Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 310 of 311
Found at i:101528207 original size:18 final size:19
Alignment explanation
Indices: 101528175--101528225 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
101528165 CCTTCACTCT
* *
101528175 GTAACAATCAGTTATGC-A
1 GTAACAGTCAATTATGCAA
* *
101528193 GTAACAGTCATTTATTCAA
1 GTAACAGTCAATTATGCAA
101528212 G-AACAGTCAATTAT
1 GTAACAGTCAATTAT
101528226 TCCGTAGCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (19 bp):
GTAACAGTCAATTATGCAA
Found at i:101528481 original size:57 final size:58
Alignment explanation
Indices: 101528367--101528496 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 58
101528357 CCGTAACGAT
*
101528367 AACAGTAACAGTAACAGTAGCAGTAGCAGTACACAAAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTAACAGTA-CAGTA-ACAAAGTACCTCATCGGAACAAATCCGA
** * * *
101528427 AACAGTAACAGTAACAGTAACAGT-CAAGT-ACGGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAACAGTAACAGTAC-AGTAACAAAGTACCTCATCGGAACAAATCCGA
*
101528484 AACAGTCACAGTA
1 AACAGTAACAGTA
101528497 GTCGACACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 35 0.56
58 1 0.02
59 3 0.05
60 23 0.37
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (58 bp):
AACAGTAACAGTAACAGTAACAGTACAGTAACAAAGTACCTCATCGGAACAAATCCGA
Found at i:101529856 original size:29 final size:27
Alignment explanation
Indices: 101529786--101529880 Score: 136
Period size: 27 Copynumber: 3.4 Consensus size: 27
101529776 CTGTCACATT
* *
101529786 TCACTTTGCCATATTTGGCACATTTTA
1 TCACTTTGCCATGTTTGGCACACTTTA
**
101529813 TCACTTTTTCATGTTTGGCACACTTTA
1 TCACTTTGCCATGTTTGGCACACTTTA
101529840 TTACACTTTGCCATGTTTGGCACACTTTA
1 -T-CACTTTGCCATGTTTGGCACACTTTA
101529869 TCACTTTGCCAT
1 TCACTTTGCCAT
101529881 AGTTCAACTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
27 34 0.57
28 2 0.03
29 24 0.40
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (27 bp):
TCACTTTGCCATGTTTGGCACACTTTA
Found at i:101535387 original size:3 final size:3
Alignment explanation
Indices: 101535379--101535409 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
101535369 GATGAAAATA
101535379 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101535410 AAAGTAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101535402 original size:14 final size:14
Alignment explanation
Indices: 101535383--101535409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101535373 AAAATAAATA
101535383 ATAATAATAATAAT
1 ATAATAATAATAAT
101535397 ATAATAATAATAA
1 ATAATAATAATAA
101535410 AAAGTAGTAG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:101535402 original size:17 final size:16
Alignment explanation
Indices: 101535375--101535409 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
101535365 ATTAGATGAA
101535375 AATAAATAATAATAAT
1 AATAAATAATAATAAT
101535391 AATAATATAATAATAAT
1 AATAA-ATAATAATAAT
101535408 AA
1 AA
101535410 AAAGTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:101536755 original size:50 final size:51
Alignment explanation
Indices: 101536616--101536787 Score: 136
Period size: 50 Copynumber: 3.4 Consensus size: 51
101536606 GGTATACAAA
* * * * *
101536616 AATACGAGTATTTAAAAAAAATTAG-TGCTGGCATTGT-ATGGCCGGCACT
1 AATACGAGTATTTAAAAAAAATTTGATGCTGGCCTTGTAATGACCGACACC
* ** * * * *
101536665 AGACTACCACAATTAAAAAAAAAATTTGATGCTGGCCTTGTGAT-AGCTGACGCC
1 A-A-TACGAGTATT-TAAAAAAAATTTGATGCTGGCCTTGTAATGA-CCGACACC
* * * *
101536719 AGTACGAGTATTTAAAAAAAA-TTGATGTTTGCCTTGTAATGACCGGCACC
1 AATACGAGTATTTAAAAAAAATTTGATGCTGGCCTTGTAATGACCGACACC
101536769 AATACGAGTATTTAAAAAA
1 AATACGAGTATTTAAAAAA
101536788 TTTAAATAAA
Statistics
Matches: 93, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
49 1 0.01
50 40 0.43
51 16 0.17
52 18 0.19
53 11 0.12
54 7 0.08
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (51 bp):
AATACGAGTATTTAAAAAAAATTTGATGCTGGCCTTGTAATGACCGACACC
Found at i:101536827 original size:59 final size:59
Alignment explanation
Indices: 101536728--101536846 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
101536718 CAGTACGAGT
* * * * * *
101536728 ATTTAAAAAAAATTGATGTTTGCCTTGTAATGACCGGCACCAATACGAGTATTTAAAAA
1 ATTTAAAAAAAATTGATGCTAGACTTGTAACGACCAGCACCAATACGAGCATTTAAAAA
* * * *
101536787 ATTTAAATAAAATTGGTGCTAGACTTGTAACGGCCAGCACCAGTACGAGCATTTAAAAA
1 ATTTAAAAAAAATTGATGCTAGACTTGTAACGACCAGCACCAATACGAGCATTTAAAAA
101536846 A
1 A
101536847 AAATTGGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (59 bp):
ATTTAAAAAAAATTGATGCTAGACTTGTAACGACCAGCACCAATACGAGCATTTAAAAA
Found at i:101537076 original size:52 final size:49
Alignment explanation
Indices: 101536957--101537092 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
101536947 CAAAATTTTT
* *
101536957 TGGTGCTGGCCTTCTAATTGCCGGCACTAGTACGAGTATTTAAAAAAAA
1 TGGTGCTGGCCTTCTAATGGCCGGCACCAGTACGAGTATTTAAAAAAAA
** * *
101537006 TGGTTTTGGCCTTCTAATGGCCGGCACCAGATACTAGTATTTAAAAAAATTC
1 TGGTGCTGGCCTTCTAATGGCCGGCACCAG-TACGAGTATTTAAAAAAA--A
* * *
101537058 TGGTGCTAGCCTTCTAATGACCGGCACCTGTACGA
1 TGGTGCTGGCCTTCTAATGGCCGGCACCAGTACGA
101537093 AATTTTTTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
49 26 0.36
50 17 0.24
51 4 0.06
52 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (49 bp):
TGGTGCTGGCCTTCTAATGGCCGGCACCAGTACGAGTATTTAAAAAAAA
Found at i:101540189 original size:24 final size:24
Alignment explanation
Indices: 101540153--101540201 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
101540143 ACCATCGTGG
101540153 ACACCGACGACAACTCCTGGTGTA
1 ACACCGACGACAACTCCTGGTGTA
* *
101540177 ACACCGGCTACAACTCCTGGTGTA
1 ACACCGACGACAACTCCTGGTGTA
101540201 A
1 A
101540202 GAAGCTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (24 bp):
ACACCGACGACAACTCCTGGTGTA
Found at i:101542930 original size:24 final size:25
Alignment explanation
Indices: 101542884--101542933 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
101542874 ATTTATATAG
***
101542884 TGCTTCCTCTTCTCTTTTGTTCCTT
1 TGCTTCCTCTTCTCTTCCATTCCTT
101542909 TGCTTCC-CTTCTCTTCCATTCCTT
1 TGCTTCCTCTTCTCTTCCATTCCTT
101542933 T
1 T
101542934 TTTTCTCCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.02, C:0.36, G:0.06, T:0.56
Consensus pattern (25 bp):
TGCTTCCTCTTCTCTTCCATTCCTT
Found at i:101543890 original size:27 final size:27
Alignment explanation
Indices: 101543855--101543909 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
101543845 TTTATAAATA
* *
101543855 AAATTTTAATTTAA-TTTAATTTTTAT
1 AAATTTTAATATAACATTAATTTTTAT
*
101543881 AAATTATTAATATAACATTATTTTTTAT
1 AAATT-TTAATATAACATTAATTTTTAT
101543909 A
1 A
101543910 TTTATGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
AAATTTTAATATAACATTAATTTTTAT
Found at i:101557514 original size:19 final size:17
Alignment explanation
Indices: 101557490--101557526 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
101557480 AATTTAAATT
101557490 TAATTAAATATATATAATA
1 TAATTAAA-A-ATATAATA
101557509 TAATTAAAAATATAATA
1 TAATTAAAAATATAATA
101557526 T
1 T
101557527 TAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTAAAAATATAATA
Found at i:101557957 original size:23 final size:23
Alignment explanation
Indices: 101557931--101557991 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
101557921 TAAGTTATTG
101557931 ATTTCAATAAATAAATATTT-TAA
1 ATTTCAATAAATAAA-ATTTATAA
* **
101557954 ATTTAAACTAAA-AAAATTTATTT
1 ATTTCAA-TAAATAAAATTTATAA
101557977 ATTTCAA-AAATAAAA
1 ATTTCAATAAATAAAA
101557992 AAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 8 0.26
23 16 0.52
24 4 0.13
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTTCAATAAATAAAATTTATAA
Found at i:101560324 original size:7 final size:7
Alignment explanation
Indices: 101560312--101560338 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
101560302 CAATCCCTTA
101560312 AATTTCT
1 AATTTCT
101560319 AATTTCT
1 AATTTCT
101560326 AATTTCT
1 AATTTCT
101560333 AATTTC
1 AATTTC
101560339 ATCCTTACCT
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:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTCT
Found at i:101565304 original size:20 final size:20
Alignment explanation
Indices: 101565279--101565317 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101565269 ATTTAAATTT
*
101565279 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAAAATTAA
*
101565299 ATTTAAATTAAAAAAATTA
1 ATTTAAAATAAAAAAATTA
101565318 TACTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTAAAATAAAAAAATTAA
Found at i:101565662 original size:11 final size:11
Alignment explanation
Indices: 101565646--101565694 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
101565636 CTTTAAAAAT
101565646 ATTTTTTTACA
1 ATTTTTTTACA
*
101565657 A-TTTTTTATA
1 ATTTTTTTACA
*
101565667 A--TTTCTACA
1 ATTTTTTTACA
*
101565676 ATCTTTTTACA
1 ATTTTTTTACA
101565687 ATTTTTTT
1 ATTTTTTT
101565695 GTAATAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 7 0.23
10 9 0.29
11 15 0.48
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTTTTACA
Found at i:101565663 original size:10 final size:10
Alignment explanation
Indices: 101565648--101565693 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
101565638 TTAAAAATAT
101565648 TTTTTTACAA
1 TTTTTTACAA
*
101565658 TTTTTTATAA
1 TTTTTTACAA
*
101565668 -TTTCTACAA
1 TTTTTTACAA
101565677 TCTTTTTACAA
1 T-TTTTTACAA
101565688 TTTTTT
1 TTTTTT
101565694 TGTAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 14 0.47
11 9 0.30
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:101565815 original size:29 final size:27
Alignment explanation
Indices: 101565755--101565815 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
101565745 TTGTAAATTT
*
101565755 TATTTTTATAATTTATATATTTTTCTA
1 TATTTTTATAATTTATATATTTTTATA
*
101565782 GATTTTATATAAATTTATGA-ATTTTTATA
1 TATTTT-TAT-AATTTAT-ATATTTTTATA
101565811 TATTT
1 TATTT
101565816 ATTTCCATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.18
28 3 0.11
29 19 0.68
30 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (27 bp):
TATTTTTATAATTTATATATTTTTATA
Found at i:101568064 original size:21 final size:21
Alignment explanation
Indices: 101568039--101568080 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
101568029 CCTTTTTTTG
*
101568039 TAATTTATCAAAAAGCTCATA
1 TAATTTATCAAAAAACTCATA
101568060 TAATTTATCAAAAAACTCATA
1 TAATTTATCAAAAAACTCATA
101568081 ATGATTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATTTATCAAAAAACTCATA
Found at i:101573468 original size:22 final size:22
Alignment explanation
Indices: 101573440--101573481 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
101573430 TTATATTATT
*
101573440 TTTTTTTCACCCAAAAAAAATA
1 TTTTTTTCACCAAAAAAAAATA
101573462 TTTTTTTCACCAAAAAAAAA
1 TTTTTTTCACCAAAAAAAAA
101573482 AAAAGCGATC
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:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTTTTTCACCAAAAAAAAATA
Found at i:101575753 original size:37 final size:37
Alignment explanation
Indices: 101575712--101575803 Score: 175
Period size: 37 Copynumber: 2.5 Consensus size: 37
101575702 ATAATGGGTT
*
101575712 GGTCCAATTTTATAATTTTTTGGGATAATAATATTTA
1 GGTCCAATTTTATAATTTTTGGGGATAATAATATTTA
101575749 GGTCCAATTTTATAATTTTTGGGGATAATAATATTTA
1 GGTCCAATTTTATAATTTTTGGGGATAATAATATTTA
101575786 GGTCCAATTTTATAATTT
1 GGTCCAATTTTATAATTT
101575804 AGCCCCACAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (37 bp):
GGTCCAATTTTATAATTTTTGGGGATAATAATATTTA
Found at i:101575763 original size:21 final size:21
Alignment explanation
Indices: 101575739--101575801 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
101575729 TTTTGGGATA
101575739 ATAATATTTAGGTCCAATTTT
1 ATAATATTTAGGTCCAATTTT
* ** *
101575760 ATAAT-TTTTGG--GGA--TA
1 ATAATATTTAGGTCCAATTTT
101575776 ATAATATTTAGGTCCAATTTT
1 ATAATATTTAGGTCCAATTTT
101575797 ATAAT
1 ATAAT
101575802 TTAGCCCCAC
Statistics
Matches: 29, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 6 0.21
17 5 0.17
18 1 0.03
19 1 0.03
20 5 0.17
21 11 0.38
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (21 bp):
ATAATATTTAGGTCCAATTTT
Found at i:101577022 original size:25 final size:24
Alignment explanation
Indices: 101576993--101577053 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
101576983 ATCATTTTAT
*
101576993 ATTTATATATTACATATATAAAT-A
1 ATTTATATATTA-ATATAAAAATGA
*
101577017 ATTTTATTTATCTAATATAAAAATGA
1 A-TTTATATAT-TAATATAAAAATGA
*
101577043 ATTGATATATT
1 ATTTATATATT
101577054 TATTTCTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.07
25 24 0.80
26 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (24 bp):
ATTTATATATTAATATAAAAATGA
Found at i:101583942 original size:20 final size:20
Alignment explanation
Indices: 101583917--101583955 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
101583907 AAAATTTTCG
101583917 AAAATTCTTT-TTAGACCCTT
1 AAAATT-TTTATTAGACCCTT
101583937 AAAATTTTTAGTTAGACCC
1 AAAATTTTTA-TTAGACCC
101583956 AAAAAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 6 0.35
21 8 0.47
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
AAAATTTTTATTAGACCCTT
Found at i:101584515 original size:16 final size:15
Alignment explanation
Indices: 101584496--101584530 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
101584486 TTTTAAAATT
101584496 TAAAAAATATAAAAA
1 TAAAAAATATAAAAA
*
101584511 CTAAAAAATATCAAAA
1 -TAAAAAATATAAAAA
101584527 TAAA
1 TAAA
101584531 GAACATGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:101598134 original size:335 final size:335
Alignment explanation
Indices: 101597524--101598183 Score: 1194
Period size: 335 Copynumber: 2.0 Consensus size: 335
101597514 AATCCATATG
101597524 TAATGACCCAAAATCCACGGACACCGGAAAAGTGAATTATAGGGCCTCCGTCTTAATGAAATAAG
1 TAATGACCCAAAATCCACGGACACCGGAAAAGTGAATTATAGGGCCTCCGTCTTAATGAAATAAG
*
101597589 TTCGAAAATAATTATTAAAAATATTTATGAGCCTAGTAGTGTGTCTAATTAGGATTTAATTAGGT
66 TTCAAAAATAATTATTAAAAATATTTATGAGCCTAGTAGTGTGTCTAATTAGGATTTAATTAGGT
*
101597654 GAAATTAGCTTAATTTAGAATAATGAGCAAAAATAACTAAATTGAAAAAGGGGTAAAAGTTTAAT
131 GAAATTAGCTTAATTTAGAATAATGAGCAAAAAGAACTAAATTGAAAAAGGGGTAAAAGTTTAAT
101597719 TCTAAAGTAACAGAAAATAAAAACGATCAAAATGGAAATTAAGCCATTTACATAAATTGACGCGG
196 TCTAAAGTAACAGAAAATAAAAACGATCAAAATGGAAATTAAGCCATTTACATAAATTGACGCGG
*
101597784 AAAATGGAAGAAAAATCAAGATTTTTCTTGAATGTATGTATTATATATATTAAAATTATTATTAT
261 AAAATGAAAGAAAAATCAAGATTTTTCTTGAATGTATGTATTATATATATTAAAATTATTATTAT
101597849 TATGCTTTTA
326 TATGCTTTTA
* * *
101597859 TAATGACCCAAAATCCACGGGCACCGGAAAAGTGAGTTATAGGGCCTCCGTCTTAGTGAAATAAG
1 TAATGACCCAAAATCCACGGACACCGGAAAAGTGAATTATAGGGCCTCCGTCTTAATGAAATAAG
*
101597924 TTCAAAAATAATTATTAAAAATATTTATGAGCCTAGTGGTGTGTCTAATTAGGATTTAATTAGGT
66 TTCAAAAATAATTATTAAAAATATTTATGAGCCTAGTAGTGTGTCTAATTAGGATTTAATTAGGT
*
101597989 GAAATTAGCTTAATTTAGAATAATTAGCAAAAAGAACTAAATTGAAAAAGGGGTAAAAGTTTAAT
131 GAAATTAGCTTAATTTAGAATAATGAGCAAAAAGAACTAAATTGAAAAAGGGGTAAAAGTTTAAT
* * * *
101598054 TCTAAAGTAATAGAAAATAAAAAGGATCAAAATGGGAATTAAGCCATTTACATAAATTGAGGCGG
196 TCTAAAGTAACAGAAAATAAAAACGATCAAAATGGAAATTAAGCCATTTACATAAATTGACGCGG
* *
101598119 CAAATGAAAGAAAAATCAAGATTTTTCTTGGATGTATGTATTATATATATTAAAATTATTATTAT
261 AAAATGAAAGAAAAATCAAGATTTTTCTTGAATGTATGTATTATATATATTAAAATTATTATTAT
101598184 GGTTTTATAA
Statistics
Matches: 311, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
335 311 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (335 bp):
TAATGACCCAAAATCCACGGACACCGGAAAAGTGAATTATAGGGCCTCCGTCTTAATGAAATAAG
TTCAAAAATAATTATTAAAAATATTTATGAGCCTAGTAGTGTGTCTAATTAGGATTTAATTAGGT
GAAATTAGCTTAATTTAGAATAATGAGCAAAAAGAACTAAATTGAAAAAGGGGTAAAAGTTTAAT
TCTAAAGTAACAGAAAATAAAAACGATCAAAATGGAAATTAAGCCATTTACATAAATTGACGCGG
AAAATGAAAGAAAAATCAAGATTTTTCTTGAATGTATGTATTATATATATTAAAATTATTATTAT
TATGCTTTTA
Found at i:101599569 original size:41 final size:41
Alignment explanation
Indices: 101599523--101599623 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 41
101599513 TCGACCTCGA
*
101599523 GTCGATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
* ** * *
101599563 ATTCGATGAGGTA-TTGG-GT-ACCAAATTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
*
101599602 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
101599624 ACTATTACTT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
38 16 0.36
39 14 0.31
40 5 0.11
41 10 0.22
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
Found at i:101599784 original size:18 final size:18
Alignment explanation
Indices: 101599761--101599801 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
101599751 GAAAAAAAAA
101599761 AGAAATT-GAATTATGAAT
1 AGAAATTAGAATTATG-AT
*
101599779 AGAAATTAGAATTGTGAT
1 AGAAATTAGAATTATGAT
101599797 AGAAA
1 AGAAA
101599802 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (18 bp):
AGAAATTAGAATTATGAT
Found at i:101600715 original size:20 final size:22
Alignment explanation
Indices: 101600690--101600738 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
101600680 TTTAAAAATT
*
101600690 ATAAAATATTCAT-AATA-AAA
1 ATAAAATAATCATAAATATAAA
*
101600710 ATAAAA-AATCATAAATATACA
1 ATAAAATAATCATAAATATAAA
101600731 ATAAAATA
1 ATAAAATA
101600739 GCATGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 8 0.33
22 1 0.04
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAAATAATCATAAATATAAA
Found at i:101600733 original size:21 final size:22
Alignment explanation
Indices: 101600709--101600750 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
101600699 TCATAATAAA
*
101600709 AATAAAAAATCAT-AAATATAC
1 AATAAAAAAGCATGAAATATAC
*
101600730 AATAAAATAGCATGAAATATA
1 AATAAAAAAGCATGAAATATA
101600751 GTAAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (22 bp):
AATAAAAAAGCATGAAATATAC
Found at i:101603816 original size:31 final size:31
Alignment explanation
Indices: 101603781--101603844 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
101603771 ATAATTTAAT
*
101603781 TTGATCAATTTTAGTC-TCTTTACTTTTCGGA
1 TTGATCAATTTTAGTCAT-TATACTTTTCGGA
* *
101603812 TTGATTAATTTTAGTCATTATACTTTTTGGA
1 TTGATCAATTTTAGTCATTATACTTTTCGGA
101603843 TT
1 TT
101603845 CTGAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.11, G:0.12, T:0.55
Consensus pattern (31 bp):
TTGATCAATTTTAGTCATTATACTTTTCGGA
Found at i:101610325 original size:3 final size:3
Alignment explanation
Indices: 101610319--101610347 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
101610309 ATCATCATCA
101610319 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
101610348 ATCATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:101615365 original size:14 final size:14
Alignment explanation
Indices: 101615348--101615378 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
101615338 ATTAATTTAC
101615348 TTATATTTCACCAT
1 TTATATTTCACCAT
101615362 TTATATTTCACCAT
1 TTATATTTCACCAT
101615376 TTA
1 TTA
101615379 AGTTTTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATATTTCACCAT
Found at i:101626254 original size:16 final size:15
Alignment explanation
Indices: 101626233--101626265 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
101626223 TGACGTACAT
101626233 TTTTAAAATTTTAAAA
1 TTTTAAAA-TTTAAAA
101626249 TTTTAAAATTTAAAA
1 TTTTAAAATTTAAAA
101626264 TT
1 TT
101626266 ATGTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATTTAAAA
Found at i:101626262 original size:7 final size:8
Alignment explanation
Indices: 101626233--101626265 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
101626223 TGACGTACAT
101626233 TTTTAAAA
1 TTTTAAAA
101626241 TTTTAAAA
1 TTTTAAAA
101626249 TTTTAAAA
1 TTTTAAAA
101626257 -TTTAAAA
1 TTTTAAAA
101626264 TT
1 TT
101626266 ATGTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:101627488 original size:6 final size:6
Alignment explanation
Indices: 101627477--101627502 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
101627467 TTAAAATACC
101627477 ATCTAT ATCTAT ATCTAT ATCTAT AT
1 ATCTAT ATCTAT ATCTAT ATCTAT AT
101627503 TTAAGTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:101638247 original size:15 final size:16
Alignment explanation
Indices: 101638218--101638248 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
101638208 TTTAACGATA
101638218 TTTTTTTTTCTGTTTT
1 TTTTTTTTTCTGTTTT
101638234 TTTTTTTTTC-GTTTT
1 TTTTTTTTTCTGTTTT
101638249 GATTTGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTCTGTTTT
Found at i:101639503 original size:30 final size:31
Alignment explanation
Indices: 101639467--101639529 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
101639457 ACTTAACAAG
101639467 CAAATGT-TTCTAAAATAATAAT-AAAATTAA
1 CAAATGTCTT-TAAAATAATAATAAAAATTAA
101639497 CAAATGTCTTTAAAATAATAATAAAAATTAA
1 CAAATGTCTTTAAAATAATAATAAAAATTAA
101639528 CA
1 CA
101639530 CTAAAATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (31 bp):
CAAATGTCTTTAAAATAATAATAAAAATTAA
Found at i:101639585 original size:11 final size:11
Alignment explanation
Indices: 101639567--101639606 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
101639557 ACAATAACAA
101639567 CAAAATAGTAG
1 CAAAATAGTAG
* *
101639578 CAACATAGAAG
1 CAAAATAGTAG
*
101639589 TAAAATAGTAG
1 CAAAATAGTAG
101639600 CAAAATA
1 CAAAATA
101639607 AGGAGAAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:101645104 original size:21 final size:21
Alignment explanation
Indices: 101645078--101645118 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101645068 AGACGAGCAA
* *
101645078 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
101645099 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
101645119 TTGAGCAGAT
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:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:101652211 original size:42 final size:42
Alignment explanation
Indices: 101652158--101652283 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
101652148 AAAAGCCAAA
* *
101652158 TTCTATTCATAACAACAAAGGAAGTTAGGTAATTTAAAAAAG
1 TTCTATTCATAATAATAAAGGAAGTTAGGTAATTTAAAAAAG
* *
101652200 TTCTATACATAATAATAGAGGAAGTTAGGTAATTTAAGAAAA-
1 TTCTATTCATAATAATAAAGGAAGTTAGGTAATTTAA-AAAAG
* * * *
101652242 TTATATTCATAATAATAAAGGAAGCTAGGTAAATTAAGAAAG
1 TTCTATTCATAATAATAAAGGAAGTTAGGTAATTTAAAAAAG
101652284 GGATAATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.90
43 4 0.06
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (42 bp):
TTCTATTCATAATAATAAAGGAAGTTAGGTAATTTAAAAAAG
Found at i:101654930 original size:16 final size:16
Alignment explanation
Indices: 101654899--101654931 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101654889 ATAAAAATAC
101654899 AATTTTACTTTATATT
1 AATTTTACTTTATATT
101654915 AATTTCTACTTT-TATT
1 AATTT-TACTTTATATT
101654931 A
1 A
101654932 TTTATAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTACTTTATATT
Found at i:101657537 original size:37 final size:37
Alignment explanation
Indices: 101657480--101657631 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
101657470 TATGATCACT
*
101657480 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
101657515 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
101657552 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
101657597 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
101657632 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:101657615 original size:46 final size:46
Alignment explanation
Indices: 101657548--101657907 Score: 479
Period size: 46 Copynumber: 7.6 Consensus size: 46
101657538 TAAGTGTAGC
* * **
101657548 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
101657594 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
101657640 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
101657686 -ACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
101657737 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
101657783 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
101657829 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
101657881 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
101657908 AGTACTCAAA
Statistics
Matches: 284, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
45 9 0.03
46 190 0.67
47 1 0.00
48 1 0.00
50 2 0.01
51 33 0.12
52 48 0.17
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:101657813 original size:143 final size:144
Alignment explanation
Indices: 101657559--101657907 Score: 637
Period size: 143 Copynumber: 2.4 Consensus size: 144
101657549 ACTTATCACT
* *
101657559 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
101657624 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTA-TAC
66 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
101657688 TTATCACTTTCCAC
131 TTATCACTTTCCAC
* *
101657702 TTGTCACTTGATCAGATAAGTATAGCTGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
101657767 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
66 GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
101657832 TTATCACTTTCCAC
131 TTATCACTTTCCAC
* *
101657846 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
101657908 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 122 0.62
144 75 0.38
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.34
Consensus pattern (144 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
TTATCACTTTCCAC
Found at i:101663274 original size:16 final size:16
Alignment explanation
Indices: 101663253--101663286 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
101663243 GACTTATAAA
101663253 TAAATATTAATAACTT
1 TAAATATTAATAACTT
101663269 TAAATATTAATAACTT
1 TAAATATTAATAACTT
101663285 TA
1 TA
101663287 TTTAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATTAATAACTT
Found at i:101666766 original size:21 final size:22
Alignment explanation
Indices: 101666742--101666784 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
101666732 TTTAAAGGTT
101666742 AAATA-CCAAAGTGATAAAAAA
1 AAATAGCCAAAGTGATAAAAAA
101666763 AAATAGTGCCAAAGTGATAAAA
1 AAATA--GCCAAAGTGATAAAA
101666785 GAGATAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
24 14 0.74
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.16
Consensus pattern (22 bp):
AAATAGCCAAAGTGATAAAAAA
Found at i:101667220 original size:21 final size:22
Alignment explanation
Indices: 101667179--101667219 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
101667169 TAAAAAAGTA
101667179 AAAGACCAAATTTAACTAAAAG
1 AAAGACCAAATTTAACTAAAAG
101667201 AAAGACC-AATTTAA-TAAAA
1 AAAGACCAAATTTAACTAAAA
101667220 AAATAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAGACCAAATTTAACTAAAAG
Found at i:101667221 original size:22 final size:25
Alignment explanation
Indices: 101667169--101667221 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
101667159 TTGACTATTT
101667169 TAAAAAAGTAAAAGACCAAATTTAAC
1 TAAAAAAG-AAAAGACCAAATTTAAC
101667195 T--AAAAG-AAAGACC-AATTTAA-
1 TAAAAAAGAAAAGACCAAATTTAAC
101667215 TAAAAAA
1 TAAAAAA
101667222 ATAAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 1 0.04
21 7 0.28
22 11 0.44
24 5 0.20
26 1 0.04
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.19
Consensus pattern (25 bp):
TAAAAAAGAAAAGACCAAATTTAAC
Found at i:101672433 original size:18 final size:19
Alignment explanation
Indices: 101672392--101672438 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
101672382 CATTACAACC
101672392 CAAAAAGAAAAAGGAGATA
1 CAAAAAGAAAAAGGAGATA
* * *
101672411 GAAAAAGAAAAGGGGGAT-
1 CAAAAAGAAAAAGGAGATA
101672429 CAAAAAGAAA
1 CAAAAAGAAA
101672439 GAACATATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.66, C:0.04, G:0.26, T:0.04
Consensus pattern (19 bp):
CAAAAAGAAAAAGGAGATA
Found at i:101677536 original size:2 final size:2
Alignment explanation
Indices: 101677529--101677562 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
101677519 CCTAGGCTTT
101677529 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
101677563 AATGTGATGG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:101688461 original size:137 final size:137
Alignment explanation
Indices: 101688297--101688570 Score: 458
Period size: 137 Copynumber: 2.0 Consensus size: 137
101688287 CACCACATAT
101688297 TCCCAATGCTATTCCAGATATTATTATTTTTGGATGAATTATAAGAAGAGCGCAAAAGCCCTAAA
1 TCCCAATGCTATTCCAGATATTATTATTTTTGGATGAATTATAAGAAGAGCGCAAAAGCCCTAAA
* * * *
101688362 CAATAATCCAACAAGTGTGATTTGAACTCAGGCCATACCTAGGGCAATGAACACATTGACCATTA
66 CAACAACCCAACAAGTGTGACTTGAACTCAAGCCATACCTAGGGCAATGAACACATTGACCATTA
101688427 GGCCAAC
131 GGCCAAC
* *
101688434 TCCCAATGCTATTCCAGATTTTATTATTTTTGGATGAATTATAAGAGGAGCGCAAAAGCCCTAAA
1 TCCCAATGCTATTCCAGATATTATTATTTTTGGATGAATTATAAGAAGAGCGCAAAAGCCCTAAA
* * * *
101688499 CAACAACCCGACAAGTGTGACTTGAACTCAAGCCATACCTAGGGTAGTGAACACCTTGACCATTA
66 CAACAACCCAACAAGTGTGACTTGAACTCAAGCCATACCTAGGGCAATGAACACATTGACCATTA
101688564 GGCCAAC
131 GGCCAAC
101688571 ATACGTAGTT
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 127 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (137 bp):
TCCCAATGCTATTCCAGATATTATTATTTTTGGATGAATTATAAGAAGAGCGCAAAAGCCCTAAA
CAACAACCCAACAAGTGTGACTTGAACTCAAGCCATACCTAGGGCAATGAACACATTGACCATTA
GGCCAAC
Found at i:101689058 original size:39 final size:37
Alignment explanation
Indices: 101688971--101689050 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
101688961 TATTTAAAAC
* *
101688971 AATAAAATATTTATTATATTTATTAGTGTTTTAATAT
1 AATAAAACATTTATTATATTTATTAATGTTTTAATAT
101689008 AATAAAACATTTATTATATTTATGATAATGTTTTCTAATAT
1 AATAAAACATTTATTATATTTAT--TAATG-TTT-TAATAT
101689049 AA
1 AA
101689051 ATACATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 22 0.59
39 4 0.11
40 3 0.08
41 8 0.22
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (37 bp):
AATAAAACATTTATTATATTTATTAATGTTTTAATAT
Found at i:101689589 original size:28 final size:28
Alignment explanation
Indices: 101689549--101689628 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
101689539 TTACTATAAC
* *
101689549 AAATTTAA-TAAAATTTAAAAATATTAA
1 AAATTAAATTAAAATTTAAAAATACTAA
**
101689576 AAATTAAATTAAAATTTTTAAAT-CTAA
1 AAATTAAATTAAAATTTAAAAATACTAA
* *
101689603 AAAGTAAGATTAAATTTTTAAAAATA
1 AAATTAA-ATTAAA-ATTTAAAAATA
101689629 AAAATATAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 16 0.39
28 18 0.44
29 7 0.17
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
AAATTAAATTAAAATTTAAAAATACTAA
Found at i:101689603 original size:27 final size:27
Alignment explanation
Indices: 101689573--101689633 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
101689563 TTAAAAATAT
**
101689573 TAAAAATTAA-ATTAAAATTTTTAAATC
1 TAAAAATTAAGATT-AAATTTTTAAAAA
*
101689600 TAAAAAGTAAGATTAAATTTTTAAAAA
1 TAAAAATTAAGATTAAATTTTTAAAAA
101689627 TAAAAAT
1 TAAAAAT
101689634 ATAGAAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAAAATTAAGATTAAATTTTTAAAAA
Found at i:101689632 original size:28 final size:28
Alignment explanation
Indices: 101689562--101689632 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
101689552 TTTAATAAAA
*
101689562 TTTAAAAATATTAAAAATTAAATTAAAATT
1 TTTAAAAATA--AAAAAGTAAATTAAAATT
**
101689592 TTTAAATCT-AAAAAGTAAGATT-AAATT
1 TTTAAAAATAAAAAAGTAA-ATTAAAATT
101689619 TTTAAAAATAAAAA
1 TTTAAAAATAAAAA
101689633 TATAGAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 20 0.59
28 7 0.21
30 7 0.21
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTAAAAATAAAAAAGTAAATTAAAATT
Found at i:101705465 original size:59 final size:60
Alignment explanation
Indices: 101705389--101705509 Score: 156
Period size: 59 Copynumber: 2.0 Consensus size: 60
101705379 CCTTAACATA
* *
101705389 GGAACAATTACCAAGTTCATGGACTAATTTAGA-CAAAAAAAAAGTTCAAGCCTCAATGTG
1 GGAACAATTACCAAGTTCAGGGACTAACTTAGAGCAAAAAAAAAGTTCAAGCCTCAA-GTG
* * * * *
101705449 GGAA-AATTACCAAGTTCAGGGCCTAACTTGGAGTAAAAAAAAGGTTCAGGCCTCAAGTG
1 GGAACAATTACCAAGTTCAGGGACTAACTTAGAGCAAAAAAAAAGTTCAAGCCTCAAGTG
101705508 GG
1 GG
101705510 GATAGTTGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 29 0.55
60 24 0.45
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (60 bp):
GGAACAATTACCAAGTTCAGGGACTAACTTAGAGCAAAAAAAAAGTTCAAGCCTCAAGTG
Found at i:101705754 original size:12 final size:12
Alignment explanation
Indices: 101705737--101705761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101705727 ATCAATAATG
101705737 TTTTGTTTTGAT
1 TTTTGTTTTGAT
101705749 TTTTGTTTTGAT
1 TTTTGTTTTGAT
101705761 T
1 T
101705762 CATGTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTGTTTTGAT
Found at i:101715951 original size:14 final size:14
Alignment explanation
Indices: 101715929--101715959 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101715919 TGAAAGCAAA
*
101715929 TTAATTGCATCGAT
1 TTAAGTGCATCGAT
101715943 TTAAGTGCATCGAT
1 TTAAGTGCATCGAT
101715957 TTA
1 TTA
101715960 TTATTAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (14 bp):
TTAAGTGCATCGAT
Found at i:101720847 original size:62 final size:62
Alignment explanation
Indices: 101720750--101720876 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
101720740 TTTTTTTTTT
*
101720750 TTTTTTTGTAGTCTAATAACAATGTTTTTGAAAGTTTACTTATTTGGCTATCAGAATCATGG
1 TTTTTTTGTAGTCTAATAACAACGTTTTTGAAAGTTTACTTATTTGGCTATCAGAATCATGG
101720812 TTTTTTTGTAGTCTAATAACAACGTTTTTGAAAGTTTACTTATTTGGCTATCAGAATCATGG
1 TTTTTTTGTAGTCTAATAACAACGTTTTTGAAAGTTTACTTATTTGGCTATCAGAATCATGG
101720874 TTT
1 TTT
101720877 GTCTTTTTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (62 bp):
TTTTTTTGTAGTCTAATAACAACGTTTTTGAAAGTTTACTTATTTGGCTATCAGAATCATGG
Found at i:101724333 original size:51 final size:48
Alignment explanation
Indices: 101724264--101724380 Score: 146
Period size: 51 Copynumber: 2.4 Consensus size: 48
101724254 ATAAAATTGG
* *
101724264 ATAATT-AGATGATCATTTTATAATTTTTCATAATTAGGTGATAAAAAAATT
1 ATAATTGAG-TGA-CATTTTATAATTTTTCATAATTAAGTAAT-AAAAAA-T
**
101724315 ATAATTGAGTGACTATTTTATAATTTTTCATTGTTAAGTAATAAAAAAT
1 ATAATTGAGTGAC-ATTTTATAATTTTTCATAATTAAGTAATAAAAAAT
101724364 ATAATTGAGTGACATTT
1 ATAATTGAGTGACATTT
101724381 ATTATAGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
48 4 0.07
49 14 0.23
50 7 0.12
51 33 0.55
52 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (48 bp):
ATAATTGAGTGACATTTTATAATTTTTCATAATTAAGTAATAAAAAAT
Found at i:101725513 original size:30 final size:30
Alignment explanation
Indices: 101725479--101725540 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
101725469 ATTTATTTTA
* *
101725479 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
*
101725509 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
101725539 TT
1 TT
101725541 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:101727766 original size:29 final size:30
Alignment explanation
Indices: 101727724--101727787 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
101727714 TAGAGGTCTT
* *
101727724 ATCAAATTAGTCTTTCTACTAAT-AAATGA
1 ATCAAATTAATCTTTCTACTAATAAAAAGA
* * *
101727753 ATCAATTTAATCTTTTTACTATTAAAAAGA
1 ATCAAATTAATCTTTCTACTAATAAAAAGA
101727783 ATCAA
1 ATCAA
101727788 GTAAGGTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (30 bp):
ATCAAATTAATCTTTCTACTAATAAAAAGA
Found at i:101740168 original size:37 final size:39
Alignment explanation
Indices: 101740106--101740184 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 39
101740096 TGTCTTGGAC
*
101740106 TTTCTTATGTTAAAGAATTTAGATTATATTTTATTTTAT
1 TTTCTTATATTAAAGAATTTAGATTATATTTTATTTTAT
*
101740145 TTTCTTATATT-AAGAA-TTAGATTATATTTTATTTTGT
1 TTTCTTATATTAAAGAATTTAGATTATATTTTATTTTAT
101740182 TTT
1 TTT
101740185 GTTAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 23 0.61
38 5 0.13
39 10 0.26
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (39 bp):
TTTCTTATATTAAAGAATTTAGATTATATTTTATTTTAT
Found at i:101742422 original size:21 final size:22
Alignment explanation
Indices: 101742398--101742438 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
101742388 AAAATAAACT
*
101742398 TTATTTCATAAC-TTTTAAATA
1 TTATTTCACAACATTTTAAATA
*
101742419 TTATTTGACAACATTTTAAA
1 TTATTTCACAACATTTTAAA
101742439 ATTTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATTTCACAACATTTTAAATA
Found at i:101756489 original size:21 final size:21
Alignment explanation
Indices: 101756463--101756503 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
101756453 TTATGATATT
101756463 TATTTTAAATTA-ATTTTTAAA
1 TATTTT-AATTATATTTTTAAA
101756484 TATTTTAATTATATTTTTAA
1 TATTTTAATTATATTTTTAA
101756504 TTATCGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTAATTATATTTTTAAA
Found at i:101756504 original size:12 final size:12
Alignment explanation
Indices: 101756463--101756507 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
101756453 TTATGATATT
*
101756463 TATTTTAAATTA
1 TATTTTTAATTA
101756475 -ATTTTTAA--A
1 TATTTTTAATTA
101756484 TA-TTTTAATTA
1 TATTTTTAATTA
101756495 TATTTTTAATTA
1 TATTTTTAATTA
101756507 T
1 T
101756508 CGATGTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
9 7 0.25
10 1 0.04
11 10 0.36
12 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTTTAATTA
Found at i:101756658 original size:6 final size:7
Alignment explanation
Indices: 101756639--101756673 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
101756629 CACATAACTT
101756639 TTAAAAA
1 TTAAAAA
*
101756646 GTAAAAA
1 TTAAAAA
101756653 TTAAAAA
1 TTAAAAA
101756660 TTAAAAA
1 TTAAAAA
101756667 TTAAAAA
1 TTAAAAA
101756674 AAAAGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (7 bp):
TTAAAAA
Found at i:101756839 original size:27 final size:27
Alignment explanation
Indices: 101756792--101756844 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
101756782 TTAGAAATGC
* *
101756792 AATTAAAATATTTAAAGTTTGAGGATT
1 AATTAAAAAAGTTAAAGTTTGAGGATT
101756819 AATTAAAAAAGTTATAA-TTTGAGGAT
1 AATTAAAAAAGTTA-AAGTTTGAGGAT
101756845 GTTGAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (27 bp):
AATTAAAAAAGTTAAAGTTTGAGGATT
Found at i:101759529 original size:57 final size:58
Alignment explanation
Indices: 101759450--101759580 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 58
101759440 CCAGGTCGTT
* *
101759450 GGTCCACTCGGCTTAA-AGAAGTAGCCAAA-TCAGA-CATCTTATCACCAGTTGTTCATC
1 GGTCCCCTCGGCTTAAGAGAAGTAG-CAAAGCCAGATC-TCTTATCACCAGTTGTTCATC
* *
101759507 GGTCCCCTCGGCTTAAGA-AAGTAGCAAAGCCAGATCTTTTATCACCAGTTGTTCGTC
1 GGTCCCCTCGGCTTAAGAGAAGTAGCAAAGCCAGATCTCTTATCACCAGTTGTTCATC
*
101759564 AGTCCCCTCGGCTTAAG
1 GGTCCCCTCGGCTTAAG
101759581 GTATTATATC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
56 4 0.06
57 60 0.91
58 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (58 bp):
GGTCCCCTCGGCTTAAGAGAAGTAGCAAAGCCAGATCTCTTATCACCAGTTGTTCATC
Found at i:101766621 original size:15 final size:15
Alignment explanation
Indices: 101766601--101766630 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101766591 ACTGTTAGTC
101766601 TGCAATAATTTGCAT
1 TGCAATAATTTGCAT
101766616 TGCAATAATTTGCAT
1 TGCAATAATTTGCAT
101766631 CAAAACTACT
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:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
TGCAATAATTTGCAT
Found at i:101770646 original size:15 final size:15
Alignment explanation
Indices: 101770626--101770676 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
101770616 TGATCTGTCA
101770626 AATATATCTTATGAT
1 AATATATCTTATGAT
** *
101770641 AATATAT-AGA-AAT
1 AATATATCTTATGAT
101770654 CAATATATCTTATGAT
1 -AATATATCTTATGAT
101770670 AATATAT
1 AATATAT
101770677 AGAAATCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
AATATATCTTATGAT
Found at i:101770668 original size:29 final size:29
Alignment explanation
Indices: 101770626--101770688 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
101770616 TGATCTGTCA
101770626 AATATATCTTATGATAATATATAGAAATC
1 AATATATCTTATGATAATATATAGAAATC
101770655 AATATATCTTATGATAATATATAGAAATC
1 AATATATCTTATGATAATATATAGAAATC
101770684 AATAT
1 AATAT
101770689 TTAAATGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (29 bp):
AATATATCTTATGATAATATATAGAAATC
Found at i:101778022 original size:19 final size:19
Alignment explanation
Indices: 101777998--101778035 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101777988 TTTAATAGTC
101777998 TATATCTTTATAAATTTTA
1 TATATCTTTATAAATTTTA
101778017 TATATCTTTATAAATTTTA
1 TATATCTTTATAAATTTTA
101778036 AAGGATTAAA
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:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATCTTTATAAATTTTA
Found at i:101778555 original size:17 final size:17
Alignment explanation
Indices: 101778515--101778556 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
101778505 AATTGTAATA
*
101778515 AAAATTATTCAAAAATT
1 AAAATTATTCAAAAAAT
*
101778532 AATATTATT-AAATAAAT
1 AAAATTATTCAAA-AAAT
101778549 AAAATTAT
1 AAAATTAT
101778557 ATAGTTAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATTCAAAAAAT
Found at i:101783486 original size:27 final size:26
Alignment explanation
Indices: 101783455--101783512 Score: 107
Period size: 27 Copynumber: 2.2 Consensus size: 26
101783445 AAAATTAGCA
101783455 TGTATAATAAAATAATAAGATAATAGG
1 TGTATAATAAAATAATAAGATAATA-G
101783482 TGTATAATAAAATAATAAGATAATAG
1 TGTATAATAAAATAATAAGATAATAG
101783508 TGTAT
1 TGTAT
101783513 GACATGCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (26 bp):
TGTATAATAAAATAATAAGATAATAG
Found at i:101788533 original size:21 final size:22
Alignment explanation
Indices: 101788507--101788565 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
101788497 GTTTTAAGAA
*
101788507 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
101788528 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
101788550 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
101788566 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:101788580 original size:26 final size:24
Alignment explanation
Indices: 101788536--101788585 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
101788526 ATTTGTTTTA
*
101788536 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
101788560 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
101788586 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:101789196 original size:18 final size:18
Alignment explanation
Indices: 101789157--101789199 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
101789147 TTTTAATTAA
* *
101789157 TAATTATATTTTATATTT
1 TAATTATATTTTAAATTG
101789175 TAATTAT-TTTTAAATATG
1 TAATTATATTTTAAAT-TG
101789193 TAATTAT
1 TAATTAT
101789200 CACATCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTATATTTTAAATTG
Found at i:101791889 original size:27 final size:27
Alignment explanation
Indices: 101791850--101791904 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
101791840 TAAATAATCT
* * **
101791850 AAAACTTATAAAAAATATTTAAAATTA
1 AAAAATTAAAAAAAATACATAAAATTA
101791877 AAAAATTAAAAAAAATACATAAAATTA
1 AAAAATTAAAAAAAATACATAAAATTA
101791904 A
1 A
101791905 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (27 bp):
AAAAATTAAAAAAAATACATAAAATTA
Found at i:101791913 original size:25 final size:25
Alignment explanation
Indices: 101791885--101791933 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
101791875 TAAAAAATTA
*
101791885 AAAAAAATACATAAAATTA-ATAAAG
1 AAAAAAA-ACATAAAAATATATAAAG
*
101791910 AAAAACAACATAAAAATATATAAA
1 AAAAAAAACATAAAAATATATAAA
101791934 TTGTTATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAAAAAACATAAAAATATATAAAG
Found at i:101791914 original size:27 final size:27
Alignment explanation
Indices: 101791859--101791914 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
101791849 TAAAACTTAT
** **
101791859 AAAAAATATTTAAAATTAAAAAATTAA
1 AAAAAATACATAAAATTAAAAAAGAAA
*
101791886 AAAAAATACATAAAATTAATAAAGAAA
1 AAAAAATACATAAAATTAAAAAAGAAA
101791913 AA
1 AA
101791915 CAACATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (27 bp):
AAAAAATACATAAAATTAAAAAAGAAA
Found at i:101792075 original size:20 final size:21
Alignment explanation
Indices: 101792040--101792085 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
101792030 GATTAAAGGT
* *
101792040 TAAATTTAACTGAAAATAATA
1 TAAATTTAAATGAAAAAAATA
*
101792061 -AAATTTAAATTAAAAAAATA
1 TAAATTTAAATGAAAAAAATA
101792081 TAAAT
1 TAAAT
101792086 ATTATCTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAATTTAAATGAAAAAAATA
Found at i:101798351 original size:5 final size:5
Alignment explanation
Indices: 101798341--101798368 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
101798331 CTGTGTATTC
101798341 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
101798369 TCACAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:101804257 original size:29 final size:29
Alignment explanation
Indices: 101804199--101804260 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
101804189 TTAATTTCAT
* *
101804199 TTTTTTAATATTATTTAATTTTTATTTAA
1 TTTTATAATATTAATTAATTTTTATTTAA
101804228 TTTTATAA-ATTAATTAATATTTT-TTATAA
1 TTTTATAATATTAATTAAT-TTTTATT-TAA
101804257 TTTT
1 TTTT
101804261 TTATAATAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTATAATATTAATTAATTTTTATTTAA
Found at i:101804263 original size:31 final size:31
Alignment explanation
Indices: 101804192--101804268 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 31
101804182 GTAAGGGTTA
* *
101804192 ATTTCATTTTTT-TAATATTATTTAATTTTT
1 ATTTAATTTTTTATAATATTAATTAATTTTT
101804222 ATTTAA--TTTTATAA-ATTAATTAATATTTT
1 ATTTAATTTTTTATAATATTAATTAAT-TTTT
101804251 -TTATAATTTTTTATAATA
1 ATT-TAATTTTTTATAATA
101804269 GCTGACAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 15 0.38
29 10 0.26
30 5 0.13
31 8 0.21
32 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTAATTTTTTATAATATTAATTAATTTTT
Found at i:101804619 original size:88 final size:88
Alignment explanation
Indices: 101804468--101804639 Score: 227
Period size: 88 Copynumber: 2.0 Consensus size: 88
101804458 AAACTTAGAC
* * **
101804468 CCTAATTAACAAATAACCCATTGGGGATTACACGGCCAAAAACACTTCCATGTCAGAGCGCTTTT
1 CCTAATTAACAAATAACCCACTGAGGATTACACGGCCAAAAACACTTCCACATCAGAGCGCTTTT
*
101804533 GCGTAACACAAGGAAAAAAATGT
66 GCCTAACACAAGGAAAAAAATGT
* *** * *
101804556 CCTAATTAGCAAATAACCCACTGAGGATTACACGGCCAAAAGTGCTTCCACATTAGAGTGCTTTT
1 CCTAATTAACAAATAACCCACTGAGGATTACACGGCCAAAAACACTTCCACATCAGAGCGCTTTT
**
101804621 GCCTGGCACAAGGAAAAAA
66 GCCTAACACAAGGAAAAAA
101804640 GCGCTGATGT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (88 bp):
CCTAATTAACAAATAACCCACTGAGGATTACACGGCCAAAAACACTTCCACATCAGAGCGCTTTT
GCCTAACACAAGGAAAAAAATGT
Found at i:101808936 original size:29 final size:28
Alignment explanation
Indices: 101808873--101808941 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
101808863 ATGAGTAAAA
**
101808873 TTTTTAATAAAATGACTAATTTATTCTT
1 TTTTTAATAAAAAAACTAATTTATTCTT
*
101808901 TAATTTAATATAAAAAACTAATTTA-TCTAT
1 T-TTTTAATA-AAAAAACTAATTTATTCT-T
101808931 TTTTTAATAAA
1 TTTTTAATAAA
101808942 TAAGATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.09
29 17 0.50
30 14 0.41
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTTTAATAAAAAAACTAATTTATTCTT
Found at i:101811099 original size:14 final size:14
Alignment explanation
Indices: 101811080--101811107 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101811070 TGCCAAGATC
101811080 TTAAGCAAAAAAGT
1 TTAAGCAAAAAAGT
101811094 TTAAGCAAAAAAGT
1 TTAAGCAAAAAAGT
101811108 CACCTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
TTAAGCAAAAAAGT
Found at i:101811811 original size:6 final size:6
Alignment explanation
Indices: 101811800--101811830 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
101811790 CCACCATGAT
*
101811800 CATCAC CATCAC CATCAC CATCAC CACCAC C
1 CATCAC CATCAC CATCAC CATCAC CATCAC C
101811831 GTCATCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.55, G:0.00, T:0.13
Consensus pattern (6 bp):
CATCAC
Found at i:101811812 original size:18 final size:18
Alignment explanation
Indices: 101811788--101811830 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
101811778 TCATCATGAT
* *
101811788 CACCACCATGATCATCAC
1 CACCACCATCACCATCAC
*
101811806 CATCACCATCACCATCAC
1 CACCACCATCACCATCAC
101811824 CACCACC
1 CACCACC
101811831 GTCATCTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.51, G:0.02, T:0.14
Consensus pattern (18 bp):
CACCACCATCACCATCAC
Found at i:101828429 original size:39 final size:41
Alignment explanation
Indices: 101828354--101828447 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
101828344 AATTTCAGGC
* * *
101828354 ATGGACTCTTAATGGTTCTATTTTTGCACATAGGTTAGGCAT
1 ATGGACTCGT-ATGGTTCCATTTTGGCACATAGGTTAGGCAT
* *
101828396 ATGG-CTCGTATGGTTCCATTTTGGGA-ATAGGTTAGGCTT
1 ATGGACTCGTATGGTTCCATTTTGGCACATAGGTTAGGCAT
*
101828435 ATGGACTTGTATG
1 ATGGACTCGTATG
101828448 TTTTTCACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 16 0.36
40 21 0.47
41 4 0.09
42 4 0.09
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (41 bp):
ATGGACTCGTATGGTTCCATTTTGGCACATAGGTTAGGCAT
Found at i:101834428 original size:18 final size:20
Alignment explanation
Indices: 101834385--101834427 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
101834375 TGTTTCACGT
*
101834385 TTTTTATCTGTATATAATTA
1 TTTTTATCTGTATATAATGA
101834405 TTTTTATCTGTATAT-ATGA
1 TTTTTATCTGTATATAATGA
101834424 TTTT
1 TTTT
101834428 AAACTTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTTTATCTGTATATAATGA
Found at i:101840468 original size:11 final size:11
Alignment explanation
Indices: 101840454--101840498 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
101840444 AGATAAATAT
101840454 TATTTTATTAA
1 TATTTTATTAA
*
101840465 TATTTTAATAATA
1 TATTTT-ATTA-A
*
101840478 TATTTTATTAT
1 TATTTTATTAA
101840489 TATTTTATTA
1 TATTTTATTA
101840499 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:101840481 original size:24 final size:24
Alignment explanation
Indices: 101840449--101840504 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
101840439 TAATTAGATA
101840449 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
101840474 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
101840498 AGTATAT
1 AATATAT
101840505 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:101842681 original size:46 final size:46
Alignment explanation
Indices: 101842629--101842810 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
101842619 AGTGTACTCT
* *
101842629 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
101842675 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
101842721 GTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
101842767 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
101842811 TCATGTTAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:101844141 original size:35 final size:35
Alignment explanation
Indices: 101844102--101844292 Score: 107
Period size: 35 Copynumber: 5.2 Consensus size: 35
101844092 GGATAAACTA
*
101844102 ACGATATTTGCACCCAGTGCTAGTCAAATATACTG
1 ACGATATTTGCACCCAGTGCTAGTCAAATATACCG
* *** * *
101844137 ACGATAATAATTGTGAACCCAGCT-CTAGTTGGATAAACCA
1 ACG---AT-ATT-TGCACCCAG-TGCTAGTCAAATATACCG
*
101844177 ATGATATTTGCACCCAGTGCTAGTCAAATATACCG
1 ACGATATTTGCACCCAGTGCTAGTCAAATATACCG
* * *** * *
101844212 ACGATAATAATTGTGAGCCAAGCT-CTAGTTGGATAAACCA
1 ACGAT-AT--TTG-CA-CCCAG-TGCTAGTCAAATATACCG
*
101844252 ACGATATTTGCACCCAGTGCTAGTCAGATATACCG
1 ACGATATTTGCACCCAGTGCTAGTCAAATATACCG
*
101844287 ATGATA
1 ACGATA
101844293 ATAATTGTGA
Statistics
Matches: 113, Mismatches: 29, Indels: 28
0.66 0.17 0.16
Matches are distributed among these distances:
34 2 0.02
35 47 0.42
36 6 0.05
37 5 0.04
38 5 0.04
39 6 0.05
40 40 0.35
41 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (35 bp):
ACGATATTTGCACCCAGTGCTAGTCAAATATACCG
Found at i:101844169 original size:75 final size:75
Alignment explanation
Indices: 101844058--101844351 Score: 446
Period size: 75 Copynumber: 3.9 Consensus size: 75
101844048 AGTCGGACTA
* * *
101844058 ACCGACGATATTGAA-TGTGAGCCCAGCTCTAATTGGATAAACTAACGATATTTGCACCCAGTGC
1 ACCGACGATAAT-AATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGC
101844122 TAGTCAAATAT
65 TAGTCAAATAT
* * *
101844133 ACTGACGATAATAATTGTGAACCCAGCTCTAGTTGGATAAACCAATGATATTTGCACCCAGTGCT
1 ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCT
101844198 AGTCAAATAT
66 AGTCAAATAT
*
101844208 ACCGACGATAATAATTGTGAGCCAAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCT
1 ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCT
*
101844273 AGTCAGATAT
66 AGTCAAATAT
* * * * * *
101844283 ACCGATGATAATAATTGTGAGCCCAGCTCTCGTTGGATAAACCAACCATAATTGCGCCCAGCGCT
1 ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCT
101844348 AGTC
66 AGTC
101844352 GGATTAACCG
Statistics
Matches: 200, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
74 2 0.01
75 198 0.99
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (75 bp):
ACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCT
AGTCAAATAT
Found at i:101844256 original size:40 final size:39
Alignment explanation
Indices: 101844137--101844334 Score: 137
Period size: 40 Copynumber: 5.2 Consensus size: 39
101844127 AAATATACTG
101844137 ACGATAATAATTGTGAACCCAGCTCTAGTTGGATAAACCA
1 ACGATAATAATTGTG-ACCCAGCTCTAGTTGGATAAACCA
* * *** * *
101844177 ATGAT-AT--TTG-CACCCAG-TGCTAGTCAAATATACCG
1 ACGATAATAATTGTGACCCAGCT-CTAGTTGGATAAACCA
*
101844212 ACGATAATAATTGTGAGCCAAGCTCTAGTTGGATAAACCA
1 ACGATAATAATTGTGA-CCCAGCTCTAGTTGGATAAACCA
* ** * *
101844252 ACGAT-AT--TTG-CACCCAG-TGCTAGTCAGATATACCG
1 ACGATAATAATTGTGACCCAGCT-CTAGTTGGATAAACCA
* *
101844287 ATGATAATAATTGTGAGCCCAGCTCTCGTTGGATAAACCA
1 ACGATAATAATTGTGA-CCCAGCTCTAGTTGGATAAACCA
*
101844327 ACCATAAT
1 ACGATAAT
101844335 TGCGCCCAGC
Statistics
Matches: 114, Mismatches: 30, Indels: 28
0.66 0.17 0.16
Matches are distributed among these distances:
34 2 0.02
35 41 0.36
36 5 0.04
37 6 0.05
38 6 0.05
39 6 0.05
40 46 0.40
41 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (39 bp):
ACGATAATAATTGTGACCCAGCTCTAGTTGGATAAACCA
Found at i:101870394 original size:97 final size:95
Alignment explanation
Indices: 101870172--101870395 Score: 218
Period size: 97 Copynumber: 2.3 Consensus size: 95
101870162 AACCTCAAAT
* * * *
101870172 ATATAAAAACAAA-TTGAGCTAACAATCATGTTATCTGTCGGTAGATTGCTTGAATCATAGTTTA
1 ATATCAAAACAAAGTTGAGCCAACAATCATGTCATCTGTCGGTAGATTGCTTGAATCATAGTCTA
**
101870236 ACAGCCAAGCATGAAACCCAAAAATCTCAA
66 ACAGCCAAGCACCAAACCCAAAAATCTCAA
* ** *** * *
101870266 ATATCAAAAACCAAGTCAAGCCAATGGTCATGTCGTCTGTTGGTAGATTGCTT-AACTCATAGCT
1 ATATC-AAAACAAAGTTGAGCCAACAATCATGTCATCTGTCGGTAGATTGCTTGAA-TCATAG-T
* ** * * *
101870330 CTGATGGCCAAGGACCAAACCCTCACAATCTCAA
63 CTAACAGCCAAGCACCAAACCC-AAAAATCTCAA
101870364 ATATCAAAACAAAGTTGAGCCAACAATCATGT
1 ATATCAAAACAAAGTTGAGCCAACAATCATGT
101870396 AATTTGCTAG
Statistics
Matches: 99, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
94 4 0.04
95 9 0.09
96 35 0.35
97 37 0.37
98 14 0.14
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (95 bp):
ATATCAAAACAAAGTTGAGCCAACAATCATGTCATCTGTCGGTAGATTGCTTGAATCATAGTCTA
ACAGCCAAGCACCAAACCCAAAAATCTCAA
Found at i:101878649 original size:44 final size:44
Alignment explanation
Indices: 101878599--101878685 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
101878589 AAGTAGTATC
* *
101878599 TAAATATTAAATTA-GTAAAAATAAAGTTTAATAATTACAATATT
1 TAAATATT-AATTAGGTAAAAATAAACTTAAATAATTACAATATT
*
101878643 TAAATATTAATTAGGTAAAAATAAACTTAAATAATTATAATAT
1 TAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATAT
101878686 CTAATACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 5 0.13
44 34 0.87
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (44 bp):
TAAATATTAATTAGGTAAAAATAAACTTAAATAATTACAATATT
Found at i:101882977 original size:24 final size:24
Alignment explanation
Indices: 101882950--101883022 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
101882940 CATTTTCTGT
101882950 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
* * *
101882974 CATG--GTC-TTGT-TCATTTCAAT
1 CATGTTGCCATGGTATC-TTTCAAC
*
101882995 CACGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
101883019 CATG
1 CATG
101883023 GTCTTACACA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.33
22 2 0.06
23 2 0.06
24 16 0.44
25 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (24 bp):
CATGTTGCCATGGTATCTTTCAAC
Found at i:101883227 original size:46 final size:46
Alignment explanation
Indices: 101882909--101883227 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
101882899 TTTGACATGA
* * * * * *
101882909 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
101882955 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCA-ATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101883000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
101883046 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
101883092 TGCCGTGGTATCTTTCAACCATTGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
101883138 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
101883184 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101883228 AGAGCACACT
Statistics
Matches: 247, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 44 0.18
46 203 0.82
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101896771 original size:12 final size:12
Alignment explanation
Indices: 101896754--101896778 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101896744 CCTGTTTGTT
101896754 GTAGATATTGAA
1 GTAGATATTGAA
101896766 GTAGATATTGAA
1 GTAGATATTGAA
101896778 G
1 G
101896779 AGGTACCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GTAGATATTGAA
Found at i:101898236 original size:20 final size:20
Alignment explanation
Indices: 101898203--101898266 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
101898193 ATTTTATATT
*
101898203 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* **
101898222 TTTTTGAAAATTATTTCAAA
1 TTTTTAAAAATTATTTTGAA
* *
101898242 TTTTTAAAAATCATGTTGAA
1 TTTTTAAAAATTATTTTGAA
101898262 TTTTT
1 TTTTT
101898267 TTTGAAAGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:101898733 original size:32 final size:33
Alignment explanation
Indices: 101898697--101898758 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
101898687 GTTATTTTAT
*
101898697 TAAAAGT-AATAGGAAGGTTTTACAAAAGATAA
1 TAAAAGTAAAAAGGAAGGTTTTACAAAAGATAA
101898729 TAAAAGTAAAAAGGAAGGTTTTACAAAAGA
1 TAAAAGTAAAAAGGAAGGTTTTACAAAAGA
101898759 GAGAGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.55, C:0.03, G:0.19, T:0.23
Consensus pattern (33 bp):
TAAAAGTAAAAAGGAAGGTTTTACAAAAGATAA
Found at i:101899350 original size:29 final size:29
Alignment explanation
Indices: 101899310--101899368 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
101899300 TTGAAAGTAT
101899310 TTTGGATTATTGTAATCAAGTGTTTTTTA
1 TTTGGATTATTGTAATCAAGTGTTTTTTA
101899339 TTTGGATTATTGTAATCAAGTGTTTTTTA
1 TTTGGATTATTGTAATCAAGTGTTTTTTA
101899368 T
1 T
101899369 CTTCTTTGAC
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:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (29 bp):
TTTGGATTATTGTAATCAAGTGTTTTTTA
Found at i:101902707 original size:19 final size:21
Alignment explanation
Indices: 101902683--101902726 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
101902673 CTATTAAAAC
*
101902683 ATATATCTATTAA-ATA-TTA
1 ATATATCTAATAATATATTTA
*
101902702 ATATATTTAATAATATATTTA
1 ATATATCTAATAATATATTTA
101902723 ATAT
1 ATAT
101902727 TATTATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATCTAATAATATATTTA
Found at i:101902717 original size:12 final size:12
Alignment explanation
Indices: 101902700--101902725 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101902690 TATTAAATAT
101902700 TAATATATTTAA
1 TAATATATTTAA
101902712 TAATATATTTAA
1 TAATATATTTAA
101902724 TA
1 TA
101902726 TTATTATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAATATATTTAA
Found at i:101905204 original size:16 final size:17
Alignment explanation
Indices: 101905177--101905210 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
101905167 AAATGGATTT
101905177 AATAGAAATTAAATAGA
1 AATAGAAATTAAATAGA
101905194 AATAG-AATTAAATAGA
1 AATAGAAATTAAATAGA
101905210 A
1 A
101905211 TTCTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AATAGAAATTAAATAGA
Found at i:101907493 original size:26 final size:26
Alignment explanation
Indices: 101907463--101907515 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
101907453 CAACCATAAC
*
101907463 TAAAATGGAACTAATACAAAATACTA
1 TAAAATGAAACTAATACAAAATACTA
101907489 TAAAATGAAACTAATACAAAATACTA
1 TAAAATGAAACTAATACAAAATACTA
101907515 T
1 T
101907516 CGACTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (26 bp):
TAAAATGAAACTAATACAAAATACTA
Found at i:101910242 original size:137 final size:140
Alignment explanation
Indices: 101910031--101910314 Score: 484
Period size: 137 Copynumber: 2.0 Consensus size: 140
101910021 GAAACAACAA
*
101910031 GTGTTTGGATGAAAAAGCAAACATATGTCTGAGGATTTAGAAATAAATGTTTAGGGTGTGTTTTG
1 GTGTTTGGATGAAAAAGCAAACATATGTCTGAGGATTTAGAAATAAATGTTTAGGGTGTGTTTAG
* ** **
101910096 ATAGTAATTGCAAGAAAGGTTCATTATTAGGGTAATAATTACAATG-CCTT-GTA-GTATTCTAA
66 ATAGTAATTGCAAGAAAGGTTAATTATTAGGGTAATAATTACAATGTAATTACAAGGTATTCTAA
*
101910158 TTTCATTTAT
131 TTTCATATAT
101910168 GTGTTTGGATGAAAAAGCAAACATATGTCTGAGGATTTAGAAATAAATGTTTAGGGTGTGTTTAG
1 GTGTTTGGATGAAAAAGCAAACATATGTCTGAGGATTTAGAAATAAATGTTTAGGGTGTGTTTAG
101910233 ATAGTAATTGCAAGAAAGGTTAATTATTAGGGTAATAATTACAATGTAATTACAAGGTATTCTAA
66 ATAGTAATTGCAAGAAAGGTTAATTATTAGGGTAATAATTACAATGTAATTACAAGGTATTCTAA
101910298 TTTCATATAT
131 TTTCATATAT
101910308 GTGTTTG
1 GTGTTTG
101910315 CCTTACATAA
Statistics
Matches: 137, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
137 109 0.80
138 2 0.01
139 1 0.01
140 25 0.18
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (140 bp):
GTGTTTGGATGAAAAAGCAAACATATGTCTGAGGATTTAGAAATAAATGTTTAGGGTGTGTTTAG
ATAGTAATTGCAAGAAAGGTTAATTATTAGGGTAATAATTACAATGTAATTACAAGGTATTCTAA
TTTCATATAT
Found at i:101921176 original size:23 final size:24
Alignment explanation
Indices: 101921146--101921194 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
101921136 TCAAGCAATA
101921146 TATACATGTATAGC-AAATATGCT
1 TATACATGTATAGCAAAATATGCT
101921169 TATACATGTATAGCAAAATATGCT
1 TATACATGTATAGCAAAATATGCT
101921193 TA
1 TA
101921195 CATTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (24 bp):
TATACATGTATAGCAAAATATGCT
Found at i:101925506 original size:17 final size:18
Alignment explanation
Indices: 101925473--101925507 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
101925463 TCCCCAAAGG
101925473 ATTCTCGATCATATTCTT
1 ATTCTCGATCATATTCTT
*
101925491 ATTCTC-ATCATCTTCTT
1 ATTCTCGATCATATTCTT
101925508 TCTTCCTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.26, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTCTCGATCATATTCTT
Found at i:101928774 original size:17 final size:18
Alignment explanation
Indices: 101928741--101928775 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
101928731 TCCCCAAAGG
101928741 ATTCTCGATCATATTCTT
1 ATTCTCGATCATATTCTT
*
101928759 ATTCTC-ATCATCTTCTT
1 ATTCTCGATCATATTCTT
101928776 TCTTCCTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.26, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTCTCGATCATATTCTT
Found at i:101930088 original size:12 final size:12
Alignment explanation
Indices: 101930071--101930125 Score: 66
Period size: 11 Copynumber: 5.0 Consensus size: 12
101930061 TCAAATAATT
101930071 TAATTATTTAAA
1 TAATTATTTAAA
101930083 TAATTATTTAAA
1 TAATTATTTAAA
101930095 T-A--ATTT-AA
1 TAATTATTTAAA
101930103 TAATTATTT-AA
1 TAATTATTTAAA
*
101930114 TAATTTTTTAAA
1 TAATTATTTAAA
101930126 GTTGAATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 3 0.08
9 5 0.13
11 15 0.39
12 15 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTATTTAAA
Found at i:101930093 original size:20 final size:19
Alignment explanation
Indices: 101930068--101930119 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
101930058 TTTTCAAATA
*
101930068 ATTTAATTATTTAAATAATT
1 ATTTAATAATTT-AATAATT
101930088 ATTTAAATAATTTAATAATT
1 ATTT-AATAATTTAATAATT
101930108 ATTTAATAATTT
1 ATTTAATAATTT
101930120 TTTAAAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.27
20 15 0.50
21 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATAATTTAATAATT
Found at i:101931484 original size:24 final size:24
Alignment explanation
Indices: 101931457--101931504 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
101931447 TATGGACGAA
* *
101931457 GATGAAGATGATGAGGAAGAGGAG
1 GATGAAGAGGAGGAGGAAGAGGAG
*
101931481 GATGAAGAGGGGGAGGAAGAGGAG
1 GATGAAGAGGAGGAGGAAGAGGAG
101931505 AAAGAGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.52, T:0.08
Consensus pattern (24 bp):
GATGAAGAGGAGGAGGAAGAGGAG
Found at i:101931487 original size:12 final size:12
Alignment explanation
Indices: 101931469--101931504 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
101931459 TGAAGATGAT
101931469 GAGGAAGAGGAG
1 GAGGAAGAGGAG
* *
101931481 GATGAAGAGGGG
1 GAGGAAGAGGAG
101931493 GAGGAAGAGGAG
1 GAGGAAGAGGAG
101931505 AAAGAGAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.58, T:0.03
Consensus pattern (12 bp):
GAGGAAGAGGAG
Done.