Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_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: 2744542
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:970177 original size:74 final size:74
Alignment explanation
Indices: 970067--970209 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 74
970057 CGCAACACGA
* *
970067 AAATGATTATCGCAACGTGAATTTGACTATCGCAACGGGATAATCACAATGCAAAAACGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCACAATGCAAAAACGACTATC
970132 GCAATGCGG
66 GCAATGCGG
* * * *
970141 AAATGACTATCGCAACGCGAATTTGACTATTGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCACAATGCAAAAACGACTATC
970206 GCAA
66 GCAA
970210 CGCGAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCACAATGCAAAAACGACTATC
GCAATGCGG
Found at i:970233 original size:19 final size:19
Alignment explanation
Indices: 970211--970252 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
970201 CTATCGCAAC
970211 GCGAATTTAGTTTCGCATT
1 GCGAATTTAGTTTCGCATT
* * *
970230 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCATT
970249 GCGA
1 GCGA
970253 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCATT
Found at i:970253 original size:19 final size:19
Alignment explanation
Indices: 970220--970256 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
970210 CGCGAATTTA
970220 GTTTCGCATTGCGATTTTG
1 GTTTCGCATTGCGATTTTG
*
970239 GTTTCGCGTTGCGATTTT
1 GTTTCGCATTGCGATTTT
970257 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
GTTTCGCATTGCGATTTTG
Found at i:970337 original size:20 final size:20
Alignment explanation
Indices: 970261--970337 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
970251 GATTTTCTCG
970261 TTGCGATAGTC-ATTTCGCA
1 TTGCGATAGTCAATTTCGCA
970280 TTGCGATAGTCAAATTT-GCA
1 TTGCGATAGTC-AATTTCGCA
*
970300 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
* *
970320 TTGCGATAATCATTTTCG
1 TTGCGATAGTCAATTTCG
970338 TGTTGCGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 15 0.29
20 32 0.63
21 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:970343 original size:20 final size:20
Alignment explanation
Indices: 970320--970366 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
970310 CAAATTCGCA
* *
970320 TTGCGATAATCATTTTCGTG
1 TTGCGATAATAAGTTTCGTG
**
970340 TTGCGATTTTAAGTTTCGTG
1 TTGCGATAATAAGTTTCGTG
970360 TTGCGAT
1 TTGCGAT
970367 TTTAAGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (20 bp):
TTGCGATAATAAGTTTCGTG
Found at i:970344 original size:40 final size:40
Alignment explanation
Indices: 970252--970346 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
970242 TCGCGTTGCG
* *
970252 ATTTTC-TCGTTGCGATAGTCATTTCGCATTGCGATAGTCA
1 ATTTTCGT-GTTGCGATAGTCAATTCGCATTGCGATAATCA
* **
970292 AATTT-GCATTGCGATAGTCAAATTCGCATTGCGATAATC-
1 ATTTTCGTGTTGCGATAGTC-AATTCGCATTGCGATAATCA
970331 ATTTTCGTGTTGCGAT
1 ATTTTCGTGTTGCGAT
970347 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
39 15 0.34
40 29 0.66
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (40 bp):
ATTTTCGTGTTGCGATAGTCAATTCGCATTGCGATAATCA
Found at i:970367 original size:20 final size:20
Alignment explanation
Indices: 970333--970375 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
970323 CGATAATCAT
970333 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
970353 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
970373 TTT
1 TTT
970376 TAGAAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:970885 original size:21 final size:21
Alignment explanation
Indices: 970859--970962 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
970849 CTCACCTGTC
*
970859 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
*
970880 ATCGTTCAAGAGGCCCCT-AT
1 ATCGTTCAAGAGGCCCCTCCT
** * *
970900 CATCCCTCAAGAGTCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
970922 ACCGTTCAAGAGGCCCCTGCC-
1 ATCGTTCAAGAGGCCCCT-CCT
* *
970943 ATCGTTGAAGAGGTCCCTCC
1 ATCGTTCAAGAGGCCCCTCC
970963 CAACATTCTA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.05
21 61 0.92
22 2 0.03
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:970954 original size:42 final size:42
Alignment explanation
Indices: 970853--970964 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
970843 GCCCGACTCA
* * * *
970853 CCTGTCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
* **
970895 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
* *
970937 CCTGCCATCGTTGAAGAGGT-CCCTCCCA
1 CCTGTCATCGTTCAAGA-GTCCCCTCCCA
970965 ACATTCTAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.20, C:0.39, G:0.19, T:0.22
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
Found at i:972377 original size:30 final size:30
Alignment explanation
Indices: 972338--972401 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
972328 ATAAGAGTTG
*
972338 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTATTTAATTGATGTGTAAATAATTCTT
972368 ATTTATTTAATTGATGTGTAAATAATTCTT
1 ATTTATTTAATTGATGTGTAAATAATTCTT
972398 ATTT
1 ATTT
972402 GTGCTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (30 bp):
ATTTATTTAATTGATGTGTAAATAATTCTT
Found at i:972524 original size:20 final size:20
Alignment explanation
Indices: 972499--972722 Score: 240
Period size: 20 Copynumber: 11.8 Consensus size: 20
972489 GCGATTTTCT
*
972499 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
972519 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
972539 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
972558 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
972572 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
972592 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
**
972612 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
972632 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
*
972646 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
972666 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
972686 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
972706 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
972723 GAATGTGTAA
Statistics
Matches: 175, Mismatches: 17, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
14 21 0.12
16 2 0.01
17 1 0.01
18 1 0.01
19 16 0.09
20 134 0.77
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:972525 original size:34 final size:34
Alignment explanation
Indices: 972461--972714 Score: 195
Period size: 40 Copynumber: 7.0 Consensus size: 34
972451 CTGCATCATA
* * * *
972461 TTCGCGTTGCGATAGTCTAATACACTTTGCGATT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
* *
972495 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T
*
972531 CAAATTCGCGTTGCGATAGTC-ATTTCGCGTTGCGATT
1 ----TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
* *
972568 ATCTCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGC----G--ATT
** *
972608 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
* * *
972642 ATCCCGTTGCGATAGTCAAATTCACGTTGCGATAGTCAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCG--A-T--T
*
972681 ATTCGCGTTGCGATAGTCATATTCGCGTTGCGAT
1 -TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
972715 AGTCAAATGA
Statistics
Matches: 175, Mismatches: 26, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
33 15 0.09
34 67 0.38
36 3 0.02
37 3 0.02
38 2 0.01
39 14 0.08
40 71 0.41
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (34 bp):
TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATT
Found at i:972587 original size:53 final size:54
Alignment explanation
Indices: 972519--972620 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 54
972509 GTCAAATTCC
972519 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCA-TTTCGCGTTGCGATTATCT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTATCT
*
972572 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGAT
972621 AGTCATTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 33 0.70
54 14 0.30
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (54 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTATCT
Found at i:972650 original size:54 final size:54
Alignment explanation
Indices: 972592--972694 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
972582 GTCAAATTCG
** * *
972592 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATATTCGCATTGCGATTATCC
*
972646 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATATTCGCATTGCGAT
972695 AGTCATATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATATTCGCATTGCGATTATCC
Found at i:972663 original size:74 final size:74
Alignment explanation
Indices: 972456--972714 Score: 387
Period size: 74 Copynumber: 3.5 Consensus size: 74
972446 TCAATCTGCA
* * * * *
972456 TCATATTCGCGTTGCGATAGTC-TAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCC
1 TCATATTCGCGTTGCGATAGTCAT-ATTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCAC
*
972520 GTTGCGATAA
65 GTTGCGATAG
* *
972530 TCAAATTCGCGTTGCGATAGTCAT-TTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGCG
1 TCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCACG
972594 TTGCGATAG
66 TTGCGATAG
* * * *
972603 TCATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCACG
1 TCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCACG
972668 TTGCGATAG
66 TTGCGATAG
972677 TCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGAT
1 TCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGAT
972715 AGTCAAATGA
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
73 65 0.39
74 102 0.61
75 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (74 bp):
TCATATTCGCGTTGCGATAGTCATATTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCACG
TTGCGATAG
Found at i:974954 original size:14 final size:14
Alignment explanation
Indices: 974935--974971 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
974925 TCCCGTGGCA
974935 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
974949 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
974963 TTCTTCTTC
1 TT-TTCTTC
974972 TTTTCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:975183 original size:24 final size:24
Alignment explanation
Indices: 975156--975209 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
975146 CTGAAACATC
975156 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
975180 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
975204 ATCAAA
1 ATCAAA
975210 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:976058 original size:20 final size:20
Alignment explanation
Indices: 976030--976157 Score: 134
Period size: 20 Copynumber: 6.3 Consensus size: 20
976020 AATTCAGTGA
*
976030 TGCGTTAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
976050 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
* **
976070 TACGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
**
976091 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
976112 TGCGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
976132 TGCGATAGTCAGAATCGCAT
1 TGCGATAGTCAGAATCGCGT
976152 TGCGAT
1 TGCGAT
976158 CAAGTGTTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.02
20 56 0.59
21 35 0.37
22 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:976089 original size:21 final size:21
Alignment explanation
Indices: 976063--976178 Score: 105
Period size: 21 Copynumber: 5.6 Consensus size: 21
976053 GATAGTCAGA
*
976063 ATCGCGTTACGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
976084 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
***
976105 ATCGCGTTGCGAT-A-GTCCGA
1 ATCGCGTTGCGATCACGT-ATT
**
976125 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
* * *
976145 ATCGCATTGCGATCAAGTGTT
1 ATCGCGTTGCGATCACGTATT
976166 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
976179 TTACATATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 32 0.39
21 46 0.56
22 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:976198 original size:61 final size:61
Alignment explanation
Indices: 976043--976178 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 61
976033 GTTAGTCAGA
* * ** * *
976043 ATCGCGTTGCGATAGT-CAGAATCGCGTTACGATCACGT-ATTATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATAGTAC-GAATCGCATTGCGAT-A-GTCAGAATCGCATTGCGATCAAGTATT
* * *
976105 ATCGCGTTGCGATAGTCCGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATCAAGTGTT
1 ATCGCGTTGCGATAGTACGAATCGCATTGCGATAGTCAGAATCGCATTGCGATCAAGTATT
976166 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
976179 TTACATATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 2 0.03
61 33 0.50
62 30 0.45
63 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTACGAATCGCATTGCGATAGTCAGAATCGCATTGCGATCAAGTATT
Found at i:976210 original size:82 final size:82
Alignment explanation
Indices: 976030--976211 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 82
976020 AATTCAGTGA
* * * *
976030 TGCGTTAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTACGATCACGTATTATCGCGTTGCG
1 TGCGATAGTCAAAATCGCGTTGCGATAGTCAGAATCGCATTACGATCAAGTATTATCGCGTTGCG
* *
976095 ATCACGTATTATCGCGT
66 ATCACATATTATCGCAT
** * *
976112 TGCGATAGTCCGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATCAAGTGTTATCGCGTTGCG
1 TGCGATAGTCAAAATCGCGTTGCGATAGTCAGAATCGCATTACGATCAAGTATTATCGCGTTGCG
*
976177 ATTTACATA-T-TCGCAT
66 A-TCACATATTATCGCAT
976193 TGCGATTA-TCTAAAATCGC
1 TGCGA-TAGTC-AAAATCGC
976212 AATGCGGATT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
81 12 0.14
82 69 0.80
83 5 0.06
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (82 bp):
TGCGATAGTCAAAATCGCGTTGCGATAGTCAGAATCGCATTACGATCAAGTATTATCGCGTTGCG
ATCACATATTATCGCAT
Found at i:976217 original size:21 final size:20
Alignment explanation
Indices: 976187--976240 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
976177 ATTTACATAT
* *
976187 TCGCATTGCGATTATCTAAAA
1 TCGCAATGCGATT-TCGAAAA
976208 TCGCAATGCGGATTTCGAAAA
1 TCGCAATGC-GATTTCGAAAA
*
976229 TCACAATGCGAT
1 TCGCAATGCGAT
976241 GGTCAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAATGCGATTTCGAAAA
Found at i:977343 original size:59 final size:59
Alignment explanation
Indices: 977243--977370 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 59
977233 ATAGTGCTAA
* * * * ** *
977243 CCCGAGTATGACAGATAAGGTTGTGTCCACCATCTGTACTAAGTATACTTAAGTACAGT
1 CCCGAATATGACACATAAGATTGTGTCCACCATATACACTAAGTATACTTAAGTACAAT
* * * **
977302 CCCGAATATGACACATAAGATTGTGTCCACTATATACACTAATTATACTTTAGTGTAAT
1 CCCGAATATGACACATAAGATTGTGTCCACCATATACACTAAGTATACTTAAGTACAAT
977361 CCCGAATATG
1 CCCGAATATG
977371 CAGCATGTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (59 bp):
CCCGAATATGACACATAAGATTGTGTCCACCATATACACTAAGTATACTTAAGTACAAT
Found at i:978991 original size:30 final size:31
Alignment explanation
Indices: 978955--979012 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
978945 ACCATTAAAC
978955 CAAGACACCT-AACCTTATCATCTTCCAAAA
1 CAAGACACCTAAACCTTATCATCTTCCAAAA
978985 CAAGACACCTAAACCTTATCATCTTCCA
1 CAAGACACCTAAACCTTATCATCTTCCA
979013 TAAGTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.38, C:0.34, G:0.03, T:0.24
Consensus pattern (31 bp):
CAAGACACCTAAACCTTATCATCTTCCAAAA
Found at i:981623 original size:11 final size:11
Alignment explanation
Indices: 981607--981631 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
981597 TTTCATGCTA
981607 AATTTACCTTT
1 AATTTACCTTT
981618 AATTTACCTTT
1 AATTTACCTTT
981629 AAT
1 AAT
981632 GAATATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTACCTTT
Found at i:981733 original size:30 final size:31
Alignment explanation
Indices: 981697--981758 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
981687 AATTACCATT
981697 AAACCAAGACACCT-AACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
981727 AAACCAAGACACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTAAACCTTATCATCTTCC
981758 A
1 A
981759 TAAGTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.39, C:0.35, G:0.03, T:0.23
Consensus pattern (31 bp):
AAACCAAGACACCTAAACCTTATCATCTTCC
Found at i:986823 original size:131 final size:131
Alignment explanation
Indices: 986634--986914 Score: 352
Period size: 131 Copynumber: 2.1 Consensus size: 131
986624 CTCTTTTTAG
* * *
986634 ATTTGATCTTCCCTGAAGAAAAGTAAAGTAAATCAATCTCGATTTAATCTTCCCTGAAGAGTAGT
1 ATTTGATCTCCCCTGAAGAAAAGTAAAGCAAATCAATCTCGATTTAATCTTCCCTGAAGAGCAGT
* * * * *
986699 GAAGTGAATCAACATTT-TCAAATCTGATCTACCCTGAAGAGTAGCGGAGCAGATCCCTTTTCAC
66 GAAATGAATCAACATTTCT-AAATCTGATCTACCCTGAAGAGCAGCAGAGCAAATCCCGTTTCAC
986763 AT
130 AT
* ** * *
986765 ATTTGATCTCCCCTTAAGAGTAGTGAAGCAAATGAATCAT-GATTTAATC-TCCCTTGAAGAGCA
1 ATTTGATCTCCCCTGAAGAAAAGTAAAGCAAATCAATC-TCGATTTAATCTTCCC-TGAAGAGCA
* *
986828 GTGAAATGAATCAACATTTCTAGATCTGATCTACCCTGAAGAGCAGCAGAGCAAATCGCGTTTCA
64 GTGAAATGAATCAACATTTCTAAATCTGATCTACCCTGAAGAGCAGCAGAGCAAATCCCGTTTCA
986893 CAT
129 CAT
** *
986896 ATTCAATCTTCCCTGAAGA
1 ATTTGATCTCCCCTGAAGA
986915 CCAGTTTCTA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
130 4 0.03
131 122 0.95
132 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (131 bp):
ATTTGATCTCCCCTGAAGAAAAGTAAAGCAAATCAATCTCGATTTAATCTTCCCTGAAGAGCAGT
GAAATGAATCAACATTTCTAAATCTGATCTACCCTGAAGAGCAGCAGAGCAAATCCCGTTTCACA
T
Found at i:990046 original size:20 final size:20
Alignment explanation
Indices: 990008--990046 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
989998 ATCTTTGGAT
*
990008 TTAATTTTTTTTGGTTTGTG
1 TTAATTTTTTTTGGATTGTG
990028 TTAATTTTTTGTT-GATTGT
1 TTAATTTTTT-TTGGATTGT
990047 TATCCCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.69
Consensus pattern (20 bp):
TTAATTTTTTTTGGATTGTG
Found at i:990662 original size:23 final size:23
Alignment explanation
Indices: 990608--990662 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
990598 TAAGAATAAT
990608 TATGTCTTTGTGACACATTTATC
1 TATGTCTTTGTGACACATTTATC
* * *
990631 TCTGTCTTTGTGGCACGTTTATC
1 TATGTCTTTGTGACACATTTATC
*
990654 TATGCCTTT
1 TATGTCTTT
990663 TGGTAGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (23 bp):
TATGTCTTTGTGACACATTTATC
Found at i:995118 original size:20 final size:20
Alignment explanation
Indices: 995095--995133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
995085 AAATATAAAC
*
995095 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
995115 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
995134 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:1000801 original size:12 final size:12
Alignment explanation
Indices: 1000784--1000842 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
1000774 ATGCTTGAAG
1000784 AAAAAGAAAGAA
1 AAAAAGAAAGAA
1000796 AAAAAGAAA-AA
1 AAAAAGAAAGAA
1000807 AAAAGGAGAAAAGAA
1 AAAA--AG-AAAGAA
1000822 AAAAA-AGAAGAA
1 AAAAAGA-AAGAA
1000834 AAAAAGAAA
1 AAAAAGAAA
1000843 AAGGGGATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.17
12 21 0.51
13 4 0.10
14 3 0.07
15 6 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:1000804 original size:18 final size:18
Alignment explanation
Indices: 1000781--1000845 Score: 78
Period size: 18 Copynumber: 3.5 Consensus size: 18
1000771 ATTATGCTTG
1000781 AAGAAAAAGAAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
*
1000799 AAGAAAAAAAAAGGAGAAAA
1 AAGAAAAAGAAA-GA-AAAA
*
1000819 GAAAAAAAAG-AAGAAAAA
1 -AAGAAAAAGAAAGAAAAA
1000837 AAGAAAAAG
1 AAGAAAAAG
1000846 GGGATCAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 8 0.20
18 15 0.38
19 4 0.10
20 6 0.15
21 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAGAAAAA
Found at i:1000845 original size:17 final size:17
Alignment explanation
Indices: 1000781--1000845 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 17
1000771 ATTATGCTTG
1000781 AAGAAAAAGAAAGAAAAA
1 AAGAAAAAG-AAGAAAAA
*
1000799 AAGAAAAAAAAAGGAGAAAA
1 AAG-AAAAAGAA-GA-AAAA
*
1000819 GAAAAAAAAGAAGAAAAA
1 -AAGAAAAAGAAGAAAAA
1000837 AAGAAAAAG
1 AAGAAAAAG
1000846 GGGATCAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.21
18 9 0.23
19 9 0.23
20 11 0.28
21 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAGAAAAA
Found at i:1002021 original size:83 final size:83
Alignment explanation
Indices: 1001882--1002267 Score: 624
Period size: 83 Copynumber: 4.7 Consensus size: 83
1001872 CATTAAATGA
* * * * *
1001882 AAGATGAATTTTCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAAA
1 AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
1001947 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTTGG
*
1001965 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1002030 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
* *
1002048 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC-----TGGCAGA
1 AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1002108 ACCAATCA-TGAA-TTGG
66 ACCAATCATTGAATTTGG
*
1002124 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1002189 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTTGG
*
1002207 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1002268 TAAGAACTAC
Statistics
Matches: 281, Mismatches: 15, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
76 54 0.19
77 4 0.01
78 15 0.05
81 15 0.05
82 4 0.01
83 189 0.67
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
AAGATGAATATGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
ACCAATCATTGAATTTGG
Found at i:1002178 original size:159 final size:161
Alignment explanation
Indices: 1001882--1002262 Score: 667
Period size: 159 Copynumber: 2.3 Consensus size: 161
1001872 CATTAAATGA
* *
1001882 AAGATGAATTTTCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-G----GCAAA
1001947 ACCAATCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
61 ACCAATCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1002012 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTGG
126 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTGG
* *
1002048 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGCAGAACCAA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGCAAAACCAA
1002113 TCA-TGAATT-GGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1002176 CTGGTTTGGCAGAACCAATCATTGAATTTGG
131 CTGGTTTGGCAGAACCAATCATTGAATTTGG
1002207 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1002263 TTTGGTAAGA
Statistics
Matches: 210, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
159 140 0.67
160 6 0.03
161 12 0.06
165 1 0.00
166 51 0.24
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (161 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGCAAAACCAA
TCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGCAGAACCAATCATTGAATTTGG
Found at i:1003183 original size:113 final size:114
Alignment explanation
Indices: 1002997--1003843 Score: 1111
Period size: 114 Copynumber: 7.5 Consensus size: 114
1002987 TCATTTGAAA
*
1002997 GATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
1003061 TAATGAGAAGAACTTGTTCAACCTTTTACCTGAATCCATC-ATTTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
*
1003109 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
1003174 TAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
* * *
1003223 GATTATCTTTTCCAGAGAAAGTTCATAACGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
1003288 TAATGAGAAGAATTTGTTCAACCTTTTTTCTGAAGTCATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
* * * *
1003337 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAAAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
1003402 TAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
* * * *
1003451 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAAAACCCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
1003516 TAATGAGAAGAATTTGTTCAACCTTTTTTTCTGAATTAATCAAATTGATG
66 TAATGAGAAGAACTTGTTCAACC-TTTTTCCTGAATTCATCAAATTGATG
* *
1003566 GATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT-------GAAGAAGAAGTTCA
1 GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
1003624 TAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATC--ATTGGATG
66 TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATT-GATG
* * ** *
1003672 GATCAAT-ATTGCCAG-GTTGAGTTCATAATGAGAAGAACTCGTCATATGAAGAAGGAAGAAGAA
1 GATC-ATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAA
* * *
1003735 GTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCAT----TTGA-G
61 GTTCATAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
* ** *
1003784 GATCATCATCCCCAGTAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 GATCATCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1003844 TTTATTCAAT
Statistics
Matches: 680, Mismatches: 36, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
105 4 0.01
106 30 0.04
107 15 0.02
108 36 0.05
109 12 0.02
110 12 0.02
111 3 0.00
112 28 0.04
113 106 0.16
114 314 0.46
115 67 0.10
116 53 0.08
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (114 bp):
GATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATG
Found at i:1003632 original size:17 final size:17
Alignment explanation
Indices: 1003581--1003635 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
1003571 TCTTTTCCAG
1003581 AGAAGGTTCATAATGAGA
1 AGAA-GTTCATAATGAGA
* *
1003599 AGAA-CTCAT-CTGAAGA
1 AGAAGTTCATAATG-AGA
1003615 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
1003632 AGAA
1 AGAA
1003636 CTTGTTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 11 0.37
18 6 0.20
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATGAGA
Found at i:1003841 original size:116 final size:115
Alignment explanation
Indices: 1003610--1003827 Score: 320
Period size: 116 Copynumber: 1.9 Consensus size: 115
1003600 GAACTCATCT
1003610 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTGGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCAT-ATTGGATGGAT
** * * *
1003675 CAATATTGCCAGGTTGAGTTCATAATGAGAAGAACTCGTCATATGAAGAAG
65 CAATATCCCCAGGTAGAGTTCATAATGAGAAGAACTCATCATAAGAAGAAG
1003726 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCAT-TT-GA-GGATC
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATATTGGATGGATC
1003788 -ATCATCCCCA-GTAGAAAGTTCATAATGAGAAGAACTCATC
66 AAT-ATCCCCAGGTAG--AGTTCATAATGAGAAGAACTCATC
1003828 TGAAGAAAGA
Statistics
Matches: 95, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
111 5 0.05
112 10 0.11
113 25 0.26
114 2 0.02
116 53 0.56
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (115 bp):
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATATTGGATGGATC
AATATCCCCAGGTAGAGTTCATAATGAGAAGAACTCATCATAAGAAGAAG
Found at i:1003985 original size:3 final size:3
Alignment explanation
Indices: 1003974--1004083 Score: 134
Period size: 3 Copynumber: 37.0 Consensus size: 3
1003964 ATTAATTTTT
* *
1003974 TTA TCA TTA TTA TTA TTAA ATA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
1004019 TTA CTA TTA TTA -TA TTA CTA TTA TTA TTA GTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1004066 TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
1004084 AATATATATT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
2 4 0.04
3 85 0.93
4 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1006299 original size:29 final size:29
Alignment explanation
Indices: 1006257--1006315 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1006247 ATTTCCACCT
1006257 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1006286 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1006315 A
1 A
1006316 TTGATGTAAG
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:1006320 original size:23 final size:23
Alignment explanation
Indices: 1006261--1006340 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 23
1006251 CCACCTAACT
1006261 AAATTGATGTAAGCAATGACATCAAAAC
1 AAATTGATGTAAGCAATGACAT-----C
1006289 TAAATTGATGTAAGCAATGACATC
1 -AAATTGATGTAAGCAATGACATC
*
1006313 AAATTGATGTAAGCAATGACATA
1 AAATTGATGTAAGCAATGACATC
1006336 AAATT
1 AAATT
1006341 AATTTAGGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
23 27 0.54
24 1 0.02
29 22 0.44
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.26
Consensus pattern (23 bp):
AAATTGATGTAAGCAATGACATC
Found at i:1015403 original size:19 final size:19
Alignment explanation
Indices: 1015379--1015415 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1015369 CTTTAATTCG
1015379 TTTTATTTAATTATTTTTC
1 TTTTATTTAATTATTTTTC
1015398 TTTTATTTAATTATTTTT
1 TTTTATTTAATTATTTTT
1015416 TTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTTAATTATTTTTC
Found at i:1015468 original size:3 final size:3
Alignment explanation
Indices: 1015453--1015519 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
1015443 CCTTTTATAT
* *
1015453 TTA TTA CTA TTA TTA TTA ATA TTTA TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
1015498 TT- TTT TTA TTA TTTA TT- TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TT
1015520 TTAATATATC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
2 6 0.11
3 43 0.80
4 5 0.09
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1015504 original size:20 final size:20
Alignment explanation
Indices: 1015462--1015521 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1015452 TTTATTACTA
* *
1015462 TTATTATTAATATTTATTATT
1 TTATTATTATTA-TTATTTTT
1015483 TTATTATTATTATTATTTTT
1 TTATTATTATTATTATTTTT
1015503 TTATTATTTATT-TTATTTT
1 TTATTA-TTATTATTATTTT
1015522 AATATATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 20 0.56
21 16 0.44
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTATTATTATTATTTTT
Found at i:1015521 original size:17 final size:16
Alignment explanation
Indices: 1015445--1015522 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 16
1015435 TAAAATCCCC
*
1015445 TTTTATATTTATTACTA
1 TTTTAT-TTTATTATTA
*
1015462 TTATTATTAATATTTATTA
1 TT-TTATT-TTA-TTATTA
1015481 TTTTATTATTATTATTA
1 TTTTATT-TTATTATTA
1015498 -TTT-TTTTATTATTTA
1 TTTTATTTTATTA-TTA
1015513 TTTTATTTTA
1 TTTTATTTTA
1015523 ATATATCTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
14 6 0.12
15 5 0.10
16 6 0.12
17 14 0.27
18 14 0.27
19 7 0.13
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:1016703 original size:17 final size:17
Alignment explanation
Indices: 1016681--1016713 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1016671 TAGTTTCCCA
1016681 AAATAATAA-TTAAATTT
1 AAATAA-AATTTAAATTT
1016698 AAATAAAATTTAAATT
1 AAATAAAATTTAAATT
1016714 AGATTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAAAATTTAAATTT
Found at i:1020055 original size:24 final size:25
Alignment explanation
Indices: 1020009--1020063 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
1019999 TTTCAATTAT
1020009 CAAAATAAATTAAGAAAAAATCCAA
1 CAAAATAAATTAAGAAAAAATCCAA
**
1020034 CAAAATAAATT-TTAAAAAATCCAA
1 CAAAATAAATTAAGAAAAAATCCAA
*
1020058 CCAAAT
1 CAAAAT
1020064 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.64, C:0.15, G:0.02, T:0.20
Consensus pattern (25 bp):
CAAAATAAATTAAGAAAAAATCCAA
Found at i:1027185 original size:31 final size:30
Alignment explanation
Indices: 1027101--1027206 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 30
1027091 GTCGAGGGTT
*
1027101 TACCTATGTTCTACAGAACATATGGATAGAA
1 TACCTATGTTCTA-AGAACATATGGATAGTA
** *
1027132 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 -TACCTATGTTC-TAAGA-ACATATGGATAGTA
*
1027164 TACCTATGTTCTAAGGAACATATGGATAGTT
1 TACCTATGTTCTAA-GAACATATGGATAGTA
*
1027195 TACCTAGGTTCT
1 TACCTATGTTCT
1027207 TTAGGACCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
31 36 0.59
32 25 0.41
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (30 bp):
TACCTATGTTCTAAGAACATATGGATAGTA
Found at i:1031661 original size:21 final size:21
Alignment explanation
Indices: 1031635--1031740 Score: 115
Period size: 21 Copynumber: 5.0 Consensus size: 21
1031625 GGCACATAGG
1031635 ATTTGTCCTGAAGGACCACAT
1 ATTTGTCCTGAAGGACCACAT
* *
1031656 ATTTGTCCCGAATGACCACAT
1 ATTTGTCCTGAAGGACCACAT
* * *
1031677 ATTTTTCCCGAATGACCACAT
1 ATTTGTCCTGAAGGACCACAT
*
1031698 ATTTGT-CTCAGAGGACCACAT
1 ATTTGTCCTGA-AGGACCACAT
* * *
1031719 ATTTATCTTAAAGGACCACAT
1 ATTTGTCCTGAAGGACCACAT
1031740 A
1 A
1031741 AAACCCTCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 2 0.03
21 69 0.95
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (21 bp):
ATTTGTCCTGAAGGACCACAT
Found at i:1032786 original size:16 final size:17
Alignment explanation
Indices: 1032765--1032797 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1032755 CACATGATTT
1032765 TTTACAC-TAACATGTA
1 TTTACACATAACATGTA
*
1032781 TTTACACATATCATGTA
1 TTTACACATAACATGTA
1032798 ACACATACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTACACATAACATGTA
Found at i:1033245 original size:20 final size:20
Alignment explanation
Indices: 1033208--1033259 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
1033198 ATGTTTCAAG
* *
1033208 GGTATCGATACCATCCTTAA
1 GGTACCGATACCACCCTTAA
*
1033228 GGTACCGATACTACCCTTACA
1 GGTACCGATACCACCCTTA-A
*
1033249 -GTATCGATACC
1 GGTACCGATACC
1033260 TCTTCAACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (20 bp):
GGTACCGATACCACCCTTAA
Found at i:1036474 original size:16 final size:17
Alignment explanation
Indices: 1036453--1036485 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1036443 CACATGATTT
1036453 TTTACAC-TAACATGTA
1 TTTACACATAACATGTA
*
1036469 TTTACACATATCATGTA
1 TTTACACATAACATGTA
1036486 ACACATACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTACACATAACATGTA
Found at i:1036949 original size:20 final size:21
Alignment explanation
Indices: 1036901--1036982 Score: 75
Period size: 20 Copynumber: 4.0 Consensus size: 21
1036891 ATGTTTCAAG
*
1036901 GGTATCGATA-TCATCCTTA-A
1 GGTATCGATACT-ACCCTTACA
*
1036921 GGTAACGATACTACCCTTACA
1 GGTATCGATACTACCCTTACA
*
1036942 -GTATCGATAC--CTCTTCAACA
1 GGTATCGATACTACCCTT--ACA
1036962 GGTATCGATACTACCCTTACA
1 GGTATCGATACTACCCTTACA
1036983 AAATACTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.08
20 27 0.54
21 15 0.30
23 4 0.08
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (21 bp):
GGTATCGATACTACCCTTACA
Found at i:1041140 original size:32 final size:32
Alignment explanation
Indices: 1041059--1041158 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
1041049 TCAAGTCAAT
* * *
1041059 TTTTTGGGTGGGGTGATTATCAGATCGGTTG-
1 TTTTTGGGTTGGGTCAATATCAGATCGGTTGA
*** *
1041090 TTTTTCTATTTGGATCAATATCAGATCGGTTGA
1 TTTTT-GGGTTGGGTCAATATCAGATCGGTTGA
*
1041123 TTTTTGGGTTGGGTCAATATCAGATCAGTTAGA
1 TTTTTGGGTTGGGTCAATATCAGATCGGTT-GA
1041156 TTT
1 TTT
1041159 CGGGCCGTGT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
31 5 0.09
32 39 0.72
33 10 0.19
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (32 bp):
TTTTTGGGTTGGGTCAATATCAGATCGGTTGA
Found at i:1041703 original size:52 final size:51
Alignment explanation
Indices: 1041625--1041754 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 51
1041615 TAAACTTGAT
*
1041625 ATTATTTTTTATTATAAATATAATATTATTTCCTTTGTTTTAGTTGTTTTCC
1 ATTA-TTTTTATTATAAATATAATATTATTTCCCTTGTTTTAGTTGTTTTCC
*
1041677 ATTATTTTTATTATAAAATATAATATTATTTCCCTTGTTTTAGTTGTTTTCT
1 ATTATTTTTATTAT-AAATATAATATTATTTCCCTTGTTTTAGTTGTTTTCC
1041729 ATTATTTTTATTATAAATATAATATT
1 ATTATTTTTATTATAAATATAATATT
1041755 TTTATTACAA
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 22 0.29
52 53 0.71
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (51 bp):
ATTATTTTTATTATAAATATAATATTATTTCCCTTGTTTTAGTTGTTTTCC
Found at i:1042910 original size:23 final size:23
Alignment explanation
Indices: 1042880--1042925 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1042870 AAGAAGATTT
1042880 TTAACGAGACTCATAATTTAGGG
1 TTAACGAGACTCATAATTTAGGG
1042903 TTAACGAGACTCATAATTTAGGG
1 TTAACGAGACTCATAATTTAGGG
1042926 CTCGATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (23 bp):
TTAACGAGACTCATAATTTAGGG
Found at i:1048524 original size:14 final size:14
Alignment explanation
Indices: 1048505--1048535 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1048495 AAAAGTAAGA
1048505 CTTCATCTAGCTAG
1 CTTCATCTAGCTAG
*
1048519 CTTCATTTAGCTAG
1 CTTCATCTAGCTAG
1048533 CTT
1 CTT
1048536 TTCCTTTCGT
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:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (14 bp):
CTTCATCTAGCTAG
Found at i:1049635 original size:46 final size:46
Alignment explanation
Indices: 1049585--1050261 Score: 868
Period size: 46 Copynumber: 14.5 Consensus size: 46
1049575 GAATGAATAA
*
1049585 AAAATGCATAACAGTGCATTATCGGCATGAAAGGATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
**
1049631 AAAATGCATAATAGTGCATTATCGGCATGAAAGGATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* *
1049677 AAAATGCATAATGGTGCATTATCGGCATGAAATGATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
*
1049723 AAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * *
1049769 AAAATACATAACGGTGCATTATCGGCATGAAAGGATACAATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * * *
1049815 AAAATGCATAATGTTGCATTATCTGCATGAAAGAATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * *
1049861 AAAATGAATAACGGTGCATTATCGGCATGAAAGGATGCTATAAATA
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* *
1049907 AAAATTGAATAACGGTGCATTATCGGTATGAAAGGATGCCATAAATG
1 AAAA-TGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* ** * *
1049954 AAAATGCATAACGGTGTATTATCATCATGAAAAGATTCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
*
1050000 AAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
**
1050046 AAAATGCATAACGGTGCATTATTTATGCATTTTCGGCATGAAAGGATGATATAAATG
1 AAAATGCATAACGGTGC---A--T-T--A---TCGGCATGAAAGGATGCCATAAATG
* * * *
1050103 AAAATGTATAACAGTGCATTATCGGCATAAAAGGATGACATAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * * *
1050149 AAAATACATAACGTTGCATTATTGGCATGAAAGGATGCCATAAATA
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
** * * *
1050195 AAAATGCATAACAATTCATTATCGGTATGAAAGGATGCCACAAATG
1 AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * *
1050241 AAAATACATAACTGTGTATTA
1 AAAATGCATAACGGTGCATTA
1050262 ACGTCATAAA
Statistics
Matches: 555, Mismatches: 64, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
46 467 0.84
47 43 0.08
49 2 0.00
51 2 0.00
52 2 0.00
54 2 0.00
57 37 0.07
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (46 bp):
AAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
Found at i:1050087 original size:57 final size:57
Alignment explanation
Indices: 1050014--1050124 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
1050004 TGCATAACGG
* *
1050014 TGCATTATCAGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATTTA
1 TGCATTATCAGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTATTTA
* * * *
1050071 TGCATTTTCGGCATGAAAGGATGATATAAATGAAAATGTATAACAGTGCATTAT
1 TGCATTATCAGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTAT
1050125 CGGCATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (57 bp):
TGCATTATCAGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTATTTA
Found at i:1050192 original size:149 final size:149
Alignment explanation
Indices: 1049922--1050206 Score: 410
Period size: 149 Copynumber: 1.9 Consensus size: 149
1049912 TGAATAACGG
* * * * *
1049922 TGCATTATCGGTATGAAAGGATGCCATAAATGAAAATGCATAACGGTGTATTATCATCATGAAAA
1 TGCATTATCGGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTATCAGCATGAAAA
** * *
1049987 GATTCCATAAATGAAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAAATG
66 GATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATAAAAATG
1050052 CATAACGGTGCATTATTTA
131 CATAACGGTGCATTATTTA
* * * *
1050071 TGCATTTTCGGCATGAAAGGATGATATAAATGAAAATGTATAACAGTGCATTATCGGCAT-AAAA
1 TGCATTATCGGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTATCAGCATGAAAA
* **
1050135 GGATGACATAAATGAAAATACATAACGTTGCATTATTGGCATGAAAGGATGCCATAAATAAAAAT
66 -GATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATAAAAAT
1050200 GCATAAC
130 GCATAAC
1050207 AATTCATTAT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
148 4 0.03
149 115 0.97
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (149 bp):
TGCATTATCGGCATGAAAGGATGACATAAATGAAAATGCATAACAGTGCATTATCAGCATGAAAA
GATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATAAAAATG
CATAACGGTGCATTATTTA
Found at i:1050201 original size:195 final size:196
Alignment explanation
Indices: 1049875--1050261 Score: 533
Period size: 195 Copynumber: 2.0 Consensus size: 196
1049865 TGAATAACGG
* * * *
1049875 TGCATTATCGGCATGAAAGGATGCTATAAATAAAAATTGAATAACGGTGCATTATCGGTATGAAA
1 TGCATTATCGGCATGAAAGGATGATATAAATAAAAATTGAATAACAGTGCATTATCGGCATAAAA
* * * * * *
1049940 GGATGCCATAAATGAAAATGCATAACGGTGTATTATCATCATGAAAAGATTCCATAAATGAAAAT
66 GGATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAAGATGCCATAAATAAAAAT
** * *
1050005 GCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATTT
131 GCATAACAATGCATTATCAGCATGAAAGGATGCCACAAATGAAAATACATAACGGTGCATTATTT
1050070 A
196 A
* * *
1050071 TGCATTTTCGGCATGAAAGGATGATATAAATGAAAA-TGTATAACAGTGCATTATCGGCATAAAA
1 TGCATTATCGGCATGAAAGGATGATATAAATAAAAATTGAATAACAGTGCATTATCGGCATAAAA
* ** *
1050135 GGATGACATAAATGAAAATACATAACGTTGCATTATTGGCATGAAAGGATGCCATAAATAAAAAT
66 GGATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAAGATGCCATAAATAAAAAT
* * * * *
1050200 GCATAACAATTCATTATCGGTATGAAAGGATGCCACAAATGAAAATACATAACTGTGTATTA
131 GCATAACAATGCATTATCAGCATGAAAGGATGCCACAAATGAAAATACATAACGGTGCATTA
1050262 ACGTCATAAA
Statistics
Matches: 165, Mismatches: 26, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
195 132 0.80
196 33 0.20
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (196 bp):
TGCATTATCGGCATGAAAGGATGATATAAATAAAAATTGAATAACAGTGCATTATCGGCATAAAA
GGATGACATAAATGAAAATACATAACGGTGCATTATCAGCATGAAAAGATGCCATAAATAAAAAT
GCATAACAATGCATTATCAGCATGAAAGGATGCCACAAATGAAAATACATAACGGTGCATTATTT
A
Found at i:1062822 original size:23 final size:24
Alignment explanation
Indices: 1062769--1062824 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1062759 ATATCCATGC
*
1062769 ATGCATAAAACATTCACATAATCA
1 ATGCATAAAACATTCACATAACCA
*
1062793 ATGCATAAAACATTC-TATAACCA
1 ATGCATAAAACATTCACATAACCA
1062816 TAT-CATAAA
1 -ATGCATAAA
1062825 TGCTAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.27
Consensus pattern (24 bp):
ATGCATAAAACATTCACATAACCA
Found at i:1066706 original size:20 final size:20
Alignment explanation
Indices: 1066683--1066749 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
1066673 ACATTAAACA
1066683 AATATATTTTAAATTATATG
1 AATATATTTTAAATTATATG
* **
1066703 AATA-ATTATTAAATAATAAA
1 AATATATT-TTAAATTATATG
**
1066723 AATATATCATAAA-TA-ATG
1 AATATATTTTAAATTATATG
1066741 AATATATTT
1 AATATATTT
1066750 AATATTTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 8 0.23
19 4 0.11
20 21 0.60
21 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
AATATATTTTAAATTATATG
Found at i:1068249 original size:24 final size:24
Alignment explanation
Indices: 1068211--1068269 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
1068201 TATCTATGTC
* *
1068211 CTTGTGACACTCGTTTCCTCTGCT
1 CTTGTGGCACGCGTTTCCTCTGCT
1068235 CTTGTGGCACGCGTTTCCTCTGCT
1 CTTGTGGCACGCGTTTCCTCTGCT
1068259 CTTGTGGCACG
1 CTTGTGGCACG
1068270 ATCCTCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.07, C:0.32, G:0.24, T:0.37
Consensus pattern (24 bp):
CTTGTGGCACGCGTTTCCTCTGCT
Found at i:1068468 original size:37 final size:37
Alignment explanation
Indices: 1068444--1068591 Score: 130
Period size: 37 Copynumber: 4.1 Consensus size: 37
1068434 TTGAATATAT
*
1068444 ATATAATATATAGTTTTTTAAAACATTTTGAAAACAT
1 ATATAATATATAGTTTTTTAAAACATTTTGAAAATAT
* * * *
1068481 TTAT-ATGTTATAG--TTTTAAAAC-GTTTGAAAATAA
1 ATATAAT-ATATAGTTTTTTAAAACATTTTGAAAATAT
* * * *
1068515 ATATAACATAGAGTTTTTGAAAAACATGTTGAAAATAT
1 ATATAATATATAGTTTTT-TAAAACATTTTGAAAATAT
1068553 ATATAATATATCA--TTTTTAAAACATTTTTGAAAAT-T
1 ATATAATATAT-AGTTTTTTAAAACA-TTTTGAAAATAT
1068589 ATA
1 ATA
1068592 CGGTTTTTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
34 16 0.19
35 10 0.12
36 15 0.17
37 26 0.30
38 18 0.21
39 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (37 bp):
ATATAATATATAGTTTTTTAAAACATTTTGAAAATAT
Found at i:1068501 original size:72 final size:74
Alignment explanation
Indices: 1068422--1068587 Score: 187
Period size: 72 Copynumber: 2.3 Consensus size: 74
1068412 ATATTATTTT
* * * * * * *
1068422 TTTTAAAACATTTTGAATATATATATAATATATAGTTTTT-TAAAACATTTTGAAAACATTTAT-
1 TTTTAAAACATTTTGAAAATAAATATAACATAGAGTTTTTGAAAAACATGTTGAAAACATATATA
*
1068485 ATGTTAT-AG
66 AT-ATATCAG
* *
1068494 TTTTAAAAC-GTTTGAAAATAAATATAACATAGAGTTTTTGAAAAACATGTTGAAAATATATATA
1 TTTTAAAACATTTTGAAAATAAATATAACATAGAGTTTTTGAAAAACATGTTGAAAACATATATA
*
1068558 ATATATCAT
66 ATATATCAG
1068567 TTTTAAAACATTTTTGAAAAT
1 TTTTAAAACA-TTTTGAAAAT
1068588 TATACGGTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
71 25 0.32
72 31 0.40
73 12 0.16
75 9 0.12
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (74 bp):
TTTTAAAACATTTTGAAAATAAATATAACATAGAGTTTTTGAAAAACATGTTGAAAACATATATA
ATATATCAG
Found at i:1068607 original size:30 final size:29
Alignment explanation
Indices: 1068566--1068644 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
1068556 TAATATATCA
*
1068566 TTTTT-AAAACATTTTTGAAAATTATACGG
1 TTTTTAAAAACATTTTT-AAAATTATACAG
*
1068595 TTTTTAAAAACATTTTTAAAATTATATAG
1 TTTTTAAAAACATTTTTAAAATTATACAG
* *
1068624 TTTCTAAAATCATTTTTAAAA
1 TTTTTAAAAACATTTTTAAAA
1068645 ATGTATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 34 0.76
30 11 0.24
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTTTAAAAACATTTTTAAAATTATACAG
Found at i:1068729 original size:3 final size:3
Alignment explanation
Indices: 1068709--1068785 Score: 86
Period size: 3 Copynumber: 25.7 Consensus size: 3
1068699 TTTTATTTAT
* *
1068709 TTA TT- TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1068756 TTA TTT TTT TTA TATA TTA CTTA TT- TTA TT
1 TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TT
1068786 TTTTTTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.06
3 54 0.84
4 6 0.09
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1068785 original size:12 final size:11
Alignment explanation
Indices: 1068699--1068785 Score: 72
Period size: 12 Copynumber: 7.6 Consensus size: 11
1068689 ATATTTTAGT
1068699 TTTTATTTATTTA
1 TTTTA-TTA-TTA
*
1068712 TTTTATTATTG
1 TTTTATTATTA
1068723 TTATTATTATTA
1 TT-TTATTATTA
1068735 TTATTATTATTA
1 TT-TTATTATTA
*
1068747 TTACTATTATTA
1 TT-TTATTATTA
1068759 TTTT-TT-TTA
1 TTTTATTATTA
*
1068768 -TATATTACTTA
1 TTTTATTA-TTA
1068779 TTTTATT
1 TTTTATT
1068786 TTTTTTTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 2 0.03
11 8 0.13
12 41 0.65
13 5 0.08
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:1069981 original size:13 final size:14
Alignment explanation
Indices: 1069963--1069992 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1069953 TTTTCATTTC
1069963 TTTTATTATT-TTA
1 TTTTATTATTATTA
1069976 TTTTATTATTATTA
1 TTTTATTATTATTA
1069990 TTT
1 TTT
1069993 CTTTCCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:1071999 original size:19 final size:19
Alignment explanation
Indices: 1071975--1072018 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
1071965 ATTTAGACAT
*
1071975 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
1071994 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
1072012 -TTGCATT
1 TTTGCATT
1072019 CACATTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 6 0.26
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:1075600 original size:165 final size:164
Alignment explanation
Indices: 1075328--1076172 Score: 853
Period size: 165 Copynumber: 5.1 Consensus size: 164
1075318 TTTTTAAGAT
** * *
1075328 ATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACT
* * * * *
1075393 ACGCTTAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAG
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAG
* ** * *
1075457 ACCTTCGAGTTCGATTAAACTCAGCTTCGAGGGCAC
130 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCAC
* * * *
1075493 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACT
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACT
* * * *
1075558 ACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
65 ACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG---ACCA
* *
1075623 AAGACCTTTGAGCTCGACTACGCTCAGCT-CAACGGCAC
127 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCAC
* * * * ** *
1075661 ATCAGTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTA
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTA
* * * *
1075723 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCA
66 CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG---ACCA
*
1075788 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCAC
127 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
* * * * *
1075826 ATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCTTCAAGTTTGATTA
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTA
** * * * * * *
1075888 AACTCAGCTTCGAGGGCACACCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
66 CGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATC--TGACC-A
* * * *
1075953 AAGACCTTCGAGTTCGACTACGCTAAGCTTCAAGGTAT
127 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
* * * * ** * *
1075991 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAGAACCTTTGAGTTCGACT
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAG-ACCTTCGAGTTCGACT
* * * *
1076056 ACGCTCAGCT-CAACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
65 ACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG--ACCA
1076120 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
127 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
* *
1076158 ATTATTTACAACATA
1 ATCATTTACAGCATA
1076173 GCCCAAAGCA
Statistics
Matches: 571, Mismatches: 91, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
164 31 0.05
165 356 0.62
166 7 0.01
167 50 0.09
168 83 0.15
169 44 0.08
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGA
CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
Found at i:1075773 original size:249 final size:247
Alignment explanation
Indices: 1075328--1076164 Score: 1013
Period size: 249 Copynumber: 3.4 Consensus size: 247
1075318 TTTTTAAGAT
** * *
1075328 ATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGACT
*
1075393 ACGCTTAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
65 ACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* * * *
1075458 CCTTCGAGTTCGATTAAACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
130 CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAG
* * * *
1075523 GGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCAT
195 GGTTATCTGTAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCAC
* * * * * * *
1075577 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGCTCGACT
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACT
* *
1075642 ACGCTCAGCT-CAACGGCACATCAGTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
65 ACGCTCAGCTCCAA-GGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAG
** *
1075706 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
129 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAA
1075771 GGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCAC
194 GGGTTATCTG-TAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCAC
* * * * *
1075826 ATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCAAGTTTGATTA
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
** * * * * * * * *
1075888 AACTCAGCTTCGAGGGCACACCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
66 CGCTCAGC-TCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-A
* * * * * * *
1075953 AAGACCTTCGAGTTCGACTACGCTAAGCTTC-AAGGTATATCATTTGCAGCACAACTTAAGTCTA
126 AAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTA
* * *
1076017 GAAGGGTTGTCTGCCAA-CAAAGAACCTTTGAGTTCGACTACGCTCAGCT-CAACGACAC
191 GAAGGGTTATCTG-TAACCAAAG-ACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCAC
* * * *
1076075 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTA
1 ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
*
1076140 CGCTCAGCTCCAAGGCACATTATTT
66 CGCTCAGCTCCAAGGCACATCATTT
1076165 ACAACATAGC
Statistics
Matches: 502, Mismatches: 72, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
245 23 0.05
246 35 0.07
247 1 0.00
248 13 0.03
249 360 0.72
250 31 0.06
251 13 0.03
252 26 0.05
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (247 bp):
ATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
CTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGG
GTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCAC
Found at i:1076106 original size:414 final size:415
Alignment explanation
Indices: 1075328--1076148 Score: 1367
Period size: 414 Copynumber: 2.0 Consensus size: 415
1075318 TTTTTAAGAT
*
1075328 ATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
* **
1075393 ACGCTTAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
66 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* *
1075458 CCTTCGAGTTCGATTAAACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
131 CCTTCAAGTTCGATTAAACTCAGCTTCGAGGGCACACCATTTACAGCATAACTCAAGGCTAGAAG
* *
1075523 GGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAG
196 GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAG
1075588 CACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGCTCGACTACGCTCAGCTC
261 CACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGCTCGACTACGCTCAGCTC
* * * * *
1075653 AACGGCACATCAGTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTT
326 AACGACACATCAGTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGACCAAAGACCCCCGAGTT
*
1075717 CGATTACACTCAGCTTCGAGGGCAC
391 CGACTACACTCAGCTTCGAGGGCAC
1075742 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
1075807 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
66 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* **
1075872 CCTTCAAGTTTGATTAAACTCAGCTTCGAGGGCACACCATTTGTAGCATAACTCAAGGCTAGAAG
131 CCTTCAAGTTCGATTAAACTCAGCTTCGAGGGCACACCATTTACAGCATAACTCAAGGCTAGAAG
* *
1075937 GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTTCAAGGTATATCATTTGCAG
196 GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAG
*
1076002 CACAACTTAAGTCTAGAAGGGTTGTCTGCCAAC-AAAGAACCTTTGAGTTCGACTACGCTCAGCT
261 CACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAG-ACCTTTGAGCTCGACTACGCTCAGCT
* * * **
1076066 CAACGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
325 CAACGACACATCAGTTACAGCATAACTCAAGGCGAGAAGGGCTATCTG--ACCAAAGACCCCCGA
*
1076131 GTTCGACTACGCTCAGCT
388 GTTCGACTACACTCAGCT
1076149 CCAAGGCACA
Statistics
Matches: 377, Mismatches: 26, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
413 4 0.01
414 345 0.92
417 28 0.07
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (415 bp):
ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTCGACT
ACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
CCTTCAAGTTCGATTAAACTCAGCTTCGAGGGCACACCATTTACAGCATAACTCAAGGCTAGAAG
GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAG
CACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGCTCGACTACGCTCAGCTC
AACGACACATCAGTTACAGCATAACTCAAGGCGAGAAGGGCTATCTGACCAAAGACCCCCGAGTT
CGACTACACTCAGCTTCGAGGGCAC
Found at i:1076802 original size:37 final size:36
Alignment explanation
Indices: 1076747--1076979 Score: 254
Period size: 37 Copynumber: 6.3 Consensus size: 36
1076737 GAAAACATAA
* * *
1076747 AAAATATATATGAGATATAGTTTTTAAAACATTTTTT
1 AAAATATATATAATATATAGTTTTTAAAACA-TTTTG
* *
1076784 AAAACATATATATTATATAGTTTTTAAAACATTTTG
1 AAAATATATATAATATATAGTTTTTAAAACATTTTG
1076820 AATATATATATATAATATATAGTTTTTTAAAACATTTTG
1 AA-A-ATATATATAATATATAG-TTTTTAAAACATTTTG
* ** *
1076859 AAAACATTTATATGTTATATAG-TTTTAAAACGTTTTG
1 -AAA-ATATATATAATATATAGTTTTTAAAACATTTTG
* * *
1076896 AAAATAAATATAACATAGAGTTTTTGAAAAACATTTTG
1 AAAATATATATAATATATAGTTTTT--AAAACATTTTG
*
1076934 AAAATATATATAATATATAATTTTTAAAACATTTTTG
1 AAAATATATATAATATATAGTTTTTAAAACA-TTTTG
1076971 AAAAT-TATA
1 AAAATATATA
1076980 CGGTTTTTAA
Statistics
Matches: 165, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
35 11 0.07
36 23 0.14
37 52 0.32
38 46 0.28
39 31 0.19
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAATATATATAATATATAGTTTTTAAAACATTTTG
Found at i:1076863 original size:75 final size:73
Alignment explanation
Indices: 1076747--1076979 Score: 274
Period size: 75 Copynumber: 3.1 Consensus size: 73
1076737 GAAAACATAA
* * *
1076747 AAAATATATATGAGATATAG-TTTTTAAAACATTTTTTAAAACATATATATTATATAGTTTTTAA
1 AAAATATATATAACATATAGTTTTTTAAAACA-TTTTGAAAACATATATATTATATAGTTTTTAA
1076811 AACATTTTG
65 AACATTTTG
* *
1076820 AATATATATATATAATATATAGTTTTTTAAAACATTTTGAAAACATTTATATGTTATATAG-TTT
1 AA-A-ATATATATAACATATAGTTTTTTAAAACATTTTGAAAACA--TATATATTATATAGTTTT
*
1076884 TAAAACGTTTTG
62 TAAAACATTTTG
* * * * * *
1076896 AAAATAAATATAACATAGAGTTTTTGAAAAACATTTTGAAAATATATATAATATATAATTTTTAA
1 AAAATATATATAACATATAGTTTTT-TAAAACATTTTGAAAACATATATATTATATAGTTTTTAA
1076961 AACATTTTTG
65 AACA-TTTTG
1076971 AAAAT-TATA
1 AAAATATATA
1076980 CGGTTTTTAA
Statistics
Matches: 137, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
73 13 0.09
74 32 0.23
75 52 0.38
76 27 0.20
77 13 0.09
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (73 bp):
AAAATATATATAACATATAGTTTTTTAAAACATTTTGAAAACATATATATTATATAGTTTTTAAA
ACATTTTG
Found at i:1076979 original size:29 final size:28
Alignment explanation
Indices: 1076947--1077042 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 28
1076937 ATATATATAA
*
1076947 TATATAATTTTTAAAACATTTTTGAAAAT
1 TATATAGTTTTTAAAACATTTTT-AAAAT
**
1076976 TATACGGTTTTTAAAAACATTTTTAAAAT
1 TATATAGTTTTT-AAAACATTTTTAAAAT
1077005 TATATAGTTTTCTAAAATCATTTTTAAAAATT
1 TATATAGTTTT-TAAAA-CATTTTT-AAAA-T
1077037 TATATA
1 TATATA
1077043 TGATATATAG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
29 27 0.47
30 19 0.33
31 4 0.07
32 7 0.12
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (28 bp):
TATATAGTTTTTAAAACATTTTTAAAAT
Found at i:1076995 original size:30 final size:29
Alignment explanation
Indices: 1076954--1077033 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
1076944 TAATATATAA
*
1076954 TTTTT-AAAACATTTTTGAAAATTATACGG
1 TTTTTAAAAACATTTTT-AAAATTATACAG
*
1076983 TTTTTAAAAACATTTTTAAAATTATATAG
1 TTTTTAAAAACATTTTTAAAATTATACAG
*
1077012 TTTTCTAAAATCATTTTTAAAA
1 TTTT-TAAAAACATTTTTAAAA
1077034 ATTTATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 19 0.41
30 27 0.59
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTTTAAAAACATTTTTAAAATTATACAG
Found at i:1077123 original size:3 final size:3
Alignment explanation
Indices: 1077105--1077190 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
1077095 ATTTATTTAT
* * *
1077105 TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1077153 TTA TTA TTA TTT TTA TATA TTA CTTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA TTA TT
1077191 TTTTTCAGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.05
3 63 0.86
4 6 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1078397 original size:13 final size:13
Alignment explanation
Indices: 1078379--1078412 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
1078369 CCCTTTTTAA
1078379 TTTATTTTATTAT
1 TTTATTTTATTAT
1078392 TTTATTTTATTAT
1 TTTATTTTATTAT
1078405 TATTATTT
1 T-TTATTT
1078413 CTTTCCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:1078407 original size:19 final size:18
Alignment explanation
Indices: 1078373--1078412 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1078363 CTTTAACCCT
1078373 TTTTAATTTATTTTATTA
1 TTTTAATTTATTTTATTA
*
1078391 TTTTATTTTATTATTATTA
1 TTTTAATTTATT-TTATTA
1078410 TTT
1 TTT
1078413 CTTTCCCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTAATTTATTTTATTA
Found at i:1079888 original size:28 final size:28
Alignment explanation
Indices: 1079819--1079890 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
1079809 GTTTATGTTG
* *
1079819 ATTTTGTCCCCTCATTTTCTATGGTTAATT
1 ATTTTGTCCCC-C-TTTTCTATGATTAAAT
1079849 ATATTTGT-CCCCTTTTCTATGATTAAAT
1 AT-TTTGTCCCCCTTTTCTATGATTAAAT
*
1079877 ATTTTATCCCCCTT
1 ATTTTGTCCCCCTT
1079891 AAGTTGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.11
28 22 0.59
29 1 0.03
30 5 0.14
31 5 0.14
ACGTcount: A:0.19, C:0.22, G:0.07, T:0.51
Consensus pattern (28 bp):
ATTTTGTCCCCCTTTTCTATGATTAAAT
Found at i:1080158 original size:63 final size:64
Alignment explanation
Indices: 1080051--1080298 Score: 181
Period size: 63 Copynumber: 4.0 Consensus size: 64
1080041 AATATATCAT
* *
1080051 TGCCATTAAAAATTATACATTTATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
1 TGCCATTAAAAATCATACATTCATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
* ** * * * *
1080115 TGCCATTAAAAA-CATAGATTCATTGTTGAATTATTTTAGATAAGGTTTAATATGACTATTGAA
1 TGCCATTAAAAATCATACATTCATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
* ** * * * * *
1080178 TACCATT-AAAA--A-GGA-T-ATGGT-TAACTATCTTAAATAAGGTTTAATATGACCATTAAA
1 TGCCATTAAAAATCATACATTCATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
* * * * ** * * * * *
1080235 TACCATT-AAAATTATACATCCATGGGCCCACTATCTTAAATAAGATTTAATATGCCTATTAAA
1 TGCCATTAAAAATCATACATTCATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
1080298 T
1 T
1080299 TTCAAACTAA
Statistics
Matches: 151, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
57 41 0.27
58 4 0.03
59 2 0.01
60 3 0.02
61 1 0.01
62 8 0.05
63 80 0.53
64 12 0.08
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (64 bp):
TGCCATTAAAAATCATACATTCATTGTACAATTATCTTAAATAAGGTTTAACATGACTATTAAA
Found at i:1080242 original size:57 final size:62
Alignment explanation
Indices: 1080083--1080298 Score: 217
Period size: 63 Copynumber: 3.5 Consensus size: 62
1080073 ATTGTACAAT
* * * *
1080083 TATCTTAAATAAGGTTTAACATGACTATTAAATGCCATTAAAAACATAGATTCATTGTTGAAT
1 TATCTTAAATAAGGTTTAATATGACTATTAAATACCATT-AAAACATAGATTCATGGTTGAAC
* * * *
1080146 TATTTTAGATAAGGTTTAATATGACTATTGAATACCATTAAAA-A-GGA-T-ATGGTT-AAC
1 TATCTTAAATAAGGTTTAATATGACTATTAAATACCATTAAAACATAGATTCATGGTTGAAC
* * * * ****
1080203 TATCTTAAATAAGGTTTAATATGACCATTAAATACCATTAAAATTATACATCCATGGGCCCAC
1 TATCTTAAATAAGGTTTAATATGACTATTAAATACCATTAAAA-CATAGATTCATGGTTGAAC
* *
1080266 TATCTTAAATAAGATTTAATATGCCTATTAAAT
1 TATCTTAAATAAGGTTTAATATGACTATTAAAT
1080299 TTCAAACTAA
Statistics
Matches: 126, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
57 41 0.33
58 5 0.04
59 2 0.02
60 3 0.02
61 1 0.01
62 8 0.06
63 66 0.52
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (62 bp):
TATCTTAAATAAGGTTTAATATGACTATTAAATACCATTAAAACATAGATTCATGGTTGAAC
Found at i:1085748 original size:158 final size:159
Alignment explanation
Indices: 1085527--1085846 Score: 545
Period size: 162 Copynumber: 2.0 Consensus size: 159
1085517 TTGCCAACAG
1085527 CAGTTGCCTAAAGTTTAGAGGATCTAGCTTAAGTGTACATTTAAATGTTTTTGGTCTCATTGTAA
1 CAGTTGCCTAAAGTTTAGAGGATCTAGCTTAAGTGTACATTTAAATGTTTTTGGTCTCATTGTAA
* * *
1085592 TGATATT-TCCCCCCAATGAAGGTTATTCATTATGATAGGCACTTTTGGGATAAACT-CCTCGCC
66 TGACATTCCCCCCCCAATGAAGGTTATTCATTATAATAGGCACTTTTGGGATAAA-TACCTCGCC
1085655 TTTTGCATTTTGCATATTTGCATCACATTA
130 TTTTGCATTTTGCATATTTGCATCACATTA
*
1085685 CAGTTGCCTAAAGTTTAGAGGATCTAGTTTAAGTGTACATTTAAATGTTTTTGGTCTCATTGTAA
1 CAGTTGCCTAAAGTTTAGAGGATCTAGCTTAAGTGTACATTTAAATGTTTTTGGTCTCATTGTAA
*
1085750 TGACATTCCCCCCCCCCCCATGAAGGTTATTCATTATAATAGGCACTTTTGGGATAAATACCTCG
66 TGACATT---CCCCCCCCAATGAAGGTTATTCATTATAATAGGCACTTTTGGGATAAATACCTCG
1085815 CCTTTTGCATTTTGCATATTTGCATCACATTA
128 CCTTTTGCATTTTGCATATTTGCATCACATTA
1085847 ATCATTTTGC
Statistics
Matches: 152, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
158 70 0.46
161 1 0.01
162 81 0.53
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (159 bp):
CAGTTGCCTAAAGTTTAGAGGATCTAGCTTAAGTGTACATTTAAATGTTTTTGGTCTCATTGTAA
TGACATTCCCCCCCCAATGAAGGTTATTCATTATAATAGGCACTTTTGGGATAAATACCTCGCCT
TTTGCATTTTGCATATTTGCATCACATTA
Found at i:1085862 original size:18 final size:19
Alignment explanation
Indices: 1085833--1085869 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1085823 ATTTTGCATA
1085833 TTTGCATCACATTAATCAT
1 TTTGCATCACATTAATCAT
*
1085852 TTTGCAT-ACATTTATCAT
1 TTTGCATCACATTAATCAT
1085870 AAAGACATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTGCATCACATTAATCAT
Found at i:1087026 original size:21 final size:21
Alignment explanation
Indices: 1087002--1087041 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1086992 ATATAGAAGT
1087002 GATAAAAATAGAAGAAAAAGA
1 GATAAAAATAGAAGAAAAAGA
*
1087023 GATAAAAATAGAATAAAAA
1 GATAAAAATAGAAGAAAAA
1087042 ATAACTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (21 bp):
GATAAAAATAGAAGAAAAAGA
Found at i:1087044 original size:12 final size:11
Alignment explanation
Indices: 1087003--1087041 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1086993 TATAGAAGTG
1087003 ATAAAAATAGA
1 ATAAAAATAGA
* *
1087014 AGAAAAAGAG-
1 ATAAAAATAGA
1087024 ATAAAAATAGA
1 ATAAAAATAGA
1087035 ATAAAAA
1 ATAAAAA
1087042 ATAACTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (11 bp):
ATAAAAATAGA
Found at i:1092597 original size:19 final size:20
Alignment explanation
Indices: 1092558--1092602 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
1092548 AAGTATATTA
1092558 TTTTTCGAGTAGCTCACGAG
1 TTTTTCGAGTAGCTCACGAG
*
1092578 TTTTTCGAGTAG-TCATGAG
1 TTTTTCGAGTAGCTCACGAG
1092597 TTTTTC
1 TTTTTC
1092603 AAGTCGAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTTTCGAGTAGCTCACGAG
Found at i:1093414 original size:8 final size:8
Alignment explanation
Indices: 1093396--1093430 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
1093386 ATAAAGGATG
1093396 AATTGAAGA
1 AATT-AAGA
1093405 AATTAAGA
1 AATTAAGA
1093413 AATTAAGA
1 AATTAAGA
1093421 AATTAAGA
1 AATTAAGA
1093429 AA
1 AA
1093431 AATTGATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (8 bp):
AATTAAGA
Found at i:1100134 original size:29 final size:29
Alignment explanation
Indices: 1100093--1100158 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
1100083 AAGCCTTATA
* * *
1100093 AAAACTTAGGGACTATTTTGTAATTTT-G
1 AAAAGTTAGGGACCAATTTGTAATTTTAG
1100121 AAAAGTTAGGGGACCAATTTGTAATTTTAG
1 AAAAGTTA-GGGACCAATTTGTAATTTTAG
1100151 AAAAGTTA
1 AAAAGTTA
1100159 TGAATGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 7 0.21
29 17 0.52
30 9 0.27
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (29 bp):
AAAAGTTAGGGACCAATTTGTAATTTTAG
Found at i:1101127 original size:40 final size:40
Alignment explanation
Indices: 1101072--1101222 Score: 248
Period size: 40 Copynumber: 3.8 Consensus size: 40
1101062 CATCGTAGTG
*
1101072 CTACACATAAGGTCGTGCCCACCATATACACCGAAGTGTA
1 CTACACATAAGGTCGTGCCCACCATATACACCAAAGTGTA
*
1101112 CTACATATAAGGTCGTGCCCACCATATACACCAAAGTGTA
1 CTACACATAAGGTCGTGCCCACCATATACACCAAAGTGTA
* *
1101152 TTACACACAAGGTCGTGCCCACCATATACACCAAAGTGTA
1 CTACACATAAGGTCGTGCCCACCATATACACCAAAGTGTA
* *
1101192 TTACTCATAAGGTCGTGCCCACCATATACAC
1 CTACACATAAGGTCGTGCCCACCATATACAC
1101223 TTAGTGTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
CTACACATAAGGTCGTGCCCACCATATACACCAAAGTGTA
Found at i:1101569 original size:30 final size:31
Alignment explanation
Indices: 1101509--1101578 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
1101499 TAACCATTCA
* *
1101509 TAACTTTTCCAAAATTGAAAAATTGGTCCCC
1 TAACTTTTCAAAAATTGAAAAATTGATCCCC
1101540 TAACTTTTCAAAAATT-ATAAAA-TGATCCCC
1 TAACTTTTCAAAAATTGA-AAAATTGATCCCC
* *
1101570 AAATTTTTC
1 TAACTTTTC
1101579 TAAGGATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.44
31 19 0.56
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.36
Consensus pattern (31 bp):
TAACTTTTCAAAAATTGAAAAATTGATCCCC
Found at i:1103092 original size:15 final size:16
Alignment explanation
Indices: 1103072--1103101 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1103062 ATTGGTAAAC
1103072 AAAAATAT-TTTATAT
1 AAAAATATATTTATAT
1103087 AAAAATATATTTATA
1 AAAAATATATTTATA
1103102 AAAGTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAAATATATTTATAT
Found at i:1104595 original size:20 final size:19
Alignment explanation
Indices: 1104548--1104596 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1104538 CTTATTTTTG
*
1104548 GTATTGATACTCAGGGTAA
1 GTATTGATACCCAGGGTAA
*
1104567 GTATCGATACCCAAGGGTATA
1 GTATTGATACCC-AGGGTA-A
1104588 -TATTGATAC
1 GTATTGATAC
1104597 TGCTAGCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.40
20 14 0.56
21 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (19 bp):
GTATTGATACCCAGGGTAA
Found at i:1115571 original size:11 final size:11
Alignment explanation
Indices: 1115557--1115581 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1115547 TTTATTTTCT
1115557 TTCACTTGCAC
1 TTCACTTGCAC
1115568 TTCACTTGCAC
1 TTCACTTGCAC
1115579 TTC
1 TTC
1115582 TTTTTGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCACTTGCAC
Found at i:1134169 original size:4 final size:4
Alignment explanation
Indices: 1134160--1136821 Score: 5110
Period size: 4 Copynumber: 672.5 Consensus size: 4
1134150 CTTACATACC
1134160 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134208 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134256 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134304 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134351 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134399 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134447 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134494 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134541 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134589 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134637 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134685 ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134731 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134779 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134827 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134875 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134921 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1134969 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135017 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135062 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135110 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135158 ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135205 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135251 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135299 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135347 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135395 ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135442 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135490 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135538 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135586 ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135631 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135678 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135726 ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135772 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135820 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135868 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135916 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1135964 ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136011 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136059 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136106 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136154 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136202 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1136250 ATGT ATGT AGGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136298 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136346 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136393 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136441 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136487 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136534 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136582 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136630 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136676 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136724 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
1136772 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1136820 AT
1 AT
1136822 TATAAACTAT
Statistics
Matches: 2626, Mismatches: 4, Indels: 56
0.98 0.00 0.02
Matches are distributed among these distances:
2 18 0.01
3 30 0.01
4 2578 0.98
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1138004 original size:4 final size:4
Alignment explanation
Indices: 1137995--1138033 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
1137985 AAAGATTTCC
*
1137995 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGA ATGG ATG
1 ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATGG ATG
1138034 AATAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.26
Consensus pattern (4 bp):
ATGG
Found at i:1145333 original size:15 final size:15
Alignment explanation
Indices: 1145313--1145343 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1145303 TTTGACTATG
*
1145313 AGATATTTTAATGAA
1 AGATATTTCAATGAA
1145328 AGATATTTCAATGAA
1 AGATATTTCAATGAA
1145343 A
1 A
1145344 ATTGGTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (15 bp):
AGATATTTCAATGAA
Found at i:1145950 original size:17 final size:17
Alignment explanation
Indices: 1145928--1145963 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1145918 TAATGATGAA
1145928 TGGAAACGATTCTGATT
1 TGGAAACGATTCTGATT
*
1145945 TGGAAATGATTCTGATT
1 TGGAAACGATTCTGATT
1145962 TG
1 TG
1145964 AATTTCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (17 bp):
TGGAAACGATTCTGATT
Found at i:1147201 original size:2 final size:2
Alignment explanation
Indices: 1147194--1147224 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1147184 AAATGCATAC
1147194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1147225 CTAATATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1152633 original size:20 final size:20
Alignment explanation
Indices: 1152608--1152645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1152598 CATGTGAAAT
1152608 TGTCCCAAAGGACCTATGTA
1 TGTCCCAAAGGACCTATGTA
* *
1152628 TGTCCCGAATGACCTATG
1 TGTCCCAAAGGACCTATG
1152646 AACCCTCGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
TGTCCCAAAGGACCTATGTA
Found at i:1157205 original size:225 final size:221
Alignment explanation
Indices: 1156823--1157267 Score: 698
Period size: 219 Copynumber: 2.0 Consensus size: 221
1156813 GTTGGGTCAG
1156823 TTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAGGTTTAGGGCGAAAAATACCCGACCCGA
1 TTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAGGTTTAGGGCGAAAAATACCCGACCCGA
* * ** * *
1156888 AAATATATATAATTTTAGCTTATATATTTTGGAATATTTATAATAATACCCCTCTATATATAATT
66 AAAAATATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTATATATAATT
1156953 TTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTA-T-TTT-GGGTCGGATTTC
131 TTTTCAATTAAGTCACTGTTTTTATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGATTTC
*
1157015 TAATTCATATATTCGGGTCGGGTCGGT
195 TAATTCATATATTCGGGTCGGATCGGT
* * *
1157042 TTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGA
1 TTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAGGTTTAGGGCGAAAAATACCCGACCCG-
1157107 CCCAAAAAATATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTCTATAT
65 ---AAAAAATATATAATTTTACCTTATATATTTAAGAATAATTACAATAATA-CCC-CTCTATAT
*
1157172 ATATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTTATTATTTCGGGTCGG
125 ATAATTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTTATTATTTCGGGTCGG
*
1157237 GTTTCTAATTCATATATTCGGGTCGGATCGG
190 ATTTCTAATTCATATATTCGGGTCGGATCGG
1157268 GTAAAATTTT
Statistics
Matches: 205, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
219 61 0.30
223 43 0.21
224 12 0.06
225 50 0.24
226 3 0.01
227 36 0.18
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (221 bp):
TTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAGGTTTAGGGCGAAAAATACCCGACCCGA
AAAAATATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTATATATAATT
TTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGATTTCT
AATTCATATATTCGGGTCGGATCGGT
Found at i:1157339 original size:225 final size:219
Alignment explanation
Indices: 1156833--1157307 Score: 556
Period size: 225 Copynumber: 2.2 Consensus size: 219
1156823 TTTTTTTAAG
* * ** *
1156833 TGTGATATTCGGGTCGGGTCGAGTTC-AGGTTTAGGG-CGAAAAATACCCGACCCG----AAAAT
1 TGTGATATTCGGGTCGGGTCGGGTTCGA-ATGGAGGGTC-AAAAATACCCGACCCGACCCAAAAA
* ** * *
1156892 ATATATAATTTTAGCTTATATATTTTGGAATATTTATAATAATACCCCTCTATATATAATTTTTT
64 ATATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTATATATAATTTTTT
1156957 CAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTTTGGGTCGGATTTCTAATTCA
129 CAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTTTGGGTCGGATTTCTAATTCA
* * * *
1157022 TATATTCGGGTCGGGTCGGTTTTTTTTAAG
194 TATATTCGGGTCGGATCGG----TGTAAAA
** ** *
1157052 TGTGATATTCGGGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAAAT
1 TGTGATATTCGGGTCGGGTCGGGTTCGAATGGAGGGTCAAAAATACCCGACCCGACCCAAAAAAT
*
1157117 ATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTCTATATATATTTTTTT
66 ATATAATTTTACCTTATATATTTAAGAATAATTACAATAATA-CCC-CTCTATATATAATTTTTT
*
1157182 CAATTAAGTCACTGTTTTTATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGGTTTCTAAT
129 CAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTA-T-TTT-GGGTCGGATTTCTAAT
1157246 TCATATATTCGGGTCGGATCGG-GTAAAA
191 TCATATATTCGGGTCGGATCGGTGTAAAA
* **
1157274 T-T-TTATTTTGGTCGGGTCGGGTCTCGAATGGAGG
1 TGTGATATTCGGGTCGGGTCGGGT-TCGAATGGAGG
1157308 TTCCTTTGTT
Statistics
Matches: 222, Mismatches: 22, Indels: 22
0.83 0.08 0.08
Matches are distributed among these distances:
219 49 0.22
220 17 0.08
221 8 0.04
222 4 0.02
223 43 0.19
224 12 0.05
225 50 0.23
226 3 0.01
227 36 0.16
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (219 bp):
TGTGATATTCGGGTCGGGTCGGGTTCGAATGGAGGGTCAAAAATACCCGACCCGACCCAAAAAAT
ATATAATTTTACCTTATATATTTAAGAATAATTACAATAATACCCCTCTATATATAATTTTTTCA
ATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTTTGGGTCGGATTTCTAATTCATA
TATTCGGGTCGGATCGGTGTAAAA
Found at i:1171007 original size:22 final size:23
Alignment explanation
Indices: 1170981--1171026 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1170971 TAAACCCCAA
1170981 AAACTACCCCAAAACAC-AAAAG
1 AAACTACCCCAAAACACTAAAAG
* *
1171003 AAACTACTCCTAAACACTAAAAG
1 AAACTACCCCAAAACACTAAAAG
1171026 A
1 A
1171027 GACACAAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.57, C:0.28, G:0.04, T:0.11
Consensus pattern (23 bp):
AAACTACCCCAAAACACTAAAAG
Found at i:1172002 original size:135 final size:135
Alignment explanation
Indices: 1171740--1172095 Score: 466
Period size: 135 Copynumber: 2.6 Consensus size: 135
1171730 TCAGAGTAGG
* *
1171740 TTGAACCGAACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCT-AAGAGAAAAAAATATC
1 TTGAATCGAACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAA-AGAAAAAGA-ATC
* * *
1171804 TGCTCCACTACTCTTTGGGGGAGATCAAACTCGTAAAAAACTTCAATCCATTTCATTACTCTTCA
64 TGCTCCACTACTCTTTAGGGGAGATCAAACTCGTAAAAAACTTCAATCCACTTCACTACTCTTCA
1171869 GGGAAGA
129 GGGAAGA
* * * * * *
1171876 TTGAATCGAATTTGATTTTCTTTACTGCTCTTCAAGAATACCAAATCTGAAAGAAGAAGAATCTA
1 TTGAATCGAACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAAAAGAATCTG
* * ** * *
1171941 CTCCACTACTTTTTAGGGGAGATCAGACTCG-AAAAAACTTTTGATCCACTTCACTGCTCTTCAT
66 CTCCACTACTCTTTAGGGGAGATCAAACTCGTAAAAAAC-TTCAATCCACTTCACTACTCTTCAG
1172005 GGAAGA
130 GGAAGA
* *
1172011 TTGAATCGAACTTGATTTGCTTCGA-TGCTCTTCAGGAAGACCAAATCTGAAAGAAAAAGAATAT
1 TTGAATCGAACTTGATTTGCTTC-ACTGCTCTTCAAGAAGACCAAATCTGAAAGAAAAAGAATCT
**
1172075 GCTCTGCTACTCTTTAGGGGA
65 GCTCCACTACTCTTTAGGGGA
1172096 AACCAATCTT
Statistics
Matches: 189, Mismatches: 28, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
134 7 0.04
135 129 0.68
136 51 0.27
137 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (135 bp):
TTGAATCGAACTTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATCTGAAAGAAAAAGAATCTG
CTCCACTACTCTTTAGGGGAGATCAAACTCGTAAAAAACTTCAATCCACTTCACTACTCTTCAGG
GAAGA
Found at i:1173488 original size:20 final size:22
Alignment explanation
Indices: 1173463--1173513 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 22
1173453 TTTAACCCCC
1173463 CTTTATTTTTTT-TTT-TTTTT
1 CTTTATTTTTTTCTTTATTTTT
1173483 CTTTATTTTTTTCTTTATTTTT
1 CTTTATTTTTTTCTTTATTTTT
1173505 CTTT-TTTTT
1 CTTTATTTTT
1173514 CACATGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.41
21 8 0.28
22 9 0.31
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.86
Consensus pattern (22 bp):
CTTTATTTTTTTCTTTATTTTT
Found at i:1173493 original size:12 final size:12
Alignment explanation
Indices: 1173468--1173504 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1173458 CCCCCCTTTA
1173468 TTTTT-TTT-TT
1 TTTTTCTTTATT
1173478 TTTTTCTTTATT
1 TTTTTCTTTATT
1173490 TTTTTCTTTATT
1 TTTTTCTTTATT
1173502 TTT
1 TTT
1173505 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 5 0.20
11 3 0.12
12 17 0.68
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTCTTTATT
Found at i:1183022 original size:46 final size:47
Alignment explanation
Indices: 1182963--1183063 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 47
1182953 TTTGAACAAA
* * * *
1182963 AAACCTAACCTCAT-ACTATCTAGTTCACATGC-TTATTCGAGAAAAAT
1 AAACTTAACCTCATGA-TATCTAG-TCACATACATTATTCGAAAAAAAC
*
1183010 AAACTTAA-CTCATGATCTCTAGTCACATACATTATTCGAAAAAAAC
1 AAACTTAACCTCATGATATCTAGTCACATACATTATTCGAAAAAAAC
*
1183056 AAATTTAA
1 AAACTTAA
1183064 ATTACTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
45 7 0.15
46 31 0.67
47 8 0.17
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (47 bp):
AAACTTAACCTCATGATATCTAGTCACATACATTATTCGAAAAAAAC
Found at i:1187992 original size:13 final size:13
Alignment explanation
Indices: 1187958--1187992 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1187948 AATTGGAGGA
*
1187958 GAAGAAGAAAGTT
1 GAAGAAGAGAGTT
1187971 GAAGAAGAGAGTT
1 GAAGAAGAGAGTT
1187984 GAAGAAGAG
1 GAAGAAGAG
1187993 TTTGAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.11
Consensus pattern (13 bp):
GAAGAAGAGAGTT
Found at i:1198152 original size:21 final size:21
Alignment explanation
Indices: 1198097--1198145 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1198087 AAGGATATGG
1198097 AAGACAAAGTCAAGATTAATC
1 AAGACAAAGTCAAGATTAATC
1198118 AAGACAAAGTCAAGATTAATC
1 AAGACAAAGTCAAGATTAATC
1198139 AAGACAA
1 AAGACAA
1198146 TCTCAAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.16
Consensus pattern (21 bp):
AAGACAAAGTCAAGATTAATC
Found at i:1199421 original size:38 final size:38
Alignment explanation
Indices: 1199358--1199449 Score: 130
Period size: 38 Copynumber: 2.4 Consensus size: 38
1199348 ACTTTCCAAA
* * * *
1199358 AAAGTCAACTTTTGGCCAAAATCAACGCTGGTCAATGTC
1 AAAGTCAA-ATTTGGTCAAAATCAACGCTAGTCAATATC
*
1199397 AAAGTCAAATTTGGTCAAAGTCAACGCTAGTCAATATC
1 AAAGTCAAATTTGGTCAAAATCAACGCTAGTCAATATC
1199435 AAAGTCAAATTTGGT
1 AAAGTCAAATTTGGT
1199450 AGTCAACAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 40 0.83
39 8 0.17
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (38 bp):
AAAGTCAAATTTGGTCAAAATCAACGCTAGTCAATATC
Found at i:1199471 original size:32 final size:35
Alignment explanation
Indices: 1199379--1199473 Score: 99
Period size: 38 Copynumber: 2.7 Consensus size: 35
1199369 TTGGCCAAAA
*
1199379 TCAACGCTGGTCAATGTCAAAGTCAAATTTGGTCAAAG
1 TCAACGCT-ATCAATGTCAAAGTCAAATTTGGT--AAG
*
1199417 TCAACGCTAGTCAATATCAAAGTCAAATTTGGT-AG
1 TCAACGCTA-TCAATGTCAAAGTCAAATTTGGTAAG
1199452 TCAACAG-T-TC-ATGTCAAAGTCA
1 TCAAC-GCTATCAATGTCAAAGTCA
1199474 TTGGTTCGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
32 11 0.21
33 2 0.04
35 8 0.15
36 1 0.02
38 30 0.58
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (35 bp):
TCAACGCTATCAATGTCAAAGTCAAATTTGGTAAG
Found at i:1199531 original size:20 final size:20
Alignment explanation
Indices: 1199506--1199588 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
1199496 TTTGGATTGG
1199506 TTCAAGTTGACTCAGACTGA
1 TTCAAGTTGACTCAGACTGA
*
1199526 TTCAAGTTGACTC-GATTCGA
1 TTCAAGTTGACTCAGACT-GA
* * *
1199546 TAT-GAGTTGACTCAGTCTGG
1 T-TCAAGTTGACTCAGACTGA
* *
1199566 TTCAAGTTGACACAGACCGA
1 TTCAAGTTGACTCAGACTGA
1199586 TTC
1 TTC
1199589 TAGAAGGTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
19 4 0.08
20 42 0.86
21 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
TTCAAGTTGACTCAGACTGA
Found at i:1209295 original size:749 final size:749
Alignment explanation
Indices: 1207857--1210107 Score: 4457
Period size: 749 Copynumber: 3.0 Consensus size: 749
1207847 ATGAAATTTA
1207857 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
1 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
*
1207922 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATTC
66 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATCC
*
1207987 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAAATTGGATAACTGGTTTTT
131 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
1208052 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
196 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
1208117 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
261 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
1208182 AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
326 AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
1208247 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
391 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
1208312 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
456 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
1208377 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
521 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
1208442 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
586 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
1208507 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
651 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
1208572 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
716 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
1208606 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
1 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
*
1208671 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGATTAATAACTCTGAAAAGACATATTGATCC
66 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATCC
1208736 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
131 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
1208801 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
196 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
1208866 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
261 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
1208931 AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
326 AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
1208996 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
391 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
1209061 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
456 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
1209126 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
521 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
1209191 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
586 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
1209256 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
651 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
1209321 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
716 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
1209355 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
1 TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
1209420 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATCC
66 TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATCC
1209485 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
131 AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
1209550 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
196 AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
1209615 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
261 TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
*
1209680 AAATTATCTGGTTAAGAAATTACGAAAATGCCATTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
326 AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
1209745 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
391 ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
1209810 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
456 GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
*
1209875 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATTGGGAGAATTCTTTTGTCAGAATTGTT
521 TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
1209940 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
586 CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
1210005 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
651 AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
1210070 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
716 AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
1210104 TAAT
1 TAAT
1210108 GATTAGAACA
Statistics
Matches: 1496, Mismatches: 6, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
749 1496 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (749 bp):
TAATTTATCTCATTTGATAAGGTATGGAAATACGTCGATTGGGTAAAATTATGAAATTACCCTTA
TATTGGAAAATGACAAGAATTGTCCCTGGAAATTGGTTAATAACTCTGAAAAGACATATTGATCC
AATATAATTACAAATGTGCATAAGAAATGATAGTTTTGCTTAAAAAATTTGGATAACTGGTTTTT
AACCCCAAAAGGGTTTGTATAAGATGCTAGAAGTATGTTAAGAGAATCATTTCAAGATCAGAGAA
TGTTCAAGAAAGAAATTAATCATAGGATCTCTAAATTATATTATTTTTGTTAAGAGTTAATACCG
AAATTATCTGGTTAAGAAATTACGAAAATGCCCTTGAGAGGTAAAATAGTCCGAGTTGACCCTGA
ATGAGAAAGTACTTTGAGGATTCATACTTAACTTGATTAAGTACGGATTTAATTGTTAAGATCCT
GACTTTGTGTAGAAAAATTCATGATATTCCGTTTGTAAAATCTGAGAAGGCACTTGACCCAAAAA
TATCCGAGTTATGAGTAAATACTTGAATAACAATTTATCGGGAGAATTCTTTTGTCAGAATTGTT
CGAATGGACTGAAATAAATGATAAGTTTGAAGTTAATAATAAGATTGGACGGAAAGAAATGATTG
AAGTACACTGGATCTGTAAAATGACCAGAATACCCATGTAATGGAAATGACCCAAGAATATCACC
AAGCTTAGGAATGATGGGATATCCTCGAGCTCTG
Found at i:1211116 original size:24 final size:24
Alignment explanation
Indices: 1211089--1211190 Score: 71
Period size: 24 Copynumber: 4.2 Consensus size: 24
1211079 ATATTTTATC
* *
1211089 TGATTTATGACTTGATTTCTGTTA
1 TGATTTATGACTTGAATTATGTTA
** * * *
1211113 TGATACATTACCTGAATTATGTTC
1 TGATTTATGACTTGAATTATGTTA
* *
1211137 TGATTTCTGA-TCTGGATTATGTTA
1 TGATTTATGACT-TGAATTATGTTA
* * * *
1211161 TGATATATGATTTGAATTCTGTTT
1 TGATTTATGACTTGAATTATGTTA
1211185 TGATTT
1 TGATTT
1211191 CTGATGTCTC
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
24 55 0.98
25 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.51
Consensus pattern (24 bp):
TGATTTATGACTTGAATTATGTTA
Found at i:1211195 original size:24 final size:24
Alignment explanation
Indices: 1211124--1211195 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
1211114 GATACATTAC
*
1211124 CTGAATTATGTTCTGATTTCTGAT
1 CTGAATTATGTTATGATTTCTGAT
* * *
1211148 CTGGATTATGTTATGATATATGAT
1 CTGAATTATGTTATGATTTCTGAT
* * *
1211172 TTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTATGTTATGATTTCTGAT
1211196 GTCTCCATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (24 bp):
CTGAATTATGTTATGATTTCTGAT
Found at i:1212001 original size:18 final size:17
Alignment explanation
Indices: 1211978--1212013 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1211968 ATTTTTTAAA
1211978 TTTATATTTAATATTTAG
1 TTTATATTTAA-ATTTAG
*
1211996 TTTATATTTCAATTTAG
1 TTTATATTTAAATTTAG
1212013 T
1 T
1212014 ACTTTGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTATATTTAAATTTAG
Found at i:1212512 original size:21 final size:21
Alignment explanation
Indices: 1212486--1212525 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1212476 TTATACCATC
1212486 GAACATATATACTTAAATTTT
1 GAACATATATACTTAAATTTT
1212507 GAACATATATACTTAAATT
1 GAACATATATACTTAAATT
1212526 GTTAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
GAACATATATACTTAAATTTT
Found at i:1213616 original size:22 final size:22
Alignment explanation
Indices: 1213568--1213623 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1213558 ACTACTGTGG
1213568 GTATCGATA-C-TAAGATAAAC
1 GTATCGATACCATAAGATAAAC
*
1213588 GTATCGATACCATAATATAGAA-
1 GTATCGATACCATAAGATA-AAC
1213610 GTATCGATACCATA
1 GTATCGATACCATA
1213624 GAAGGGGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 9 0.28
21 1 0.03
22 20 0.62
23 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (22 bp):
GTATCGATACCATAAGATAAAC
Done.