Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 54
Found at i:8198896 original size:31 final size:31
Alignment explanation
Indices: 8198861--8198930 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
8198851 AAAGCCAAAT
*
8198861 ATTATACATGACAGCACGTTGAAGAAATAGC
1 ATTATACATGACAACACGTTGAAGAAATAGC
* **
8198892 ATTATACATGACAACAGGTTGAAGAAATATT
1 ATTATACATGACAACACGTTGAAGAAATAGC
8198923 ATTATACA
1 ATTATACA
8198931 CAAAGCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (31 bp):
ATTATACATGACAACACGTTGAAGAAATAGC
Found at i:8201095 original size:32 final size:31
Alignment explanation
Indices: 8201063--8201154 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
8201053 CTTTACTTTA
*
8201063 AAAAGTTAAAATAATAATAAAATATATTTTT
1 AAAAGTTAAAATAAAAATAAAATATATTTTT
* *
8201094 AAAAGTTTAGATAAAGAATAAAATATATATTATT
1 AAAAGTTAAAATAAA-AATAAAATATAT-TT-TT
*
8201128 -AAA-TAAAAATAAAAATAAAATAT-TTTT
1 AAAAGTTAAAATAAAAATAAAATATATTTT
8201155 AAATTAATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.02
29 2 0.04
30 1 0.02
31 22 0.42
32 19 0.37
33 5 0.10
34 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (31 bp):
AAAAGTTAAAATAAAAATAAAATATATTTTT
Found at i:8201158 original size:27 final size:26
Alignment explanation
Indices: 8201099--8201158 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
8201089 TTTTTAAAAG
* *
8201099 TTTAGATAAAGAATAAAATATATATT
1 TTTAAATAAAGAATAAAATAAATATT
*
8201125 ATTAAATAAA-AATAAAAATAAAATATT
1 TTTAAATAAAGAAT-AAAAT-AAATATT
8201152 TTTAAAT
1 TTTAAAT
8201159 TAATTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.11
26 13 0.46
27 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
TTTAAATAAAGAATAAAATAAATATT
Found at i:8201181 original size:26 final size:27
Alignment explanation
Indices: 8201144--8201244 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 27
8201134 AAATAAAAAT
*
8201144 AAAATATTTTTAAATTAATTTA-ATAA
1 AAAATATATTTAAATTAATTTATATAA
*
8201170 AAAATATATTT-AA-TGATTTAATATAA
1 AAAATATATTTAAATTAATTT-ATATAA
* *
8201196 AAAATATTTTTAAAATTAATATATATAA
1 AAAATATATTT-AAATTAATTTATATAA
*
8201224 AATATTATGAATTTAAATTAA
1 AA-AATAT--ATTTAAATTAA
8201245 ATATTTATAC
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
24 5 0.08
25 3 0.05
26 24 0.40
28 10 0.17
29 8 0.13
30 7 0.12
31 3 0.05
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAAATATATTTAAATTAATTTATATAA
Found at i:8202615 original size:2 final size:2
Alignment explanation
Indices: 8202610--8202643 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8202600 TCACCATACC
8202610 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
8202644 TCACTAGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8203381 original size:14 final size:14
Alignment explanation
Indices: 8203362--8203420 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
8203352 CGATTATATG
*
8203362 TTCATTTATTTTCA
1 TTCATTTATGTTCA
8203376 TTCATTTATGTTCA
1 TTCATTTATGTTCA
*
8203390 TTTATCATTTATGTTCG
1 --T-TCATTTATGTTCA
8203407 TTCCATTTATGTTC
1 TT-CATTTATGTTC
8203421 GAACAAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 14 0.36
15 12 0.31
16 1 0.03
17 12 0.31
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (14 bp):
TTCATTTATGTTCA
Found at i:8203703 original size:10 final size:10
Alignment explanation
Indices: 8203684--8203777 Score: 62
Period size: 10 Copynumber: 8.4 Consensus size: 10
8203674 GTGTTTGTGT
*
8203684 TGTTCATTTA
1 TGTTCGTTTA
8203694 TGTTCGTTTA
1 TGTTCGTTTA
8203704 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
*
8203717 TGTTCATTTATTA
1 TGTTC--GT-TTA
8203730 TGTTCGTTTA
1 TGTTCGTTTA
8203740 TGTTCGTTCGTTA
1 TGTTCG-T--TTA
*
8203753 CTATTCGTTTA
1 -TGTTCGTTTA
*
8203764 CGTTCGTTTA
1 TGTTCGTTTA
8203774 TGTT
1 TGTT
8203778 AAATATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
10 34 0.51
11 5 0.07
12 1 0.01
13 22 0.33
14 5 0.07
ACGTcount: A:0.13, C:0.12, G:0.17, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:8203710 original size:13 final size:12
Alignment explanation
Indices: 8203694--8203751 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
8203684 TGTTCATTTA
8203694 TGTTCGTTTATT
1 TGTTCGTTTATT
8203706 GTGTTCGTTTA--
1 -TGTTCGTTTATT
*
8203717 TGTTCATTTATT
1 TGTTCGTTTATT
8203729 ATGTTCGTTTATGT
1 -TGTTCGTTTAT-T
8203743 TCGTTCGTT
1 T-GTTCGTT
8203752 ACTATTCGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.24
13 21 0.55
14 8 0.21
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (12 bp):
TGTTCGTTTATT
Found at i:8203710 original size:23 final size:23
Alignment explanation
Indices: 8203684--8203774 Score: 110
Period size: 23 Copynumber: 3.9 Consensus size: 23
8203674 GTGTTTGTGT
* *
8203684 TGTTCATTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTA
*
8203707 TGTTCGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCGTTTATTA
**
8203730 TGTTCGTTTATGTTCGTTCGTTA
1 TGTTCGTTTATGTTCGTTTATTA
* *
8203753 CTATTCGTTTACGTTCGTTTAT
1 -TGTTCGTTTATGTTCGTTTAT
8203775 GTTAAATATC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
23 40 0.70
24 17 0.30
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.58
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTA
Found at i:8203868 original size:16 final size:16
Alignment explanation
Indices: 8203847--8203879 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8203837 CAAAAAAAAT
8203847 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
8203863 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
8203879 T
1 T
8203880 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:8206399 original size:9 final size:10
Alignment explanation
Indices: 8206378--8206410 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8206368 GAACCGTCTG
8206378 AAAACCAGAA
1 AAAACCAGAA
*
8206388 AAAACCGGAA
1 AAAACCAGAA
8206398 AAAACCAGAA
1 AAAACCAGAA
8206408 AAA
1 AAA
8206411 TAAAAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.70, C:0.18, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAACCAGAA
Found at i:8208655 original size:18 final size:18
Alignment explanation
Indices: 8208634--8208732 Score: 100
Period size: 18 Copynumber: 5.6 Consensus size: 18
8208624 GAGGAGAAAA
8208634 AAGAAA-AACAGG-AGAATG
1 AAGAAAGAA-AGGAAGAA-G
8208652 AAGAAAGAAAGGAAGAAG
1 AAGAAAGAAAGGAAGAAG
8208670 AAGAAAGAAAGGAAGAAG
1 AAGAAAGAAAGGAAGAAG
*
8208688 AAGAAAGTAA-GAAG-AG
1 AAGAAAGAAAGGAAGAAG
* *
8208704 AA-AATAGGAAGGAAGAAA
1 AAGAA-AGAAAGGAAGAAG
8208722 AAGAGAAGAAA
1 AAGA-AAGAAA
8208733 ATAATCAAGT
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.03
16 8 0.11
17 8 0.11
18 40 0.57
19 11 0.16
20 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.30, T:0.03
Consensus pattern (18 bp):
AAGAAAGAAAGGAAGAAG
Found at i:8208671 original size:22 final size:21
Alignment explanation
Indices: 8208652--8208706 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
8208642 CAGGAGAATG
8208652 AAGAAAGAAAGGAAGAAGAAGA
1 AAGAAAGAAA-GAAGAAGAAGA
* *
8208674 AAGAAAGGAAGAAGAAGAAAGT
1 AAGAAAGAAAGAAGAAG-AAGA
8208696 AAGAAGAGAAA
1 AAGAA-AGAAA
8208707 ATAGGAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.25
22 17 0.61
23 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAAAGAAAGAAGAAGAAGA
Found at i:8208714 original size:13 final size:14
Alignment explanation
Indices: 8208667--8208736 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
8208657 AGAAAGGAAG
**
8208667 AAGAAGAAAGAAAGG
1 AAGAAG-AAGAAAAT
*
8208682 AAGAAGAAGAAAGT
1 AAGAAGAAGAAAAT
8208696 AAGAAG-AGAAAAT
1 AAGAAGAAGAAAAT
*
8208709 AGGAAGGAAG-AAA-
1 AAGAA-GAAGAAAAT
8208722 AAG-AGAAGAAAAT
1 AAGAAGAAGAAAAT
8208735 AA
1 AA
8208737 TCAAGTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
11 4 0.09
12 4 0.09
13 14 0.30
14 17 0.36
15 8 0.17
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
AAGAAGAAGAAAAT
Found at i:8209001 original size:23 final size:20
Alignment explanation
Indices: 8208951--8209002 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
8208941 ATTATTTAAT
8208951 AAAATATTATTACTTGAGAA
1 AAAATATTATTACTTGAGAA
8208971 AAAATATTATTACTTGAGAA
1 AAAATATTATTACTTGAGAA
8208991 AAAATATTATTA
1 AAAATATTATTA
8209003 GTAAATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (20 bp):
AAAATATTATTACTTGAGAA
Found at i:8220210 original size:8 final size:8
Alignment explanation
Indices: 8220199--8220225 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8220189 TATTTATTTA
8220199 TTTATAAT
1 TTTATAAT
8220207 TTTATAAT
1 TTTATAAT
8220215 TTTATAAT
1 TTTATAAT
8220223 TTT
1 TTT
8220226 GTGTCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATAAT
Found at i:8224286 original size:16 final size:17
Alignment explanation
Indices: 8224265--8224316 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
8224255 TTTTTAATTT
8224265 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
8224281 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
8224296 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
8224313 AATT
1 AATT
8224317 TAATTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:8225034 original size:25 final size:23
Alignment explanation
Indices: 8225005--8225057 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 23
8224995 AAAAATTAAG
*
8225005 TATATAATATATTATAAAATCATAAAA
1 TATA-AAT-TATTAAAAAAT-A-AAAA
8225032 TATAAATTATTAAAAAATAAAAA
1 TATAAATTATTAAAAAATAAAAA
8225055 TAT
1 TAT
8225058 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 7 0.28
24 1 0.04
25 10 0.40
26 3 0.12
27 4 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TATAAATTATTAAAAAATAAAAA
Found at i:8225073 original size:16 final size:17
Alignment explanation
Indices: 8225028--8225076 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
8225018 ATAAAATCAT
*
8225028 AAAATATAAATTATTAA
1 AAAATATATATTATTAA
*
8225045 AAAATAAAAATATT-TTAA
1 AAAAT--ATATATTATTAA
8225063 AAAATATATATTAT
1 AAAATATATATTAT
8225077 ACATGATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.23
17 6 0.23
18 9 0.35
19 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATATATTATTAA
Found at i:8225096 original size:17 final size:16
Alignment explanation
Indices: 8225066--8225107 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
8225056 ATTTTAAAAA
8225066 ATATATAT-TATACAT
1 ATATATATATATACAT
8225081 GATATATATATATACAT
1 -ATATATATATATACAT
8225098 ATA-ATATATA
1 ATATATATATA
8225108 GTTATATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.28
16 11 0.44
17 7 0.28
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATATATATATACAT
Found at i:8229357 original size:16 final size:16
Alignment explanation
Indices: 8229320--8229373 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
8229310 ATATATATAT
*
8229320 ATATATTTTATTTTT-
1 ATATTTTTTATTTTTA
*
8229335 TTATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
* *
8229351 ATGTTTTTTATATTTA
1 ATATTTTTTATTTTTA
8229367 ATTATTT
1 A-TATTT
8229374 AATATTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 13 0.42
16 14 0.45
17 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
ATATTTTTTATTTTTA
Found at i:8229380 original size:15 final size:14
Alignment explanation
Indices: 8229356--8229397 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8229346 TTTTAATGTT
8229356 TTTTATATTTAAT-
1 TTTTATATTTAATC
8229369 TATTTAATATTTGAATC
1 T-TTT-ATATTT-AATC
8229386 TTTTATATTTAA
1 TTTTATATTTAA
8229398 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.04
14 5 0.20
15 12 0.48
16 6 0.24
17 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTATATTTAATC
Found at i:8230251 original size:23 final size:23
Alignment explanation
Indices: 8230221--8230268 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
8230211 TTATTTTTAA
8230221 TATATATAA-TTTTTAATAAAATT
1 TATATATAACTTTTT-ATAAAATT
8230244 TATATATAACTTTTTATAAAATT
1 TATATATAACTTTTTATAAAATT
8230267 TA
1 TA
8230269 AAAGATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATATAACTTTTTATAAAATT
Found at i:8230276 original size:24 final size:23
Alignment explanation
Indices: 8230226--8230278 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8230216 TTTAATATAT
* *
8230226 ATAATTTTTAATAAAATTTATAT
1 ATAATTTTTAATAAAATTTAAAG
8230249 ATAACTTTTT-ATAAAATTTAAAAG
1 ATAA-TTTTTAATAAAATTT-AAAG
8230273 ATAATT
1 ATAATT
8230279 GGGTAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAATTTTTAATAAAATTTAAAG
Found at i:8238560 original size:22 final size:22
Alignment explanation
Indices: 8238530--8238640 Score: 186
Period size: 22 Copynumber: 5.0 Consensus size: 22
8238520 ATGTGAAATT
8238530 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
* *
8238552 TGTCTCGAAGGACCACTATATA
1 TGTCCCGAAGGACCACTGTATA
*
8238574 TGTCCCGAAAGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
8238596 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
*
8238618 TGTCCTGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTGTATA
8238640 T
1 T
8238641 CACTCGACTA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 82 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTGTATA
Found at i:8248062 original size:17 final size:17
Alignment explanation
Indices: 8248033--8248070 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8248023 TATTTTGGAT
8248033 ATTT-TGGAATGTTTGA
1 ATTTGTGGAATGTTTGA
*
8248049 ATTTGTGGATTGTTTGA
1 ATTTGTGGAATGTTTGA
*
8248066 CTTTG
1 ATTTG
8248071 AATTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (17 bp):
ATTTGTGGAATGTTTGA
Found at i:8251261 original size:18 final size:17
Alignment explanation
Indices: 8251238--8251271 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8251228 TTTTTAATTT
*
8251238 TTTTAAACAATGTTTTTA
1 TTTTAAA-AATATTTTTA
8251256 TTTTAAAAATATTTTT
1 TTTTAAAAATATTTTT
8251272 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTAAAAATATTTTTA
Found at i:8251293 original size:13 final size:14
Alignment explanation
Indices: 8251255--8251291 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8251245 CAATGTTTTT
*
8251255 ATTTTAAAAATATT
1 ATTTTAAAAATATA
*
8251269 TTTTTAAAAATATA
1 ATTTTAAAAATATA
8251283 ATTTTAAAA
1 ATTTTAAAA
8251292 TAAATATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAAAAATATA
Found at i:8251902 original size:13 final size:13
Alignment explanation
Indices: 8251860--8251904 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
8251850 AATCAACAAT
8251860 AAATTATAAAATA
1 AAATTATAAAATA
*
8251873 AAATTGTACCAAA-A
1 AAATTATA--AAATA
8251887 AAATTATAAAATA
1 AAATTATAAAATA
8251900 AAATT
1 AAATT
8251905 CTTATAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 13 0.48
14 8 0.30
15 3 0.11
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATTATAAAATA
Found at i:8252770 original size:16 final size:17
Alignment explanation
Indices: 8252741--8252783 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
8252731 TTAATTTTTC
*
8252741 ATATTTTAAATTATAA-
1 ATATTTTTAATTATAAT
*
8252757 ATATTTTTACTTATAAT
1 ATATTTTTAATTATAAT
8252774 AGTATTTTTA
1 A-TATTTTTA
8252784 TTAATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 1 0.04
18 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATATTTTTAATTATAAT
Found at i:8260497 original size:29 final size:29
Alignment explanation
Indices: 8260368--8260496 Score: 111
Period size: 29 Copynumber: 4.4 Consensus size: 29
8260358 TCATATGAGA
* ** **
8260368 ATATGATCCCATGTAGAAACATAATAGGG
1 ATATGATCCCATGCAGAATTAGGATAGGG
8260397 ATATGATCCCATGCAGAAATT-GGAT-GAGG
1 ATATGATCCCATGCAG-AATTAGGATAG-GG
* * * * *
8260426 ATATGATTCTATGCAAAAATAGGATAAGG
1 ATATGATCCCATGCAGAATTAGGATAGGG
8260455 ATATGATCCCATGTC-GAATTAGGATAGGG
1 ATATGATCCCATG-CAGAATTAGGATAGGG
*
8260484 ATATGATCTCATG
1 ATATGATCCCATG
8260497 TGGAAATAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.05
29 72 0.91
30 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (29 bp):
ATATGATCCCATGCAGAATTAGGATAGGG
Found at i:8260504 original size:58 final size:58
Alignment explanation
Indices: 8260362--8260507 Score: 147
Period size: 58 Copynumber: 2.5 Consensus size: 58
8260352 CAAAATTCAT
* * * * *
8260362 ATGAGAATATGATCCCATGTAGAAACATAATAGGGATATGATCCCATGCAGAAATTGG
1 ATGAGGATATGATCTCATGTAGAAATAGAATAAGGATATGATCCCATGCAGAAATTGG
* * *
8260420 ATGAGGATATGAT-TCTATGCAAAAATAGGATAAGGATATGATCCCATGTC-G-AATTAGG
1 ATGAGGATATGATCTC-ATGTAGAAATAGAATAAGGATATGATCCCATG-CAGAAATT-GG
*
8260478 AT-AGGGATATGATCTCATGTGGAAATAGAA
1 ATGA-GGATATGATCTCATGTAGAAATAGAA
8260508 AGGGGATATT
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
57 6 0.08
58 62 0.87
59 3 0.04
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (58 bp):
ATGAGGATATGATCTCATGTAGAAATAGAATAAGGATATGATCCCATGCAGAAATTGG
Found at i:8260513 original size:29 final size:29
Alignment explanation
Indices: 8260368--8260516 Score: 94
Period size: 29 Copynumber: 5.1 Consensus size: 29
8260358 TCATATGAGA
* * *
8260368 ATATGATCCCATGTAGAAACA-TAATAGGG
1 ATATGATCCCATGTCGAAATAGGAA-AGGG
* *
8260397 ATATGATCCCATG-CAGAAATTGG-ATGAGG
1 ATATGATCCCATGTC-GAAATAGGAAAG-GG
* * *
8260426 ATATGATTCTATG-CAAAAATAGGATAA-GG
1 ATATGATCCCATGTC-GAAATAGGA-AAGGG
* *
8260455 ATATGATCCCATGTCGAATTAGGATAGGG
1 ATATGATCCCATGTCGAAATAGGAAAGGG
* *
8260484 ATATGATCTCATGTGGAAATA-GAAAGGGG
1 ATATGATCCCATGTCGAAATAGGAAA-GGG
8260513 ATAT
1 ATAT
8260517 TTCCCTTTGT
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
28 5 0.05
29 86 0.92
30 1 0.01
31 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (29 bp):
ATATGATCCCATGTCGAAATAGGAAAGGG
Found at i:8265016 original size:25 final size:27
Alignment explanation
Indices: 8264983--8265033 Score: 79
Period size: 25 Copynumber: 1.9 Consensus size: 27
8264973 GTCTCTGTTT
8264983 ATAAAACATT-TTAAATTT-AGTAATA
1 ATAAAACATTATTAAATTTAAGTAATA
8265008 ATAAAACATTCATTAAATTTAAGTAA
1 ATAAAACATT-ATTAAATTTAAGTAA
8265034 GTAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
27 8 0.35
28 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
ATAAAACATTATTAAATTTAAGTAATA
Found at i:8265527 original size:55 final size:55
Alignment explanation
Indices: 8265443--8265852 Score: 624
Period size: 55 Copynumber: 7.5 Consensus size: 55
8265433 CAATATTAAT
*
8265443 CACTTAGTACGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* *
8265498 CACTTAGTATGAATTTCTCAAGTTTACACATAAAGTGCCCATACGGAAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* * * *
8265553 CACTTAGCATTAATTTCTTAAGTTTACACATAAAGTGCCCATACAAAAATTAATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* * * * *
8265608 CACCTAGCATGAATTTCTTATGTTTACACATAAAGTGCCCATATGGAAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* *
8265663 CACTTAGTATGAATTCCTTAAGTTTACACATAAAGTGCCTATACGAAAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* *
8265718 CACTTAGTATTAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
* * *
8265773 TAGTTAGTATGATTTTCTTAAGTTTACACATAAAGTGCCCATACTG-AAATTCATC
1 CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATAC-GAAAATTCATC
*
8265828 CACATAGTATGAATTTCTTAAGTTT
1 CACTTAGTATGAATTTCTTAAGTTT
8265853 TGGCACACTT
Statistics
Matches: 319, Mismatches: 35, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
55 318 1.00
56 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (55 bp):
CACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGAAAATTCATC
Found at i:8270905 original size:164 final size:168
Alignment explanation
Indices: 8270634--8270967 Score: 631
Period size: 164 Copynumber: 2.0 Consensus size: 168
8270624 GATTTGTATT
8270634 ATTTCATTCCATAAGTCTATTTTGTTGAACTCATTATTATCTCTCGATTTGTATTATTTGGAGCT
1 ATTTCATTCCATAAGTCTATTTTGTTGAACTCATTATTATCTCTCGATTTGTATTATTTGGAGCT
8270699 TCATATTTTATACATCATATTTATTCTTGTCTGCCTTATACGTGTTTTTGATT-AGTAAATGGTT
66 TCATATTTTATACATCATATTTATTCTTGTCTGCCTTATACGTGTTTTTGATTAAGTAAATGGTT
8270763 TAT-AAAA-GATTTGTCAA-TTGGTGATTTCATGTGAC
131 TATAAAAATGATTTGTCAATTTGGTGATTTCATGTGAC
8270798 ATTTCATTCCATAAGTCTATTTTGTTGAACTCATTATTATCTCTCGATTTGTATTATTTGGAGCT
1 ATTTCATTCCATAAGTCTATTTTGTTGAACTCATTATTATCTCTCGATTTGTATTATTTGGAGCT
8270863 TCATATTTTATACATCATATTTATTCTTGTCTGCCTTATACGTGTTTTTGATTAAGTAAATGGTT
66 TCATATTTTATACATCATATTTATTCTTGTCTGCCTTATACGTGTTTTTGATTAAGTAAATGGTT
8270928 TATAAAAAATGATTTGTCAATTTGGTGATTTCATGTGAC
131 TAT-AAAAATGATTTGTCAATTTGGTGATTTCATGTGAC
8270967 A
1 A
8270968 CTTGGATCCT
Statistics
Matches: 165, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
164 118 0.72
165 14 0.08
167 4 0.02
168 10 0.06
169 19 0.12
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.48
Consensus pattern (168 bp):
ATTTCATTCCATAAGTCTATTTTGTTGAACTCATTATTATCTCTCGATTTGTATTATTTGGAGCT
TCATATTTTATACATCATATTTATTCTTGTCTGCCTTATACGTGTTTTTGATTAAGTAAATGGTT
TATAAAAATGATTTGTCAATTTGGTGATTTCATGTGAC
Found at i:8272734 original size:59 final size:59
Alignment explanation
Indices: 8272616--8272736 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 59
8272606 GTAGGGTTGG
* * * * *
8272616 TTAGAGTCATATTATTGAGTTTTCCTTTTCATTGCGACTAGGAGGCTTCGATAGAACAC
1 TTAGAGCCATATTATCGAGTTTGCATTTTCATTGCGACTAGGAGGCTTCGACAGAACAC
* * * *
8272675 TTAGAGCCATATTATCGAGTTTGCATTTTCATTGTGACTAGGAGGGTTTGACAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCATTTTCATTGCGACTAGGAGGCTTCGACAGAACAC
8272734 TTA
1 TTA
8272737 TCCATCTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCATTTTCATTGCGACTAGGAGGCTTCGACAGAACAC
Found at i:8276809 original size:14 final size:14
Alignment explanation
Indices: 8276790--8276823 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8276780 TTGGTTTAGG
8276790 GTTTAGGATTTGAA
1 GTTTAGGATTTGAA
*
8276804 GTTTAGGGTTTGAA
1 GTTTAGGATTTGAA
8276818 GTTTAG
1 GTTTAG
8276824 AGTTTAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
GTTTAGGATTTGAA
Found at i:8276828 original size:14 final size:14
Alignment explanation
Indices: 8276798--8276828 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8276788 GGGTTTAGGA
*
8276798 TTTGAAGTTTAGGG
1 TTTGAAGTTTAGAG
8276812 TTTGAAGTTTAGAG
1 TTTGAAGTTTAGAG
8276826 TTT
1 TTT
8276829 AAGGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTGAAGTTTAGAG
Found at i:8276836 original size:14 final size:13
Alignment explanation
Indices: 8276790--8276828 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
8276780 TTGGTTTAGG
8276790 GTTTAGGATTTGAA
1 GTTTAGG-TTTGAA
8276804 GTTTAGGGTTTGAA
1 GTTTA-GGTTTGAA
8276818 GTTTAGAGTTT
1 GTTTAG-GTTT
8276829 AAGGTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
GTTTAGGTTTGAA
Found at i:8278445 original size:54 final size:54
Alignment explanation
Indices: 8278402--8279049 Score: 947
Period size: 54 Copynumber: 12.0 Consensus size: 54
8278392 AGATAGTTCT
*
8278402 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGTC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
** ** *
8278456 GAAATAGTTATTCATCCATGTAGGATGAATTCCGTGAAAGGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* *
8278510 GAAACGGTTATTCATCCACCTAGGATGAA-TCCTATGAAATGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCC-GTGAAATGCACACTTAGTGCC
* * * * *
8278564 GAAATGGTTATTCATCCACATATGATGAATTCCGTGAAATGCAAATTTAGTGTC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* * *
8278618 GAAACAGTTATTCATCCACATAGGATGAATTCCATGAAATTCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* *
8278672 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACATTTAATGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* * * **
8278726 AAAATGGTTATTCATCCACATACGATGAATTATGTGAAATGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* * *
8278780 GAAACAGCTATTCATCCACATAGAATGAATTCCGTGAAATGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* * *
8278834 GAAACGATTGTTCATCCACATATGATGAATTCCGTGAAATGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* * * *
8278888 GAAACGGTTATTCATCCATATAGGATGAATTCCGTGAAATACACATTTAGTACC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
* *
8278942 GAAACGGTTATTCATCCACAAAGGATGAATTCTGTGAAATGCACACTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
**
8278996 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACGTTTAGTGCC
1 GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
8279050 TATTTGGTAA
Statistics
Matches: 522, Mismatches: 70, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
53 3 0.01
54 516 0.99
55 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
GAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
Found at i:8279927 original size:80 final size:80
Alignment explanation
Indices: 8279794--8279953 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
8279784 CCTTCTAAGA
8279794 ATCGATATGTGGAAAATATTATGGATCTTATCCATATCCGGAGGCAAAGCTAACCGATAAGCTAC
1 ATCGATATGTGGAAAATATTATGGATCTTATCCATATCCGGAGGCAAAGCTAACCGATAAGCTAC
8279859 GAGTCTGACCCTTTT
66 GAGTCTGACCCTTTT
8279874 ATCGATATGTGGAAAATATTATGGATCTTATCCATATCCGGAGGCAAAGCTAACCGATAAGCTAC
1 ATCGATATGTGGAAAATATTATGGATCTTATCCATATCCGGAGGCAAAGCTAACCGATAAGCTAC
8279939 GAGTCTGACCCTTTT
66 GAGTCTGACCCTTTT
8279954 TAAAATTTCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (80 bp):
ATCGATATGTGGAAAATATTATGGATCTTATCCATATCCGGAGGCAAAGCTAACCGATAAGCTAC
GAGTCTGACCCTTTT
Found at i:8284992 original size:54 final size:54
Alignment explanation
Indices: 8284926--8285468 Score: 578
Period size: 54 Copynumber: 10.1 Consensus size: 54
8284916 CTTTCACATA
* *
8284926 TAGTGTCGAAATAGTTAATCATCCACATAGGATGAATTTCGTGAAATGCACACT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
* *
8284980 TAGTGCCAAAATAGTTATTCATCCACATAGG-TGAA-TTCTGTGAAATGCACATT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTC-GTGAAATGCACACT
* *
8285033 TAGTGCCGAAA-CGATTATTCATCCACATAGGTTGAA-TTCTGTGAAATGCACACT
1 TAGTGCCGAAATAG-TTATTCATCCACATAGGATGAATTTC-GTGAAATGCACACT
* * * *
8285087 TAGTGCCGAAACAATTATTCATCCACATAGGATGAA-TTCAGTGAAGTGCACATT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTC-GTGAAATGCACACT
* *
8285141 TAGTGTCGAAAT-GATTATTCATCCACATAGAATGAATTTCGTGAAATGCACACT
1 TAGTGCCGAAATAG-TTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
* * ** * ***
8285195 TAGTCCCGAAACAGTTATTCATTTACATAGGATAAATTTCACAAAATGCACACT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
* * **
8285249 TAGTGTCTAAACGGTTATTCATCCACATAGGATGAATTAT-GTGAAATGCACACT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATT-TCGTGAAATGCACACT
* * * * * * *
8285303 TAGTGTCGAAATGGTTTTTCAACCTCATAGGATGAATTCCGTGAAATGCACATT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
* * * *
8285357 TAGTGCCAAAATGGTTATTCATCCACATAGGATGTATTCCGTGAAATGCACACT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
* ** * ** * ** *
8285411 TAGTGCCAAAACGGTTATTCATCCATATATAATGAATTCCGTTTAATGCACATT
1 TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
8285465 TAGT
1 TAGT
8285469 ACCTATTTGG
Statistics
Matches: 419, Mismatches: 61, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
52 4 0.01
53 44 0.11
54 366 0.87
55 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (54 bp):
TAGTGCCGAAATAGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACT
Found at i:8285170 original size:108 final size:107
Alignment explanation
Indices: 8284920--8285468 Score: 645
Period size: 108 Copynumber: 5.1 Consensus size: 107
8284910 CTGTGGCTTT
* *
8284920 CACATATAGTGTCGAAAT-AGTTAATCATCCACATAGGATGAATTTCGTGAAATGCACACTTAGT
1 CACATTTAGTGTCGAAATGA-TTATTCATCCACATAGGATGAATTT-GTGAAATGCACACTTAGT
* * *
8284984 GCCAAAATAGTTATTCATCCACATAGG-TGAATTCTGTGAAATG
64 GCCGAAACAGTTATTCATCCACATAGGATGAATTCAGTGAAATG
* * *
8285027 CACATTTAGTGCCGAAACGATTATTCATCCACATAGGTTGAATTCTGTGAAATGCACACTTAGTG
1 CACATTTAGTGTCGAAATGATTATTCATCCACATAGGATGAATT-TGTGAAATGCACACTTAGTG
* *
8285092 CCGAAACAATTATTCATCCACATAGGATGAATTCAGTGAAGTG
65 CCGAAACAGTTATTCATCCACATAGGATGAATTCAGTGAAATG
* *
8285135 CACATTTAGTGTCGAAATGATTATTCATCCACATAGAATGAATTTCGTGAAATGCACACTTAGTC
1 CACATTTAGTGTCGAAATGATTATTCATCCACATAGGATGAATTT-GTGAAATGCACACTTAGTG
** * **
8285200 CCGAAACAGTTATTCATTTACATAGGATAAATTTCA-CAAAATG
65 CCGAAACAGTTATTCATCCACATAGGATGAA-TTCAGTGAAATG
* * * *
8285243 CACACTTAGTGTCTAAACGGTTATTCATCCACATAGGATGAATTATGTGAAATGCACACTTAGTG
1 CACATTTAGTGTCGAAATGATTATTCATCCACATAGGATGAATT-TGTGAAATGCACACTTAGTG
* ** * * * *
8285308 TCGAAATGGTTTTTCAACCTCATAGGATGAATTCCGTGAAATG
65 CCGAAACAGTTATTCATCCACATAGGATGAATTCAGTGAAATG
* * * * *
8285351 CACATTTAGTGCCAAAATGGTTATTCATCCACATAGGATGTATTCCGTGAAATGCACACTTAGTG
1 CACATTTAGTGTCGAAATGATTATTCATCCACATAGGATGAATT-TGTGAAATGCACACTTAGTG
* * * ** * **
8285416 CCAAAACGGTTATTCATCCATATATAATGAATTCCGTTTAATG
65 CCGAAACAGTTATTCATCCACATAGGATGAATTCAGTGAAATG
8285459 CACATTTAGT
1 CACATTTAGT
8285469 ACCTATTTGG
Statistics
Matches: 377, Mismatches: 58, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
107 83 0.22
108 289 0.77
109 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (107 bp):
CACATTTAGTGTCGAAATGATTATTCATCCACATAGGATGAATTTGTGAAATGCACACTTAGTGC
CGAAACAGTTATTCATCCACATAGGATGAATTCAGTGAAATG
Found at i:8286955 original size:24 final size:25
Alignment explanation
Indices: 8286921--8286990 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 25
8286911 AAACGGAGAT
* *
8286921 ATCAGAAATCAAAATAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCTAG
*
8286945 ATCAGATATCAGAACAGAA-TCTAG
1 ATCAGAAATCAGAACAGAATTCTAG
*
8286969 ATTAGAAATCAGAACAGAATTC
1 ATCAGAAATCAGAACAGAATTC
8286991 GGGTCATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCTAG
Found at i:8291440 original size:24 final size:24
Alignment explanation
Indices: 8291406--8291476 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
8291396 AAACGGAGAT
*
8291406 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAATAGAATTCAG
* * *
8291430 ATCAGATATCAGAATAGAATCCAT
1 ATCAGAAATCAGAATAGAATTCAG
* *
8291454 ATTAGAAATCAGAACAGAATTCA
1 ATCAGAAATCAGAATAGAATTCA
8291477 AGTCATGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAGAATAGAATTCAG
Found at i:8293747 original size:32 final size:31
Alignment explanation
Indices: 8293710--8293785 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
8293700 ACCCGAAAAA
8293710 AGTCAACGGTCAGTCAACACATGGTCAACGCC
1 AGTCAACGGTCAGTCAAC-CATGGTCAACGCC
* * * * **
8293742 GGTCAAAGTTCTGGTCAACGGTGGTCAACGCC
1 AGTCAACGGTC-AGTCAACCATGGTCAACGCC
8293774 AGTCAACGGTCA
1 AGTCAACGGTCA
8293786 ACGATCAACA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (31 bp):
AGTCAACGGTCAGTCAACCATGGTCAACGCC
Found at i:8298999 original size:13 final size:13
Alignment explanation
Indices: 8298981--8299006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8298971 TTTAATATAT
8298981 TTTTTGAAAATAA
1 TTTTTGAAAATAA
8298994 TTTTTGAAAATAA
1 TTTTTGAAAATAA
8299007 AATATTTATT
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAATAA
Found at i:8310142 original size:2 final size:2
Alignment explanation
Indices: 8310135--8310196 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
8310125 AGGGTAACTC
8310135 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
8310177 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
8310197 TTAAAGTGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8313594 original size:50 final size:50
Alignment explanation
Indices: 8313519--8313632 Score: 219
Period size: 50 Copynumber: 2.3 Consensus size: 50
8313509 TAAAAATATC
8313519 TAAGTATCGATACCCCTATTGAGGGTATCGGTATTTATATCCATATTGCT
1 TAAGTATCGATACCCCTATTGAGGGTATCGGTATTTATATCCATATTGCT
*
8313569 TAAGTATCGATACCCCTATTGAGGGTATCGGTATTTGTATCCATATTGCT
1 TAAGTATCGATACCCCTATTGAGGGTATCGGTATTTATATCCATATTGCT
8313619 TAAGTATCGATACC
1 TAAGTATCGATACC
8313633 AAATTTGGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (50 bp):
TAAGTATCGATACCCCTATTGAGGGTATCGGTATTTATATCCATATTGCT
Found at i:8317928 original size:16 final size:19
Alignment explanation
Indices: 8317888--8317931 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
8317878 CCTTCAAGCA
8317888 GTATCGATACCAAAGAGTG
1 GTATCGATACCAAAGAGTG
8317907 GTATCGATACC-AAG-GT-
1 GTATCGATACCAAAGAGTG
8317923 GTATCGATA
1 GTATCGATA
8317932 TAAGTGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 2 0.08
18 3 0.12
19 11 0.44
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (19 bp):
GTATCGATACCAAAGAGTG
Found at i:8318815 original size:15 final size:15
Alignment explanation
Indices: 8318795--8318824 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8318785 GGTTATGCGC
8318795 GGTCCTTCAGGACGT
1 GGTCCTTCAGGACGT
8318810 GGTCCTTCAGGACGT
1 GGTCCTTCAGGACGT
8318825 ATATGTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGTCCTTCAGGACGT
Found at i:8325458 original size:84 final size:85
Alignment explanation
Indices: 8325311--8325500 Score: 210
Period size: 84 Copynumber: 2.2 Consensus size: 85
8325301 ATACAATCAC
* *
8325311 GACACA-AGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATAACACGCAATGTAAGTCAT
1 GACACACA-AATGTGTGTCATCTTATTTAATGACGTGGGCTTCAATAACACGCAATGTAAGTCAT
* * *
8325375 ACATGTGTG-CATAAATTTAT
65 AAATGCGCGTCATAAATTTAT
* * *
8325395 GACACACAAATGTGTGTCATCTTCATTT-ATGACAG-GGGCTTCAATGACGCGCAATG-AGCGTC
1 GACACACAAATGTGTGTCATCTT-ATTTAATGAC-GTGGGCTTCAATAACACGCAATGTA-AGTC
*
8325457 ATAAATGCGCGTCATAGATTTAT
63 ATAAATGCGCGTCATAAATTTAT
* *
8325480 GACACACAATTGTGCGTCATC
1 GACACACAAATGTGTGTCATC
8325501 AAAAATTCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
83 1 0.01
84 55 0.61
85 34 0.38
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTATTTAATGACGTGGGCTTCAATAACACGCAATGTAAGTCATA
AATGCGCGTCATAAATTTAT
Found at i:8338342 original size:3 final size:3
Alignment explanation
Indices: 8338318--8338420 Score: 140
Period size: 3 Copynumber: 35.0 Consensus size: 3
8338308 TTTGGGCATG
* * *
8338318 TAA TAG TAA TAA TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8338366 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TTAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
*
8338410 TAT TAA -AA TAA
1 TAA TAA TAA TAA
8338421 AAAGGGACAA
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
2 6 0.07
3 81 0.90
4 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8343830 original size:2 final size:2
Alignment explanation
Indices: 8343823--8343851 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8343813 TTGACAACAT
8343823 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
8343852 TTAAATTTAA
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:8346963 original size:25 final size:25
Alignment explanation
Indices: 8346929--8346978 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
8346919 TCAATAGTGG
8346929 ATGCATCAAAAGTTTATTGTTCAAC
1 ATGCATCAAAAGTTTATTGTTCAAC
* *
8346954 ATGCATCAAAGGTTTCTTGTTCAAC
1 ATGCATCAAAAGTTTATTGTTCAAC
8346979 TCTTGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (25 bp):
ATGCATCAAAAGTTTATTGTTCAAC
Found at i:8347397 original size:20 final size:21
Alignment explanation
Indices: 8347355--8347402 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
8347345 TCTCTTTTTT
*
8347355 TTCTAAATCTCAATTTAAACA
1 TTCTAAACCTCAATTTAAACA
*
8347376 TTCTAAACCTCAA-TTAAGCA
1 TTCTAAACCTCAATTTAAACA
8347396 TTCTAAA
1 TTCTAAA
8347403 ATTATCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (21 bp):
TTCTAAACCTCAATTTAAACA
Found at i:8350447 original size:2 final size:2
Alignment explanation
Indices: 8350440--8350466 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8350430 TAAACTTGCA
8350440 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8350467 AAAGCATAAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8365274 original size:3 final size:3
Alignment explanation
Indices: 8365266--8365324 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
8365256 CATTTAAATT
* * *
8365266 TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
8365312 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
8365325 ATATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.91
4 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8366851 original size:18 final size:18
Alignment explanation
Indices: 8366817--8366851 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8366807 CAATTATGTC
* *
8366817 AATATATATAGTCTTATA
1 AATATATATAATATTATA
8366835 AATATATATAATATTAT
1 AATATATATAATATTAT
8366852 TTATTTATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
AATATATATAATATTATA
Found at i:8367616 original size:20 final size:21
Alignment explanation
Indices: 8367593--8367644 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
8367583 AGAAATTAAA
8367593 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
8367613 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
8367635 -ATT-ATTTATT
1 AATTCATTTATT
8367645 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:8369787 original size:21 final size:21
Alignment explanation
Indices: 8369736--8369787 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8369726 TTCATACATG
* **
8369736 CATTTACATTTTGTATCTGTG
1 CATTTTCATTTTGTATCTGCA
8369757 CATTTTCATTTTGTAT-TGCA
1 CATTTTCATTTTGTATCTGCA
8369777 CATTTTGCATT
1 CATTTT-CATT
8369788 CTTATTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (21 bp):
CATTTTCATTTTGTATCTGCA
Found at i:8372289 original size:17 final size:17
Alignment explanation
Indices: 8372262--8372294 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8372252 CTCATCCAAC
8372262 AAAGAAAGAAGACAAAAA
1 AAAGAAAGAAGA-AAAAA
8372280 AAAG-AAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
8372295 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGAAAAAA
Found at i:8374463 original size:81 final size:81
Alignment explanation
Indices: 8374364--8374654 Score: 465
Period size: 81 Copynumber: 3.6 Consensus size: 81
8374354 GAACAAATGT
*
8374364 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
1 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
8374429 CATTGAATTTGAGATG
66 CATTGAATTTGAGATG
8374445 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
1 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
8374510 CATTGAATTTGAGATG
66 CATTGAATTTGAGATG
* * * * * *
8374526 AATGTGATCATAGCATTTTCTGAAAGTGTTCTTTGAGTTATCAGATCTGGTTTGGTAAAACCAAT
1 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
*
8374591 CATTGAATTTCGAAGAGG
66 CATTGAATTT-G-AGATG
* * *
8374609 AATGTGCTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
8374655 CTGATTCGGT
Statistics
Matches: 194, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 149 0.77
82 1 0.01
83 44 0.23
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (81 bp):
AATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGCAGAACCAAT
CATTGAATTTGAGATG
Found at i:8376921 original size:54 final size:54
Alignment explanation
Indices: 8376856--8377010 Score: 247
Period size: 54 Copynumber: 2.9 Consensus size: 54
8376846 GAAATCTTGG
*
8376856 CAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
* *
8376910 CAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAG
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
*** *
8376964 CAGAAGCCACAGGAAAGGATGAATGCACTATCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
8377011 CTGCTATTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAA
Found at i:8377407 original size:22 final size:22
Alignment explanation
Indices: 8377378--8377432 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
8377368 ATCTACACTC
*
8377378 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
8377400 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
8377422 TTCAAAGATGA
1 TTCAAAGATGA
8377433 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:8378253 original size:76 final size:76
Alignment explanation
Indices: 8378107--8378904 Score: 1454
Period size: 76 Copynumber: 10.5 Consensus size: 76
8378097 CTATTTCTCA
8378107 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
8378172 AAAGCCTTCGGGT
64 AAAGCCTTCGGGT
8378185 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378250 AGCCTTCGGGT
66 AGCCTTCGGGT
8378261 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378326 AGCCTTCGGGT
66 AGCCTTCGGGT
8378337 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378402 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
8378413 CATCTGTAAGTCCTTCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378478 AGCCTTCGGGT
66 AGCCTTCGGGT
*
8378489 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378554 AGCCTTCGGGT
66 AGCCTTCGGGT
*
8378565 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378630 AGCCTTCGGGT
66 AGCCTTCGGGT
* **
8378641 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTAAGGAGCTTTTT-ATTGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA-TGTTTTCA
8378705 AAGCCTTCGGGT
65 AAGCCTTCGGGT
*
8378717 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
8378782 AGCCTTCGGGT
66 AGCCTTCGGGT
8378793 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
8378858 AAACCTTCGGGT
65 AAGCCTTCGGGT
* *
8378870 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
8378905 CATTTCCATC
Statistics
Matches: 704, Mismatches: 13, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
75 1 0.00
76 625 0.89
77 46 0.07
78 32 0.05
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:8379039 original size:3 final size:3
Alignment explanation
Indices: 8379031--8379089 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
8379021 CATTTAAATT
* * *
8379031 TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
8379077 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
8379090 ATATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.91
4 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8379094 original size:2 final size:2
Alignment explanation
Indices: 8379087--8379113 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8379077 TTATTATTAT
8379087 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
8379114 TACAAGAACT
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:8381947 original size:22 final size:22
Alignment explanation
Indices: 8381919--8381982 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
8381909 GTAAGACCAC
8381919 TATGTCCCGAAGGACCACTGTA
1 TATGTCCCGAAGGACCACTGTA
* *
8381941 TATGTCCCAAAGGACCATTGTA
1 TATGTCCCGAAGGACCACTGTA
*
8381963 TATGTCCCGAATGACCACTG
1 TATGTCCCGAAGGACCACTG
8381983 ATAATCCCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (22 bp):
TATGTCCCGAAGGACCACTGTA
Found at i:8385696 original size:8 final size:8
Alignment explanation
Indices: 8385683--8385734 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
8385673 ATAACAAAAG
8385683 ATAAAATC
1 ATAAAATC
*
8385691 ATAAAAAC
1 ATAAAATC
*
8385699 ATTAAAATA
1 A-TAAAATC
8385708 ATAAAATC
1 ATAAAATC
*
8385716 AT-AAATA
1 ATAAAATC
*
8385723 ATAAAATG
1 ATAAAATC
8385731 ATAA
1 ATAA
8385735 TCCCAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 6 0.17
8 24 0.67
9 6 0.17
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (8 bp):
ATAAAATC
Found at i:8385723 original size:15 final size:15
Alignment explanation
Indices: 8385703--8385734 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8385693 AAAAACATTA
8385703 AAATAATAAAATCAT
1 AAATAATAAAATCAT
*
8385718 AAATAATAAAATGAT
1 AAATAATAAAATCAT
8385733 AA
1 AA
8385735 TCCCAATATT
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:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (15 bp):
AAATAATAAAATCAT
Found at i:8389476 original size:60 final size:59
Alignment explanation
Indices: 8389393--8389564 Score: 218
Period size: 60 Copynumber: 2.8 Consensus size: 59
8389383 AGAGCATTAT
* **
8389393 TTTGTTGAGTCCCTCTAATTATTAAAAGTTACAAAATGATCATTCGACTATTGGACGTTGC
1 TTTGTTGAGTCCCT-TAACTATTAAAAGTTACAAAATGATC-CCCGACTATTGGACGTTGC
* * * *
8389454 TTTGTTGAGTCTCTTAACTATTAAAAGTTATAAAATGATCCCCTGACTATAGGGCGTTGC
1 TTTGTTGAGTCCCTTAACTATTAAAAGTTACAAAATGATCCCC-GACTATTGGACGTTGC
** *
8389514 TTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATGCTCACCCGACTATT
1 TTTGTTGAGTCCCTTAACTATTAAAAGTTACAAAATGATC-CCCGACTATT
8389565 CATATGTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.82
61 16 0.17
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (59 bp):
TTTGTTGAGTCCCTTAACTATTAAAAGTTACAAAATGATCCCCGACTATTGGACGTTGC
Found at i:8389561 original size:120 final size:120
Alignment explanation
Indices: 8389348--8389564 Score: 310
Period size: 120 Copynumber: 1.8 Consensus size: 120
8389338 GGTCGTTGAC
** * * *
8389348 TAACTATTAAAAGTTATAAAATGATCTTTGATTATAGAGCATTATTTTGTTGAGTCCCTCTAATT
1 TAACTATTAAAAGTTATAAAATGATCCCTGACTATAGAGCATTACTTTGTTGAGTCCCTCTAACT
**
8389413 ATTAAAAGTTACAAAATGATCATTCGACTATTGGACGTTGCTTTGTTGAGTCTCT
66 ATTAAAAGTTACAAAATGATCACCCGACTATTGGACGTTGCTTTGTTGAGTCTCT
* * * *
8389468 TAACTATTAAAAGTTATAAAATGATCCCCTGACTATAGGGCGTTGCTTTGTTGAGTCCCTC-GAC
1 TAACTATTAAAAGTTATAAAATGAT-CCCTGACTATAGAGCATTACTTTGTTGAGTCCCTCTAAC
*
8389532 TATTAAAAGTTACAAAATGCTCACCCGACTATT
65 TATTAAAAGTTACAAAATGATCACCCGACTATT
8389565 CATATGTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 56 0.67
121 28 0.33
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (120 bp):
TAACTATTAAAAGTTATAAAATGATCCCTGACTATAGAGCATTACTTTGTTGAGTCCCTCTAACT
ATTAAAAGTTACAAAATGATCACCCGACTATTGGACGTTGCTTTGTTGAGTCTCT
Found at i:8392489 original size:3 final size:3
Alignment explanation
Indices: 8392483--8392507 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8392473 AATAATAGTA
8392483 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
8392508 AACGGGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8392806 original size:55 final size:55
Alignment explanation
Indices: 8392716--8392864 Score: 192
Period size: 55 Copynumber: 2.7 Consensus size: 55
8392706 AAGATCATGT
* * * * *
8392716 TCCTCTCTTCTTTTTGGGAAATAAGAC-TCAGGAAATCTTTGGAAGACGAGTTTGC
1 TCCTCTCTTCTTTTAGGGAGATAAGACTTGA-GAAATCTTTGGAAGACGAGTCTGA
* *
8392771 TCCTCTCTTCTTTCAGGGAGATAAGACTTGAGAAATCTTTGGAAGACGGGTCTGA
1 TCCTCTCTTCTTTTAGGGAGATAAGACTTGAGAAATCTTTGGAAGACGAGTCTGA
** *
8392826 TCCTCTCTTCTTTTAAAGAGATAAGACTCGAGAAATCTT
1 TCCTCTCTTCTTTTAGGGAGATAAGACTTGAGAAATCTT
8392865 AGATTCACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 80 0.98
56 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (55 bp):
TCCTCTCTTCTTTTAGGGAGATAAGACTTGAGAAATCTTTGGAAGACGAGTCTGA
Found at i:8393245 original size:179 final size:179
Alignment explanation
Indices: 8392936--8393332 Score: 568
Period size: 179 Copynumber: 2.2 Consensus size: 179
8392926 TATGAATATT
* *
8392936 AAATCAGAAATAAGAA-ATAATATGCTCCTCTATTCTTCCGGGGAGATCAGACTCGAAATTGATT
1 AAATCTGAAATAAGAAGA-AATATGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAAATTGATT
* * *
8393000 TGATTCACTGTTTTTTCATGAAGACCAAATATAACATAAGAACAATCTACTCCACTACTCTTTCG
65 TGATTCACTGCTTTTTCAGGAAGACCAAATATAACATAAGAACAATATACTCCACTACTCTTTCG
* * *
8393065 GGTAGATCAGACTCGAGATTGATTTGATTCACTGCTTTTTCAG-GAAGACC
130 GGGAGATCAGACTCGAGATTGATTTGATTCACTACTATTTC-GTGAAGACC
* *
8393115 AAATCT-AACATAAGAAGAAATTTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATT
1 AAATCTGAA-ATAAGAAGAAATATGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAAATTGATT
* * * * *
8393179 TGATTCGCTGCTTTTTCAGGAATACCAAATATGACATAAGAATAATATGCTCCACTACTCTTTCG
65 TGATTCACTGCTTTTTCAGGAAGACCAAATATAACATAAGAACAATATACTCCACTACTCTTTCG
*
8393244 GGGAGATCAGACTCGAGATTGATTTGCTTCACTACTATTTCGTGAAGACC
130 GGGAGATCAGACTCGAGATTGATTTGATTCACTACTATTTCGTGAAGACC
* **
8393294 AAATCTGAAATAAGAAG-AATATGTTCCAATACTCTTCCG
1 AAATCTGAAATAAGAAGAAATATGCTCCTCTACTCTTCCG
8393333 AAGAGATTGG
Statistics
Matches: 194, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
178 21 0.11
179 170 0.88
180 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (179 bp):
AAATCTGAAATAAGAAGAAATATGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAAATTGATTT
GATTCACTGCTTTTTCAGGAAGACCAAATATAACATAAGAACAATATACTCCACTACTCTTTCGG
GGAGATCAGACTCGAGATTGATTTGATTCACTACTATTTCGTGAAGACC
Found at i:8393346 original size:89 final size:89
Alignment explanation
Indices: 8392945--8393332 Score: 501
Period size: 89 Copynumber: 4.3 Consensus size: 89
8392935 TAAATCAGAA
* * * *
8392945 ATAAGAAATAATATGCTCCTCTATTCTTCCGGGGAGATCAGACTCGAAATTGATTTGATTCACTG
1 ATAAG-AAGAATATGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCACTG
* *
8393010 TTTTTTCATGAAGACCAAATATAAC
65 CTTTTTCAGGAAGACCAAATATAAC
* * * * *
8393035 ATAAGAACAATCTACTCCACTACTCTTTCGGGTAGATCAGACTCGAGATTGATTTGATTCACTGC
1 ATAAGAAGAATATGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCACTGC
*
8393100 TTTTTCAGGAAGACCAAATCTAAC
66 TTTTTCAGGAAGACCAAATATAAC
* * *
8393124 ATAAGAAGAAATTTGCTCCTCTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCGCTG
1 ATAAGAAG-AATATGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCACTG
* *
8393189 CTTTTTCAGGAATACCAAATATGAC
65 CTTTTTCAGGAAGACCAAATATAAC
* * * *
8393214 ATAAGAATAATATGCTCCACTACTCTTTCGGGGAGATCAGACTCGAGATTGATTTGCTTCACTAC
1 ATAAGAAGAATATGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCACTGC
* *
8393279 TATTTC-GTGAAGACCAAATCTGAA-
66 TTTTTCAG-GAAGACCAAATAT-AAC
* *
8393303 ATAAGAAGAATATGTTCCAATACTCTTCCG
1 ATAAGAAGAATATGCTCCACTACTCTTCCG
8393333 AAGAGATTGG
Statistics
Matches: 259, Mismatches: 36, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
88 1 0.00
89 173 0.67
90 85 0.33
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (89 bp):
ATAAGAAGAATATGCTCCACTACTCTTCCGGGGAGATCAGACTCGAGATTGATTTGATTCACTGC
TTTTTCAGGAAGACCAAATATAAC
Found at i:8408720 original size:12 final size:12
Alignment explanation
Indices: 8408703--8408727 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8408693 AGAGTACAAC
8408703 TGTTTTAATTGG
1 TGTTTTAATTGG
8408715 TGTTTTAATTGG
1 TGTTTTAATTGG
8408727 T
1 T
8408728 ATACATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TGTTTTAATTGG
Found at i:8413109 original size:3 final size:3
Alignment explanation
Indices: 8413103--8413214 Score: 190
Period size: 3 Copynumber: 37.3 Consensus size: 3
8413093 AATAATAATA
**
8413103 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8413151 GA-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8413196 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
8413215 AACGGGACAA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
2 1 0.01
3 101 0.98
4 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8413417 original size:40 final size:43
Alignment explanation
Indices: 8413361--8413459 Score: 141
Period size: 40 Copynumber: 2.4 Consensus size: 43
8413351 TAAAGTTCTT
* *
8413361 AAGAATAAGAAGAAGATATAAAAATTAGTTAATA-A-AT-ATG
1 AAGAAGAAGAATAAGATATAAAAATTAGTTAATATATATGATG
8413401 AAGAAGAAGAATAAGATATAAAAATTAGTTAATATATATGATG
1 AAGAAGAAGAATAAGATATAAAAATTAGTTAATATATATGATG
* *
8413444 ATGATGAAGAATAAGA
1 AAGAAGAAGAATAAGA
8413460 GTTAACGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 32 0.62
41 1 0.02
42 2 0.04
43 17 0.33
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (43 bp):
AAGAAGAAGAATAAGATATAAAAATTAGTTAATATATATGATG
Found at i:8414438 original size:16 final size:17
Alignment explanation
Indices: 8414411--8414443 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8414401 CGCCCCATAC
8414411 TTCCCTTTTTTCTCTTT
1 TTCCCTTTTTTCTCTTT
8414428 TTCCC-TTTTTCTCTTT
1 TTCCCTTTTTTCTCTTT
8414444 GCATCAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TTCCCTTTTTTCTCTTT
Found at i:8417862 original size:2 final size:2
Alignment explanation
Indices: 8417855--8417889 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8417845 TCAATCTACA
8417855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8417890 AAATTTACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8418067 original size:13 final size:13
Alignment explanation
Indices: 8418046--8418076 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8418036 AATGACACGC
8418046 AATGAGTGTCATA
1 AATGAGTGTCATA
*
8418059 AATGCGTGTCATA
1 AATGAGTGTCATA
8418072 AATGA
1 AATGA
8418077 AACGTCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (13 bp):
AATGAGTGTCATA
Found at i:8419737 original size:42 final size:42
Alignment explanation
Indices: 8419615--8419869 Score: 239
Period size: 43 Copynumber: 6.0 Consensus size: 42
8419605 ACAAAATCAT
*
8419615 CGCAATAGGTCAAGATCTAT--CGTACCGTTTTTGGAACAAACGC
1 CGCAAAAGGTC-AGATCTATAGCG-A-CGTTTTTGGAACAAACGC
* ** ** *
8419658 CGCAAAAGGTCGATATCTATAGCGGTGTTTTCAGAACAAACAC
1 CGCAAAAGGTC-AGATCTATAGCGACGTTTTTGGAACAAACGC
* * **
8419701 TGCAAAAGGTCAGATCTATAACGATATTTTTGGAACAAACGC
1 CGCAAAAGGTCAGATCTATAGCGACGTTTTTGGAACAAACGC
* * * *
8419743 CGCAAAAGGTTAGA-CTATAGTGGCGTTTTAGGAACAAACGC
1 CGCAAAAGGTCAGATCTATAGCGACGTTTTTGGAACAAACGC
* * **
8419784 CGCAAAAGGTTAGATCTATAGC-AGCGTTTTTGGATACAAGCTT
1 CGCAAAAGGTCAGATCTATAGCGA-CGTTTTTGGA-ACAAACGC
*
8419827 CGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGC
1 CGCAAAAGGTCAGATCTATAGCGACGTTTTTGGA-ACAAACGC
8419870 TGCTAATAAC
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
41 35 0.20
42 51 0.30
43 83 0.49
45 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (42 bp):
CGCAAAAGGTCAGATCTATAGCGACGTTTTTGGAACAAACGC
Found at i:8423347 original size:3 final size:3
Alignment explanation
Indices: 8423339--8423409 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
8423329 TCGTGCTATA
8423339 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8423387 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
8423410 GGGTAAAGTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8440129 original size:29 final size:29
Alignment explanation
Indices: 8440094--8440154 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
8440084 GATAGGGAGG
* * *
8440094 AGAAAAAGAGAAGATATAGAAA-AGAAGAA
1 AGAAAAAGAAAAAATAAAGAAAGAGAA-AA
8440123 AGAAAAAGAAAAAATAAAGAAAGAGAAAA
1 AGAAAAAGAAAAAATAAAGAAAGAGAAAA
8440152 AGA
1 AGA
8440155 GAGAAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (29 bp):
AGAAAAAGAAAAAATAAAGAAAGAGAAAA
Found at i:8440131 original size:24 final size:22
Alignment explanation
Indices: 8440111--8440201 Score: 69
Period size: 25 Copynumber: 3.9 Consensus size: 22
8440101 GAGAAGATAT
8440111 AGAAAAGAAGAAAGAAAAAGAA
1 AGAAAAGAAGAAAGAAAAAGAA
*
8440133 A-AAATA-AAGAAAGAGAAAAAGAG
1 AGAAA-AGAAG-AA-AGAAAAAGAA
*
8440156 AGAAAAGAAAGCAAAGAAAAAGGGGA
1 AGAAAAG-AAG-AAAGAAAAA--GAA
*
8440182 AGAAATGGAAGAAAGAAAAA
1 AGAAA-AGAAGAAAGAAAAA
8440202 AGATCAAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.11
22 4 0.07
23 11 0.20
24 10 0.18
25 14 0.25
26 9 0.16
27 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.02
Consensus pattern (22 bp):
AGAAAAGAAGAAAGAAAAAGAA
Found at i:8440132 original size:6 final size:6
Alignment explanation
Indices: 8440113--8440154 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
8440103 GAAGATATAG
* *
8440113 AAAAGA AGAAAGA AAAAGA AAAA-A TAAAGA AAGAGA AAAAGA
1 AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
8440155 GAGAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.13
6 20 0.67
7 6 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:8440141 original size:17 final size:17
Alignment explanation
Indices: 8440096--8440165 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
8440086 TAGGGAGGAG
* *
8440096 AAAAAGAGAAGATATAGA
1 AAAAAGA-AAGAAAAAGA
8440114 AAAGAAGAAAGAAAAAGA
1 AAA-AAGAAAGAAAAAGA
* *
8440132 AAAAATAAAGAAAGAG-
1 AAAAAGAAAGAAAAAGA
*
8440148 AAAAAGAGAG-AAAAGA
1 AAAAAGAAAGAAAAAGA
8440164 AA
1 AA
8440166 GCAAAGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 4 0.09
16 10 0.23
17 11 0.26
18 14 0.33
19 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAGA
Found at i:8440146 original size:25 final size:23
Alignment explanation
Indices: 8440113--8440177 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
8440103 GAAGATATAG
8440113 AAAAG-AAGAAAGAAAAAGAAAAA
1 AAAAGAAAGAAAGAAAAAG-AAAA
* *
8440136 ATAAAGAAAG--AGAAAAAGAGAG
1 A-AAAGAAAGAAAGAAAAAGAAAA
8440158 AAAAGAAAGCAAAGAAAAAG
1 AAAAGAAAG-AAAGAAAAAG
8440178 GGGAAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
21 8 0.23
22 3 0.09
23 9 0.26
24 12 0.34
25 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (23 bp):
AAAAGAAAGAAAGAAAAAGAAAA
Found at i:8440166 original size:21 final size:22
Alignment explanation
Indices: 8440111--8440166 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
8440101 GAGAAGATAT
*
8440111 AGAAAAGAAGAAAGAAAAAGAAA
1 AGAAAAGAA-AGAGAAAAAGAAA
* *
8440134 AAATAAAGAAAGAGAAAAAG-AG
1 AGA-AAAGAAAGAGAAAAAGAAA
8440156 AGAAAAGAAAG
1 AGAAAAGAAAG
8440167 CAAAGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 8 0.29
22 3 0.11
23 11 0.39
24 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (22 bp):
AGAAAAGAAAGAGAAAAAGAAA
Found at i:8442287 original size:54 final size:53
Alignment explanation
Indices: 8442221--8442604 Score: 430
Period size: 54 Copynumber: 7.1 Consensus size: 53
8442211 CCCAAACAAT
* * * *
8442221 TTGATGTTTTCAAATGAATTTTGAAACAAACTAAGGTTGATTTTTGGGAGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTTGGG-GTTTC
* *
8442275 TTGATGTCTTCAAATAAATTTTGAAAGAAGCTAAGCTTGATTTTAAGGGGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTT-TGGGGTTTC
* * *
8442329 TTGATGTCTTCAAATGAATTTTTAAATG-AGCTAAGCTTGATTTTCAGGCGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAA-GAAGCTAAGCTTGATTTT-TGGGGTTTC
* *
8442383 TTGATGTCTTCAAATGAATTTTGAAAGAAGTTAAGCATGATTTTTAGGGGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTT-GGGGTTTC
* * * * *
8442437 TTGATGTTTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTT-TGGGGTTTC
* * * * * * *
8442491 TTGATGAT-TACAATTGGATTTTGAAAGAAACTAATCGTGATTTTTAGGGGTTTT
1 TTGATG-TCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTT-GGGGTTTC
* * * *
8442545 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCATAATTTTTAGGGGTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTT-GGGGTTTC
8442599 TTGATG
1 TTGATG
8442605 ATAACTGTAA
Statistics
Matches: 281, Mismatches: 41, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.01
54 274 0.98
55 5 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (53 bp):
TTGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTTGGGGTTTC
Found at i:8442488 original size:162 final size:162
Alignment explanation
Indices: 8442221--8442604 Score: 497
Period size: 162 Copynumber: 2.4 Consensus size: 162
8442211 CCCAAACAAT
* **
8442221 TTGATGTTTTCAAATGAATTTTGAAACAAA-CTAAGGTTGATTTTT-GGGAGTTTCTTGATGTCT
1 TTGATGTCTTCAAATGAATTTTGAAA-AAAGCTAAGCATGATTTTTAGGG-GTTTCTTGATGTCT
* *
8442284 TCAAATAAATTTTGAAAGAAGCTAAGCTTGATTTTAAGGGGTTTCTTGATG-TCTTCAAATGAAT
64 TCAAATAAATTTTGAAAGAAGCTAAGCCTGATTTTAAGGGGTTTCTTGATGAT-TACAAATGAAT
* * *
8442348 TTTTAAATG-AGCTAAGCTTGATTTTCAGGCGTTTC
128 TTTGAAA-GAAACTAAGCGTGATTTTCAGGCGTTTC
* * *
8442383 TTGATGTCTTCAAATGAATTTTGAAAGAAGTTAAGCATGATTTTTAGGGGTTTCTTGATGTTTTC
1 TTGATGTCTTCAAATGAATTTTGAAAAAAGCTAAGCATGATTTTTAGGGGTTTCTTGATGTCTTC
* * * * * *
8442448 AAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGATTACAATTGGATTTT
66 AAATAAATTTTGAAAGAAGCTAAGCCTGATTTTAAGGGGTTTCTTGATGATTACAAATGAATTTT
* * * *
8442513 GAAAGAAACTAATCGTGATTTTTAGGGGTTTT
131 GAAAGAAACTAAGCGTGATTTTCAGGCGTTTC
* *
8442545 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCATAATTTTTAGGGGTTTCTTGATG
1 TTGATGTCTTCAAATGAATTTTGAAAAAAGCTAAGCATGATTTTTAGGGGTTTCTTGATG
8442605 ATAACTGTAA
Statistics
Matches: 193, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
161 3 0.02
162 186 0.96
163 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (162 bp):
TTGATGTCTTCAAATGAATTTTGAAAAAAGCTAAGCATGATTTTTAGGGGTTTCTTGATGTCTTC
AAATAAATTTTGAAAGAAGCTAAGCCTGATTTTAAGGGGTTTCTTGATGATTACAAATGAATTTT
GAAAGAAACTAAGCGTGATTTTCAGGCGTTTC
Found at i:8442606 original size:108 final size:108
Alignment explanation
Indices: 8442221--8442604 Score: 495
Period size: 108 Copynumber: 3.6 Consensus size: 108
8442211 CCCAAACAAT
* * * *
8442221 TTGATGTTTTCAAATGAATTTTGAAACAAA-CTAAGGTTGATTTT-TGGGAGTTTCTTGATGTCT
1 TTGATGTCTTCAAATGAATTTTTAAA-AAAGCTAAGCTTGATTTTCAGGG-GTTTCTTGATGTCT
* * *
8442284 TCAAATAAATTTTGAAAGAAGCTAAGCTTGATTTTAAGGGGTTTC
64 TCAAATGAATTTTGAAAGAAGCTAAGCATGATTTTTAGGGGTTTC
** *
8442329 TTGATGTCTTCAAATGAATTTTTAAATGAGCTAAGCTTGATTTTCAGGCGTTTCTTGATGTCTTC
1 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATGTCTTC
*
8442394 AAATGAATTTTGAAAGAAGTTAAGCATGATTTTTAGGGGTTTC
66 AAATGAATTTTGAAAGAAGCTAAGCATGATTTTTAGGGGTTTC
* ** * *
8442437 TTGATGTTTTCAAATGAATTTTTAAAGGAGCTAAGCCTGATTTTCAGGGGTTTCTTGATGAT-TA
1 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATG-TCTT
* * * * * *
8442501 CAATTGGATTTTGAAAGAAACTAATCGTGATTTTTAGGGGTTTT
65 CAAATGAATTTTGAAAGAAGCTAAGCATGATTTTTAGGGGTTTC
* * *
8442545 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCATAATTTTTAGGGGTTTCTTGATG
1 TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATG
8442605 ATAACTGTAA
Statistics
Matches: 244, Mismatches: 29, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
107 1 0.00
108 240 0.98
109 3 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (108 bp):
TTGATGTCTTCAAATGAATTTTTAAAAAAGCTAAGCTTGATTTTCAGGGGTTTCTTGATGTCTTC
AAATGAATTTTGAAAGAAGCTAAGCATGATTTTTAGGGGTTTC
Found at i:8443025 original size:95 final size:94
Alignment explanation
Indices: 8442862--8443051 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 94
8442852 AAAAGAGGAT
8442862 AACAATGAAGTTTTCTTTCCGCTAAATAGTGATAGAACTTTGAAAAATCAATGCAAATCTTGGAT
1 AACAATGAAGTTTTCTTTCCGCTAAATAGTGATAGAACTTTGAAAAATCAATGCAAATCTTGGAT
8442927 GACTGAATTTGATGTTGGCAATTTGAGCAA
66 GACTGAATTTGATGTTGGCAA-TTGAGCAA
8442957 AACAATGAAGTTTTCTTTCCGCTAAATAGTGATAGAACTTTGAAAAATCAATGCAAATCTTGGAT
1 AACAATGAAGTTTTCTTTCCGCTAAATAGTGATAGAACTTTGAAAAATCAATGCAAATCTTGGAT
8443022 GACTGAATTTGATGTTGGCAATTGAGCAA
66 GACTGAATTTGATGTTGGCAATTGAGCAA
8443051 A
1 A
8443052 CACCTTCAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 9 0.09
95 86 0.91
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (94 bp):
AACAATGAAGTTTTCTTTCCGCTAAATAGTGATAGAACTTTGAAAAATCAATGCAAATCTTGGAT
GACTGAATTTGATGTTGGCAATTGAGCAA
Found at i:8443448 original size:18 final size:18
Alignment explanation
Indices: 8443421--8443457 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8443411 TAGGAAGAGT
*
8443421 ATGAAGACTGCTCTTGCA
1 ATGAAAACTGCTCTTGCA
8443439 ATGAAAACTGCTCTTGCA
1 ATGAAAACTGCTCTTGCA
8443457 A
1 A
8443458 CTATTCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (18 bp):
ATGAAAACTGCTCTTGCA
Found at i:8445840 original size:20 final size:20
Alignment explanation
Indices: 8445817--8445988 Score: 128
Period size: 20 Copynumber: 7.7 Consensus size: 20
8445807 TAACTAAAAT
8445817 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
8445837 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
8445863 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
8445883 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
8445909 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
8445929 GCGTGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
8445955 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
8445975 GCTTGAAAGGATGC
1 GCATGAAAGGATGC
8445989 CATAACTAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 36
0.72 0.06 0.21
Matches are distributed among these distances:
20 56 0.46
21 9 0.07
22 3 0.02
24 3 0.02
25 9 0.07
26 43 0.35
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:8445871 original size:46 final size:46
Alignment explanation
Indices: 8445805--8446046 Score: 412
Period size: 46 Copynumber: 5.3 Consensus size: 46
8445795 TAAAATGAAT
*
8445805 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
8445851 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
8445897 CATAACTAAAATGCATGAAAGGATGCATTAAGGCGTGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
8445943 CATAACTAAAATGCATGAAATGATGCATTAAGGCTTGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
8445989 CATAACTAAAATGCAAGAAAAGATGCATTAAGGTATGAAAGGATGA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
8446035 CATAACTAAAAT
1 CATAACTAAAAT
8446047 TTACGAATAA
Statistics
Matches: 187, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 187 1.00
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:8446974 original size:35 final size:34
Alignment explanation
Indices: 8446905--8446975 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 34
8446895 CAGATCAGAC
*
8446905 CAAATCCAATAAAAAACAAAAAAAAATAAGAAAT
1 CAAATCCAATAAAAAACAAAAAAAAATAACAAAT
*
8446939 CAAATCTAATAAAAAAACAAAAAAAAGA-AACAAAT
1 CAAATCCAAT-AAAAAACAAAAAAAA-ATAACAAAT
8446974 CA
1 CA
8446976 CACCTAATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 9 0.27
35 23 0.70
36 1 0.03
ACGTcount: A:0.73, C:0.13, G:0.03, T:0.11
Consensus pattern (34 bp):
CAAATCCAATAAAAAACAAAAAAAAATAACAAAT
Found at i:8446983 original size:35 final size:35
Alignment explanation
Indices: 8446915--8446983 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
8446905 CAAATCCAAT
* *
8446915 AAAAAACAAAAAAAAATAAGAAATCAAATCTAATA
1 AAAAAACAAAAAAAAATAACAAATCAAACCTAATA
*
8446950 AAAAAACAAAAAAAAGA-AACAAATCACACCTAAT
1 AAAAAACAAAAAAAA-ATAACAAATCAAACCTAAT
8446984 CCCTGTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.12
Consensus pattern (35 bp):
AAAAAACAAAAAAAAATAACAAATCAAACCTAATA
Found at i:8453187 original size:18 final size:18
Alignment explanation
Indices: 8453164--8453198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8453154 TTCCATCCGG
*
8453164 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
8453182 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
8453199 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:8454500 original size:7 final size:7
Alignment explanation
Indices: 8454488--8454541 Score: 81
Period size: 7 Copynumber: 7.3 Consensus size: 7
8454478 GGTCAACGTG
8454488 GGTCAAC
1 GGTCAAC
8454495 GGTCAAC
1 GGTCAAC
8454502 GGGTCAAC
1 -GGTCAAC
8454510 GGTCAAC
1 GGTCAAC
8454517 GTGTCAAC
1 G-GTCAAC
8454525 GGTCAAC
1 GGTCAAC
8454532 GGGTCAAC
1 -GGTCAAC
8454540 GG
1 GG
8454542 GTCGGGTCGG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 23 0.52
8 21 0.48
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:8454507 original size:15 final size:15
Alignment explanation
Indices: 8454487--8454541 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
8454477 TGGTCAACGT
8454487 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
8454502 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
*
8454517 GTGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
8454532 GGGTCAACGG
1 GGGTCAACGG
8454542 GTCGGGTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:8454508 original size:8 final size:8
Alignment explanation
Indices: 8454487--8454544 Score: 86
Period size: 8 Copynumber: 7.6 Consensus size: 8
8454477 TGGTCAACGT
8454487 GGGTCAAC
1 GGGTCAAC
8454495 -GGTCAAC
1 GGGTCAAC
8454502 GGGTCAAC
1 GGGTCAAC
8454510 -GGTCAAC
1 GGGTCAAC
*
8454517 GTGTCAAC
1 GGGTCAAC
8454525 -GGTCAAC
1 GGGTCAAC
8454532 GGGTCAAC
1 GGGTCAAC
8454540 GGGTC
1 GGGTC
8454545 GGGTCGGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 20 0.44
8 25 0.56
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (8 bp):
GGGTCAAC
Found at i:8454525 original size:30 final size:31
Alignment explanation
Indices: 8454478--8454541 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
8454468 GGTCAACAAT
8454478 GGTCAACGTGGGTCAACGGTCAACGGGTCAAC
1 GGTCAACGT-GGTCAACGGTCAACGGGTCAAC
8454510 GGTCAACGT-GTCAACGGTCAACGGGTCAAC
1 GGTCAACGTGGTCAACGGTCAACGGGTCAAC
8454540 GG
1 GG
8454542 GTCGGGTCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 23 0.72
32 9 0.28
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (31 bp):
GGTCAACGTGGTCAACGGTCAACGGGTCAAC
Found at i:8458175 original size:18 final size:18
Alignment explanation
Indices: 8458152--8458186 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8458142 TTCCATCCGG
*
8458152 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
8458170 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
8458187 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:8459485 original size:7 final size:7
Alignment explanation
Indices: 8459473--8459526 Score: 81
Period size: 7 Copynumber: 7.3 Consensus size: 7
8459463 GGTCAACGTG
8459473 GGTCAAC
1 GGTCAAC
8459480 GGTCAAC
1 GGTCAAC
8459487 GGGTCAAC
1 -GGTCAAC
8459495 GGTCAAC
1 GGTCAAC
8459502 GTGTCAAC
1 G-GTCAAC
8459510 GGTCAAC
1 GGTCAAC
8459517 GGGTCAAC
1 -GGTCAAC
8459525 GG
1 GG
8459527 GTCGGGTCGG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 23 0.52
8 21 0.48
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (7 bp):
GGTCAAC
Found at i:8459492 original size:15 final size:15
Alignment explanation
Indices: 8459472--8459526 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
8459462 TGGTCAACGT
8459472 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
8459487 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
*
8459502 GTGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
8459517 GGGTCAACGG
1 GGGTCAACGG
8459527 GTCGGGTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:8459493 original size:8 final size:8
Alignment explanation
Indices: 8459472--8459529 Score: 86
Period size: 8 Copynumber: 7.6 Consensus size: 8
8459462 TGGTCAACGT
8459472 GGGTCAAC
1 GGGTCAAC
8459480 -GGTCAAC
1 GGGTCAAC
8459487 GGGTCAAC
1 GGGTCAAC
8459495 -GGTCAAC
1 GGGTCAAC
*
8459502 GTGTCAAC
1 GGGTCAAC
8459510 -GGTCAAC
1 GGGTCAAC
8459517 GGGTCAAC
1 GGGTCAAC
8459525 GGGTC
1 GGGTC
8459530 GGGTCGGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 20 0.44
8 25 0.56
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (8 bp):
GGGTCAAC
Found at i:8459510 original size:30 final size:31
Alignment explanation
Indices: 8459463--8459526 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
8459453 GGTCAACAAT
8459463 GGTCAACGTGGGTCAACGGTCAACGGGTCAAC
1 GGTCAACGT-GGTCAACGGTCAACGGGTCAAC
8459495 GGTCAACGT-GTCAACGGTCAACGGGTCAAC
1 GGTCAACGTGGTCAACGGTCAACGGGTCAAC
8459525 GG
1 GG
8459527 GTCGGGTCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 23 0.72
32 9 0.28
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (31 bp):
GGTCAACGTGGTCAACGGTCAACGGGTCAAC
Found at i:8462847 original size:1 final size:1
Alignment explanation
Indices: 8462841--8462870 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
8462831 GCCTTTTCAA
8462841 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8462871 GCACACTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8467680 original size:7 final size:7
Alignment explanation
Indices: 8467670--8467695 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8467660 ACTTTTTTGT
8467670 TTTGTAA
1 TTTGTAA
8467677 TTTGTAA
1 TTTGTAA
8467684 TTTGTAA
1 TTTGTAA
8467691 TTTGT
1 TTTGT
8467696 CAGGGAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (7 bp):
TTTGTAA
Found at i:8468300 original size:2 final size:2
Alignment explanation
Indices: 8468293--8468320 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8468283 CAATAAAATA
8468293 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
8468321 GTATTAGAAT
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:8475117 original size:16 final size:16
Alignment explanation
Indices: 8475096--8475131 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8475086 AAATTAAAAT
*
8475096 ATATATTTAATATATA
1 ATATATTAAATATATA
*
8475112 ATATATTAAATATTTA
1 ATATATTAAATATATA
8475128 ATAT
1 ATAT
8475132 TTTTGAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATTAAATATATA
Found at i:8490481 original size:28 final size:28
Alignment explanation
Indices: 8490445--8490529 Score: 152
Period size: 28 Copynumber: 3.0 Consensus size: 28
8490435 AGACATGTAA
* *
8490445 TTTGGAGTATATGTTCCCTTTAATAATC
1 TTTGAAGTATTTGTTCCCTTTAATAATC
8490473 TTTGAAGTATTTGTTCCCTTTAATAATC
1 TTTGAAGTATTTGTTCCCTTTAATAATC
8490501 TTTGAAGTATTTGTTCCCTTTAATAATC
1 TTTGAAGTATTTGTTCCCTTTAATAATC
8490529 T
1 T
8490530 ATCTTCGTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (28 bp):
TTTGAAGTATTTGTTCCCTTTAATAATC
Found at i:8491321 original size:10 final size:10
Alignment explanation
Indices: 8491306--8491347 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
8491296 TTCATCACAC
8491306 CAAATTCTCT
1 CAAATTCTCT
8491316 CAAATTCTCT
1 CAAATTCTCT
*
8491326 CAAATACTCT
1 CAAATTCTCT
*
8491336 TAAATTCTCT
1 CAAATTCTCT
8491346 CA
1 CA
8491348 TAGCTCGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:8491358 original size:20 final size:19
Alignment explanation
Indices: 8491312--8491361 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
8491302 ACACCAAATT
*
8491312 CTCTCAAATTCTCTCAAATA
1 CTCTTAAATTCTCTC-AATA
8491332 CTCTTAAATTCTCTC-ATA
1 CTCTTAAATTCTCTCAATA
8491350 GCTCGTTAAATT
1 -CTC-TTAAATT
8491362 TTATTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 3 0.11
20 21 0.78
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (19 bp):
CTCTTAAATTCTCTCAATA
Found at i:8499601 original size:199 final size:200
Alignment explanation
Indices: 8499150--8499659 Score: 613
Period size: 201 Copynumber: 2.5 Consensus size: 200
8499140 TCTAGTAGTG
* * * *
8499150 TTATCTTTAA-TATGAGCCTAATGTCACCACATT-AGATACATTCTAAGCGGGGTAAAAATCGCC
1 TTATCTTTAAGT-TGAGCCTAATATCGCCACATTCAGAT--ATTCTAAGTGGGGTAAAAATCGCG
* * * * ** * *
8499213 CTGAAAATGGTTTGAAAGA-ATGATTTTGTGCATTAAGTACAATGTAAATGGCTTTATAGGCATG
63 TTGAAAATGG-TTCAAAAACATGCTTTTGTGCAACAAGTACAAGGTAAATGGCTTCATAGGCATG
* * * * * *
8499277 CTCGAGTGTTATTTTCGGGTTGTAAAAAAGGAGATTTTTCGTAATTTATTAGCTTAGAGGCGTAG
127 CTCAAGTGTTATTTTCCGATTGTAAAAAAGGAGATTTTTCCTAATTTATTAGCATAAAGGCGTAG
8499342 TATTGCAAC
192 TATTGCAAC
* *
8499351 TTATCTTTAAGTTGAGCCTAATATTGCCACATTCGGGATATTCTAAGTGGGGTAAAAATCGCGTT
1 TTATCTTTAAGTTGAGCCTAATATCGCCACATTC-AGATATTCTAAGTGGGGTAAAAATCGCGTT
* * * * *
8499416 GAAAATGGCTCAAAAACATGCTTATGTGCAACGAGTATAAGGTAAAATGGCTTCATAGGCATGTT
65 GAAAATGGTTCAAAAACATGCTTTTGTGCAACAAGTACAAGGT-AAATGGCTTCATAGGCATGCT
*
8499481 CAAGTGTTA-TTTCCGATTGTAAATAA-GAGATTTTTCCTAATTT-TTAAGCATAAAGGAC-TAG
129 CAAGTGTTATTTTCCGATTGTAAAAAAGGAGATTTTTCCTAATTTATT-AGCATAAAGG-CGTAG
8499542 TATTGCAAC
192 TATTGCAAC
*
8499551 TTATCTTTAAGTT-AGCCTAATATCGCCACATTCAAGATATTCTAAGTGGGGTAAAAATCGTGTT
1 TTATCTTTAAGTTGAGCCTAATATCGCCACATTC-AGATATTCTAAGTGGGGTAAAAATCGCGTT
* * *
8499615 GAAAATGGTTCAAAAGCATGCTTTTGTGCATCAAGTACAATGTAA
65 GAAAATGGTTCAAAAACATGCTTTTGTGCAACAAGTACAAGGTAA
8499660 GATTAGAGCA
Statistics
Matches: 265, Mismatches: 37, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
198 2 0.01
199 85 0.32
200 54 0.20
201 93 0.35
202 28 0.11
203 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (200 bp):
TTATCTTTAAGTTGAGCCTAATATCGCCACATTCAGATATTCTAAGTGGGGTAAAAATCGCGTTG
AAAATGGTTCAAAAACATGCTTTTGTGCAACAAGTACAAGGTAAATGGCTTCATAGGCATGCTCA
AGTGTTATTTTCCGATTGTAAAAAAGGAGATTTTTCCTAATTTATTAGCATAAAGGCGTAGTATT
GCAAC
Found at i:8503082 original size:29 final size:30
Alignment explanation
Indices: 8503046--8503102 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
8503036 GATATTTAGG
*
8503046 GGTTGAGAGGATTATTGTTTG-ATGTTTTT
1 GGTTGAGAGGATTATTGTGTGAATGTTTTT
*
8503075 GGTTGAGAGGATTGTTGTGTGAATGTTT
1 GGTTGAGAGGATTATTGTGTGAATGTTT
8503103 ACGGGGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (30 bp):
GGTTGAGAGGATTATTGTGTGAATGTTTTT
Done.