Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_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: 3386631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:1443 original size:20 final size:20
Alignment explanation
Indices: 1418--1457 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1408 TGTTGTTGGT
1418 ATATGAATACATGGAAAATA
1 ATATGAATACATGGAAAATA
1438 ATATGAATACATGGAAAATA
1 ATATGAATACATGGAAAATA
1458 TAGCCTCGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (20 bp):
ATATGAATACATGGAAAATA
Found at i:3809 original size:30 final size:30
Alignment explanation
Indices: 3773--3845 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
3763 ATTACGCATA
*
3773 TAGTACCTAAACTATCAGTTTTGGTCTGTT
1 TAGTACCTAAACTATCAGTTTTGGTATGTT
*
3803 TAGTACCTTAACTATCAGTTTTGGTATGTT
1 TAGTACCTAAACTATCAGTTTTGGTATGTT
3833 TAGTACCTAAACT
1 TAGTACCTAAACT
3846 TTCAAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (30 bp):
TAGTACCTAAACTATCAGTTTTGGTATGTT
Found at i:16965 original size:29 final size:29
Alignment explanation
Indices: 16922--17034 Score: 165
Period size: 29 Copynumber: 3.9 Consensus size: 29
16912 TATGTGATAT
16922 GAGAACATGACATGAGCTACATGAACACAA
1 GAGAA-ATGACATGAGCTACATGAACACAA
* *
16952 GAGAAATGAAATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGAACACAA
* *
16981 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGAACACAA
*
17010 GATAAATGACATGAG-TACATGAACA
1 GAGAAATGACATGAGCTACATGAACA
17035 TATGAAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
28 9 0.12
29 62 0.82
30 5 0.07
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGAACACAA
Found at i:22715 original size:20 final size:20
Alignment explanation
Indices: 22690--22730 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
22680 AGGAAGAAGG
22690 AATGGAAGGACAATAGAGTA
1 AATGGAAGGACAATAGAGTA
22710 AATGGAAGGACAATAGAGTA
1 AATGGAAGGACAATAGAGTA
22730 A
1 A
22731 TTGCAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.29, T:0.15
Consensus pattern (20 bp):
AATGGAAGGACAATAGAGTA
Found at i:22738 original size:20 final size:20
Alignment explanation
Indices: 22690--22739 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
22680 AGGAAGAAGG
*
22690 AATGGAAGGACAATAGAGTA
1 AATGCAAGGACAATAGAGTA
*
22710 AATGGAAGGACAATAGAGTA
1 AATGCAAGGACAATAGAGTA
*
22730 ATTGCAAGGA
1 AATGCAAGGA
22740 AAAATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.16
Consensus pattern (20 bp):
AATGCAAGGACAATAGAGTA
Found at i:23468 original size:45 final size:46
Alignment explanation
Indices: 23382--23487 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 46
23372 GATGTACTGG
** *
23382 TAGTGCATCGATGCACTCTTTTAAAATAAAAAGATCAAATGCA-AT
1 TAGTGCATCGATGCACTCCATTAAAATAAAAACATCAAATGCATAT
* *
23427 TAGTGCATCGATGCA-TCCCATTAATAAT-AAAACATCGAATGCATTT
1 TAGTGCATCGATGCACT-CCATTAA-AATAAAAACATCAAATGCATAT
*
23473 TA-TGCACCGATGCAC
1 TAGTGCATCGATGCAC
23488 AAGTAGTGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
44 1 0.02
45 44 0.86
46 6 0.12
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (46 bp):
TAGTGCATCGATGCACTCCATTAAAATAAAAACATCAAATGCATAT
Found at i:23922 original size:29 final size:29
Alignment explanation
Indices: 23883--23992 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
23873 TATGTGATAT
23883 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
23913 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
23942 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
23971 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
23993 ATATATGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:24095 original size:15 final size:15
Alignment explanation
Indices: 24077--24110 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24067 GAGGGTATAA
24077 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
24092 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
24107 TAGT
1 TAGT
24111 GGTCCTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:25351 original size:127 final size:127
Alignment explanation
Indices: 25124--25473 Score: 637
Period size: 127 Copynumber: 2.7 Consensus size: 127
25114 ACTATTCACA
* *
25124 TGAAGGCTCATTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCC-GGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
25189 TTATATCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
25252 TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
25317 TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
25379 TGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
25444 TTATGTCACTCATGTCCCTCGGGGACACTA
65 TTATGTCACTCATGTCCCTCGGGGACACTA
25474 GATGGATTGT
Statistics
Matches: 216, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
127 130 0.60
128 86 0.40
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (127 bp):
TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:25915 original size:34 final size:34
Alignment explanation
Indices: 25877--25978 Score: 132
Period size: 35 Copynumber: 3.0 Consensus size: 34
25867 AAATTTAATG
* *
25877 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
25911 TTAAATTTCGAATAATATTATTTTTTATTTTTATT
1 TTAAATTTCGAATAATA-TAATTTATATTTTAAAT
*
25946 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
25979 AACATTTATC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 27 0.47
35 30 0.53
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:26564 original size:42 final size:42
Alignment explanation
Indices: 26501--26609 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
26491 TATGGTATAA
* * * *
26501 AACCCTACGGGCTAGGCATGTAACCTGGTGAGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGAGCTAGGAATGT
* *
26543 AACCCTGTGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGAGCTAGGAATGT
26585 AACCCTGCGGGCTCGGAATGTAACC
1 AACCCTGCGGGCTCGGAATGTAACC
26610 CTGCGGAGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGAGCTAGGAATGT
Found at i:26610 original size:21 final size:21
Alignment explanation
Indices: 26501--26615 Score: 137
Period size: 21 Copynumber: 5.5 Consensus size: 21
26491 TATGGTATAA
* *
26501 AACCCTACGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
26522 AA-CCTG-GTGAGCTAGGAATGT
1 AACCCTGCG-G-GCTAGGAATGT
* *
26543 AACCCTGTGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
26564 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
26585 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
26606 AACCCTGCGG
1 AACCCTGCGG
26616 AGATGGCATA
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.01
20 7 0.09
21 65 0.79
22 8 0.10
23 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:26645 original size:21 final size:21
Alignment explanation
Indices: 26619--26666 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
26609 CCTGCGGAGA
*
26619 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
26640 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
26661 GGGCAT
1 TGGCAT
26667 GTACCCCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:28234 original size:17 final size:17
Alignment explanation
Indices: 28197--28250 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
28187 CCATTATAAA
* *
28197 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
28213 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
28230 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
28247 AAAT
1 AAAT
28251 ATTAACATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:29171 original size:41 final size:40
Alignment explanation
Indices: 29126--29235 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 40
29116 ATTCACGTTG
* *
29126 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTG-AAATCGCGTTGCGATTTTC
*
29167 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTT-GAAATCGCGTTGCGATTTTC
29208 CATTTCGCGTTGCGATAGTTGAAATCGC
1 CATTTCGCGTTGCGATAGTTGAAATCGC
29236 AACGCGATCT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.11
41 56 0.88
42 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (40 bp):
CATTTCGCGTTGCGATAGTTGAAATCGCGTTGCGATTTTC
Found at i:29222 original size:20 final size:20
Alignment explanation
Indices: 29151--29223 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
29141 TAGTTGAAAA
*
29151 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
29171 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
29192 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
29212 TCGCGTTGCGAT
1 TCGCGTTGCGAT
29224 AGTTGAAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:29235 original size:20 final size:21
Alignment explanation
Indices: 29130--29235 Score: 67
Period size: 20 Copynumber: 5.2 Consensus size: 21
29120 ACGTTGCATT
*
29130 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
29151 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* *
29171 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
29192 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
29212 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
29232 TCGC
1 TCGC
29236 AACGCGATCT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
20 34 0.56
21 27 0.44
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:29318 original size:20 final size:20
Alignment explanation
Indices: 29293--29385 Score: 125
Period size: 20 Copynumber: 4.6 Consensus size: 20
29283 TAGTTGAAAA
*
29293 TCGCGTTACGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
29313 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
29334 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
29354 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
29374 TCGCGTTGCGAT
1 TCGCGTTGCGAT
29386 AGTCTACAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 4 0.06
20 43 0.68
21 12 0.19
22 4 0.06
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:29338 original size:41 final size:41
Alignment explanation
Indices: 29268--29365 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
29258 ATTCGTGTTG
29268 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTC
* * *
29309 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTACGATTTTC
29350 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
29366 TTTCCATTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTACGATTTTC
Found at i:29346 original size:142 final size:142
Alignment explanation
Indices: 29097--29365 Score: 443
Period size: 142 Copynumber: 1.9 Consensus size: 142
29087 AATTCGCATT
* *
29097 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGT
1 GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTACGA
**
29162 TTTTCCATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
66 TTTTCCATTTCGCGTTGCGATAGTTACAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
29227 TGAAATCGCAAC
131 TGAAATCGCAAC
** *
29239 GCGATCTCCA-TCATCGCAAATTCGTGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCGTTACG
1 GCGATCTCCACT-ATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTACG
29303 ATTTTCCATTTCGCGTTGCGATAGTCTACAG-TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
65 ATTTTCCATTTCGCGTTGCGATAGT-TACAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
29366 TTTCCATTTC
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
141 1 0.01
142 114 0.97
143 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (142 bp):
GCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCGCGTTACGA
TTTTCCATTTCGCGTTGCGATAGTTACAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
TGAAATCGCAAC
Found at i:29371 original size:61 final size:61
Alignment explanation
Indices: 29293--29412 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
29283 TAGTTGAAAA
*
29293 TCGCGTTACGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATT
1 TCGCGTTACGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGAGTTGCGATTTTCCATT
*
29354 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGAGTTGCGATTTTCCA
1 TCGCGTTACGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGAGTTGCGATTTTCCA
29413 AATTCGTTGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (61 bp):
TCGCGTTACGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGAGTTGCGATTTTCCATT
Found at i:29661 original size:6 final size:6
Alignment explanation
Indices: 29625--29700 Score: 117
Period size: 6 Copynumber: 13.5 Consensus size: 6
29615 TCTCGTCTCG
29625 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
29668 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
29701 AATACGTGTC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.36
6 45 0.64
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:29902 original size:41 final size:41
Alignment explanation
Indices: 29850--30107 Score: 439
Period size: 41 Copynumber: 6.3 Consensus size: 41
29840 ACTGTATACT
* * *
29850 ATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAA
* *
29891 ATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAA
29932 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
29973 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
30014 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
30055 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
30096 ATCGCAACGCGA
1 ATCGCAACGCGA
30108 AATGGAAAAT
Statistics
Matches: 213, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 1 0.00
41 212 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:30779 original size:17 final size:18
Alignment explanation
Indices: 30752--30792 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
30742 AATTTATTAA
*
30752 ATATTTTATTTTTGAATT
1 ATATTTAATTTTTGAATT
*
30770 A-ATTTAATTTTTTAATT
1 ATATTTAATTTTTGAATT
30787 ATATTT
1 ATATTT
30793 CATACATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATATTTAATTTTTGAATT
Found at i:33261 original size:51 final size:50
Alignment explanation
Indices: 33201--33328 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 50
33191 AGCAGTAAAG
* * ** *
33201 CGCGCCCCCTGAATCGCGCTATATGCTGATTTTGCGCCACGTGGAGTATAA
1 CGCGCCCCCTG-ATCGCGCTATACGCTGACTGAGCGACACGTGGAGTATAA
* ** * *
33252 CGCGCCCCCTGTACCGCGCTATACGCTGACTGAGTTACACGTGGGGTATAG
1 CGCGCCCCCTG-ATCGCGCTATACGCTGACTGAGCGACACGTGGAGTATAA
33303 CGCGCCCCCTGATCCGCGCTATACGC
1 CGCGCCCCCTGAT-CGCGCTATACGC
33329 CATGTAGGGG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (50 bp):
CGCGCCCCCTGATCGCGCTATACGCTGACTGAGCGACACGTGGAGTATAA
Found at i:36987 original size:35 final size:34
Alignment explanation
Indices: 36902--36988 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
36892 ATTTGGTATT
* *
36902 TAAATACAACAAACTTACAATAAGAATTAAGTGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
36936 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
36974 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
36989 ACTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:37560 original size:27 final size:27
Alignment explanation
Indices: 37530--37587 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
37520 AAACCAGGTG
* *
37530 AAGGCGGCGACGACATCTGGTAATTGA
1 AAGGCGACGACGACATCTGGTAATGGA
* *
37557 AAGGTGATGACGACATCTGGTAATGGA
1 AAGGCGACGACGACATCTGGTAATGGA
37584 AAGG
1 AAGG
37588 TGATGGCGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (27 bp):
AAGGCGACGACGACATCTGGTAATGGA
Found at i:37588 original size:27 final size:27
Alignment explanation
Indices: 37538--37600 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
37528 TGAAGGCGGC
*
37538 GACGACATCTGGTAATTGAAAGGTGAT
1 GACGACATCTGGTAATGGAAAGGTGAT
37565 GACGACATCTGGTAATGGAAAGGTGAT
1 GACGACATCTGGTAATGGAAAGGTGAT
*
37592 GGCGACATC
1 GACGACATC
37601 ATATATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (27 bp):
GACGACATCTGGTAATGGAAAGGTGAT
Found at i:39471 original size:111 final size:111
Alignment explanation
Indices: 39141--39471 Score: 510
Period size: 111 Copynumber: 3.0 Consensus size: 111
39131 ACAAAAATTA
39141 ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAA--T---TTAAAT
1 ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAAAT
* *
39201 TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATATTTA
66 TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTG
* *
39247 ATTCTTAATCTAATAATCACGCATTAAATAAATCAACTAATTGTTACTAATAATTTAAATTAAAT
1 ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAAAT
* * * * *
39312 TAAAACGTTAAAATATTACCGTATTAACAAAATGTTGAGATATTTG
66 TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTG
*
39358 ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTAAAT
1 ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAAAT
* * *
39423 TAAAACGTTAAAATGTTACCTTAACAGCAAAGTGTAGAGATATATG
66 TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTG
39469 ATT
1 ATT
39472 TTTATTCGAG
Statistics
Matches: 201, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
106 51 0.25
108 1 0.00
111 149 0.74
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
ATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTAAAT
TAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTG
Found at i:43756 original size:15 final size:15
Alignment explanation
Indices: 43736--43770 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
43726 CTATAGTTGT
43736 GCTCACATGATGCTG
1 GCTCACATGATGCTG
43751 GCTCACATGATGCTG
1 GCTCACATGATGCTG
43766 GCTCA
1 GCTCA
43771 AATTTCAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.26
Consensus pattern (15 bp):
GCTCACATGATGCTG
Found at i:64759 original size:21 final size:21
Alignment explanation
Indices: 64735--64781 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
64725 AGTGCGCAAC
64735 AATAACAAAACCGGTAGAAAA
1 AATAACAAAACCGGTAGAAAA
*
64756 AATAACAAAACCGGTAGAAAT
1 AATAACAAAACCGGTAGAAAA
64777 AATAA
1 AATAA
64782 TGTTTACGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.13
Consensus pattern (21 bp):
AATAACAAAACCGGTAGAAAA
Found at i:75091 original size:24 final size:24
Alignment explanation
Indices: 75033--75094 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
75023 CGTTCGTGAA
* *
75033 CGTTCGGTTATATTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* * *
75057 TGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
75081 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
75095 TAACCTAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.55
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:76629 original size:16 final size:16
Alignment explanation
Indices: 76606--76682 Score: 127
Period size: 16 Copynumber: 4.8 Consensus size: 16
76596 GGGTCTCCAA
76606 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
**
76622 TATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
76638 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
76654 CGTTTATGTTTGTGTT
1 CGTTTATGTTCGTGTT
76670 CGTTTATGTTCGT
1 CGTTTATGTTCGT
76683 TTATTTATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.08, C:0.10, G:0.23, T:0.58
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:76773 original size:16 final size:16
Alignment explanation
Indices: 76752--76783 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
76742 AAAAAAATTT
76752 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
76768 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
76784 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:76869 original size:63 final size:63
Alignment explanation
Indices: 76795--76927 Score: 257
Period size: 63 Copynumber: 2.1 Consensus size: 63
76785 TTATTTATTA
76795 AATGAACGAACATGAACATACATCCGTTCGTGTGTGTTCGATTCATTTACATTGTTATTCCTT
1 AATGAACGAACATGAACATACATCCGTTCGTGTGTGTTCGATTCATTTACATTGTTATTCCTT
*
76858 AATGAACGAACATGAACATACATCCGTTCGTGTGTGTTCGATTCGTTTACATTGTTATTCCTT
1 AATGAACGAACATGAACATACATCCGTTCGTGTGTGTTCGATTCATTTACATTGTTATTCCTT
76921 AATGAAC
1 AATGAAC
76928 AAGCTATATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (63 bp):
AATGAACGAACATGAACATACATCCGTTCGTGTGTGTTCGATTCATTTACATTGTTATTCCTT
Found at i:78410 original size:25 final size:26
Alignment explanation
Indices: 78369--78425 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
78359 TACTTTTATA
*
78369 TTAA-ATATAATGATTAATATTTAAT
1 TTAATATATAATGATTAATATTCAAT
* * *
78394 TTGATATATAAT-TTTAATGTTCAAT
1 TTAATATATAATGATTAATATTCAAT
78419 TTAATAT
1 TTAATAT
78426 TTGATGTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (26 bp):
TTAATATATAATGATTAATATTCAAT
Found at i:82920 original size:21 final size:22
Alignment explanation
Indices: 82874--82920 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
82864 ATTTGAATTT
* *
82874 TAAAATTTTAAAAAGTAGATAT
1 TAAAATTTTAAAAAGTAAATAC
*
82896 TAAAATTTT-AGAAGTAAATAC
1 TAAAATTTTAAAAAGTAAATAC
82917 TAAA
1 TAAA
82921 TTATAGCACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (22 bp):
TAAAATTTTAAAAAGTAAATAC
Found at i:87621 original size:19 final size:19
Alignment explanation
Indices: 87591--87627 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
87581 ACAGCTGAGA
87591 TTGAACAGAACTTGGAGATT
1 TTGAACAGAACTT-GAGATT
87611 TTGAA-AGAACTTGAGAT
1 TTGAACAGAACTTGAGAT
87628 GCTAAGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (19 bp):
TTGAACAGAACTTGAGATT
Found at i:97849 original size:15 final size:17
Alignment explanation
Indices: 97829--97860 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97819 AATTTATGAG
97829 TACTC-AAC-TAACGGA
1 TACTCAAACTTAACGGA
97844 TACTCAAACTTAACGGA
1 TACTCAAACTTAACGGA
97861 CCAAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (17 bp):
TACTCAAACTTAACGGA
Found at i:105882 original size:38 final size:38
Alignment explanation
Indices: 105830--105905 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
105820 ACTCACCGAT
*
105830 GGCTAATCAGCTGTACTTCGAAACTATTGGGAACCTAA
1 GGCTAATCAGCTGTACTTAGAAACTATTGGGAACCTAA
105868 GGCTAATCCA-CTGTACTTAGAAACTATTGGGAACCTAA
1 GGCTAAT-CAGCTGTACTTAGAAACTATTGGGAACCTAA
105906 AATTTAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 34 0.94
39 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (38 bp):
GGCTAATCAGCTGTACTTAGAAACTATTGGGAACCTAA
Found at i:109000 original size:23 final size:22
Alignment explanation
Indices: 108974--109037 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
108964 CAGCTCATAT
108974 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
108997 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
*
109020 AATTACACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
109038 TATAATAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:109178 original size:103 final size:103
Alignment explanation
Indices: 109053--109270 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
109043 TAATGTCCAT
109053 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
109118 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
109156 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
109221 GACCTCACATATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
109259 AAGGACCACATA
1 AAGGACCACATA
109271 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:109843 original size:64 final size:63
Alignment explanation
Indices: 109729--109870 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 63
109719 TTAATGGAGG
* * *
109729 TATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGGATGCATCGATGCACTCCT
1 TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGAATGCATCGATGCACTCCA
* * *
109793 TATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TAATGCATCGATGCACTGCA
1 TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGAATGCATCGATGCACTCCA
*
109857 TGTGCATCGATGCA
1 TATGCATCGATGCA
109871 CCTTAAACAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 59 0.86
65 7 0.10
66 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (63 bp):
TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGAATGCATCGATGCACTCCA
Found at i:119520 original size:15 final size:15
Alignment explanation
Indices: 119500--119545 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
119490 TTTTTATATA
119500 ATTATATAATTTAAT
1 ATTATATAATTTAAT
119515 ATTATAT-ATATTAAT
1 ATTATATAAT-TTAAT
* *
119530 AATATATAATATAAT
1 ATTATATAATTTAAT
119545 A
1 A
119546 AATTAAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATATAATTTAAT
Found at i:119522 original size:25 final size:24
Alignment explanation
Indices: 119482--119541 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
119472 TATATAAAAC
* *
119482 ATATTAATTTTTTATATAATTATATA
1 ATATTAATATTATATAT-ATTA-ATA
119508 AT-TTAATATTATATATATTAATA
1 ATATTAATATTATATATATTAATA
119531 ATATATAATAT
1 ATAT-TAATAT
119542 AATAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 18 0.60
26 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAATATTATATATATTAATA
Found at i:119572 original size:109 final size:106
Alignment explanation
Indices: 119428--119643 Score: 396
Period size: 109 Copynumber: 2.0 Consensus size: 106
119418 AATATAATTA
119428 ATAAATAAAAATTAAGATTTTTTTACATTAACAAAAAATACGAATATATAAAACATATTAATTTT
1 ATAAATAAAAATTAAGATTTTTTTACATTAACAAAAAATACGAATATATAAAACATATTAATTTT
119493 TTATATAATTATATAATTTAATATTATATATATTAATAATAT
66 TTATATAATTATATAATTTAATATTATATATA-TAATAATAT
119535 ATAATATAATAAATTAAGATTTTTTTACATTAACAAAAAATACGAATATATAAAACATATTAATT
1 ATAA-ATAA-AAATTAAGATTTTTTTACATTAACAAAAAATACGAATATATAAAACATATTAATT
*
119600 TTTTATATAATTATATAATTTAATATTATATATATATTAATAT
64 TTTTATATAATTATATAATTTAATATTATATATATAATAATAT
119643 A
1 A
119644 ATACGGGTAA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
107 4 0.04
108 13 0.12
109 89 0.84
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (106 bp):
ATAAATAAAAATTAAGATTTTTTTACATTAACAAAAAATACGAATATATAAAACATATTAATTTT
TTATATAATTATATAATTTAATATTATATATATAATAATAT
Found at i:119751 original size:30 final size:30
Alignment explanation
Indices: 119717--119788 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
119707 TAAATTTTAA
**
119717 AAATATTTTTTATTTTTATCTTAATTTATT
1 AAATATTTTTTATTTTTATCTTAACCTATT
* *
119747 AAATATATTTTATTTTTGTCTTAACCTATT
1 AAATATTTTTTATTTTTATCTTAACCTATT
119777 AAATATTTTTTA
1 AAATATTTTTTA
119789 ATGTAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (30 bp):
AAATATTTTTTATTTTTATCTTAACCTATT
Found at i:120006 original size:2 final size:2
Alignment explanation
Indices: 119999--120056 Score: 56
Period size: 2 Copynumber: 31.0 Consensus size: 2
119989 TATAATTTAT
119999 TA TA TA TA TA TA TA TA -A CTA T- TA -A TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
120038 CTA T- TA -A TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA
120057 ATTAAATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
1 6 0.12
2 40 0.83
3 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:120025 original size:22 final size:22
Alignment explanation
Indices: 119996--120056 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
119986 AATTATAATT
119996 TATT-ATATATATATATATAAC
1 TATTAATATATATATATATAAC
120017 TATTAATATATATATATATAAC
1 TATTAATATATATATATATAAC
120039 TATTAATATATATATATA
1 TATTAATATATATATATA
120057 ATTAAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTAATATATATATATATAAC
Found at i:122908 original size:21 final size:21
Alignment explanation
Indices: 122884--122924 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
122874 TCTCTATCCC
122884 TTAAGCTTCATTTAGAGTCCT
1 TTAAGCTTCATTTAGAGTCCT
122905 TTAAGCTTCATTTAGAGTCC
1 TTAAGCTTCATTTAGAGTCC
122925 ATAATCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (21 bp):
TTAAGCTTCATTTAGAGTCCT
Found at i:126945 original size:21 final size:21
Alignment explanation
Indices: 126921--126998 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
126911 TGGGTTTTGG
*
126921 GTTGTCGGAGTTGTGGGTGGT
1 GTTGTTGGAGTTGTGGGTGGT
* ***
126942 GTTGTTGGATTTGTGACCGGT
1 GTTGTTGGAGTTGTGGGTGGT
*
126963 GCTGTTGGAGTTGT-GGTCGGT
1 GTTGTTGGAGTTGTGGGT-GGT
*
126984 GTTGTTGGATTTGTG
1 GTTGTTGGAGTTGTG
126999 ACCGGTGCTG
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (21 bp):
GTTGTTGGAGTTGTGGGTGGT
Found at i:126986 original size:42 final size:42
Alignment explanation
Indices: 126927--127014 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
126917 TTGGGTTGTC
126927 GGAGTTGTGGGTGGTGTTGTTGGATTTGTGACCGGTGCTGTT
1 GGAGTTGTGGGTGGTGTTGTTGGATTTGTGACCGGTGCTGTT
126969 GGAGTTGT-GGTCGGTGTTGTTGGATTTGTGACCGGTGCTGTT
1 GGAGTTGTGGGT-GGTGTTGTTGGATTTGTGACCGGTGCTGTT
127011 GGAG
1 GGAG
127015 GCGTGATCGG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.08, C:0.08, G:0.45, T:0.39
Consensus pattern (42 bp):
GGAGTTGTGGGTGGTGTTGTTGGATTTGTGACCGGTGCTGTT
Found at i:127004 original size:21 final size:21
Alignment explanation
Indices: 126939--127013 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
126929 AGTTGTGGGT
*
126939 GGTGTTGTTGGATTTGTGACC
1 GGTGCTGTTGGATTTGTGACC
* **
126960 GGTGCTGTTGGAGTTGTGGTC
1 GGTGCTGTTGGATTTGTGACC
*
126981 GGTGTTGTTGGATTTGTGACC
1 GGTGCTGTTGGATTTGTGACC
127002 GGTGCTGTTGGA
1 GGTGCTGTTGGA
127014 GGCGTGATCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.08, C:0.09, G:0.43, T:0.40
Consensus pattern (21 bp):
GGTGCTGTTGGATTTGTGACC
Found at i:130397 original size:14 final size:14
Alignment explanation
Indices: 130380--130426 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
130370 CGTTCATTTA
130380 TGTTCGTTTACATT
1 TGTTCGTTTACATT
*
130394 TGTTCG-TT---TG
1 TGTTCGTTTACATT
130404 TGTTCGTTTACATT
1 TGTTCGTTTACATT
130418 TGTTCGTTT
1 TGTTCGTTT
130427 GTGTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 7 0.26
11 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.09, C:0.13, G:0.19, T:0.60
Consensus pattern (14 bp):
TGTTCGTTTACATT
Found at i:130398 original size:24 final size:24
Alignment explanation
Indices: 130371--130467 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
130361 TTTTATCCCC
130371 GTTCATTTATGTTCGTTTACATTT
1 GTTCATTTATGTTCGTTTACATTT
* *
130395 GTTCGTTTGTGTTCGTTTACATTT
1 GTTCATTTATGTTCGTTTACATTT
* * *
130419 GTTCGTTTGTGTTTGTTTACATTT
1 GTTCATTTATGTTCGTTTACATTT
*
130443 GTTCATTTATGTTTGTTTAACATTT
1 GTTCATTTATGTTCGTTT-ACATTT
130468 TAACGAACGA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 61 0.91
25 6 0.09
ACGTcount: A:0.13, C:0.10, G:0.16, T:0.60
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTTACATTT
Found at i:135187 original size:12 final size:13
Alignment explanation
Indices: 135151--135188 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
135141 TTTAAATATT
*
135151 ATATAAAATTATA
1 ATATATAATTATA
135164 ATATATATATTATA
1 ATATATA-ATTATA
135178 ATAT-TAATTAT
1 ATATATAATTAT
135189 TCTTAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 8 0.35
14 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATAATTATA
Found at i:140148 original size:15 final size:15
Alignment explanation
Indices: 140120--140153 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
140110 CCGTAGGACC
140120 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
* *
140135 ACTACGTCCTGAAGG
1 ACTACATCCCGAAGG
140150 ACTA
1 ACTA
140154 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:140280 original size:29 final size:29
Alignment explanation
Indices: 140238--140318 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
140228 TTTTATATGT
140238 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
140266 TCATGTAGCTCATGTCATCTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
140295 TCATGTAGCTCATGTCATCTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
140319 ATATCACATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 7 0.14
29 38 0.78
30 4 0.08
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:140792 original size:19 final size:19
Alignment explanation
Indices: 140768--140818 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
140758 TATTAATGGG
140768 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
140787 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
140806 ATGCATCGATGCA
1 ATGCATCGATGCA
140819 CTAATTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:145729 original size:20 final size:21
Alignment explanation
Indices: 145700--145751 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
145690 TCAGATTATC
*
145700 AGTATGGATACCGAT-TGAAG
1 AGTATCGATACCGATGTGAAG
* *
145720 AGTATCGATACTGATGTGGAG
1 AGTATCGATACCGATGTGAAG
145741 -GTATCGATACC
1 AGTATCGATACC
145752 AAGAGGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (21 bp):
AGTATCGATACCGATGTGAAG
Found at i:146467 original size:23 final size:23
Alignment explanation
Indices: 146427--146485 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
146417 TCATGGGTCT
*
146427 TATGTAGTCCTTCGGGACAAACC
1 TATGTAGTCATTCGGGACAAACC
* *
146450 TATGTGGTCATTCTGGACAAA--
1 TATGTAGTCATTCGGGACAAACC
146471 TATGTAG-CACTTCGG
1 TATGTAGTCA-TTCGG
146486 TGCAAATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.07
21 10 0.33
23 18 0.60
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
TATGTAGTCATTCGGGACAAACC
Found at i:163014 original size:2 final size:2
Alignment explanation
Indices: 163007--163033 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
162997 TGTAAAAGAG
163007 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
163034 GATTAGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:165177 original size:15 final size:15
Alignment explanation
Indices: 165157--165189 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
165147 TAAATTAAAG
165157 TATCATCTACCCTAT
1 TATCATCTACCCTAT
165172 TATCATCTACCCTAT
1 TATCATCTACCCTAT
165187 TAT
1 TAT
165190 AATTTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (15 bp):
TATCATCTACCCTAT
Found at i:165986 original size:151 final size:149
Alignment explanation
Indices: 165695--165994 Score: 537
Period size: 151 Copynumber: 2.0 Consensus size: 149
165685 GGTCAAGCAA
*
165695 CTATATCTATGAGTGTATTATCAATGATTAAGAAATATCTAAACATATACTTGAAATTATCCTCT
1 CTATATCTATGAGTGTATTATCAATGATTAAGAAATATCTAAACAGATACTTGAAATTATCCTCT
*
165760 ATATATATGATGACGACGACGACAATATAAGTCCACAATCTAATAATATTTAAATAGGGTTTAAA
66 ATATATATGATGACGACGACGACAATATAAGTCCACAATCCAATAATATTTAAATAGGGTTTAAA
165825 AGATAACTAATAATTAGAG
131 AGATAACTAATAATTAGAG
*
165844 CTATATCTATGAGTATGTGTTATCAATGATTAAGAAATATCTAAACAGATACTTGAAATTATCCT
1 CTATATCTATGAG--TGTATTATCAATGATTAAGAAATATCTAAACAGATACTTGAAATTATCCT
* *
165909 CTATATATATGATGATGACGACGACAATATAAGTCCATAATCCAATAATATTTAAATAGGGTTTA
64 CTATATATATGATGACGACGACGACAATATAAGTCCACAATCCAATAATATTTAAATAGGGTTTA
165974 AAAGATAACTAATAATTAGAG
129 AAAGATAACTAATAATTAGAG
165995 GTTCGAATCC
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
149 13 0.09
151 131 0.91
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (149 bp):
CTATATCTATGAGTGTATTATCAATGATTAAGAAATATCTAAACAGATACTTGAAATTATCCTCT
ATATATATGATGACGACGACGACAATATAAGTCCACAATCCAATAATATTTAAATAGGGTTTAAA
AGATAACTAATAATTAGAG
Found at i:169375 original size:19 final size:20
Alignment explanation
Indices: 169333--169374 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
169323 TTTATGATTC
*
169333 TTTTAAGATTTTTATTTACT
1 TTTTAAGATTTCTATTTACT
*
169353 TTTTATGATTTCT-TTTA-T
1 TTTTAAGATTTCTATTTACT
169371 TTTT
1 TTTT
169375 TTTATTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 4 0.20
20 11 0.55
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTAAGATTTCTATTTACT
Found at i:177660 original size:12 final size:12
Alignment explanation
Indices: 177643--177667 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
177633 ATATTTTTGA
177643 TAAAATATTATT
1 TAAAATATTATT
177655 TAAAATATTATT
1 TAAAATATTATT
177667 T
1 T
177668 TTTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:180712 original size:3 final size:3
Alignment explanation
Indices: 180704--180740 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
180694 AATTATAAAT
180704 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
180741 GAGGACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:180724 original size:17 final size:17
Alignment explanation
Indices: 180704--180740 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
180694 AATTATAAAT
180704 TTATTATTATTATTATA
1 TTATTATTATTATTATA
180721 TTATTATTATTATTATA
1 TTATTATTATTATTATA
180738 TTA
1 TTA
180741 GAGGACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:180740 original size:14 final size:14
Alignment explanation
Indices: 180705--180733 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
180695 ATTATAAATT
180705 TATTATTATTATTA
1 TATTATTATTATTA
180719 TATTATTATTATTA
1 TATTATTATTATTA
180733 T
1 T
180734 TATATTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:184004 original size:17 final size:18
Alignment explanation
Indices: 183965--184010 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
183955 TGTTTATGAG
*
183965 GGAATTAAAATCTGTAAA
1 GGAATTGAAATCTGTAAA
*
183983 GGAATTGAAATCTGT-CA
1 GGAATTGAAATCTGTAAA
184000 GGAATTGAAAT
1 GGAATTGAAAT
184011 TCAATTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (18 bp):
GGAATTGAAATCTGTAAA
Found at i:189817 original size:21 final size:20
Alignment explanation
Indices: 189769--189818 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
189759 ATTATAAAAA
*
189769 TTTATAATTTAGATTGTACT
1 TTTATATTTTAGATTGTACT
**
189789 TTGCTATTTTAGATATGTACT
1 TTTATATTTTAGAT-TGTACT
189810 TTTATATTT
1 TTTATATTT
189819 CAGTTCGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (20 bp):
TTTATATTTTAGATTGTACT
Found at i:191977 original size:26 final size:26
Alignment explanation
Indices: 191898--191979 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
191888 ATATTTTTAC
* *
191898 TTATATATGAATCATATCAATTTAAA
1 TTATATATGAATTATATAAATTTAAA
* * *
191924 TTATA-ATAAATTCAAAAAAATCTT--A
1 TTATATATGAATT-ATATAAAT-TTAAA
*
191949 TTATATATGAATTATATTAATTTAAA
1 TTATATATGAATTATATAAATTTAAA
191975 TTATA
1 TTATA
191980 ATAAAAATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
24 2 0.05
25 16 0.38
26 22 0.52
27 2 0.05
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (26 bp):
TTATATATGAATTATATAAATTTAAA
Found at i:191992 original size:51 final size:51
Alignment explanation
Indices: 191898--191995 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
191888 ATATTTTTAC
*
191898 TTATATATGAATCATATCAATTTAAATTATAATAAATTCAAAAAAATCTTA
1 TTATATATGAATCATATCAATTTAAATTATAATAAAATCAAAAAAATCTTA
* *
191949 TTATATATGAATTATATTAATTTAAATTATAATAAAAAT-AAAAAAAT
1 TTATATATGAATCATATCAATTTAAATTATAAT-AAAATCAAAAAAAT
191996 AAAAAATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 39 0.91
52 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (51 bp):
TTATATATGAATCATATCAATTTAAATTATAATAAAATCAAAAAAATCTTA
Found at i:192046 original size:24 final size:25
Alignment explanation
Indices: 192002--192057 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
191992 AAATAAAAAA
192002 TATATAACTATAATAAAAAATTATTT
1 TATATAACTATAATAAAAAA-TATTT
*
192028 TATATAACTA-AAT-ATAAATATTT
1 TATATAACTATAATAAAAAATATTT
192051 TGATATA
1 T-ATATA
192058 TAAATCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 9 0.32
25 3 0.11
26 10 0.36
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TATATAACTATAATAAAAAATATTT
Found at i:197664 original size:2 final size:2
Alignment explanation
Indices: 197657--197686 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
197647 CTATTTTTGA
197657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
197687 TATGCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:208602 original size:146 final size:146
Alignment explanation
Indices: 208338--208630 Score: 532
Period size: 146 Copynumber: 2.0 Consensus size: 146
208328 GACATCTGAT
* *
208338 ACCAATTGTTGATAAATCGGAAAAAGTAAACGAAAGAACACAAGAATTTTAACCAGGTTCGGTAA
1 ACCAATTGTTGATAAATCGGAAAAAGTAAACAAAAGAACACAAGAATTTTAACCAGGTTCGGCAA
*
208403 TGTGCTTACGTCCTCAGTGCCTAGGCGGTGCTAGAAAGTTTTATTCAATTCTCATAGGTTTAGGT
66 TGTGCTTACGTCCTCAGTGCCTAGGCGGTGCTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
208468 TACATCTCTATTTATA
131 TACATCTCTATTTATA
* *
208484 ACCAATTGTTGATAAATCGGACAAAGTAAACAAAAGAACACAAGAATTTTAACGAGGTTCGGCAA
1 ACCAATTGTTGATAAATCGGAAAAAGTAAACAAAAGAACACAAGAATTTTAACCAGGTTCGGCAA
*
208549 TGTGCTTACGTCCTCGGTGCCTAGGCGGTGCTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
66 TGTGCTTACGTCCTCAGTGCCTAGGCGGTGCTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
208614 TACATCTCTATTTATA
131 TACATCTCTATTTATA
208630 A
1 A
208631 TAGAAAACCC
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (146 bp):
ACCAATTGTTGATAAATCGGAAAAAGTAAACAAAAGAACACAAGAATTTTAACCAGGTTCGGCAA
TGTGCTTACGTCCTCAGTGCCTAGGCGGTGCTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
TACATCTCTATTTATA
Found at i:212777 original size:146 final size:146
Alignment explanation
Indices: 212513--212805 Score: 541
Period size: 146 Copynumber: 2.0 Consensus size: 146
212503 GACATCTGAT
*
212513 ACCAATTATTGATAAATCGGACAAAGTAAACGAAAGAACACAAGAATTTTAACGAGGTTCGGTAA
1 ACCAATTATTGATAAATCGGACAAAGTAAACGAAAGAACACAAGAATTTTAACGAGGTTCGGCAA
*
212578 TGTGCTTACATCCTCGGTGCCTAGGCGGCGCTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
66 TGTGCTTACATCCTCGGTGCCTAGGCGGCACTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
212643 TACATCTCTATTTATA
131 TACATCTCTATTTATA
*
212659 ACCAATTGTTGATAAATCGGACAAAGTAAACGAAAGAACACAAGAATTTTAACGAGGTTCGGCAA
1 ACCAATTATTGATAAATCGGACAAAGTAAACGAAAGAACACAAGAATTTTAACGAGGTTCGGCAA
* *
212724 TGTGCTTACGTCCTCGGTGCCTAGGCGGCACTAGAAATTTTTATTCAATTCTCATAGGTTTAGGT
66 TGTGCTTACATCCTCGGTGCCTAGGCGGCACTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
212789 TACATCTCTATTTATA
131 TACATCTCTATTTATA
212805 A
1 A
212806 TAGAAAACCC
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (146 bp):
ACCAATTATTGATAAATCGGACAAAGTAAACGAAAGAACACAAGAATTTTAACGAGGTTCGGCAA
TGTGCTTACATCCTCGGTGCCTAGGCGGCACTAGAAAATTTTATTCAATTCTCATAGGTTTAGGT
TACATCTCTATTTATA
Found at i:217695 original size:137 final size:137
Alignment explanation
Indices: 217449--218369 Score: 1166
Period size: 137 Copynumber: 6.8 Consensus size: 137
217439 CGTAGGAGCA
* * * *
217449 GTGTCAACCTTAGATAACCAGCCGTCCCCATCAGAGTAGAACCGTGTTATCAT-ACTTACTAAAG
1 GTGTCAACCTCAGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCA-TTCCTAAAG
* * *
217513 ATGACCAAGAACTCTTCATCACGTATGAGCAGTTTCATCCCCCCGACCAGATTTCCCCAACAGAG
65 ATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGAG
217578 TGGAAACC
130 TGGAAACC
* *
217586 GTGTCAACCTCAGATAACCAGTCATCCCCATCAAAGTGGAACCGTGTTATCATCATTCCTAAAGA
1 GTGTCAACCTCAGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCATTCCTAAAGA
* * *
217651 TGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCCCCCCGAACAGATTTCCCCAACAGAGT
66 TGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGAGT
217716 GGAAACC
131 GGAAACC
* *
217723 GTGTCAACCTCAGATAACCAG-CTGTCCCCAGCAGAGTGGAACCGTGTTATCAT-ACTCCCTAAA
1 GTGTCAACCTCAGATAACCAGTC-GTCCCCATCAGAGTGGAACCGTGTTATCATCA-TTCCTAAA
* * *
217786 GATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAT-CCCCCAACCAGATTTCCCTAGCATA
64 GATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGA
**
217850 GTAAAAACC
129 GTGGAAACC
* * *
217859 ATGTCAACCTCAGATAACCAGAT-TTCCCCATCAGAATGGAACCGTGTTATCATCATTCCTAAAG
1 GTGTCAACCTCAGATAACCAG-TCGTCCCCATCAGAGTGGAACCGTGTTATCATCATTCCTAAAG
* *
217923 ATGGCCAAGAACTCTTCATCACGTATGAGCAATGTCATCCTCCCGACCAGATTTCCCCAGCAGAG
65 ATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGAG
217988 TGGAAACC
130 TGGAAACC
* * * * * *
217996 GTGTCAACCTCATATAATCAGCCGTCCCCAACAGAGTGAAACCGTGTTATCAT-ACTCCCTAAAG
1 GTGTCAACCTCAGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCA-TTCCTAAAG
* * *
218060 ATGGCCAAAAACTCTTTATCACGTATGAGCAGTGTCAT-CCCCCGACTAGATTTCCCCAGCAGAG
65 ATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGAG
218124 TGGAAACC
130 TGGAAACC
* * * ** *
218132 GTGTTAACCTCAGATAACCAGTCGTCCCCATCAGAGTAGAATCACGTTATCATCATTGCTAAAGA
1 GTGTCAACCTCAGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCATTCCTAAAGA
* * ** *
218197 TGGTCAAAAACTCTTCATCACGTATGAGCAGTGTCAT-CCCCCGACCAGATCTT-CTTATCACGC
66 TGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGAT-TTCCCCAGCA-G-
***
218260 A--GG-AGTT
128 AGTGGAAACC
* * * * * *
218267 GTGTCAACC-CTAGATAATCAGTCGTCCCCAACAGAGTGGAACCGTGTTATCACCCTTTCTAGAG
1 GTGTCAACCTC-AGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCATTCCTAAAG
* * *
218331 ATGACCAAGAACTCTTCATCGCGTATGAGCAATGTCATC
65 ATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATC
218370 TTCAGCAGCA
Statistics
Matches: 684, Mismatches: 85, Indels: 31
0.86 0.11 0.04
Matches are distributed among these distances:
134 1 0.00
135 85 0.12
136 258 0.38
137 338 0.49
138 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (137 bp):
GTGTCAACCTCAGATAACCAGTCGTCCCCATCAGAGTGGAACCGTGTTATCATCATTCCTAAAGA
TGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAGCAGAGT
GGAAACC
Found at i:217946 original size:273 final size:273
Alignment explanation
Indices: 217449--218369 Score: 1237
Period size: 273 Copynumber: 3.4 Consensus size: 273
217439 CGTAGGAGCA
* * * **
217449 GTGTCAACCTTAGATAACCAGCCGTCCCCATCAGAGTAGAACCGTGTTATCATACTTACTAAAGA
1 GTGTCAACCTCAGATAACCAGCCGTCCCCAACAGAGTGGAACCGTGTTATCATACTCCCTAAAGA
* *
217514 TGACCAAGAACTCTTCATCACGTATGAGCAGTTTCATCCCCCCGACCAGATTTCCCCAACAGAGT
66 TGACCAAGAACTCTTCATCACGTATGAGCAGTGTCAT-CCCCCGACCAGATTTCCCCAGCAGAGT
217579 GGAAACCGTGTCAACCTCAGATAACCAGTCATCCCCATCA-AAGTGGAACCGTGTTATCATCATT
130 GGAAACCGTGTCAACCTCAGATAACCAGTCATCCCCATCAGAA-TGGAACCGTGTTATCATCATT
* *
217643 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGTAGTGTCATCCCCCCGAACAGATTTCCCC
194 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCC
217708 AACAGAGTGGAAACC
259 AACAGAGTGGAAACC
* *
217723 GTGTCAACCTCAGATAACCAGCTGTCCCCAGCAGAGTGGAACCGTGTTATCATACTCCCTAAAGA
1 GTGTCAACCTCAGATAACCAGCCGTCCCCAACAGAGTGGAACCGTGTTATCATACTCCCTAAAGA
* * * * *
217788 TGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCAACCAGATTTCCCTAGCATAGTA
66 TGACCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATTTCCCCAGCAGAGTG
* * *
217853 AAAACCATGTCAACCTCAGATAACCAGAT-TTCCCCATCAGAATGGAACCGTGTTATCATCATTC
131 GAAACCGTGTCAACCTCAGATAACCAG-TCATCCCCATCAGAATGGAACCGTGTTATCATCATTC
* *
217917 CTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAATGTCATCCTCCCGACCAGATTTCCCCA
195 CTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCA
*
217982 GCAGAGTGGAAACC
260 ACAGAGTGGAAACC
* * *
217996 GTGTCAACCTCATATAATCAGCCGTCCCCAACAGAGTGAAACCGTGTTATCATACTCCCTAAAGA
1 GTGTCAACCTCAGATAACCAGCCGTCCCCAACAGAGTGGAACCGTGTTATCATACTCCCTAAAGA
* * * *
218061 TGGCCAAAAACTCTTTATCACGTATGAGCAGTGTCATCCCCCGACTAGATTTCCCCAGCAGAGTG
66 TGACCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATTTCCCCAGCAGAGTG
* * * * * ** *
218126 GAAACCGTGTTAACCTCAGATAACCAGTCGTCCCCATCAGAGTAGAATCACGTTATCATCATTGC
131 GAAACCGTGTCAACCTCAGATAACCAGTCATCCCCATCAGAATGGAACCGTGTTATCATCATTCC
* * **
218191 TAAAGATGGTCAAAAACTCTTCATCACGTATGAGCAGTGTCAT-CCCCCGACCAGATCTT-CTTA
196 TAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGAT-TTCCCCA
* ***
218254 TCACGCA--GG-AGTT
260 ACA-G-AGTGGAAACC
* * ** ** *
218267 GTGTCAACC-CTAGATAATCAGTCGTCCCCAACAGAGTGGAACCGTGTTATCACCCTTTCTAGAG
1 GTGTCAACCTC-AGATAACCAGCCGTCCCCAACAGAGTGGAACCGTGTTATCATACTCCCTAAAG
* *
218331 ATGACCAAGAACTCTTCATCGCGTATGAGCAATGTCATC
65 ATGACCAAGAACTCTTCATCACGTATGAGCAGTGTCATC
218370 TTCAGCAGCA
Statistics
Matches: 574, Mismatches: 66, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
270 1 0.00
271 89 0.16
272 19 0.03
273 367 0.64
274 98 0.17
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (273 bp):
GTGTCAACCTCAGATAACCAGCCGTCCCCAACAGAGTGGAACCGTGTTATCATACTCCCTAAAGA
TGACCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATTTCCCCAGCAGAGTG
GAAACCGTGTCAACCTCAGATAACCAGTCATCCCCATCAGAATGGAACCGTGTTATCATCATTCC
TAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCCGACCAGATTTCCCCAA
CAGAGTGGAAACC
Found at i:218811 original size:47 final size:47
Alignment explanation
Indices: 218742--218893 Score: 196
Period size: 47 Copynumber: 3.2 Consensus size: 47
218732 TCCATTGCTA
*
218742 TTCCCCACGCCAACACTTTGCTTAAAAATAGCTCCCATAATTGGTTG
1 TTCCCCACGCCAACACTTTGCTTAAAAATAGCTCCCATAATCGGTTG
* * * * *
218789 TTCCCCACGCAAACACTTTGCTTAAAAACAGCTCCAATAACCGGTTA
1 TTCCCCACGCCAACACTTTGCTTAAAAATAGCTCCCATAATCGGTTG
* * ** * *
218836 TTCCCCATGCCAACACCTTGCTCGAAAATATCTCCCACAATCGGTTG
1 TTCCCCACGCCAACACTTTGCTTAAAAATAGCTCCCATAATCGGTTG
218883 TTCCCCACGCC
1 TTCCCCACGCC
218894 TCGTACATGC
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.26
Consensus pattern (47 bp):
TTCCCCACGCCAACACTTTGCTTAAAAATAGCTCCCATAATCGGTTG
Found at i:220458 original size:17 final size:17
Alignment explanation
Indices: 220436--220500 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
220426 CGTATAAATG
220436 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
** *
220453 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGACCT-ATC---A
*
220474 TCCCGAAGGACCTGTCA
1 TCCCGAAGGACCTATCA
220491 TCCCGAAGGA
1 TCCCGAAGGA
220501 TGTAATCTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 21 0.57
18 3 0.08
20 2 0.05
21 11 0.30
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:220479 original size:21 final size:21
Alignment explanation
Indices: 220453--220516 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
220443 GGACCTATCA
220453 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
220474 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
*
220491 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTCATCTGTG
220512 TCCCG
1 TCCCG
220517 TAAGACCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
16 4 0.12
17 10 0.29
18 1 0.03
21 15 0.44
22 4 0.12
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:220485 original size:38 final size:38
Alignment explanation
Indices: 220434--220529 Score: 158
Period size: 38 Copynumber: 2.5 Consensus size: 38
220424 CTCGTATAAA
*
220434 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
220472 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
220510 TGTCCCGTAA-GACCTATCAT
1 TGTCCCG-AAGGACCTATCAT
220530 ATGTCTTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 52 0.96
39 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:220735 original size:46 final size:46
Alignment explanation
Indices: 220678--220782 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
220668 ATGTGTAACC
220678 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
220723 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
220769 ATATCATTTCATAT
1 ATGTCATTTCATAT
220783 AGTCACATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:224522 original size:8 final size:9
Alignment explanation
Indices: 224509--224549 Score: 57
Period size: 10 Copynumber: 4.4 Consensus size: 9
224499 TCAATCAAAT
224509 TATTAT-TA
1 TATTATATA
224517 TATTATATA
1 TATTATATA
224526 TATATATATA
1 TAT-TATATA
224536 TATATATATA
1 TAT-TATATA
224546 TATT
1 TATT
224550 CCAATGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 6 0.19
9 6 0.19
10 19 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATATA
Found at i:224527 original size:2 final size:2
Alignment explanation
Indices: 224515--224548 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
224505 AAATTATTAT
224515 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
224549 TCCAATGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:236116 original size:38 final size:38
Alignment explanation
Indices: 236058--236153 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
236048 CTCGTATAAA
* *
236058 TGTCCCGAAGAACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
236096 TGTCCCGAAGGACCTGTCATCCTGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
236134 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
236154 ATGTCTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:236359 original size:46 final size:46
Alignment explanation
Indices: 236302--236406 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
236292 ATGTGTAACC
236302 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
236347 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
236393 ATATCATTTCATAT
1 ATGTCATTTCATAT
236407 AGTCACATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:236836 original size:20 final size:20
Alignment explanation
Indices: 236811--236868 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
236801 TTTTCCTTTA
236811 GGGGGAATCGATTCCCCCCC
1 GGGGGAATCGATTCCCCCCC
*
236831 GGGGGAATTGATTCCCCCCC
1 GGGGGAATCGATTCCCCCCC
* *
236851 AGGGGAATCGATACCCCC
1 GGGGGAATCGATTCCCCC
236869 TGAACATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCCCC
Found at i:250732 original size:2 final size:2
Alignment explanation
Indices: 250725--250762 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
250715 AATAAAATTA
*
250725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
250763 TCTTTCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:252987 original size:15 final size:15
Alignment explanation
Indices: 252967--253002 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
252957 ACTATAGTGT
252967 AAATTTACACCTTCA
1 AAATTTACACCTTCA
*
252982 AAATTTACACCTTCG
1 AAATTTACACCTTCA
252997 AAATTT
1 AAATTT
253003 TTATTTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATTTACACCTTCA
Found at i:253462 original size:22 final size:22
Alignment explanation
Indices: 253420--253496 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
253410 AACTTAAATA
*
253420 AATATTTTAAA-ATATTTTTTAT
1 AATATTATAAATATA-TTTTTAT
*
253442 AATATTATAAATATATTTTTAG
1 AATATTATAAATATATTTTTAT
*
253464 AATAATT-T-AATATAATTTTAT
1 AAT-ATTATAAATATATTTTTAT
253485 AAATATATATAA
1 -AATAT-TATAA
253497 TAATTATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 13 0.29
22 24 0.53
23 7 0.16
24 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
AATATTATAAATATATTTTTAT
Found at i:255609 original size:14 final size:14
Alignment explanation
Indices: 255590--255616 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
255580 AAACATAAAC
255590 TAAAGTTTTTTAAT
1 TAAAGTTTTTTAAT
255604 TAAAGTTTTTTAA
1 TAAAGTTTTTTAA
255617 AAAAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
TAAAGTTTTTTAAT
Found at i:259847 original size:39 final size:39
Alignment explanation
Indices: 259793--259872 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
259783 GTGAATCCGC
*
259793 GCCTAAACATGGTCATCCTCTTCC-CTTCTGGCAGCAAAG
1 GCCTAAACATAGTCATCCTCTTCCTC-TCTGGCAGCAAAG
*
259832 GCCTAAACATAGTCATCCTCTTCCTCTCTGGCAGCGAAG
1 GCCTAAACATAGTCATCCTCTTCCTCTCTGGCAGCAAAG
259871 GC
1 GC
259873 TATGTCGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.25
Consensus pattern (39 bp):
GCCTAAACATAGTCATCCTCTTCCTCTCTGGCAGCAAAG
Found at i:262986 original size:22 final size:22
Alignment explanation
Indices: 262946--262988 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
262936 TCACTGGTAT
* **
262946 AATTTACCTTTTATTTTTCAAA
1 AATTTACCTTTAAAATTTCAAA
262968 AATTTACCTTTAAAATTTCAA
1 AATTTACCTTTAAAATTTCAA
262989 CTAATTTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTACCTTTAAAATTTCAAA
Found at i:264116 original size:15 final size:16
Alignment explanation
Indices: 264096--264150 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
264086 TAAAATAATT
264096 TTTTAAATTA-GAATC
1 TTTTAAATTATGAATC
* *
264111 TTTTAAATTATGATTT
1 TTTTAAATTATGAATC
264127 TTTTAAATTATG-AT-
1 TTTTAAATTATGAATC
264141 TTTT-AATTAT
1 TTTTAAATTAT
264151 TGTTTGTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 6 0.17
14 4 0.11
15 11 0.31
16 15 0.42
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (16 bp):
TTTTAAATTATGAATC
Found at i:264130 original size:16 final size:16
Alignment explanation
Indices: 264094--264144 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
264084 TTTAAAATAA
*
264094 TTTTTTAAATTA-GAA
1 TTTTTTAAATTATGAT
*
264109 TCTTTTAAATTATGAT
1 TTTTTTAAATTATGAT
264125 TTTTTTAAATTATGAT
1 TTTTTTAAATTATGAT
264141 TTTT
1 TTTT
264145 AATTATTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 11 0.34
16 21 0.66
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTTTAAATTATGAT
Found at i:265927 original size:10 final size:12
Alignment explanation
Indices: 265899--265924 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
265889 ACTTAAAAAT
265899 ATATTTTTTAAA
1 ATATTTTTTAAA
265911 ATATTTTTTAAA
1 ATATTTTTTAAA
265923 AT
1 AT
265925 TTTATATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATTTTTTAAA
Found at i:273304 original size:2 final size:2
Alignment explanation
Indices: 273297--273327 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
273287 TTTGTAAAAT
273297 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
273328 TAAACTATCC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:278020 original size:23 final size:23
Alignment explanation
Indices: 277989--278197 Score: 153
Period size: 23 Copynumber: 9.3 Consensus size: 23
277979 ACATGTAAAA
* *
277989 ATATGATGTAATATGTAGCACTT
1 ATATAATGTAATAGGTAGCACTT
*
278012 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
**
278035 ATATAATAAAATAGGTTA--A-TT
1 ATATAATGTAATAGG-TAGCACTT
** * ***
278056 ACTATAA-ACATTATCAAGCAC--
1 A-TATAATGTAATAGGTAGCACTT
** * * *
278077 A-ATAACATATTAGGTACCGCTT
1 ATATAATGTAATAGGTAGCACTT
*
278099 ATATAATGTAATAGGCAGCACTT
1 ATATAATGTAATAGGTAGCACTT
* *
278122 ATATAATGTAATAAGTAACACTT
1 ATATAATGTAATAGGTAGCACTT
*
278145 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
* *
278168 ATATAATGTAATAGATAACACTT
1 ATATAATGTAATAGGTAGCACTT
278191 ATATAAT
1 ATATAAT
278198 AAAATAAGTT
Statistics
Matches: 145, Mismatches: 32, Indels: 18
0.74 0.16 0.09
Matches are distributed among these distances:
19 4 0.03
20 9 0.06
21 8 0.06
22 7 0.05
23 115 0.79
24 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:278149 original size:46 final size:46
Alignment explanation
Indices: 278096--278197 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
278086 TTAGGTACCG
278096 CTTATATAATGTAATAGGCAGCACTTATATAATGTAATA-AGTAACA
1 CTTATATAATGTAATAGGCAGCACTTATATAATGTAATAGA-TAACA
* *
278142 CTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGATAACA
1 CTTATATAATGTAATAGGCAGCACTTATATAATGTAATAGATAACA
278188 CTTATATAAT
1 CTTATATAAT
278198 AAAATAAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 52 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (46 bp):
CTTATATAATGTAATAGGCAGCACTTATATAATGTAATAGATAACA
Found at i:278330 original size:156 final size:152
Alignment explanation
Indices: 277997--278363 Score: 399
Period size: 156 Copynumber: 2.4 Consensus size: 152
277987 AAATATGATG
* * * * *
277997 TAATATGTAGCACTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTATA
1 TAATAGGTAGCACTTATATAATGTAATAGATAACACTTATATAATAAAATAAGTTAATTACTATA
* ** *
278062 AACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGCAGCACTTATATA
66 AACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATAAAATAGGCA-CACTTATAAA
**
278127 ATGTAATAAGTAACACTTATATAATG
130 ATGTAATAAG--ACAC-TATATAACA
*
278153 TAATAGGTAGCGCTTATATAATGTAATAGATAACACTTATATAATAAAATAAGTTAATTACTGA-
1 TAATAGGTAGCACTTATATAATGTAATAGATAACACTTATATAATAAAATAAGTTAATTACT-AT
*
278217 AAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATAAAATAGGTTA-A-TTACTG
65 AAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATAAAATAGG-CACACTTA-T-
278280 GAAACAT-T-ATCAAG-CAC-A-ATAACA
127 -AAA-ATGTAAT-AAGACACTATATAACA
* ** * ** *
278304 TATTAGGTAGCACTTATATAACATAATAGGTAACGTTTATATAATAAAATAGGTTAATTA
1 TAATAGGTAGCACTTATATAATGTAATAGATAACACTTATATAATAAAATAAGTTAATTA
278364 TTTAATTTGT
Statistics
Matches: 183, Mismatches: 21, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
151 56 0.31
152 1 0.01
154 6 0.03
155 2 0.01
156 108 0.59
157 8 0.04
158 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (152 bp):
TAATAGGTAGCACTTATATAATGTAATAGATAACACTTATATAATAAAATAAGTTAATTACTATA
AACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATAAAATAGGCACACTTATAAAA
TGTAATAAGACACTATATAACA
Found at i:278332 original size:64 final size:64
Alignment explanation
Indices: 278186--278334 Score: 235
Period size: 64 Copynumber: 2.3 Consensus size: 64
278176 TAATAGATAA
*
278186 CACTTATATAATAAAATAAGTTAATTACTGAAAACATTATCAAACACAATAACATATTAGGTAC
1 CACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACATATTAGGTAC
* * * *
278250 CGCTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAG
1 CACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACATATTAGGTAC
* *
278314 CACTTATATAACATAATAGGT
1 CACTTATATAATAAAATAGGT
278335 AACGTTTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (64 bp):
CACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACATATTAGGTAC
Found at i:278343 original size:23 final size:23
Alignment explanation
Indices: 278298--278357 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
278288 ATCAAGCACA
* *
278298 ATAACATATTAGGTAGCACTTAT
1 ATAACATAATAGGTAACACTTAT
**
278321 ATAACATAATAGGTAACGTTTAT
1 ATAACATAATAGGTAACACTTAT
* *
278344 ATAATAAAATAGGT
1 ATAACATAATAGGT
278358 TAATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAACACTTAT
Found at i:278680 original size:14 final size:14
Alignment explanation
Indices: 278661--278705 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
278651 TATTAGAATA
*
278661 ATTTATTTAATATT
1 ATTTATTAAATATT
278675 ATTTATGTAAATATT
1 ATTTAT-TAAATATT
278690 A-TTATTAAAATATT
1 ATTTATT-AAATATT
278704 AT
1 AT
278706 ATCTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.04
14 18 0.67
15 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTTATTAAATATT
Found at i:278719 original size:28 final size:28
Alignment explanation
Indices: 278684--278756 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
278674 TATTTATGTA
278684 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
278712 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
*
278740 TATATT-TTATTAAAATA
1 AATATTATTATTAAAATA
278757 AAATTATAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:278747 original size:30 final size:31
Alignment explanation
Indices: 278713--278778 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
278703 TATATCTATA
* *
278713 ATTTTA-TAAATAAAAAATTATGAT-TATTAT
1 ATTTTATTAAA-AAAAAATTATAATAAATTAT
*
278743 ATTTTATTAAAATAAAATTATAATAAATTAT
1 ATTTTATTAAAAAAAAATTATAATAAATTAT
278774 ATTTT
1 ATTTT
278779 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTTTATTAAAAAAAAATTATAATAAATTAT
Found at i:279447 original size:20 final size:20
Alignment explanation
Indices: 279409--279448 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
279399 ACAAAATAAT
279409 AATAATTTTTTAAAATATTAG
1 AATAATTTTTT-AAATATTAG
279430 AATAATTTATTT-AATATTA
1 AATAATTT-TTTAAATATTA
279449 TTTATGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATAATTTTTTAAATATTAG
Found at i:279492 original size:25 final size:25
Alignment explanation
Indices: 279410--279492 Score: 61
Period size: 25 Copynumber: 3.4 Consensus size: 25
279400 CAAAATAATA
*
279410 ATAATTTT-TTAAAATATTAGA---
1 ATAATTTTATTAAAATATTATATCT
* *
279431 ATAA-TTTATTTAATATTATTTATGTCT
1 ATAATTTTA-TTAA-AATA-TTATATCT
279458 AT-ATTATTATTAAAATATTATATCT
1 ATAATT-TTATTAAAATATTATATCT
279483 ATAATTTTAT
1 ATAATTTTAT
279493 AAATAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
20 3 0.06
21 4 0.09
22 4 0.09
23 3 0.06
24 3 0.06
25 13 0.28
26 7 0.15
27 7 0.15
28 3 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
ATAATTTTATTAAAATATTATATCT
Found at i:279552 original size:16 final size:16
Alignment explanation
Indices: 279511--279557 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
279501 AAATATGATT
279511 ATTATATTTTATTA-AA
1 ATTATA-TTTATTATAA
* *
279527 A-TAAAATTATTATAA
1 ATTATATTTATTATAA
279542 ATTATATTTATTATAA
1 ATTATATTTATTATAA
279558 TAAGAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.24
15 6 0.24
16 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATATTTATTATAA
Found at i:279588 original size:31 final size:30
Alignment explanation
Indices: 279489--279589 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 30
279479 ATCTATAATT
*
279489 TTATAAATAAAAAAATATGATTATTATATTTTA
1 TTAT-AATAAAATAATAT-ATTATTATA-TTTA
* * *
279522 TTAAAATAAAATTAT-TATAAATTATATTTA
1 TTATAATAAAATAATATAT-TATTATATTTA
279552 TTATAATAAGAATAATATATTATTA-ATTATA
1 TTATAATAA-AATAATATATTATTATATT-TA
279583 TTATAAT
1 TTATAAT
279590 GAGAGAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
30 17 0.30
31 25 0.44
32 12 0.21
33 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TTATAATAAAATAATATATTATTATATTTA
Found at i:280227 original size:184 final size:183
Alignment explanation
Indices: 279891--280250 Score: 544
Period size: 184 Copynumber: 2.0 Consensus size: 183
279881 GAAATATATC
279891 GTTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTT
1 GTTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTT
* * * *
279956 CCATAATGAATGTCCAACGAAGTGCACACATAAAGTGTCGACACATTTATTAAAAGTATCGATCC
66 CCAGAATGAATGCCCAACGAAGTGCACACATAAAATGTCGACACATTTA-TAAAAGTATCGATCA
* *
280021 CAAAAAATCCAAACTAATAATTACAATGTAATAGGTAAATTTACAACGTACCCG
130 CAAAAAATCAAAACCAATAATTACAATGTAATAGGTAAATTTACAACGTACCCG
* *
280075 GTTTTATGAGAAAATATGTCTACATAATGTATCGACACGTTTTAAGTTTGTGTCGATACTTTTTT
1 GTTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTT
* * * *
280140 CCAGAATGAATGCCCAATGAGGTGCACGCATAAAATGTCGATACATTTA-AAATTA-TATCGATC
66 CCAGAATGAATGCCCAACGAAGTGCACACATAAAATGTCGACACATTTATAAA--AGTATCGATC
* *
280203 ACAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACAA
129 ACAAAAA-ATCAAAACCAATAATTACAATGTAATAGGTAAATTTACAA
280251 TAATACCAGT
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
182 3 0.02
183 14 0.09
184 142 0.89
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (183 bp):
GTTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTT
CCAGAATGAATGCCCAACGAAGTGCACACATAAAATGTCGACACATTTATAAAAGTATCGATCAC
AAAAAATCAAAACCAATAATTACAATGTAATAGGTAAATTTACAACGTACCCG
Found at i:280323 original size:23 final size:23
Alignment explanation
Indices: 280294--280341 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
280284 GAATAGGTCA
*
280294 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
*
280317 ATATAAGCGCTACCTAATATTTT
1 ATATAAGCGCTACCTAATATATT
280340 AT
1 AT
280342 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:280405 original size:87 final size:87
Alignment explanation
Indices: 280294--280494 Score: 321
Period size: 87 Copynumber: 2.3 Consensus size: 87
280284 GAATAGGTCA
* * *
280294 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATTTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
280359 CCAGTAATTAACATATTTTATT
66 CCAGTAATTAACATATTTTATT
* * ** *
280381 ATCTAAGAGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGTTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
*
280446 TCAGTAATTAACATATTTTATT
66 CCAGTAATTAACATATTTTATT
280468 ATATAAGCGCTACCTATTACATTATAT
1 ATATAAGCGCTACCTATTACATTATAT
280495 CAGGGCCGGT
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAGTAATTAACATATTTTATT
Found at i:280817 original size:33 final size:33
Alignment explanation
Indices: 280779--280865 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
280769 GTTTTCTTTG
* * **
280779 TTTAATAGATAGTGAGTTTTTAGTGAGTTTTTA
1 TTTAATAGGTAGTGAGTTTTTAGTGAATGATTA
* *
280812 TTTAATGGGTATTGAGTTTTTAGTGAATGATTA
1 TTTAATAGGTAGTGAGTTTTTAGTGAATGATTA
*
280845 TTTAATAGGTAGTGGGTTTTT
1 TTTAATAGGTAGTGAGTTTTT
280866 TAGATTAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (33 bp):
TTTAATAGGTAGTGAGTTTTTAGTGAATGATTA
Found at i:280846 original size:22 final size:22
Alignment explanation
Indices: 280802--280846 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
280792 GAGTTTTTAG
* * *
280802 TGAGTTTTTATTTAATGGGTAT
1 TGAGTTTTTAGTGAATGAGTAT
*
280824 TGAGTTTTTAGTGAATGATTAT
1 TGAGTTTTTAGTGAATGAGTAT
280846 T
1 T
280847 TAATAGGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (22 bp):
TGAGTTTTTAGTGAATGAGTAT
Found at i:280888 original size:3 final size:3
Alignment explanation
Indices: 280875--280958 Score: 141
Period size: 3 Copynumber: 27.7 Consensus size: 3
280865 TTAGATTAAG
* *
280875 TAA TAA TTAA TAA TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
280921 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
280959 TTTAATAGTA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 73 0.96
4 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:281169 original size:84 final size:83
Alignment explanation
Indices: 281020--281185 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 83
281010 CTCTTTGTAT
* * *
281020 ATTTTTATGTTAACAATGATAGGAAAAAGAAGAAAAGACAATCAATTTTTATCCGATAAAGGAAA
1 ATTTTTATGTTAAAAAGGATAGGAAAAAGAAAAAAAGACAATCAATTTTTATCCGATAAAGGAAA
281085 CATGTGACATAAACAAAC
66 CATGTGACATAAACAAAC
* * * * * *
281103 ATTTTTGTGTTAAAAAGGATATGAAAAAGACAAAAAAGACAATCAATTTTTGTCTGATATATGAA
1 ATTTTTATGTTAAAAAGGATAGGAAAAAGA-AAAAAAGACAATCAATTTTTATCCGATAAAGGAA
281168 ACATGTGACATAAACAAA
65 ACATGTGACATAAACAAA
281186 AATATATATG
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
83 26 0.36
84 47 0.64
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (83 bp):
ATTTTTATGTTAAAAAGGATAGGAAAAAGAAAAAAAGACAATCAATTTTTATCCGATAAAGGAAA
CATGTGACATAAACAAAC
Found at i:281220 original size:17 final size:18
Alignment explanation
Indices: 281191--281228 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
281181 ACAAAAATAT
281191 ATATGATAAATTTTC-TA
1 ATATGATAAATTTTCGTA
281208 ATAT-ATAATATTTTCGTA
1 ATATGATAA-ATTTTCGTA
281226 ATA
1 ATA
281229 AAAAAGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATGATAAATTTTCGTA
Found at i:288020 original size:28 final size:28
Alignment explanation
Indices: 287980--288050 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
287970 AAATGAGCAT
*
287980 CTTGACTTAATTAACGGACCTACAGTTC
1 CTTGACTTAATTAACGGACCTACAGCTC
288008 CTTGACTTAATTAACGGACCTACAGCTC
1 CTTGACTTAATTAACGGACCTACAGCTC
288036 CTTGACTTAATTAAC
1 CTTGACTTAATTAAC
288051 TCAACTTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (28 bp):
CTTGACTTAATTAACGGACCTACAGCTC
Done.