Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 25
Found at i:4190667 original size:37 final size:35
Alignment explanation
Indices: 4190622--4190695 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 35
4190612 GTTGGAAAAT
* *
4190622 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTT-TTTAAAAAATTTAAAAT-ATAAA
*
4190659 ATTTATATAATTTTTTACAAAATTTAAAATATAAA
1 ATTTATATAATTTTTTAAAAAATTTAAAATATAAA
4190694 AT
1 AT
4190696 GGTTTAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
36 15 0.44
37 12 0.35
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (35 bp):
ATTTATATAATTTTTTAAAAAATTTAAAATATAAA
Found at i:4191813 original size:4 final size:4
Alignment explanation
Indices: 4191804--4191834 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4191794 ACTCGATCTA
4191804 AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT AATT AATT AATT AATT AATT AATT AAT
4191835 AGATTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:4193362 original size:6 final size:6
Alignment explanation
Indices: 4193353--4193796 Score: 888
Period size: 6 Copynumber: 74.0 Consensus size: 6
4193343 CCTTATCCTA
4193353 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193401 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193449 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193497 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193545 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193593 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193641 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193689 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193737 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
4193785 ATGTAT ATGTAT
1 ATGTAT ATGTAT
4193797 CATATGAAAG
Statistics
Matches: 438, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 438 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:4197398 original size:32 final size:30
Alignment explanation
Indices: 4197362--4197440 Score: 70
Period size: 32 Copynumber: 2.5 Consensus size: 30
4197352 TCATATTATC
*
4197362 ACTTTGGGTAACATGTCACATGTCACATCACA-
1 ACTTT-GGTAACATGT-ACATATCACATCA-AT
* *
4197394 ACTTTAGATAATATGATACATATCACATCAAT
1 ACTTT-GGTAACATG-TACATATCACATCAAT
*
4197426 ACTTTGGTGACATGT
1 ACTTTGGTAACATGT
4197441 GATGTGATGC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
30 1 0.03
31 7 0.18
32 29 0.76
33 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (30 bp):
ACTTTGGTAACATGTACATATCACATCAAT
Found at i:4206028 original size:19 final size:19
Alignment explanation
Indices: 4206004--4206041 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4205994 CATATACTCA
4206004 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
4206023 CCATGCAGACGAGCCATAC
1 CCATGCAGACGAGCCATAC
4206042 AAGCCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.21, T:0.11
Consensus pattern (19 bp):
CCATGCAGACGAGCCATAC
Found at i:4206100 original size:32 final size:32
Alignment explanation
Indices: 4206056--4206126 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
4206046 CATATACTCA
* *
4206056 CCATGCAGACGAGCCAGCCAACGGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
*
4206088 CCATGCAAACGAGCCAGCCAATAGAGAGGTCG
1 CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
4206120 CCATGCA
1 CCATGCA
4206127 GTCTGGGCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.31, G:0.30, T:0.08
Consensus pattern (32 bp):
CCATGCAAACGAGCCAGCCAACAGAGAGGTCG
Found at i:4206217 original size:29 final size:29
Alignment explanation
Indices: 4206114--4206208 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
4206104 GCCAATAGAG
* **
4206114 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
4206143 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
4206172 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
4206201 AGGTCGCC
1 AGGTCGCC
4206209 CCGGCGTCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:4206307 original size:49 final size:49
Alignment explanation
Indices: 4206235--4206349 Score: 177
Period size: 49 Copynumber: 2.4 Consensus size: 49
4206225 CCCGAGACCA
4206235 TGCATG-C-ACATGCA-GCCAAATAACTTCACGTGCTCCTGCT-CCCGC
1 TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
*
4206280 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
4206330 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
4206350 TGTGATCCTA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
45 6 0.10
46 1 0.02
47 6 0.10
48 5 0.08
49 29 0.46
50 16 0.25
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (49 bp):
TGCATGCCTACATGCATGCCAAATAACTTCACGTGCTCCTGCTCCCCGC
Found at i:4206582 original size:16 final size:18
Alignment explanation
Indices: 4206561--4206599 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4206551 GGAGATAAGG
*
4206561 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
4206577 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
4206595 TAAAT
1 TAAAT
4206600 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:4206767 original size:46 final size:48
Alignment explanation
Indices: 4206704--4206795 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 48
4206694 TTATATAGTT
4206704 AAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATATAA
*
4206749 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
4206796 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 8 0.20
46 15 0.37
47 3 0.07
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:4206840 original size:12 final size:12
Alignment explanation
Indices: 4206825--4206877 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
4206815 TATATAAAAA
4206825 ATTAGTTAGTTT
1 ATTAGTTAGTTT
4206837 ATTAGTTAGTTTT
1 ATTAGTTAG-TTT
*
4206850 AGTTAGTAAGTTT
1 A-TTAGTTAGTTT
*
4206863 ATTAG-TAGTAT
1 ATTAGTTAGTTT
4206874 ATTA
1 ATTA
4206878 TAATGAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 8 0.22
12 13 0.36
13 8 0.22
14 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (12 bp):
ATTAGTTAGTTT
Found at i:4206894 original size:32 final size:33
Alignment explanation
Indices: 4206858--4206934 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
4206848 TTAGTTAGTA
*
4206858 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-ATAAAAAAAT
*
4206890 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAAT
*
4206924 ATTTTATTAGT
1 AGTTTATTAGT
4206935 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 4 0.10
34 21 0.54
35 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAAT
Found at i:4207007 original size:16 final size:16
Alignment explanation
Indices: 4206975--4207021 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
4206965 TTTAAAAAGT
*
4206975 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
4206991 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
4207007 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
4207022 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:4207016 original size:15 final size:14
Alignment explanation
Indices: 4206996--4207026 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4206986 GTTTATTAGT
4206996 TTATTATATTATAAG
1 TTATTATATTA-AAG
4207011 TTATTATATTAAAG
1 TTATTATATTAAAG
4207025 TT
1 TT
4207027 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:4209198 original size:17 final size:17
Alignment explanation
Indices: 4209176--4209208 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4209166 CAATGATGTT
4209176 TAGTATCAAATAATTAC
1 TAGTATCAAATAATTAC
4209193 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
4209209 GTATTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:4209212 original size:14 final size:14
Alignment explanation
Indices: 4209175--4209225 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
4209165 ACAATGATGT
4209175 TTAGTATCAAATAA
1 TTAGTATCAAATAA
4209189 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATAA
* *
4209206 TTAGTATTAAATCA
1 TTAGTATCAAATAA
4209220 TTAGTA
1 TTAGTA
4209226 ATAATTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 17 0.53
15 1 0.03
16 1 0.03
17 13 0.41
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATAA
Found at i:4209227 original size:21 final size:21
Alignment explanation
Indices: 4209203--4209246 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4209193 TAGTATCAAA
* *
4209203 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
4209224 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
4209245 TA
1 TA
4209247 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:4209245 original size:11 final size:11
Alignment explanation
Indices: 4209213--4209246 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4209203 TAATTAGTAT
4209213 TAAATCATTAG
1 TAAATCATTAG
*
4209224 T-AATAATTAG
1 TAAATCATTAG
4209234 TAAATCATTAG
1 TAAATCATTAG
4209245 TA
1 TA
4209247 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:4209254 original size:14 final size:13
Alignment explanation
Indices: 4209193--4209257 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
4209183 AAATAATTAC
*
4209193 TAGTATCAAATAAT
1 TAGTAT-AAATCAT
4209207 TAGTATTAAATCAT
1 TAGTA-TAAATCAT
*
4209221 TAG--T-AATAAT
1 TAGTATAAATCAT
4209231 TAG--TAAATCAT
1 TAGTATAAATCAT
4209242 TAGTATCAAATCAT
1 TAGTAT-AAATCAT
4209256 TA
1 TA
4209258 AATATTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 9 0.21
11 9 0.21
13 1 0.02
14 23 0.53
15 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TAGTATAAATCAT
Found at i:4209361 original size:13 final size:12
Alignment explanation
Indices: 4209343--4209438 Score: 81
Period size: 11 Copynumber: 7.9 Consensus size: 12
4209333 TTAGTATTCT
4209343 ATAATTATTAGTA
1 ATAATTATTA-TA
4209356 ATAATTATTA-A
1 ATAATTATTATA
*
4209367 ATCATTATTATAA
1 ATAATTATTAT-A
*
4209380 ATAATTACTA-A
1 ATAATTATTATA
**
4209391 ATAA-TAACATA
1 ATAATTATTATA
4209402 ATAATTATTATAAA
1 ATAATTATTAT--A
*
4209416 ATCATTATTATA
1 ATAATTATTATA
*
4209428 ATGATTATTAT
1 ATAATTATTAT
4209439 CAAATCATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
10 3 0.04
11 20 0.29
12 15 0.22
13 19 0.28
14 11 0.16
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:4209424 original size:14 final size:13
Alignment explanation
Indices: 4209405--4209617 Score: 82
Period size: 12 Copynumber: 15.2 Consensus size: 13
4209395 TAACATAATA
4209405 ATTATTATAAAATC
1 ATTATTAT-AAATC
*
4209419 ATTATTAT-AATG
1 ATTATTATAAATC
4209431 ATTATTATCAAATC
1 ATTATTAT-AAATC
4209445 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
4209464 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
4209480 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
4209491 ATTTTTAT-AATG
1 ATTATTATAAATC
4209503 ATTATTACTAAATC
1 ATTATTA-TAAATC
* *
4209517 ATTACTAT-AATG
1 ATTATTATAAATC
4209529 ATTATTATCAAATC
1 ATTATTAT-AAATC
4209543 ATTACTAAATCATCAAATC
1 ATTA-T---T-AT-AAATC
*
4209562 ATTAAATATTTAAATC
1 ATT--AT-TATAAATC
4209578 ATTA-T-TAAATC
1 ATTATTATAAATC
* *
4209589 ATTTTTAT-AATG
1 ATTATTATAAATC
4209601 ATTATTACTAAATC
1 ATTATTA-TAAATC
4209615 ATT
1 ATT
4209618 GTTCATTGTT
Statistics
Matches: 157, Mismatches: 16, Indels: 52
0.70 0.07 0.23
Matches are distributed among these distances:
11 18 0.11
12 43 0.27
13 5 0.03
14 39 0.25
15 2 0.01
16 16 0.10
17 2 0.01
18 6 0.04
19 22 0.14
20 2 0.01
21 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATTATAAATC
Found at i:4209428 original size:26 final size:25
Alignment explanation
Indices: 4209346--4209546 Score: 111
Period size: 26 Copynumber: 8.2 Consensus size: 25
4209336 GTATTCTATA
4209346 ATTATTAGTAATAATTA-T-TAAATC
1 ATTATTA-TAATAATTATTATAAATC
*
4209370 ATTATTATAAATAATTA--CTAAAT-
1 ATTATTAT-AATAATTATTATAAATC
* **
4209393 AATAACATAATAATTATTATAAAATC
1 ATTATTATAATAATTATTAT-AAATC
*
4209419 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATAATTATTAT-AAATC
* * * *
4209445 ATTACTA-AATCATCAAATCATTAAAT-
1 ATTATTATAATAAT--TATTA-TAAATC
*
4209471 A-T-TTA-AATCATTA-T-TAAATC
1 ATTATTATAATAATTATTATAAATC
* *
4209491 ATTTTTATAATGATTATTACTAAATC
1 ATTATTATAATAATTATTA-TAAATC
* *
4209517 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATAATTATTAT-AAATC
4209543 ATTA
1 ATTA
4209547 CTAAATCATC
Statistics
Matches: 141, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
19 5 0.04
20 1 0.01
21 1 0.01
22 12 0.09
23 13 0.09
24 30 0.21
25 11 0.08
26 60 0.43
27 7 0.05
28 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATTATAATAATTATTATAAATC
Found at i:4209568 original size:98 final size:98
Alignment explanation
Indices: 4209399--4209617 Score: 404
Period size: 98 Copynumber: 2.2 Consensus size: 98
4209389 AAATAATAAC
* *
4209399 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
4209463 CATTAAATATTTAAATCATTATTAAATCATTTTT
65 CATTAAATATTTAAATCATTATTAAATCATTTTT
4209497 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
4209562 ATTAAATATTTAAATCATTATTAAATCATTTTT
66 ATTAAATATTTAAATCATTATTAAATCATTTTT
4209595 ATAATGATTATTACTAAATCATT
1 ATAATGATTATTACTAAATCATT
4209618 GTTCATTGTT
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
98 117 0.99
99 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (98 bp):
ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATCATTTTT
Found at i:4209625 original size:7 final size:7
Alignment explanation
Indices: 4209613--4209639 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4209603 TATTACTAAA
4209613 TCATTGT
1 TCATTGT
4209620 TCATTGT
1 TCATTGT
4209627 TCATTGT
1 TCATTGT
4209634 TCATTG
1 TCATTG
4209640 AACCAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TCATTGT
Found at i:4209753 original size:14 final size:11
Alignment explanation
Indices: 4209711--4210045 Score: 83
Period size: 11 Copynumber: 28.2 Consensus size: 11
4209701 GTTCAAGTCG
4209711 TAAATCATTAC
1 TAAATCATTAC
4209722 TAAATCATTAC
1 TAAATCATTAC
4209733 TAAATCATTAC
1 TAAATCATTAC
4209744 TATCAAATCATTA-
1 --T-AAATCATTAC
* * * *
4209757 AAAATTAATAA
1 TAAATCATTAC
* *
4209768 TAATTTCATTAT
1 TAA-ATCATTAC
4209780 TACTAATCATTAC
1 TA--AATCATTAC
4209793 TAAATCATTAC
1 TAAATCATTAC
4209804 TATCAAATCA-TAC
1 --T-AAATCATTAC
* * *
4209817 -ATAATTAATAA
1 TA-AATCATTAC
* *
4209828 TAATTTCATTAT
1 TAA-ATCATTAC
4209840 TACTAATCATTAC
1 TA--AATCATTAC
4209853 TAAATCATTAC
1 TAAATCATTAC
4209864 TATCAAATCATTA-
1 --T-AAATCATTAC
* * * *
4209877 AAAATTAATAA
1 TAAATCATTAC
* *
4209888 TAATTTCATTAT
1 TAA-ATCATTAC
4209900 TACTAATCATTAC
1 TA--AATCATTAC
4209913 TAAATCATTAC
1 TAAATCATTAC
4209924 TATCAAATCA-TAC
1 --T-AAATCATTAC
* * *
4209937 -ATAATTAATAA
1 TA-AATCATTAC
* *
4209948 TAATTTCATTAT
1 TAA-ATCATTAC
4209960 TACTAATCATTAC
1 TA--AATCATTAC
4209973 TAAATCATTAC
1 TAAATCATTAC
4209984 TATCAAATCATTA-
1 --T-AAATCATTAC
* * * *
4209997 AAAATTAATAA
1 TAAATCATTAC
4210008 TAATTTCATCATTAC
1 TAA----ATCATTAC
4210023 T-AATCATTAC
1 TAAATCATTAC
4210033 TAAATCATTAC
1 TAAATCATTAC
4210044 TA
1 TA
4210046 TCAAATCATA
Statistics
Matches: 240, Mismatches: 43, Indels: 82
0.66 0.12 0.22
Matches are distributed among these distances:
9 2 0.01
10 38 0.16
11 81 0.34
12 26 0.11
13 43 0.18
14 44 0.18
15 6 0.03
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATCATTAC
Found at i:4209791 original size:60 final size:60
Alignment explanation
Indices: 4209717--4210158 Score: 782
Period size: 60 Copynumber: 7.3 Consensus size: 60
4209707 GTCGTAAATC
4209717 ATTACTAAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACT-AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
4209778 ATTACTAATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATT
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATT
4209838 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
4209898 ATTACTAATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATT
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATT
*
4209958 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATC
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
*
4210018 ATTACTAATCATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATT
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATT
*
4210078 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATC
1 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
4210138 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
4210159 TTATAAATAC
Statistics
Matches: 366, Mismatches: 9, Indels: 13
0.94 0.02 0.03
Matches are distributed among these distances:
59 6 0.02
60 348 0.95
61 12 0.03
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (60 bp):
ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:4213263 original size:28 final size:28
Alignment explanation
Indices: 4213225--4213278 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4213215 ATAATCTAAT
*
4213225 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
4213253 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
4213279 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:4213285 original size:28 final size:28
Alignment explanation
Indices: 4213221--4213285 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
4213211 TTATATAATC
*
4213221 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
4213249 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
4213277 TAATTTATA
1 TAATATATA
4213286 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:4213288 original size:21 final size:21
Alignment explanation
Indices: 4213255--4213303 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4213245 TTAATATAAT
4213255 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
4213276 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
4213297 ATTAACT
1 A-TAACT
4213304 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:4213940 original size:20 final size:20
Alignment explanation
Indices: 4213915--4214031 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 20
4213905 TTTGGCGAGC
4213915 TGGGCGTGCATGGAGGT-CGT
1 TGGGCGTGCATGGAGGTGC-T
** *
4213935 TGGGCGTGCATGGCCGTGCA
1 TGGGCGTGCATGGAGGTGCT
* * *
4213955 TGGAG-GT-CGTTGGACGTGCC
1 TGG-GCGTGC-ATGGAGGTGCT
*
4213975 TGGGCATGCATGGAGGT-CGT
1 TGGGCGTGCATGGAGGTGC-T
*
4213995 TGGGCGTGCATGG-GCGTGCA
1 TGGGCGTGCATGGAG-GTGCT
4214015 TGGGCGTGCATGGAGGT
1 TGGGCGTGCATGGAGGT
4214032 CGTGGGGTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.05
20 67 0.88
21 5 0.07
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (20 bp):
TGGGCGTGCATGGAGGTGCT
Found at i:4213955 original size:30 final size:30
Alignment explanation
Indices: 4213915--4214017 Score: 170
Period size: 30 Copynumber: 3.4 Consensus size: 30
4213905 TTTGGCGAGC
4213915 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* * *
4213945 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
4213975 TGGGCATGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
4214005 TGGGCGTGCATGG
1 TGGGCGTGCATGG
4214018 GCGTGCATGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:4214010 original size:10 final size:10
Alignment explanation
Indices: 4213995--4214027 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
4213985 TGGAGGTCGT
4213995 TGGGCGTGCA
1 TGGGCGTGCA
4214005 TGGGCGTGCA
1 TGGGCGTGCA
4214015 TGGGCGTGCA
1 TGGGCGTGCA
4214025 TGG
1 TGG
4214028 AGGTCGTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.18, G:0.52, T:0.21
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:4214082 original size:29 final size:29
Alignment explanation
Indices: 4214041--4214104 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
4214031 TCGTGGGGTA
4214041 GGTCGCAGGGCGTGCATGGCGACCTGGTT
1 GGTCGCAGGGCGTGCATGGCGACCTGGTT
*
4214070 GGTCGCCGGGCGTGCATGGCGACCTGGTT
1 GGTCGCAGGGCGTGCATGGCGACCTGGTT
4214099 GGTCGC
1 GGTCGC
4214105 GACCTGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.08, C:0.27, G:0.45, T:0.20
Consensus pattern (29 bp):
GGTCGCAGGGCGTGCATGGCGACCTGGTT
Found at i:4214108 original size:15 final size:15
Alignment explanation
Indices: 4214088--4214119 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4214078 GGCGTGCATG
4214088 GCGACCTGGTTGGTC
1 GCGACCTGGTTGGTC
4214103 GCGACCTGGTTGGTC
1 GCGACCTGGTTGGTC
4214118 GC
1 GC
4214120 CGGGCGTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.28, G:0.41, T:0.25
Consensus pattern (15 bp):
GCGACCTGGTTGGTC
Found at i:4214382 original size:25 final size:25
Alignment explanation
Indices: 4214354--4214418 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
4214344 ACTCAAAAGA
*
4214354 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
4214379 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
4214404 TGTACATACCTAAAT
1 TGTACATACCTAAAT
4214419 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:4216336 original size:183 final size:183
Alignment explanation
Indices: 4216028--4216982 Score: 1829
Period size: 183 Copynumber: 5.2 Consensus size: 183
4216018 GCGTTACTTA
4216028 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
4216093 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAC
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
4216158 ATGTCGACACTTTTTTAAATGGTATCGACATATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
4216211 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
4216276 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
4216341 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
* *
4216394 AAAGTAGCGACACAATATAAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
4216459 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
4216524 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
* *
4216577 AAAGTACTGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGATCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
*
4216642 TATATTTATACCGGATATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
*
4216707 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTACTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
4216760 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
4216825 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
66 TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
4216890 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
131 ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
*
4216943 AAAGTACCGACACAACATTAGAAAGTGTCGATATAGGTTG
1 AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTG
4216983 AAAACTTTGT
Statistics
Matches: 757, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 757 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (183 bp):
AAAGTACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGG
TATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAA
ATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACAT
Found at i:4218190 original size:3 final size:3
Alignment explanation
Indices: 4218182--4218259 Score: 75
Period size: 3 Copynumber: 26.0 Consensus size: 3
4218172 ACTTGTTTGG
* * * *
4218182 ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
4218230 TTC ATT GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
4218260 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:4218241 original size:36 final size:36
Alignment explanation
Indices: 4218201--4218270 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
4218191 ATCATCATCA
*
4218201 TCATCATCGTCATCATCTTCATCGTCAGCTTCATTG
1 TCATCATCATCATCATCTTCATCGTCAGCTTCATTG
*
4218237 TCATCATCATCGTCATCTTCATCGTCAGCTTCAT
1 TCATCATCATCATCATCTTCATCGTCAGCTTCAT
4218271 CTTCATTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.31, G:0.10, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCTTCATCGTCAGCTTCATTG
Found at i:4218260 original size:12 final size:12
Alignment explanation
Indices: 4218183--4218276 Score: 89
Period size: 12 Copynumber: 7.8 Consensus size: 12
4218173 CTTGTTTGGA
* *
4218183 TCATCATCATCA
1 TCATCGTCATCT
* *
4218195 TCATCATCATCA
1 TCATCGTCATCT
* *
4218207 TCGTCATCATCT
1 TCATCGTCATCT
*
4218219 TCATCGTCAGCT
1 TCATCGTCATCT
* *
4218231 TCATTGTCATCA
1 TCATCGTCATCT
4218243 TCATCGTCATCT
1 TCATCGTCATCT
*
4218255 TCATCGTCAGCT
1 TCATCGTCATCT
*
4218267 TCATCTTCAT
1 TCATCGTCAT
4218277 TGACCGCTTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 69 1.00
ACGTcount: A:0.22, C:0.32, G:0.07, T:0.38
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:4218285 original size:18 final size:18
Alignment explanation
Indices: 4218213--4218276 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
4218203 ATCATCGTCA
*
4218213 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* *
4218231 TCAT-TGTCATC-ATCATCG
1 TCATCT-TCATCGA-CAGCT
*
4218249 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
4218267 TCATCTTCAT
1 TCATCTTCAT
4218277 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:4220088 original size:200 final size:200
Alignment explanation
Indices: 4219741--4220517 Score: 1407
Period size: 200 Copynumber: 3.9 Consensus size: 200
4219731 TTTAAATTAG
* * * *
4219741 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCA-ATTCTCTCATAAAACCGGT
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGA-CATATTCTCTCATAAAACCGGT
*
4219803 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTTTG
63 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
* * *
4219868 GGATCTACACTTTCTATATATGGATTGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
128 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
4219933 ACCAAAAA
193 ACCAAAAA
*
4219941 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAACGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4220006 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4220071 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
4220136 AAGAA
196 AAAAA
*
4220141 TATCGACACAAACTAAAAAAGTGTCCACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4220206 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4220271 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
4220336 AAAAA
196 AAAAA
4220341 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4220406 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
4220471 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
4220518 GGCCATATTG
Statistics
Matches: 560, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
199 2 0.00
200 550 0.98
201 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:4220647 original size:18 final size:18
Alignment explanation
Indices: 4220624--4220684 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
4220614 TCTCATTCAT
*
4220624 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
4220642 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
4220661 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
4220680 AATTA
1 AATTA
4220685 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:4220660 original size:19 final size:19
Alignment explanation
Indices: 4220636--4220684 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4220626 TTATATTCAC
4220636 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
4220655 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
4220674 ATACAAAATTA
1 ATACAAAATTA
4220685 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4222512 original size:33 final size:33
Alignment explanation
Indices: 4222475--4222540 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4222465 CATCTTAATA
*
4222475 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4222508 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
4222541 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4222599 original size:21 final size:21
Alignment explanation
Indices: 4222574--4222638 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4222564 CCCCTTATGC
* *
4222574 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4222595 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
4222616 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4222637 CT
1 CT
4222639 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:4224908 original size:20 final size:19
Alignment explanation
Indices: 4224859--4224917 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
4224849 TCCGGTATTA
*
4224859 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
4224878 TTGATATCTGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
4224899 TTTTACCTGTTATATCATT
1 TTTTACCTGTTTTATCATT
4224918 GTGGATCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:4225107 original size:161 final size:161
Alignment explanation
Indices: 4224887--4225221 Score: 494
Period size: 161 Copynumber: 2.1 Consensus size: 161
4224877 TTTGATATCT
* * *
4224887 GTTTTATCATATTTTTACCTGTTATATCATTGTGGATCGATATATTTTTTTAAAGTATCGACACA
1 GTTTTATCAT-TTTTTACCTGGTATATCATTGTGGATCGATACATTTTTTAAAAGTATCGACACA
* *
4224952 TTATAGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAGTATC
65 TTATAGGAC-CTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAGTACC
* *
4225015 GACACTTTCAATATATCCGGTAACGTTTTACCG
129 GACACTTTAAATATATCCGGTAACGCTTTACCG
* * *
4225048 GTTTTATCATTTTCTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACT
1 GTTTTATCATTTT-TTACCTGGTATATCATTGTGGATCGATACATTTTTTAAAAGTATCGACACA
* * *
4225113 TTATAGGACTTAAAATTACTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAGTACCG
65 TTATAGGACCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAGTACCG
* *
4225178 ACACTTTAAATGTATCCGGTAGCGCTTTACCG
130 ACACTTTAAATATATCCGGTAACGCTTTACCG
4225210 GTTTTATCATTT
1 GTTTTATCATTT
4225222 CAATTCTGGT
Statistics
Matches: 156, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
160 3 0.02
161 103 0.66
162 50 0.32
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (161 bp):
GTTTTATCATTTTTTACCTGGTATATCATTGTGGATCGATACATTTTTTAAAAGTATCGACACAT
TATAGGACCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAGTACCGA
CACTTTAAATATATCCGGTAACGCTTTACCG
Found at i:4226486 original size:56 final size:56
Alignment explanation
Indices: 4226400--4226516 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
4226390 CGATGGGCAT
* *
4226400 GTGGTAGGACTCTGTGGGACATGACACCAAACTCTGCAATTAGGATGTTATTGGAG
1 GTGGTAGGACTCTGCGAGACATGACACCAAACTCTGCAATTAGGATGTTATTGGAG
*
4226456 GTGGTAGGACTCTGCGAGACATGACACCAAACTCTGCAATTAGGATGTTATTGGGG
1 GTGGTAGGACTCTGCGAGACATGACACCAAACTCTGCAATTAGGATGTTATTGGAG
4226512 GTGGT
1 GTGGT
4226517 GCCTGTATCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (56 bp):
GTGGTAGGACTCTGCGAGACATGACACCAAACTCTGCAATTAGGATGTTATTGGAG
Found at i:4230549 original size:24 final size:24
Alignment explanation
Indices: 4230522--4230587 Score: 114
Period size: 24 Copynumber: 2.7 Consensus size: 24
4230512 CATTAAATGG
4230522 ATATCGCTTTACTCACACTACGCT
1 ATATCGCTTTACTCACACTACGCT
*
4230546 ATATCGCTTTACTCACACTACTCT
1 ATATCGCTTTACTCACACTACGCT
4230570 ATATCGCTTTACCTCACA
1 ATATCGCTTTA-CTCACA
4230588 TGATACTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 34 0.85
25 6 0.15
ACGTcount: A:0.26, C:0.33, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATCGCTTTACTCACACTACGCT
Found at i:4244107 original size:12 final size:12
Alignment explanation
Indices: 4244087--4244120 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4244077 TGTCCGGGTC
*
4244087 TTTTATATTTAT
1 TTTTTTATTTAT
4244099 TTTTTTATTTTAT
1 TTTTTTA-TTTAT
4244112 TTTTTTATT
1 TTTTTTATT
4244121 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:4245737 original size:29 final size:29
Alignment explanation
Indices: 4245667--4245735 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4245657 TGTTTCTTCG
4245667 ATTTTAGCCCTTTAAATTTCTGTATTTTGT
1 ATTTTAGCCC-TTAAATTTCTGTATTTTGT
* * * *
4245697 ATTTTGGTCCTTAAATTTCTTTTTTTTGTT
1 ATTTTAGCCCTTAAATTTCTGTATTTTG-T
4245727 ATTTTAGCC
1 ATTTTAGCC
4245736 TTTCAAGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.59
Consensus pattern (29 bp):
ATTTTAGCCCTTAAATTTCTGTATTTTGT
Found at i:4257731 original size:7 final size:7
Alignment explanation
Indices: 4257702--4257782 Score: 51
Period size: 8 Copynumber: 11.0 Consensus size: 7
4257692 TATTACACCT
4257702 AAAA-AA
1 AAAAGAA
4257708 AAAA-AA
1 AAAAGAA
4257714 AAAA-AA
1 AAAAGAA
4257720 AAAAGAA
1 AAAAGAA
4257727 AAAAGAA
1 AAAAGAA
*
4257734 GGAAATGAAA
1 --AAAAG-AA
4257744 AAAATGAA
1 AAAA-GAA
*
4257752 AAATGAAA
1 AAAAG-AA
4257760 AAGAAGAA
1 AA-AAGAA
*
4257768 AAAATAA
1 AAAAGAA
4257775 ATAAAGAA
1 A-AAAGAA
4257783 GGGTTCAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
6 16 0.26
7 15 0.25
8 21 0.34
9 7 0.11
10 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (7 bp):
AAAAGAA
Found at i:4257738 original size:11 final size:11
Alignment explanation
Indices: 4257703--4257771 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 11
4257693 ATTACACCTA
*
4257703 AAAAAAAAAAA
1 AAAAAAAAAAG
4257714 AAAAAAAAAAG
1 AAAAAAAAAAG
* *
4257725 AAAAAAGAAGG
1 AAAAAAAAAAG
4257736 AAATGAAAAAAATG
1 AAA--AAAAAAA-G
4257750 AAAAATGAAAAAG
1 AAAAA--AAAAAG
4257763 AAGAAAAAA
1 AA-AAAAAA
4257772 TAAATAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
11 22 0.47
12 5 0.11
13 8 0.17
14 12 0.26
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:4257755 original size:16 final size:16
Alignment explanation
Indices: 4257726--4257770 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4257716 AAAAAAAAGA
*
4257726 AAAAAGAAG-GAAATG
1 AAAAAGAAGAAAAATG
4257741 AAAAA-AATGAAAAATG
1 AAAAAGAA-GAAAAATG
4257757 AAAAAGAAGAAAAA
1 AAAAAGAAGAAAAA
4257771 ATAAATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 6 0.23
16 16 0.62
17 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (16 bp):
AAAAAGAAGAAAAATG
Found at i:4257780 original size:18 final size:17
Alignment explanation
Indices: 4257702--4257783 Score: 57
Period size: 16 Copynumber: 5.0 Consensus size: 17
4257692 TATTACACCT
* *
4257702 AAAAAA-AAAAAAAAAA
1 AAAAAATAAAAAAGAAG
*
4257718 AAAAAAGAAAAAAGAAG
1 AAAAAATAAAAAAGAAG
* *
4257735 --GAAATGAAAAAA-ATG
1 AAAAAAT-AAAAAAGAAG
*
4257750 -AAAAATGAAAAAGAAG
1 AAAAAATAAAAAAGAAG
4257766 AAAAAATAAATAAAGAAG
1 AAAAAATAAA-AAAGAAG
4257784 GGTTCAAGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
15 10 0.20
16 18 0.35
17 16 0.31
18 7 0.14
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAAATAAAAAAGAAG
Found at i:4258939 original size:141 final size:141
Alignment explanation
Indices: 4258721--4258980 Score: 389
Period size: 141 Copynumber: 1.8 Consensus size: 141
4258711 AACATCAACT
4258721 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
* * ** *
4258786 GGAACCGAGTTATCACCCTTCCTAACGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
4258851 TACCTTTAGAC
131 TACCTTTAGAC
* * * * *
4258862 GACCAGA-CTTCCTCATCACGTAGGAGCCGTGTCGACCTTA-GATAATCAGTCGTCCTCATCACG
1 GACCAGATC-TCCTCATCACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCACG
*
4258925 TAGGAACCGAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCACGTATGA
64 TAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGA
4258981 GCAGTGTCGT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
140 1 0.01
141 95 0.90
142 10 0.09
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (141 bp):
GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCTTTAGAC
Found at i:4259162 original size:11 final size:11
Alignment explanation
Indices: 4259143--4259189 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
4259133 TCTTTTATAT
*
4259143 TTATTTTTTTA
1 TTATTATTTTA
4259154 TT-TTATTTTA
1 TTATTATTTTA
*
4259164 TTATTATTTAA
1 TTATTATTTTA
4259175 TTATTATTATTA
1 TTATTATT-TTA
4259187 TTA
1 TTA
4259190 ATTTTACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.29
11 17 0.55
12 5 0.16
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:4260719 original size:29 final size:29
Alignment explanation
Indices: 4260649--4260717 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4260639 TGTTTCTTCG
4260649 ATTTTAGCCCTTTAAATTTCTGTATTTTGT
1 ATTTTAGCCC-TTAAATTTCTGTATTTTGT
* * * *
4260679 ATTTTGGTCCTTAAATTTCTTTTTTTTGTT
1 ATTTTAGCCCTTAAATTTCTGTATTTTG-T
4260709 ATTTTAGCC
1 ATTTTAGCC
4260718 TTTCAAGCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.59
Consensus pattern (29 bp):
ATTTTAGCCCTTAAATTTCTGTATTTTGT
Found at i:4261897 original size:23 final size:24
Alignment explanation
Indices: 4261860--4261904 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
4261850 ATTAAAGTCA
*
4261860 TAATTGTTTTTAAAAAATAAAATT
1 TAATTGTTTTTAAAAAAAAAAATT
4261884 TAATTG-TTTTAAAAAAAAAAA
1 TAATTGTTTTTAAAAAAAAAAA
4261905 GGATATGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TAATTGTTTTTAAAAAAAAAAATT
Found at i:4262411 original size:27 final size:27
Alignment explanation
Indices: 4262369--4262423 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4262359 TATTTCTGCA
*
4262369 CGTCCCCTCTTACTCCCCGCTACATGC
1 CGTCCCCTCCTACTCCCCGCTACATGC
* *
4262396 CGTCCCCTCCTGCTCCCCGCTGCATGC
1 CGTCCCCTCCTACTCCCCGCTACATGC
4262423 C
1 C
4262424 AATGCAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.07, C:0.55, G:0.15, T:0.24
Consensus pattern (27 bp):
CGTCCCCTCCTACTCCCCGCTACATGC
Found at i:4262623 original size:27 final size:27
Alignment explanation
Indices: 4262593--4262651 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
4262583 ACATAAAAGA
*
4262593 AAGAAAGGGGAGAAGAGATTATAGCCG
1 AAGAAAGGGGAGAAGAGATTACAGCCG
*
4262620 AAGAAA-GGGAGAAGATATTACAGCCG
1 AAGAAAGGGGAGAAGAGATTACAGCCG
4262646 -AGAAAG
1 AAGAAAG
4262652 AAAGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 18 0.62
27 6 0.21
ACGTcount: A:0.47, C:0.08, G:0.34, T:0.10
Consensus pattern (27 bp):
AAGAAAGGGGAGAAGAGATTACAGCCG
Found at i:4262660 original size:26 final size:26
Alignment explanation
Indices: 4262603--4262657 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
4262593 AAGAAAGGGG
* **
4262603 AGAAGAGATTATAGCCGAAGAAAGGG
1 AGAAGAGATTACAGCCGAAGAAAGAA
*
4262629 AGAAGATATTACAGCCG-AGAAAGAA
1 AGAAGAGATTACAGCCGAAGAAAGAA
4262654 AGAA
1 AGAA
4262658 AGAAGGGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.51, C:0.09, G:0.29, T:0.11
Consensus pattern (26 bp):
AGAAGAGATTACAGCCGAAGAAAGAA
Found at i:4265339 original size:14 final size:14
Alignment explanation
Indices: 4265320--4265346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4265310 ACACATACAC
4265320 AACAACAAAAAATG
1 AACAACAAAAAATG
4265334 AACAACAAAAAAT
1 AACAACAAAAAAT
4265347 AATAATTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.15, G:0.04, T:0.07
Consensus pattern (14 bp):
AACAACAAAAAATG
Found at i:4265825 original size:28 final size:28
Alignment explanation
Indices: 4265728--4265818 Score: 164
Period size: 28 Copynumber: 3.2 Consensus size: 28
4265718 ATTTTTTATA
4265728 TAATATAATATATAACTTAAACTAACAAAC
1 TAATAT-A-ATATAACTTAAACTAACAAAC
4265758 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
4265786 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
4265814 TAATA
1 TAATA
4265819 ATTTATACTA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
28 54 0.89
29 1 0.02
30 6 0.10
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:4265828 original size:21 final size:21
Alignment explanation
Indices: 4265795--4265843 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4265785 CTAATATAAT
4265795 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
4265816 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
4265837 ATTAACT
1 A-TAACT
4265844 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:4266475 original size:29 final size:29
Alignment explanation
Indices: 4266427--4266482 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4266417 CTGAGTCTCC
*
4266427 TTGGTCGCCCTGAGTGCATGGCAACCTCT
1 TTGGTCGCCCGGAGTGCATGGCAACCTCT
*
4266456 TTGGTCGCCCGGA-TGTCATGGCGACCT
1 TTGGTCGCCCGGAGTG-CATGGCAACCT
4266483 ACGGCTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.27
Consensus pattern (29 bp):
TTGGTCGCCCGGAGTGCATGGCAACCTCT
Found at i:4273264 original size:21 final size:21
Alignment explanation
Indices: 4273234--4273273 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4273224 TAGCTCAGTA
*
4273234 TTGTGTATTGTCATGTAAGCT
1 TTGTGAATTGTCATGTAAGCT
4273255 TTGTGAATTGTCATGTAAG
1 TTGTGAATTGTCATGTAAG
4273274 TATCGTGATG
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:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (21 bp):
TTGTGAATTGTCATGTAAGCT
Found at i:4273281 original size:21 final size:21
Alignment explanation
Indices: 4273230--4273281 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4273220 CAATTAGCTC
*
4273230 AGTATTGTGTATTGTCATGTA
1 AGTATTGTGAATTGTCATGTA
4273251 AGCT-TTGTGAATTGTCATGTA
1 AG-TATTGTGAATTGTCATGTA
*
4273272 AGTATCGTGA
1 AGTATTGTGA
4273282 TGATCAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (21 bp):
AGTATTGTGAATTGTCATGTA
Found at i:4273638 original size:27 final size:27
Alignment explanation
Indices: 4273607--4273658 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4273597 ATAACTCTCA
4273607 TAATA-AATTTATTTAAAAACTATTTTT
1 TAATATAA-TTATTTAAAAACTATTTTT
* *
4273634 TAATATAATTATTTGATAACTATTT
1 TAATATAATTATTTAAAAACTATTT
4273659 GTTCATCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
TAATATAATTATTTAAAAACTATTTTT
Found at i:4276324 original size:37 final size:37
Alignment explanation
Indices: 4276282--4276361 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
4276272 TGCTTAATGG
*
4276282 GATTAAGAC-CGTGGCATATTTTGTTTTTAATGTTTAA
1 GATTAAGACACGTGGCATA-TTTGTTTTTAATGGTTAA
* *
4276319 GATTAAGGCACGTGGCATATTTGTTTTTAATGGTTAG
1 GATTAAGACACGTGGCATATTTGTTTTTAATGGTTAA
4276356 GATTAA
1 GATTAA
4276362 ATCTCTTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 30 0.77
38 9 0.23
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (37 bp):
GATTAAGACACGTGGCATATTTGTTTTTAATGGTTAA
Found at i:4281215 original size:24 final size:23
Alignment explanation
Indices: 4281153--4281216 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
4281143 TCCCCTTGAA
4281153 GTGCATCGATGCATCC-T-ACCT
1 GTGCATCGATGCATCCTTAACCT
* *
4281174 -TGTATCGATGCATCCCTTAACGT
1 GTGCATCGATGCAT-CCTTAACCT
4281197 GTGCATCGATGCACTCCTTA
1 GTGCATCGATGCA-TCCTTA
4281217 TGTATCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 12 0.34
21 2 0.06
22 1 0.03
23 3 0.09
24 16 0.46
25 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACCT
Found at i:4283522 original size:21 final size:21
Alignment explanation
Indices: 4283493--4283535 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4283483 TTTTGGGTTG
4283493 TGTGCATCGATGCA-TCTTCAA
1 TGTGCATCGATGCACTC-TCAA
*
4283514 TGTGTATCGATGCACTCTCAA
1 TGTGCATCGATGCACTCTCAA
4283535 T
1 T
4283536 TAAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCACTCTCAA
Found at i:4290851 original size:21 final size:21
Alignment explanation
Indices: 4290825--4290868 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4290815 GATCGTTGCT
*
4290825 GATAAACAGTGGACTGATGGA
1 GATAAACAGTAGACTGATGGA
4290846 GATAAACAGTAGACTGATGGA
1 GATAAACAGTAGACTGATGGA
4290867 GA
1 GA
4290869 GAAAATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (21 bp):
GATAAACAGTAGACTGATGGA
Found at i:4291037 original size:20 final size:21
Alignment explanation
Indices: 4291014--4291052 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4291004 ATTATAATTT
4291014 AATAAT-GATTTTT-ATTAAAA
1 AATAATCG-TTTTTAATTAAAA
4291034 AATAATCGTTTTTAATTAA
1 AATAATCGTTTTTAATTAA
4291053 TTAATCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (21 bp):
AATAATCGTTTTTAATTAAAA
Found at i:4291081 original size:5 final size:5
Alignment explanation
Indices: 4291059--4291103 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
4291049 TTAATTAATC
* *
4291059 TTTAA TTCAA TTCAA TTTAA TTT-A -TTAA TTTAA TTTAA -TTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
4291104 CATGAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 27 0.77
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTAA
Found at i:4291163 original size:18 final size:18
Alignment explanation
Indices: 4291136--4291201 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
4291126 TATTATTATT
*
4291136 ATTATTAATTAAAATTAA
1 ATTATAAATTAAAATTAA
*
4291154 ATTATAAATTTGAAATT-A
1 ATTATAAA-TTAAAATTAA
* *
4291172 ATTATCAAAATAAAAATAA
1 ATTAT-AAATTAAAATTAA
*
4291191 ATTAAAAATTA
1 ATTATAAATTA
4291202 TAGAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTATAAATTAAAATTAA
Found at i:4291374 original size:119 final size:123
Alignment explanation
Indices: 4291250--4291483 Score: 320
Period size: 119 Copynumber: 1.9 Consensus size: 123
4291240 GGTAAAGTGC
* *
4291250 GGGGGGTTTTCACGAAATTTGATCATTTAAATT-AAA-AGAGTATGGG-GTGGG-TAGTGTAATT
1 GGGGGGTTCTCACGAAATTTGACCATTTAAATTAAAACAGAGTATGGGAG-GGGATAGTGTAATT
*
4291311 T-AGCATGTCTATTAAAACATATACATATGTTTG-CTAAAATCT-AAATGGGAGAAACTAT
65 TAAGCATGTCTATTAAAAC--AGACATATGTTTGTCTAAAATCTAAAATGGGAGAAACTAT
* *
4291369 GGGGGGTTCTCATGAGATTTGACCATTTAAATTAAAACAGAGTATGGGAGGGGATAGTGTAATTT
1 GGGGGGTTCTCACGAAATTTGACCATTTAAATTAAAACAGAGTATGGGAGGGGATAGTGTAATTT
* * *
4291434 AATCATGTCTATTAAAACAGACATGTGTTTGTCTAAAATTTAAAATGGGA
66 AAGCATGTCTATTAAAACAGACATATGTTTGTCTAAAATCTAAAATGGGA
4291484 CAAATAATGG
Statistics
Matches: 100, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
119 29 0.29
120 3 0.03
121 24 0.24
122 20 0.20
123 24 0.24
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (123 bp):
GGGGGGTTCTCACGAAATTTGACCATTTAAATTAAAACAGAGTATGGGAGGGGATAGTGTAATTT
AAGCATGTCTATTAAAACAGACATATGTTTGTCTAAAATCTAAAATGGGAGAAACTAT
Found at i:4291494 original size:123 final size:118
Alignment explanation
Indices: 4291250--4291495 Score: 309
Period size: 123 Copynumber: 2.0 Consensus size: 118
4291240 GGTAAAGTGC
* *
4291250 GGGGGGTTTTCACGAAATTTGATCATTTAAATTAAAAGAGTATGGGGTGGGTAGTGTAATTTAGC
1 GGGGGGTTCTCACGAAATTTGACCATTTAAATTAAAAGAGTATGGGGTGGGTAGTGTAATTTAGC
* *
4291315 ATGTCTATTAAAACATATACATATGTTTGCTAAAATCTAAATGGGAGAAACTAT
66 ATGTCTATTAAAACA-AGACATATGTTTGCTAAAATCTAAATGGGACAAACTAT
* *
4291369 GGGGGGTTCTCATGAGATTTGACCATTTAAATTAAAACAGAGTATGGGAG-GGGATAGTGTAATT
1 GGGGGGTTCTCACGAAATTTGACCATTTAAATT-AAA-AGAGTATGGG-GTGGG-TAGTGTAATT
* * *
4291433 TAATCATGTCTATTAAAAC-AGACATGTGTTTGTCTAAAATTTAAAATGGGACAAA-TAAT
62 T-AGCATGTCTATTAAAACAAGACATATGTTTG-CTAAAATCT-AAATGGGACAAACT-AT
4291492 GGGG
1 GGGG
4291496 TGGTGGGGGG
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
119 29 0.26
120 3 0.03
121 24 0.22
122 21 0.19
123 33 0.30
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (118 bp):
GGGGGGTTCTCACGAAATTTGACCATTTAAATTAAAAGAGTATGGGGTGGGTAGTGTAATTTAGC
ATGTCTATTAAAACAAGACATATGTTTGCTAAAATCTAAATGGGACAAACTAT
Found at i:4292439 original size:13 final size:13
Alignment explanation
Indices: 4292423--4292448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4292413 TCAAATTTTT
4292423 TGGGTGAATTATA
1 TGGGTGAATTATA
4292436 TGGGTGAATTATA
1 TGGGTGAATTATA
4292449 AGTTTAGTAC
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:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
TGGGTGAATTATA
Found at i:4293113 original size:21 final size:21
Alignment explanation
Indices: 4293089--4293147 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4293079 GTCCGAGTTA
4293089 TCCGCGACGGCCGCAATAGCG
1 TCCGCGACGGCCGCAATAGCG
** * *
4293110 TCCGCGACAACCACAATAGTG
1 TCCGCGACGGCCGCAATAGCG
* *
4293131 CCCGCGATGGCCGCAAT
1 TCCGCGACGGCCGCAAT
4293148 CACGGTAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.37, G:0.27, T:0.12
Consensus pattern (21 bp):
TCCGCGACGGCCGCAATAGCG
Found at i:4302090 original size:76 final size:75
Alignment explanation
Indices: 4301999--4302163 Score: 206
Period size: 76 Copynumber: 2.2 Consensus size: 75
4301989 TTAAACTCAA
* * *
4301999 ATTTAGTATAATATTTTAAACATTATAT-TTTATATTTGTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGAATATTATTTT-AACATTATATCTTTATATTTGTATTTTAATTTAAATAGG-TTTTAGT
4302063 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * * * * *
4302075 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAATTTAAATATGTTTTAGTAT
1 ATTTAGAATATTATTTTAACATTATATCTTTATATTTGTATTTTAATTTAAATAGGTTTTAGTAT
*
4302140 TTTAATTAGG
66 TTTAATTAAG
4302150 ATTTAGAATATTAT
1 ATTTAGAATATTAT
4302164 ATTATTTTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
75 37 0.49
76 39 0.51
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (75 bp):
ATTTAGAATATTATTTTAACATTATATCTTTATATTTGTATTTTAATTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:4303059 original size:15 final size:15
Alignment explanation
Indices: 4303039--4303072 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4303029 CCAGCAGAAA
*
4303039 AAGACGCACATCAGG
1 AAGACGCACACCAGG
4303054 AAGACGCACACCAGG
1 AAGACGCACACCAGG
4303069 AAGA
1 AAGA
4303073 ACAAGAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.26, T:0.03
Consensus pattern (15 bp):
AAGACGCACACCAGG
Found at i:4306993 original size:20 final size:20
Alignment explanation
Indices: 4306968--4307014 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4306958 CATTTCGTTA
4306968 TATTTTTGTTTT-TATTTTTT
1 TATTTTTGTTTTAT-TTTTTT
*
4306988 TATTTTCGTTTTATTTTTTT
1 TATTTTTGTTTTATTTTTTT
4307008 TATTTTT
1 TATTTTT
4307015 TAGAGATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (20 bp):
TATTTTTGTTTTATTTTTTT
Found at i:4308696 original size:76 final size:75
Alignment explanation
Indices: 4308615--4308762 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 75
4308605 TAAACTCAAA
* *
4308615 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATA-GCTTTTTAGT
1 TTTAGGATAATATTTT-AACATTATATCTTTATATGTGTATTTTAGTTTAAATATG--TTTTAGT
4308678 ATTTTAATTAAGT
63 ATTTTAATTAAGT
* * * * *
4308691 TTTAGGATATTATTTTTATATTTTATCTTTATATGTGTTTTTTAGTTTAAATATGTTTTAGTATT
1 TTTAGGATAATATTTTAACATTATATCTTTATATGTGTATTTTAGTTTAAATATGTTTTAGTATT
4308756 TTAATTA
66 TTAATTA
4308763 GGATTTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
75 24 0.38
76 38 0.60
77 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATCTTTATATGTGTATTTTAGTTTAAATATGTTTTAGTATT
TTAATTAAGT
Found at i:4308770 original size:35 final size:34
Alignment explanation
Indices: 4308731--4308834 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 34
4308721 ATATGTGTTT
4308731 TTTAGTTTAAATATGTTTTAGTATTTTAATTAGGA
1 TTTAGTTTAAATAT-TTTTAGTATTTTAATTAGGA
* * *
4308766 TTTAG----AATA-TTATATTATTTT-TTTAGGTA
1 TTTAGTTTAAATATTTTTAGTATTTTAATTAGG-A
* *
4308795 TTTTAGTTTAAATAATTTTAAGTGTTTTAATTAGGA
1 -TTTAGTTTAAAT-ATTTTTAGTATTTTAATTAGGA
4308831 TTTA
1 TTTA
4308835 AGATATTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
28 5 0.10
29 11 0.21
30 5 0.10
31 4 0.08
34 3 0.06
35 10 0.19
36 9 0.17
37 5 0.10
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (34 bp):
TTTAGTTTAAATATTTTTAGTATTTTAATTAGGA
Found at i:4308854 original size:65 final size:65
Alignment explanation
Indices: 4308730--4308855 Score: 159
Period size: 65 Copynumber: 1.9 Consensus size: 65
4308720 TATATGTGTT
* * *
4308730 TTTTAGTTTAAATATGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTATTTTTTTAGGTA
1 TTTTAGTTTAAATATGTTTAAGTATTTTAATTAGGATTTAGAATATTATACTATGTTTTTAGGTA
* *
4308795 TTTTAGTTTAAATAAT-TTTAAGTGTTTTAATTAGGATTTA-AGATATTTTAGCT-TGTTTTTA
1 TTTTAGTTTAAAT-ATGTTTAAGTATTTTAATTAGGATTTAGA-ATATTATA-CTATGTTTTTA
4308856 AGATTTTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
64 1 0.02
65 49 0.92
66 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (65 bp):
TTTTAGTTTAAATATGTTTAAGTATTTTAATTAGGATTTAGAATATTATACTATGTTTTTAGGTA
Found at i:4309437 original size:22 final size:19
Alignment explanation
Indices: 4309423--4309493 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
4309413 AATCTCTTTA
* *
4309423 ATTTATTTATTTAATTATTT
1 ATTTTTTTATTTAATT-CTT
*
4309443 TTTTCTTTTTATTTAATTCTT
1 ATTT-TT-TTATTTAATTCTT
4309464 ATTTTTTTATTTAATTCTT
1 ATTTTTTTATTTAATTCTT
4309483 A-TTTTTTATTT
1 ATTTTTTTATTT
4309494 TAACCACAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.22
19 14 0.31
20 5 0.11
21 6 0.13
22 10 0.22
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTTTTATTTAATTCTT
Found at i:4309467 original size:11 final size:11
Alignment explanation
Indices: 4309451--4309486 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4309441 TTTTTTCTTT
4309451 TTATTTAATTC
1 TTATTTAATTC
4309462 TTATTT--TT-
1 TTATTTAATTC
4309470 TTATTTAATTC
1 TTATTTAATTC
4309481 TTATTT
1 TTATTT
4309487 TTTATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.27
9 2 0.09
10 2 0.09
11 12 0.55
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTAATTC
Found at i:4309469 original size:18 final size:19
Alignment explanation
Indices: 4309448--4309493 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
4309438 TATTTTTTTC
4309448 TTTTTATTTAATTCTTATT
1 TTTTTATTTAATTCTTATT
4309467 TTTTTATTTAATTCTTA-T
1 TTTTTATTTAATTCTTATT
4309485 TTTTTATTT
1 TTTTTATTT
4309494 TAACCACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATTTAATTCTTATT
Found at i:4314101 original size:18 final size:18
Alignment explanation
Indices: 4314052--4314102 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4314042 CGATATTATC
*
4314052 TAATGGGAACGGGAACGG
1 TAATGGGAACGGAAACGG
* * *
4314070 GAACGGAAACGGAAACGG
1 TAATGGGAACGGAAACGG
*
4314088 TAATGGGAATGGAAA
1 TAATGGGAACGGAAA
4314103 TGCAGCGGTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.39, T:0.10
Consensus pattern (18 bp):
TAATGGGAACGGAAACGG
Found at i:4318231 original size:23 final size:23
Alignment explanation
Indices: 4318169--4318232 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
4318159 TGAATGATTT
* * *
4318169 CAGTGTTGATTGATTCAACAAAA
1 CAGTGCTGAATGATTCAGCAAAA
*
4318192 CAGTGCTGACTGATTCAGCAAAA
1 CAGTGCTGAATGATTCAGCAAAA
*
4318215 CAGTGCTGAATGTTTCAG
1 CAGTGCTGAATGATTCAG
4318233 TACAGAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
CAGTGCTGAATGATTCAGCAAAA
Found at i:4318290 original size:30 final size:30
Alignment explanation
Indices: 4318254--4318324 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
4318244 ATTCTGAATG
4318254 ATTCAGAGCTATTATCAAACAACATGTCAC
1 ATTCAGAGCTATTATCAAACAACATGTCAC
4318284 ATTCAGAGCTATTATCAAACAACATGTCAC
1 ATTCAGAGCTATTATCAAACAACATGTCAC
4318314 ATTCAGAGCTA
1 ATTCAGAGCTA
4318325 ATTCATACAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (30 bp):
ATTCAGAGCTATTATCAAACAACATGTCAC
Found at i:4325296 original size:17 final size:17
Alignment explanation
Indices: 4325274--4325312 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4325264 CAACAGTCAC
*
4325274 GGTCAACGGTTGGGTCG
1 GGTCAACGGTCGGGTCG
4325291 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4325308 GGTCA
1 GGTCA
4325313 GGTCAGACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.46, T:0.21
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:4325337 original size:19 final size:19
Alignment explanation
Indices: 4325315--4325392 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
4325305 TCGGGTCAGG
*
4325315 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGGT
* *
4325334 TCAGACCGGTCAGACTGGT
1 TCAGACCGGTCAAACCGGT
4325353 TC-GAACCGGTCGAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
*
4325372 TCAAAACCGGTCAAACCGGT
1 TC-AGACCGGTCAAACCGGT
4325392 T
1 T
4325393 TTCCAGCTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 34 0.71
20 13 0.27
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:4325371 original size:10 final size:9
Alignment explanation
Indices: 4325313--4325391 Score: 68
Period size: 10 Copynumber: 8.3 Consensus size: 9
4325303 GGTCGGGTCA
*
4325313 GGTCAGACC
1 GGTCAAACC
*
4325322 GGTCAAATC
1 GGTCAAACC
*
4325331 GGTTCAGACC
1 GG-TCAAACC
* *
4325341 GGTCAGACT
1 GGTCAAACC
*
4325350 GGTTCGAACC
1 GG-TCAAACC
4325360 GGTCGAAACC
1 GGTC-AAACC
4325370 GGTCAAAACC
1 GGTC-AAACC
4325380 GGTCAAACC
1 GGTCAAACC
4325389 GGT
1 GGT
4325392 TTTCCAGCTG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
9 27 0.47
10 30 0.53
ACGTcount: A:0.27, C:0.28, G:0.29, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4332624 original size:9 final size:9
Alignment explanation
Indices: 4332606--4332664 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
4332596 GGTCGGGTCG
*
4332606 GGTCAGACC
1 GGTCAAACC
4332615 GGTCAAACC
1 GGTCAAACC
*
4332624 GGTTCAGACC
1 GG-TCAAACC
*
4332634 GGTCAGACC
1 GGTCAAACC
* *
4332643 GATTCGAACC
1 G-GTCAAACC
4332653 GGTCAAACC
1 GGTCAAACC
4332662 GGT
1 GGT
4332665 TTTCCAGCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.25, C:0.31, G:0.29, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4332630 original size:19 final size:19
Alignment explanation
Indices: 4332608--4332665 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
4332598 TCGGGTCGGG
4332608 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
4332627 TCAGACCGGTCAGACCGAT
1 TCAGACCGGTCAAACCGGT
4332646 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
4332665 T
1 T
4332666 TTCCAGCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 1 0.03
19 33 0.97
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:4334720 original size:14 final size:14
Alignment explanation
Indices: 4334703--4334731 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4334693 ATTAATTTCG
4334703 AGTTATTCGAGTTA
1 AGTTATTCGAGTTA
4334717 AGTTATTCGAGTTA
1 AGTTATTCGAGTTA
4334731 A
1 A
4334732 CTTGAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
AGTTATTCGAGTTA
Found at i:4335623 original size:41 final size:41
Alignment explanation
Indices: 4335573--4335651 Score: 142
Period size: 41 Copynumber: 1.9 Consensus size: 41
4335563 TCGAATCTCA
4335573 TGTTTGTTTCATGTAATTCCTTTT-TCGGAAAATATTTTTTG
1 TGTTTGTTTCATGTAATTCCTTTTCT-GGAAAATATTTTTTG
4335614 TGTTTGTTTCATGTAATTCCTTTTCTGGAAAATATTTT
1 TGTTTGTTTCATGTAATTCCTTTTCTGGAAAATATTTT
4335652 CCCGGTCACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (41 bp):
TGTTTGTTTCATGTAATTCCTTTTCTGGAAAATATTTTTTG
Found at i:4335867 original size:23 final size:23
Alignment explanation
Indices: 4335838--4335890 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4335828 TAGATTTTTA
*
4335838 ATATTATAATAAAATATTCA-ATT
1 ATATTATAATAAAATAAT-ATATT
*
4335861 ATATTATAATAATATAATATATT
1 ATATTATAATAAAATAATATATT
4335884 ATATTAT
1 ATATTAT
4335891 TATTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTATAATAAAATAATATATT
Found at i:4335928 original size:30 final size:30
Alignment explanation
Indices: 4335872--4335995 Score: 100
Period size: 30 Copynumber: 4.1 Consensus size: 30
4335862 TATTATAATA
4335872 ATATAATATATTATATTAT-TATTTTAATAAAT
1 ATATAATA-ATTAT-TTATATA-TTTAATAAAT
4335904 ATATAATAAATT-TTTATATATTTAAT-AAT
1 ATATAAT-AATTATTTATATATTTAATAAAT
*
4335933 GA-ATAAT-ATTATTTATATATTTAAT-ATT
1 -ATATAATAATTATTTATATATTTAATAAAT
* * *
4335961 AATATAATAATATAATAATAT-TTTAATAAAG
1 -ATATAATAAT-TATTTATATATTTAATAAAT
4335992 ATAT
1 ATAT
4335996 TTAAAATATA
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
27 3 0.04
28 17 0.22
29 13 0.17
30 23 0.29
31 11 0.14
32 10 0.13
33 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
ATATAATAATTATTTATATATTTAATAAAT
Found at i:4335986 original size:58 final size:60
Alignment explanation
Indices: 4335815--4335989 Score: 159
Period size: 58 Copynumber: 3.0 Consensus size: 60
4335805 ATATTCAAAT
* * * * *
4335815 AATAATATAATATTAGATTTTTAATATT-ATAATAA-AATATTCAATTATATTATAATAATAT
1 AATAATATTATATTATATATTTAATATTAAT-ATAATAATA-T-AATTATATTTTAATAATAG
* **
4335876 AAT-ATATTATATTAT-TATTTTAATA-AATATATAATAA-ATTTTTATATATTTAATAAT-G
1 AATAATATTATATTATATA-TTTAATATTA-ATATAATAATATAATTATAT-TTTAATAATAG
*
4335934 AATAATATTAT-TTATATATTTAATATTAATATAATAATATAATAATATTTTAATAA
1 AATAATATTATATTATATATTTAATATTAATATAATAATATAATTATATTTTAATAA
4335990 AGATATTTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
58 37 0.40
59 27 0.29
60 22 0.24
61 7 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (60 bp):
AATAATATTATATTATATATTTAATATTAATATAATAATATAATTATATTTTAATAATAG
Found at i:4336010 original size:23 final size:23
Alignment explanation
Indices: 4335984--4336028 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4335974 AATAATATTT
4335984 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
4336007 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
4336029 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:4336366 original size:14 final size:14
Alignment explanation
Indices: 4336332--4336372 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4336322 AAATGTAATT
*
4336332 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
4336346 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
* *
4336360 CGTTTTCCAGAAA
1 CATTTTCCGGAAA
4336373 TGTAATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:4336399 original size:20 final size:20
Alignment explanation
Indices: 4336362--4336400 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4336352 CCGGAAAACG
**
4336362 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
4336382 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
4336401 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:4336416 original size:29 final size:30
Alignment explanation
Indices: 4336374--4336454 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 30
4336364 TTCCAGAAAT
4336374 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
4336403 GTAATTCATTTTCCAGTAATTCAAATTTCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
*
4336433 GT-ATTCAAATTT-CAGTAATTCA
1 GTAATTC-ATTTTCCAGTAATTCA
4336455 TTTTTCAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 30 0.62
30 18 0.38
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:4336439 original size:44 final size:44
Alignment explanation
Indices: 4336374--4336458 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
4336364 TTCCAGAAAT
*
4336374 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAATTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
* *
4336418 GTAATTCAAATTT-CAGTATTCAAATTTCAGTAATTCATTTT
1 GTAATTC-AATTTCCAGAATTCAAATTCCAGTAATTCATTTT
4336459 TCAGAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 33 0.89
45 4 0.11
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (44 bp):
GTAATTCAATTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:4336462 original size:15 final size:15
Alignment explanation
Indices: 4336374--4336454 Score: 94
Period size: 15 Copynumber: 5.5 Consensus size: 15
4336364 TTCCAGAAAT
**
4336374 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
4336389 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
4336403 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
4336418 GTAATTCAAATTTCA
1 GTAATTCAAATTCCA
*
4336433 GT-ATTCAAATTTCA
1 GTAATTCAAATTCCA
4336447 GTAATTCA
1 GTAATTCA
4336455 TTTTTCAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
14 26 0.46
15 31 0.54
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:4339542 original size:13 final size:13
Alignment explanation
Indices: 4339494--4339541 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
4339484 CTTGTATTTA
4339494 GTACTTTTTTATT
1 GTACTTTTTTATT
* *
4339507 GTAGTTGTTTATT
1 GTACTTTTTTATT
*
4339520 GAACTTTTTTATT
1 GTACTTTTTTATT
4339533 GTA-TTTTTT
1 GTACTTTTTT
4339542 TTATTATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.17, C:0.04, G:0.12, T:0.67
Consensus pattern (13 bp):
GTACTTTTTTATT
Found at i:4344156 original size:97 final size:98
Alignment explanation
Indices: 4343990--4344184 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
4343980 AAAATGGGTT
4343990 CATAGAGCTTAACGCCAAAAATGGAGGAGAAGTGACTTTTGGTGATAATTCAAAAGGTCACATCG
1 CATAGAGCTTAACGCCAAAAATGGAGGAGAAGTGACTTTTGGTGATAATTCAAAAGGTCACATCG
4344055 AAGGTATATGTACTATAGGT-ATACCTCATAAA
66 AAGGTATATGTACTATAGGTAATACCTCATAAA
4344087 CATAGAGCTTAACGCCAAAAATGGAGGAGAAGTGACTTTTGGTGATAATTCAAAAGGTCACATCG
1 CATAGAGCTTAACGCCAAAAATGGAGGAGAAGTGACTTTTGGTGATAATTCAAAAGGTCACATCG
4344152 AAGGTATATGTACTATAGGTAATACCTCATAAA
66 AAGGTATATGTACTATAGGTAATACCTCATAAA
4344185 TTAAAAATGT
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 85 0.88
98 12 0.12
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (98 bp):
CATAGAGCTTAACGCCAAAAATGGAGGAGAAGTGACTTTTGGTGATAATTCAAAAGGTCACATCG
AAGGTATATGTACTATAGGTAATACCTCATAAA
Found at i:4348228 original size:130 final size:130
Alignment explanation
Indices: 4347995--4348254 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
4347985 ATGATTTATC
4347995 TAGAAATAAATCCTAAAAGTTGTTAGTAATTATTAAAGGAATTAAAGGGCAAAATGGTCTTTTTA
1 TAGAAATAAATCCTAAAAGTTGTTAGTAATTATTAAAGGAATTAAAGGGCAAAATGGTCTTTTTA
4348060 TCTAAAAGATAATTATCTTATCTCTTTATTAAGAGATAAGCATGTAGGGAGATATTTGTCCAGAA
66 TCTAAAAGATAATTATCTTATCTCTTTATTAAGAGATAAGCATGTAGGGAGATATTTGTCCAGAA
4348125 TAGAAATAAATCCTAAAAGTTGTTAGTAATTATTAAAGGAATTAAAGGGCAAAATGGTCTTTTTA
1 TAGAAATAAATCCTAAAAGTTGTTAGTAATTATTAAAGGAATTAAAGGGCAAAATGGTCTTTTTA
4348190 TCTAAAAGATAATTATCTTATCTCTTTATTAAGAGATAAGCATGTAGGGAGATATTTGTCCAGAA
66 TCTAAAAGATAATTATCTTATCTCTTTATTAAGAGATAAGCATGTAGGGAGATATTTGTCCAGAA
4348255 CTTCTTCTCC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (130 bp):
TAGAAATAAATCCTAAAAGTTGTTAGTAATTATTAAAGGAATTAAAGGGCAAAATGGTCTTTTTA
TCTAAAAGATAATTATCTTATCTCTTTATTAAGAGATAAGCATGTAGGGAGATATTTGTCCAGAA
Found at i:4348918 original size:64 final size:62
Alignment explanation
Indices: 4348843--4348962 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 62
4348833 ACTCTTTTAA
* **
4348843 AATAAAAACATCGAATGCAATTGT-TGCATTGATGCATAAGGAGTGCATCGATGCATCCCAGC
1 AATAAAAACATCGAATAC-ATTGTATGCACCGATGCATAAGGAGTGCATCGATGCATCCCAGC
* * * *
4348905 AATAATAATACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 AATAA-AA-ACATCGAATACATTGTATGCACCGATGCATAAGGAGTGCATCGATGCAT
4348963 ACCTTCATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 5 0.10
63 5 0.10
64 38 0.79
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (62 bp):
AATAAAAACATCGAATACATTGTATGCACCGATGCATAAGGAGTGCATCGATGCATCCCAGC
Found at i:4349460 original size:15 final size:15
Alignment explanation
Indices: 4349442--4349471 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4349432 GTATTATAGT
4349442 CCTTCGGGATGTAGG
1 CCTTCGGGATGTAGG
4349457 CCTTCGGGATGTAGG
1 CCTTCGGGATGTAGG
4349472 GGTCCTACGG
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:0.20, G:0.40, T:0.27
Consensus pattern (15 bp):
CCTTCGGGATGTAGG
Found at i:4355631 original size:63 final size:61
Alignment explanation
Indices: 4355488--4355641 Score: 159
Period size: 63 Copynumber: 2.4 Consensus size: 61
4355478 GAAGGTGTAT
** * *
4355488 CGATGCATTGGTAGTGCATCGATGCACTCTTTTAAAATAAAAACATCGAATACAATTAGTGCAT
1 CGATGCATAAGTAGTGCATCGATGCA-TC--TCAAAATAAAAACATCGAATACAATTAGTGCAC
* **
4355552 CGATGCATAAGGAGTGCATCGATGCATC-CAACAATAATAATACATCGAATACCTTTTA-TGCAC
1 CGATGCATAAGTAGTGCATCGATGCATCTCAA-AATAA-AA-ACATCGAATA-CAATTAGTGCAC
*
4355615 CGATGCATCAGTAGTGCATCGATGCAT
1 CGATGCATAAGTAGTGCATCGATGCAT
4355642 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
60 2 0.03
61 5 0.06
62 2 0.03
63 41 0.53
64 27 0.35
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (61 bp):
CGATGCATAAGTAGTGCATCGATGCATCTCAAAATAAAAACATCGAATACAATTAGTGCAC
Found at i:4355967 original size:12 final size:12
Alignment explanation
Indices: 4355949--4355984 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4355939 TATATATGTT
4355949 CATGTGATATGA
1 CATGTGATATGA
*
4355961 TATGTGATATGA
1 CATGTGATATGA
4355973 CATGTGATATGA
1 CATGTGATATGA
4355985 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:4356006 original size:23 final size:26
Alignment explanation
Indices: 4355949--4356017 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
4355939 TATATATGTT
**
4355949 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
4355973 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
4355998 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
4356018 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:4356147 original size:15 final size:15
Alignment explanation
Indices: 4356129--4356161 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4356119 GAGGGTATAA
4356129 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4356144 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
4356159 TAG
1 TAG
4356162 GGGTCTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:4357795 original size:21 final size:21
Alignment explanation
Indices: 4357753--4357796 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4357743 ACCCCGGGAG
*
4357753 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
4357774 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
4357795 CT
1 CT
4357797 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:4358965 original size:65 final size:63
Alignment explanation
Indices: 4358896--4359055 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 63
4358886 AATTAAATTG
* *
4358896 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGTACTGAGGATT-TTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTGAGG-TTATTATG-
4358960 A
63 A
* * * ** *
4358961 AACATCAAATGCATTTGATGCATCGATGCACCAACCATGCATCGATGCATTTTGGTTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTGAGGTTATTATGA
* *
4359025 AACATCGAATGCACTTGATGCATCTATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
4359056 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.37
65 49 0.60
66 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTGAGGTTATTATGA
Found at i:4362235 original size:31 final size:31
Alignment explanation
Indices: 4362197--4362292 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
4362187 GAACCTCGGC
**
4362197 AACTGTCCATAGGTCCCGACTAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
4362228 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
* *
4362259 AACTATCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
4362290 AAC
1 AAC
4362293 CCTCGACTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACCTAGGTA
Done.