Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 74 of 170
Found at i:22439364 original size:101 final size:103
Alignment explanation
Indices: 22438996--22439352 Score: 394
Period size: 101 Copynumber: 3.5 Consensus size: 103
22438986 ATTAATGATA
* * * *
22438996 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCC-GATACACGTAG
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGGTACACATAG
* ** *
22439060 TAGCCTGCACATAGTACTACACACGTGA--TAGAAGCTA
66 TAGCCTGCACATAGTACTACACATGTGACCTATCA-CTT
* * * *
22439097 CTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTGGTACACAT
1 C-CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCAGGTACACAT
22439159 AGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
64 AGTAGCCTGCACATAGTACTACACATGTGACCTATCACT-T
* * * ** * *
22439199 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-TAGAAGCTATTC-GGTACGCATA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCAGGTACACATA
*
22439262 GTAGCCTGCACATAGTACTACACATGCGACCTATCA-TT
65 GTAGCCTGCACATAGTACTACACATGTGACCTATCACTT
* *
22439300 CCGGTACACTTAGTAACCTGCACATAGTACTACACACGTGACCATCACT-TCCA
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCA
22439353 CTTTCACATA
Statistics
Matches: 217, Mismatches: 26, Indels: 26
0.81 0.10 0.10
Matches are distributed among these distances:
99 2 0.01
100 3 0.01
101 117 0.54
102 86 0.40
103 9 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (103 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCAGGTACACATAG
TAGCCTGCACATAGTACTACACATGTGACCTATCACTT
Found at i:22449117 original size:52 final size:50
Alignment explanation
Indices: 22448997--22449119 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 50
22448987 ATATTTAATG
* *
22448997 AAGTCATGTATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
* *
22449047 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATT
*
22449099 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
22449120 ATTTGTTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 28 0.44
51 12 0.19
52 24 0.38
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
Found at i:22451325 original size:18 final size:18
Alignment explanation
Indices: 22451273--22451328 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
22451263 AGTTGATAAT
*
22451273 GAAAGAAAATGAGTGAAAAA
1 GAAA-AAAATGAGAG-AAAA
* *
22451293 TAAAAGAAAT-TGAGAAAA
1 GAAAA-AAATGAGAGAAAA
22451311 GAAAAAAATGAGAGAAAA
1 GAAAAAAATGAGAGAAAA
22451329 ATAAATTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 3 0.10
20 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (18 bp):
GAAAAAAATGAGAGAAAA
Found at i:22453451 original size:52 final size:50
Alignment explanation
Indices: 22453330--22453452 Score: 183
Period size: 50 Copynumber: 2.4 Consensus size: 50
22453320 ATATTTAATA
*
22453330 AAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
* *
22453380 ATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCATCA-TAAATT
* *
22453432 AAGTCATGTATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
22453453 ATTTGTTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 29 0.45
51 12 0.19
52 23 0.36
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (50 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCATCATAAATT
Found at i:22454996 original size:18 final size:18
Alignment explanation
Indices: 22454969--22455003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22454959 ACATAACATG
*
22454969 ATTTCCATGTATCTCATC
1 ATTTCAATGTATCTCATC
*
22454987 ATTTCAATGTATTTCAT
1 ATTTCAATGTATCTCAT
22455004 GTATACCTGT
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:0.26, C:0.20, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTCAATGTATCTCATC
Found at i:22455219 original size:27 final size:25
Alignment explanation
Indices: 22455153--22455219 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
22455143 ATGTACATAT
*
22455153 ATGCTCACATGAGCTATGAATAAGT
1 ATGCTCACATGAGCTATGAATAAGC
22455178 ATGCTCACACT-AGCTATGAA-AATGGGC
1 ATGCTCACA-TGAGCTATGAATAA---GC
*
22455205 CTGCTCACATGAGCT
1 ATGCTCACATGAGCT
22455220 GTAGGTCGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 2 0.06
25 18 0.51
26 2 0.06
27 13 0.37
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (25 bp):
ATGCTCACATGAGCTATGAATAAGC
Found at i:22459397 original size:27 final size:27
Alignment explanation
Indices: 22459359--22459413 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22459349 TCCTTCCTAG
22459359 TTGCCTTGTTAAGCTTGCAATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
*
22459386 TTGCCTTGTTAAGCTTGCGATAGTCTA
1 TTGCCTTGTTAAGCTTGCAATAGTCTA
22459413 T
1 T
22459414 GCATACTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TTGCCTTGTTAAGCTTGCAATAGTCTA
Found at i:22459588 original size:15 final size:15
Alignment explanation
Indices: 22459564--22459594 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22459554 CATCAAGCCA
*
22459564 CTTGATAACTTCTTT
1 CTTGACAACTTCTTT
22459579 CTTGACAACTTCTTT
1 CTTGACAACTTCTTT
22459594 C
1 C
22459595 ATGATCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
CTTGACAACTTCTTT
Found at i:22459983 original size:50 final size:49
Alignment explanation
Indices: 22459924--22460155 Score: 275
Period size: 50 Copynumber: 4.6 Consensus size: 49
22459914 TGCCCATGCT
* ** *
22459924 ATGTCCCAGACATGGTCTTACGGGCGACCTCTCATCTTGGAGCCAACGCC
1 ATGTCCCAGACATGGTCTTACTGG-GACCTCTCATCTCAGTGCCAACGCC
* * *
22459974 ATGTTCCAGACATGGTCTTATATGGGACCTCTCATCTCAGTGCCAACACC
1 ATGTCCCAGACATGGTCTTA-CTGGGACCTCTCATCTCAGTGCCAACGCC
* ** *
22460024 GTGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCC
1 ATGTCCCAGACATGGTCTTAC-TGGGACCTCTCATCTCAGTGCCAACGCC
* * *
22460074 CTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGGCAACGCC
1 ATGTCCCAGACATGGTCTTAC-TGGGACCTCTCATCTCAGTGCCAACGCC
* *
22460124 ATGTACCAGACATGGTCTTACATGGGATCTCT
1 ATGTCCCAGACATGGTCTTAC-TGGGACCTCT
22460156 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
50 154 0.99
51 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACTGGGACCTCTCATCTCAGTGCCAACGCC
Found at i:22459991 original size:100 final size:100
Alignment explanation
Indices: 22459865--22460155 Score: 343
Period size: 100 Copynumber: 2.9 Consensus size: 100
22459855 TTCTTGTACT
* * * * ** * * * *
22459865 GCCAATGCCATATCCAAGATATGGTCTTATATGAGAGTTCTCATAT-AGGTGCCCATGCTATGTC
1 GCCAACGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCA-GTGCCAACGCCATGTC
22459929 CCAGACATGGTCTTAC-GGGCGACCTCTCATCTTGGA
65 CCAGACATGGTCTTACAGGG-GACCTCTCATCTTGGA
* * * *
22459965 GCCAACGCCATGTTCCAGACATGGTCTTATATGGGACCTCTCATCTCAGTGCCAACACCGTGTCC
1 GCCAACGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
* *
22460030 CAGACATGGTCTTACATGGGACCTCTCATCTTGGT
66 CAGACATGGTCTTACAGGGGACCTCTCATCTTGGA
* * * * *
22460065 GCCAATGCCCTGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGGCAACGCCATGTAC
1 GCCAACGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
* *
22460130 CAGACATGGTCTTACATGGGATCTCT
66 CAGACATGGTCTTACAGGGGACCTCT
22460156 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
100 160 0.98
101 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (100 bp):
GCCAACGCCATGTCCCAGACATGGTCTTATATGAGACCTCTCATCTCAGTGCCAACGCCATGTCC
CAGACATGGTCTTACAGGGGACCTCTCATCTTGGA
Found at i:22467914 original size:50 final size:50
Alignment explanation
Indices: 22467790--22468086 Score: 245
Period size: 50 Copynumber: 5.8 Consensus size: 50
22467780 GAATATAACA
* * * ** * * * *
22467790 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * **
22467839 TGCCAATGGCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* ** * *
22467889 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
22467939 AGCCAACGCCATGTCCCAGACATGTTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
22467989 TGCCAACGCCATGTACCACACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
* *
22468045 TGCCAATGCCATGTCCCAGACATGGTCTTCCATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22468087 TTACCCAAAT
Statistics
Matches: 196, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 36 0.18
50 122 0.62
53 1 0.01
56 37 0.19
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:22472384 original size:12 final size:12
Alignment explanation
Indices: 22472367--22472392 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22472357 AACATCACCA
22472367 AAATAAATGTCC
1 AAATAAATGTCC
22472379 AAATAAATGTCC
1 AAATAAATGTCC
22472391 AA
1 AA
22472393 TGTCCATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATAAATGTCC
Found at i:22475492 original size:4 final size:4
Alignment explanation
Indices: 22475483--22475509 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
22475473 CACTCACACC
22475483 TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT
22475510 ATGTTAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:22478406 original size:23 final size:23
Alignment explanation
Indices: 22478379--22478454 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
22478369 AGTGTTATTG
*
22478379 ATCAGTGGTAGCTTCGACTATAT
1 ATCAGTGGTAGCTTCGACTACAT
* * *
22478402 TTCAGTGGTAGCTACGCCTACAT
1 ATCAGTGGTAGCTTCGACTACAT
*
22478425 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAT
22478448 ATCAGTG
1 ATCAGTG
22478455 TGACACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGACTACAT
Found at i:22481574 original size:29 final size:29
Alignment explanation
Indices: 22481541--22481600 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
22481531 GATTCAAAAG
22481541 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
22481570 TAGTATGTTCATGTGCACTTAGCTTACCT
1 TAGTATGTTCATGTGCACTTAGCTTACCT
22481599 TA
1 TA
22481601 TGATAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (29 bp):
TAGTATGTTCATGTGCACTTAGCTTACCT
Found at i:22485715 original size:22 final size:21
Alignment explanation
Indices: 22485691--22485730 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22485681 TTCAAGAACA
*
22485691 AAAATTCTTTTACTAGGGACG
1 AAAATTCCTTTACTAGGGACG
22485712 AAAATTCCTTTACTAGGGA
1 AAAATTCCTTTACTAGGGA
22485731 GGGTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAATTCCTTTACTAGGGACG
Found at i:22489502 original size:40 final size:40
Alignment explanation
Indices: 22489425--22489517 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
22489415 TTGACCACAT
** *
22489425 TACTGGTAGCTTTTCTACATTACTAACAGTTTATCTGCAA
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* ** * *
22489465 TACTGGTCGCTTGGCTACATTACTGGCAGCTTGTCTGCAG
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* *
22489505 TTCTGGTGGCTTG
1 TACTGGTAGCTTG
22489518 TCCACAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
Found at i:22496509 original size:11 final size:11
Alignment explanation
Indices: 22496486--22496515 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22496476 TTTAGTTATG
22496486 TTTTCTT-ACA
1 TTTTCTTAACA
22496496 TTTTCTTAACA
1 TTTTCTTAACA
22496507 TTTTCTTAA
1 TTTTCTTAA
22496516 ACTCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCTTAACA
Found at i:22499141 original size:12 final size:12
Alignment explanation
Indices: 22499124--22499153 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
22499114 CCCGAACTCG
22499124 AATATCAACCTA
1 AATATCAACCTA
22499136 AATATCAACCTA
1 AATATCAACCTA
22499148 ATATAT
1 A-ATAT
22499154 AGAAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (12 bp):
AATATCAACCTA
Found at i:22501465 original size:13 final size:13
Alignment explanation
Indices: 22501447--22501472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22501437 ATACTTTAAA
22501447 AACACATTCATTC
1 AACACATTCATTC
22501460 AACACATTCATTC
1 AACACATTCATTC
22501473 CAAATACTTT
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
AACACATTCATTC
Found at i:22503497 original size:29 final size:29
Alignment explanation
Indices: 22503455--22503688 Score: 200
Period size: 29 Copynumber: 8.0 Consensus size: 29
22503445 GTGTGCTAAA
* * *
22503455 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
22503484 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
** *
22503514 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
22503543 TGATGGTC-ATCACCATCCTTTTTCATAAT
1 CGATGGTCGA-AACCATCCCTTTTCATAAT
* * * *
22503572 CGATAGCCGAAACTATCCCTTTCCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** * *
22503601 CGATCGTCGAGGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
** **
22503630 CGATGGTCGTCACCATCCCTTTTCATTGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * ** *
22503659 TGATAGTCGTCACCATCCCTCTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
22503688 C
1 C
22503689 AATAGCCGAA
Statistics
Matches: 166, Mismatches: 36, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
29 139 0.84
30 27 0.16
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:22503664 original size:87 final size:86
Alignment explanation
Indices: 22503455--22503710 Score: 257
Period size: 87 Copynumber: 2.9 Consensus size: 86
22503445 GTGTGCTAAA
* * * *
22503455 CGATGGTCGTAACCGTCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGG
1 CGATGGTCGTCACCATCCCTTTTCAT-TTCGATAGTCGAAACCATCCC-TTTCA-TAATCGATAG
* *
22503520 TCGTCA-CCATCCCTTTTCATAGTT
63 TCG-AAGCTATCCCTTTTCATAGTT
* * * * * *
22503544 -GATGGTCATCACCATCCTTTTTCATAATCGATAGCCGAAACTATCCCTTTCCATAATCGATCGT
1 CGATGGTCGTCACCATCCCTTTTCAT-TTCGATAGTCGAAACCATCCCTTT-CATAATCGATAGT
*
22503608 CGAGGCTATCCCTTTTCATA-TT
64 CGAAGCTATCCCTTTTCATAGTT
* ** * *
22503630 CGATGGTCGTCACCATCCCTTTTCATTGTTGATAGTCGTCACCATCCCTCTTCATAATCAATAGC
1 CGATGGTCGTCACCATCCCTTTTCATT-TCGATAGTCGAAACCATCCCT-TTCATAATCGATAGT
22503695 CGAAGCTATCCCTTTT
64 CGAAGCTATCCCTTTT
22503711 AATTAGTCGA
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
86 2 0.01
87 93 0.67
88 43 0.31
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (86 bp):
CGATGGTCGTCACCATCCCTTTTCATTTCGATAGTCGAAACCATCCCTTTCATAATCGATAGTCG
AAGCTATCCCTTTTCATAGTT
Found at i:22509597 original size:20 final size:20
Alignment explanation
Indices: 22509572--22509609 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22509562 CCATTGGTGG
22509572 CTTGTCTACATTACTGGCTA
1 CTTGTCTACATTACTGGCTA
22509592 CTTGTCTACATTACTGGC
1 CTTGTCTACATTACTGGC
22509610 AGTTTATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGTCTACATTACTGGCTA
Found at i:22509626 original size:20 final size:20
Alignment explanation
Indices: 22509603--22509669 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
22509593 TTGTCTACAT
*
22509603 TACTGGCAGTTTATCTGCAA
1 TACTGGTAGTTTATCTGCAA
* * ** *
22509623 TACTGGTAGCTTGTCTATAG
1 TACTGGTAGTTTATCTGCAA
*
22509643 TACTGGTAGTTTATCTGCAT
1 TACTGGTAGTTTATCTGCAA
22509663 TACTGGT
1 TACTGGT
22509670 GGCTTGATCA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TACTGGTAGTTTATCTGCAA
Found at i:22509638 original size:40 final size:40
Alignment explanation
Indices: 22509580--22509717 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
22509570 GGCTTGTCTA
*
22509580 CATTACTGGCTA-CTTGTCTACATTACTGGCAGTTTATCTG
1 CATTACTGG-TAGCTTGTCTATATTACTGGCAGTTTATCTG
* * *
22509620 CAATACTGGTAGCTTGTCTATAGTACTGGTAGTTTATCTG
1 CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
* *
22509660 CATTACTGGTGGCTTGATC-ATATTATTGGCAGCTTT-TCTG
1 CATTACTGGTAGCTTG-TCTATATTACTGGCAG-TTTATCTG
* *
22509700 CATTTCTGGTGGCTTGTC
1 CATTACTGGTAGCTTGTC
22509718 CACAAATTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 76 0.89
41 5 0.06
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (40 bp):
CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
Found at i:22512490 original size:40 final size:40
Alignment explanation
Indices: 22512428--22512507 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
22512418 AACTATTGTA
*
22512428 TGAATGCACATACATGCACCTATTTATACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
* * *
22512468 TGAATGCACATACTTGCCCCTATTCGTACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
22512508 GAACACTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
Found at i:22514750 original size:34 final size:32
Alignment explanation
Indices: 22514712--22514774 Score: 74
Period size: 34 Copynumber: 1.9 Consensus size: 32
22514702 TTAATTAAGA
*
22514712 TTTAACTAA-TCTAACTTAATTAGCTTAATCATGG
1 TTTAACTAACT-TAAATTAATTA--TTAATCATGG
*
22514746 TTTAATTAACTTAAATTAATTATTAATCA
1 TTTAACTAACTTAAATTAATTATTAATCA
22514775 CACTTAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
32 7 0.27
34 18 0.69
35 1 0.04
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (32 bp):
TTTAACTAACTTAAATTAATTATTAATCATGG
Found at i:22517742 original size:24 final size:24
Alignment explanation
Indices: 22517715--22517838 Score: 108
Period size: 24 Copynumber: 5.2 Consensus size: 24
22517705 TTTACTACAA
* *
22517715 TATTAAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* *
22517739 TATTGAGTGGCTTGTCCACAACGT
1 TATTGAGTGGCTTGACCACAACGC
* * **
22517763 TATTGTGTGGCTTGAACACAACAA
1 TATTGAGTGGCTTGACCACAACGC
** *
22517787 TGCTGAGTGGCTTTG-CCACAATG-
1 TATTGAGTGGC-TTGACCACAACGC
*
22517810 TGATTGAGTGGCTTGACTACAACGC
1 T-ATTGAGTGGCTTGACCACAACGC
22517835 TATT
1 TATT
22517839 AAGTTCTAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
23 4 0.05
24 70 0.90
25 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGC
Found at i:22522099 original size:104 final size:104
Alignment explanation
Indices: 22521919--22522142 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
22521909 TGTATATAAA
** * *
22521919 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
22521984 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
22522023 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
22522087 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
22522127 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
22522143 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:22522194 original size:71 final size:72
Alignment explanation
Indices: 22522061--22522212 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
22522051 TCATTGGTGG
* *
22522061 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22522126 GAGGGGT
66 GAGGGGT
***
22522133 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22522197 GAGGGGT
66 GAGGGGT
22522204 TGCTAAGTG
1 TGCTAAGTG
22522213 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:22529654 original size:104 final size:103
Alignment explanation
Indices: 22529474--22529696 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
22529464 TGTATATAAA
** * *
22529474 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
22529539 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
22529578 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
22529642 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
22529681 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
22529697 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:22529748 original size:70 final size:72
Alignment explanation
Indices: 22529616--22529766 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
22529606 TCATTGGTGG
* *
22529616 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22529680 GAGGGGT
66 GAGGGGT
***
22529687 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
22529751 GAGGGGT
66 GAGGGGT
22529758 TGCTAAGTG
1 TGCTAAGTG
22529767 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:22532636 original size:29 final size:29
Alignment explanation
Indices: 22532594--22532652 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22532584 TCATTCAATC
*
22532594 TATTAATTTAGATAGTAAAACAATGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
22532623 TATTAATTTAGATAGTAAAACAACGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
22532652 T
1 T
22532653 TATGCAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (29 bp):
TATTAATTTAGATAGTAAAACAACGTATT
Found at i:22534771 original size:24 final size:24
Alignment explanation
Indices: 22534645--22534762 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 24
22534635 TGTAGGTTGG
*
22534645 CCACAATGCTATTGAGTGGCTTGT
1 CCACAATGCTATTGAGTGGCTTGA
*** * *
22534669 CCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTGA
* * * **
22534693 TCACAACGCTACTGAGTGGCTTTT
1 CCACAATGCTATTGAGTGGCTTGA
* *
22534717 CCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTGA
22534741 CCACAATGCTATTGAGTGGCTT
1 CCACAATGCTATTGAGTGGCTT
22534763 TGGCACAATT
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
CCACAATGCTATTGAGTGGCTTGA
Found at i:22534777 original size:24 final size:24
Alignment explanation
Indices: 22534644--22534779 Score: 98
Period size: 24 Copynumber: 5.7 Consensus size: 24
22534634 ATGTAGGTTG
*
22534644 GCCACAATGCTATTGAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
** * *
22534667 GTCCACAACATTATTGTGTGAC-TT
1 G-CCACAATGTTATTGAGTGGCTTT
* * * *
22534691 GATCACAACGCTACTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
22534716 TCCACAATGTTATTAAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
*
22534739 GACCACAATGCTATTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
22534764 GGCACAATTTTATTGA
1 GCCACAATGTTATTGA
22534780 CTGGTTTCAC
Statistics
Matches: 85, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.91
25 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (24 bp):
GCCACAATGTTATTGAGTGGCTTT
Found at i:22534792 original size:48 final size:48
Alignment explanation
Indices: 22534645--22534794 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
22534635 TGTAGGTTGG
* * *
22534645 CCACAATGCTATTGAGTGGC-TTGTCCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTTG-CCACAATATTATTGAGTGGCTTGA
* * * * * *
22534693 TCACAACGCTACTGAGTGGCTTTTCCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
* * * * *
22534741 CCACAATGCTATTGAGTGGCTTTGGCACAATTTTATTGACTGGTTTCA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
22534789 CCACAA
1 CCACAA
22534795 CGAGTAGCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 80 0.98
49 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (48 bp):
CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
Found at i:22538105 original size:148 final size:148
Alignment explanation
Indices: 22537853--22538129 Score: 419
Period size: 148 Copynumber: 1.9 Consensus size: 148
22537843 AGCGAACGAA
* *
22537853 AAATACTTTTCCCAGCTACCTTCGAACTCAATTACGCAAAACTATAACATATCTTCCAGAATCTG
1 AAATACTTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* *
22537918 TATTACTCGTTCAGACTAGCCATTCATTTGTGAATGAAAGGCGGTATTGAAATTCAATCTGGAGT
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
22537983 GCAAACTCAGCTAACAGC
131 GCAAACTCAGCTAACAGC
* * * * * *
22538001 AAATACTTTTCCCAGCTACCTTTGAACTCAGTTACATAACACCATAACATATCTTTCAGGATCTG
1 AAATACTTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* * * * *
22538066 TATTACTTGTTCAGAATGGCTATTCATTTGTGGATGAAAGGAGGTTTTGAAATTCAATCTGGAG
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAG
22538130 CCCAAAGCCT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 114 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (148 bp):
AAATACTTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
GCAAACTCAGCTAACAGC
Found at i:22542811 original size:19 final size:20
Alignment explanation
Indices: 22542786--22542829 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
22542776 AAACCATACT
22542786 TCATACTTGCATACAAGCTA
1 TCATACTTGCATACAAGCTA
22542806 -CATACTTGCATACAAGCTA
1 TCATACTTGCATACAAGCTA
22542825 TCATA
1 TCATA
22542830 TTAAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (20 bp):
TCATACTTGCATACAAGCTA
Found at i:22547759 original size:50 final size:50
Alignment explanation
Indices: 22547648--22547842 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
22547638 ATTTGGGTAA
* **
22547648 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG--T-ACCGAG---ATG
* *
22547704 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGTACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
** * * * *
22547754 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
** * *
22547804 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
22547843 TCAGTACAAA
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 76 0.64
53 4 0.03
54 1 0.01
56 37 0.31
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
Found at i:22548110 original size:12 final size:12
Alignment explanation
Indices: 22548093--22548143 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
22548083 ATGAGTTATT
22548093 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
22548105 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
22548117 TAAGTGAGTAAG
1 TAAGTAAGCAAG
22548129 TAAAG-AAGCAAG
1 T-AAGTAAGCAAG
22548141 TAA
1 TAA
22548144 AGATTCTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.06
12 27 0.84
13 3 0.09
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:22548141 original size:20 final size:20
Alignment explanation
Indices: 22548103--22548141 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22548093 TAAGTAAGCA
*
22548103 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGCAAGTG
*
22548123 AGTAAGTAAAGAAGCAAGT
1 AGTAAGTAAACAAGCAAGT
22548142 AAAGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGCAAGTG
Found at i:22554167 original size:39 final size:39
Alignment explanation
Indices: 22554123--22554201 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
22554113 ATATGGTAAG
* *
22554123 TATGAATTAAATGTGGCGTTGTTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
*
22554162 TATGAATTAAATATGGTGTTGCTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
22554201 T
1 T
22554202 CAAGTCAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (39 bp):
TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
Found at i:22555248 original size:36 final size:37
Alignment explanation
Indices: 22555201--22555275 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
22555191 TATATATATA
22555201 TTATTTTTA-TTTTTTAATTTTAATTTTAAAATAATT
1 TTATTTTTATTTTTTTAATTTTAATTTTAAAATAATT
* *
22555237 TTATTTTTATTTTTTTATTTTTATTTTTAAAATAATT
1 TTATTTTTATTTTTTTAATTTTAATTTTAAAATAATT
22555274 TT
1 TT
22555276 TAATGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 9 0.25
37 27 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (37 bp):
TTATTTTTATTTTTTTAATTTTAATTTTAAAATAATT
Found at i:22555254 original size:14 final size:14
Alignment explanation
Indices: 22555235--22555264 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22555225 TTTAAAATAA
22555235 TTTTATTTTTATTT
1 TTTTATTTTTATTT
22555249 TTTTATTTTTATTT
1 TTTTATTTTTATTT
22555263 TT
1 TT
22555265 AAAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:22555275 original size:25 final size:25
Alignment explanation
Indices: 22555247--22555295 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22555237 TTATTTTTAT
* * *
22555247 TTTTTTATTTTTATTTTTAAAATAA
1 TTTTTAATGTTTATTTTAAAAATAA
22555272 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTAATGTTTATTTTAAAAATA
22555296 GGCCGCGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTAATGTTTATTTTAAAAATAA
Found at i:22558882 original size:23 final size:22
Alignment explanation
Indices: 22558806--22558882 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
22558796 TGTGTTTTTT
**
22558806 ATTTTAAATGTCATATTAAT-AA
1 ATTTTAAATGT-ATAAAAATGAA
* *
22558828 ATTTTAAA-ATATAAAAATTAA
1 ATTTTAAATGTATAAAAATGAA
*
22558849 ATTTTAAATGTATAAAAATGAC
1 ATTTTAAATGTATAAAAATGAA
22558871 ATTTTAACATGT
1 ATTTTAA-ATGT
22558883 GTTTTTCCCC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
20 6 0.13
21 11 0.24
22 25 0.54
23 4 0.09
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTTAAATGTATAAAAATGAA
Found at i:22565279 original size:22 final size:23
Alignment explanation
Indices: 22565252--22565296 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22565242 AGGTATCTAC
*
22565252 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
22565274 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
22565297 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:22565301 original size:22 final size:22
Alignment explanation
Indices: 22565249--22565306 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
22565239 AAAAGGTATC
* *
22565249 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
22565270 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
22565293 TACATATCATATCT
1 TACAAATCATATCT
22565307 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22571005 original size:27 final size:27
Alignment explanation
Indices: 22570975--22571026 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
22570965 GTTAATAAAA
22570975 TTCTCTTTGAGTTTTCTTTT-GAAGAAT
1 TTCTC-TTGAGTTTTCTTTTAGAAGAAT
22571002 TTCTCTTGAGTTTTCTTTTAGAAGA
1 TTCTCTTGAGTTTTCTTTTAGAAGA
22571027 GTTTTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.19, C:0.12, G:0.15, T:0.54
Consensus pattern (27 bp):
TTCTCTTGAGTTTTCTTTTAGAAGAAT
Found at i:22573352 original size:26 final size:26
Alignment explanation
Indices: 22573283--22573353 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
22573273 CATTCTAACC
**
22573283 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
* * *
22573309 CATAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCGTGTGAGCATACCCATTT
22573335 CACAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
22573354 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:22577550 original size:27 final size:27
Alignment explanation
Indices: 22577520--22577581 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
22577510 ACCTAAATCC
22577520 AAATGTAAAAACCTTACAGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
* **
22577547 AAATATAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
22577574 AAATGTAA
1 AAATGTAA
22577582 CACTTACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTACAGTTTCATTA
Found at i:22578432 original size:19 final size:19
Alignment explanation
Indices: 22578408--22578500 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
22578398 AATAAATTAC
*
22578408 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
22578427 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
22578446 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
* *
22578462 TCATCTAAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
22578481 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
22578500 T
1 T
22578501 GTTGGAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 39 0.68
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:22578545 original size:54 final size:54
Alignment explanation
Indices: 22578389--22578565 Score: 257
Period size: 54 Copynumber: 3.3 Consensus size: 54
22578379 ATAAGTATTT
*
22578389 AGTTCCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
22578443 AGTTGCTAGAATAAATTACTCATCTAAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* * * * *
22578497 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTAAGTTCAACCTAGTTCACTT-
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTT-AATTA
*
22578551 AGTTGCTGGATTAAA
1 AGTTGCTGGAATAAA
22578566 CTTTTAATGT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
54 107 0.97
55 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:22579888 original size:17 final size:18
Alignment explanation
Indices: 22579856--22579889 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22579846 GTGCATAGTT
22579856 TTTTGTGGCTTTCTATTC
1 TTTTGTGGCTTTCTATTC
*
22579874 TTTTGTGTC-TTCTATT
1 TTTTGTGGCTTTCTATT
22579890 GGCTAGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.65
Consensus pattern (18 bp):
TTTTGTGGCTTTCTATTC
Found at i:22595117 original size:21 final size:21
Alignment explanation
Indices: 22595093--22595135 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22595083 AAATGGTAAG
22595093 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
22595114 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
22595135 A
1 A
22595136 CTTCTCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAAACATTTCTTCATTTTT
Found at i:22598650 original size:18 final size:18
Alignment explanation
Indices: 22598627--22598661 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22598617 AAACTAACTC
22598627 AGTTTTCCTCAGCCACAG
1 AGTTTTCCTCAGCCACAG
22598645 AGTTTTCCTCAGCCACA
1 AGTTTTCCTCAGCCACA
22598662 AATGTGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTTTTCCTCAGCCACAG
Found at i:22602277 original size:23 final size:23
Alignment explanation
Indices: 22602246--22602296 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
22602236 ACCTACTTTC
* *
22602246 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
22602269 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
22602292 TTACA
1 TTACA
22602297 TTTGTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:22608140 original size:17 final size:17
Alignment explanation
Indices: 22608118--22608150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22608108 TATTTTGTTC
*
22608118 TTATTTAATTGTTAAAA
1 TTATTTAATTATTAAAA
22608135 TTATTTAATTATTAAA
1 TTATTTAATTATTAAA
22608151 CTATTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTATTTAATTATTAAAA
Found at i:22621366 original size:22 final size:22
Alignment explanation
Indices: 22621332--22621375 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22621322 TTTTCACTTA
* *
22621332 AATTATTAATATATTTAATTTT
1 AATTATTAATATAATAAATTTT
**
22621354 AATTATTTGTATAATAAATTTT
1 AATTATTAATATAATAAATTTT
22621376 CACAAATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTATTAATATAATAAATTTT
Found at i:22629831 original size:50 final size:50
Alignment explanation
Indices: 22629717--22630008 Score: 259
Period size: 50 Copynumber: 5.7 Consensus size: 50
22629707 GGTAAAAAGA
* * *
22629717 TCCCATGTAAGACCATGTCTGGGACATGGAATTGACATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-CA--AGAGG
*
22629773 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* **
22629823 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* * * ** **
22629873 TCTCC-TGTAAGTCCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* * * * ** *
22629923 TCCCATGTAAGACCATATCTGGGATATGGAATTGGTAGTGTAAGA-AACA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG--AGACAAGAGG
* * *
22629972 TCCCTTGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22630009 TGTTGTTATC
Statistics
Matches: 200, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
49 32 0.16
50 120 0.60
51 4 0.02
52 4 0.02
53 3 0.01
55 2 0.01
56 35 0.17
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
Found at i:22629897 original size:100 final size:103
Alignment explanation
Indices: 22629717--22629956 Score: 299
Period size: 100 Copynumber: 2.3 Consensus size: 103
22629707 GGTAAAAAGA
22629717 TCCCATGTAAGACCATGTCTGGGACATGGAATTGACATCCTTAAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGAATTGACATCC---AGATCATGAGAGGTCCCATGTA
* **
22629782 AGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
63 AGACCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
** * *
22629823 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCTCC-TGTAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGAATTGACATCCAGATCATGAGAGGTC-CCATGTAAG
* * **
22629884 TCCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
* *
22629923 TCCCATGTAAGACCATATCTGGGATATGGAATTG
1 TCCCATGTAAGACCATGTCTGGGACATGGAATTG
22629957 GTAGTGTAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
100 78 0.66
101 4 0.03
105 2 0.02
106 34 0.29
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGAATTGACATCCAGATCATGAGAGGTCCCATGTAAGA
CCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
Found at i:22647052 original size:89 final size:90
Alignment explanation
Indices: 22646893--22647069 Score: 293
Period size: 89 Copynumber: 2.0 Consensus size: 90
22646883 TTGAGTTTCA
22646893 TGTAGGTGGGGGGAAAATAGGGCATTTTTTAAAAAACTTTGTGGTACTCTCAACTTTAACTCGTT
1 TGTAGGTGGGGGGAAAATAGGGCATTTTTT--AAAACTTTGTGGTACTCTCAACTTTAACTCGTT
22646958 TTTCAAAATAGTCCACACTTTAACTCG
64 TTTCAAAATAGTCCACACTTTAACTCG
*** *
22646985 TGTAGGTGGGGGGAAAATAGGGCATTTTTT-TCCCTTTTTGGTACTCTCAACTTTAACTCGTTTT
1 TGTAGGTGGGGGGAAAATAGGGCATTTTTTAAAACTTTGTGGTACTCTCAACTTTAACTCGTTTT
22647049 TCAAAATAGTCCACACTTTAA
66 TCAAAATAGTCCACACTTTAA
22647070 AATTAAAGGT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
89 51 0.63
92 30 0.37
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (90 bp):
TGTAGGTGGGGGGAAAATAGGGCATTTTTTAAAACTTTGTGGTACTCTCAACTTTAACTCGTTTT
TCAAAATAGTCCACACTTTAACTCG
Found at i:22647545 original size:18 final size:17
Alignment explanation
Indices: 22647524--22647572 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
22647514 CTATTTTTCA
22647524 TTTTAGTTTATTTTTGG
1 TTTTAGTTTATTTTTGG
* *
22647541 TTTTTA-TCTTTTTTTTTG
1 -TTTTAGT-TTATTTTTGG
22647559 TTTTAGTTTATTTT
1 TTTTAGTTTATTTT
22647573 CGAACAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTTAGTTTATTTTTGG
Found at i:22650457 original size:50 final size:50
Alignment explanation
Indices: 22650374--22650545 Score: 281
Period size: 50 Copynumber: 3.4 Consensus size: 50
22650364 ATTTGGGTAA
*
22650374 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
22650424 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
22650474 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
**
22650524 AGAGGTCCCCCGTAAGACCATG
1 AGAGGTCCCATGTAAGACCATG
22650546 GCATGGGCAC
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:22657253 original size:50 final size:50
Alignment explanation
Indices: 22657173--22657305 Score: 248
Period size: 50 Copynumber: 2.7 Consensus size: 50
22657163 ATTTGGGTAA
*
22657173 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
22657223 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
22657273 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
22657306 TAGCGCATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22660757 original size:15 final size:15
Alignment explanation
Indices: 22660737--22660773 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
22660727 TTATTAACCC
*
22660737 TTTTAAAACTCTTTT
1 TTTTAAAACCCTTTT
22660752 TTTTAAAACCCTTTT
1 TTTTAAAACCCTTTT
*
22660767 CTTTAAA
1 TTTTAAA
22660774 TTTCTAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTAAAACCCTTTT
Found at i:22666284 original size:50 final size:50
Alignment explanation
Indices: 22666197--22666376 Score: 137
Period size: 50 Copynumber: 3.5 Consensus size: 50
22666187 CAATGCTATA
* * ** * * *
22666197 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCA-TGCCATG
1 TCCCAGAAATGGTCTTACAGGGGACCTCTTATCTCGGTGCCAACT-CCATG
* * * *
22666247 TCCTAGACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAACTTCATG
1 TCCCAGAAATGGTCTTACAGGGGACCTCTTATCTCGGTGCCAACTCCATG
* * *
22666297 TCCCAGAAATGGTCTTACATGGGACCTCTCGTAATCTAAACGATGCCAATTCCATG
1 TCCCAGAAATGGTCTTACAGGGGACCTCT--T-ATCT---CGGTGCCAACTCCATG
* * *
22666353 TCTCAGACATGGTCTTACATGGGA
1 TCCCAGAAATGGTCTTACAGGGGA
22666377 TCTCATTCCC
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
50 63 0.61
51 1 0.01
52 1 0.01
53 4 0.04
56 35 0.34
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (50 bp):
TCCCAGAAATGGTCTTACAGGGGACCTCTTATCTCGGTGCCAACTCCATG
Found at i:22674137 original size:30 final size:30
Alignment explanation
Indices: 22674103--22674160 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22674093 TCCTTGACTC
22674103 AAACTTTGGCAAAATTACAATTTTGCCCTT
1 AAACTTTGGCAAAATTACAATTTTGCCCTT
* * * *
22674133 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
22674161 CAAAGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCTT
Found at i:22674812 original size:17 final size:18
Alignment explanation
Indices: 22674790--22674824 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
22674780 AACTTTTTCA
22674790 CTTTTTAC-AATTTAGTT
1 CTTTTTACAAATTTAGTT
22674807 CTTTTTACTAAATTTAGT
1 CTTTTTAC-AAATTTAGT
22674825 GCCCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
CTTTTTACAAATTTAGTT
Found at i:22676600 original size:22 final size:21
Alignment explanation
Indices: 22676575--22676618 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
22676565 TGATAAACTT
22676575 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
22676597 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
22676618 T
1 T
22676619 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:22681064 original size:20 final size:20
Alignment explanation
Indices: 22681041--22681079 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22681031 CATCTCTAAA
22681041 TTCTCTATT-CATTCTCCTTT
1 TTCTCTATTCCATT-TCCTTT
*
22681061 TTCTCTCTTCCATTTCCTT
1 TTCTCTATTCCATTTCCTT
22681080 CCTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTCTATTCCATTTCCTTT
Found at i:22684928 original size:16 final size:16
Alignment explanation
Indices: 22684907--22684941 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22684897 TTTTAGATGA
22684907 TTTAATTGAGGAAGAG
1 TTTAATTGAGGAAGAG
*
22684923 TTTAATTGAGGAGGAG
1 TTTAATTGAGGAAGAG
22684939 TTT
1 TTT
22684942 GCAGTGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (16 bp):
TTTAATTGAGGAAGAG
Found at i:22698686 original size:39 final size:40
Alignment explanation
Indices: 22698609--22698755 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
22698599 TAGCTCCTCG
* * *
22698609 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
22698649 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
22698688 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
22698728 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
22698756 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:22698766 original size:80 final size:80
Alignment explanation
Indices: 22698655--22698835 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
22698645 CTCATTCAAT
* * *
22698655 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
22698718 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
22698734 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
22698798 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
22698815 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
22698836 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:22698795 original size:40 final size:40
Alignment explanation
Indices: 22698652--22698835 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
22698642 TAACTCATTC
* *
22698652 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
22698692 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
22698732 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
22698772 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
22698813 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22698836 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:22706570 original size:39 final size:40
Alignment explanation
Indices: 22706493--22706639 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
22706483 TAGCTCCTCG
* * *
22706493 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
22706533 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
22706572 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
22706612 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
22706640 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:22706650 original size:80 final size:80
Alignment explanation
Indices: 22706539--22706719 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
22706529 CTCATTCAAT
* * *
22706539 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
22706602 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
22706618 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
22706682 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
22706699 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
22706720 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:22706679 original size:40 final size:40
Alignment explanation
Indices: 22706536--22706719 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
22706526 TAACTCATTC
* *
22706536 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
22706576 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
22706616 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
22706656 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
22706697 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22706720 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:22711410 original size:10 final size:10
Alignment explanation
Indices: 22711395--22711428 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22711385 AGACATATAA
22711395 ATTTTTAATG
1 ATTTTTAATG
22711405 ATTTTTAATG
1 ATTTTTAATG
*
22711415 AATTTTAATG
1 ATTTTTAATG
22711425 ATTT
1 ATTT
22711429 CCTAAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:22712061 original size:20 final size:20
Alignment explanation
Indices: 22712036--22712075 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22712026 TACTTTCTTC
22712036 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
22712056 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
22712076 AATAACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:22712401 original size:50 final size:50
Alignment explanation
Indices: 22712330--22712455 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
22712320 TTGTACTGCA
* * * * **
22712330 AATGTCATATCCCATAAATGGTCTTACATGAGAGTTCTCATATCGATGCC
1 AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
* * *
22712380 CATGTCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATCTCGATGCC
1 AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
* *
22712430 AACGCCATGTCCCAGACATGGTCTTA
1 AATGTCATGTCCCAGACATGGTCTTA
22712456 TGTGGGACCT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
Found at i:22712463 original size:50 final size:50
Alignment explanation
Indices: 22712347--22712471 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
22712337 TATCCCATAA
* * ** * * *
22712347 ATGGTCTTACATGAGAGTTCTCATATCGATGCCCATGTCATGTCCCAGAC
1 ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
*
22712397 ATGGTCTTACAAGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
***
22712447 ATGGTCTTATGTGGGACCTCTCATA
1 ATGGTCTTACAAGGGACCTCTCATA
22712472 ACCTCAATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
Found at i:22731631 original size:25 final size:25
Alignment explanation
Indices: 22731598--22731668 Score: 133
Period size: 25 Copynumber: 2.8 Consensus size: 25
22731588 CAGGCCCATT
22731598 TTCACAGCTCATGTGAGCATACTTA
1 TTCACAGCTCATGTGAGCATACTTA
*
22731623 TTCATAGCTCATGTGAGCATACTTA
1 TTCACAGCTCATGTGAGCATACTTA
22731648 TTCACAGCTCATGTGAGCATA
1 TTCACAGCTCATGTGAGCATA
22731669 TATGTAAAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATACTTA
Found at i:22734347 original size:22 final size:22
Alignment explanation
Indices: 22734322--22734378 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
22734312 ATCAAAACAT
*
22734322 TAATAAATG-ACATGAAATAATG
1 TAATAAATGCACA-AAAATAATG
** *
22734344 TAATTTATGCACAAAAATCATG
1 TAATAAATGCACAAAAATAATG
22734366 TAATAAAT-CACAA
1 TAATAAATGCACAA
22734379 TTTCGTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 5 0.18
22 20 0.71
23 3 0.11
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.28
Consensus pattern (22 bp):
TAATAAATGCACAAAAATAATG
Found at i:22738559 original size:20 final size:20
Alignment explanation
Indices: 22738523--22738560 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22738513 ATCTCTCAAT
*
22738523 TCTCTCTTTATTCTCCTTTC
1 TCTCTCTTTAGTCTCCTTTC
22738543 TCTCTCTTCTAGT-TCCTT
1 TCTCTCTT-TAGTCTCCTT
22738561 CCTTGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.05, C:0.34, G:0.03, T:0.58
Consensus pattern (20 bp):
TCTCTCTTTAGTCTCCTTTC
Found at i:22741878 original size:20 final size:20
Alignment explanation
Indices: 22741757--22741883 Score: 103
Period size: 20 Copynumber: 6.3 Consensus size: 20
22741747 TTGTGTGGGA
*
22741757 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTG
* *
22741777 TTTGCACTTTGATGCCTCTG
1 TTTGCACTTTGGTGCCCCTG
* * * * * *
22741797 TATACACTTCGGTGTCTCTA
1 TTTGCACTTTGGTGCCCCTG
** **
22741817 TTCACACTACGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
*
22741837 TTTGCACATTT-GTGCCCTTG
1 TTTGCAC-TTTGGTGCCCCTG
22741857 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
22741877 TTATGCA
1 TT-TGCA
22741884 TCTATGATGC
Statistics
Matches: 83, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 3 0.04
20 75 0.90
21 5 0.06
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:22742027 original size:7 final size:7
Alignment explanation
Indices: 22742017--22742048 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22742007 GATATTAGTA
*
22742017 AATGTTA
1 AATGTTC
22742024 AATGTTC
1 AATGTTC
22742031 AATGTTC
1 AATGTTC
22742038 AATGTTC
1 AATGTTC
22742045 AATG
1 AATG
22742049 AATTACTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (7 bp):
AATGTTC
Found at i:22745658 original size:17 final size:19
Alignment explanation
Indices: 22745618--22745659 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22745608 ATATGATTCT
*
22745618 TGATGTGAGTTTTGAATCG
1 TGATGAGAGTTTTGAATCG
*
22745637 AGATGAGAGTTTTG-AT-G
1 TGATGAGAGTTTTGAATCG
22745654 TGATGA
1 TGATGA
22745660 TTTTTACTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.38
Consensus pattern (19 bp):
TGATGAGAGTTTTGAATCG
Found at i:22747432 original size:20 final size:19
Alignment explanation
Indices: 22747409--22747447 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
22747399 CGCACTACGT
*
22747409 TGCCCCTGTTTGCACATTTG
1 TGCCCCTGTCTGCAC-TTTG
22747429 TGCCCCTGTCTGCACTTTG
1 TGCCCCTGTCTGCACTTTG
22747448 GGGCCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (19 bp):
TGCCCCTGTCTGCACTTTG
Found at i:22751618 original size:101 final size:102
Alignment explanation
Indices: 22751503--22751687 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
22751493 AAAGTGATGG
* * * *
22751503 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTACT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCGG-ATGATAATGGTCACATGTGTACT
*
22751566 GCTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
22751604 TCACGTATGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTACTA
22751669 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
22751688 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCGGATGATAATGGTCACATGTGTACTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:22751633 original size:51 final size:51
Alignment explanation
Indices: 22751510--22751687 Score: 155
Period size: 51 Copynumber: 3.5 Consensus size: 51
22751500 TGGTCACGTG
* * * * * * *
22751510 TGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-A-TGATAGGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCACATA
* * * *
22751560 TGTACTGCTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCGATCACGTA
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-GATCACATA
*** * * * *
22751611 TGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCACATA
22751662 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
22751688 TGAACCGAAC
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 30 0.30
51 69 0.68
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCACATA
Found at i:22754350 original size:12 final size:12
Alignment explanation
Indices: 22754335--22754359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22754325 CGCCCGTGTA
22754335 CACAGCCATGTG
1 CACAGCCATGTG
22754347 CACAGCCATGTG
1 CACAGCCATGTG
22754359 C
1 C
22754360 TACATGAATT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CACAGCCATGTG
Found at i:22758560 original size:22 final size:24
Alignment explanation
Indices: 22758534--22758596 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
22758524 TAATGAACAA
22758534 AGAGCACTGAA-GTGCT-AT-ACAG
1 AGAGCA-TGAATGTGCTAATCACAG
22758556 AGAGCATGAATGTGCTAATCAC--
1 AGAGCATGAATGTGCTAATCACAG
22758578 AGAGCA-GTAATGTGCTAAT
1 AGAGCATG-AATGTGCTAAT
22758597 AATTGGAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.14
22 28 0.76
23 2 0.05
24 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (24 bp):
AGAGCATGAATGTGCTAATCACAG
Found at i:22776685 original size:17 final size:16
Alignment explanation
Indices: 22776655--22776689 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22776645 AATTAATTTA
22776655 AATTAATTAATTTCTC
1 AATTAATTAATTTCTC
*
22776671 AATTCAATTATTTTCTC
1 AATT-AATTAATTTCTC
22776688 AA
1 AA
22776690 CCTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTAATTTCTC
Found at i:22778952 original size:77 final size:77
Alignment explanation
Indices: 22778825--22778970 Score: 238
Period size: 77 Copynumber: 1.9 Consensus size: 77
22778815 TGACCTTGTC
* ***
22778825 CTTAATCTCTTTGGGAGAATATTTTTTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
1 CTTAATCTCTTTGGGACAATATCCATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
22778890 ACATAGAATATT
66 ACATAGAATATT
* *
22778902 CTTAATCTCTTTGGGACAATATCCATTCTTCCAATATGCTCCTATTTTATCTCATGGTAATCATT
1 CTTAATCTCTTTGGGACAATATCCATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
22778967 ACAT
66 ACAT
22778971 CTTCCTTCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (77 bp):
CTTAATCTCTTTGGGACAATATCCATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
ACATAGAATATT
Found at i:22781125 original size:15 final size:16
Alignment explanation
Indices: 22781100--22781132 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
22781090 GTTCAAATAT
22781100 ATAGAAAAATAATTAC
1 ATAGAAAAATAATTAC
22781116 ATAG-AAAATAATTAC
1 ATAGAAAAATAATTAC
22781131 AT
1 AT
22781133 GTTTACTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
ATAGAAAAATAATTAC
Found at i:22803751 original size:28 final size:28
Alignment explanation
Indices: 22803711--22803766 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22803701 TCGAGTTAAC
22803711 CATATCCACTAAAGAATAGTTCTTTCTT
1 CATATCCACTAAAGAATAGTTCTTTCTT
22803739 CATATCCACTAAAGAATAGTTCTTTCTT
1 CATATCCACTAAAGAATAGTTCTTTCTT
22803767 TCCGCCAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (28 bp):
CATATCCACTAAAGAATAGTTCTTTCTT
Found at i:22817484 original size:43 final size:43
Alignment explanation
Indices: 22817436--22817780 Score: 316
Period size: 43 Copynumber: 8.0 Consensus size: 43
22817426 AGAAATAAAT
* * * **
22817436 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTAACCACAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
22817479 GCCGCTGAAGGCCATGGTCTTCAGTGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* *
22817522 GCCGCTAAAGGCCATGGTCTTCAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* * * * * * * * *
22817565 TCTGCTAAAGGTCATGCTCTTTAGCGGCACTTTTACAAAAAAT
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* * * * * *
22817608 GCCACTAAAGGTCATGGTTTTTAGCGGCGCTTCT-CCAGAAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCA-CAAAC
* * * * * *
22817651 GCCGCTAAAGACCCTGATCGTTAGCGGTGCCTTTCCAACAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
22817694 GCCACTAAAGCCCTTGATCTTTAGCGGCG-TTTTCCTCTCAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCC-CACAAAC
* *
22817737 GCCGCTGAAGACCATGATCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
22817780 G
1 G
22817781 GCACTAATTT
Statistics
Matches: 243, Mismatches: 55, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
42 7 0.03
43 228 0.94
44 8 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGGCCATGATCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:22818163 original size:21 final size:21
Alignment explanation
Indices: 22818108--22818166 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
22818098 TTTTACGTTG
* *
22818108 CTCTACTTCCCTCACTACAGC
1 CTCTACTTCCCTCGCTGCAGC
22818129 CTCTACTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
22818150 CTCTACTTCTCTCGCTG
1 CTCTACTTCCCTCGCTG
22818167 TTGCATCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.12, C:0.46, G:0.10, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:22818262 original size:66 final size:66
Alignment explanation
Indices: 22818155--22818300 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
22818145 GCAGCCTCTA
* *
22818155 CTTCTCTCGCTGTTGCATCTGCTTTAAGCTGCTGCTAGAGTTCTTCATA-CTTTCGTTGAACCTC
1 CTTCTCTCGCTGTTACATCTACTTTAAGCTGCTGCTAGAGTTCTTCATATCTTT-GTTGAACCTC
22818219 AG
65 AG
* * * * *
22818221 CTTCTCTTGCTGTTACATCTACTTTAAGTTG-TAGTTGGAGTTCTTCATATCTTTTTTGAACCTC
1 CTTCTCTCGCTGTTACATCTACTTTAAGCTGCT-GCTAGAGTTCTTCATATCTTTGTTGAACCTC
22818285 AG
65 AG
*
22818287 CTTCTCTCGATGTT
1 CTTCTCTCGCTGTT
22818301 GCCTCCTCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (66 bp):
CTTCTCTCGCTGTTACATCTACTTTAAGCTGCTGCTAGAGTTCTTCATATCTTTGTTGAACCTCA
G
Found at i:22818315 original size:66 final size:66
Alignment explanation
Indices: 22818192--22818319 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
22818182 GCTGCTGCTA
* * *
22818192 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTTGCTGTTACATCTACTTTAAGTTGTAGTT
1 GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGTTACATCTACTATAAGTTGTAGTT
22818257 G
66 G
* * *
22818258 GAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCT-CTATAAGTTGTA
1 GAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGTTACAT-CTACTATAAGTTGTA
22818320 TAATTTGCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 48 0.89
67 6 0.11
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (66 bp):
GAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGTTACATCTACTATAAGTTGTAGTT
G
Found at i:22823784 original size:25 final size:25
Alignment explanation
Indices: 22823753--22824091 Score: 136
Period size: 25 Copynumber: 13.7 Consensus size: 25
22823743 GTAATTAAGC
*
22823753 TATGTAAGTTATATAAGTTGTGTAT
1 TATGTAAGTTATATAAGTTATGTAT
*
22823778 AATGTAAGTTATGA-AAGTTATGTAT
1 TATGTAAGTTAT-ATAAGTTATGTAT
*
22823803 TATGTAAGTTACT-TAAGTTGTGTAT
1 TATGTAAGTTA-TATAAGTTATGTAT
* * * * *
22823828 TATATAAGTCATGTAGGCTATGTAT
1 TATGTAAGTTATATAAGTTATGTAT
*
22823853 TATGTAAGTTATAATAAG-TAAG--T
1 TATGTAAGTTAT-ATAAGTTATGTAT
*
22823876 TATGAAAGTTATATATAAG-T-T-TA-
1 TATGTAAG-T-TATATAAGTTATGTAT
* * *
22823899 TATATAAGTTATGTAAATTA--TA-
1 TATGTAAGTTATATAAGTTATGTAT
* ** * *
22823921 TATGTAAGTTATGTGTTGTGTAAGTTT
1 TATGTAAGTTATAT-AAGT-TATGTAT
* * *
22823948 ATATATAAATTTTATTCAAGTTATG-A-
1 -TATGTAAGTTATA-T-AAGTTATGTAT
* * *
22823974 -ATGTAAGTTATGTAAGTTGTGTGT
1 TATGTAAGTTATATAAGTTATGTAT
* *
22823998 AATGTAAGTTATGT-A-TTATGTAAGT
1 TATGTAAGTTATATAAGTTATGT-A-T
* * *
22824023 TATTTAAGTTATTTAAGTTGTGTAT
1 TATGTAAGTTATATAAGTTATGTAT
* * * * *
22824048 TATGTAAGTCATGTAGGCTATGTGT
1 TATGTAAGTTATATAAGTTATGTAT
22824073 TATGTAAGTTATTATAAGT
1 TATGTAAGTTA-TATAAGT
22824092 AAGTTATGAA
Statistics
Matches: 231, Mismatches: 57, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
21 6 0.03
22 24 0.10
23 21 0.09
24 19 0.08
25 129 0.56
26 12 0.05
27 5 0.02
28 12 0.05
29 3 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATATAAGTTATGTAT
Found at i:22823836 original size:50 final size:50
Alignment explanation
Indices: 22823753--22823871 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
22823743 GTAATTAAGC
* * *
22823753 TATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGAAAGTTATGTAT
1 TATGTAAGTTATATAAGTTGTGTATAATATAAGTCATGAAAGCTATGTAT
* * *
22823803 TATGTAAGTTACT-TAAGTTGTGTATTATATAAGTCATGTAGGCTATGTAT
1 TATGTAAGTTA-TATAAGTTGTGTATAATATAAGTCATGAAAGCTATGTAT
22823853 TATGTAAGTTATAATAAGT
1 TATGTAAGTTAT-ATAAGT
22823872 AAGTTATGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
49 1 0.02
50 53 0.88
51 6 0.10
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (50 bp):
TATGTAAGTTATATAAGTTGTGTATAATATAAGTCATGAAAGCTATGTAT
Found at i:22823864 original size:9 final size:9
Alignment explanation
Indices: 22823748--22824165 Score: 97
Period size: 9 Copynumber: 48.7 Consensus size: 9
22823738 TAAGTGTAAT
*
22823748 TAAGCTATG
1 TAAGTTATG
*
22823757 TAAGTTATA
1 TAAGTTATG
*
22823766 TAAGTTGTG
1 TAAGTTATG
*
22823775 T-A-TAATG
1 TAAGTTATG
22823782 TAAGTTATG
1 TAAGTTATG
*
22823791 AAAGTTATG
1 TAAGTTATG
22823800 T-A-TTATG
1 TAAGTTATG
22823807 TAAGTTACT-
1 TAAGTTA-TG
*
22823816 TAAGTTGTG
1 TAAGTTATG
*
22823825 T-A-TTATA
1 TAAGTTATG
*
22823832 TAAGTCATG
1 TAAGTTATG
* *
22823841 TAGGCTATG
1 TAAGTTATG
22823850 T-A-TTATG
1 TAAGTTATG
22823857 TAAGTTA--
1 TAAGTTATG
*
22823864 TAA--TAAG
1 TAAGTTATG
22823871 TAAGTTATG
1 TAAGTTATG
* *
22823880 AAAGTTATATA
1 TAAG-T-TATG
*
22823891 TAAGTTTATATA
1 TAAG--T-TATG
22823903 TAAGTTATG
1 TAAGTTATG
*
22823912 TAAATTA--
1 TAAGTTATG
22823919 T-A--TATG
1 TAAGTTATG
22823925 TAAGTTATG
1 TAAGTTATG
*
22823934 T--GTTGTG
1 TAAGTTATG
*
22823941 TAAGTTTATATA
1 TAAG--T-TATG
*
22823953 TAAATTTTAT-
1 T-AA-GTTATG
22823963 TCAAGTTATG
1 T-AAGTTATG
22823973 -AA----TG
1 TAAGTTATG
22823977 TAAGTTATG
1 TAAGTTATG
*
22823986 TAAGTTGTG
1 TAAGTTATG
*
22823995 T--GTAATG
1 TAAGTTATG
22824002 TAAGTTATG
1 TAAGTTATG
22824011 T-A-TTATG
1 TAAGTTATG
*
22824018 TAAGTTATT
1 TAAGTTATG
*
22824027 TAAGTTATT
1 TAAGTTATG
*
22824036 TAAGTTGTG
1 TAAGTTATG
22824045 T-A-TTATG
1 TAAGTTATG
*
22824052 TAAGTCATG
1 TAAGTTATG
* *
22824061 TAGGCTATG
1 TAAGTTATG
22824070 T--GTTATG
1 TAAGTTATG
22824077 TAAGTTAT-
1 TAAGTTATG
*
22824085 T-A--TAAG
1 TAAGTTATG
22824091 TAAGTTATG
1 TAAGTTATG
* *
22824100 AAAGTTATATA
1 TAAG-T-TATG
*
22824111 TAAGTTTATATA
1 TAAG--T-TATG
22824123 TAAGTTATG
1 TAAGTTATG
22824132 TAAGTTATTGTG
1 TAAGTTA---TG
22824144 TAAGTTATG
1 TAAGTTATG
*
22824153 T--GTTGTG
1 TAAGTTATG
22824160 TAAGTT
1 TAAGTT
22824166 TATATATAAA
Statistics
Matches: 303, Mismatches: 51, Indels: 110
0.65 0.11 0.24
Matches are distributed among these distances:
4 4 0.01
5 6 0.02
6 3 0.01
7 63 0.21
8 15 0.05
9 151 0.50
10 8 0.03
11 16 0.05
12 35 0.12
13 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22823895 original size:34 final size:34
Alignment explanation
Indices: 22823856--22823932 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
22823846 TATGTATTAT
22823856 GTAAGTTATA-ATAAGTAAGTTATG-AAAGTTATATA
1 GTAAGTTATATAT-A-TAAGTTATGTAAA-TTATATA
22823891 -TAAGTT-TATATATAAGTTATGTAAATTATATA
1 GTAAGTTATATATATAAGTTATGTAAATTATATA
22823923 TGTAAGTTAT
1 -GTAAGTTAT
22823933 GTGTTGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
32 16 0.43
33 6 0.16
34 14 0.38
35 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (34 bp):
GTAAGTTATATATATAAGTTATGTAAATTATATA
Found at i:22823902 original size:10 final size:11
Alignment explanation
Indices: 22823881--22823923 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
22823871 TAAGTTATGA
22823881 AAGTTATATAT
1 AAGTTATATAT
22823892 AAGTTTATATAT
1 AAG-TTATATAT
*
22823904 AAGTTATGTA-
1 AAGTTATATAT
22823914 AA-TTATATAT
1 AAGTTATATAT
22823924 GTAAGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 9 0.32
12 11 0.39
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:22824004 original size:16 final size:16
Alignment explanation
Indices: 22823983--22824062 Score: 61
Period size: 16 Copynumber: 4.9 Consensus size: 16
22823973 AATGTAAGTT
* *
22823983 ATGTAAGTTGTGTGTA
1 ATGTAAGTTATGTATA
*
22823999 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATA
* *
22824015 ATGTAAGTTATTTAAGTT
1 ATGTAAGTTATGT-A-TA
* * *
22824033 ATTTAAGTTGTGTATT
1 ATGTAAGTTATGTATA
*
22824049 ATGTAAGTCATGTA
1 ATGTAAGTTATGTA
22824063 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 38 0.73
17 2 0.04
18 12 0.23
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATA
Found at i:22824104 original size:23 final size:24
Alignment explanation
Indices: 22824071--22824115 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
22824061 TAGGCTATGT
*
22824071 GTTATGTAAGTTAT-TATAAGTAA
1 GTTATGAAAGTTATATATAAGTAA
22824094 GTTATGAAAGTTATATATAAGT
1 GTTATGAAAGTTATATATAAGT
22824116 TTATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (24 bp):
GTTATGAAAGTTATATATAAGTAA
Found at i:22824120 original size:32 final size:32
Alignment explanation
Indices: 22824084--22824277 Score: 126
Period size: 32 Copynumber: 6.2 Consensus size: 32
22824074 ATGTAAGTTA
*
22824084 TTATAAGTAAGTTATGAAAGTTATATATAAGT
1 TTATAAGTAAGTTATGTAAGTTATATATAAGT
* *
22824116 TTATATA-TAAGTTATGTAAGTTATTGTGTAAG-
1 TTATA-AGTAAGTTATGTAAGTTA-TATATAAGT
* *
22824148 TTAT--GT--GTTGTGTAAGTTTATATATAAATT
1 TTATAAGTAAGTTATGTAAG-TTATATAT-AAGT
*
22824178 TTATTTAAGTTA-TGTATGTAAGTTATATATAAGT
1 TTA--TAAGTAAGT-TATGTAAGTTATATATAAGT
*
22824212 TTATATA-TAAGTTATGTAAGTTATTATGTAAG-
1 TTATA-AGTAAGTTATGTAAGTTA-TATATAAGT
* *
22824244 TTAT--GT--GTTGTGTAAGTTTATATATAAAT
1 TTATAAGTAAGTTATGTAAG-TTATATATAAGT
22824273 TTATA
1 TTATA
22824278 TATGTTATGT
Statistics
Matches: 128, Mismatches: 14, Indels: 42
0.70 0.08 0.23
Matches are distributed among these distances:
28 27 0.21
29 12 0.09
30 5 0.04
32 44 0.34
33 16 0.12
34 8 0.06
35 9 0.07
36 7 0.05
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (32 bp):
TTATAAGTAAGTTATGTAAGTTATATATAAGT
Found at i:22824135 original size:21 final size:21
Alignment explanation
Indices: 22824111--22824249 Score: 66
Period size: 21 Copynumber: 6.0 Consensus size: 21
22824101 AAGTTATATA
22824111 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
* *
22824132 TAAG-TTATTGTGTAAGTTATGTGTTG
1 TAAGTTTA-TATATAAGTTA-----TG
* *
22824158 TGTAAGTTTATATATAAATTTTATT
1 --TAAGTTTATATAT-AA-GTTATG
* * *
22824183 TAAGTTATGTATGTAAGTTATATA
1 TAAGTT-TATATATAAG-T-TATG
22824207 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
22824228 TAAG-TTATTATGTAAGTTATG
1 TAAGTTTA-TATATAAGTTATG
22824249 T
1 T
22824250 GTTGTGTAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
20 6 0.07
21 33 0.37
22 1 0.01
23 17 0.19
24 14 0.16
25 1 0.01
26 2 0.02
28 7 0.08
29 5 0.06
30 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.50
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:22824169 original size:49 final size:49
Alignment explanation
Indices: 22824111--22824299 Score: 217
Period size: 49 Copynumber: 3.9 Consensus size: 49
22824101 AAGTTATATA
*
22824111 TAAGTTTATATATAAGTTATGTAAGTTATTGTGTAAGTTATGTGTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTG
* * * *
22824160 TAAGTTTATATATAAATTTTATTTAAGTTATGTATGTAAGTTA-----TATA
1 TAAGTTTATATAT-AA-GTTATGTAAGTTAT-TATGTAAGTTATGTGTTGTG
22824207 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTG
* * * *
22824256 TAAGTTTATATATAAATTTATATATGTTATGTATGTAAATTATG
1 TAAGTTTATATAT-AAGTTATGTAAGTTAT-TATGTAAGTTATG
22824300 ATATGATTGA
Statistics
Matches: 117, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.09
45 12 0.10
46 2 0.02
47 15 0.13
49 28 0.24
50 15 0.13
51 24 0.21
52 10 0.09
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (49 bp):
TAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTG
Found at i:22824187 original size:96 final size:97
Alignment explanation
Indices: 22824081--22824303 Score: 339
Period size: 96 Copynumber: 2.3 Consensus size: 97
22824071 GTTATGTAAG
*
22824081 TTATTATAAGTAA-GTTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGT
1 TTATTATAAGTAATG-TATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGT
22824145 AAGTTATGTGTTGTGTAAGTTTATATATAAATT
65 AAGTTATGTGTTGTGTAAGTTTATATATAAATT
* *
22824178 TTATT-TAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
1 TTATTATAAGTAATGTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
22824242 AGTTATGTGTTGTGTAAGTTTATATATAAA-T
66 AGTTATGTGTTGTGTAAGTTTATATATAAATT
* *
22824273 TTA-TATATGTTATGTATGTAAA-TTATGATAT
1 TTATTATAAGTAATGTATG-AAAGTTAT-ATAT
22824304 GATTGATAAA
Statistics
Matches: 117, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
94 1 0.01
95 20 0.17
96 90 0.77
97 6 0.05
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (97 bp):
TTATTATAAGTAATGTATGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
AGTTATGTGTTGTGTAAGTTTATATATAAATT
Found at i:22824223 original size:36 final size:36
Alignment explanation
Indices: 22824158--22824229 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
22824148 TTATGTGTTG
*
22824158 TGTAAGTTTATATATAAATTTTATTTAAGTTATGTA
1 TGTAAGTTTATATATAAATTTTATATAAGTTATGTA
*
22824194 TGTAAG-TTATATATAAGTTTATATATAAGTTATGTA
1 TGTAAGTTTATATATAAATTT-TATATAAGTTATGTA
22824230 AGTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (36 bp):
TGTAAGTTTATATATAAATTTTATATAAGTTATGTA
Found at i:22824238 original size:12 final size:12
Alignment explanation
Indices: 22824072--22824247 Score: 74
Period size: 12 Copynumber: 15.1 Consensus size: 12
22824062 AGGCTATGTG
22824072 TTATGTAAGTTA
1 TTATGTAAGTTA
*
22824084 TTA--TAAGTAA
1 TTATGTAAGTTA
*
22824094 GTTATGAAAGTTA
1 -TTATGTAAGTTA
*
22824107 -TATATAAGTT-
1 TTATGTAAGTTA
*
22824117 TATATATAAG---
1 T-TATGTAAGTTA
22824127 TTATGTAAGTTA
1 TTATGTAAGTTA
*
22824139 TTGTGTAAGTTA
1 TTATGTAAGTTA
*
22824151 TGTGTTGTGTAAGTT-
1 ----TTATGTAAGTTA
* *
22824166 TATATATAAATT-
1 T-TATGTAAGTTA
*
22824178 TTATTTAAGTTA
1 TTATGTAAGTTA
22824190 TGTATGTAAGTTA
1 T-TATGTAAGTTA
*
22824203 -TATATAAGTT-
1 TTATGTAAGTTA
*
22824213 TATATATAAG---
1 T-TATGTAAGTTA
22824223 TTATGTAAGTTA
1 TTATGTAAGTTA
22824235 TTATGTAAGTTA
1 TTATGTAAGTTA
22824247 T
1 T
22824248 GTGTTGTGTA
Statistics
Matches: 129, Mismatches: 15, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
9 14 0.11
10 8 0.06
11 29 0.22
12 52 0.40
13 15 0.12
16 11 0.09
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:22824348 original size:19 final size:19
Alignment explanation
Indices: 22824309--22824370 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
22824299 GATATGATTG
*
22824309 ATAAATTTTTCAA-ATATAT
1 ATAAAATTTT-AATATATAT
22824328 ATAAAATTTTAATATATAT
1 ATAAAATTTTAATATATAT
* *
22824347 ATTAAAATTGTATATAAATAT
1 A-TAAAATTTTA-ATATATAT
22824368 ATA
1 ATA
22824371 TCAAAGATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.05
19 16 0.43
20 11 0.30
21 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAAAATTTTAATATATAT
Found at i:22826440 original size:45 final size:45
Alignment explanation
Indices: 22826391--22826576 Score: 122
Period size: 45 Copynumber: 4.0 Consensus size: 45
22826381 AATATCTGCT
22826391 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
* ** ** * * * * **
22826436 ATCTTTAACCTGCTCCACTGCAACTTCGGGGAGATAAGGTTTG-A
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
** * * ** * * *
22826480 TATGATAAGATCTAATTCGACCTACTGCAACTTCAAAGAGATGAGATTTGTT
1 -ATCTTCAG-TCT-ATT----CTACTGCAACCTCAGTGAGATAAGACTTGTA
22826532 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
22826577 GCCTCAATAA
Statistics
Matches: 99, Mismatches: 34, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
44 1 0.01
45 61 0.62
46 2 0.02
47 1 0.01
49 3 0.03
50 3 0.03
51 28 0.28
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
Found at i:22826698 original size:44 final size:44
Alignment explanation
Indices: 22826637--22826726 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
22826627 AGATCTATCT
**
22826637 TTTAATCCGCTTCACTGCAACTTCAGGAAGATTGGACTAGTAAC
1 TTTAATCCGCTTCACTGCAACTTCAGGAAGATAAGACTAGTAAC
* * * * *
22826681 TTTAATCTGC-TCGACTGCGATTTCAGGGAGATAAGACTTGTAAC
1 TTTAATCCGCTTC-ACTGCAACTTCAGGAAGATAAGACTAGTAAC
22826725 TT
1 TT
22826727 ATAGCTTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
TTTAATCCGCTTCACTGCAACTTCAGGAAGATAAGACTAGTAAC
Found at i:22827679 original size:46 final size:46
Alignment explanation
Indices: 22827337--22827663 Score: 411
Period size: 46 Copynumber: 7.1 Consensus size: 46
22827327 AGAATCTGTA
* * ** *
22827337 ATCTTCAACCTACTCCATTGCCAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
22827383 ATCTACGATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* ** *
22827429 ATCTTCAATCTACTTTGCTGCCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
22827475 ATCTTCGATATACTCCGTTGCCAAAAATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * **
22827521 ATCTACAATCTACTCCGCTGCCAAATACAGGAAGGCAAGATCTATT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
22827567 ATCTACGATCTACTCCTCTACCAAATACAGGAAGAAAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
22827613 ATCTTTGATCTACTCCGCTGCCAATTACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
22827659 ATCTT
1 ATCTT
22827664 TAATCTGTTC
Statistics
Matches: 240, Mismatches: 41, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 240 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (46 bp):
ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:22828173 original size:24 final size:24
Alignment explanation
Indices: 22828122--22828174 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
22828112 GCCCCCTACT
*
22828122 GTAATCTTCAGAGTTCAATCCATT
1 GTAATCTTCAGAGTTCAATCCATG
22828146 GTAATCTTCA-AGGTT-AATTCCATG
1 GTAATCTTCAGA-GTTCAA-TCCATG
22828170 GTAAT
1 GTAAT
22828175 TTTGGGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
GTAATCTTCAGAGTTCAATCCATG
Found at i:22829185 original size:13 final size:13
Alignment explanation
Indices: 22829163--22829218 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
22829153 TAGGCCTCTC
*
22829163 CTTTTTTTTTCTT
1 CTTTTCTTTTCTT
22829176 CTTTTCTTTTCTT
1 CTTTTCTTTTCTT
22829189 -TTTTCCTTTTCTT
1 CTTTT-CTTTTCTT
*
22829202 -TTTTATTTTCTT
1 CTTTTCTTTTCTT
22829214 CTTTT
1 CTTTT
22829219 TTTGTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.28
13 28 0.72
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTCTTTTCTT
Done.