Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 40 of 343
Found at i:13160320 original size:3 final size:3
Alignment explanation
Indices: 13160312--13160363 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
13160302 GTATATTAAA
13160312 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
13160360 TGT T
1 TGT T
13160364 ATTATTATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:13160405 original size:3 final size:3
Alignment explanation
Indices: 13160362--13160387 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13160352 GTTGTTGTTG
13160362 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13160388 TAATAGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13160830 original size:11 final size:12
Alignment explanation
Indices: 13160800--13160833 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13160790 GTATATTTAC
13160800 TTATTATATAAG
1 TTATTATATAAG
13160812 TATATTAT-TAAG
1 T-TATTATATAAG
13160824 TTATTATATA
1 TTATTATATA
13160834 TATATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:13161807 original size:18 final size:19
Alignment explanation
Indices: 13161786--13161826 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13161776 AATGAAATGA
13161786 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
13161804 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
13161823 GAAA
1 GAAA
13161827 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:13171514 original size:2 final size:2
Alignment explanation
Indices: 13171507--13171533 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13171497 TAAAATTCAG
13171507 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
13171534 TATTAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13174049 original size:13 final size:13
Alignment explanation
Indices: 13174031--13174099 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 13
13174021 TCTTCACTCC
13174031 AACCACTCCACTA
1 AACCACTCCACTA
13174044 AACCAC-CCTACTA
1 AACCACTCC-ACTA
13174057 AACCAC-CC-C--
1 AACCACTCCACTA
*
13174066 AACCACCCCACTA
1 AACCACTCCACTA
13174079 AACCA-TCC-C--
1 AACCACTCCACTA
13174088 AACCACTCCACT
1 AACCACTCCACT
13174100 TGCCTATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
9 11 0.23
10 5 0.11
11 4 0.09
12 4 0.09
13 23 0.49
ACGTcount: A:0.36, C:0.52, G:0.00, T:0.12
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:13174069 original size:22 final size:22
Alignment explanation
Indices: 13174044--13174099 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
13174034 CACTCCACTA
*
13174044 AACCACCCTACTAAACCACCCC
1 AACCACCCCACTAAACCACCCC
*
13174066 AACCACCCCACTAAACCATCCC
1 AACCACCCCACTAAACCACCCC
*
13174088 AACCACTCCACT
1 AACCACCCCACT
13174100 TGCCTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.54, G:0.00, T:0.11
Consensus pattern (22 bp):
AACCACCCCACTAAACCACCCC
Found at i:13174558 original size:33 final size:39
Alignment explanation
Indices: 13174479--13174565 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 39
13174469 TTTAATATTG
*
13174479 TTATTATTTTCTATTATTATTACTAATACCACTATTATCA
1 TTATTA-TTACTATTATTATTACTAATACCACTATTATCA
*
13174519 TCATTATTACTATTA-TATTA-TAATA-CA-T-TT-TCA
1 TTATTATTACTATTATTATTACTAATACCACTATTATCA
13174552 TTATTATTACTATT
1 TTATTATTACTATT
13174566 GTGTTTTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 16 0.36
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.11
38 5 0.11
39 8 0.18
40 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (39 bp):
TTATTATTACTATTATTATTACTAATACCACTATTATCA
Found at i:13174595 original size:23 final size:23
Alignment explanation
Indices: 13174511--13174595 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
13174501 CTAATACCAC
* *
13174511 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
13174534 TATTATAATACATTTTCATTATTAT
1 TATTAT--TATATTTTTACTATTAT
* * *
13174559 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
13174582 TATTATTATATTTT
1 TATTATTATATTTT
13174596 CTTTTTTTGT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
23 29 0.64
24 10 0.22
25 6 0.13
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:13187356 original size:206 final size:206
Alignment explanation
Indices: 13187002--13187876 Score: 1545
Period size: 206 Copynumber: 4.2 Consensus size: 206
13186992 TGGCTAAAGT
* * * *
13187002 AGATCCAAGATGGTTTGGCATCCTTGTACTTACAAGGAGTAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTGGC
*
13187067 TTTCGCGTACTTACGCTAAAGCAAGTCT-AGAATGATTTGGCATCTCTGTATTGTCAGAGAACAA
66 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAG-ATGATTTGGCATCTCTGTATTGTCAGAGAACAA
* * *
13187131 GTCGAAGTCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCCGGCCTTCAGATGTT
130 GTCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTT
13187196 TATACTGAAGCA
195 TATACTGAAGCA
*
13187208 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTAGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTGGC
13187273 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
66 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
13187338 TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
131 TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
13187403 ATACTGAAGCA
196 ATACTGAAGCA
* *
13187414 ATATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTGGC
13187479 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
66 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
13187544 TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
131 TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
13187609 ATACTGAAGCA
196 ATACTGAAGCA
* * *
13187620 AGATCCAAGATAATTTGGCATCCTTATGCTTACAAGGAGCAAATCGAAGATATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTGGC
* *
13187685 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACGAG
66 TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
*
13187750 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
131 TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
*
13187815 ATACCGAAGCA
196 ATACTGAAGCA
* * *
13187826 AGATCCAAGATGATTTGGCATCTTTGTGCTTACAAGGAACAAATCAAAGAA
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAA
13187877 GTAGATTTGG
Statistics
Matches: 642, Mismatches: 26, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
206 640 1.00
207 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGAAATAGCTGATTTGGC
TTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAG
TCGAAGTCTAGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTTT
ATACTGAAGCA
Found at i:13188059 original size:45 final size:45
Alignment explanation
Indices: 13187963--13188059 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
13187953 AGATTGACGA
* *
13187963 AGCAAATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGAT
* *
13188008 -GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
1 AG-CAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGAT
13188053 AGCAGAT
1 AGCAGAT
13188060 ATCGCTTTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 1 0.02
45 44 0.96
46 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (45 bp):
AGCAGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGAT
Found at i:13188382 original size:13 final size:13
Alignment explanation
Indices: 13188364--13188434 Score: 78
Period size: 13 Copynumber: 5.8 Consensus size: 13
13188354 TCTTCACTCT
*
13188364 AACCACCACACTA
1 AACCACCCCACTA
*
13188377 AACCACTCCACTA
1 AACCACCCCACTA
*
13188390 AACCA-CTC-C--
1 AACCACCCCACTA
13188399 AACCACCCCACTA
1 AACCACCCCACTA
13188412 AACCACCCCACTA
1 AACCACCCCACTA
*
13188425 AACCATCCCA
1 AACCACCCCA
13188435 ACCACTCCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 2 0.04
12 1 0.02
13 38 0.79
ACGTcount: A:0.39, C:0.51, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:13188404 original size:35 final size:35
Alignment explanation
Indices: 13188358--13188439 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
13188348 CAAATATCTT
* *
13188358 CACTCTAACCACCACACTAAACCACTCCACTAAAC
1 CACTCCAACCACCACACTAAACCACCCCACTAAAC
*
13188393 CACTCCAACCACCCCACTAAACCACCCCACTAAAC
1 CACTCCAACCACCACACTAAACCACCCCACTAAAC
13188428 CA-TCCCAACCAC
1 CACT-CCAACCAC
13188440 TCCACTTGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 1 0.02
35 42 0.98
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.11
Consensus pattern (35 bp):
CACTCCAACCACCACACTAAACCACCCCACTAAAC
Found at i:13188911 original size:33 final size:38
Alignment explanation
Indices: 13188837--13188918 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 38
13188827 TATTATTTTC
*
13188837 TATTATTATTATTATTACTAATACCATTATTATCATCAT
1 TATTACTATTATTATTACTAATACCA-TATTATCATCAT
*
13188876 TATTACTATTA-TATTA-TAATACC-T-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCATATTATCATCAT
13188909 TATTACTATT
1 TATTACTATT
13188919 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 1 0.02
37 7 0.17
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (38 bp):
TATTACTATTATTATTACTAATACCATATTATCATCAT
Found at i:13193286 original size:22 final size:21
Alignment explanation
Indices: 13193239--13193291 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
13193229 GCTATGAATT
*
13193239 TTATTTATATATTTTTTATTAA
1 TTATTT-TAAATTTTTTATTAA
13193261 -TATTTTAAATTTTTTATTTAA
1 TTATTTTAAATTTTTTA-TTAA
*
13193282 TTATTGTAAA
1 TTATTTTAAA
13193292 ACCAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 9 0.33
22 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTTTAAATTTTTTATTAA
Found at i:13198769 original size:20 final size:20
Alignment explanation
Indices: 13198732--13198882 Score: 137
Period size: 20 Copynumber: 7.2 Consensus size: 20
13198722 AACCCAACAA
*
13198732 AATTTTTAAAATAATTAAAAT
1 AATTTTTAAAA-ATTTAAAAT
13198753 AATTTTTAAAAATTTAAAAT
1 AATTTTTAAAAATTTAAAAT
13198773 AATTTTTAAAAATTTAAAAT
1 AATTTTTAAAAATTTAAAAT
*
13198793 -ATTTATAAAAATTCTAAAATTT
1 AATTTTTAAAAATT-TAAAA--T
* *
13198815 ATATTTTTAAAAAATTATAA-
1 A-ATTTTTAAAAATTTAAAAT
*
13198835 AATTTCTAAAAAATTTCTAAAA-
1 AATTT-TTAAAAA-TT-TAAAAT
13198857 AATATTTTAAAAAATTTTAAAAT
1 AAT-TTTT-AAAAA-TTTAAAAT
13198880 AAT
1 AAT
13198883 ACTTTTGGAA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
19 16 0.15
20 40 0.36
21 12 0.11
22 14 0.13
23 17 0.15
24 11 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTTTTAAAAATTTAAAAT
Found at i:13198825 original size:24 final size:25
Alignment explanation
Indices: 13198791--13198839 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13198781 AAAATTTAAA
*
13198791 ATATTTAT-AAAAATTCTAAAATTT
1 ATATTTATAAAAAATTATAAAATTT
*
13198815 ATATTTTTAAAAAATTATAAAATTT
1 ATATTTATAAAAAATTATAAAATTT
13198840 CTAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTATAAAAAATTATAAAATTT
Found at i:13198849 original size:11 final size:11
Alignment explanation
Indices: 13198833--13198878 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
13198823 AAAAAATTAT
13198833 AAAATTTCTAA
1 AAAATTTCTAA
13198844 AAAATTTCTAA
1 AAAATTTCTAA
*
13198855 AAAATATTTTAA
1 AAAAT-TTCTAA
13198867 AAAATTT-TAA
1 AAAATTTCTAA
13198877 AA
1 AA
13198879 TAATACTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 5 0.15
11 18 0.55
12 10 0.30
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTCTAA
Found at i:13202510 original size:46 final size:46
Alignment explanation
Indices: 13202458--13202947 Score: 617
Period size: 46 Copynumber: 10.7 Consensus size: 46
13202448 TGATGCTATA
* ** * *
13202458 GTATCTTTCAACTATGGTCTTACTTATTTTC-TGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATG
*** * * **
13202504 GTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
** ***
13202550 GTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*** *
13202595 GTATCTTTCAACCATGGTCTTATTTATTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* ** * * ** **
13202640 GTATCTTTAAACCATGGTCTTATTCTTTTCATGTCACATTGTTATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*
13202686 GTATCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
13202732 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* *
13202778 GTGTCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
13202824 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*
13202870 GTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
** *
13202916 GCCTCTTTCAACCATGGCCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACACATTTCAT
13202948 TTCAGAAAGC
Statistics
Matches: 400, Mismatches: 41, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
45 84 0.21
46 316 0.79
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
Found at i:13208273 original size:5 final size:5
Alignment explanation
Indices: 13208263--13208287 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13208253 AATTTTGGGG
13208263 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
13208288 TTAAAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:13212436 original size:32 final size:32
Alignment explanation
Indices: 13212400--13212464 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13212390 TGTATGCATT
13212400 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13212432 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13212464 T
1 T
13212465 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:13213937 original size:26 final size:26
Alignment explanation
Indices: 13213903--13213955 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13213893 TTTATAGTTT
*
13213903 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
13213929 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
13213955 T
1 T
13213956 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:13221695 original size:13 final size:13
Alignment explanation
Indices: 13221677--13221701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13221667 TATTTTAATA
13221677 TTATTTTGTGTGT
1 TTATTTTGTGTGT
13221690 TTATTTTGTGTG
1 TTATTTTGTGTG
13221702 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:13223315 original size:41 final size:40
Alignment explanation
Indices: 13223270--13223623 Score: 457
Period size: 41 Copynumber: 8.7 Consensus size: 40
13223260 CGGACGTTAC
13223270 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTAA
13223311 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
*
13223352 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
*
13223393 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
13223434 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
13223475 GTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
* *
13223516 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
13223557 GTCTAGCAGGC-TAAGTGCCGGTGTACTGAA-TCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTG-AAT-AATTCAGACTTTAA
* **
13223598 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
13223624 CTGTTTAAAT
Statistics
Matches: 283, Mismatches: 15, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
39 8 0.03
40 7 0.02
41 257 0.91
42 2 0.01
43 8 0.03
44 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAA
Found at i:13223370 original size:82 final size:83
Alignment explanation
Indices: 13223270--13223623 Score: 517
Period size: 82 Copynumber: 4.3 Consensus size: 83
13223260 CGGACGTTAC
13223270 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAA-TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
13223333 GATACATTTCAGACTTTAA
65 GATACATTTCAGACTTTAA
*
13223352 GTCTAGCAGGCTTAATGCCGGTG-ATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
13223416 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
*
13223434 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
13223498 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
* *
13223516 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGT
* *
13223579 G-TAC-TGAATCAGGCTTTAA
65 GATACAT--TTCAGACTTTAA
* **
13223598 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
13223624 CTGTTTAAAT
Statistics
Matches: 254, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
80 3 0.01
81 7 0.03
82 242 0.95
83 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (83 bp):
GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
ATACATTTCAGACTTTAA
Found at i:13223489 original size:123 final size:123
Alignment explanation
Indices: 13223270--13223579 Score: 543
Period size: 123 Copynumber: 2.5 Consensus size: 123
13223260 CGGACGTTAC
*
13223270 GTCTAGCAGGCTTAATGCCGGTGA-AGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-TATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
13223334 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
13223393 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
13223458 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
66 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* * *
13223516 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
13223580 TACTGAATCA
Statistics
Matches: 180, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
122 3 0.02
123 176 0.98
124 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:13223596 original size:123 final size:122
Alignment explanation
Indices: 13223270--13223621 Score: 541
Period size: 123 Copynumber: 2.9 Consensus size: 122
13223260 CGGACGTTAC
13223270 GTCTAGCAGGCTTAATGCCGGTGAAGTAA-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG-A-TAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
13223334 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
64 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
13223393 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
*
13223458 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* *
13223516 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * * **
13223580 -TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 ATACAT--TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
13223622 ATCTGTTTAA
Statistics
Matches: 214, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
121 3 0.01
122 8 0.04
123 203 0.95
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (122 bp):
GTCTAGCAGGCTTAATGCCGGTGATAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAT
ACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:13231197 original size:98 final size:98
Alignment explanation
Indices: 13231079--13231273 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 98
13231069 TTTGGTCTGA
13231079 TCTTTTTTAGGTTAGTAGGGTGATTTCCTTTTCGGATTAAAACAATATTTGTTCTATACAAAGGT
1 TCTTTTTTAGGTTAGTAGGGTGATTTCCTTTTCGGATTAAAACAATATTTGTTCTATACAAAGGT
13231144 TCCAAAGATTTACCTTTGTTCAAAATATTGAGT
66 TCCAAAGATTTACCTTTGTTCAAAATATTGAGT
*
13231177 TCTTTTTTAGGTTAGTAGGGTGATTTCCTTTTGGGATTAAAACAATATTTGTTCTATACAAAGGT
1 TCTTTTTTAGGTTAGTAGGGTGATTTCCTTTTCGGATTAAAACAATATTTGTTCTATACAAAGGT
13231242 TCCAAAGATTTACCTTTGTTCAAAATATTGAG
66 TCCAAAGATTTACCTTTGTTCAAAATATTGAG
13231274 GCAGAATTGG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (98 bp):
TCTTTTTTAGGTTAGTAGGGTGATTTCCTTTTCGGATTAAAACAATATTTGTTCTATACAAAGGT
TCCAAAGATTTACCTTTGTTCAAAATATTGAGT
Found at i:13231242 original size:53 final size:52
Alignment explanation
Indices: 13231087--13231242 Score: 123
Period size: 53 Copynumber: 3.1 Consensus size: 52
13231077 GATCTTTTTT
13231087 AGGTTAGTAGGGTGATTTCCTTTTCGGATTAAAACAATATTTGTTCTATACAA
1 AGGTTAGTAGGGTGATTTCCTTTT-GGATTAAAACAATATTTGTTCTATACAA
** ** * * ****
13231140 AGGTT-CCA--AAGATTTACC-TTT-G-TT-CAA-AATATTGAGTTCT-TTTTT
1 AGGTTAGTAGGGTGATTT-CCTTTTGGATTAAAACAATATT-TGTTCTATACAA
13231185 AGGTTAGTAGGGTGATTTCCTTTTGGGATTAAAACAATATTTGTTCTATACAA
1 AGGTTAGTAGGGTGATTTCCTTTT-GGATTAAAACAATATTTGTTCTATACAA
13231238 AGGTT
1 AGGTT
13231243 CCAAAGATTT
Statistics
Matches: 71, Mismatches: 20, Indels: 24
0.62 0.17 0.21
Matches are distributed among these distances:
45 12 0.17
46 8 0.11
47 4 0.06
48 9 0.13
50 9 0.13
51 4 0.06
52 8 0.11
53 17 0.24
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.42
Consensus pattern (52 bp):
AGGTTAGTAGGGTGATTTCCTTTTGGATTAAAACAATATTTGTTCTATACAA
Found at i:13238730 original size:15 final size:15
Alignment explanation
Indices: 13238710--13238741 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13238700 TATTTTTTAT
*
13238710 TATTTTAATATTAAA
1 TATTTTAAAATTAAA
13238725 TATTTTAAAATTAAA
1 TATTTTAAAATTAAA
13238740 TA
1 TA
13238742 ATATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATTAAA
Found at i:13240748 original size:44 final size:44
Alignment explanation
Indices: 13240691--13240778 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
13240681 TATATATAAG
* * * *
13240691 GCATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
1 GCATCTGAACTCGTTGAATTGGTCCAAGTTCATAATGGATGCGA
13240735 GCATCTGAACTCGTTGAATTGGTCCAAGTTCATAATGGATGCGA
1 GCATCTGAACTCGTTGAATTGGTCCAAGTTCATAATGGATGCGA
13240779 TACATGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (44 bp):
GCATCTGAACTCGTTGAATTGGTCCAAGTTCATAATGGATGCGA
Found at i:13243995 original size:28 final size:27
Alignment explanation
Indices: 13243964--13244032 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 27
13243954 TAAAAAAATC
13243964 AAAATTATTTAAAATGTATAAAATTATA
1 AAAATTATTTAAAATGTATAAAATTA-A
* * * * *
13243992 AAAATATTTTTAATATTTTTAAATTTAA
1 AAAAT-TATTTAAAATGTATAAAATTAA
*
13244020 AAAATTAATTAAA
1 AAAATTATTTAAA
13244033 TATATATATT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 5 0.16
28 11 0.34
29 16 0.50
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
AAAATTATTTAAAATGTATAAAATTAA
Found at i:13244388 original size:71 final size:71
Alignment explanation
Indices: 13244293--13244437 Score: 247
Period size: 71 Copynumber: 2.0 Consensus size: 71
13244283 TTTGTCTAAA
* *
13244293 TTTTCTTTATAACTTTTTTATATGTTAAATATTAATTCAATTTTAAATAAATTATTTTTTTTATT
1 TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTA-TCTTTTTATT
13244358 TTAATAT
65 TTAATAT
*
13244365 TTTTCTTTATAA-TTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATCTTTTTATTT
1 TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTATCTTTTTATTT
13244429 TAATAT
66 TAATAT
13244435 TTT
1 TTT
13244438 ACTTACTTGA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 19 0.27
71 39 0.56
72 12 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (71 bp):
TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTATCTTTTTATTT
TAATAT
Found at i:13244795 original size:16 final size:16
Alignment explanation
Indices: 13244774--13244845 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
13244764 TTTTGTATTA
13244774 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
* *
13244790 TTTTAAAATTAAATAA
1 TTTTAATATTAAATAT
** *
13244806 CATTAATA-TAACTGAT
1 TTTTAATATTAAAT-AT
*
13244822 TTTAAATTAGTTAAATAT
1 TTTTAA-TA-TTAAATAT
13244840 TTTTAA
1 TTTTAA
13244846 AAGTATTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 4 0.10
16 23 0.57
17 2 0.05
18 7 0.17
19 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:13246598 original size:63 final size:63
Alignment explanation
Indices: 13246473--13246592 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 63
13246463 ATGTGACAGT
* * ** *
13246473 TCGTGTAACTTACTGTTTGTGATTTAGGGTCACACGAGCTAGGGACACGAGGATGTGTCTAGG
1 TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGAGGACGTGTCTAGG
* * * *
13246536 TCGTGTAATTTACTGTTTGTGAATTAGTGTCACACGGGCCATAAACAC-AGG-CGTGTC
1 TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGAGGACGTGTC
13246593 CCTAGGCCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
61 5 0.10
62 3 0.06
63 40 0.83
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (63 bp):
TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGAGGACGTGTCTAGG
Found at i:13255474 original size:21 final size:21
Alignment explanation
Indices: 13255448--13255489 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13255438 AAAATTTCAT
13255448 TAAAACCATGTCCATGAACAC
1 TAAAACCATGTCCATGAACAC
13255469 TAAAACCATGTCCATGAACAC
1 TAAAACCATGTCCATGAACAC
13255490 ACACTATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.19
Consensus pattern (21 bp):
TAAAACCATGTCCATGAACAC
Found at i:13259530 original size:61 final size:62
Alignment explanation
Indices: 13259435--13259553 Score: 213
Period size: 61 Copynumber: 1.9 Consensus size: 62
13259425 GTGTGTCTAA
* *
13259435 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCAGACGGTTGAG-CACACAGGC
1 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACACAGGC
13259496 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACAC
1 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACAC
13259554 GCCTGTGTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 50 0.91
62 5 0.09
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (62 bp):
GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACACAGGC
Found at i:13260444 original size:46 final size:46
Alignment explanation
Indices: 13260391--13260484 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
13260381 TTTTCAATAC
13260391 TTGTATAAATCTCATACGTACCTGAGTAACTTAACTCATTTACACA
1 TTGTATAAATCTCATACGTACCTGAGTAACTTAACTCATTTACACA
**
13260437 TTGTATAAATCTCATACGTACCTGAGTTGCTTAACTCATTTACACA
1 TTGTATAAATCTCATACGTACCTGAGTAACTTAACTCATTTACACA
13260483 TT
1 TT
13260485 CTTCCTCTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (46 bp):
TTGTATAAATCTCATACGTACCTGAGTAACTTAACTCATTTACACA
Found at i:13260624 original size:43 final size:43
Alignment explanation
Indices: 13260570--13260727 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
13260560 AATGCCATAT
* * * * *
13260570 CCCAGATATGGTCTTATATGTTATTACATATCGATGCCAACGG
1 CCCAGACATGGTCTTACATGTAATCACATAACGATGCCAACGG
* * * * *
13260613 CCCAGACATGGTCTTACACGAAATCATATAACGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACATAACGATGCCAACGG
* * * *
13260656 CCCAGACATGGTCTTACATGTAATCACA-ATACAATGTCAATGT
1 CCCAGACATGGTCTTACATGTAATCACATA-ACGATGCCAACGG
*
13260699 CCCAGATATGGTCTTA-ATTGTAATCACAT
1 CCCAGACATGGTCTTACA-TGTAATCACAT
13260728 CTCGATAATC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.02
43 94 0.98
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCACATAACGATGCCAACGG
Found at i:13265915 original size:13 final size:13
Alignment explanation
Indices: 13265897--13265922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13265887 CAGTCCACAG
13265897 GGCAACTGATGTT
1 GGCAACTGATGTT
13265910 GGCAACTGATGTT
1 GGCAACTGATGTT
13265923 TGGCCTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GGCAACTGATGTT
Found at i:13271741 original size:41 final size:40
Alignment explanation
Indices: 13271685--13271905 Score: 178
Period size: 41 Copynumber: 5.4 Consensus size: 40
13271675 AAATCATTAA
* *
13271685 CGGCATTTTT-GCATAAACTCTGCAAAAAGCAAAGCAATAG
1 CGGCATTTTTCTCATAAACTC-GCAAAAAGTAAAGCAATAG
* *
13271725 CGGCATTTTTCTCATAAACGCGACAAAAGGTAAAGCAATAG
1 CGGCATTTTTCTCATAAACTCG-CAAAAAGTAAAGCAATAG
* * * *
13271766 CGGCATTTTTCTTATAAACGC-CACAAAAGGTAAAGAAATAA
1 CGGCATTTTTCTCATAAACTCGCA-AAAA-GTAAAGCAATAG
* * * *
13271807 TGGTATTTTTCTCATAAATTCCACAAAAAGGTAAAGCAATAG
1 CGGCATTTTTCTCATAAACT-CGCAAAAA-GTAAAGCAATAG
*** * *
13271849 CGATGTTTTTCCCATAAACGTCGC-GAAAGTTAAAGCAATAG
1 CGGCATTTTTCTCATAAAC-TCGCAAAAAG-TAAAGCAATAG
* *
13271890 CGGCTTTTTTCCCATA
1 CGGCATTTTTCTCATA
13271906 CACGCCGCAA
Statistics
Matches: 148, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.01
40 15 0.10
41 96 0.65
42 32 0.22
43 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (40 bp):
CGGCATTTTTCTCATAAACTCGCAAAAAGTAAAGCAATAG
Found at i:13271899 original size:83 final size:82
Alignment explanation
Indices: 13271715--13271916 Score: 208
Period size: 83 Copynumber: 2.5 Consensus size: 82
13271705 TGCAAAAAGC
* * * **
13271715 AAAGCAATAGCGGCATTTTTCTCATAAACGCGACAAAAGGTAAAGCAATAGCGGCATTTTTCTTA
1 AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGACATTTTTCCCA
13271780 TAAACGCCACAAAAGGT
66 TAAACGCCACAAAAGGT
* ** ** **
13271797 AAAGAAATAATGG-TATTTTTCTCATAAATTCCACAAAAAGGTAAAGCAATAGCGATGTTTTTCC
1 AAAGCAATAGCGGCT-TTTTTCTCATAAACGCCAC-AAAAGGTAAAGCAATAGCGACATTTTTCC
* * * *
13271861 CATAAACGTCGCGAAAGTT
64 CATAAACGCCACAAAAGGT
* * *
13271880 AAAGCAATAGCGGCTTTTTTCCCATACACGCCGCAAA
1 AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAA
13271917 TATTTTTTAC
Statistics
Matches: 93, Mismatches: 24, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
82 29 0.31
83 63 0.68
84 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (82 bp):
AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGACATTTTTCCCA
TAAACGCCACAAAAGGT
Found at i:13282661 original size:42 final size:42
Alignment explanation
Indices: 13282602--13282720 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
13282592 TAGGGTTAGT
* *
13282602 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGATTTCATGTAAGACCATATTTGGGATATGGCATCGATA
* * *
13282644 TGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATTGATA
1 TGAGATTTCATGTAAGACCATATTTGGGATA-TGGCATCGATA
* * * *
13282687 TGAGATCTCATATAAGACCATATCTAGGATATGG
1 TGAGATTTCATGTAAGACCATATTTGGGATATGG
13282721 TATTGGTATA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATTTGGGATATGGCATCGATA
Found at i:13284260 original size:25 final size:25
Alignment explanation
Indices: 13284226--13284273 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
13284216 TGATAGGTAA
13284226 TTTCTTATCTTCAAATATTTGTTAG
1 TTTCTTATCTTCAAATATTTGTTAG
13284251 TTTCTTATCTTCAAATATTTGTT
1 TTTCTTATCTTCAAATATTTGTT
13284274 CACAGTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTCTTATCTTCAAATATTTGTTAG
Found at i:13287979 original size:25 final size:27
Alignment explanation
Indices: 13287918--13287971 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 27
13287908 ATAAAGCTTT
13287918 AAATAATTATTGTTTTTTTTAAATTTTAA
1 AAAT-ATTATTGTTTTTTTTAAATTTT-A
13287947 AAATATTATT-TTATTTTTTAAATTT
1 AAATATTATTGTT-TTTTTTAAATTT
13287972 ATATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 2 0.08
28 18 0.75
29 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
AAATATTATTGTTTTTTTTAAATTTTA
Found at i:13288140 original size:21 final size:22
Alignment explanation
Indices: 13288099--13288141 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13288089 AAACATAAAC
* *
13288099 TTTTTATTATTATTGATTGAAA
1 TTTTTATTACTATTGAATGAAA
13288121 TTTTTATTACTA-TGAATGAAA
1 TTTTTATTACTATTGAATGAAA
13288142 ACAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTTATTACTATTGAATGAAA
Found at i:13288217 original size:22 final size:23
Alignment explanation
Indices: 13288186--13288235 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
13288176 ATTGTAATTA
13288186 TTTTTAAAAT-TTTATTAACTATG
1 TTTTTAAAATGTTT-TTAACTATG
*
13288209 TTTTT-AAATGTTTTTAATTATG
1 TTTTTAAAATGTTTTTAACTATG
13288231 TTTTT
1 TTTTT
13288236 GACAATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTAAAATGTTTTTAACTATG
Found at i:13288221 original size:10 final size:11
Alignment explanation
Indices: 13288186--13288235 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
13288176 ATTGTAATTA
*
13288186 TTTTTAAAAT-
1 TTTTTAATATG
13288196 TTTATTAACTATG
1 TTT-TTAA-TATG
13288209 TTTTTAA-ATG
1 TTTTTAATATG
13288219 TTTTTAATTATG
1 TTTTTAA-TATG
13288231 TTTTT
1 TTTTT
13288236 GACAATTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 13 0.38
11 4 0.12
12 14 0.41
13 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (11 bp):
TTTTTAATATG
Found at i:13288950 original size:136 final size:137
Alignment explanation
Indices: 13288802--13289079 Score: 434
Period size: 136 Copynumber: 2.0 Consensus size: 137
13288792 AAAATACTTT
* * *
13288802 TTTACTTTTAATTAATAATTTTAACATATTTGTAATTAAGCACAAAGAAAAAAAAAGAATGGAAA
1 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAACACAAAGAAAAAAAAAGAATGGAAA
* * *
13288867 GT-TCTATGTTATT-AAAAGGTGAAAAAGTAATTAAGCACCAAAAGTATTTTTGATAGGGGAAAA
66 GTAT-TATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAGAAAA
13288930 ACTAAAAA
130 ACTAAAAA
*
13288938 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAACACAAAGAAAAAAAAAGAATGGAAT
1 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAACACAAAGAAAAAAAAAGAATGGAAA
* * *
13289003 GTATTATGTTATTGGAAGGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGGTAGGAGAAAAA
66 GTATTATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAGAAAAA
*
13289068 TTAAAAA
131 CTAAAAA
13289075 TTTAG
1 TTTAG
13289080 CTTATCGTGC
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
136 72 0.56
137 57 0.44
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (137 bp):
TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAACACAAAGAAAAAAAAAGAATGGAAA
GTATTATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAGAAAAA
CTAAAAA
Found at i:13291398 original size:23 final size:22
Alignment explanation
Indices: 13291349--13291397 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
13291339 TATTTTATAG
13291349 TTTTCAAACCTTAAAATTTACAT
1 TTTTCAAACCTT-AAATTTACAT
*
13291372 TTTTCAAACCATT-AATTTATAT
1 TTTTCAAACC-TTAAATTTACAT
13291394 TTTT
1 TTTT
13291398 TTAATAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 10 0.42
24 2 0.08
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTCAAACCTTAAATTTACAT
Found at i:13298831 original size:19 final size:19
Alignment explanation
Indices: 13298807--13298845 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13298797 TAGATTCTTA
*
13298807 ACCTCTGTTTTTGAACCAT
1 ACCTCTGCTTTTGAACCAT
13298826 ACCTCTGCTTTTGAACCAT
1 ACCTCTGCTTTTGAACCAT
13298845 A
1 A
13298846 ACTTAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (19 bp):
ACCTCTGCTTTTGAACCAT
Found at i:13302547 original size:24 final size:23
Alignment explanation
Indices: 13302520--13302564 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
13302510 TGATTGTTGT
13302520 TGAA-CTTAATAAATCATTTGTGAA
1 TGAATCTTAA-AAA-CATTTGTGAA
*
13302544 TGAATGTTAAAAACATTTGTG
1 TGAATCTTAAAAACATTTGTG
13302565 TCAGATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAATCTTAAAAACATTTGTGAA
Found at i:13304750 original size:30 final size:29
Alignment explanation
Indices: 13304710--13304766 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
13304700 AACTTAGAAA
* *
13304710 ATTTTTTAAATTTTTAAAAAATCATAATCT
1 ATTTTATAAA-TTATAAAAAATCATAATCT
*
13304740 ATTTTATAAATTATAAAAAATTATAAT
1 ATTTTATAAATTATAAAAAATCATAAT
13304767 TATGTGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTTTATAAATTATAAAAAATCATAATCT
Found at i:13305904 original size:14 final size:14
Alignment explanation
Indices: 13305866--13305917 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
13305856 AAAAATTAGT
13305866 TAAATTTATAATAT-
1 TAAATTTA-AATATA
**
13305880 TAAAAAT-AATATA
1 TAAATTTAAATATA
13305893 TAAATTTAAATATA
1 TAAATTTAAATATA
13305907 TAAATTCTAAA
1 TAAATT-TAAA
13305918 AAGTTTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 17 0.55
15 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATTTAAATATA
Found at i:13323375 original size:11 final size:11
Alignment explanation
Indices: 13323359--13323393 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13323349 CCTTTCCCCC
13323359 CTCCCTTCTCT
1 CTCCCTTCTCT
13323370 CTCCCTTCTCT
1 CTCCCTTCTCT
13323381 CTTCCC-TCTCT
1 C-TCCCTTCTCT
13323392 CT
1 CT
13323394 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:13323924 original size:15 final size:15
Alignment explanation
Indices: 13323904--13323943 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13323894 CATGATTATC
**
13323904 ATTTTTATTGTTTTT
1 ATTTTTATTCCTTTT
13323919 ATTTTTATTCCTTTT
1 ATTTTTATTCCTTTT
13323934 ATTATTTATT
1 ATT-TTTATT
13323944 ATTATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (15 bp):
ATTTTTATTCCTTTT
Found at i:13324458 original size:35 final size:34
Alignment explanation
Indices: 13324412--13324496 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
13324402 TTATATCATC
* *
13324412 TTATGTATATATTTTAAATACTATATT-GTATATG
1 TTATATATATATTTT-AATACTATATTAGTATATA
*
13324446 TCTATATATATATTCTTAGTACTATATTACGTATATA
1 T-TATATATATATT-TTAATACTATATTA-GTATATA
*
13324483 TTATTTATATATTT
1 TTATATATATATTT
13324497 ATTTTTACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 1 0.02
35 22 0.51
36 13 0.30
37 7 0.16
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (34 bp):
TTATATATATATTTTAATACTATATTAGTATATA
Found at i:13327912 original size:69 final size:68
Alignment explanation
Indices: 13327787--13327921 Score: 234
Period size: 69 Copynumber: 2.0 Consensus size: 68
13327777 ATATCTCTCG
* *
13327787 ATTATAAAGAGTTTTTGAGACATTCTAAAAAATGAAGATCTATTATAATCACTATTAAACAACAA
1 ATTATAAAGAGTTTTTAAGACATTCTAAAAAATGAAGATCTATTACAATCACTATTAAACAACAA
13327852 TCA
66 TCA
*
13327855 ATTATAAAGAGTTTTTAAGGCATTCTAAAATAATGAAGATCTATTACAATCACTATTAAACAACA
1 ATTATAAAGAGTTTTTAAGACATTCTAAAA-AATGAAGATCTATTACAATCACTATTAAACAACA
13327920 AT
65 AT
13327922 TAAGCTAGGT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 28 0.44
69 35 0.56
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (68 bp):
ATTATAAAGAGTTTTTAAGACATTCTAAAAAATGAAGATCTATTACAATCACTATTAAACAACAA
TCA
Found at i:13329192 original size:21 final size:20
Alignment explanation
Indices: 13329166--13329205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13329156 TTCCAAATTT
*
13329166 AGAGAAACAGATAAATTTTGG
1 AGAGAAACAGA-AAACTTTGG
13329187 AGAGAAACAGAAAACTTTG
1 AGAGAAACAGAAAACTTTG
13329206 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (20 bp):
AGAGAAACAGAAAACTTTGG
Found at i:13329543 original size:26 final size:28
Alignment explanation
Indices: 13329504--13329556 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
13329494 AATTAATACT
*
13329504 TTTTTATTTATAT-ATAATAAAAATTAA
1 TTTTAATTTATATAATAATAAAAATTAA
*
13329531 TTTTAATTT-TATAATACTAAAAATTA
1 TTTTAATTTATATAATAATAAAAATTA
13329557 CCATAACCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTAATTTATATAATAATAAAAATTAA
Found at i:13329803 original size:98 final size:99
Alignment explanation
Indices: 13329633--13329823 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 99
13329623 AATTAGTTAA
*
13329633 AAATAAAATATATTTAACATAATGGTAAATATAAAAATATATATAATTTCATTATATAATTACAT
1 AAATAAAATATATTTAACATAATGATAAATATAAAAATATATAT-ATTTCATTATATAATTACAT
13329698 ATTTATTATTTTATTTATATAAATAAAATAATTAT
65 ATTTATTATTTTATTTATATAAATAAAATAATTAT
* * *
13329733 AAATAAAAATATTTTTAACATAATGATATATATAAAACATATAT-T-TTT-ATTATATAGTTACA
1 AAAT-AAAATATATTTAACATAATGATAAATATAAAA-ATATATATATTTCATTATATAATTACA
13329795 TATTTATTATTTTATTTATATAAATAAAA
64 TATTTATTATTTTATTTATATAAATAAAA
13329824 GAGTTTTTGA
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
98 42 0.49
99 3 0.04
100 4 0.05
101 30 0.35
102 6 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (99 bp):
AAATAAAATATATTTAACATAATGATAAATATAAAAATATATATATTTCATTATATAATTACATA
TTTATTATTTTATTTATATAAATAAAATAATTAT
Found at i:13331255 original size:27 final size:25
Alignment explanation
Indices: 13331189--13331267 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 25
13331179 TAAGGAATTT
13331189 TTTTAAAAGTATATAAAA-ATAAAAA
1 TTTTAAAA-TATATAAAATATAAAAA
*
13331214 TATTAGACAA-A-ATAATAATATATAAAA
1 TTTTA-A-AATATATAA-AATATA-AAAA
*
13331241 TTTTAAAATATATAACAATAAAAAAA
1 TTTTAAAATATATAA-AATATAAAAA
13331267 T
1 T
13331268 ATAAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
24 4 0.09
25 9 0.21
26 11 0.26
27 19 0.44
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (25 bp):
TTTTAAAATATATAAAATATAAAAA
Found at i:13334975 original size:17 final size:17
Alignment explanation
Indices: 13334928--13334975 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
13334918 TATTTGTATT
*
13334928 TTATTTGTATTAAAG--
1 TTATTTGTATAAAAGTA
13334943 TT-TTTGTA-AAAA-TA
1 TTATTTGTATAAAAGTA
13334957 TTATTTGTATAAAAGTA
1 TTATTTGTATAAAAGTA
13334974 TT
1 TT
13334976 TAATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.11
14 8 0.30
15 8 0.30
16 4 0.15
17 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (17 bp):
TTATTTGTATAAAAGTA
Found at i:13337689 original size:25 final size:25
Alignment explanation
Indices: 13337623--13337707 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
13337613 CTCTCACGAT
* **
13337623 CTTCCCGTTATTTACCTCTTATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
*** **
13337648 CTTCCCAACATACAGCTCACATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
**
13337673 CTTCCCGTTATTTAGCTTGCATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
*
13337698 CTTCTCGTTA
1 CTTCCCGTTA
13337708 AATGGCTCGA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (25 bp):
CTTCCCGTTATTTAGCTCACATGAG
Found at i:13337748 original size:25 final size:25
Alignment explanation
Indices: 13337693--13337748 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
13337683 TTTAGCTTGC
13337693 ATGAGCTTCTCGTTAAATGGCTCGA
1 ATGAGCTTCTCGTTAAATGGCTCGA
* *
13337718 AAGAGCTT-TCTGTTAACAT-GCTCGT
1 ATGAGCTTCTC-GTTAA-ATGGCTCGA
13337743 ATGAGC
1 ATGAGC
13337749 ACATATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.08
25 22 0.85
26 2 0.08
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCTCGTTAAATGGCTCGA
Found at i:13343063 original size:26 final size:26
Alignment explanation
Indices: 13343034--13343103 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
13343024 TGTATTATAG
* *
13343034 ATTTTAAAATGTTTTATACATTATTT
1 ATTTTAAATTGTTTTATACATTATTC
**
13343060 ATTTTAAACTTGTTTTATGTATTATTC
1 ATTTTAAA-TTGTTTTATACATTATTC
13343087 ATTTTAAATTGTTTTAT
1 ATTTTAAATTGTTTTAT
13343104 TGTTTACTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATACATTATTC
Found at i:13343083 original size:27 final size:26
Alignment explanation
Indices: 13343024--13343103 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
13343014 ATTTGCTTTG
** *
13343024 TGTATTATAGATTTTAAAATGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
13343050 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
13343077 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
13343103 T
1 T
13343104 TGTTTACTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:13353617 original size:17 final size:17
Alignment explanation
Indices: 13353587--13353619 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13353577 TCACTGATGT
13353587 TTATTGTTCAAAATAAG
1 TTATTGTTCAAAATAAG
13353604 TTATT-TTCATAAATAA
1 TTATTGTTCA-AAATAA
13353620 TAAAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TTATTGTTCAAAATAAG
Found at i:13360448 original size:9 final size:9
Alignment explanation
Indices: 13360434--13360464 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13360424 CACCAATCTG
13360434 TTATTCGAA
1 TTATTCGAA
*
13360443 TTATTCGAG
1 TTATTCGAA
13360452 TTATTCGAA
1 TTATTCGAA
13360461 TTAT
1 TTAT
13360465 AAAACTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:13371267 original size:6 final size:6
Alignment explanation
Indices: 13371256--13371282 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13371246 TATGTATGAT
13371256 AATTCC AATTCC AATTCC AATTCC AAT
1 AATTCC AATTCC AATTCC AATTCC AAT
13371283 AATTTGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTCC
Found at i:13376483 original size:19 final size:20
Alignment explanation
Indices: 13376459--13376497 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13376449 TCTTATTTTT
13376459 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
13376478 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
13376498 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:13376515 original size:25 final size:23
Alignment explanation
Indices: 13376459--13376523 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
13376449 TCTTATTTTT
*
13376459 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
13376478 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
13376501 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
13376524 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:13378518 original size:31 final size:29
Alignment explanation
Indices: 13378440--13378527 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 29
13378430 TGATTTAGTA
*
13378440 TGCAATTGTATACATG-AACTTTAATTTGG
1 TGCAA-TGTATACTTGAAACTTTAATTTGG
*
13378469 TGCAAT-TATACATCTGAAACTCTAATTGTGG
1 TGCAATGTATAC-T-TGAAACTTTAATT-TGG
*
13378500 TTCAAATGTATACTTGAAACTTTAATTT
1 TGC-AATGTATACTTGAAACTTTAATTT
13378528 TGATTTAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.10
28 1 0.02
29 7 0.14
30 10 0.20
31 17 0.35
32 4 0.08
33 5 0.10
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (29 bp):
TGCAATGTATACTTGAAACTTTAATTTGG
Found at i:13383261 original size:19 final size:19
Alignment explanation
Indices: 13383239--13383276 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13383229 CAAAATTCTG
13383239 ATAGACAAA-TATAATTGTA
1 ATAGACAAAGT-TAATTGTA
*
13383258 ATAGAGAAAGTTAATTGTA
1 ATAGACAAAGTTAATTGTA
13383277 TATTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (19 bp):
ATAGACAAAGTTAATTGTA
Found at i:13387041 original size:2 final size:2
Alignment explanation
Indices: 13387034--13387062 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13387024 TTAGTTATCT
13387034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13387063 GAGGTTACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13388703 original size:23 final size:23
Alignment explanation
Indices: 13388660--13388704 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13388650 GATGATAGGG
* *
13388660 TTTTAATTAATTTAGTTAATTAA
1 TTTTAATTAATTCACTTAATTAA
13388683 TTTTAATTAA-TCACTTGAATTA
1 TTTTAATTAATTCACTT-AATTA
13388705 TTTGGTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTAATTAATTCACTTAATTAA
Found at i:13414285 original size:43 final size:42
Alignment explanation
Indices: 13414223--13414386 Score: 222
Period size: 42 Copynumber: 3.9 Consensus size: 42
13414213 TACCATACCA
* *
13414223 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCACATCG
* * * *
13414265 ATGCCAATAGCCCAGCTATGGTCTTATATGAAATCTCACATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGAATCTCACATCG
13414308 ATGCCATATCCCAGATATGGTCTTACAT-GAAGTCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAA-TCTCACATCG
* * *
13414350 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCA
13414387 ACTAACTCTA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 66 0.62
43 38 0.36
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGAATCTCACATCG
Found at i:13418016 original size:24 final size:24
Alignment explanation
Indices: 13417988--13418039 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
13417978 TTTGTAGGTC
13417988 AAATAAATTATACTAATAAATACA
1 AAATAAATTATACTAATAAATACA
* * * *
13418012 AAATATATTATATTAATAGATACT
1 AAATAAATTATACTAATAAATACA
13418036 AAAT
1 AAAT
13418040 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:13418309 original size:24 final size:24
Alignment explanation
Indices: 13418258--13418303 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13418248 TCCATAGGTC
*
13418258 AAATAAATTATGCTAATAAATATG
1 AAATAAATTATACTAATAAATATG
*
13418282 AAATATATTATACTAATAAATA
1 AAATAAATTATACTAATAAATA
13418304 CTAAATCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATG
Found at i:13418477 original size:270 final size:269
Alignment explanation
Indices: 13417963--13418507 Score: 858
Period size: 270 Copynumber: 2.0 Consensus size: 269
13417953 TAAAAGTGTT
*** *
13417963 TATTTATAGACTAAATTTGTAGGTCAAATAAATTATACTAATAAATACAAAATATATTATATTAA
1 TATTTATAGACTAAATCCATAGGTCAAATAAATTATACTAATAAATACAAAATATATTATACTAA
* * **
13418028 TAGATACTAAATCTTTTAGAAAGAAAATATATTTTGTTTAACTTGACTTGCAAGTAATCTCTTAT
66 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTGTTTAACTTGACTTGCAAACAATCTCTTAT
* *
13418093 TTTATTTAATAAGAATTTGGGTCACACATATATTTATTAATTTATAATTAAAATTAATTTTAAAA
131 TTTATTTAACAAGAATTTAGGTCACACATATATTTATTAATTTATAATTAAAATTAATTTTAAAA
*
13418158 AATATTTTTAATCTAATAAGTACATTAACTAGAAAAATATTACATATATATATTCTTATTATAAT
196 AATATTTTTAATCTAATAAATACATTAACTAGAAAAATATTA-ATATATATATTCTTATTATAAT
13418223 GGGTCTCACA
260 GGGTCTCACA
* * **
13418233 TATTTATAGATTAAATCCATAGGTCAAATAAATTATGCTAATAAATATGAAATATATTATACTAA
1 TATTTATAGACTAAATCCATAGGTCAAATAAATTATACTAATAAATACAAAATATATTATACTAA
* *
13418298 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTTTTTAACTTGACTTGCAAACAATGTCTTAT
66 TAAATACTAAATCTTCTAGAAAGAAAATATATTTTGTTTAACTTGACTTGCAAACAATCTCTTAT
* *
13418363 TTTATTTGACAAGAATTTAGGTCACACATATATTTATTAATTTATAATTAAAATTAATTTTTTTA
131 TTTATTTAACAAGAATTTAGGTCACACATATATTTATTAATTTATAATTAAAATTAA--TTTTAA
* *
13418428 AAAATATTTTTAATCTAATAAATTCATTAACTAGACAAATATT-ATATATATATTCTTATTATAA
194 AAAATATTTTTAATCTAATAAATACATTAACTAGAAAAATATTAATATATATATTCTTATTATAA
*
13418492 TGGGTTTCACA
259 TGGGTCTCACA
13418503 TATTT
1 TATTT
13418508 TTATTATACT
Statistics
Matches: 251, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
270 206 0.82
272 45 0.18
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (269 bp):
TATTTATAGACTAAATCCATAGGTCAAATAAATTATACTAATAAATACAAAATATATTATACTAA
TAAATACTAAATCTTCTAGAAAGAAAATATATTTTGTTTAACTTGACTTGCAAACAATCTCTTAT
TTTATTTAACAAGAATTTAGGTCACACATATATTTATTAATTTATAATTAAAATTAATTTTAAAA
AATATTTTTAATCTAATAAATACATTAACTAGAAAAATATTAATATATATATTCTTATTATAATG
GGTCTCACA
Found at i:13422501 original size:56 final size:56
Alignment explanation
Indices: 13422354--13422502 Score: 244
Period size: 56 Copynumber: 2.7 Consensus size: 56
13422344 GTCTCATCAG
** * *
13422354 GGTCTTACTCATACACATATATCGGAATCACATATAAATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
*
13422410 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
*
13422466 GGTCTTACTCGCACACATATATCGAAATCACATATCA
1 GGTCTTACTCGCACACATATATCGGAATCACATATCA
13422503 CAAGTCGAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACGT
Found at i:13425126 original size:26 final size:26
Alignment explanation
Indices: 13425090--13425141 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13425080 CCAAGTCTAG
13425090 ATTCTTCTTTTATCAAACTTCACATC
1 ATTCTTCTTTTATCAAACTTCACATC
13425116 ATTCTTCTTTTATCAAACTTCACATC
1 ATTCTTCTTTTATCAAACTTCACATC
13425142 TTTCCTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTCTTCTTTTATCAAACTTCACATC
Found at i:13428316 original size:32 final size:32
Alignment explanation
Indices: 13428280--13428343 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
13428270 TAAGTAGAAG
13428280 TGGAGGCTTGATCATTGACATCCTCAGCCCAA
1 TGGAGGCTTGATCATTGACATCCTCAGCCCAA
13428312 TGGAGGCTTGATCATTGACATCCTCAGCCCAA
1 TGGAGGCTTGATCATTGACATCCTCAGCCCAA
13428344 CCCCCATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (32 bp):
TGGAGGCTTGATCATTGACATCCTCAGCCCAA
Found at i:13431056 original size:51 final size:50
Alignment explanation
Indices: 13430922--13431066 Score: 129
Period size: 51 Copynumber: 2.9 Consensus size: 50
13430912 AAACTCTTTT
* * *
13430922 ATTTATTACTTATCT-TTTATTAATTT-AATTAATTAGAGATAAAATAATC
1 ATTTAATA-TTATCTCTTAATTAATTTAAATTAATTAGAGATAAAATAATA
* ** * * *
13430971 ATTTAATATTATCACTTAATTACA-TTATTTTTAATTAGTGGTAATATAA-A
1 ATTTAATATTATCTCTTAATTA-ATTTA-AATTAATTAGAGATAAAATAATA
13431021 ATTTTAATATTTATCTCTTAATTAATTTAAATTAATTAGAGA-AAAA
1 A-TTTAATA-TTATCTCTTAATTAATTTAAATTAATTAGAGATAAAA
13431067 CATTTATGAC
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
48 5 0.07
49 15 0.20
50 5 0.07
51 33 0.45
52 16 0.22
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (50 bp):
ATTTAATATTATCTCTTAATTAATTTAAATTAATTAGAGATAAAATAATA
Found at i:13436926 original size:3 final size:3
Alignment explanation
Indices: 13436918--13436946 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13436908 ACTCAACATA
13436918 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13436947 AAGAAGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:13438027 original size:22 final size:21
Alignment explanation
Indices: 13437999--13438066 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
13437989 AAGTAAATAT
13437999 ATATAATATAATAATAAAGTAA
1 ATATAATA-AATAATAAAGTAA
13438021 ATATAATAAAATAA-ATAAGTAA
1 ATATAAT-AAATAATA-AAGTAA
13438043 ATGA-AATAAATAAATAAA-TAA
1 AT-ATAATAAAT-AATAAAGTAA
13438064 ATA
1 ATA
13438067 AAAGATTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.02
21 10 0.24
22 27 0.66
23 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
ATATAATAAATAATAAAGTAA
Found at i:13438038 original size:4 final size:4
Alignment explanation
Indices: 13437992--13438068 Score: 75
Period size: 4 Copynumber: 18.0 Consensus size: 4
13437982 CATATTTAAG
* *
13437992 TAAA TATA TATAA TATAA T-AA TAAA GTAAA TATAA TAAAA TAAA TAAG
1 TAAA TAAA TA-AA TA-AA TAAA TAAA -TAAA TA-AA T-AAA TAAA TAAA
13438040 TAAA TGAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
13438069 AGATTAGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.05
4 38 0.60
5 21 0.33
6 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:13438051 original size:17 final size:16
Alignment explanation
Indices: 13437992--13438068 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 16
13437982 CATATTTAAG
*
13437992 TAAATATATATAATATAA
1 TAAATAAATA-AATA-AA
13438010 T-AATAAAGTAAATATAA
1 TAAATAAA-TAAATA-AA
*
13438027 TAAAATAAATAAGTAAA
1 T-AAATAAATAAATAAA
13438044 TGAAATAAATAAATAAA
1 T-AAATAAATAAATAAA
13438061 TAAATAAA
1 TAAATAAA
13438069 AGATTAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
16 7 0.13
17 31 0.60
18 8 0.15
19 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAAATAAATAAATAAA
Found at i:13439350 original size:16 final size:16
Alignment explanation
Indices: 13439314--13439366 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
13439304 GTTATAAACT
* *
13439314 CATGAATTGAGTATGG
1 CATGAAATGAGTATTG
*
13439330 TATGAAATGATGTATT-
1 CATGAAATGA-GTATTG
*
13439346 CATGAATTGAGTATTG
1 CATGAAATGAGTATTG
13439362 CATGA
1 CATGA
13439367 CTGATGCCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (16 bp):
CATGAAATGAGTATTG
Found at i:13442708 original size:29 final size:24
Alignment explanation
Indices: 13442652--13442701 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13442642 TATTCTCTGT
13442652 TGCTCTTTTGTTTTGTTGCAAGTA
1 TGCTCTTTTGTTTTGTTGCAAGTA
13442676 TGCTCTTTTGTTTTGTTGCAAGTA
1 TGCTCTTTTGTTTTGTTGCAAGTA
13442700 TG
1 TG
13442702 ATATGCTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.54
Consensus pattern (24 bp):
TGCTCTTTTGTTTTGTTGCAAGTA
Found at i:13452979 original size:26 final size:26
Alignment explanation
Indices: 13452943--13453050 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13452933 ATGAAATGCC
* *
13452943 ATCATGGAACATTTACCTAAACCGTT
1 ATCATGGAACATTTACCTAACCCATT
13452969 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13452995 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
13453021 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13453047 ATCA
1 ATCA
13453051 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13460055 original size:26 final size:26
Alignment explanation
Indices: 13460024--13460131 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13460014 TGAAATGCCC
*
13460024 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13460050 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13460076 ATCATGGAACATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
13460102 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13460128 ATCA
1 ATCA
13460132 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13460744 original size:40 final size:40
Alignment explanation
Indices: 13460679--13460773 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
13460669 ACAACTCCGA
* *
13460679 CCAACCCAACACACC--ATGTGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCATATATGGGGATAAAATCGACCCAT
* * * *
13460717 CCATCCCTGCACACCATATATGGGGATATAATTGACCCAT
1 CCAACCCTACACACCATATATGGGGATAAAATCGACCCAT
13460757 CCAACCCTACACACCAT
1 CCAACCCTACACACCAT
13460774 GAGGTACCGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 12 0.26
40 35 0.74
ACGTcount: A:0.34, C:0.36, G:0.13, T:0.18
Consensus pattern (40 bp):
CCAACCCTACACACCATATATGGGGATAAAATCGACCCAT
Found at i:13470270 original size:26 final size:26
Alignment explanation
Indices: 13470241--13470348 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13470231 TGGTACAAAT
13470241 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
13470267 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
13470293 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
13470319 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
13470345 TGAT
1 TGAT
13470349 GGGCATTTAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:13477276 original size:41 final size:41
Alignment explanation
Indices: 13477230--13477491 Score: 323
Period size: 41 Copynumber: 6.4 Consensus size: 41
13477220 CAGAGCAATA
* * * * *
13477230 GTAAAACGCCGCTAAAAA-CGGAGCAATACCGGCGTTTTTTA
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTTG
* * *
13477271 TTAAAACGCCGCTAAAAA-CAGAGAAATAGCGGCGCTTTTG
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
* * *
13477311 GTAAAATGCCGCTAAAAACCAGAGTATTAGCGGCACTTTTG
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
** *
13477352 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGATGTTTTTG
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
* *
13477393 ATATAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
* *
13477434 GTAAAACGCCGCTATAAACCAGAGTATTAGCGGCGCTATTT-
1 GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT-TTTG
13477475 GTAAAACGCCGCTAAAA
1 GTAAAACGCCGCTAAAA
13477492 GTCATATAAC
Statistics
Matches: 192, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 20 0.10
41 169 0.88
42 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (41 bp):
GTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG
Found at i:13477453 original size:123 final size:122
Alignment explanation
Indices: 13477230--13477491 Score: 375
Period size: 123 Copynumber: 2.1 Consensus size: 122
13477220 CAGAGCAATA
* * *
13477230 GTAAAACGCCGCTAAAAACGGAGCAATACCGGCGTTTTTTATTAAAACGCCGCTAAAAACAGAGA
1 GTAAAACGCCGCTAAAAACAGAGCAATACCGACGTTTTTGATTAAAACGCCGCTAAAAACAGAGA
*
13477295 AATAGCGGCGCTTTTGGTAAAATGCCGCTAAAAACCAGAGTATTAGCGGCACT-TTT
66 AATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGCACTATTT
* * * *
13477351 GGTAAAACGCCGCTAAAAACCAGAGCATTAGCGATGTTTTTGA-TATAACGCCGCTAAAAACCAG
1 -GTAAAACGCCGCTAAAAA-CAGAGCAATACCGACGTTTTTGATTAAAACGCCGCTAAAAA-CAG
* * * *
13477415 AGCATTAGCGGCGCTTTTGGTAAAACGCCGCTATAAACCAGAGTATTAGCGGCGCTATTT
63 AGAAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGCACTATTT
13477475 GTAAAACGCCGCTAAAA
1 GTAAAACGCCGCTAAAA
13477492 GTCATATAAC
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 34 0.27
123 88 0.70
124 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (122 bp):
GTAAAACGCCGCTAAAAACAGAGCAATACCGACGTTTTTGATTAAAACGCCGCTAAAAACAGAGA
AATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGCACTATTT
Found at i:13477739 original size:23 final size:23
Alignment explanation
Indices: 13477696--13477739 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13477686 TTTTCCCCAT
**
13477696 TTTTTCCCATTTCTATTTCCCCC
1 TTTTTCCCATTTCTAAATCCCCC
13477719 TTTTTCCTCA-TTCTAAATCCC
1 TTTTTCC-CATTTCTAAATCCC
13477740 TAAAGTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTTCCCATTTCTAAATCCCCC
Found at i:13478043 original size:21 final size:21
Alignment explanation
Indices: 13478017--13478072 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
13478007 GAGTTACTAT
*
13478017 TTTAAGGTTTAGGGATTATGG
1 TTTAAGGTTTAGGGATTAAGG
* * *
13478038 TTTAAGGGTTGGGGTTTAAGG
1 TTTAAGGTTTAGGGATTAAGG
13478059 TTT-AGGTGTTAGGG
1 TTTAAGGT-TTAGGG
13478073 GTTAGGGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
TTTAAGGTTTAGGGATTAAGG
Found at i:13478070 original size:7 final size:7
Alignment explanation
Indices: 13478056--13478117 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
13478046 TTGGGGTTTA
13478056 AGGT-TT
1 AGGTGTT
13478062 AGGTGTT
1 AGGTGTT
*
13478069 AGGGGTT
1 AGGTGTT
*
13478076 AGGGGTT
1 AGGTGTT
*
13478083 AGGAGTT
1 AGGTGTT
*
13478090 AGGGGTT
1 AGGTGTT
*
13478097 AGATGTT
1 AGGTGTT
13478104 AAGG-GTT
1 -AGGTGTT
13478111 AGGTGTT
1 AGGTGTT
13478118 CATGATTCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
6 7 0.15
7 38 0.81
8 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (7 bp):
AGGTGTT
Found at i:13478077 original size:14 final size:14
Alignment explanation
Indices: 13478056--13478117 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
13478046 TTGGGGTTTA
*
13478056 AGGT-TTAGGTGTT
1 AGGTGTTAGGGGTT
*
13478069 AGGGGTTAGGGGTT
1 AGGTGTTAGGGGTT
*
13478083 AGGAGTTAGGGGTT
1 AGGTGTTAGGGGTT
* *
13478097 AGATGTTAAGGGTT
1 AGGTGTTAGGGGTT
13478111 AGGTGTT
1 AGGTGTT
13478118 CATGATTCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
13 3 0.07
14 38 0.93
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (14 bp):
AGGTGTTAGGGGTT
Found at i:13478104 original size:21 final size:20
Alignment explanation
Indices: 13478042--13478113 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
13478032 TTATGGTTTA
13478042 AGGGTT-GGGGTTTA-AGGTTT
1 AGGGTTAGGGG-TTAGAGG-TT
*
13478062 AGGTGTTAGGGGTTAGGGGTT
1 AGG-GTTAGGGGTTAGAGGTT
*
13478083 AGGAGTTAGGGGTTAGATGTT
1 AGG-GTTAGGGGTTAGAGGTT
13478104 AAGGGTTAGG
1 -AGGGTTAGG
13478114 TGTTCATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.07
21 32 0.73
22 9 0.20
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (20 bp):
AGGGTTAGGGGTTAGAGGTT
Found at i:13482872 original size:19 final size:19
Alignment explanation
Indices: 13482850--13482890 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13482840 TTTATTGATA
13482850 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
13482868 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
13482887 TTTT
1 TTTT
13482891 GATTCTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:13483211 original size:43 final size:43
Alignment explanation
Indices: 13483147--13483281 Score: 225
Period size: 43 Copynumber: 3.1 Consensus size: 43
13483137 ATTTTATGGC
* *
13483147 CTTTAGCGGCGTTTGTAGGAAAAGCGCTGCTAAAGGTCATGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
13483190 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * *
13483233 CTTTAGCGGCATTTATGGGAAAAGTGCCGCTAAAGGTCATGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
13483276 CTTTAG
1 CTTTAG
13483282 TAGCGTTTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
Found at i:13483613 original size:26 final size:26
Alignment explanation
Indices: 13483582--13483689 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
13483572 TGATACAAAT
13483582 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
13483608 TTATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13483634 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
13483660 TGATAATGGTTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13483686 TGAT
1 TGAT
13483690 GAGAATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13483639 original size:52 final size:52
Alignment explanation
Indices: 13483582--13483689 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
13483572 TGATACAAAT
* *
13483582 TGATAATGGGTTAGGTAAATGTTCCATTATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAAGTAAATATTTCA
* *
13483634 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAAGTAAATATTTCA
13483686 TGAT
1 TGAT
13483690 GAGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAAGTAAATATTTCA
Found at i:13486882 original size:33 final size:33
Alignment explanation
Indices: 13486826--13486906 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
13486816 ACATCGCCGT
*
13486826 TCCAACCAAACACA-CAAGATGCTCACACGAGCCAA
1 TCCAACC-AACACATC-A-ATGCTCACAAGAGCCAA
** * *
13486861 TCCCTCCAACACATCAATGCTCATAAGAGCTAA
1 TCCAACCAACACATCAATGCTCACAAGAGCCAA
13486894 TCCAACCAACACA
1 TCCAACCAACACA
13486907 CCAAACAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 25 0.66
34 7 0.18
35 6 0.16
ACGTcount: A:0.41, C:0.37, G:0.09, T:0.14
Consensus pattern (33 bp):
TCCAACCAACACATCAATGCTCACAAGAGCCAA
Found at i:13490069 original size:20 final size:20
Alignment explanation
Indices: 13490034--13490084 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
13490024 GCAAAATAAG
**
13490034 AGTATCGATA-TTTATTATT
1 AGTATCGATACTTTATTAAA
*
13490053 TGTATCGATACTTTATTAAA
1 AGTATCGATACTTTATTAAA
13490073 AGTATCGATACT
1 AGTATCGATACT
13490085 CATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
AGTATCGATACTTTATTAAA
Found at i:13490092 original size:20 final size:20
Alignment explanation
Indices: 13490054--13490101 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13490044 TTTATTATTT
*
13490054 GTATCGATACTTTATTAAAA
1 GTATCGATACTATATTAAAA
13490074 GTATCGATACTCATA-TAAAA
1 GTATCGATACT-ATATTAAAA
13490094 --ATCGATAC
1 GTATCGATAC
13490102 CATTTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
GTATCGATACTATATTAAAA
Found at i:13492670 original size:43 final size:43
Alignment explanation
Indices: 13492547--13492705 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
13492537 TATGTGTTTC
* * *
13492547 CGTGTAAGACCATGTCTGGGACGTTGGCAACGACT-TATGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGATTT
* *
13492590 ATGTGTAAGACCATGTCTGGGACATTAGCATCG-TATTTGATTT
1 -CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTT
* * * *
13492633 CGTGTAAGACCCTGTCTGGGATAATGGCATCGATATTTGATTG
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTT
* *
13492676 CATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
13492706 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 28 0.29
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTT
Found at i:13496829 original size:84 final size:84
Alignment explanation
Indices: 13496741--13497060 Score: 428
Period size: 84 Copynumber: 3.8 Consensus size: 84
13496731 TACTGGCACC
* *
13496741 TAAGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACAAAAGTGCATCATTGGATAAACCG
1 TAAGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACATAAGTGCATCATCGGATAAACCG
13496806 AAGCAATCATACTAAAACA
66 AAGCAATCATACTAAAACA
* * * * * * *
13496825 TAAGTGCATTATCAGATAAACCAAAGCAATCATACTAGCACATAAGTGCCTTATCAGATAAACTG
1 TAAGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACATAAGTGCATCATCGGATAAACCG
**
13496890 AAGCAATCATACTGGAACA
66 AAGCAATCATACTAAAACA
* * * *
13496909 TAAGTGCATCATTGAATAAACCGAAGCAATTATACTGGCACATAAGTGCATCATCGGATAAACCG
1 TAAGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACATAAGTGCATCATCGGATAAACCG
* **
13496974 AAGCAATCATACTATAATG
66 AAGCAATCATACTAAAACA
* *
13496993 TAAGTGCATCATGGGATAAACCAAAG-ATATCATACTGGCACATAACTGCATCATC-GACTAAAC
1 TAAGTGCATCATCGGATAAACCAAAGCA-ATCATACTGGCACATAAGTGCATCATCGGA-TAAAC
13497056 CGAAG
64 CGAAG
13497061 TATAAACTTG
Statistics
Matches: 203, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
83 3 0.01
84 200 0.99
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.22
Consensus pattern (84 bp):
TAAGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACATAAGTGCATCATCGGATAAACCG
AAGCAATCATACTAAAACA
Found at i:13497055 original size:42 final size:42
Alignment explanation
Indices: 13496658--13497060 Score: 379
Period size: 42 Copynumber: 9.6 Consensus size: 42
13496648 CTGGAACCGT
* * *
13496658 AGTGCATCATCAGATAAATCGAAGGATAT-ATACTAGAACACAT-
1 AGTGCATCATCAGATAAACCGAAGCA-ATCATACT-G-GCACATA
* * * *
13496701 AGTGCATCTTCGAGA-AATCAGAAGCAAAT-ATACTGGCACCTA
1 AGTGCATCATC-AGATAAACCGAAGC-AATCATACTGGCACATA
* * *
13496743 AGTGCATCATCGGATAAACCAAAGCAATCATACTGGCACAAA
1 AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
** ***
13496785 AGTGCATCATTGGATAAACCGAAGCAATCATACTAAAACATA
1 AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
* * *
13496827 AGTGCATTATCAGATAAACCAAAGCAATCATACTAGCACATA
1 AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
* * * *
13496869 AGTGCCTTATCAGATAAACTGAAGCAATCATACTGGAACATA
1 AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
* *
13496911 AGTGCATCAT-TGAATAAACCGAAGCAATTATACTGGCACATA
1 AGTGCATCATCAG-ATAAACCGAAGCAATCATACTGGCACATA
* *** **
13496953 AGTGCATCATCGGATAAACCGAAGCAATCATACTATAATGTA
1 AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
** *
13496995 AGTGCATCATGGGATAAACCAAAG-ATATCATACTGGCACATA
1 AGTGCATCATCAGATAAACCGAAGCA-ATCATACTGGCACATA
*
13497037 ACTGCATCATC-GACTAAACCGAAG
1 AGTGCATCATCAGA-TAAACCGAAG
13497061 TATAAACTTG
Statistics
Matches: 297, Mismatches: 54, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
41 13 0.04
42 256 0.86
43 24 0.08
44 4 0.01
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (42 bp):
AGTGCATCATCAGATAAACCGAAGCAATCATACTGGCACATA
Found at i:13497138 original size:16 final size:18
Alignment explanation
Indices: 13497117--13497150 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
13497107 TATAGTTCAA
13497117 TTCAATTT-TCAT-AATT
1 TTCAATTTATCATCAATT
13497133 TTCAATTTATCATCAATT
1 TTCAATTTATCATCAATT
13497151 AACCATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCAATTTATCATCAATT
Found at i:13497922 original size:86 final size:88
Alignment explanation
Indices: 13497825--13497998 Score: 316
Period size: 88 Copynumber: 2.0 Consensus size: 88
13497815 AGATCCCATG
*
13497825 ATAAAAAATCTATAAAAATAAAA-AAAAA-AGCTTAGGGACTTACTTACAAATAATGGTCGAAAG
1 ATAAAAAATCTATAAAAATAAAATAAAAATAGCTTAGGGACTTACTTACAAATAATAGTCGAAAG
13497888 CTAGCTATCAATGGCGATTCTTT
66 CTAGCTATCAATGGCGATTCTTT
13497911 ATAAAAAATCTATAAAAATAAAATAAAAATAGCTTAGGGACTTACTTACAAATAATAGTCGAAAG
1 ATAAAAAATCTATAAAAATAAAATAAAAATAGCTTAGGGACTTACTTACAAATAATAGTCGAAAG
*
13497976 TTAGCTATCAATGGCGATTCTTT
66 CTAGCTATCAATGGCGATTCTTT
13497999 CTCTTTTTCT
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
86 23 0.27
87 5 0.06
88 56 0.67
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (88 bp):
ATAAAAAATCTATAAAAATAAAATAAAAATAGCTTAGGGACTTACTTACAAATAATAGTCGAAAG
CTAGCTATCAATGGCGATTCTTT
Found at i:13503908 original size:3 final size:3
Alignment explanation
Indices: 13503902--13503957 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
13503892 AGGGGTGATG
*
13503902 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CAT- ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA
13503948 TATA ATA ATA
1 -ATA ATA ATA
13503958 GTAGTCAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
2 3 0.06
3 34 0.72
4 10 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13503919 original size:12 final size:13
Alignment explanation
Indices: 13503902--13503957 Score: 59
Period size: 12 Copynumber: 4.7 Consensus size: 13
13503892 AGGGGTGATG
13503902 ATAATAATAATA-
1 ATAATAATAATAC
13503914 ATAATAATAATAC
1 ATAATAATAATAC
*
13503927 A-AACAATAATAC
1 ATAATAATAATAC
*
13503939 AT-AT-AT-ATAT
1 ATAATAATAATAC
13503949 ATAATAATA
1 ATAATAATA
13503958 GTAGTCAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 26 0.72
13 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:13504045 original size:3 final size:3
Alignment explanation
Indices: 13504032--13504109 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
13504022 GAGGGTATAT
13504032 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
13504076 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
13504110 AAAAATAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 43 0.70
4 9 0.15
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13504056 original size:12 final size:12
Alignment explanation
Indices: 13504032--13504109 Score: 72
Period size: 12 Copynumber: 6.3 Consensus size: 12
13504022 GAGGGTATAT
13504032 ATAATAT-AATA
1 ATAATATAAATA
13504043 ATAATATAAATA
1 ATAATATAAATA
13504055 ATAATATATACATGA
1 ATAATATA-A-AT-A
13504070 GA-AATA-ATAATA
1 -ATAATATA-AATA
13504082 ATAATATAAATA
1 ATAATATAAATA
* *
13504094 ATAGTAAAAATA
1 ATAATATAAATA
13504106 ATAA
1 ATAA
13504110 AAAAATAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
11 8 0.14
12 34 0.60
13 4 0.07
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:13504123 original size:9 final size:10
Alignment explanation
Indices: 13504037--13504121 Score: 76
Period size: 9 Copynumber: 9.1 Consensus size: 10
13504027 TATATATAAT
13504037 ATAAT-AATA
1 ATAATAAATA
13504046 AT-ATAAATA
1 ATAATAAATA
*
13504055 ATAATATATA
1 ATAATAAATA
* *
13504065 CATGAGAAATA
1 -ATAATAAATA
13504076 ATAAT-AATA
1 ATAATAAATA
13504085 AT-ATAAATA
1 ATAATAAATA
*
13504094 ATAGTAAA-A
1 ATAATAAATA
13504103 ATAATAAA-A
1 ATAATAAATA
13504112 A-AATAAATA
1 ATAATAAATA
13504121 A
1 A
13504122 AACAAAGTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
8 10 0.16
9 32 0.52
10 13 0.21
11 7 0.11
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (10 bp):
ATAATAAATA
Found at i:13505148 original size:68 final size:68
Alignment explanation
Indices: 13505027--13505332 Score: 454
Period size: 68 Copynumber: 4.5 Consensus size: 68
13505017 TTGATCTTTT
*
13505027 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGGA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AA
*
13505091 GAAA
65 GAGA
* * * *
13505095 TCCACTGAAACTTCAAGGAGATCTGCCGTGGCTTTTAGCCGCTCTAACACCATTTCA-GGAAGAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AA
*
13505159 GAGG
65 GAGA
* * *
13505163 TTCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAATGCCATTTCAGGGAAAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAG
13505228 AGA
66 AGA
* *
13505231 TCCGTTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAG
13505296 AGA
66 AGA
* *
13505299 TCTGCTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTT
13505333 CAAGAAGATA
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
68 211 0.98
69 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAG
AGA
Found at i:13505660 original size:87 final size:87
Alignment explanation
Indices: 13505450--13506393 Score: 1283
Period size: 87 Copynumber: 10.9 Consensus size: 87
13505440 TTTCAGCCTA
* * * * *
13505450 TTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCAATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
13505515 TAAGATCT-TGAAAATCCAGCCTG
66 TAAGATCTGT-AAATTCCA-CCTG
* * * * *
13505538 TTACCCTACTACTTAGGGGTTTAAGGTCTATCACCTTCGATCTCTTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
13505603 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* * ** * *
13505625 TTACCCTACTGTTTAGGGGTTTAAGGTCCATCACCTTTTATCTATTTCCCTAGTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* **
13505690 TAAGATCTATAAATTTAACCTG
66 TAAGATCTGTAAATTCCACCTG
* *
13505712 TTACCCTATTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
13505777 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* *
13505799 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTATTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
13505864 TAAGATTTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* * *
13505886 TTACCCTACTGCTTAGAGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
13505951 TAAGATCTGTAAATTCCACATG
66 TAAGATCTGTAAATTCCACCTG
* *
13505973 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
13506038 TAAGATTTGTAAA-TCCAACCTG
66 TAAGATCTGTAAATTCC-ACCTG
* * * * *
13506060 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCAATATGTTTCCCTACTGCTTAAGGGTT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
13506125 TAAGATCTATAAATT-TAGCCTG
66 TAAGATCTGTAAATTCCA-CCTG
* *
13506147 TTACCCTACTACTTAGGGAG-TTAAGG-CCTATCGCTTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TTACCCTACTGCTTAGGG-GTTTAAGGTCC-ATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGG
* *
13506210 GTTAAGATCTGTAAATTCAACCTA
64 GTTAAGATCTGTAAATTCCACCTG
* *
13506234 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTACCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
13506299 TAAGATTTGTAAATT-TAGCCTG
66 TAAGATCTGTAAATTCCA-CCTG
* * * * *
13506321 TTACCCTACTACTTAGGGAG-TTAAGGCCCGTTGCTTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
13506385 TCAA-ATCTG
65 TTAAGATCTG
13506394 CTATCTTCAA
Statistics
Matches: 764, Mismatches: 81, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
86 11 0.01
87 674 0.88
88 78 0.10
89 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (87 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATTCCACCTG
Done.