Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000188.1 Hibiscus syriacus cultivar Beakdansim tig00000337_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: 131815
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:16365 original size:3 final size:3
Alignment explanation
Indices: 16357--16422 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
16347 GATCCATACA
* *
16357 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16405 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
16423 TACTTTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18379 original size:20 final size:21
Alignment explanation
Indices: 18333--18412 Score: 99
Period size: 21 Copynumber: 3.9 Consensus size: 21
18323 CAGATTGCCC
18333 AGGGGGTACAGATTCCCCCCT
1 AGGGGGTACAGATTCCCCCCT
* *
18354 ATGGGGTACCGATTCCCCCCT
1 AGGGGGTACAGATTCCCCCCT
* * *
18375 A-GGGGAACAAATTCCCCCCC
1 AGGGGGTACAGATTCCCCCCT
*
18395 AGGGGGTACCGATTCCCC
1 AGGGGGTACAGATTCCCC
18413 TTATCTAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.33
21 33 0.67
ACGTcount: A:0.20, C:0.36, G:0.26, T:0.17
Consensus pattern (21 bp):
AGGGGGTACAGATTCCCCCCT
Found at i:18391 original size:41 final size:41
Alignment explanation
Indices: 18335--18412 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
18325 GATTGCCCAG
* * * *
18335 GGGGTACAGATTCCCCCCTATGGGGTACCGATTCCCCCCTA
1 GGGGAACAAATTCCCCCCCAGGGGGTACCGATTCCCCCCTA
18376 GGGGAACAAATTCCCCCCCAGGGGGTACCGATTCCCC
1 GGGGAACAAATTCCCCCCCAGGGGGTACCGATTCCCC
18413 TTATCTAACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.37, G:0.26, T:0.18
Consensus pattern (41 bp):
GGGGAACAAATTCCCCCCCAGGGGGTACCGATTCCCCCCTA
Found at i:19715 original size:19 final size:20
Alignment explanation
Indices: 19691--19738 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
19681 AACGATTTTC
*
19691 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATAAAA
* *
19710 TTTTGAAAGCCAAAATAAAA
1 TTTTGAAAACAAAAATAAAA
19730 TTTTGAAAA
1 TTTTGAAAA
19739 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATAAAA
Found at i:21169 original size:42 final size:40
Alignment explanation
Indices: 21116--21236 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 40
21106 AGATTGCCCA
* * *
21116 GGGGGTACAGATTCCCCCACATGGGGTATAGATTCCCCCACAT
1 GGGGGAACAGATTCCCCC-CAGGGGGTATCGATTCCCCC-C-T
* *
21159 -GGGGAACAGATTCCCCCTAGGGGGTACCGATTCCCCCCT
1 GGGGGAACAGATTCCCCCCAGGGGGTATCGATTCCCCCCT
21198 GGGGGAACAGATTCCCCCCCCAGGGGGTATCGATTCCCC
1 GGGGGAACAGATT--CCCCCCAGGGGGTATCGATTCCCC
21237 TTGTCTAACG
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 13 0.19
41 16 0.24
42 38 0.56
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (40 bp):
GGGGGAACAGATTCCCCCCAGGGGGTATCGATTCCCCCCT
Found at i:21182 original size:20 final size:21
Alignment explanation
Indices: 21114--21236 Score: 126
Period size: 21 Copynumber: 5.9 Consensus size: 21
21104 TCAGATTGCC
21114 CAGGGGGTACAGATTCCCCCA
1 CAGGGGGTACAGATTCCCCCA
* *
21135 CATGGGGTATAGATTCCCCCA
1 CAGGGGGTACAGATTCCCCCA
* *
21156 CATGGGGAACAGATTCCCCC-
1 CAGGGGGTACAGATTCCCCCA
* *
21176 TAGGGGGTACCGATTCCCCC-
1 CAGGGGGTACAGATTCCCCCA
* * *
21196 CTGGGGGAACAGATTCCCCCCC
1 CAGGGGGTACAGATT-CCCCCA
21218 CAGGGGGTATC-GATTCCCC
1 CAGGGGGTA-CAGATTCCCC
21237 TTGTCTAACG
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
20 27 0.32
21 46 0.54
22 11 0.13
23 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (21 bp):
CAGGGGGTACAGATTCCCCCA
Found at i:22569 original size:19 final size:21
Alignment explanation
Indices: 22531--22571 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22521 TCCTTGCTTA
22531 TTCATCTTTATTATTGATTTT
1 TTCATCTTTATTATTGATTTT
*
22552 TTCATTTTTA-TA-TGATTTT
1 TTCATCTTTATTATTGATTTT
22571 T
1 T
22572 GTGCAGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (21 bp):
TTCATCTTTATTATTGATTTT
Found at i:25033 original size:10 final size:10
Alignment explanation
Indices: 25018--25046 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25008 TTGTTTGTTG
25018 AATTATATTA
1 AATTATATTA
25028 AATTATATTA
1 AATTATATTA
25038 AATT-TATTA
1 AATTATATTA
25047 TATGTCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTATATTA
Found at i:25313 original size:35 final size:36
Alignment explanation
Indices: 25249--25325 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 36
25239 TTTGTTGAAT
*
25249 TTATATTATATAAAAAATATAGTTTATTAGTTTTAG
1 TTATATTATATAAAAAATATAGTTTATTAGTTTAAG
25285 TTATATTATA-ATAAAAA-ATAGTTTATTAGTTTAAG
1 TTATATTATATA-AAAAATATAGTTTATTAGTTTAAG
25320 TTATAT
1 TTATAT
25326 GAAAGAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 24 0.62
36 15 0.38
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (36 bp):
TTATATTATATAAAAAATATAGTTTATTAGTTTAAG
Found at i:28080 original size:22 final size:22
Alignment explanation
Indices: 28055--28096 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
28045 TAAAAAGAAA
28055 AAATTCGACTATTTATAAATAT
1 AAATTCGACTATTTATAAATAT
*
28077 AAATTTGACTATTTATAAAT
1 AAATTCGACTATTTATAAAT
28097 TCAAGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTCGACTATTTATAAATAT
Found at i:28237 original size:24 final size:24
Alignment explanation
Indices: 28148--28239 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
28138 TTTGAATATT
* *
28148 TAATCATTATTAATTAATTATTAG
1 TAATCATTATTAAATCATTATTAG
*
28172 TAATCATTATTAAATTATTATTAG
1 TAATCATTATTAAATCATTATTAG
* *
28196 TAATTATTA-TAATTTCATTATTAG
1 TAATCATTATTAA-ATCATTATTAG
*
28220 TAATCATTACTAAATCATTA
1 TAATCATTATTAAATCATTA
28240 GTATCAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.05
24 53 0.90
25 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:28665 original size:12 final size:12
Alignment explanation
Indices: 28648--28686 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
28638 ACTACGACTA
28648 GAAAGCTAAGTT
1 GAAAGCTAAGTT
28660 GAAAGCTAAGTT
1 GAAAGCTAAGTT
*
28672 GAAAGCTAAATT
1 GAAAGCTAAGTT
28684 GAA
1 GAA
28687 TGAAACAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (12 bp):
GAAAGCTAAGTT
Found at i:28750 original size:61 final size:64
Alignment explanation
Indices: 28682--28818 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 64
28672 GAAAGCTAAA
*
28682 TTGAATGAAACAATG-TT-T-CCTTTATTTTAGGTAGTCAGATGTGATAGATCAGAAATAATTG
1 TTGAATGAAACAATGTTTGTCCCTTTATTTTAGGAAGTCAGATGTGATAGATCAGAAATAATTG
*
28743 TTGAATGAAACAATGTTTGTCGCCCTTTATTTTAGGAAGTCGGATGTGATAGATCAGAAATAATT
1 TTGAATGAAACAATGTTTGT--CCCTTTATTTTAGGAAGTCAGATGTGATAGATCAGAAATAATT
28808 G
64 G
28809 TTGAATGAAA
1 TTGAATGAAA
28819 GCCACATGTT
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
61 15 0.22
62 2 0.03
63 1 0.01
66 51 0.74
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (64 bp):
TTGAATGAAACAATGTTTGTCCCTTTATTTTAGGAAGTCAGATGTGATAGATCAGAAATAATTG
Found at i:28903 original size:16 final size:17
Alignment explanation
Indices: 28884--28923 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
28874 GACTATTTAT
*
28884 AAATAATAATAAGAT-A
1 AAATAATAATAAAATAA
*
28900 AAATAAAAATAAAATAA
1 AAATAATAATAAAATAA
28917 AAATAAT
1 AAATAAT
28924 TCAATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAATAATAAAATAA
Found at i:28911 original size:11 final size:11
Alignment explanation
Indices: 28884--28922 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
28874 GACTATTTAT
28884 AAATAATAAT-A
1 AAATAA-AATAA
*
28895 AGATAAAATAA
1 AAATAAAATAA
28906 AAATAAAATAA
1 AAATAAAATAA
28917 AAATAA
1 AAATAA
28923 TTCAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 3 0.12
11 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:30193 original size:30 final size:30
Alignment explanation
Indices: 30150--30208 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
30140 CTAACTTTTT
*
30150 AAAATTAAACTTTTGGTACCTAAACATTTG
1 AAAATTAAACTTTTGATACCTAAACATTTG
** * *
30180 AAAATTACCCTTTTGATCCCTAAATATTT
1 AAAATTAAACTTTTGATACCTAAACATTT
30209 CCATACATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (30 bp):
AAAATTAAACTTTTGATACCTAAACATTTG
Found at i:31211 original size:18 final size:18
Alignment explanation
Indices: 31190--31224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31180 AAATAATTTT
*
31190 TAAAATAATTTTTTTTAC
1 TAAAATAATTTTGTTTAC
*
31208 TAAAGTAATTTTGTTTA
1 TAAAATAATTTTGTTTA
31225 GTTCGTATGA
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:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
TAAAATAATTTTGTTTAC
Found at i:39121 original size:29 final size:29
Alignment explanation
Indices: 39079--39137 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
39069 ATTTTCACCT
39079 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
39108 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
39137 A
1 A
39138 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:42408 original size:24 final size:24
Alignment explanation
Indices: 42376--42421 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
42366 AAGTGGACAT
*
42376 TGCTCCAAGTTCAAACGGTGTGAC
1 TGCTCCAAGTCCAAACGGTGTGAC
*
42400 TGCTCCAAGTCCAAGCGGTGTG
1 TGCTCCAAGTCCAAACGGTGTG
42422 GCTCCCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (24 bp):
TGCTCCAAGTCCAAACGGTGTGAC
Found at i:42984 original size:30 final size:30
Alignment explanation
Indices: 42904--42984 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
42894 GTGTCTTCCA
**
42904 CATGCGCATTA-CTACCAACTGGTTCGGTCC
1 CATGCGCATTATC-ACCATGTGGTTCGGTCC
42934 CATGCGCATTATCACCATGTGGTTCGGTCC
1 CATGCGCATTATCACCATGTGGTTCGGTCC
*
42964 CATGCGCATTATCACTATGTG
1 CATGCGCATTATCACCATGTG
42985 CATTATCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 46 0.98
31 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.30
Consensus pattern (30 bp):
CATGCGCATTATCACCATGTGGTTCGGTCC
Found at i:42989 original size:15 final size:15
Alignment explanation
Indices: 42969--42997 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42959 GGTCCCATGC
42969 GCATTATCACTATGT
1 GCATTATCACTATGT
42984 GCATTATCACTATG
1 GCATTATCACTATG
42998 CATATCACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
GCATTATCACTATGT
Found at i:43005 original size:12 final size:14
Alignment explanation
Indices: 42969--43005 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
42959 GGTCCCATGC
42969 GCATTATCACTATGT
1 GCATTATCACTA-GT
42984 GCATTATCACTA-T
1 GCATTATCACTAGT
42997 GCA-TATCAC
1 GCATTATCAC
43006 CTCGTATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
15 12 0.55
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (14 bp):
GCATTATCACTAGT
Found at i:46579 original size:61 final size:64
Alignment explanation
Indices: 46511--46630 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 64
46501 TAATATGGAA
*
46511 ATGACACATAACGTCATGCCCACCACCTACA-CTAG-GT-TTACACTCTAGTGCTGATTCAGAT
1 ATGACACATAACGTCATGCCCACCACCTACACCTAGTGTCTTACACACTAGTGCTGATTCAGAT
* ** *
46572 ATGACACATAAGGTTGTGCCCACCACCTACACCTAGTGTCCTTACACACTAGTGTTGAT
1 ATGACACATAACGTCATGCCCACCACCTACACCTAGTGT-CTTACACACTAGTGCTGAT
46631 ATAAACCTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 28 0.56
62 4 0.08
63 2 0.04
65 16 0.32
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (64 bp):
ATGACACATAACGTCATGCCCACCACCTACACCTAGTGTCTTACACACTAGTGCTGATTCAGAT
Found at i:50962 original size:29 final size:31
Alignment explanation
Indices: 50897--50966 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
50887 GAAAATTACC
* * * *
50897 ACTTAGGTCATTAAACTTTTCCCAATTTTCT
1 ACTTTGGTCATCAAACTTTTCCAAATTTTAT
50928 ACTTTGGTCATCAAAC-TTT-CAAATTTTAT
1 ACTTTGGTCATCAAACTTTTCCAAATTTTAT
*
50957 ATTTTGGTCA
1 ACTTTGGTCA
50967 CTAACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 17 0.50
30 3 0.09
31 14 0.41
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.46
Consensus pattern (31 bp):
ACTTTGGTCATCAAACTTTTCCAAATTTTAT
Found at i:63826 original size:8 final size:8
Alignment explanation
Indices: 63813--63852 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
63803 TTGTAACTAT
63813 TGAAATTA
1 TGAAATTA
63821 TGAAATTA
1 TGAAATTA
*
63829 TGAAATAA
1 TGAAATTA
63837 TGAAATTA
1 TGAAATTA
63845 TGAAATTA
1 TGAAATTA
63853 CGATAAGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (8 bp):
TGAAATTA
Found at i:70483 original size:2 final size:2
Alignment explanation
Indices: 70476--70509 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70466 TCAGATATGT
70476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70510 GTAATTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74091 original size:13 final size:13
Alignment explanation
Indices: 74073--74149 Score: 64
Period size: 13 Copynumber: 5.3 Consensus size: 13
74063 GTCACGACCC
74073 GACCCGACCCGTT
1 GACCCGACCCGTT
74086 GACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
74103 TACCCGACCCGTT
1 GACCCGACCCGTT
74116 GACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
74133 GACTCGACCCGTT
1 GACCCGACCCGTT
74146 GACC
1 GACC
74150 TGTTGATCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
13 25 0.48
15 4 0.08
17 23 0.44
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:74098 original size:17 final size:17
Alignment explanation
Indices: 74068--74141 Score: 93
Period size: 17 Copynumber: 4.5 Consensus size: 17
74058 GACCGGTCAC
74068 GACCCGACCCGACCCGTT
1 GACCCGA-CCGACCCGTT
74086 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
*
74103 TA--C--CCGACCCGTT
1 GACCCGACCGACCCGTT
74116 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
*
74133 GACTCGACC
1 GACCCGACC
74142 CGTTGACCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.22
15 2 0.04
17 29 0.59
18 7 0.14
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.14
Consensus pattern (17 bp):
GACCCGACCGACCCGTT
Found at i:74110 original size:30 final size:30
Alignment explanation
Indices: 74073--74149 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
74063 GTCACGACCC
74073 GACCCGACCCGTTGACCCGACCGACCCGTT
1 GACCCGACCCGTTGACCCGACCGACCCGTT
*
74103 TACCCGACCCGTTGACCCGACCGACCCGTT
1 GACCCGACCCGTTGACCCGACCGACCCGTT
*
74133 GACTCGACCCGTTGACC
1 GACCCGACCCGTTGACC
74150 TGTTGATCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.16
Consensus pattern (30 bp):
GACCCGACCCGTTGACCCGACCGACCCGTT
Found at i:76750 original size:24 final size:24
Alignment explanation
Indices: 76656--76755 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
76646 ATATTTTATC
* *
76656 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
76680 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
76704 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
76728 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
76752 TGAT
1 TGAT
76756 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:78851 original size:13 final size:13
Alignment explanation
Indices: 78833--78909 Score: 64
Period size: 13 Copynumber: 5.3 Consensus size: 13
78823 GTCACGACCC
78833 GACCCGACCCGTT
1 GACCCGACCCGTT
78846 GACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
78863 TACCCGACCCGTT
1 GACCCGACCCGTT
78876 GACCCGACCGACCCGTT
1 GA--C--CCGACCCGTT
*
78893 GACTCGACCCGTT
1 GACCCGACCCGTT
78906 GACC
1 GACC
78910 TGTTGATCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
13 25 0.48
15 4 0.08
17 23 0.44
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:78858 original size:17 final size:17
Alignment explanation
Indices: 78828--78901 Score: 93
Period size: 17 Copynumber: 4.5 Consensus size: 17
78818 GACCGGTCAC
78828 GACCCGACCCGACCCGTT
1 GACCCGA-CCGACCCGTT
78846 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
*
78863 TA--C--CCGACCCGTT
1 GACCCGACCGACCCGTT
78876 GACCCGACCGACCCGTT
1 GACCCGACCGACCCGTT
*
78893 GACTCGACC
1 GACCCGACC
78902 CGTTGACCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
13 11 0.22
15 2 0.04
17 29 0.59
18 7 0.14
ACGTcount: A:0.18, C:0.47, G:0.22, T:0.14
Consensus pattern (17 bp):
GACCCGACCGACCCGTT
Found at i:78870 original size:30 final size:30
Alignment explanation
Indices: 78833--78909 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 30
78823 GTCACGACCC
78833 GACCCGACCCGTTGACCCGACCGACCCGTT
1 GACCCGACCCGTTGACCCGACCGACCCGTT
*
78863 TACCCGACCCGTTGACCCGACCGACCCGTT
1 GACCCGACCCGTTGACCCGACCGACCCGTT
*
78893 GACTCGACCCGTTGACC
1 GACCCGACCCGTTGACC
78910 TGTTGATCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.16
Consensus pattern (30 bp):
GACCCGACCCGTTGACCCGACCGACCCGTT
Found at i:81505 original size:24 final size:24
Alignment explanation
Indices: 81411--81510 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
81401 ATATTTTATC
* *
81411 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * * *
81435 TGACATCTGATCTGAAATCTATTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
81459 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
81483 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
81507 TGAT
1 TGAT
81511 TTTTGATATC
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
23 1 0.02
24 54 0.96
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:83595 original size:21 final size:21
Alignment explanation
Indices: 83571--83659 Score: 126
Period size: 21 Copynumber: 4.2 Consensus size: 21
83561 AATATGTAAA
83571 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
*
83592 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
* *
83613 TCGCGTTGCGATTTTCTGAAT
1 TCGCATTGCGATTTTCCGAAT
*
83634 TCG-AGTTGCGATTTTCTGAAT
1 TCGCA-TTGCGATTTTCCGAAT
83655 TCGCA
1 TCGCA
83660 GCACAGAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
21 62 0.98
22 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCGAAT
Found at i:83627 original size:42 final size:42
Alignment explanation
Indices: 83571--83659 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
83561 AATATGTAAA
*
83571 TCGCATTGCGATTTTCCGAATTCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAATTCGAGTTGCGATTTTCCGAAT
* * *
83613 TCGCGTTGCGATTTTCTGAATTCGAGTTGCGATTTTCTGAAT
1 TCGCATTGCGATTTTCCGAATTCGAGTTGCGATTTTCCGAAT
83655 TCGCA
1 TCGCA
83660 GCACAGAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (42 bp):
TCGCATTGCGATTTTCCGAATTCGAGTTGCGATTTTCCGAAT
Found at i:83677 original size:20 final size:20
Alignment explanation
Indices: 83652--83722 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
83642 CGATTTTCTG
*
83652 AATTCGCAGCACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
*
83672 AATTCGCAACACATAAGTCA
1 AATTCGCAACACAGAAGTCA
* *
83692 AATTCGCAACACTGAATTTCA
1 AATTCGCAACACAGAA-GTCA
83713 AATTCGCAAC
1 AATTCGCAAC
83723 GCAAATTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 32 0.71
21 13 0.29
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.21
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:83766 original size:28 final size:28
Alignment explanation
Indices: 83726--83787 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
83716 TCGCAACGCA
*
83726 AATTTGGAAAATCGTAACTCGATTTTCG
1 AATTTGGAAAATCGCAACTCGATTTTCG
*
83754 AATTTGGAAAATCGCAACTCGATTTTTG
1 AATTTGGAAAATCGCAACTCGATTTTCG
83782 AATTTG
1 AATTTG
83788 CAACACGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (28 bp):
AATTTGGAAAATCGCAACTCGATTTTCG
Found at i:84799 original size:24 final size:24
Alignment explanation
Indices: 84747--84801 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
84737 AGTATTCAAA
* *
84747 ATTTTG-TCTTGGTCAATACCCGG
1 ATTTTGATCTTGATCAATACCCAG
* *
84770 ACTTTGATCTTGATCAATACTCAG
1 ATTTTGATCTTGATCAATACCCAG
84794 ATTTTGAT
1 ATTTTGAT
84802 GATTTTTCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (24 bp):
ATTTTGATCTTGATCAATACCCAG
Found at i:85400 original size:28 final size:28
Alignment explanation
Indices: 85368--85423 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
85358 TCCTCACCAT
85368 AGACAGCCAAACAAAAAGGTGTTGGGCG
1 AGACAGCCAAACAAAAAGGTGTTGGGCG
85396 AGACAGCCAAACAAAAAGGTGTTGGGCG
1 AGACAGCCAAACAAAAAGGTGTTGGGCG
85424 GTTTTCTGGC
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:0.39, C:0.18, G:0.32, T:0.11
Consensus pattern (28 bp):
AGACAGCCAAACAAAAAGGTGTTGGGCG
Found at i:87114 original size:18 final size:18
Alignment explanation
Indices: 87091--87126 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
87081 AAGTAAAAGG
*
87091 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
87109 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
87127 CAACCGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:87432 original size:29 final size:29
Alignment explanation
Indices: 87371--87432 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
87361 ATTTTTTGCT
* ****
87371 GCGATTGTTGCGAAAGTCAAATTCGCGTT
1 GCGATTGTTGCGAAAATCAAATTCGAAAC
87400 GCGATTGTTGCGAAAATCAAATTCGAAAC
1 GCGATTGTTGCGAAAATCAAATTCGAAAC
87429 GCGA
1 GCGA
87433 AATTAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (29 bp):
GCGATTGTTGCGAAAATCAAATTCGAAAC
Found at i:87434 original size:20 final size:20
Alignment explanation
Indices: 87409--87455 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
87399 TGCGATTGTT
*
87409 GCGAAAATCAAATTCGAAAC
1 GCGAAAATAAAATTCGAAAC
* * *
87429 GCGAAATTAAAATTTGCAAC
1 GCGAAAATAAAATTCGAAAC
87449 GCGAAAA
1 GCGAAAA
87456 ATCGCAACGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (20 bp):
GCGAAAATAAAATTCGAAAC
Found at i:89007 original size:21 final size:21
Alignment explanation
Indices: 88983--89077 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
88973 GTGAATTGGG
* *
88983 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
89004 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
89025 CTCTTGAACGGTGGGA-GGGC
1 CTCTTGAACGATGAGAGGGGC
*
89045 CTCTTGAAAGAT-AG-GGGGC
1 CTCTTGAACGATGAGAGGGGC
89064 CTCTTGAACGATGA
1 CTCTTGAACGATGA
89078 CAGGTGAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
19 16 0.25
20 15 0.23
21 33 0.52
ACGTcount: A:0.21, C:0.19, G:0.39, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:89042 original size:42 final size:39
Alignment explanation
Indices: 88983--89073 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 39
88973 GTGAATTGGG
*
88983 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGA-GGGCCTCTTGAAAGAT-AG-GGGGC
89025 CTCTTGAACGGTGGGAGGGCCTCTTGAAAGATAGGGGGC
1 CTCTTGAACGGTGGGAGGGCCTCTTGAAAGATAGGGGGC
89064 CTCTTGAACG
1 CTCTTGAACG
89074 ATGACAGGTG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 15 0.31
40 2 0.04
41 15 0.31
42 16 0.33
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.21
Consensus pattern (39 bp):
CTCTTGAACGGTGGGAGGGCCTCTTGAAAGATAGGGGGC
Found at i:89228 original size:21 final size:21
Alignment explanation
Indices: 89204--89257 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
89194 TGTAACAATC
* *
89204 TCACGTAGAGCAGCTACCTCA
1 TCACGTAAAGCAGATACCTCA
*
89225 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGCAGATACCTCA
*
89246 CCACGTAAAGCA
1 TCACGTAAAGCA
89258 CCATTGTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.19
Consensus pattern (21 bp):
TCACGTAAAGCAGATACCTCA
Found at i:89360 original size:21 final size:21
Alignment explanation
Indices: 89330--89370 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89320 ACCATTATCG
* *
89330 TCACGTAAAGTACTGACCTCC
1 TCACGCAAAGCACTGACCTCC
89351 TCACGCAAAGCACTGACCTC
1 TCACGCAAAGCACTGACCTC
89371 ATCGTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.37, G:0.15, T:0.20
Consensus pattern (21 bp):
TCACGCAAAGCACTGACCTCC
Found at i:89653 original size:16 final size:16
Alignment explanation
Indices: 89632--89674 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
89622 AGTGGCAAGC
89632 TCAGCCTCTGTGGGTG
1 TCAGCCTCTGTGGGTG
89648 TCAGCCTCTGTGGGTG
1 TCAGCCTCTGTGGGTG
89664 TCAGCCTCTGT
1 TCAGCCTCTGT
89675 AATGGATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.07, C:0.28, G:0.33, T:0.33
Consensus pattern (16 bp):
TCAGCCTCTGTGGGTG
Found at i:91108 original size:19 final size:19
Alignment explanation
Indices: 91057--91110 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
91047 AGTAGTTTCT
91057 AAAACTTAAAATCGCAACGC
1 AAAAC-TAAAATCGCAACGC
*
91077 AAAAATGAAAATCGCAACGC
1 AAAACT-AAAATCGCAACGC
*
91097 GAAACTAAAATCGC
1 AAAACTAAAATCGC
91111 GTTGCGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.52, C:0.22, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAACTAAAATCGCAACGC
Found at i:91413 original size:19 final size:19
Alignment explanation
Indices: 91370--91413 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
91360 AAAAATCTAA
* * *
91370 TAAAAATAATAATAAATTT
1 TAAAAATAAAAAAAAAATT
*
91389 TCAAAATAAAAAAAAAATT
1 TAAAAATAAAAAAAAAATT
91408 TAAAAA
1 TAAAAA
91414 AAACTAACCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATAAAAAAAAAATT
Found at i:91719 original size:20 final size:20
Alignment explanation
Indices: 91694--91742 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
91684 TAAACGCGCT
91694 TTGCGAATTTAACTTCTGTG
1 TTGCGAATTTAACTTCTGTG
*
91714 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTAACTTCTGTG
*
91734 TTGTGAATT
1 TTGCGAATT
91743 ACAAATTCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTAACTTCTGTG
Found at i:91756 original size:20 final size:20
Alignment explanation
Indices: 91733--91782 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
91723 TGACTTCTGT
*
91733 GTTGTGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* *
91753 GTTGCGATTTACAGATTCGC
1 GTTGCGAATTACAAATTCGC
91773 GTTGCGAATT
1 GTTGCGAATT
91783 TTTTTGGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:92495 original size:34 final size:33
Alignment explanation
Indices: 92419--92531 Score: 108
Period size: 30 Copynumber: 3.4 Consensus size: 33
92409 ATTTATTTCA
* *
92419 ATTTGTTTATTTATTTCGAATAAATTA--G-TT
1 ATTTATTTATTTATTTTGAATAAATTATTGATT
*
92449 ATTTATTCATTTATTTTGAATAAATTATTGATT
1 ATTTATTTATTTATTTTGAATAAATTATTGATT
* *
92482 GATTTATTTATTTATTTT-AAGTAATTTATTTCGACTA
1 -ATTTATTTATTTATTTTGAA-TAAATTA-TT-GA-TT
92519 ATTTATTTATTTA
1 ATTTATTTATTTA
92532 CTTAATTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
30 24 0.35
32 1 0.01
33 4 0.06
34 22 0.32
35 2 0.03
36 15 0.22
37 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (33 bp):
ATTTATTTATTTATTTTGAATAAATTATTGATT
Found at i:93005 original size:15 final size:13
Alignment explanation
Indices: 92972--93007 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
92962 TATGTTATTG
92972 TAATTTTTTACGA
1 TAATTTTTTACGA
92985 TAATTTTTTACGA
1 TAATTTTTTACGA
*
92998 TAATATTTTA
1 TAATTTTTTA
93008 ATTTATTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (13 bp):
TAATTTTTTACGA
Found at i:94452 original size:3 final size:3
Alignment explanation
Indices: 94446--94481 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
94436 GATGATGATA
94446 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
94482 AAGGTAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:97101 original size:15 final size:15
Alignment explanation
Indices: 97083--97151 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
97073 CTAATATTAA
97083 AATTTATGTTATTTT
1 AATTTATGTTATTTT
* *
97098 AATTT-TGGGTATTAT
1 AATTTAT-GTTATTTT
*
97113 -ATTTATTGTTATGTT
1 AATTTA-TGTTATTTT
* *
97128 ATTTTGTGTTATTTT
1 AATTTATGTTATTTT
97143 AATTCTATG
1 AATT-TATG
97152 ACGAGGATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
14 5 0.13
15 27 0.69
16 7 0.18
ACGTcount: A:0.23, C:0.01, G:0.13, T:0.62
Consensus pattern (15 bp):
AATTTATGTTATTTT
Found at i:97111 original size:30 final size:29
Alignment explanation
Indices: 97077--97133 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
97067 TATTTTCTAA
*
97077 TATTAAAATTTA-TGTTATTTTAATTTTGGG
1 TATT-AAATTTATTGTTATGTT-ATTTTGGG
*
97107 TATTATATTTATTGTTATGTTATTTTG
1 TATTAAATTTATTGTTATGTTATTTTG
97134 TGTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.61
Consensus pattern (29 bp):
TATTAAATTTATTGTTATGTTATTTTGGG
Found at i:105504 original size:13 final size:13
Alignment explanation
Indices: 105460--105506 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
105450 CTGTTCTTTG
*
105460 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
105474 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
105486 TTTATTTAAAATAA
1 -ATATTTAAAATAA
105500 ATATTTA
1 ATATTTA
105507 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:106454 original size:16 final size:16
Alignment explanation
Indices: 106421--106456 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
106411 TTGTATATAT
* *
106421 TTTTTTTTTCTCTGTC
1 TTTTTTTTTCTATCTC
106437 TTTTTTTTTCTATCTC
1 TTTTTTTTTCTATCTC
106453 TTTT
1 TTTT
106457 GTCTCTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTCTATCTC
Found at i:106467 original size:15 final size:15
Alignment explanation
Indices: 106424--106468 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
106414 TATATATTTT
106424 TTTTTTCTCTGTCT-
1 TTTTTTCTCTGTCTC
* *
106438 TTTTTTTTCTATCTC
1 TTTTTTCTCTGTCTC
*
106453 TTTTGTCTCTGTCTC
1 TTTTTTCTCTGTCTC
106468 T
1 T
106469 GTCTCTTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.02, C:0.22, G:0.07, T:0.69
Consensus pattern (15 bp):
TTTTTTCTCTGTCTC
Found at i:106916 original size:3 final size:3
Alignment explanation
Indices: 106910--106978 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
106900 TATATGTATT
* * *
106910 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
106958 TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
106979 ATTAATATGG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:109561 original size:23 final size:23
Alignment explanation
Indices: 109535--109600 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
109525 CATAACAGCT
*
109535 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
109558 CGTAGACTTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
109581 CGTAGAATTTCACCGTAGTG
1 CGTAGAATTGCACCGAAGTG
109601 TCATATAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:109805 original size:107 final size:105
Alignment explanation
Indices: 109633--109842 Score: 244
Period size: 107 Copynumber: 2.0 Consensus size: 105
109623 ACCACATATC
* * * *
109633 ATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGT
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCTCACAAGACCTCACACATGT
* * *
109698 TCCAAAGAATATATATATATATCCCGAATGACCGCATAGAAA
66 TCCAAAG--GATACATATATATCCCGAAGGACCGCATAGAAA
* * * *
109740 ATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATTTGT-TGCA-AAGGACCTCATAGAT
1 ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCT-CACAA-GACCTCACACAT
* * *
109803 GTTCCATAGGATACCTATATGTCCCGAAGGACCGCATAGA
64 GTTCCAAAGGATACATATATATCCCGAAGGACCGCATAGA
109843 CCCTCGACTC
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
105 26 0.30
106 3 0.03
107 58 0.67
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (105 bp):
ATTCCTTAAGAATCATATACATATACTAAGGACCAAATATGTGTCTCACAAGACCTCACACATGT
TCCAAAGGATACATATATATCCCGAAGGACCGCATAGAAA
Found at i:110510 original size:23 final size:23
Alignment explanation
Indices: 110484--110536 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
110474 ATAACCTTTT
110484 CATATAACCCCATAGATCTTTAG
1 CATATAACCCCATAGATCTTTAG
** *
110507 CATATAATTCTATAGATCTTTAG
1 CATATAACCCCATAGATCTTTAG
110530 CATATAA
1 CATATAA
110537 TTTATCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (23 bp):
CATATAACCCCATAGATCTTTAG
Found at i:110537 original size:23 final size:23
Alignment explanation
Indices: 110495--110538 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
110485 ATATAACCCC
110495 ATAGATCTTTAGCATATAATTCT
1 ATAGATCTTTAGCATATAATTCT
110518 ATAGATCTTTAGCATATAATT
1 ATAGATCTTTAGCATATAATT
110539 TATCATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (23 bp):
ATAGATCTTTAGCATATAATTCT
Found at i:116054 original size:29 final size:30
Alignment explanation
Indices: 116000--116058 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
115990 ATTCCAATTA
116000 AATAGTGACTAAAACATATAAAATTAAAAT
1 AATAGTGACTAAAACATATAAAATTAAAAT
* *
116030 AATAG-GATTAAAATATA-AAATATTAAAAT
1 AATAGTGACTAAAACATATAAA-ATTAAAAT
116059 TTACAGCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (30 bp):
AATAGTGACTAAAACATATAAAATTAAAAT
Found at i:117388 original size:3 final size:3
Alignment explanation
Indices: 117380--117424 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
117370 AAATATTTTT
*
117380 ATA ATA ATA AT- ATA AT- ATA ATA ATA A-A ACA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
117424 A
1 A
117425 ATAAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.21
3 30 0.79
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:117398 original size:16 final size:15
Alignment explanation
Indices: 117379--117427 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
117369 TAAATATTTT
117379 TATAATAATAATATAA
1 TATAATAATAATA-AA
*
117395 TATAATAATAAAACAA
1 TATAATAATAATA-AA
*
117411 AATAATAATAATAAA
1 TATAATAATAATAAA
117426 TA
1 TA
117428 AAACAAATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 3 0.11
16 25 0.89
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAATAATAATAAA
Found at i:117989 original size:113 final size:113
Alignment explanation
Indices: 117735--118645 Score: 1143
Period size: 113 Copynumber: 8.0 Consensus size: 113
117725 ATCTTCTTCT
** *
117735 GTGATAGAA-TCAAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCA
1 GTGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * **
117798 GACGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTCT
65 GATGAGTTCTTCTCATTATGAACTTTCTCTGG---AA---ATGTTGATCCA--T-C--AA
* ** ** *
117858 GTGAT-AGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTTCTTCA
1 GTGATGA-ATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * **
117922 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCTTTGA
65 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
* * *
117971 GTGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAA
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
118036 ACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGCTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGTTGATCCATCAA
* *
118084 ATGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAA
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
118149 ATGAATTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
* ** * **
118197 GTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* **
118262 ATGAGTTCTTCTCATTATGAAC-TCCTTCTGGAAATGTTGATCCATTGA
66 ATGAGTTCTTCTCATTATGAACTTTC-TCTGGAAATGTTGATCCATCAA
* * *
118310 GTGATTAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
118375 ACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCAATCAA
66 ATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGTTGATCCATCAA
* *
118423 ATGATGAATTCAAACAAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
118488 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
* ** * * **
118536 GTGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
118601 ATGAGTTCTTCTCATTATGAAC-TCCTTCTGGAAATGTTGATCCAT
66 ATGAGTTCTTCTCATTATGAACTTTC-TCTGGAAATGTTGATCCAT
118646 TATGATGGAT
Statistics
Matches: 695, Mismatches: 82, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
112 8 0.01
113 583 0.84
114 3 0.00
115 2 0.00
116 1 0.00
118 8 0.01
121 3 0.00
122 1 0.00
123 9 0.01
124 77 0.11
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAA
Found at i:118284 original size:339 final size:339
Alignment explanation
Indices: 117736--118646 Score: 1470
Period size: 339 Copynumber: 2.7 Consensus size: 339
117726 TCTTCTTCTG
** *
117736 TGATAGAA-TCAAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAG
1 TGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * ** *
117799 ACGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATGTTGATCTATCTCCTTCTGTGATA
65 ATGAGTTCTTCTCATTATGAACTTTCTCTGG---AA---ATGTTGATCCA--T-C--AAGTGATG
* * *
117864 GA-GTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAG
119 GATTTGA-GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * *
117928 TTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATCCTTTGAGTGATGAATTCAAACAAAAAG
183 TTCTTCTCATTATGAACTCCT-TCTGGAAATGTTGATCCATTGAGTGATGAATTCAAACAAAAAG
117992 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAACGAGTTCTTCTCATTATGAA
247 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAACGAGTTCTTCTCATTATGAA
*
118057 CTCTACCTGGCAATGCTGATCCATCAAA
312 CTCTACCTGGCAATGCTGATCAATCAAA
*
118085 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
118150 TGAATTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAA
118215 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
131 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
118280 GAACTCCTTCTGGAAATGTTGATCCATTGAGTGATTAATTCAAACAAAAAGTTGAACAAATTCTT
196 GAACTCCTTCTGGAAATGTTGATCCATTGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCTT
*
118345 CTCATTATGAATTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAT
261 CTCATTATGAATTTCTTCTTCCTTCTTCAAACGAGTTCTTCTCATTATGAACTCTACCTGGCAAT
*
118410 GTTGATCAATCAAA
326 GCTGATCAATCAAA
*
118424 TGATGAATTCAAACAAAAGCTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
118489 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAA
*
118554 AAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
131 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
118619 GAACTCCTTCTGGAAATGTTGATCCATT
196 GAACTCCTTCTGGAAATGTTGATCCATT
118647 ATGATGGATT
Statistics
Matches: 534, Mismatches: 24, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
339 430 0.81
340 3 0.01
341 1 0.00
342 1 0.00
344 10 0.02
347 2 0.00
348 3 0.01
349 10 0.02
350 74 0.14
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (339 bp):
TGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAA
AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATGTTGATCCATTGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCTT
CTCATTATGAATTTCTTCTTCCTTCTTCAAACGAGTTCTTCTCATTATGAACTCTACCTGGCAAT
GCTGATCAATCAAA
Found at i:119520 original size:54 final size:54
Alignment explanation
Indices: 119417--119566 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 54
119407 TGACTGGTTC
* * ** *
119417 GTAAAACATTTGTCAATACATTCATCATCTCATGTGGTTTATGCTCAGATGCTA
1 GTAAAACATTTGACAACACATTCATCATCTCATGTGACTTATGCACAGATGCTA
* * * *
119471 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGACTTCTGCACAGATGC--
1 GTAAAACATTTGACAACACATTCATCATCTCATGTGACTTATGCACAGATGCTA
* *
119523 -T-----ATTTGATAACACATTCATCATTTCATGTGACTTATGCACAGAT
1 GTAAAACATTTGACAACACATTCATCATCTCATGTGACTTATGCACAGAT
119567 TTCTGGTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
46 39 0.47
51 1 0.01
54 43 0.52
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATCATCTCATGTGACTTATGCACAGATGCTA
Found at i:119553 original size:46 final size:46
Alignment explanation
Indices: 119478--119566 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
119468 CTAGTAAAAC
* * *
119478 ATTTGACAACACATTCATCCTTTCCTGTGACTTCTGCACAGATGCT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
*
119524 ATTTGATAACACATTCATCATTTCATGTGACTTATGCACAGAT
1 ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGAT
119567 TTCTGGTCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (46 bp):
ATTTGACAACACATTCATCATTTCATGTGACTTATGCACAGATGCT
Found at i:123792 original size:19 final size:20
Alignment explanation
Indices: 123768--123808 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
123758 TGCATTAAAG
123768 ATTTTTA-AAAAAAAAACCA
1 ATTTTTACAAAAAAAAACCA
* *
123787 ATTTTTACAAATAAAAATCA
1 ATTTTTACAAAAAAAAACCA
123807 AT
1 AT
123809 CTTGAGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (20 bp):
ATTTTTACAAAAAAAAACCA
Found at i:124205 original size:7 final size:7
Alignment explanation
Indices: 124195--124247 Score: 74
Period size: 7 Copynumber: 7.7 Consensus size: 7
124185 TTTTCCCTTT
124195 TTTTTCC
1 TTTTTCC
124202 TTTTTCC
1 TTTTTCC
124209 TTTTTCC
1 TTTTTCC
124216 TTTTT--
1 TTTTTCC
*
124221 TTCTTCC
1 TTTTTCC
124228 TTTTTTCC
1 -TTTTTCC
124236 TTTTTCC
1 TTTTTCC
124243 TTTTT
1 TTTTT
124248 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 4 0.10
7 31 0.76
8 6 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCC
Found at i:124222 original size:27 final size:27
Alignment explanation
Indices: 124184--124251 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
124174 TTGATTTAAT
*
124184 TTTTTCC-CTTTTTTTTCC-TTTTTCC
1 TTTTTCCTTTTTTTTTTCCTTTTTTCC
*
124209 TTTTTCCTTTTTTTCTTCCTTTTTTCC
1 TTTTTCCTTTTTTTTTTCCTTTTTTCC
124236 TTTTTCCTTTTTTTTT
1 TTTTTCCTTTTTTTTT
124252 ATTTTTATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 7 0.18
26 9 0.24
27 22 0.58
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTCCTTTTTTTTTTCCTTTTTTCC
Found at i:126940 original size:15 final size:14
Alignment explanation
Indices: 126907--126944 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
126897 ATAAAAGTAT
126907 AAATGCAAAATGAA
1 AAATGCAAAATGAA
*
126921 AAATGCAAAGATGCA
1 AAATGCAAA-ATGAA
126936 AAATGCAAA
1 AAATGCAAA
126945 TATACAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (14 bp):
AAATGCAAAATGAA
Found at i:128473 original size:28 final size:28
Alignment explanation
Indices: 128444--128511 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
128434 TGAAAATAAA
128444 ATAAA-ATTAT-AAAA-AATAA-TATAT
1 ATAAATATTATGAAAATAATAAGTATAT
128468 ATAAATATTATGAAAATAATAAGTATAT
1 ATAAATATTATGAAAATAATAAGTATAT
* *
128496 ATAAAAATTTTGAAAA
1 ATAAATATTATGAAAA
128512 GAAAGAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 5 0.13
25 5 0.13
26 4 0.11
27 5 0.13
28 19 0.50
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
ATAAATATTATGAAAATAATAAGTATAT
Found at i:129555 original size:29 final size:30
Alignment explanation
Indices: 129501--129559 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
129491 ATTGTAATTA
129501 AATAGTGACTAAAACATATAAAATTAAAAT
1 AATAGTGACTAAAACATATAAAATTAAAAT
* *
129531 AATAG-GATTAAAATATA-AAATATTAAAAT
1 AATAGTGACTAAAACATATAAA-ATTAAAAT
129560 TTACAACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (30 bp):
AATAGTGACTAAAACATATAAAATTAAAAT
Done.