACAAAAG-AAATAAGTTAGTGT
1 ACACAAACAAAAGAAAATAAATTAGTGT
1019965 ACACAAACAAAAGAAAATAAATTAGT
1 ACACAAACAAAAGAAAATAAATTAGT
1019991 TAGTACATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.17
Consensus pattern (28 bp):
ACACAAACAAAAGAAAATAAATTAGTGT
Found at i:1022965 original size:3 final size:3
Alignment explanation
Indices: 1022952--1022995 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
1022942 TGTAAAAATG
1022952 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1022996 TATATTTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1023544 original size:136 final size:136
Alignment explanation
Indices: 1023342--1023697 Score: 545
Period size: 136 Copynumber: 2.6 Consensus size: 136
1023332 TCTTCTTTAA
* * * * *
1023342 GATGAGTTCTACTCATTATAAACTCTTC--TAGAAATGTTAATTCCTCAAGTGAGGCGTCACTGA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
** * * *
1023405 TTCGAAATGCATTGAATCGAGTGGTAGGTCGAACAAGCTCTTCTCATTGTGAACTTCTTCTCCCT
66 TTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCCT
1023470 CTGTCG
131 CTGTCG
* * * *
1023476 GATGAGTTATTCTCATTATGAACTCTTCATTGGAAATGCCAATTCCTCAAGCGAGGCATCACTAA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
*
1023541 TTCGAAATGCCGTGAATCAAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCCT
66 TTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCCT
*
1023606 CTTTCG
131 CTGTCG
*
1023612 GATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
1023677 TTCGAAATGCCGTGAATCGAG
66 TTCGAAATGCCGTGAATCGAG
1023698 CAACGAAAAT
Statistics
Matches: 198, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 25 0.13
136 173 0.87
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (136 bp):
GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
TTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCCT
CTGTCG
Found at i:1023884 original size:90 final size:90
Alignment explanation
Indices: 1023709--1024150 Score: 683
Period size: 90 Copynumber: 4.9 Consensus size: 90
1023699 AACGAAAATG
* * **
1023709 TTGAAAGCATCTTGC-C-GAAGGTCTTATGG-TGGCCTAAAGGACTTAAACAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAA-AATCAAGAAACCCC
1023771 CGAAGGCTCAGTTTCTTAAATCTCAT
65 CGAAGGCTCAGTTTCTTAAATCTCAT
* * *
1023797 TTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAACTCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
* * *
1023862 GAAGGCTCTGTTTCATAGATCTCAT
66 GAAGGCTCAGTTTCTTAAATCTCAT
* *
1023887 TTGAAAACATCCTGCACTGAAGGTCTTATAGATGGCCCGAAGGACTTAAAAAATCAAAAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCC
1023952 CGAAGGCTCAGTTTCTTAAATCTCAT
65 CGAAGGCTCAGTTTCTTAAATCTCAT
* *
1023978 TTGAAAACATCCTGTACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
*
1024043 GAAGGCTCAGTTTCTTAGATCTCAT
66 GAAGGCTCAGTTTCTTAAATCTCAT
* *
1024068 TTGAAAACATCCTGCACTGAAGGTCTTATGGGTGGCCCGAAGGGCTTAAAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
*
1024133 GAAGGCTCAATTTCTTAA
66 GAAGGCTCAGTTTCTTAA
1024151 TTGTCACCAA
Statistics
Matches: 322, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 13 0.04
89 1 0.00
90 211 0.66
91 97 0.30
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (90 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCC
GAAGGCTCAGTTTCTTAAATCTCAT
Found at i:1024049 original size:181 final size:180
Alignment explanation
Indices: 1023709--1024150 Score: 719
Period size: 181 Copynumber: 2.5 Consensus size: 180
1023699 AACGAAAATG
* * ** *
1023709 TTGAAAGCATCTTGC-C-GAAGGTCTTATGGTGGCCTAAAGGACTTAAACAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTATGGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCCC
1023772 GAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGA
66 GAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGA
* *
1023837 AGGACTTAGAACTCAAGAAACCCCCGAAGGCTCTGTTTCATAGATCTCAT
131 AGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCATAGATCTCAT
* *
1023887 TTGAAAACATCCTGCACTGAAGGTCTTATAGATGGCCCGAAGGACTTAAAAAATCAAAAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTAT-GGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
* *
1023952 CGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCCTGTACTGAAGGTCTTATGGATGGCCCG
65 CGAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCG
*
1024017 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAT
130 AAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCATAGATCTCAT
*
1024068 TTGAAAACATCCTGCACTGAAGGTCTTATGGGTGGCCCGAAGGGCTT-AAAAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTGAAGGTCTTAT-GGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCC
*
1024132 CGAAGGCTCAATTTCTTAA
65 CGAAGGCTCAGTTTCTTAA
1024151 TTGTCACCAA
Statistics
Matches: 244, Mismatches: 17, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
178 13 0.05
179 1 0.00
180 45 0.18
181 185 0.76
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (180 bp):
TTGAAAACATCCTGCACTGAAGGTCTTATGGTGGCCCGAAGGACTTAAAAAATCAAGAAACCCCC
GAAGGCTCAGTTTCTTAAATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGA
AGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCATAGATCTCAT
Found at i:1024741 original size:3 final size:3
Alignment explanation
Indices: 1024728--1024783 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
1024718 TGTAAAAATG
1024728 TAA TAA TTAA 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
1024774 TAA T-A TAA TA
1 TAA TAA TAA TA
1024784 TATATTTTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1025331 original size:136 final size:137
Alignment explanation
Indices: 1025129--1025483 Score: 565
Period size: 136 Copynumber: 2.6 Consensus size: 137
1025119 TCTTCTTTAA
* * * * ** *
1025129 GATGAGTTCTACTCATTATGAACTCTTC--TAGAAATGTTAATTCTTCAAGTAAGGCGTCACTAA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
*
1025192 TTCGAAATGCATTGAATCGAA-TGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCC
66 TTCGAAATGCAGTGAATCGAAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCC
1025256 TCTGTCG
131 TCTGTCG
* *
1025263 GATGAGTTATTCTCATTATGAACTCTTCATTGGAAATGCCAATTCCTCAAGCGAGGCGTCACTGA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
1025328 TTCGAAATGCAGTGAATC-AAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCC
66 TTCGAAATGCAGTGAATCGAAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCC
*
1025392 TCTTTCG
131 TCTGTCG
*
1025399 GATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
1 GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
*
1025464 TTCGAAATGCCGTGAATCGA
66 TTCGAAATGCAGTGAATCGA
1025484 GCAACGAAAA
Statistics
Matches: 202, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 26 0.13
135 2 0.01
136 173 0.86
137 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (137 bp):
GATGAGTTCTTCTCATTATGAACTCTTCATTGGAAATGTCAATTCCTCAAGCGAGGCGTCACTGA
TTCGAAATGCAGTGAATCGAAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCC
TCTGTCG
Found at i:1025767 original size:91 final size:90
Alignment explanation
Indices: 1025512--1025936 Score: 692
Period size: 90 Copynumber: 4.7 Consensus size: 90
1025502 GCATCTTGCC
**
1025512 GAAGGTCTTATGG-TGGCCTAAAGGACTTAAACAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAA-AATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
* *
1025576 AATCTCATTTGAAAACATCATGCACT
65 AATCTCATTTGAAAACATCCTACACT
* * *
1025602 GAAGGTCTTATGGATGGCCCGAAGGACTTAGAACTCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAA
*
1025667 ATCTCATTTGATAACATCCTACACT
66 ATCTCATTTGAAAACATCCTACACT
1025692 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1025757 AATCTCATTTGAAAACATCCTACACT
65 AATCTCATTTGAAAACATCCTACACT
* *
1025783 GAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAG
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAA
* *
1025848 ATCTGATTTGAAAACATCCTGCACT
66 ATCTCATTTGAAAACATCCTACACT
* *
1025873 GAAGGTCTTATGGATGGCCCGAAGGGCTTAAAAATCAAGAAA-CCCCGAAGGCTCAATTTCTTAA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAA
1025937 TTGTCACCAA
Statistics
Matches: 313, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
89 20 0.06
90 192 0.61
91 101 0.32
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (90 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAA
ATCTCATTTGAAAACATCCTACACT
Found at i:1025836 original size:181 final size:181
Alignment explanation
Indices: 1025512--1025936 Score: 730
Period size: 181 Copynumber: 2.4 Consensus size: 181
1025502 GCATCTTGCC
** *
1025512 GAAGGTCTTATGG-TGGCCTAAAGGACTTAAACAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
* *
1025576 AATCTCATTTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAACTCAAG
66 AATCTCATTTGAAAACATCATACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAG
*
1025641 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGATAACATCCTACACT
131 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTACACT
1025692 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
*
1025757 AATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAG
66 AATCTCATTTGAAAACATCATACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAG
* *
1025822 AAACCCCCGAAGGCTCAGTTTCTTAGATCTGATTTGAAAACATCCTGCACT
131 AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTACACT
* *
1025873 GAAGGTCTTATGGATGGCCCGAAGGGCTT-AAAAATCAAGAAA-CCCCGAAGGCTCAATTTCTTA
1 GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
1025936 A
66 A
1025937 TTGTCACCAA
Statistics
Matches: 233, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
179 21 0.09
180 26 0.11
181 186 0.80
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (181 bp):
GAAGGTCTTATGGATGGCCCGAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTA
AATCTCATTTGAAAACATCATACACTGAAGGTCTTATGGATGGCCCGAAGGACTTAGAAATCAAG
AAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAAAACATCCTACACT
Found at i:1026527 original size:3 final size:3
Alignment explanation
Indices: 1026514--1026568 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
1026504 TGTAAAAATG
1026514 TAA TAA TTAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1026559 TAA T-A TAA TA
1 TAA TAA TAA TA
1026569 TATATTTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1026551 original size:23 final size:23
Alignment explanation
Indices: 1026516--1026568 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
1026506 TAAAAATGTA
1026516 ATAATTAATAATAATAATAATAAT
1 ATAA-TAATAATAATAATAATAAT
1026540 ATAATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAATAAT
1026563 ATAATA
1 ATAATA
1026569 TATATTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:1026568 original size:20 final size:20
Alignment explanation
Indices: 1026514--1026560 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1026504 TGTAAAAATG
1026514 TAATAAT-TAATAATAATAA
1 TAATAATATAATAATAATAA
1026533 TAATAATATAATAATAATAA
1 TAATAATATAATAATAATAA
1026553 TAATAATA
1 TAATAATA
1026561 ATATAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAATATAATAATAATAA
Found at i:1029001 original size:23 final size:23
Alignment explanation
Indices: 1028965--1029030 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
1028955 CTAAATGATT
*
1028965 CAGTGCTAATTGATTCAGCAAAA
1 CAGTGCTAACTGATTCAGCAAAA
*
1028988 CAGTGCTGACTGATTCAGCAAAA
1 CAGTGCTAACTGATTCAGCAAAA
* *
1029011 CAGTGCTAAATAATTCAGCA
1 CAGTGCTAACTGATTCAGCA
1029031 CATAAGTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (23 bp):
CAGTGCTAACTGATTCAGCAAAA
Found at i:1030192 original size:2 final size:2
Alignment explanation
Indices: 1030185--1030214 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1030175 ATAAACTTTA
1030185 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
1030215 TTTAAATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1031582 original size:21 final size:21
Alignment explanation
Indices: 1031556--1031609 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
1031546 TTAGAAGCTG
1031556 ATGAAGATGATGAATATGAAA
1 ATGAAGATGATGAATATGAAA
1031577 ATGAAGATGATGAATATGAAA
1 ATGAAGATGATGAATATGAAA
*
1031598 ATGAAGAAGATG
1 ATGAAGATGATG
1031610 CCACCATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (21 bp):
ATGAAGATGATGAATATGAAA
Found at i:1040769 original size:81 final size:81
Alignment explanation
Indices: 1040677--1041086 Score: 556
Period size: 81 Copynumber: 5.1 Consensus size: 81
1040667 TCATTTAGTG
* * * * * *
1040677 TTTTACCCAAAGGCATTTATCCTTTCATCAAACTTGCATGATTGACACATTTCT-TCCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGT-CAAATGCA
*
1040741 CAGCTAGG-CATTAAATC
65 CAACTAGGCCATT-AATC
* * * *
1040758 TTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGTTAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC
1040823 AACTAGGCCATTAATC
66 AACTAGGCCATTAATC
** * * *
1040839 TTTCGCTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTATGTCGAATGCAG
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC
* *
1040904 AACTAGTCCATGAATC
66 AACTAGGCCATTAATC
1040920 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCAT-ACTTGACACCTTTCTGTCAAATGCA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGA-TTGACACCTTTCTGTCAAATGCA
*
1040984 CAACAAGGCCATTAATC
65 CAACTAGGCCATTAATC
* * * *
1041001 TTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGTAAAATGCAT
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC
*
1041066 AGCTAGGCCATTAATC
66 AACTAGGCCATTAATC
1041082 TTTTA
1 TTTTA
1041087 TTTTAGAACA
Statistics
Matches: 294, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
80 1 0.00
81 287 0.98
82 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (81 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCAC
AACTAGGCCATTAATC
Found at i:1041361 original size:109 final size:110
Alignment explanation
Indices: 1041190--1041390 Score: 350
Period size: 109 Copynumber: 1.8 Consensus size: 110
1041180 GGTAATCCAC
1041190 AACTTACTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTAT
1 AACTTACTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTAT
*
1041255 GAATTTCTTAGTTTTTCACACATAGTGCCCATACAAAAATTCATA
66 GAATTTCTTAGTTTTACACACATAGTGCCCATACAAAAATTCATA
* * *
1041300 AACTTATTATGAATTTCTTAGTTTTGCACACATATTG-CCATACAGAAATTCATAAACTTATTAT
1 AACTTACTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTAT
*
1041364 GAATTTTTTAGTTTTACACACATAGTG
66 GAATTTCTTAGTTTTACACACATAGTG
1041391 TCATTTGGTA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
109 52 0.60
110 34 0.40
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (110 bp):
AACTTACTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATAAACTTATTAT
GAATTTCTTAGTTTTACACACATAGTGCCCATACAAAAATTCATA
Found at i:1041365 original size:54 final size:55
Alignment explanation
Indices: 1041190--1041390 Score: 332
Period size: 55 Copynumber: 3.7 Consensus size: 55
1041180 GGTAATCCAC
* *
1041190 AACTTACTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATA
* *
1041245 AACTTATTATGAATTTCTTAGTTTTTCACACATAGTGCCCATACAAAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATA
*
1041300 AACTTATTATGAATTTCTTAGTTTTGCACACATATTG-CCATACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATA
* *
1041354 AACTTATTATGAATTTTTTAGTTTTACACACATAGTG
1 AACTTATTATGAATTTCTTAGTTTTGCACACATAGTG
1041391 TCATTTGGTA
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
54 50 0.37
55 86 0.63
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.38
Consensus pattern (55 bp):
AACTTATTATGAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCATA
Found at i:1045989 original size:81 final size:81
Alignment explanation
Indices: 1045894--1046546 Score: 898
Period size: 81 Copynumber: 8.1 Consensus size: 81
1045884 AATCATTTAG
* * * * * * **
1045894 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAAATTGCGTGATTGACACCTTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
*
1045959 CCAGCTA-GCCATTAAA
66 ACAGCTAGGCCATT-AA
* * * * *
1045975 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACT-GCATGATTGACACCTTTATGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
1046039 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
1046055 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTTACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
1046120 AC-GACTAGGCCATTAA
66 ACAG-CTAGGCCATTAA
* *
1046136 TCTTTTGCTCAAAGGTATTTAACCTTTCATCTAACTAGAATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
1046201 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
1046217 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTAGAATTATTGATACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
* *
1046282 ACAACTAGACCATTAA
66 ACAGCTAGGCCATTAA
* *
1046298 TCTTTTACTCAAAGGTATTTAACCTTTCTTCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
* *
1046363 ACAACTAGGACATTAA
66 ACAGCTAGGCCATTAA
* * *
1046379 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTGAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
* *
1046444 ACAACTAGGACATTAA
66 ACAGCTAGGCCATTAA
* * * * *
1046460 TATTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGTTAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
**
1046525 ACAGCTAAACCATTAA
66 ACAGCTAGGCCATTAA
1046541 TCTTTT
1 TCTTTT
1046547 GTTTTAGAAC
Statistics
Matches: 521, Mismatches: 47, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
80 65 0.12
81 455 0.87
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1046720 original size:55 final size:55
Alignment explanation
Indices: 1046654--1046965 Score: 450
Period size: 55 Copynumber: 5.7 Consensus size: 55
1046644 GGTAATCCAC
* * *
1046654 AACTTACTATGAATTTCTTAGTTTTGCACACACAATTCCCATACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
*
1046709 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
* *
1046764 AACTTATTATAAATTTCTTAGTTTTGCACACA-A-TGCCCATACGGAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
* * *
1046817 AACTTATTATGAATTTCTTAGTTTTGCACATATAGTGCCCATACGGAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
* * * * *
1046872 ATCTTATTATGAATTTCTTAGTTTTGTAGACATAGTGCCCATA-TGAAAATTCATA
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAG-AAATTCATA
* *
1046927 AACTTATTATGAATTTCTTAGTTTTGCACAGATAGTGCC
1 AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCC
1046966 ATTTGGTAAT
Statistics
Matches: 236, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.20
54 3 0.01
55 185 0.78
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (55 bp):
AACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATACAGAAATTCATA
Found at i:1046811 original size:108 final size:108
Alignment explanation
Indices: 1046654--1046965 Score: 462
Period size: 108 Copynumber: 2.9 Consensus size: 108
1046644 GGTAATCCAC
* * *
1046654 AACTTACTATGAATTTCTTAGTTTTGCACACACAATTCCCATACAGAAATTCATAAACTTATTAT
1 AACTTATTATGAATTTCTTAGTTTTG--CACACAATGCCCATACGGAAATTCATAAACTTATTAT
*
1046719 GAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATA
64 GAATTTCTTAGTTTTGCACACATAGTGCCCATACAAAAATTCATA
*
1046764 AACTTATTATAAATTTCTTAGTTTTGCACACAATGCCCATACGGAAATTCATAAACTTATTATGA
1 AACTTATTATGAATTTCTTAGTTTTGCACACAATGCCCATACGGAAATTCATAAACTTATTATGA
* **
1046829 ATTTCTTAGTTTTGCACATATAGTGCCCATACGGAAATTCATA
66 ATTTCTTAGTTTTGCACACATAGTGCCCATACAAAAATTCATA
* * * * *
1046872 ATCTTATTATGAATTTCTTAGTTTTGTAGACATAGTGCCCATATGAAAATTCATAAACTTATTAT
1 AACTTATTATGAATTTCTTAGTTTTGCACACA-A-TGCCCATACGGAAATTCATAAACTTATTAT
*
1046937 GAATTTCTTAGTTTTGCACAGATAGTGCC
64 GAATTTCTTAGTTTTGCACACATAGTGCC
1046966 ATTTGGTAAT
Statistics
Matches: 185, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
108 104 0.56
109 1 0.01
110 80 0.43
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (108 bp):
AACTTATTATGAATTTCTTAGTTTTGCACACAATGCCCATACGGAAATTCATAAACTTATTATGA
ATTTCTTAGTTTTGCACACATAGTGCCCATACAAAAATTCATA
Found at i:1046880 original size:163 final size:163
Alignment explanation
Indices: 1046654--1046956 Score: 489
Period size: 163 Copynumber: 1.9 Consensus size: 163
1046644 GGTAATCCAC
*
1046654 AACTTACTATGAATTTCTTAGTTTTGCACACACAATTCCCATACAGAAATTCATAAACTTATTAT
1 AACTTACTATGAATTTCTTAGTTTTGCACACACAATGCCCATACAGAAATTCATAAACTTATTAT
1046719 GAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATAAATTTCTTA
66 GAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATAAATTTCTTA
1046784 GTTTTGCACACAATGCCCATACGGAAATTCATA
131 GTTTTGCACACAATGCCCATACGGAAATTCATA
* * * * * *
1046817 AACTTATTATGAATTTCTTAGTTTTGCACATATAGTGCCCATACGGAAATTCATAATCTTATTAT
1 AACTTACTATGAATTTCTTAGTTTTGCACACACAATGCCCATACAGAAATTCATAAACTTATTAT
* * * ** *
1046882 GAATTTCTTAGTTTTGTAGACATAGTGCCCATATGAAAATTCATAAACTTATTATGAATTTCTTA
66 GAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATAAATTTCTTA
1046947 GTTTTGCACA
131 GTTTTGCACA
1046957 GATAGTGCCA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
163 127 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (163 bp):
AACTTACTATGAATTTCTTAGTTTTGCACACACAATGCCCATACAGAAATTCATAAACTTATTAT
GAATTTCTTAGTTTTGCACACACAGTGCCCATACAAAAATTCATAAACTTATTATAAATTTCTTA
GTTTTGCACACAATGCCCATACGGAAATTCATA
Found at i:1050936 original size:18 final size:19
Alignment explanation
Indices: 1050906--1050942 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
1050896 TTCTTTATTT
1050906 TTATTTAAATCTCTTTTTA
1 TTATTTAAATCTCTTTTTA
1050925 TTATTT-AATCTCTTTTTA
1 TTATTTAAATCTCTTTTTA
1050943 CCAAACCCCC
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:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTTAAATCTCTTTTTA
Found at i:1055382 original size:30 final size:30
Alignment explanation
Indices: 1055348--1055419 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
1055338 AATCTCATGT
* *
1055348 AGATGTCAGAATGAGGAATTTATCCTATGC
1 AGATGTCAGAATGAGGAATTTATCCCATAC
* * * *
1055378 AGATGTCAGAACGGGGAGTTTATCCCATAT
1 AGATGTCAGAATGAGGAATTTATCCCATAC
1055408 AGATGTCAGAAT
1 AGATGTCAGAAT
1055420 AGGGAACGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
AGATGTCAGAATGAGGAATTTATCCCATAC
Found at i:1055499 original size:29 final size:29
Alignment explanation
Indices: 1055431--1055590 Score: 146
Period size: 29 Copynumber: 5.6 Consensus size: 29
1055421 GGGAACGAGG
* * *
1055431 TCCCATACAGAATCAAGACGAGGACT-AA
1 TCCCATACAGAATCAGGACGAGAAATAAA
* **
1055459 TCCCGTGTAGAATCAGGACGAGAAATAAA
1 TCCCATACAGAATCAGGACGAGAAATAAA
* * *
1055488 TCCCATACAGAATC-GAGATGGGGAATAAA
1 TCCCATACAGAATCAG-GACGAGAAATAAA
** *
1055517 TCCCATGTAGAATCAAGACG-GAGAATAAA
1 TCCCATACAGAATCAGGACGAGA-AATAAA
* *
1055546 TCCCATACAGAATCGGGACGGGAAATAAA
1 TCCCATACAGAATCAGGACGAGAAATAAA
*
1055575 TCCCATGCAGAATCAG
1 TCCCATACAGAATCAG
1055591 AATGAGGATT
Statistics
Matches: 104, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
28 22 0.21
29 80 0.77
30 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (29 bp):
TCCCATACAGAATCAGGACGAGAAATAAA
Found at i:1055529 original size:58 final size:58
Alignment explanation
Indices: 1055431--1055590 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 58
1055421 GGGAACGAGG
* * * *
1055431 TCCCATACAGAATCAAGACGAGGACT-AATCCCGTGTAGAATCAGGAC-GAGAAATAAA
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAG-AATAAA
* *
1055488 TCCCATACAGAATCGAGATGGGGAATAAATCCCATGTAGAATCAAGACGGAGAATAAA
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAGAATAAA
* * *
1055546 TCCCATACAGAATCGGGACGGGAAATAAATCCCATGCAGAATCAG
1 TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAG
1055591 AATGAGGATT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
57 22 0.24
58 65 0.72
59 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (58 bp):
TCCCATACAGAATCGAGACGGGGAATAAATCCCATGTAGAATCAGGACGGAGAATAAA
Found at i:1056305 original size:13 final size:13
Alignment explanation
Indices: 1056273--1056309 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
1056263 AAACAAGTCA
1056273 GTCAAATGGGTCG
1 GTCAAATGGGTCG
1056286 GTC-AATGGGTCG
1 GTCAAATGGGTCG
1056298 GTCAAATGGGTC
1 GTCAAATGGGTC
1056310 AGTGATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (13 bp):
GTCAAATGGGTCG
Found at i:1057656 original size:30 final size:31
Alignment explanation
Indices: 1057617--1057679 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
1057607 GGAATTTGTT
* *
1057617 AGTGACCAAAATGTAAATTTTGGA-AAGTTA
1 AGTGACCAAAATATAAACTTTGGACAAGTTA
* * *
1057647 AGTGGCCAAAGTATAAACTTTGGACAATTTA
1 AGTGACCAAAATATAAACTTTGGACAAGTTA
1057678 AG
1 AG
1057680 GATTAAAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (31 bp):
AGTGACCAAAATATAAACTTTGGACAAGTTA
Found at i:1059447 original size:15 final size:16
Alignment explanation
Indices: 1059429--1059458 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1059419 AAAGTTATTT
1059429 AAATAAAAA-TAAAGA
1 AAATAAAAATTAAAGA
1059444 AAATAAAAATTAAAG
1 AAATAAAAATTAAAG
1059459 GTTGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AAATAAAAATTAAAGA
Found at i:1061059 original size:17 final size:18
Alignment explanation
Indices: 1061037--1061074 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1061027 TCTCTTTATG
1061037 TTTTC-TTTTCTTTCTTT
1 TTTTCTTTTTCTTTCTTT
*
1061054 TTTTCTTTTTTTTTCTTT
1 TTTTCTTTTTCTTTCTTT
1061072 TTT
1 TTT
1061075 GAACTATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTCTTTTTCTTTCTTT
Found at i:1061066 original size:9 final size:9
Alignment explanation
Indices: 1061037--1061074 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
1061027 TCTCTTTATG
1061037 TTTTCTTTT
1 TTTTCTTTT
*
1061046 CTTTC-TTT
1 TTTTCTTTT
1061054 TTTTCTTTTT
1 TTTTC-TTTT
1061064 TTTTCTTTT
1 TTTTCTTTT
1061073 TT
1 TT
1061075 GAACTATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
9 10 0.40
10 8 0.32
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:1063358 original size:107 final size:108
Alignment explanation
Indices: 1063171--1063373 Score: 390
Period size: 107 Copynumber: 1.9 Consensus size: 108
1063161 AATGGCACTA
1063171 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTATGTGTGCAAA
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTATGTGTGCAAA
1063236 ACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAC
66 ACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAC
*
1063279 TGTGTGCAAAACTAAG-AATTCATAATAAGTTTATGAATTTTTGTATGGGCACTATGTGTGCAAA
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTATGTGTGCAAA
1063343 ACTAAGAAATTCATAATAAGTTTATGAATTT
66 ACTAAGAAATTCATAATAAGTTTATGAATTT
1063374 TTTGACTCGA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 78 0.83
108 16 0.17
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (108 bp):
TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTATGTGTGCAAA
ACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAC
Found at i:1063375 original size:55 final size:55
Alignment explanation
Indices: 1063164--1063375 Score: 385
Period size: 55 Copynumber: 3.9 Consensus size: 55
1063154 ATTGCCAAAT
*
1063164 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
*
1063219 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1063274 GGCAC--TGTGTGCAAAACTAAG-AATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1063326 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
1063376 TGACTCGACC
Statistics
Matches: 151, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
52 35 0.23
53 16 0.11
54 16 0.11
55 84 0.56
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
Found at i:1063656 original size:21 final size:20
Alignment explanation
Indices: 1063632--1063671 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1063622 ACATCAAATA
1063632 AAAATAATATAATTTATTAAT
1 AAAATAATATAATTT-TTAAT
*
1063653 AAAATAATATTATTTTTAA
1 AAAATAATATAATTTTTAA
1063672 AATGTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATAATATAATTTTTAAT
Found at i:1063718 original size:13 final size:13
Alignment explanation
Indices: 1063658--1063733 Score: 57
Period size: 14 Copynumber: 5.6 Consensus size: 13
1063648 TTAATAAAAT
*
1063658 AATATTATTTTTAA
1 AATATTATTATT-A
* * *
1063672 AATGTTAAATATTG
1 AATATT-ATTATTA
1063686 AATATTATT-TTA
1 AATATTATTATTA
1063698 TCAATATTATTATTA
1 --AATATTATTATTA
1063713 AATATTA-TATCTA
1 AATATTATTAT-TA
1063726 AATATTAT
1 AATATTAT
1063734 AACTACAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
12 5 0.10
13 18 0.37
14 19 0.39
15 7 0.14
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:1063749 original size:14 final size:13
Alignment explanation
Indices: 1063700--1063759 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
1063690 TTATTTTATC
* *
1063700 AATATTATTATTA
1 AATATTATAACTA
*
1063713 AATATTATATCTA
1 AATATTATAACTA
1063726 AATATTATAACTA
1 AATATTATAACTA
*
1063739 CAATTTTATAA-TAA
1 -AATATTATAACT-A
1063753 AATATTA
1 AATATTA
1063760 AGATTATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 29 0.74
14 10 0.26
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (13 bp):
AATATTATAACTA
Found at i:1063809 original size:40 final size:41
Alignment explanation
Indices: 1063760--1063848 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 41
1063750 TAAAATATTA
1063760 AGATT-ATTATATGTTATTAAAATAA-AAT-TATTATAAATT
1 AGATTAATTATAT-TTATTAAAATAAGAATATATTATAAATT
* *
1063799 ATATTAA-T-TATTTATTAAAATAAGAATAATATTATTAATT
1 AGATTAATTATATTTATTAAAATAAGAAT-ATATTATAAATT
1063839 AGATTAATTA
1 AGATTAATTA
1063849 CTTGTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
37 12 0.29
38 6 0.15
39 5 0.12
40 17 0.41
41 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (41 bp):
AGATTAATTATATTTATTAAAATAAGAATATATTATAAATT
Found at i:1063857 original size:40 final size:38
Alignment explanation
Indices: 1063773--1063872 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 38
1063763 TTATTATATG
* *
1063773 TTATTAAAATAAAAT-TATTATAAATTATATTAATTAT
1 TTATTAAAATAAAATATATTATAAATTAGATTAATTAC
*
1063810 TTATTAAAATAAGAATAATATTATTAATTAGATTAATTAC
1 TTATTAAAATAA-AAT-ATATTATAAATTAGATTAATTAC
*
1063850 TTGTTAAAATAATAATATTATTA
1 TTATTAAAATAA-AATA-TATTA
1063873 AATCTTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.22
38 3 0.06
39 1 0.02
40 38 0.70
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (38 bp):
TTATTAAAATAAAATATATTATAAATTAGATTAATTAC
Found at i:1065319 original size:2 final size:2
Alignment explanation
Indices: 1065312--1065942 Score: 313
Period size: 2 Copynumber: 331.5 Consensus size: 2
1065302 TTTCTACCCC
* * * *
1065312 CT CT CT CT CT -T C- CC CT CT CT CT CC CC CT AT CT CT CT CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
1065351 CC CT CT CT CT CT CT C- CT CT C- CT CT C- CC CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
1065389 CT CT C- CC CT CT CT CC CT CT CT CC CT CC CT CC CT CC CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * * *
1065430 C- CC CT CT CT CC CT CC CT CC CT CC CT CC CT CA CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * * * *
1065471 CT CC CT CC CT CC CT CC CT CC CT CC CT CC CT CC CT CT CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
1065513 AT -T CT C- CT CC CT CT CT CT C- CC CT CT C- CT CC CT CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
1065551 CT C- CT CT C- CT C- CT CT -T C- CT CT CT C- CC CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
1065587 CC CT CT CT CT CT CC CT CT CC CT C- CT CT CT CT CT CT C- CC CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
1065627 CT CT CT CT CT C- CC CT CT CT CT CC CT CT CT CT CT CC CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
1065668 CT CT -T CC CT CT CT C- CT CT CT CT CT C- CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
1065707 CT C- CT CT C- CT CT CT CT CC CT CT CT CT CC CT CT CC CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
1065747 CT C- CT CC CT CC CT CT C- CC CT CT C- CC CAT CT CT CT CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT CT
* ** * * * *
1065787 CT CT TT CT CT AG GT CT CC CT CT CT CT CT CT AT CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
1065829 CC CC CT CT CT CC CC CT CT CT CT CC CC CT CT CT CT -T C- CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
1065869 CT CT C- CT CT CT CT CC CT CT CT CA CT CC CT CT CT CT CA CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
1065910 CT CT CT CT CA CT CC CT AC- CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT -CT CT CT CT CT CT CT CT C
1065943 AATCCAGTTT
Statistics
Matches: 467, Mismatches: 126, Indels: 72
0.70 0.19 0.11
Matches are distributed among these distances:
1 34 0.07
2 431 0.92
3 2 0.00
ACGTcount: A:0.02, C:0.61, G:0.00, T:0.37
Consensus pattern (2 bp):
CT
Found at i:1068560 original size:64 final size:63
Alignment explanation
Indices: 1068489--1068612 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 63
1068479 AGATATTTAT
* *
1068489 TATCTATTTAACTTTAAATA-TTAAAAGA-TAATTATATACTTTTGAATATTTTAAATTAAAATA
1 TATCTATTTAAATTTAAATAGTCAAAAGAGT--TTATAT-CTTTTGAATATTTTAAATTAAAATA
1068552 A
63 A
* *
1068553 TATCTATTTAAATTTGAATAGTCAAAGGAGTTTATATCTTTTGAATATTTTAAATTAAAA
1 TATCTATTTAAATTTAAATAGTCAAAAGAGTTTATATCTTTTGAATATTTTAAATTAAAA
1068613 GATATTCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
63 23 0.43
64 24 0.44
65 6 0.11
66 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (63 bp):
TATCTATTTAAATTTAAATAGTCAAAAGAGTTTATATCTTTTGAATATTTTAAATTAAAATAA
Found at i:1068639 original size:33 final size:33
Alignment explanation
Indices: 1068601--1068687 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 33
1068591 TTTTGAATAT
*
1068601 TTTAAATTAAAAGATATTCATTATATTTTTAAA
1 TTTAAATTAAAAGATATTCAATATATTTTTAAA
* *
1068634 TTTAAATATTAAAGATA-TCAATATCTTTTTAAA
1 TTTAAAT-TAAAAGATATTCAATATATTTTTAAA
*
1068667 TATCTCGAATTAAAAGATATT
1 T-T-T-AAATTAAAAGATATT
1068688 ATCTTTTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
33 22 0.50
34 9 0.20
35 9 0.20
36 4 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (33 bp):
TTTAAATTAAAAGATATTCAATATATTTTTAAA
Found at i:1069752 original size:55 final size:57
Alignment explanation
Indices: 1069657--1069810 Score: 152
Period size: 55 Copynumber: 2.7 Consensus size: 57
1069647 GAGGTCTTGA
* * * *** * **
1069657 ATGATTTTATTTTGTAGAATGAAATAAATTGTTAAATTTATTTTCAT-AGAATCTTGT
1 ATGATTCTAGTTTGTA-AAAGAAATAAATCAATAAATTTATTTTCATGAAAATCAAGT
* * * *
1069714 ATGATTCT-GTTTGTAAAAGAATTAAATCATTGAATTTA-TTTCTTGAAAATCAAGT
1 ATGATTCTAGTTTGTAAAAGAAATAAATCAATAAATTTATTTTCATGAAAATCAAGT
*
1069769 ATGATTCTATTTTGTAAAAGAAATAAATCAATAAATTTATTT
1 ATGATTCTAGTTTGTAAAAGAAATAAATCAATAAATTTATTT
1069811 CTTGGAAGTA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
54 5 0.06
55 33 0.42
56 32 0.41
57 9 0.11
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (57 bp):
ATGATTCTAGTTTGTAAAAGAAATAAATCAATAAATTTATTTTCATGAAAATCAAGT
Found at i:1069798 original size:56 final size:56
Alignment explanation
Indices: 1069657--1069814 Score: 176
Period size: 56 Copynumber: 2.8 Consensus size: 56
1069647 GAGGTCTTGA
* * ** * * **
1069657 ATGATTTTATTTTGTAGAATGAAATAAATTGTTAAATTTATTTTCAT-AGAATCTTGT
1 ATGATTCTATTTTGTA-AAAGAAATAAATCATTAAATTTA-TTTCTTGAAAATCAAGT
* * *
1069714 ATGATTCT-GTTTGTAAAAGAATTAAATCATTGAATTTATTTCTTGAAAATCAAGT
1 ATGATTCTATTTTGTAAAAGAAATAAATCATTAAATTTATTTCTTGAAAATCAAGT
*
1069769 ATGATTCTATTTTGTAAAAGAAATAAATCAATAAATTTATTTCTTG
1 ATGATTCTATTTTGTAAAAGAAATAAATCATTAAATTTATTTCTTG
1069815 GAAGTATCGA
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 5 0.06
55 33 0.39
56 39 0.46
57 7 0.08
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (56 bp):
ATGATTCTATTTTGTAAAAGAAATAAATCATTAAATTTATTTCTTGAAAATCAAGT
Found at i:1077193 original size:19 final size:19
Alignment explanation
Indices: 1077140--1077207 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1077130 AACCCAACCT
**
1077140 GTTGACTTTGACCCGACTC
1 GTTGACTTTGACATGACTC
* * *
1077159 ATTAAC-TTGACTTGACTC
1 GTTGACTTTGACATGACTC
*
1077177 GTTGACTTTGACATGACTT
1 GTTGACTTTGACATGACTC
1077196 GTTGACTTTGAC
1 GTTGACTTTGAC
1077208 TAGAGTTGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.35
19 26 0.65
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (19 bp):
GTTGACTTTGACATGACTC
Found at i:1078570 original size:24 final size:24
Alignment explanation
Indices: 1078524--1078572 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1078514 CATCCTTGTT
* *
1078524 TATAAATGTATTTATGCTATATAG
1 TATAAACGTATTTATGATATATAG
1078548 TATAAACGTATTATATGATTATATA
1 TATAAACGTATT-TATGA-TATATA
1078573 TTTATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (24 bp):
TATAAACGTATTTATGATATATAG
Found at i:1094456 original size:2 final size:2
Alignment explanation
Indices: 1094451--1094484 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1094441 ATTACATACC
1094451 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
1094485 TGTTACATTA
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
Done.