Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 22 of 210
Found at i:7421352 original size:12 final size:12
Alignment explanation
Indices: 7421335--7421371 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7421325 ATAATTTTAG
7421335 TGTGTATTATTT
1 TGTGTATTATTT
7421347 TGTGTATTATTT
1 TGTGTATTATTT
* *
7421359 TGAGTATAATTT
1 TGTGTATTATTT
7421371 T
1 T
7421372 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:7427655 original size:19 final size:19
Alignment explanation
Indices: 7427620--7427657 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7427610 TTTAAACACA
7427620 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
7427639 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
7427658 ACCTTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:7427711 original size:12 final size:12
Alignment explanation
Indices: 7427696--7427831 Score: 60
Period size: 12 Copynumber: 11.7 Consensus size: 12
7427686 CTCTTCTTCT
7427696 TCTTCTTTTTTC
1 TCTTCTTTTTTC
**
7427708 TCTTCTCCTTTC
1 TCTTCTTTTTTC
7427720 -C--CTTTCTTTC
1 TCTTCTTT-TTTC
*
7427730 -CTTCTTTCTT-
1 TCTTCTTTTTTC
7427740 TC--CTTTTTTC
1 TCTTCTTTTTTC
**
7427750 TCTTCTCCTTTC
1 TCTTCTTTTTTC
7427762 T-TTCCTTTTTTC
1 TCTT-CTTTTTTC
**
7427774 TCTTCTCCTTTC
1 TCTTCTTTTTTC
7427786 -CTTTCTTTCTTTCC
1 TC-TTCTTT-TTT-C
*
7427800 TCTCCTTTCTTTC
1 TCTTCTTT-TTTC
7427813 T-TTCTTTCTTTC
1 TCTTCTTT-TTTC
7427825 T-TTCTTT
1 TCTTCTTT
7427832 CTACCCCCAC
Statistics
Matches: 95, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
9 8 0.08
10 7 0.07
11 7 0.07
12 55 0.58
13 7 0.07
14 10 0.11
15 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TCTTCTTTTTTC
Found at i:7427738 original size:4 final size:4
Alignment explanation
Indices: 7427721--7427833 Score: 99
Period size: 4 Copynumber: 27.5 Consensus size: 4
7427711 TCTCCTTTCC
* *
7427721 CTTT CTTT CCTT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CTTT CCTTT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT CTTT -CTTT
* *
7427770 -TTT CTCTT C-TC CTTT CCTTT CTTT CTTT CCTCTC CTTT CTTT CTTT
1 CTTT CT-TT CTTT CTTT -CTTT CTTT CTTT -CT-TT CTTT CTTT CTTT
7427816 CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CT
7427834 ACCCCCACCA
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
3 10 0.11
4 57 0.63
5 22 0.24
6 1 0.01
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:7427749 original size:24 final size:25
Alignment explanation
Indices: 7427721--7427833 Score: 116
Period size: 24 Copynumber: 4.7 Consensus size: 25
7427711 TCTCCTTTCC
7427721 CTTTCTTTCCTTCTTTCTTTCCTTT
1 CTTTCTTTCCTTCTTTCTTTCCTTT
*
7427746 -TTTCTCTT-CTCCTTTCTTTCCTTT
1 CTTTCT-TTCCTTCTTTCTTTCCTTT
*
7427770 -TTTC--T-CTTC-TCCTTTCCTTT
1 CTTTCTTTCCTTCTTTCTTTCCTTT
7427790 CTTTCTTTCCTCTCCTTTCTTT-CTTT
1 CTTTCTTTCCT-T-CTTTCTTTCCTTT
*
7427816 CTTTCTTTCTTTCTTTCT
1 CTTTCTTTCCTTCTTTCT
7427834 ACCCCCACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
20 10 0.13
21 8 0.11
23 1 0.01
24 32 0.43
25 4 0.05
26 15 0.20
27 5 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (25 bp):
CTTTCTTTCCTTCTTTCTTTCCTTT
Found at i:7427911 original size:18 final size:18
Alignment explanation
Indices: 7427888--7427931 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
7427878 TGGCATTGGC
7427888 ACCATTGGTGCCGCCAAT
1 ACCATTGGTGCCGCCAAT
7427906 ACCATTGGTGCCGCCAAT
1 ACCATTGGTGCCGCCAAT
7427924 ACCATTGG
1 ACCATTGG
7427932 CGTGACTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (18 bp):
ACCATTGGTGCCGCCAAT
Found at i:7428015 original size:28 final size:28
Alignment explanation
Indices: 7427984--7428058 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
7427974 GTTTTGTTTT
*
7427984 TTTATACATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
* *
7428012 TTTATATGTTTTGGTAAATAAAAAAGAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
7428040 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
7428059 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.41
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:7437093 original size:27 final size:27
Alignment explanation
Indices: 7437055--7437190 Score: 236
Period size: 27 Copynumber: 5.0 Consensus size: 27
7437045 TAGTATTGGC
7437055 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
7437082 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
7437109 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
7437136 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
7437163 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
7437190 G
1 G
7437191 TCATACTGAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.16, C:0.21, G:0.40, T:0.24
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:7437204 original size:27 final size:27
Alignment explanation
Indices: 7437055--7437211 Score: 203
Period size: 27 Copynumber: 5.8 Consensus size: 27
7437045 TAGTATTGGC
*
7437055 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
* *
7437082 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
7437109 GCCTATCT-AGGAGGCGCCAATGGTGGT
1 GCCTATCTGA-GAGGCGCCAATGGTGGT
* *
7437136 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
7437163 GCCTATCT-AGGAGGCGCCAATGGTGGT
1 GCCTATCTGA-GAGGCGCCAATGGTGGT
* *
7437190 GTC-ATACTGAAAGGCGCCAATG
1 GCCTAT-CTGAGAGGCGCCAATG
7437212 CTATGATTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.02
27 113 0.97
28 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.23
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGT
Found at i:7437205 original size:81 final size:81
Alignment explanation
Indices: 7437055--7437211 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
7437045 TAGTATTGGC
* * * *
7437055 GCCTATCTGGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGTGCCTATCTAGG
1 GCCTATCTGGGAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCATATCTAGA
7437120 AGGCGCCAATGGTGGT
66 AGGCGCCAATGGTGGT
*
7437136 GCCTATTTGGGAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGTCATA-CT-G
1 GCCTATCTGGGAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTG-CATATCTAG
7437199 AAAGGCGCCAATG
65 -AAGGCGCCAATG
7437212 CTATGATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.94
82 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.23
Consensus pattern (81 bp):
GCCTATCTGGGAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCATATCTAGA
AGGCGCCAATGGTGGT
Found at i:7437211 original size:54 final size:54
Alignment explanation
Indices: 7437055--7437190 Score: 263
Period size: 54 Copynumber: 2.5 Consensus size: 54
7437045 TAGTATTGGC
*
7437055 GCCTATCTGGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTAGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
7437109 GCCTATCTAGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTAGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
7437163 GCCTATCTAGGAGGCGCCAATGGTGGTG
1 GCCTATCTAGGAGGCGCCAATGGTGGTG
7437191 TCATACTGAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.16, C:0.21, G:0.40, T:0.24
Consensus pattern (54 bp):
GCCTATCTAGGAGGCGCCAATGGTGGTGCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:7437315 original size:18 final size:20
Alignment explanation
Indices: 7437273--7437319 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
7437263 GAAACGGAAG
7437273 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
7437293 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
7437311 AAAGAAGAA
1 AAAGAAGAA
7437320 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:7437322 original size:22 final size:23
Alignment explanation
Indices: 7437269--7437322 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
7437259 TACAGAAACG
*
7437269 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
7437293 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
7437314 GAAGAAAAA
1 GAAGAAAAA
7437323 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:7440981 original size:16 final size:15
Alignment explanation
Indices: 7440950--7440991 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
7440940 ACAAAATCAA
*
7440950 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
7440965 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
7440981 ATAAAAATTAA
1 ATAAAAGTTAA
7440992 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:7441545 original size:17 final size:16
Alignment explanation
Indices: 7441508--7441547 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
7441498 TTCTTTCTTT
7441508 CTTCTC-CTTCTTCTC
1 CTTCTCTCTTCTTCTC
7441523 C-T-TCTCTTCTTCTC
1 CTTCTCTCTTCTTCTC
7441537 CTTTCTCTCTT
1 C-TTCTCTCTT
7441548 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 1 0.05
16 1 0.05
17 6 0.29
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.57
Consensus pattern (16 bp):
CTTCTCTCTTCTTCTC
Found at i:7441547 original size:14 final size:14
Alignment explanation
Indices: 7441508--7441544 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
7441498 TTCTTTCTTT
7441508 CTTCTCCTTCTTCTC
1 CTTCT-CTTCTTCTC
7441523 CTTCTCTTCTTCTC
1 CTTCTCTTCTTCTC
7441537 CTTTCTCT
1 C-TTCTCT
7441545 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (14 bp):
CTTCTCTTCTTCTC
Found at i:7441736 original size:27 final size:27
Alignment explanation
Indices: 7441674--7441739 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
7441664 GCAGAGGACA
*
7441674 CCATTGGCACCTCTCCATGAGGCTCCT
1 CCATTGGCGCCTCTCCATGAGGCTCCT
* *
7441701 TCATTGGCGCCTCTGCATGAGGCTCCT
1 CCATTGGCGCCTCTCCATGAGGCTCCT
7441728 CCATTGGCGCCT
1 CCATTGGCGCCT
7441740 ACTAGACAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.12, C:0.38, G:0.23, T:0.27
Consensus pattern (27 bp):
CCATTGGCGCCTCTCCATGAGGCTCCT
Found at i:7443364 original size:21 final size:20
Alignment explanation
Indices: 7443334--7443372 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7443324 GAGGAGAATG
*
7443334 GAACAAAAAAGAAAGTTAAAA
1 GAACAAAAAA-AAAATTAAAA
*
7443355 GAACATAAAAAAAATTAA
1 GAACAAAAAAAAAATTAA
7443373 GTTGCTCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (20 bp):
GAACAAAAAAAAAATTAAAA
Found at i:7444897 original size:2 final size:2
Alignment explanation
Indices: 7444890--7444916 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7444880 TTGTTTCCTT
7444890 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 T
7444917 TATTTTACTA
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:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7445051 original size:84 final size:85
Alignment explanation
Indices: 7444900--7445060 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 85
7444890 TATATATATA
** **
7444900 TATATATATATATATATTATTTTACTATATTCTACTGAACACTCGTCATCACTTTAACTTTGGTT
1 TATATATATATATATATTATTTTACTATATTCTACTGAACACTCGTCATCACCCTAACTTTACTT
7444965 GTGG-GATCTAAAAACTTTTT
66 GTGGAG-TCTAAAAACTTTTT
* *
7444985 TATATATATAT-TTTATTATTTTATTATA-TCTTA-TAGAACACTCGTCATCACCCTAA-TCTTA
1 TATATATATATATATATTATTTTACTATATTC-TACT-GAACACTCGTCATCACCCTAACT-TTA
7445046 CTTGTGGAGTCTAAA
63 CTTGTGGAGTCTAAA
7445061 CATTCCACTC
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 50 0.76
85 12 0.18
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (85 bp):
TATATATATATATATATTATTTTACTATATTCTACTGAACACTCGTCATCACCCTAACTTTACTT
GTGGAGTCTAAAAACTTTTT
Found at i:7445787 original size:16 final size:16
Alignment explanation
Indices: 7445754--7445783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7445744 TGTGTCTCAT
7445754 TTCTTTTATATATTTA
1 TTCTTTTATATATTTA
7445770 TTCTTTTA-ATATTT
1 TTCTTTTATATATTT
7445784 TATTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTTATATATTTA
Found at i:7446181 original size:16 final size:16
Alignment explanation
Indices: 7446160--7446202 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
7446150 ATTATTTTAA
7446160 TTGGTCACTCAACATT
1 TTGGTCACTCAACATT
**
7446176 TTGGTCACT-TTCATT
1 TTGGTCACTCAACATT
*
7446191 TTGGTCAATCAA
1 TTGGTCACTCAA
7446203 TTTTTTTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (16 bp):
TTGGTCACTCAACATT
Found at i:7447232 original size:2 final size:2
Alignment explanation
Indices: 7447225--7447262 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7447215 CCAGAACTTA
7447225 AT AT 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 AT AT
7447263 GCCACTTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7447792 original size:40 final size:39
Alignment explanation
Indices: 7447737--7447870 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 39
7447727 AAAAGGTTGC
*
7447737 GCCCAGCGCTAGTTGGATTA-ACCGACAATAATAATTGTGA
1 GCCCAGCTCTAGTTGGA-TAGACCGA-AATAATAATTGTGA
* *
7447777 GCCCAGCTCTAGTTGGATAGACC-AAA-AAT-ATTTTCA
1 GCCCAGCTCTAGTTGGATAGACCGAAATAATAATTGTGA
* *
7447813 -CCCAG-TGCTAGTCGGATATG-CCGATGATAATAATTGTGA
1 GCCCAGCT-CTAGTTGGATA-GACCGA-AATAATAATTGTGA
*
7447852 GCCTAGCTCTAGTTGGATA
1 GCCCAGCTCTAGTTGGATA
7447871 AACTAACGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
34 1 0.01
35 17 0.22
36 7 0.09
37 4 0.05
38 5 0.07
39 8 0.11
40 33 0.43
41 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (39 bp):
GCCCAGCTCTAGTTGGATAGACCGAAATAATAATTGTGA
Found at i:7447892 original size:75 final size:76
Alignment explanation
Indices: 7447733--7447914 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 76
7447723 ACAGAAAAGG
* *
7447733 TTGCGCCCAGCGCTAGTTGGAT-TAACCGACAATAATAATTGTGAGCCCAGCTCTAGTTGGATAG
1 TTGCGCCCAGCGCTAGTCGGATATAACCGACAATAATAATTGTGAGCCCAGCTCTAGTTGGATAA
7447797 ACCAAAAATAT
66 ACCAAAAATAT
* * * * ** *
7447808 TTTCACCCAGTGCTAGTCGGATAT-GCCGATGATAATAATTGTGAGCCTAGCTCTAGTTGGATAA
1 TTGCGCCCAGCGCTAGTCGGATATAACCGACAATAATAATTGTGAGCCCAGCTCTAGTTGGATAA
* ***
7447872 ACTAACGGTGA-
66 ACCAAAAAT-AT
7447883 TTGCGCCCAGCGCTAGTCGGATA-AACCGACAA
1 TTGCGCCCAGCGCTAGTCGGATATAACCGACAA
7447915 ATGTGTGCCC
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
75 83 0.98
76 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (76 bp):
TTGCGCCCAGCGCTAGTCGGATATAACCGACAATAATAATTGTGAGCCCAGCTCTAGTTGGATAA
ACCAAAAATAT
Found at i:7454382 original size:41 final size:35
Alignment explanation
Indices: 7454337--7454427 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
7454327 TATGAATGCA
7454337 TTTTAATTTTAATATTTTGAATTTCTATGAATTTTTTATAT
1 TTTTAATTTTAA-ATTTTG-ATTT-TAT--ATTTTTTAT-T
*
7454378 TTTTAATTTT-AATTTTGATTTTATTTTTTTTATT
1 TTTTAATTTTAAATTTTGATTTTATATTTTTTATT
7454412 TTTATAATTTTAAATT
1 TTT-TAATTTTAAATT
7454428 ATTTGTTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
34 4 0.09
35 15 0.32
36 4 0.09
37 3 0.06
38 4 0.09
39 6 0.13
40 1 0.02
41 10 0.21
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (35 bp):
TTTTAATTTTAAATTTTGATTTTATATTTTTTATT
Found at i:7455478 original size:34 final size:37
Alignment explanation
Indices: 7455411--7455482 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
7455401 GATCATAACT
7455411 TACATAAATACATATCATAACTTACATAACTTACATAA
1 TACATAAATACATATCATAAC-TACATAACTTACATAA
*
7455449 TACATAAATATATATCAT-A-T-CATAACTTACATAA
1 TACATAAATACATATCATAACTACATAACTTACATAA
7455483 AACTTTGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
34 14 0.42
35 1 0.03
37 1 0.03
38 17 0.52
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (37 bp):
TACATAAATACATATCATAACTACATAACTTACATAA
Found at i:7458024 original size:22 final size:21
Alignment explanation
Indices: 7457978--7458024 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
7457968 ATAATATAGA
*
7457978 TTTAATAAATGCAGAAAAATCT
1 TTTAATAAATGAAGAAAAA-CT
7458000 TTTAATAAATAGAAAGAAAAA-T
1 TTTAATAAAT-G-AAGAAAAACT
7458022 TTT
1 TTT
7458025 GAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (21 bp):
TTTAATAAATGAAGAAAAACT
Found at i:7476115 original size:54 final size:54
Alignment explanation
Indices: 7476026--7476133 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
7476016 TGGATTTATA
* * * *
7476026 CACTTAATAATTTTAAATCAAATTTTATTTAAAAAAGGTATTTTAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
*
7476080 CACTTAATAATCTTAAATCGAATTTGA-TTAGAAAAAGGGATTTCAATCTTAAAT
1 CACTTAATAATCTTAAATCAAATTTGATTTA-AAAAAGGGATTTCAATCTTAAAT
7476134 TAGTGACGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.06
54 45 0.94
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (54 bp):
CACTTAATAATCTTAAATCAAATTTGATTTAAAAAAGGGATTTCAATCTTAAAT
Found at i:7484787 original size:6 final size:6
Alignment explanation
Indices: 7484776--7484828 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
7484766 TTGAGCTCTT
*
7484776 TTTTTC TTTTTC --TTT- TTTTTC TTTTCCC TTTTTC TTTTTTC TTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC -TTTTTC TTTTTC
7484822 TTTTTC T
1 TTTTTC T
7484829 ACTGTTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
4 3 0.08
5 8 0.21
6 17 0.44
7 11 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:7484792 original size:7 final size:7
Alignment explanation
Indices: 7484775--7484826 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
7484765 CTTGAGCTCT
7484775 TTTTTTC
1 TTTTTTC
7484782 -TTTTTC
1 TTTTTTC
7484788 TTTTTT-
1 TTTTTTC
7484794 TTCTTTTCC
1 TT-TTTT-C
*
7484803 CTTTTTC
1 TTTTTTC
7484810 TTTTTTC
1 TTTTTTC
7484817 TTTTTT-
1 TTTTTTC
7484823 TTTT
1 TTTT
7484827 CTACTGTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 12 0.31
7 22 0.56
8 4 0.10
9 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:7484794 original size:15 final size:15
Alignment explanation
Indices: 7484774--7484824 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
7484764 ACTTGAGCTC
7484774 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
* *
7484789 TTTTTTTCTTTTCCC
1 TTTTTTTCTTTTTCT
*
7484804 TTTTTCT-TTTTTCT
1 TTTTTTTCTTTTTCT
7484818 TTTTTTT
1 TTTTTTT
7484825 TTCTACTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:7484961 original size:13 final size:13
Alignment explanation
Indices: 7484943--7484967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7484933 GCTGCTGTTG
7484943 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
7484956 TTTTTTTCTTTT
1 TTTTTTTCTTTT
7484968 TTCTGCTGAC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:7485040 original size:19 final size:21
Alignment explanation
Indices: 7485001--7485040 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
7484991 GGATGCCTAC
*
7485001 TGCTGGGCTGTCTGGCCTGCT
1 TGCTGGGCTGTCTGGCATGCT
7485022 TGCTGGG-TG-CTGGCATGCT
1 TGCTGGGCTGTCTGGCATGCT
7485041 GTTAAGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.03, C:0.25, G:0.40, T:0.33
Consensus pattern (21 bp):
TGCTGGGCTGTCTGGCATGCT
Found at i:7485211 original size:6 final size:6
Alignment explanation
Indices: 7485202--7485277 Score: 68
Period size: 6 Copynumber: 12.7 Consensus size: 6
7485192 TTGCTCTTCT
* * *
7485202 TTTTTC TTTTTA TTTTTC TTTCTT- TTTTTC TTTTAT- TTTCTC TCTTTC
1 TTTTTC TTTTTC TTTTTC TTT-TTC TTTTTC TTTT-TC TTTTTC TTTTTC
*
7485250 TTCTTCC TTTTTC TTTTTC TTTTT- TTTT
1 TT-TTTC TTTTTC TTTTTC TTTTTC TTTT
7485278 CAAACCCTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
5 7 0.12
6 42 0.74
7 8 0.14
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:7485218 original size:26 final size:25
Alignment explanation
Indices: 7485182--7485278 Score: 89
Period size: 26 Copynumber: 4.0 Consensus size: 25
7485172 CGACTGTATA
7485182 TTTTTATTTTTTGCTCTTCTTTTTTC
1 TTTTTATTTTTT-CTCTTCTTTTTTC
7485208 TTTTTA-TTTTTCT-TTCTTTTTT-
1 TTTTTATTTTTTCTCTTCTTTTTTC
* * *
7485230 TCTTTTATTTTCTCTCTTTCTTCTTCC
1 T-TTTTATTTTTTCTC-TTCTTTTTTC
*
7485257 TTTTT-CTTTTTCT-TT-TTTTTTC
1 TTTTTATTTTTTCTCTTCTTTTTTC
7485279 AAACCCTAGC
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
22 6 0.10
23 16 0.27
24 8 0.14
25 11 0.19
26 17 0.29
27 1 0.02
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTTTCTCTTCTTTTTTC
Found at i:7485251 original size:49 final size:48
Alignment explanation
Indices: 7485183--7485277 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 48
7485173 GACTGTATAT
* * *
7485183 TTTTATTTTTTGCTCTTCTTTTTTCTTTTTATTTTTCTTTCTTTTTTTC
1 TTTTATTTTCTGCTCTTCTTCTTCCTTTTTATTTTTCTTT-TTTTTTTC
*
7485232 TTTTATTTTCT-CTCTTTCTTCTTCCTTTTTCTTTTTCTTTTTTTTT
1 TTTTATTTTCTGCTC-TTCTTCTTCCTTTTTATTTTTCTTTTTTTTT
7485278 CAAACCCTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
48 9 0.22
49 32 0.78
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (48 bp):
TTTTATTTTCTGCTCTTCTTCTTCCTTTTTATTTTTCTTTTTTTTTTC
Found at i:7485380 original size:14 final size:14
Alignment explanation
Indices: 7485363--7485406 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
7485353 CCTCCCCCTT
7485363 CTTTTCTTCTTTCC
1 CTTTTCTTCTTTCC
*
7485377 CTTTT-TT-TTTCT
1 CTTTTCTTCTTTCC
7485389 CTTTTCTTCTTTCC
1 CTTTTCTTCTTTCC
7485403 CTTT
1 CTTT
7485407 CTCTCCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 4 0.15
14 13 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
CTTTTCTTCTTTCC
Found at i:7485927 original size:29 final size:30
Alignment explanation
Indices: 7485883--7486000 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 30
7485873 TAGAGGACAC
*
7485883 AAAACTTTTGAGGTCAAAATGTAATTTTAAG
1 AAAA-TTTAGAGGTCAAAATGTAATTTTAAG
*
7485914 AAAATTTAG-GGTCAAAATATAATTTTAA-
1 AAAATTTAGAGGTCAAAATGTAATTTTAAG
* *
7485942 AAAGTTGAGAGGTCAAAATGTAATTTT-AG
1 AAAATTTAGAGGTCAAAATGTAATTTTAAG
* *
7485971 -AAAGTTAGGTGGTCAAAATGTAAATTTTAA
1 AAAATTTA-GAGGTCAAAATGT-AATTTTAA
7486001 ATTTTGTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
28 12 0.16
29 46 0.63
30 10 0.14
31 5 0.07
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (30 bp):
AAAATTTAGAGGTCAAAATGTAATTTTAAG
Found at i:7488347 original size:14 final size:15
Alignment explanation
Indices: 7488314--7488347 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7488304 TAAGTTTTAT
7488314 AGATTATGGAATTAG
1 AGATTATGGAATTAG
7488329 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
7488343 GGATT
1 AGATT
7488348 TTTGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:7488394 original size:7 final size:7
Alignment explanation
Indices: 7488384--7488427 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
7488374 GGTTTATAGA
7488384 TTAGGGG
1 TTAGGGG
7488391 TTAGGGG
1 TTAGGGG
*
7488398 TTATGGG
1 TTAGGGG
7488405 TTAGGGG
1 TTAGGGG
7488412 TTA--GG
1 TTAGGGG
7488417 TTAGGGG
1 TTAGGGG
7488424 TTAG
1 TTAG
7488428 ATGTTAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:7488433 original size:14 final size:12
Alignment explanation
Indices: 7488389--7488427 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
7488379 ATAGATTAGG
7488389 GGTTAGGGGTTA
1 GGTTAGGGGTTA
7488401 TGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
7488415 GGTTAGGGGTTA
1 GGTTAGGGGTTA
7488427 G
1 G
7488428 ATGTTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 13 0.52
14 12 0.48
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.33
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:7488440 original size:26 final size:26
Alignment explanation
Indices: 7488389--7488441 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7488379 ATAGATTAGG
* *
7488389 GGTTAGGGGTTATGGGTTAGGGGTTA
1 GGTTAGGGGTTATGGGTTAAGAGTTA
*
7488415 GGTTAGGGGTTA-GATGTTAAGAGTTA
1 GGTTAGGGGTTATG-GGTTAAGAGTTA
7488441 G
1 G
7488442 AGATTTAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (26 bp):
GGTTAGGGGTTATGGGTTAAGAGTTA
Found at i:7488539 original size:7 final size:7
Alignment explanation
Indices: 7488527--7488595 Score: 68
Period size: 7 Copynumber: 9.9 Consensus size: 7
7488517 TAAATAAGGT
7488527 TTAGGGG
1 TTAGGGG
7488534 TTAGGGG
1 TTAGGGG
*
7488541 TTAGAGG
1 TTAGGGG
* *
7488548 TCATGGG
1 TTAGGGG
*
7488555 TTAAGGGT
1 TT-AGGGG
7488563 TTA-GGG
1 TTAGGGG
*
7488569 TTAAGGG
1 TTAGGGG
*
7488576 TTAGTGG
1 TTAGGGG
7488583 TTAGGGG
1 TTAGGGG
7488590 TTAGGG
1 TTAGGG
7488596 ATTGAGTTAT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
6 5 0.10
7 39 0.80
8 5 0.10
ACGTcount: A:0.19, C:0.01, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:7488845 original size:21 final size:21
Alignment explanation
Indices: 7488792--7488845 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
7488782 TAAAGATTAT
7488792 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
7488813 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
7488834 TAATTTAAAATT
1 TAATTTAAAATT
7488846 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:7488865 original size:20 final size:20
Alignment explanation
Indices: 7488840--7488884 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7488830 ATAATAATTT
**
7488840 AAAATTGTAAAAATTGTAAA
1 AAAATTGTAAAAATTACAAA
*
7488860 AAAATTGTCAAAATTACAAA
1 AAAATTGTAAAAATTACAAA
7488880 AAAAT
1 AAAAT
7488885 GAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAATTGTAAAAATTACAAA
Found at i:7488915 original size:19 final size:21
Alignment explanation
Indices: 7488878--7488921 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7488868 CAAAATTACA
7488878 AAAAAATGAAAATAAAAAA-T
1 AAAAAATGAAAATAAAAAACT
7488898 AAAAAA-G-AAATAAAAAAACT
1 AAAAAATGAAAAT-AAAAAACT
7488918 AAAA
1 AAAA
7488922 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (21 bp):
AAAAAATGAAAATAAAAAACT
Found at i:7488990 original size:31 final size:31
Alignment explanation
Indices: 7488955--7489018 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
7488945 TAAATATTAC
7488955 TTAAAAAACTGAGATTGATAATTTTATCTAA
1 TTAAAAAACTGAGATTGATAATTTTATCTAA
7488986 TTAAAAAACTGAGATTGATAATTTTATCTAA
1 TTAAAAAACTGAGATTGATAATTTTATCTAA
7489017 TT
1 TT
7489019 TTTTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (31 bp):
TTAAAAAACTGAGATTGATAATTTTATCTAA
Found at i:7489659 original size:198 final size:198
Alignment explanation
Indices: 7489398--7489823 Score: 685
Period size: 198 Copynumber: 2.2 Consensus size: 198
7489388 GCCTAATATT
** * * *
7489398 TAGTGGCGCTTATGTATAAATGCCGCAATTTACAGAAATTGTTTAGGAAAACGGCTCCGTTTTCT
1 TAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAGGAAAACGGCTCCGTTTTCT
*
7489463 TATTTAAC-TTTAGTGGCGCTTTTAGTAAACGCC-GAAAAATGGTTTTAATTTTTATGGAGACGA
66 TATTT-ACTTTTAGTGGCGCTTTTAGTAAACGCCACAAAAAT-GTTTTAATTTTTATGGAGACGA
* * * *
7489526 TGCCGTTTTCTCTAAAACGCCATGAGTTTTAGTTAACTAATCGGGAAACGACAGCGTTTGATCAT
129 TGCCATTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCAT
7489591 ATTAC
194 ATTAC
* *
7489596 TAGTGGTGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAGGAAAACGGCTTCGTTTTCT
1 TAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAGGAAAACGGCTCCGTTTTCT
7489661 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCACAAAAATGTTTTAATTTTTATGGAGACGATG
66 TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCACAAAAATGTTTTAATTTTTATGGAGACGATG
* *
7489726 TCATTTTCTCTAAAACGCAATGACTTTGAGTTAACTGATCGGGAAACGACAGCGTTTGATCATAT
131 CCATTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCATAT
7489791 TAC
196 TAC
*
7489794 TAGTGGCGCTTGTATATAAACGCCGCAAAT
1 TAGTGGCGCTGGTATATAAACGCCGCAAAT
7489824 GGGTTAATTA
Statistics
Matches: 210, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
197 2 0.01
198 202 0.96
199 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
TAGTGGCGCTGGTATATAAACGCCGCAAATTACAGAAATTGTTTAGGAAAACGGCTCCGTTTTCT
TATTTACTTTTAGTGGCGCTTTTAGTAAACGCCACAAAAATGTTTTAATTTTTATGGAGACGATG
CCATTTTCTCTAAAACGCAATGACTTTGAGTTAACTAATCGGGAAACGACAGCGTTTGATCATAT
TAC
Found at i:7491122 original size:18 final size:19
Alignment explanation
Indices: 7491099--7491142 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7491089 CAGAAATTTC
*
7491099 TGTTTCTCTAGCA-TGTTA
1 TGTTTCTCTACCATTGTTA
* *
7491117 TGTTTCTGTACCATTTTTA
1 TGTTTCTCTACCATTGTTA
7491136 TGTTTCT
1 TGTTTCT
7491143 TTATTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (19 bp):
TGTTTCTCTACCATTGTTA
Found at i:7491158 original size:7 final size:7
Alignment explanation
Indices: 7491146--7491254 Score: 146
Period size: 7 Copynumber: 15.3 Consensus size: 7
7491136 TGTTTCTTTA
7491146 TTTTCTG
1 TTTTCTG
7491153 TTTTCTG
1 TTTTCTG
7491160 TTTTCTG
1 TTTTCTG
7491167 TTTTCTG
1 TTTTCTG
* *
7491174 TTTTATAT
1 TTTTCT-G
7491182 TTTTCTG
1 TTTTCTG
7491189 TTTTCTG
1 TTTTCTG
*
7491196 TTTTCTA
1 TTTTCTG
7491203 TTTTCTG
1 TTTTCTG
7491210 TTTTCTG
1 TTTTCTG
*
7491217 TTTTCTA
1 TTTTCTG
*
7491224 TTTTTTG
1 TTTTCTG
7491231 TTTTCTG
1 TTTTCTG
*
7491238 TTTTGCTA
1 TTTT-CTG
7491246 TTTTCTG
1 TTTTCTG
7491253 TT
1 TT
7491255 GAATGAAGTG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
7 77 0.88
8 11 0.12
ACGTcount: A:0.05, C:0.12, G:0.11, T:0.72
Consensus pattern (7 bp):
TTTTCTG
Found at i:7491172 original size:21 final size:21
Alignment explanation
Indices: 7491146--7491254 Score: 173
Period size: 21 Copynumber: 5.1 Consensus size: 21
7491136 TGTTTCTTTA
*
7491146 TTTTCTGTTTTCTGTTTTCTG
1 TTTTCTGTTTTCTATTTTCTG
*
7491167 TTTTCTGTTTTATATTTTTCTG
1 TTTTCTGTTTTCTA-TTTTCTG
7491189 TTTTCTGTTTTCTATTTTCTG
1 TTTTCTGTTTTCTATTTTCTG
*
7491210 TTTTCTGTTTTCTATTTTTTG
1 TTTTCTGTTTTCTATTTTCTG
7491231 TTTTCTGTTTTGCTATTTTCTG
1 TTTTCTGTTTT-CTATTTTCTG
7491253 TT
1 TT
7491255 GAATGAAGTG
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
21 50 0.62
22 31 0.38
ACGTcount: A:0.05, C:0.12, G:0.11, T:0.72
Consensus pattern (21 bp):
TTTTCTGTTTTCTATTTTCTG
Found at i:7491178 original size:43 final size:42
Alignment explanation
Indices: 7491131--7491254 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 42
7491121 TCTGTACCAT
* * *
7491131 TTTTATGTTTCTTTATTTTCTGTTTTCTGTTTTCTGTTTTCTG
1 TTTTATATTT-TTTGTTTTCTGTTTTCTATTTTCTGTTTTCTG
7491174 TTTTATATTTTTCTGTTTTCTGTTTTCTATTTTCTGTTTTCTG
1 TTTTATATTTTT-TGTTTTCTGTTTTCTATTTTCTGTTTTCTG
*
7491217 TTTTCTATTTTTTGTTTTCTGTTTTGCTATTTTCTGTT
1 TTTTATATTTTTTGTTTTCTGTTTT-CTATTTTCTGTT
7491255 GAATGAAGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
42 15 0.20
43 60 0.80
ACGTcount: A:0.06, C:0.11, G:0.10, T:0.73
Consensus pattern (42 bp):
TTTTATATTTTTTGTTTTCTGTTTTCTATTTTCTGTTTTCTG
Found at i:7492019 original size:9 final size:9
Alignment explanation
Indices: 7491995--7492245 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
7491985 TATGTACAAG
7491995 AACTTACAT
1 AACTTACAT
* *
7492004 AATTTACAC
1 AACTTACAT
7492013 AACTTACAT
1 AACTTACAT
*
7492022 AACCTACAT
1 AACTTACAT
7492031 AACTTACAT
1 AACTTACAT
7492040 AA--TACA-
1 AACTTACAT
*
7492046 AAGCTTACGT
1 AA-CTTACAT
* *
7492056 AACTGAAAT
1 AACTTACAT
* *
7492065 AGCTTACAC
1 AACTTACAT
7492074 AACTTACAT
1 AACTTACAT
7492083 AACTTACAT
1 AACTTACAT
*
7492092 AACTTACAG
1 AACTTACAT
* *
7492101 AAGTTATAT
1 AACTTACAT
*
7492110 AATACATA-AT
1 -A-ACTTACAT
7492120 AACTTAC--
1 AACTTACAT
7492127 AACTTACAT
1 AACTTACAT
*
7492136 AACATACAT
1 AACTTACAT
* **
7492145 TACTTTGAT
1 AACTTACAT
7492154 AACTTACAT
1 AACTTACAT
*
7492163 AAGTTACAT
1 AACTTACAT
*
7492172 AA--TACAC
1 AACTTACAT
7492179 AACTTACAT
1 AACTTACAT
** *
7492188 AGTTTACTT
1 AACTTACAT
*
7492197 AA--TACAA
1 AACTTACAT
*
7492204 AACTTAAAT
1 AACTTACAT
7492213 AACTT--AT
1 AACTTACAT
*
7492220 ACACGTACAT
1 A-ACTTACAT
7492230 AACTTACAT
1 AACTTACAT
*
7492239 AATTTAC
1 AACTTAC
7492246 TTAATACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 25 0.14
8 7 0.04
9 136 0.75
10 8 0.04
11 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:7492188 original size:25 final size:25
Alignment explanation
Indices: 7492154--7492253 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
7492144 TTACTTTGAT
* * *
7492154 AACTTACATAAGTTACATAATACAC
1 AACTTACATAACTTACTTAATACAA
**
7492179 AACTTACATAGTTTACTTAATACAA
1 AACTTACATAACTTACTTAATACAA
* *
7492204 AACTTAAATAACTTA--TACACGTACAT
1 AACTTACATAACTTACTTA-A--TACAA
*
7492230 AACTTACATAATTTACTTAATACA
1 AACTTACATAACTTACTTAATACA
7492254 TAAATATATA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
23 2 0.03
24 1 0.02
25 37 0.62
26 17 0.28
27 1 0.02
28 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (25 bp):
AACTTACATAACTTACTTAATACAA
Found at i:7497758 original size:12 final size:12
Alignment explanation
Indices: 7497741--7497780 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
7497731 AGCAGATGCC
7497741 GCAGCGAGAGAA
1 GCAGCGAGAGAA
7497753 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
7497765 GCAACGATAGAA
1 GCAGCGAGAGAA
7497777 GCAG
1 GCAG
7497781 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:7498250 original size:42 final size:42
Alignment explanation
Indices: 7498203--7498554 Score: 435
Period size: 42 Copynumber: 8.3 Consensus size: 42
7498193 TTTGTGAAAC
**
7498203 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCT
* * * *
7498245 AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCT
*
7498288 AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
7498330 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* * * *
7498371 AAGCGCCGCTAAAGAACATGATCTTTTGCTGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* * * *
7498413 AAGCGCCACTAAAGAACATGATCTTTTGCGGTGTTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCT
* *
7498456 AAGCGCCGTTAAAGAACATGATCTTTAGCGGCATTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
*
7498498 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC-CT
*
7498541 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
7498555 TTAGCGACGT
Statistics
Matches: 275, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
41 39 0.14
42 152 0.55
43 83 0.30
44 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:7498536 original size:85 final size:85
Alignment explanation
Indices: 7498203--7498554 Score: 430
Period size: 85 Copynumber: 4.2 Consensus size: 85
7498193 TTTGTGAAAC
* ** * *
7498203 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCATTTTT-TCCTAAGCGCCGCTAAAGAACATG
* * *
7498265 A-CTTTTAGAGGCGTTTTCTTCCA
63 ATC-TTTAGCGGCGTTTTTTTCCT
* *
7498288 AAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
7498353 TTTAGCGGCG--TTTTTCCT
66 TTTAGCGGCGTTTTTTTCCT
* * * *
7498371 AAGCGCCGCTAAAGAACATGATCTTTTGCTGCATTTTTTTCTAAGCGCCACTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
* * *
7498436 TTTTGCGGTGTTTTTTTTCT
66 TTTAGCGGCGTTTTTTTCCT
*
7498456 AAGCGCCGTTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
*
7498521 TTTAGCGGCG-TTTTTTCTGT
66 TTTAGCGGCGTTTTTTTC-CT
*
7498541 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
7498555 TTAGCGACGT
Statistics
Matches: 232, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
83 73 0.31
84 8 0.03
85 149 0.64
86 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTCCT
Found at i:7507925 original size:2 final size:2
Alignment explanation
Indices: 7507918--7507947 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
7507908 ACTCATTTCT
7507918 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
7507948 TTTCTTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7509389 original size:18 final size:18
Alignment explanation
Indices: 7509366--7509400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7509356 CGAGGCTTGA
*
7509366 ATTTTCAAGCTCGAGCCT
1 ATTTTCAAGCTCAAGCCT
7509384 ATTTTCAAGCTCAAGCC
1 ATTTTCAAGCTCAAGCC
7509401 CGACCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (18 bp):
ATTTTCAAGCTCAAGCCT
Found at i:7525622 original size:15 final size:15
Alignment explanation
Indices: 7525602--7525634 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7525592 ACATAGATAA
7525602 TAATATATA-AAATAT
1 TAATATATATAAAT-T
7525617 TAATATATATAAATT
1 TAATATATATAAATT
7525632 TAA
1 TAA
7525635 ACCAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATATATATAAATT
Found at i:7528273 original size:42 final size:42
Alignment explanation
Indices: 7528219--7528313 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
7528209 GCTCTCAGTA
*
7528219 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
* *
7528261 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
7528303 TCGCACACTTA
1 TCGCACACTTA
7528314 CTGCTGTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Found at i:7530634 original size:6 final size:6
Alignment explanation
Indices: 7530619--7530702 Score: 50
Period size: 6 Copynumber: 14.5 Consensus size: 6
7530609 TATAAGTCTG
* * * * *
7530619 AAAAAT -AAAAT -AAAA- ACAAAT AACAAG AAAAAT ACAAAT AGAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * *
7530664 AGAAAT AAAAAG AAAAAT AAATAA- AAACAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAA
7530703 TAAAATCTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 13 0.22
6 45 0.75
7 2 0.03
ACGTcount: A:0.76, C:0.06, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:7530648 original size:27 final size:27
Alignment explanation
Indices: 7530593--7530692 Score: 98
Period size: 27 Copynumber: 3.6 Consensus size: 27
7530583 AGTACATAAT
* *
7530593 AAAATAAAAT-AAAACATATAAGTC-TGA
1 AAAATAAAATAAAAACAAATAA--CAAGA
7530620 AAAATAAAATAAAAACAAATAACAAGA
1 AAAATAAAATAAAAACAAATAACAAGA
* *
7530647 AAAATACAAATAGAAATAGAAATAAAAAGA
1 AAAATA-AAATA-AAA-ACAAATAACAAGA
7530677 AAAAT-AAATAAAAACA
1 AAAATAAAATAAAAACA
7530693 TAAAACTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.05
27 21 0.33
28 20 0.32
29 3 0.05
30 16 0.25
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (27 bp):
AAAATAAAATAAAAACAAATAACAAGA
Found at i:7540420 original size:22 final size:21
Alignment explanation
Indices: 7540395--7540438 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7540385 TTTTAGGTTT
7540395 GTTAGGCTGGGTTTTAATTTGG
1 GTTAGGCTGGG-TTTAATTTGG
** *
7540417 GTTAGTTTGGGTTTGATTTGG
1 GTTAGGCTGGGTTTAATTTGG
7540438 G
1 G
7540439 CCATGTGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.11, C:0.02, G:0.39, T:0.48
Consensus pattern (21 bp):
GTTAGGCTGGGTTTAATTTGG
Found at i:7545427 original size:16 final size:16
Alignment explanation
Indices: 7545406--7545437 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7545396 TTCCGAAAGC
*
7545406 GTGTTTGGTAATTTGT
1 GTGTTTCGTAATTTGT
7545422 GTGTTTCGTAATTTGT
1 GTGTTTCGTAATTTGT
7545438 CTCTACCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.28, T:0.56
Consensus pattern (16 bp):
GTGTTTCGTAATTTGT
Found at i:7549703 original size:3 final size:3
Alignment explanation
Indices: 7549695--7549746 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
7549685 AAATAAAGCC
* * *
7549695 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7549741 AAT AAT
1 AAT AAT
7549747 TGTTGACACC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:7563321 original size:21 final size:22
Alignment explanation
Indices: 7563287--7563327 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7563277 TCGCAATGCG
*
7563287 TCTTCAAGTTCTTCTATCTTTT
1 TCTTCAAGTTCTTCAATCTTTT
7563309 TCTTCAA-TTCTTCAATCTT
1 TCTTCAAGTTCTTCAATCTT
7563328 GCTCAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.56
Consensus pattern (22 bp):
TCTTCAAGTTCTTCAATCTTTT
Found at i:7567174 original size:3 final size:3
Alignment explanation
Indices: 7567166--7567247 Score: 128
Period size: 3 Copynumber: 27.0 Consensus size: 3
7567156 AAATAAAGCC
* * *
7567166 AAT AAT AATT AAT AAT AGT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7567212 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7567248 GACACTAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
3 71 0.96
4 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:7577993 original size:46 final size:44
Alignment explanation
Indices: 7577908--7578000 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 44
7577898 TGTTTAGTCC
7577908 TTAGGGTTTTTTAGTTTAGGATTTTTAGGGTTTTGTTTAAAATAAT
1 TTAGGGTTTTTTAGTTTAGGATTTTT--GGTTTTGTTTAAAATAAT
*
7577954 TTAGGGTTTTTAGTAGATTTAGGATTTATT-GTTTT-TTTAAATTAAT
1 TTAGGGTTTTT--TAG-TTTAGGATTT-TTGGTTTTGTTTAAAATAAT
7578000 T
1 T
7578001 AAATTAGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
46 22 0.52
47 5 0.12
48 3 0.07
49 10 0.24
50 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (44 bp):
TTAGGGTTTTTTAGTTTAGGATTTTTGGTTTTGTTTAAAATAAT
Found at i:7578036 original size:33 final size:34
Alignment explanation
Indices: 7577992--7578079 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
7577982 TTGTTTTTTT
*
7577992 AAATTAATTAAATTAGGTTTTTGGG-TTTTAA-A
1 AAATTAATTAAATTAGGTTTTAGGGTTTTTAAGA
* **
7578024 TATATTAATTAAATTAGGAATTAGGGTTTTTAAGA
1 -AAATTAATTAAATTAGGTTTTAGGGTTTTTAAGA
7578059 AAATTAATTAAATTATGGTTT
1 AAATTAATTAAATTA-GGTTT
7578080 AGTTTTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
33 21 0.47
34 20 0.44
35 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (34 bp):
AAATTAATTAAATTAGGTTTTAGGGTTTTTAAGA
Found at i:7578381 original size:127 final size:126
Alignment explanation
Indices: 7578146--7578381 Score: 276
Period size: 127 Copynumber: 1.9 Consensus size: 126
7578136 AAAAACTTTT
* *
7578146 TTTTTCTACAATAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGATAATGTAAAAA
1 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAAA
* * ** * * *
7578211 ACGTTTCAAGCAGGATGCTCTGTCAACAAAATTACTGAGAAAAGCTCCTACGTGGATGCTC
66 ACGCTTCAACCAAAATACACTGTCAACAAAATTACTGAAAAAAGCTCCTACGTGGATGCTC
* * * * * ** *
7578272 TTTTTCTACAATAGTTCCTGAAAAAGTTACTTTTGAGAAGACGGTTCTGAACAGACGGTGTCAAA
1 TTTTTCTACAATAGTTCCTGAAAAA-ATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAA
**
7578337 AACGCTTCAACCAAAATACACTGTCAGTAAAATTGA-TGAAAAAAG
65 AACGCTTCAACCAAAATACACTGTCAACAAAATT-ACTGAAAAAAG
7578382 ATCTCATGTG
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
126 24 0.27
127 64 0.72
128 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAAA
ACGCTTCAACCAAAATACACTGTCAACAAAATTACTGAAAAAAGCTCCTACGTGGATGCTC
Found at i:7578393 original size:127 final size:126
Alignment explanation
Indices: 7578146--7578418 Score: 273
Period size: 127 Copynumber: 2.2 Consensus size: 126
7578136 AAAAACTTTT
* *
7578146 TTTTTCTACAATAGTTTCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGATAATGTAAAAA
1 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAAA
* * ** * * * * ***
7578211 ACGTTTCAAGCAGGATGCTCTGTCAACAAAATTACTGAGAAAAGCTCCTACGTGGATGCTC
66 ACGCTTCAACCAAAATACACTGTCAACAAAATTACTGAAAAAAGATCCTACGTGGACAATC
* * * * * ** *
7578272 TTTTTCTACAATAGTTCCTGAAAAAGTTACTTTTGAGAAGACGGTTCTGAACAGACGGTGTCAAA
1 TTTTTCTACAATAGTTCCTGAAAAA-ATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAA
** *
7578337 AACGCTTCAACCAAAATACACTGTCAGTAAAATTGA-TGAAAAAAGAT-CTCATGTGGACAATC
65 AACGCTTCAACCAAAATACACTGTCAACAAAATT-ACTGAAAAAAGATCCT-ACGTGGACAATC
7578399 TTTTTCTA-AAGTAGTTCCTG
1 TTTTTCTACAA-TAGTTCCTG
7578419 TTTGGCCTTA
Statistics
Matches: 119, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
126 28 0.24
127 90 0.76
128 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAGACAATGTAAAAA
ACGCTTCAACCAAAATACACTGTCAACAAAATTACTGAAAAAAGATCCTACGTGGACAATC
Found at i:7581547 original size:33 final size:33
Alignment explanation
Indices: 7581505--7581638 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 33
7581495 AACTTTTATT
7581505 TATTAAAAATATAAAAATAAATTACTATTAAAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAA
** ** *
7581538 TATT-AAAA-AT-AACTTTTATT-TTATT--AA
1 TATTAAAAATATAAAAATAAATTACTATTAAAA
* ** *
7581565 -ATTAAACAATATAAAAAT-AGTTTGTA-CAAATA
1 TATTAAA-AATATAAAAATAAATTACTATTAAA-A
7581597 TATTAAAAATATAAAAATAAATTACTATTAAAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAA
7581630 TATTAAAAA
1 TATTAAAAA
7581639 CAACTTTTAT
Statistics
Matches: 75, Mismatches: 15, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
26 3 0.04
27 4 0.05
28 2 0.03
29 8 0.11
30 11 0.15
31 3 0.04
32 16 0.21
33 25 0.33
34 3 0.04
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (33 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAA
Found at i:7581557 original size:24 final size:24
Alignment explanation
Indices: 7581503--7581557 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
7581493 AGAACTTTTA
7581503 TTTATTAAAAATATAAAAATAAAT
1 TTTATTAAAAATATAAAAATAAAT
* *
7581527 TACTATT-AAAATATTAAAAATAACT
1 T-TTATTAAAAATA-TAAAAATAAAT
7581552 TTTATT
1 TTTATT
7581558 TTATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTATTAAAAATATAAAAATAAAT
Found at i:7581601 original size:92 final size:92
Alignment explanation
Indices: 7581505--7581697 Score: 359
Period size: 92 Copynumber: 2.1 Consensus size: 92
7581495 AACTTTTATT
* *
7581505 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAATAACTTTTATTTTATTAAATTAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAA
7581570 ACAATATAAAAATAGTTTGTACAAATA
66 ACAATATAAAAATAGTTTGTACAAATA
7581597 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAA
*
7581662 ATAATATAAAAATAGTTTGTACAAATA
66 ACAATATAAAAATAGTTTGTACAAATA
7581689 TATTAAAAA
1 TATTAAAAA
7581698 AATCAATGTT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 98 1.00
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAA
ACAATATAAAAATAGTTTGTACAAATA
Found at i:7586881 original size:21 final size:21
Alignment explanation
Indices: 7586857--7586900 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7586847 ATCAAGCAAG
*
7586857 TCATCATCTTCGTCGTCGTCA
1 TCATCATCTTCATCGTCGTCA
*
7586878 TCATCATCTTCATTGTCGTCA
1 TCATCATCTTCATCGTCGTCA
7586899 TC
1 TC
7586901 CATGCCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
TCATCATCTTCATCGTCGTCA
Found at i:7590066 original size:2 final size:2
Alignment explanation
Indices: 7590059--7590086 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7590049 GTAATGTAGA
7590059 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
7590087 CCATGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7595550 original size:27 final size:27
Alignment explanation
Indices: 7595520--7595592 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
7595510 AACACGTCAG
*
7595520 GAAAGGAACGTCTTTGTGGC-AAATTAT
1 GAAAAGAACGTCTTTGTGGCGAAA-TAT
* *
7595547 GAAATGAACGTCTTTGTGGCGTAATAT
1 GAAAAGAACGTCTTTGTGGCGAAATAT
*
7595574 GAAAAGAACGCCTTTGTGG
1 GAAAAGAACGTCTTTGTGG
7595593 TGAAGCATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (27 bp):
GAAAAGAACGTCTTTGTGGCGAAATAT
Found at i:7602874 original size:98 final size:98
Alignment explanation
Indices: 7602705--7602885 Score: 317
Period size: 98 Copynumber: 1.8 Consensus size: 98
7602695 AAACAATAAA
*
7602705 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
7602770 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
* * *
7602803 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
*
7602868 CCTTTAGAATCTCAAACT
66 CCTTTAGAATCCCAAACT
7602886 CAGAATCGGA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 78 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
Found at i:7623443 original size:97 final size:97
Alignment explanation
Indices: 7623277--7623495 Score: 393
Period size: 97 Copynumber: 2.3 Consensus size: 97
7623267 AAAATAGGGT
* * * *
7623277 CACACGACTGTGTCGCAAGCCCTATGTGCATTCGATGTTGGGTCACATGACCGTGTCATAGACCG
1 CACACGACCGTGTCGCAAGCCGTGTGTGCATTCGATGTTGGGTCACACGACCGTGTCATAGACCG
7623342 TTTGCCAGACCATGTTACATATTGACTTAAGA
66 TTTGCCAGACCATGTTACATATTGACTTAAGA
7623374 CACACGACCGTGTCGCAAGCCGTGTGTGCATTCGATGTTGGGTCACACGACCGTGTCATAGACCG
1 CACACGACCGTGTCGCAAGCCGTGTGTGCATTCGATGTTGGGTCACACGACCGTGTCATAGACCG
7623439 TTTGCCAGACCATGTTACATATTGACTTAAGA
66 TTTGCCAGACCATGTTACATATTGACTTAAGA
*
7623471 CACACGACCGTGTCGCAAGCTGTGT
1 CACACGACCGTGTCGCAAGCCGTGT
7623496 CTTAGACCAT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 117 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (97 bp):
CACACGACCGTGTCGCAAGCCGTGTGTGCATTCGATGTTGGGTCACACGACCGTGTCATAGACCG
TTTGCCAGACCATGTTACATATTGACTTAAGA
Found at i:7623818 original size:20 final size:20
Alignment explanation
Indices: 7623793--7623843 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7623783 TACATGTTAT
* *
7623793 CACTGTTTATAACTTGATTC
1 CACTGTTCATAACTTGACTC
*
7623813 CACTGTTCATAATTTGACTC
1 CACTGTTCATAACTTGACTC
*
7623833 CACTATTCATA
1 CACTGTTCATA
7623844 GGACTGACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (20 bp):
CACTGTTCATAACTTGACTC
Found at i:7632405 original size:3 final size:3
Alignment explanation
Indices: 7632397--7632425 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7632387 ATTGTGCAGT
7632397 GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
7632426 TGTTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.34, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:7633403 original size:21 final size:23
Alignment explanation
Indices: 7633356--7633403 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
7633346 CTTATTATTC
*
7633356 TTTATATTATTAAATTGATATAA
1 TTTATATTATTAAATTAATATAA
7633379 --TATATTATT-AATTAATA-AA
1 TTTATATTATTAAATTAATATAA
7633398 TTTATA
1 TTTATA
7633404 AAATTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.09
20 7 0.32
21 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTATATTATTAAATTAATATAA
Found at i:7633626 original size:28 final size:27
Alignment explanation
Indices: 7633569--7633628 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
7633559 AAAAGGCCCT
7633569 TTTTTTAAATTTACCGAAATAGGCCGG
1 TTTTTTAAATTTACCGAAATAGGCCGG
*
7633596 TTTTTTAATTATTTACC-AGAATGGGCC-G
1 TTTTTTAA--ATTTACCGA-AATAGGCCGG
7633624 TTTTT
1 TTTTT
7633629 CCCGAAATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
29 14 0.48
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTTTTAAATTTACCGAAATAGGCCGG
Found at i:7633894 original size:22 final size:21
Alignment explanation
Indices: 7633869--7633937 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
7633859 ACAAATCCTA
7633869 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTC-TTCAAAAATTC
* *
7633891 TCTCAAAGTCCTTCAAAAATTC
1 TCTC-AATTTCTTCAAAAATTC
*
7633913 TCTCAATTTTCTTCCAAAATTC
1 TCTCAA-TTTCTTCAAAAATTC
7633935 TCT
1 TCT
7633938 TAAACTCTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.85
23 4 0.10
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.41
Consensus pattern (21 bp):
TCTCAATTTCTTCAAAAATTC
Found at i:7633972 original size:52 final size:51
Alignment explanation
Indices: 7633890--7633995 Score: 131
Period size: 52 Copynumber: 2.1 Consensus size: 51
7633880 TTCAAAAATT
* * * * *
7633890 CTCTCAAAGTCCTTCAAAAATTCTCTCAATTTTCTTCCAAAATTCTCTTAAA
1 CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTC-TAAA
* * *
7633942 CTCTCGAATTCCTTCCAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
1 CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
7633993 CTC
1 CTC
7633996 CATATTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
51 7 0.15
52 39 0.85
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (51 bp):
CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
Found at i:7635219 original size:112 final size:113
Alignment explanation
Indices: 7635014--7635340 Score: 396
Period size: 122 Copynumber: 2.8 Consensus size: 113
7635004 AAAATTCAAG
* * * * * **
7635014 AGGATATTTGGCAATTTGGTTTAAACGAG--AAATCGAAATCCAGCACCTTAGGACACG-TCCCT
1 AGGATATTTAGCCATTTGG-TT-AACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCT
*
7635076 CGAATTTCCAAACGCAAAACATTGCCTTATTT-CA-ATTTT-TTTTTAAA
64 CGAATTTCCAAACGCAAAACATTGCCTTATTTAAATATTTTATTTTTAAA
7635123 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTT-AACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
7635188 GAATTTCCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAATTTTTTAA
65 GAATTT-CCAAACGCAAAACATTGCCTTA--TTT-AAA-TATTTT---ATTTTTAAA
*
7635245 AGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTAA-CGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
7635310 GAATTTCCAAACGCTAAATATTGCCTTATTT
65 GAATTTCCAAACGCAAAACATTGCCTTATTT
7635341 TGAAGAAAAA
Statistics
Matches: 190, Mismatches: 13, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
108 8 0.04
109 17 0.09
110 25 0.13
111 10 0.05
112 22 0.12
114 3 0.02
116 1 0.01
118 5 0.03
119 3 0.02
121 22 0.12
122 74 0.39
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (113 bp):
AGGATATTTAGCCATTTGGTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTAAATATTTTATTTTTAAA
Found at i:7635249 original size:122 final size:122
Alignment explanation
Indices: 7635114--7635341 Score: 397
Period size: 122 Copynumber: 1.9 Consensus size: 122
7635104 ATTTCAATTT
*
7635114 TTTTTTAAAAGGATATTTAGCCATTTGGTTGAA-CGAGAAAAATCGACACCCAGCACCTTAGGGC
1 TTTTTTAAAAGGATATTAAGCCATTTGGTT-AAGCGAGAAAAATCGACACCCAGCACCTTAGGGC
7635178 ACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
65 ACGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
7635237 TTTTTT-AAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
1 TTTTTTAAAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
* *
7635301 CGTTTTCTCGAATTTCCAAACGCTAAATATTGCCTTATTTT
66 CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTT
7635342 GAAGAAAAAA
Statistics
Matches: 101, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
121 26 0.26
122 69 0.68
123 6 0.06
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (122 bp):
TTTTTTAAAAGGATATTAAGCCATTTGGTTAAGCGAGAAAAATCGACACCCAGCACCTTAGGGCA
CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAA
Found at i:7635783 original size:67 final size:61
Alignment explanation
Indices: 7635699--7635825 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 61
7635689 ATCATGACAG
*
7635699 ATGATAAACAGGCAAAAACTAAAGCAAGAAAAACAATAACAAACATGTACATAAATAAACGAACA
1 ATGATAAACAGACAAAAACTAAAGCAAG----A-AA-AACAAACATGTACATAAATAAACGAACA
7635764 AA
60 AA
*
7635766 ATGATAAACAGATAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAA
1 ATGATAAACAGACAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAA
7635826 GACTAACAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
61 29 0.50
62 2 0.03
63 1 0.02
67 26 0.45
ACGTcount: A:0.63, C:0.14, G:0.10, T:0.13
Consensus pattern (61 bp):
ATGATAAACAGACAAAAACTAAAGCAAGAAAAACAAACATGTACATAAATAAACGAACAAA
Found at i:7637261 original size:7 final size:6
Alignment explanation
Indices: 7637240--7637289 Score: 82
Period size: 6 Copynumber: 8.0 Consensus size: 6
7637230 TGACCTCTCC
7637240 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCTT TTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT T-TTTCT TTTTCT
7637290 CCTATTTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 30 0.71
7 12 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:7637336 original size:14 final size:13
Alignment explanation
Indices: 7637317--7637371 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
7637307 TTGATTGATT
7637317 TTTTTTATTTTTGA
1 TTTTTTATTTTT-A
7637331 TTTTTTA-TTTTA
1 TTTTTTATTTTTA
*
7637343 TTTTTGATTTTT-
1 TTTTTTATTTTTA
*
7637355 TTCTTTTCTTTTT-
1 TT-TTTTATTTTTA
7637368 TTTT
1 TTTT
7637372 GAGTCTAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 11 0.31
13 18 0.50
14 7 0.19
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:7637366 original size:19 final size:19
Alignment explanation
Indices: 7637315--7637355 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
7637305 GATTGATTGA
7637315 TTTT-TTTTATTTTTGATT
1 TTTTATTTTATTTTTGATT
7637333 TTTTATTTTATTTTTGATT
1 TTTTATTTTATTTTTGATT
7637352 TTTT
1 TTTT
7637356 TCTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (19 bp):
TTTTATTTTATTTTTGATT
Found at i:7639448 original size:19 final size:20
Alignment explanation
Indices: 7639419--7639467 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
7639409 CACTTTGTGA
* *
7639419 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGTATG
*
7639438 CAATGTAATGCAAATGTATG
1 AAATGTAATGCAAATGTATG
7639458 AAATG-AATGC
1 AAATGTAATGC
7639468 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (20 bp):
AAATGTAATGCAAATGTATG
Found at i:7646530 original size:52 final size:52
Alignment explanation
Indices: 7646451--7646607 Score: 278
Period size: 52 Copynumber: 3.0 Consensus size: 52
7646441 AACGTCAACT
7646451 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
* *
7646503 TGAAATAATTTTTTTCGGCACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
* *
7646555 CGAAATAATTTTTTTAGGGACCCCTAAACCCTAAAAAAGCTTGCACCCTAAA
1 CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
7646607 C
1 C
7646608 CCTAAAACCC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 99 1.00
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (52 bp):
CGAAATAATTTTTTTCGGGACCCCTAAACCCTAAAAAAGCCTGCACCCTAAA
Found at i:7649770 original size:2 final size:2
Alignment explanation
Indices: 7649765--7649808 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7649755 CATGCCAACC
7649765 AT AT AT AT 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 AT AT AT AT
7649807 AT
1 AT
7649809 TCTTCCTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7654822 original size:22 final size:23
Alignment explanation
Indices: 7654769--7654842 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 23
7654759 TTAACCATAC
*
7654769 AAAAATT-A-ATAACTACAGTAA
1 AAAAATTAATATAACTACAATAA
*
7654790 AAAAATCAATATAACTACAAT-A
1 AAAAATTAATATAACTACAATAA
* *
7654812 ACAAATTAATATAA-TGCAATAA
1 AAAAATTAATATAACTACAATAA
7654834 AAAAATTAA
1 AAAAATTAA
7654843 AAATCCAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.25
22 23 0.52
23 10 0.23
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (23 bp):
AAAAATTAATATAACTACAATAA
Found at i:7656855 original size:30 final size:31
Alignment explanation
Indices: 7656810--7656867 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
7656800 CTCGACTCAC
7656810 TTGTATTATTTTTTTAA-AGTTATTTTTAAAT
1 TTGTATTATTTTTTTAAGA-TTATTTTTAAAT
7656841 TTGTATTA-TTTTTTAAGATTATTTTTA
1 TTGTATTATTTTTTTAAGATTATTTTTA
7656868 CATAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (31 bp):
TTGTATTATTTTTTTAAGATTATTTTTAAAT
Found at i:7657112 original size:22 final size:22
Alignment explanation
Indices: 7657087--7657131 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7657077 TAGTAGTAAT
*
7657087 ATAATAGCAAAATGACAACAAA
1 ATAATAGCAAAATAACAACAAA
*
7657109 ATAATAGCGAAATAACAACAAA
1 ATAATAGCAAAATAACAACAAA
7657131 A
1 A
7657132 CAACTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.64, C:0.13, G:0.09, T:0.13
Consensus pattern (22 bp):
ATAATAGCAAAATAACAACAAA
Found at i:7657678 original size:16 final size:16
Alignment explanation
Indices: 7657657--7657726 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
7657647 TTTGGTTCGC
* *
7657657 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
7657673 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
7657689 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
7657705 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
7657721 TGTAAT
1 TGTAAT
7657727 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:7657810 original size:39 final size:43
Alignment explanation
Indices: 7657705--7657814 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
7657695 GGAATAGAGG
7657705 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
7657750 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
7657790 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
7657815 TAATGAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:7657977 original size:16 final size:16
Alignment explanation
Indices: 7657940--7657981 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7657930 TTAATCATAT
*
7657940 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7657956 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7657971 TTAAAATATAT
1 TTAAAATATAT
7657982 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7657988 original size:14 final size:15
Alignment explanation
Indices: 7657949--7657990 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7657939 TTTAAACATA
*
7657949 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7657964 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7657978 A-TATAATTTAATA
1 ATTATAATTAAATA
7657991 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7666270 original size:10 final size:10
Alignment explanation
Indices: 7666255--7666279 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7666245 TAAAGACTAA
7666255 AAAAATAAAT
1 AAAAATAAAT
7666265 AAAAATAAAT
1 AAAAATAAAT
7666275 AAAAA
1 AAAAA
7666280 GTTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:7669974 original size:2 final size:2
Alignment explanation
Indices: 7669967--7670023 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
7669957 TAGATCCATC
7669967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7670009 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
7670024 TGTTATAGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7670139 original size:16 final size:16
Alignment explanation
Indices: 7670118--7670187 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
7670108 TTTGGTTCGC
* *
7670118 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
7670134 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
7670150 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
7670166 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
7670182 TGTAAT
1 TGTAAT
7670188 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:7670271 original size:39 final size:43
Alignment explanation
Indices: 7670166--7670275 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
7670156 GGAATAGAGG
7670166 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
7670211 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
7670251 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
7670276 TAATGAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:7670438 original size:16 final size:16
Alignment explanation
Indices: 7670401--7670442 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7670391 TTAATCATAT
*
7670401 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7670417 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7670432 TTAAAATATAT
1 TTAAAATATAT
7670443 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7670449 original size:14 final size:15
Alignment explanation
Indices: 7670410--7670451 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7670400 TTTAAACATA
*
7670410 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7670425 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7670439 A-TATAATTTAATA
1 ATTATAATTAAATA
7670452 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7670547 original size:120 final size:122
Alignment explanation
Indices: 7670404--7670698 Score: 497
Period size: 122 Copynumber: 2.4 Consensus size: 122
7670394 ATCATATTTA
7670404 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC-TTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTAATAATCA
*
7670468 ATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 ATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
7670524 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTTAATAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTC-TTTAATAATC
* *
7670589 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
65 AATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
7670647 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
7670699 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
120 54 0.33
122 109 0.66
123 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (122 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTTAATAATCA
ATATTCTTATATAAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:7670560 original size:59 final size:59
Alignment explanation
Indices: 7670404--7670702 Score: 175
Period size: 59 Copynumber: 5.0 Consensus size: 59
7670394 ATCATATTTA
* * * *
7670404 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-T
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATCTAATAAAA-TATAAATT
* * * * *
7670463 AATCA-ATATTCTTATATAAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-CTAATAAAATATAAATT
* * **
7670524 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAT-T-CTTT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATCTAATAAAATATAAATT
* * ** * * * *
7670581 TA-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-ATAAAAGATAAT
1 AACATAATTATTATT-AAATAT--A-TTA-T--AATTAAAATATATGAT-CTAATAAAATATAAA
7670644 TT
58 TT
* * * *
7670646 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATCTAATAAAATATAAA
7670703 ATAATTATAA
Statistics
Matches: 181, Mismatches: 38, Indels: 42
0.69 0.15 0.16
Matches are distributed among these distances:
56 11 0.06
57 7 0.04
58 5 0.03
59 54 0.30
60 25 0.14
61 32 0.18
62 5 0.03
63 20 0.11
64 2 0.01
65 7 0.04
66 13 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (59 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATCTAATAAAATATAAATT
Found at i:7670569 original size:14 final size:15
Alignment explanation
Indices: 7670520--7670571 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7670510 ATAAAATATA
7670520 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
7670535 TATTAAATATATTAT
1 AATTAAATATATTAT
7670550 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7670563 AATTTAATA
1 AATTAAATA
7670572 AAATTCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7670746 original size:47 final size:46
Alignment explanation
Indices: 7670680--7670846 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
7670670 TTAATTAAAA
*
7670680 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
7670727 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
7670772 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
7670818 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
7670847 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:7670768 original size:26 final size:28
Alignment explanation
Indices: 7670739--7670810 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
7670729 TATGAATTTG
*
7670739 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
7670765 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
7670793 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
7670811 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:7671006 original size:22 final size:22
Alignment explanation
Indices: 7670978--7671022 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7670968 ACTAAGCTTG
7670978 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
7671000 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
7671022 A
1 A
7671023 GTTAAAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:7678748 original size:12 final size:12
Alignment explanation
Indices: 7678733--7678762 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7678723 TATAATTAAA
7678733 TAAATTAGAAAT
1 TAAATTAGAAAT
*
7678745 TAAATTGGAAAT
1 TAAATTAGAAAT
7678757 TAAATT
1 TAAATT
7678763 TGAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:7680613 original size:44 final size:44
Alignment explanation
Indices: 7680509--7680666 Score: 239
Period size: 44 Copynumber: 3.6 Consensus size: 44
7680499 TAGCTCTCAC
* * * *
7680509 GAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTC-TTT-T
1 GAGCTTCCGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAT
*
7680551 GAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAT
1 GAGCTTCCGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAT
* *
7680595 GAGCTTCCATTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTAT
1 GAGCTTCCGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAT
7680639 GAGCTTCCGTTTAACCCTTATGGGTTTC
1 GAGCTTCCGTTTAACCCTTATGGGTTTC
7680667 TGTTGAGCAC
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 35 0.33
43 3 0.03
44 68 0.64
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (44 bp):
GAGCTTCCGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAT
Found at i:7680964 original size:14 final size:15
Alignment explanation
Indices: 7680939--7680968 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7680929 TATTTTATGT
7680939 ATTTATTATGTGTGA
1 ATTTATTATGTGTGA
7680954 ATTTA-TATGTGTGA
1 ATTTATTATGTGTGA
7680968 A
1 A
7680969 AGTTTCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
ATTTATTATGTGTGA
Found at i:7687470 original size:43 final size:43
Alignment explanation
Indices: 7687399--7687514 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
7687389 TATGCGTTAT
* * *
7687399 CGTGTAAGACCAC-GTCTTGGACGTTGGCATCGACT-TGTGTTTGA
1 CGTGTAAGACC-CTGTCTGGGACGTTGGCATC-AATATGTGATT-A
7687443 -GTGTAAGACCCTGTCTGGGACAG-TGGCATCAATATGTGATTA
1 CGTGTAAGACCCTGTCTGGGAC-GTTGGCATCAATATGTGATTA
* *
7687485 CATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCCTGTCTGGGACGTTGGCAT
7687515 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
42 5 0.08
43 56 0.90
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCCTGTCTGGGACGTTGGCATCAATATGTGATTA
Found at i:7692684 original size:12 final size:12
Alignment explanation
Indices: 7692667--7692699 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7692657 TTTCCATTTT
7692667 ATATTTATTCAC
1 ATATTTATTCAC
7692679 ATATTTATTCAC
1 ATATTTATTCAC
*
7692691 TTATTTATT
1 ATATTTATT
7692700 ATTAATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATTTATTCAC
Done.