Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_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: 1466564
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1348 original size:21 final size:21
Alignment explanation
Indices: 1294--1356 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
1284 ATTCCCCTGT
1294 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
1317 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
* *
1338 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
1357 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:5180 original size:22 final size:21
Alignment explanation
Indices: 5138--5177 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5128 GAGTTTGTTT
*
5138 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
5159 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5178 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:7856 original size:110 final size:106
Alignment explanation
Indices: 7723--8024 Score: 370
Period size: 101 Copynumber: 2.9 Consensus size: 106
7713 TATTGTTTCA
*
7723 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAATGAAACTAGGAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG-TCTGAATGAAACTA-GAAGTTATTTGTTGA
7788 CAGTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
64 CAGTC-A-CGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
* * *
7833 AGTCCAATATCCTTCACTGTGAAGTTGAAATT-GACT--CTG-AA--A-AAGTTATTTGTTGACA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTCTGAATGAAACTAGAAGTTATTTGTTGACA
* *
7891 GTCAGTCGACCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
66 GTCA--CGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
* * * *
7934 AGTCCAATATCCTTCGTTGTGAAGATGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTG-GTCTGAATGAAACT-AGAAGTTATTTGTTGA
*
7999 CAGT--CGCCCCTTCGTTGTGAAGTTGA
64 CAGTCACGCCCCTTCGCTGTGAAGTTGA
8025 TCAACCACCA
Statistics
Matches: 167, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
100 1 0.01
101 82 0.49
103 3 0.02
105 4 0.02
106 24 0.14
108 2 0.01
109 2 0.01
110 49 0.29
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTCTGAATGAAACTAGAAGTTATTTGTTGACA
GTCACGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
Found at i:10702 original size:16 final size:15
Alignment explanation
Indices: 10671--10704 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10661 TGCGAATGAT
*
10671 GAGAACAAAATGAAA
1 GAGAACAAAATAAAA
10686 GAGAACAAAAATAAAA
1 GAGAAC-AAAATAAAA
10702 GAG
1 GAG
10705 TTAGTGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.06, G:0.21, T:0.06
Consensus pattern (15 bp):
GAGAACAAAATAAAA
Found at i:12112 original size:10 final size:10
Alignment explanation
Indices: 12094--12145 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
12084 TGAAAAAAGG
12094 AAAAATTAAT
1 AAAAATTAAT
*
12104 AAAAGTTAAT
1 AAAAATTAAT
12114 AAAAATATTAAT
1 -AAAA-ATTAAT
*
12126 AATAA-TAAT
1 AAAAATTAAT
12135 AAAAA-TAAT
1 AAAAATTAAT
12144 AA
1 AA
12146 TCATAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 14 0.39
10 10 0.28
11 7 0.19
12 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:12134 original size:21 final size:21
Alignment explanation
Indices: 12094--12164 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
12084 TGAAAAAAGG
12094 AAAA-ATTAATAA-AAGTTAATA
1 AAAATATTAATAATAA--TAATA
12115 AAAATATTAATAATAATAATA
1 AAAATATTAATAATAATAATA
* *
12136 AAAATAATAATCATAAATAA-A
1 AAAATATTAATAAT-AATAATA
*
12157 TAAATATT
1 AAAATATT
12165 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 28 0.65
22 13 0.30
23 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAATATTAATAATAATAATA
Found at i:12162 original size:18 final size:18
Alignment explanation
Indices: 12110--12152 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12100 TAATAAAAGT
*
12110 TAATAAAAATATTAATAA
1 TAATAAAAATAATAATAA
12128 TAATAATAAA-AATAATAA
1 TAATAA-AAATAATAATAA
*
12146 TCATAAA
1 TAATAAA
12153 TAAATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAAAAATAATAATAA
Found at i:13040 original size:19 final size:18
Alignment explanation
Indices: 13000--13041 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
12990 GGTGTGAGAT
13000 AATTTAATTTTTTTAATTA
1 AATTTAATTTTTTTAA-TA
13019 AATTTAATATTATTTTAA-A
1 AATTTAAT-TT-TTTTAATA
13038 AATT
1 AATT
13042 CCGGAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTAATTTTTTTAATA
Found at i:14502 original size:27 final size:28
Alignment explanation
Indices: 14478--14572 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 28
14468 ATTAAATACG
*
14478 TAAATAATATTATT-TATTATTAATAAT
1 TAAATAATATTATTATATTATTAATAAA
* *
14505 TTAATAATATTATTCTATTAAATTAATAAA
1 TAAATAATATTATTATATT--ATTAATAAA
*
14535 TAATATAATTTTATTAATATTATT-A-AAA
1 TAA-ATAATATTATT-ATATTATTAATAAA
*
14563 TAAAAAATAT
1 TAAATAATAT
14573 AACATCTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
27 18 0.32
28 10 0.18
29 1 0.02
30 13 0.23
31 10 0.18
32 4 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAATAATATTATTATATTATTAATAAA
Found at i:14532 original size:30 final size:27
Alignment explanation
Indices: 14480--14560 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 27
14470 TAAATACGTA
14480 AATAATATTATTTATTATTAATAATTT
1 AATAATATTATTTATTATTAATAATTT
* *
14507 AATAATATTATTCTATTAAATTAATAAATA
1 AATAATATTATT-TATT--ATTAATAATTT
*
14537 ATATAATTTTATTAATATTATTAA
1 A-ATAATATTATT--TATTATTAA
14561 AATAAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
27 12 0.27
28 4 0.09
30 15 0.33
31 10 0.22
32 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
AATAATATTATTTATTATTAATAATTT
Found at i:16105 original size:351 final size:351
Alignment explanation
Indices: 15456--16159 Score: 1336
Period size: 351 Copynumber: 2.0 Consensus size: 351
15446 CATTATTCAG
*
15456 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATGCTTCCATGAAACAACAAAATGATG
1 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
*
15521 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTTTTGAATAAGATTATCCACCATGTGCTTTC
66 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATTATCCACCATGTGCTTTC
*
15586 ATGCTGCCTAGATACGAACCAACTTTGTACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
131 ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
15651 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
196 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
* *
15716 GACCAACCTCAGTCCATTTAACAATAGATTTTCCAACCCGAGCCGAGGATGGATTGCAAAGATAA
261 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
15781 TATTGCATCTCAGTCCAAACTATAAT
326 TATTGCATCTCAGTCCAAACTATAAT
15807 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
1 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
*
15872 AATCCACCATGCACTTGAGATGCTTTGTGTCAGCTGTTGAATAAGATTATCCACCATGTGCTTTC
66 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATTATCCACCATGTGCTTTC
*
15937 ATGCTGCCTATATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
131 ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
16002 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
196 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
16067 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
261 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
*
16132 TATTGCATCTCAGTCCAAACTGTAAT
326 TATTGCATCTCAGTCCAAACTATAAT
16158 TA
1 TA
16160 TTAAACAAAC
Statistics
Matches: 345, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
351 345 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (351 bp):
TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATTATCCACCATGTGCTTTC
ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
TATTGCATCTCAGTCCAAACTATAAT
Found at i:16170 original size:18 final size:17
Alignment explanation
Indices: 16147--16181 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16137 CATCTCAGTC
*
16147 CAAACTGTAATTATTAAA
1 CAAACTGAAATT-TTAAA
16165 CAAACTGAAATTTTAAA
1 CAAACTGAAATTTTAAA
16182 TGAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
CAAACTGAAATTTTAAA
Found at i:23630 original size:27 final size:27
Alignment explanation
Indices: 23600--23662 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
23590 ATCAAATATT
* *
23600 TATTTTTTAAAAGGACA-AGAATTAGAA
1 TATTTTTTAAAAAGACACAG-ATTAAAA
*
23627 TATTTTTTAAAAATACACAGATTAAAA
1 TATTTTTTAAAAAGACACAGATTAAAA
23654 TATTTTTTA
1 TATTTTTTA
23663 GAATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (27 bp):
TATTTTTTAAAAAGACACAGATTAAAA
Found at i:30344 original size:12 final size:12
Alignment explanation
Indices: 30311--30350 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
30301 ACATAACTGC
*
30311 ATATAAGTATGT
1 ATATAAGTATAT
* *
30323 ATGTATGTATAT
1 ATATAAGTATAT
30335 ATATAAGTATAT
1 ATATAAGTATAT
30347 ATAT
1 ATAT
30351 GCATGTATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (12 bp):
ATATAAGTATAT
Found at i:30884 original size:23 final size:24
Alignment explanation
Indices: 30839--30888 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
30829 AACTTTTATA
30839 TATATTTTAAAATTTTAAGTTAAAT
1 TATATTTTAAAATTTTAAGTT-AAT
30864 TATA-TTT-AAATTATTAA-TTAAT
1 TATATTTTAAAATT-TTAAGTTAAT
30886 TAT
1 TAT
30889 TGCATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 7 0.29
25 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTTTAAAATTTTAAGTTAAT
Found at i:31001 original size:18 final size:18
Alignment explanation
Indices: 30972--31016 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
30962 ATAAACTACT
*
30972 TAATAAAATTAA-TTTAA
1 TAATATAATTAAGTTTAA
*
30989 TAATTATAATTAAGTTTTA
1 TAA-TATAATTAAGTTTAA
31008 TAATATAAT
1 TAATATAAT
31017 GATTATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 14 0.58
19 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATATAATTAAGTTTAA
Found at i:42267 original size:2 final size:2
Alignment explanation
Indices: 42260--42301 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
42250 ATAGGGCCAA
42260 AT AT AT AT AT AT 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 AT AT AT AT AT AT
42302 GGATCACTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50233 original size:21 final size:20
Alignment explanation
Indices: 50207--50250 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
50197 GTATAGATAC
50207 TACTCTATAT-AGTAGTATCGA
1 TACTCT-TATGAG-AGTATCGA
*
50228 TACTCTTTTGAGAGTATCGA
1 TACTCTTATGAGAGTATCGA
50248 TAC
1 TAC
50251 CGTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
TACTCTTATGAGAGTATCGA
Found at i:51927 original size:35 final size:33
Alignment explanation
Indices: 51862--51934 Score: 76
Period size: 35 Copynumber: 2.2 Consensus size: 33
51852 GTGCTCCATC
*
51862 AAAAAAATGAAAGAGAAACAACAACAGTTCGGAA
1 AAAAAAAAGAAAGAGAAACAACAACAGTTC-GAA
* * *
51896 GAAAAAAAAGAAAGA-AAAGAAGAATATGTTCGAA
1 -AAAAAAAAGAAAGAGAAACAACAACA-GTTCGAA
51930 AAAAA
1 AAAAA
51935 GAGAAAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 5 0.15
34 11 0.33
35 17 0.52
ACGTcount: A:0.66, C:0.07, G:0.18, T:0.10
Consensus pattern (33 bp):
AAAAAAAAGAAAGAGAAACAACAACAGTTCGAA
Found at i:54090 original size:18 final size:18
Alignment explanation
Indices: 54067--54108 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
54057 TTCTTCATCT
54067 TCATCATTAGAGGACTCA
1 TCATCATTAGAGGACTCA
54085 TCATCATTAGAGGACTCA
1 TCATCATTAGAGGACTCA
54103 TCATCA
1 TCATCA
54109 CTCCATGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (18 bp):
TCATCATTAGAGGACTCA
Found at i:54091 original size:21 final size:20
Alignment explanation
Indices: 54061--54108 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
54051 GGCTACTTCT
*
54061 TCATCTTCATCATTAGAGGA
1 TCATCATCATCATTAGAGGA
54081 -C-TCATCATCATTAGAGGA
1 TCATCATCATCATTAGAGGA
54099 CTCATCATCA
1 -TCATCATCA
54109 CTCCATGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 16 0.67
19 1 0.04
20 1 0.04
21 6 0.25
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
TCATCATCATCATTAGAGGA
Found at i:58452 original size:3 final size:3
Alignment explanation
Indices: 58446--58494 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
58436 GATGATGATG
58446 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58494 A
1 A
58495 CAAATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:59260 original size:2 final size:2
Alignment explanation
Indices: 59253--59303 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
59243 CTTTTAAAAC
59253 AT AT AT AT AT AT 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 AT AT AT AT AT AT
59295 AT AT AT AT A
1 AT AT AT AT A
59304 CCCCCATCCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59501 original size:24 final size:23
Alignment explanation
Indices: 59469--59553 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
59459 TATAAAAAAA
*
59469 ATCAAATCATAATTCACATCAAGT
1 ATCATATCATAATTCA-ATCAAGT
* * *
59493 ATCATATCAAAATCCAGGTCAAGT
1 ATCATATCATAATTCA-ATCAAGT
*
59517 ATCATATCAGAATTCAAGTCAAGT
1 ATCATATCATAATTCAA-TCAAGT
* *
59541 ATCAGATTATAAT
1 ATCATATCATAAT
59554 CCATGTCAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (23 bp):
ATCATATCATAATTCAATCAAGT
Found at i:59561 original size:24 final size:24
Alignment explanation
Indices: 59487--59570 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
59477 ATAATTCACA
* *
59487 TCAAGTATCATATCAAAATCCAGG
1 TCAAGTATCAGATCAAAATCCAAG
* * *
59511 TCAAGTATCATATCAGAATTCAAG
1 TCAAGTATCAGATCAAAATCCAAG
* * *
59535 TCAAGTATCAGATTATAATCCATG
1 TCAAGTATCAGATCAAAATCCAAG
59559 TC-AGATATCAGA
1 TCAAG-TATCAGA
59571 ACATAATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 2 0.04
24 49 0.96
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (24 bp):
TCAAGTATCAGATCAAAATCCAAG
Found at i:59568 original size:48 final size:48
Alignment explanation
Indices: 59469--59561 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
59459 TATAAAAAAA
* *
59469 ATCAAATCATAATTCACATCAAGTATCATATCAAAATCCAGGTCAAGT
1 ATCAAATCAGAATTCACATCAAGTATCAGATCAAAATCCAGGTCAAGT
* * * *
59517 ATCATATCAGAATTCA-AGTCAAGTATCAGATTATAATCCATGTCA
1 ATCAAATCAGAATTCACA-TCAAGTATCAGATCAAAATCCAGGTCA
59562 GATATCAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.03
48 37 0.97
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (48 bp):
ATCAAATCAGAATTCACATCAAGTATCAGATCAAAATCCAGGTCAAGT
Found at i:59579 original size:48 final size:47
Alignment explanation
Indices: 59476--59581 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 47
59466 AAAATCAAAT
* * *
59476 CATAATTCACATCAAGTATCATATCAAAATCCAGGTCAAGTATCATAT
1 CATAATTCA-ATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGAA
* * * *
59524 CAGAATTCAAGTCAAGTATCAGATTATAATCCATGTC-AGATATCAGAA
1 CATAATTCAA-TCAAGTATCAGATCAAAATCCAGGTCAAG-TATCAGAA
59572 CATAATTCAA
1 CATAATTCAA
59582 ATCGAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
47 3 0.06
48 45 0.94
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (47 bp):
CATAATTCAATCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGAA
Found at i:61107 original size:13 final size:13
Alignment explanation
Indices: 61089--61119 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61079 GCAGGTCAAC
61089 GGTCAAAGGGTCG
1 GGTCAAAGGGTCG
*
61102 GGTCAATGGGTCG
1 GGTCAAAGGGTCG
61115 GGTCA
1 GGTCA
61120 GGTAAACGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.45, T:0.19
Consensus pattern (13 bp):
GGTCAAAGGGTCG
Found at i:63324 original size:48 final size:48
Alignment explanation
Indices: 63243--63355 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
63233 TATAAAAAAA
* * * * *
63243 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCTAGGTCA-AGT
1 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGA-T
*
63291 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCATGTCAGAT
1 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGAT
63339 ATCAGAT-AAGAATTCAA
1 ATCAGATCAA-AATTCAA
63356 ATCGAAAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 2 0.04
48 54 0.95
49 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCAGGTCAGAT
Found at i:63326 original size:24 final size:24
Alignment explanation
Indices: 63243--63355 Score: 115
Period size: 24 Copynumber: 4.7 Consensus size: 24
63233 TATAAAAAAA
* * *
63243 ATCAAATCATAATTCACGTCAAGT
1 ATCAGATCAAAATTCAAGTCAAGT
* *
63267 ATCATATCAAAA-TCTAGGTCAAGT
1 ATCAGATCAAAATTC-AAGTCAAGT
63291 ATCAGATCAAAATTCAAGTCAAGT
1 ATCAGATCAAAATTCAAGTCAAGT
* *
63315 ATCAGATCAAAATCCATGTC-AGAT
1 ATCAGATCAAAATTCAAGTCAAG-T
63339 ATCAGAT-AAGAATTCAA
1 ATCAGATCAA-AATTCAA
63356 ATCGAAAATC
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
23 6 0.08
24 68 0.89
25 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (24 bp):
ATCAGATCAAAATTCAAGTCAAGT
Found at i:63367 original size:48 final size:48
Alignment explanation
Indices: 63243--63374 Score: 119
Period size: 48 Copynumber: 2.8 Consensus size: 48
63233 TATAAAAAAA
* * ** * * *
63243 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCTAGGTCAAGT
1 ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAGT
* * *
63291 ATCAGATCAAAATTCAAGTCAAGTATCAGATCAAAATCCATGTC-AGAT
1 ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAG-T
63339 ATCAGAT-AAGAATTCAAATCGAA-AATCAGAT-AAAAT
1 ATCAGATCAA-AATTCAAATC-AAGAATCAGATCAAAAT
63375 TTTCATGTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
47 9 0.12
48 62 0.85
49 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAATCAAGAATCAGATCAAAATCCAGGTCAAGT
Found at i:64021 original size:12 final size:12
Alignment explanation
Indices: 64004--64030 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63994 CGTTTCTGAA
64004 ATTCGTATACAT
1 ATTCGTATACAT
64016 ATTCGTATACAT
1 ATTCGTATACAT
64028 ATT
1 ATT
64031 TGTCGAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTCGTATACAT
Found at i:65842 original size:18 final size:18
Alignment explanation
Indices: 65821--65862 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
65811 GGTCAACGGG
*
65821 TCGGGTCAATGGGTCGGA
1 TCGGGTCAACGGGTCGGA
*
65839 TCGGGTCAACGGGTCGGG
1 TCGGGTCAACGGGTCGGA
65857 TCGGGT
1 TCGGGT
65863 TATGACTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.48, T:0.21
Consensus pattern (18 bp):
TCGGGTCAACGGGTCGGA
Found at i:65858 original size:13 final size:13
Alignment explanation
Indices: 65806--65837 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65796 ACGGTAAAAA
65806 GGTCGGGTCAACG
1 GGTCGGGTCAACG
*
65819 GGTCGGGTCAATG
1 GGTCGGGTCAACG
65832 GGTCGG
1 GGTCGG
65838 ATCGGGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.50, T:0.19
Consensus pattern (13 bp):
GGTCGGGTCAACG
Found at i:68049 original size:48 final size:48
Alignment explanation
Indices: 67973--68085 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 48
67963 ATATAAAAAA
* * *
67973 ATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAG-T
1 ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGT-AAGAT
**
68021 ATCAGATCAAAATTCAAGTCAAGTATCATATGGAAATCCAGGTAAGAT
1 ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGTAAGAT
*
68069 ATCAGATCAGAATTCAA
1 ATCAGATCAAAATTCAA
68086 ATCGAAAATC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 3 0.05
48 55 0.95
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (48 bp):
ATCAGATCAAAATTCAAGTCAAGTATCATATCAAAATCCAGGTAAGAT
Found at i:68057 original size:24 final size:24
Alignment explanation
Indices: 67973--68051 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
67963 ATATAAAAAA
* * *
67973 ATCAAATCATAATTCACGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
* *
67997 ATCATATCAAAATCCAGGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
*
68021 ATCAGATCAAAATTCAAGTCAAGT
1 ATCATATCAAAATTCAAGTCAAGT
68045 ATCATAT
1 ATCATAT
68052 GGAAATCCAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (24 bp):
ATCATATCAAAATTCAAGTCAAGT
Found at i:68071 original size:24 final size:24
Alignment explanation
Indices: 67990--68077 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
67980 CATAATTCAC
67990 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
* * *
68014 GTCAAGTATCAGATCAAAATTCAA
1 GTCAAGTATCATATCAAAATCCAG
**
68038 GTCAAGTATCATATGGAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
*
68062 GT-AAGATATCAGATCA
1 GTCAAG-TATCATATCA
68078 GAATTCAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 3 0.06
24 49 0.94
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAG
Found at i:69861 original size:12 final size:12
Alignment explanation
Indices: 69844--69869 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69834 AGTACCTTTA
69844 ATGAGATAAATT
1 ATGAGATAAATT
69856 ATGAGATAAATT
1 ATGAGATAAATT
69868 AT
1 AT
69870 AATCTACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (12 bp):
ATGAGATAAATT
Found at i:73215 original size:19 final size:20
Alignment explanation
Indices: 73186--73223 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
73176 AGAAATTTGT
73186 TGAATGTGCATCGATGCATA
1 TGAATGTGCATCGATGCATA
73206 TGAA-GTGCATCGATGCAT
1 TGAATGTGCATCGATGCAT
73224 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
TGAATGTGCATCGATGCATA
Found at i:73267 original size:63 final size:62
Alignment explanation
Indices: 73191--73349 Score: 201
Period size: 63 Copynumber: 2.5 Consensus size: 62
73181 TTTGTTGAAT
* ** * * *
73191 GTGCATCGATGCATATGAAGTGCATCGATGCATTAATTTTAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAG-AGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
** **
73254 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAA-GAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
73317 GTGCATCGATGCATCAAGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AAGAGTGCATCGATGCAT
73350 GCCTCCATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
63 81 0.96
64 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (62 bp):
GTGCATCGATGCATAAGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:74910 original size:23 final size:23
Alignment explanation
Indices: 74877--74921 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
74867 ATTATTATAT
*
74877 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
74900 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
74922 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:80800 original size:31 final size:31
Alignment explanation
Indices: 80765--80879 Score: 158
Period size: 31 Copynumber: 3.7 Consensus size: 31
80755 TCCAAATGAC
*
80765 CAAAACTTAATAAAACGATAACGTAAGCGAT
1 CAAAACTTAATAAAACAATAACGTAAGCGAT
* ** *
80796 CAAAACTTAATAAAACAATAAAGTAAGTAAC
1 CAAAACTTAATAAAACAATAACGTAAGCGAT
* *
80827 CAAAACTTAATAAAAACGATAACGTAAGCGTT
1 CAAAACTTAAT-AAAACAATAACGTAAGCGAT
80859 CAAAACTTAATAAAACAATAA
1 CAAAACTTAATAAAACAATAA
80880 AGTGACCAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 46 0.65
32 25 0.35
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.20
Consensus pattern (31 bp):
CAAAACTTAATAAAACAATAACGTAAGCGAT
Found at i:80862 original size:63 final size:62
Alignment explanation
Indices: 80763--80882 Score: 222
Period size: 63 Copynumber: 1.9 Consensus size: 62
80753 CGTCCAAATG
80763 ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
1 ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
*
80825 ACCAAAACTTAATAAAAACGATAACGTAAGCGTTCAAAACTTAATAAAACAATAAAGT
1 ACCAAAACTTAAT-AAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGT
80883 GACCAAAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 13 0.23
63 43 0.77
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.20
Consensus pattern (62 bp):
ACCAAAACTTAATAAAACGATAACGTAAGCGATCAAAACTTAATAAAACAATAAAGTAAGTA
Found at i:94234 original size:183 final size:183
Alignment explanation
Indices: 93712--94271 Score: 799
Period size: 182 Copynumber: 3.1 Consensus size: 183
93702 GATACAAATG
* * * * *
93712 AAAAATATATCGCTCCATAGCAATATTACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
* * *
93777 AAACCGGTAAAACGTTA-TCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTT
66 AAACCGGTAAAAAGATACTCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * * *
93841 TTTGAATTTAAAAGAGAAGAAGTTATAGTGCCTA-AAAGGTTTCGATATTTTAT
131 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA-GTGTCGATACTTTAA
* *
93894 GAAAATGTATCGATCCATAACAATATAACAGTTAAAAATATGACAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
* * * * *
93959 AAACAGGTAAATAA-CTAC-CGGAAATTTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
66 AAACCGGTAAA-AAGATACTCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
* * *
94022 TTTGGAATTTAAAAGAGAAGAAATTATAGCACCTATAAACTGTCGATACTTTAA
130 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* * *
94076 AAAAATGTATCGATCTATAACAATATAATAGGTAAAAATATGACAAAA-CATGTCTCAAAAATGA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATC-GGTCTC-AAAATGA
94140 CAAAACCGGTAAAAAGATACTC-GATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
64 CAAAACCGGTAAAAAGATACTCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
*
94204 TTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
129 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
94259 AAAAATGTATCGA
1 AAAAATGTATCGA
94272 CACTTTTGGA
Statistics
Matches: 335, Mismatches: 36, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
181 1 0.00
182 204 0.61
183 129 0.39
184 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (183 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGACA
AAACCGGTAAAAAGATACTCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:94281 original size:71 final size:71
Alignment explanation
Indices: 94171--94342 Score: 310
Period size: 71 Copynumber: 2.4 Consensus size: 71
94161 CGATATGTTG
* * *
94171 AAAGTGTCGATAATTTAATATAA-GTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
1 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
94235 GCCTAT
66 GCCTAT
94241 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
1 AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
94306 GCCTAT
66 GCCTAT
94312 AAAGTGTCGATACTTTAAAAAAATGTATCGA
1 AAAGTGTCGATACTTTAAAAAAATGTATCGA
94343 TCTATAACAA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 20 0.20
71 78 0.80
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (71 bp):
AAAGTGTCGATACTTTAAAAAAATGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGC
GCCTAT
Found at i:94903 original size:19 final size:19
Alignment explanation
Indices: 94867--94935 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
94857 CTTTTATTTA
94867 ATATTATAGGTAAAAAAATG
1 ATATTATAGGT-AAAAAATG
*
94887 ATGTTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
* *
94906 ATATTATATGTAGAAAATG
1 ATATTATAGGTAAAAAATG
*
94925 ATATTTTAGGT
1 ATATTATAGGT
94936 TGTATAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 33 0.77
20 10 0.23
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:96245 original size:22 final size:23
Alignment explanation
Indices: 96193--96249 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
96183 GAATGTTTTT
* *
96193 ATTTTTTTATATAAAATGATAGT
1 ATTTTATTATATAAAATGATAGA
*
96216 ATAGTTATTATATAAAATGATA-A
1 AT-TTTATTATATAAAATGATAGA
96239 ATTTTATTATA
1 ATTTTATTATA
96250 AATGCAGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 4 0.14
24 17 0.59
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATTTTATTATATAAAATGATAGA
Found at i:96950 original size:18 final size:18
Alignment explanation
Indices: 96927--96965 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
96917 GAAAAAATTT
*
96927 GAAGAAGAGAAGATGAAG
1 GAAGAAGAAAAGATGAAG
*
96945 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGAAG
96963 GAA
1 GAA
96966 ATGGGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGAAG
Found at i:98896 original size:175 final size:176
Alignment explanation
Indices: 98604--98950 Score: 624
Period size: 175 Copynumber: 2.0 Consensus size: 176
98594 GCATTATTCC
*
98604 ATATTTAGGTAAGTTCAATAACTACAAAATGCCATTAACTTTAAAGTAATAGGTAAATTTACAAT
1 ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
98669 GTAGGTGGTAAAAATAGAATATAATAATGAAAAAATTAATAAACACAAAGATTTGATTCCAACAT
66 GTAGGTGGTAAAAATAGAATATAATAATGAAAAAATTAATAAACACAAAGATTTGATTCCAACAT
98734 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
131 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
* *
98780 ATATTTAGGTATGTTCAATAACTACAAAATG-CAATAACTTTAAAGTAATAGTTAAATTTACAAT
1 ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
* *
98844 GTAGGTGGTAAAAATAGAATATAATAATGACAAAATTAATAAACAGAAAGATTTGATTCCAACAT
66 GTAGGTGGTAAAAATAGAATATAATAATGAAAAAATTAATAAACACAAAGATTTGATTCCAACAT
* *
98909 TTTGTCCAAGTATGGTTCCCAAACTTAATAGGTAAAATATAC
131 TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATAC
98951 AGGTTTAATG
Statistics
Matches: 164, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
175 134 0.82
176 30 0.18
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (176 bp):
ATATTTAGGTAAGTTCAATAACTACAAAATGCCAATAACTTTAAAGTAATAGGTAAATTTACAAT
GTAGGTGGTAAAAATAGAATATAATAATGAAAAAATTAATAAACACAAAGATTTGATTCCAACAT
TTTGTCCAAGTATAGTTCCCAAACCTAATAGGTAAAATATACCGGT
Found at i:99678 original size:199 final size:199
Alignment explanation
Indices: 98980--100078 Score: 1407
Period size: 199 Copynumber: 5.5 Consensus size: 199
98970 GTAAACTTAT
* *
98980 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCGTAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
99045 GGTAAATTAACAATGTAACCGGTCTAAGAGA-A--A-------A-AAAA-AGGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAA-ATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGT
*
99098 ATCAACACAAATAAAACAAGTGTCGATACTTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTCGATAC-TTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
*
99163 AAAAAA
194 GAAAAA
* * * *
99169 GTTTCGAAACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAGTTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
99234 GGTAAATTAACAATATAACCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
99299 TCGACATAAATAAAATAACTGTCGATACTTTTGGTTATGTCGATACTTTTGGTCCAGAATGAATT
131 TCGACACAAAT--AA-AA----C-A-A------G---TGTCGATACTTTTGGTCCAGAATGAATT
*
99364 TCTAAACCAAGTGCATGAAAAA
178 TCTAAACCAAGTGCACGAAAAA
* * *
99386 GTGTCGATACATTTATAACAAGTATCGATCCTAAAAACATCAAAACCCATAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
99451 GGTAAATTAACAATGTAGCTGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAGAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
* *
99516 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTGAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
99581 AAAA
196 AAAA
* * * * *
99585 GTGTTGATACATTTATAATAAGTGTTGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
99650 GGTAAATTAACAATGTAACCGATCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
99715 TCGACACAAATAAAACAAGTGTCGATA-TTGTTGGTCCAAAATGAATTTCTAAACCAAGTGCACG
131 TCGACACAAATAAAACAAGTGTCGATACTT-TTGGTCCAGAATGAATTTCTAAACCAAGTGCACG
99779 AAAAA
195 AAAAA
* * *
99784 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAGAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
99849 AGTAAATTAACAATGTAATCGGTCTAAATATACCAGTTTTTGAG-AAAGAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
* * * *
99913 TCGATATAAATAAAACAAGTGTCGATACTTTTGGTCTAGAATGAATTTCTAAACCAAGTGCAGGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
99978 AAAA
196 AAAA
* * * * * *
99982 GTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGGAACTCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * ** * *
100047 AGTCATTTTTCAATGTAATCGGTATAAATATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATA
100079 TCGGTTTAAT
Statistics
Matches: 805, Mismatches: 73, Indels: 55
0.86 0.08 0.06
Matches are distributed among these distances:
188 2 0.00
189 87 0.11
198 165 0.20
199 334 0.41
200 25 0.03
202 3 0.00
203 2 0.00
207 1 0.00
208 2 0.00
209 2 0.00
210 1 0.00
214 2 0.00
215 3 0.00
217 167 0.21
218 9 0.01
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
AAAA
Found at i:100120 original size:398 final size:397
Alignment explanation
Indices: 98980--100085 Score: 1362
Period size: 397 Copynumber: 2.8 Consensus size: 397
98970 GTAAACTTAT
* * *
98980 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCGTAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTAGAATCTAATA
* * * *
99045 GGTAAATTAACAATGTAACCGGTCTAAGAGA-A--A-------A-AAAA-AGGTGTACAAAAAGT
66 AGTAAATTAACAATGTAGCTGGTCTAA-ATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGT
*
99098 ATCAACACAAATAAAACAAGTGTCGATACTTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTCGATAC-TTTTGGTCCAGAATGAATTTCTAAACCAAGTGCAC
* * * * * *
99163 AAAAAAGTTTCGAAACATTTATAACAAGTATCGATCCCAAAAACATCGAAACCCATAGTTATAAT
194 GAAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCAAAATTATAAT
* * * *
99228 CTAATAGGTAAATTAACAATATAACC-AGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
259 GTAATAAGTAAATTAACAATGTAACCGA-TATAAATATACCGGTTTTTGAGAAAACAGG-GTACA
* *
99292 AAAAGTATCGACATAAATAAAATAACTGTCGATACTTTTGGTTATGTCGATACTTTTGGTCCAGA
322 AAAAGTATCGACACAAAT--AA-AA----C-A-A------G---TGTCGATACTTTTGGTCCAAA
*
99357 ATGAATTTCTAAACCAAGTGCATGAAAAA
369 ATGAATTTCTAAACCAAGTGCACGAAAAA
* *
99386 GTGTCGATACATTTATAACAAGTATCGATCCTAAAAACATCAAAACCCATAATTATAATCTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTAGAATCTAATA
* * *
99451 GGTAAATTAACAATGTAGCTGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAGAGTA
66 AGTAAATTAACAATGTAGCTGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
99516 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTGAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
* * * * *
99581 AAAAGTGTTGATACATTTATAATAAGTGTTGATCCCAAAAACATCGAAACTCATAATTATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCAAAATTATAATGT
* * *
99646 AATAGGTAAATTAACAATGTAACCGATCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAA
261 AATAAGTAAATTAACAATGTAACCGATATAAATATACCGGTTTTTGAGAAAACA-GGGTACAAAA
99711 AGTATCGACACAAATAAAACAAGTGTCGATA-TTGTTGGTCCAAAATGAATTTCTAAACCAAGTG
325 AGTATCGACACAAATAAAACAAGTGTCGATACTT-TTGGTCCAAAATGAATTTCTAAACCAAGTG
99775 CACGAAAAA
389 CACGAAAAA
* * * *
99784 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAGAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTAGAATCTAATA
* *
99849 AGTAAATTAACAATGTA-ATCGGTCTAAATATACCAGTTTTTGAG-AAAGAGGTGTACAAAAAGT
66 AGTAAATTAACAATGTAGCT-GGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGT
* * * *
99912 ATCGATATAAATAAAACAAGTGTCGATACTTTTGGTCTAGAATGAATTTCTAAACCAAGTGCAGG
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACG
* * * *
99977 AAAAAGTGTCGATACATTTATAACAAGTATCGATCCTAAGAACATCGGAACTCAAAATTTTAATG
195 AAAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCAAAATTATAATG
* * ** * * *
100042 TAATAAGTCATTTTTCAATGTAATCGGTATAAATATATCGGTTT
260 TAATAAGTAAATTAACAATGTAACCGATATAAATATACCGGTTT
100086 AATTTGAAAA
Statistics
Matches: 624, Mismatches: 60, Indels: 41
0.86 0.08 0.06
Matches are distributed among these distances:
397 169 0.27
398 144 0.23
401 1 0.00
405 2 0.00
406 88 0.14
407 1 0.00
408 2 0.00
409 1 0.00
413 2 0.00
414 2 0.00
415 1 0.00
416 168 0.27
417 43 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (397 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTAGAATCTAATA
AGTAAATTAACAATGTAGCTGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGAATTTCTAAACCAAGTGCACGA
AAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCAAAATTATAATGT
AATAAGTAAATTAACAATGTAACCGATATAAATATACCGGTTTTTGAGAAAACAGGGTACAAAAA
GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGAATTTCTAAACCAAGTGCA
CGAAAAA
Found at i:100458 original size:15 final size:15
Alignment explanation
Indices: 100438--100495 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
100428 TTTCTCAAAG
100438 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
100453 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
100468 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
100485 CTCCTTCTCAA
1 CT-CTTCTCAA
100496 ACAATCGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:101683 original size:6 final size:6
Alignment explanation
Indices: 101643--101682 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
101633 CAAGCGGTCA
* * *
101643 ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
101683 TCCAAACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:103491 original size:200 final size:200
Alignment explanation
Indices: 103148--103808 Score: 1124
Period size: 200 Copynumber: 3.3 Consensus size: 200
103138 TCATTTATAA
* *
103148 CAAGTGCACGACAAAGTGTCGATACATTTATAACAAGTGTTGATACTAAAAACATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
103213 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
* *
103278 GGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATATATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTC
103343 CAAAC
196 CAAAC
* * *
103348 CAAGTGCACGAAAACGTGTCGATACATTTATAACAAGTGTCAATACTAAAAGCATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
103413 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
* * *
103478 TGTATACATAAAGTATCGACACAACTACAACAAGGGTCGATACGTTTTGTCCAGAATGTATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTC
103543 CAAAC
196 CAAAC
*
103548 CAAGCGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
*
103613 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCAGTTTATGAGAAAACA
66 AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
* * *
103678 AGTATACATAAAGTATAGACACAACTACAACAAGTGTCAATACTTTTTGTCCAGAATGGATTTTC
131 AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTC
103743 CAAAC
196 CAAAC
* * * * * * *
103748 CAATTGCACAAAAAAGTGTCAATACATTTATAACATGTGTCGATCCCAAATACATCGAAAC
1 CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAAC
103809 CTATAATTCC
Statistics
Matches: 433, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 433 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (200 bp):
CAAGTGCACGAAAAAGTGTCGATACATTTATAACAAGTGTCGATACTAAAAACATCGAAACACAT
AGATATAATGTAATAGGTAAAATAACAATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACA
AGTATACATAAAGTATCGACACAACTACAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTC
CAAAC
Found at i:104170 original size:201 final size:200
Alignment explanation
Indices: 103813--104607 Score: 1193
Period size: 201 Copynumber: 4.0 Consensus size: 200
103803 CGAAACCTAT
* * * * *
103813 AATTCCCAAACTATGTGCACGCACAAAGTGTTGATACATTTATTAAAAGTATCGATCCCAAATTC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAATAC
* *
103878 ATCGAGACCCAAAATTATAATGTAATAGGTCATTTTACAATGTAACCGGTTTAAATTTACTGGTT
66 ATCGAGA-CCAAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
*
103943 TTATGAGAAAATATG-TCTAAATAATGTATCGACACTTTATTTATTTATGTCGATACTTTTTATC
130 TTATGAGAAAAT-CGATCTAAATAATGTATCGACACTTTATTTATTTATGTCGATACTTTTTATC
104007 CATAATG
194 CATAATG
* * *
104014 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTGTCGATCACAAATAC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAATAC
104079 ATCGAGACCGAAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
66 ATCGAGACC-AAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
*
104144 TTATGAGAAAATCGATC-AACATAATGTATCGACACTTTATTTATTTGTGTCGATACTTTTTATC
130 TTATGAGAAAATCGATCTAA-ATAATGTATCGACACTTTATTTATTTATGTCGATACTTTTTATC
104208 CATAATG
194 CATAATG
* *
104215 AATTCTCAAACTATGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGACCCCAAATAC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAATAC
* * * *
104280 ATTGAGACCAAATATTATAATGTAATAGGTCACTTTACAATGTAATCTGTTTAAATTTACCGATT
66 ATCGAGACCAAA-ATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
* * * * *
104345 TTATGAGAAAATAGGTCTAAATAATGTATCGACACTTTATTTATTTGTGTCTATACTTTTTATTC
130 TTATGAGAAAATCGATCTAAATAATGTATCGACACTTTATTTATTTATGTCGATACTTTTTATCC
104410 ATAATG
195 ATAATG
* * *
104416 AATTCCCAAACTATGTGCATGCATAAAGTGTCAATACATTTATAAAAAGTGTCGACCCCAAATAC
1 AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAATAC
*
104481 ATCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAAATTTACCGGTT
66 ATCGAGACC-AAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
* * * * * *
104546 TTATAAGAAAACCGATC-AACATAATGTATCGATACTTT-TTAAATTCATGTCGACACTTTTTA
130 TTATGAGAAAATCGATCTAA-ATAATGTATCGACACTTTATT-TATTTATGTCGATACTTTTTA
104608 AAATTATGCG
Statistics
Matches: 543, Mismatches: 43, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
200 12 0.02
201 526 0.97
202 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (200 bp):
AATTCCCAAACTATGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAAATAC
ATCGAGACCAAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTT
TATGAGAAAATCGATCTAAATAATGTATCGACACTTTATTTATTTATGTCGATACTTTTTATCCA
TAATG
Found at i:107327 original size:19 final size:19
Alignment explanation
Indices: 107273--107327 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
107263 AACCAATAAT
107273 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
107292 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
107311 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
107328 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:107452 original size:2 final size:2
Alignment explanation
Indices: 107445--107481 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
107435 ATAAATAATA
*
107445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107482 AATGTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:108240 original size:37 final size:37
Alignment explanation
Indices: 108199--108283 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
108189 GGATCATATC
* *
108199 TTTAGGAGTTTAAATAATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
* ** *
108236 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
108273 TTTAGGAGTTT
1 TTTAGGAGTTT
108284 GAATCGTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCCTATT
Found at i:109229 original size:106 final size:106
Alignment explanation
Indices: 109044--110319 Score: 1925
Period size: 106 Copynumber: 12.0 Consensus size: 106
109034 AGCATTGTTC
* * *
109044 CGAGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * *
109108 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
109150 CGAGTCCAATATCCTTTGTTGTGAAGTTAAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
109215 AACAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
109256 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
109321 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
109362 GGAGTTCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATT-GAAAAGTTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGAC
***
109426 AACCAATTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
109468 -GTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGAC
1 CG-AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* *
109532 AACCAGTGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
109574 -GAAGTCCAATTTCTTTCGCTGTGGAGTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGA
1 CG-AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGA
*
109637 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTAGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
109680 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
109745 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** *
109786 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTCAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
109851 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
109892 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
109957 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
109998 TGAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
110063 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
110104 GGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
110169 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** * *
110210 GGAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTT-TTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
110274 ACCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
110315 CGAGT
1 CGAGT
110320 GGCACGATAT
Statistics
Matches: 1081, Mismatches: 82, Indels: 15
0.92 0.07 0.01
Matches are distributed among these distances:
105 56 0.05
106 1018 0.94
107 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:111931 original size:22 final size:20
Alignment explanation
Indices: 111905--111951 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
111895 TACATATGCT
111905 TTTTTGTCCCTTTTTCTTTTTG
1 TTTTTGT-CCTTTTT-TTTTTG
*
111927 ATTTTTGTTCTTTTTTTTTTG
1 -TTTTTGTCCTTTTTTTTTTG
111948 TTTT
1 TTTT
111952 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 6 0.26
23 7 0.30
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.79
Consensus pattern (20 bp):
TTTTTGTCCTTTTTTTTTTG
Found at i:111937 original size:16 final size:14
Alignment explanation
Indices: 111918--111977 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 14
111908 TTGTCCCTTT
111918 TTCTTTTTGATTTTTG
1 TTCTTTTT--TTTTTG
111934 TTCTTTTTTTTTTG
1 TTCTTTTTTTTTTG
111948 TT-TTCTTCTTTTTTG
1 TTCTT-TT-TTTTTTG
111963 CTTCTTTTCTTTTTT
1 -TTCTTTT-TTTTTT
111978 CTTTTTGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.05
14 10 0.25
15 7 0.17
16 19 0.47
17 2 0.05
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTTTTTG
Found at i:111951 original size:19 final size:20
Alignment explanation
Indices: 111914--111961 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
111904 TTTTTTGTCC
*
111914 CTTTTTCTTTTTGATTTTTGTT
1 CTTTTT-TTTTTGA-TTTTCTT
111936 CTTTTTTTTTTG-TTTTCTT
1 CTTTTTTTTTTGATTTTCTT
111955 CTTTTTT
1 CTTTTTT
111962 GCTTCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
21 6 0.24
22 6 0.24
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.81
Consensus pattern (20 bp):
CTTTTTTTTTTGATTTTCTT
Found at i:111970 original size:19 final size:19
Alignment explanation
Indices: 111929--111977 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
111919 TCTTTTTGAT
* ** *
111929 TTTTGTTCTTTTTTTTTTG
1 TTTTCTTCTTTTTTGCTTC
111948 TTTTCTTCTTTTTTGCTTC
1 TTTTCTTCTTTTTTGCTTC
111967 TTTTCTT-TTTT
1 TTTTCTTCTTTT
111978 CTTTTTGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTTCTTCTTTTTTGCTTC
Found at i:116292 original size:20 final size:19
Alignment explanation
Indices: 116242--116297 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
116232 AACTAATAAT
116242 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
116261 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
116281 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
116298 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:116406 original size:21 final size:21
Alignment explanation
Indices: 116382--116525 Score: 61
Period size: 21 Copynumber: 6.6 Consensus size: 21
116372 GCAAAGAAAC
116382 TAAAAATATAATGAAAATAAA
1 TAAAAATATAATGAAAATAAA
*
116403 TAAATAGTATAAAT-AAAAT-AA
1 TAAA-AATAT-AATGAAAATAAA
116424 TAAAAAATATATAT-AAAA-AATA
1 T-AAAAATATA-ATGAAAATAA-A
* *
116446 TAAAAATGT-ATGTATAATATAA
1 TAAAAATATAATG-AAAATA-AA
116468 T-AAAATACTAAATAGTAATAAT-AA
1 TAAAAATA-T-AAT-G-AA-AATAAA
116492 TAATAAATA-AATGAAAACTAAA
1 TAA-AAATATAATGAAAA-TAAA
* *
116514 TATACATATAAT
1 TAAAAATATAAT
116526 ATTAACTAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 39
0.67 0.06 0.27
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 40 0.42
22 26 0.27
23 7 0.07
24 5 0.05
25 4 0.04
26 8 0.08
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAAAATATAATGAAAATAAA
Found at i:116441 original size:13 final size:13
Alignment explanation
Indices: 116410--116447 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
116400 AAATAAATAG
116410 TATAAATAAA-ATA
1 TATAAA-AAATATA
116423 -ATAAAAAATATA
1 TATAAAAAATATA
116435 TATAAAAAATATA
1 TATAAAAAATATA
116448 AAAATGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 8 0.35
13 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TATAAAAAATATA
Found at i:116462 original size:23 final size:23
Alignment explanation
Indices: 116397--116451 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
116387 ATATAATGAA
116397 AATAAATAAATAGTATA-AATAAAAT
1 AATAAA-AAATA-TATATAA-AAAAT
116422 AATAAAAAATATATATAAAAAAT
1 AATAAAAAATATATATAAAAAAT
116445 -ATAAAAA
1 AATAAAAA
116452 TGTATGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.24
23 9 0.31
24 7 0.24
25 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (23 bp):
AATAAAAAATATATATAAAAAAT
Found at i:116720 original size:18 final size:17
Alignment explanation
Indices: 116693--116726 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
116683 TATAACGCAA
116693 ATAAAAATAAAAAAATT
1 ATAAAAATAAAAAAATT
*
116710 ATAACAAATAAATAAAT
1 ATAA-AAATAAAAAAAT
116727 AAAATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAATAAAAAAATT
Found at i:116737 original size:28 final size:27
Alignment explanation
Indices: 116676--116738 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
116666 TTAAGAAAAT
116676 AATATAA-TATAACGCAAATAAAAATAA
1 AATATAATTATAAC-CAAATAAAAATAA
116703 AA-A-AATTATAA-CAAATAAATAAATAA
1 AATATAATTATAACCAAAT-AA-AAATAA
116729 AATATAATTA
1 AATATAATTA
116739 AATATATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
24 5 0.16
25 4 0.13
26 14 0.45
27 3 0.10
28 5 0.16
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (27 bp):
AATATAATTATAACCAAATAAAAATAA
Found at i:116760 original size:32 final size:32
Alignment explanation
Indices: 116691--116757 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
116681 AATATAACGC
116691 AAATAAAAATAAAAAAATTATAACAAATAAAT
1 AAATAAAAATAAAAAAATTATAACAAATAAAT
** *
116723 AAATAAAATATAATTAAA-TATATACATATAAAT
1 AAATAAAA-ATAAAAAAATTATA-ACAAATAAAT
116756 AA
1 AA
116758 TAAGGGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (32 bp):
AAATAAAAATAAAAAAATTATAACAAATAAAT
Found at i:117192 original size:37 final size:37
Alignment explanation
Indices: 117151--117243 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
117141 ATGCTTGTGG
* * *
117151 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* ** *
117188 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
*
117225 ATTCTATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
117244 GAATCCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:117709 original size:199 final size:201
Alignment explanation
Indices: 117276--117715 Score: 785
Period size: 199 Copynumber: 2.2 Consensus size: 201
117266 TGTGTTGACA
* * *
117276 ACAATGTAACCGGTTTAAATTTACCGATTTTATGAGAAAATAGGTCTAAATAATGTATCGACACT
1 ACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGATCTAAATAATGAATCGACACT
*
117341 TTATTTATTTGTGTCAATACTTTTTATCCATAATGAATTCCCAAATTATGTGCACGCATAAAGTG
66 TTATTTATTTGTGTCAATACTTTTTATCCATAATGAATTCCCAAACTATGTGCACGCATAAAGTG
117406 TCGATACATTTATAAAAAGTGTCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGT
131 TCGATACATTTATAAAAAGTGTCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGT
117471 CACTTT
196 CACTTT
* * *
117477 ACAATGTAACCAGTTTAAATTTACCGGTTTTATGAAAAAATATATCTAAATAAT-AATCGACACT
1 ACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGATCTAAATAATGAATCGACACT
*
117541 TTATTTATTTGTGTCGATACTTTTTATCCATAATGAATTCCCAAACTATGTGCACGCATAAAGTG
66 TTATTTATTTGTGTCAATACTTTTTATCCATAATGAATTCCCAAACTATGTGCACGCATAAAGTG
*
117606 TCGATACATTTAT-AAAAGTGTCGACCCTAAATACATCGAGACCGAAAATTATAATGTAATAGGT
131 TCGATACATTTATAAAAAGTGTCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGT
117670 CACTTT
196 CACTTT
117676 ACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAA
1 ACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAA
117716 CTGTCAACAT
Statistics
Matches: 228, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
199 94 0.41
200 85 0.37
201 49 0.21
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (201 bp):
ACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGATCTAAATAATGAATCGACACT
TTATTTATTTGTGTCAATACTTTTTATCCATAATGAATTCCCAAACTATGTGCACGCATAAAGTG
TCGATACATTTATAAAAAGTGTCGACCCCAAATACATCGAGACCGAAAATTATAATGTAATAGGT
CACTTT
Found at i:118050 original size:123 final size:124
Alignment explanation
Indices: 117819--118059 Score: 299
Period size: 128 Copynumber: 1.9 Consensus size: 124
117809 TCCAAACCAA
* * * *
117819 GTGTACGACAAAGTGTCAATACATTTATAATAAGTGTCGATACTAAAAACATTGAGACCGATAAT
1 GTGTACGACAAAGTGTCAATACATTTATAAAAAGTATCGATACTAAAAACATCGAAACCGATAAT
* * *
117884 TATAATGTAATAGGTAAATTTACATTGTAACCGGTAGAAATATACCGGGTTAATAAGAGAATAG
66 TATAATGTAACAGG---A-TTACAATGTAACCGGTAAAAATATACC-GGTTAATAAGAGAATAG
* * * *
117948 GTGTACGCATAAAGTGTCGATACA-TTATAAAAAGTATCGAT-CTCAAAACATCGAAATCGATAA
1 GTGTACG-ACAAAGTGTCAATACATTTATAAAAAGTATCGATACTAAAAACATCGAAACCGATAA
*
118011 TTATTATGTAACAGG-TTACAATGTAACCGGTAAAAATATACCGGTTAAT
65 TTATAATGTAACAGGATTACAATGTAACCGGTAAAAATATACCGGTTAAT
118060 TAGCAAATAT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
122 7 0.07
123 25 0.25
128 31 0.31
129 22 0.22
130 14 0.14
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (124 bp):
GTGTACGACAAAGTGTCAATACATTTATAAAAAGTATCGATACTAAAAACATCGAAACCGATAAT
TATAATGTAACAGGATTACAATGTAACCGGTAAAAATATACCGGTTAATAAGAGAATAG
Found at i:131121 original size:2 final size:2
Alignment explanation
Indices: 131114--131146 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
131104 TCAAAAATTA
131114 AT 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 AT A
131147 AAAGAAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:145199 original size:4 final size:4
Alignment explanation
Indices: 145183--145305 Score: 57
Period size: 4 Copynumber: 30.8 Consensus size: 4
145173 AATCCATTCT
* * * * * * *
145183 TATA TATA CATA TATA TATA TATG TATG TATA TATG TATG TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * * * *
145231 TATG TATG TATG TATG TATA TGTA TATG TATA TATG TATG TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
145279 TATA TGTA TGTA TGTA TGTA TATA TAT
1 TATA TATA TATA TATA TATA TATA TAT
145306 GTATGTATGT
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 105 1.00
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:145310 original size:4 final size:4
Alignment explanation
Indices: 145203--145329 Score: 172
Period size: 4 Copynumber: 32.8 Consensus size: 4
145193 TATATATATA
* *
145203 TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
145251 TGTA TATG TATA TATG TATG TATG TATG TA-- TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
145297 TA-- TATA TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
145330 TTCATTTTAA
Statistics
Matches: 110, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
2 4 0.04
4 106 0.96
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:154663 original size:5 final size:5
Alignment explanation
Indices: 154653--154739 Score: 66
Period size: 5 Copynumber: 15.4 Consensus size: 5
154643 CACCAATCAA
*
154653 CGGGT CGGGT CAACGGT CGGGT CGGGT CAACGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT C--GGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT CGGGT
*
154703 CAACGGT CGGGT CGGGT CGGGT CAACGGGT CGGGT CG
1 C--GGGT CGGGT CGGGT CGGGT ---CGGGT CGGGT CG
154740 TGACCGGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
5 50 0.74
7 8 0.12
8 10 0.15
ACGTcount: A:0.09, C:0.23, G:0.51, T:0.17
Consensus pattern (5 bp):
CGGGT
Found at i:154675 original size:17 final size:18
Alignment explanation
Indices: 154653--154739 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 18
154643 CACCAATCAA
154653 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
154670 CGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCAA-----CGGGT
154693 CGGGTCGGGTCAACGGTCGGGT
1 CGGGTCGGGTCAA----CGGGT
154715 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
154733 CGGGTCG
1 CGGGTCG
154740 TGACCGGTCA
Statistics
Matches: 63, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
17 13 0.21
18 12 0.19
22 22 0.35
23 16 0.25
ACGTcount: A:0.09, C:0.23, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:154732 original size:40 final size:38
Alignment explanation
Indices: 154653--154739 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 38
154643 CACCAATCAA
154653 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGT--ACGGGTCGGGT
154693 CGGGTCGGGTCAACGGTCGGGTCGGGT-CGGGTCAACGGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGTACGGGT---CGGGT
154733 CGGGTCG
1 CGGGTCG
154740 TGACCGGTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
37 5 0.11
40 39 0.89
ACGTcount: A:0.09, C:0.23, G:0.51, T:0.17
Consensus pattern (38 bp):
CGGGTCGGGTCAACGGTCGGGTCGGGTACGGGTCGGGT
Found at i:154750 original size:23 final size:23
Alignment explanation
Indices: 154667--154739 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
154657 TCGGGTCAAC
154667 GGTCGGGTCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
154690 GGTCGGGTCGGGTCAAC-GGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
154712 GGTCGGGTCGGGTCAACGGGTCG
1 GGTCGGGTCGGGTCAACGGGTCG
154735 GGTCG
1 GGTCG
154740 TGACCGGTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.45
23 27 0.55
ACGTcount: A:0.08, C:0.22, G:0.52, T:0.18
Consensus pattern (23 bp):
GGTCGGGTCGGGTCAACGGGTCG
Found at i:154795 original size:10 final size:10
Alignment explanation
Indices: 154742--154796 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
154732 TCGGGTCGTG
154742 ACCGGTC-AA
1 ACCGGTCAAA
*
154751 ACCGATCAAA
1 ACCGGTCAAA
154761 ACCGGTTCAAA
1 ACCGG-TCAAA
**
154772 ACC-GTTTAA
1 ACCGGTCAAA
154781 ACCGGTCAAA
1 ACCGGTCAAA
154791 ACCGGT
1 ACCGGT
154797 TTCCAGCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 12 0.32
10 17 0.46
11 8 0.22
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:161899 original size:12 final size:13
Alignment explanation
Indices: 161875--161955 Score: 57
Period size: 13 Copynumber: 6.2 Consensus size: 13
161865 AATAACACCA
161875 GTCAACGGGTCGG
1 GTCAACGGGTCGG
161888 GTCAACGGTCGGGTCGG
1 GTCAA----CGGGTCGG
161905 GTCAACGGGTCGG
1 GTCAACGGGTCGG
*
161918 GT---CGGGTCAACG
1 GTCAACGGGTC--GG
161930 GT---CGGGTCGG
1 GTCAACGGGTCGG
161940 GTCAACGGGTCGG
1 GTCAACGGGTCGG
161953 GTC
1 GTC
161956 GTGACCGGTC
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.16
12 9 0.16
13 26 0.46
17 13 0.23
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:161902 original size:17 final size:18
Alignment explanation
Indices: 161880--161956 Score: 140
Period size: 17 Copynumber: 4.4 Consensus size: 18
161870 CACCAGTCAA
161880 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
161897 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
161915 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
161932 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
161950 CGGGTCG
1 CGGGTCG
161957 TGACCGGTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
17 31 0.53
18 27 0.47
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:161926 original size:35 final size:35
Alignment explanation
Indices: 161880--161956 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
161870 CACCAGTCAA
161880 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
161915 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
161950 CGGGTCG
1 CGGGTCG
161957 TGACCGGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.17
Consensus pattern (35 bp):
CGGGTCGGGTCAACGGTCGGGTCGGGTCAACGGGT
Found at i:163009 original size:32 final size:31
Alignment explanation
Indices: 162935--163185 Score: 219
Period size: 31 Copynumber: 8.0 Consensus size: 31
162925 AAGAGTCGAG
* *
162935 GAATTACCTATG-TCTTTCGGGACATATGGAC
1 GAATTACCTATGTTC-TACGGAACATATGGAC
* *
162966 -AGTATACCTATGTTCTACGGAATATATGGAAC
1 GAAT-TACCTATGTTCTACGGAACATATGG-AC
162998 GAATTACCTATGTTCTACGGAACATATGGAC
1 GAATTACCTATGTTCTACGGAACATATGGAC
* *
163029 AGAATTACCTATG-TCTTTCGGGACATATGGAC
1 -GAATTACCTATGTTC-TACGGAACATATGGAC
*
163061 -AATATACCTATGTTCTACAGAACATATGGAC
1 GAAT-TACCTATGTTCTACGGAACATATGGAC
*
163092 AGAATTACCTATGTCTCT-CGGGACATATGGAC
1 -GAATTACCTATGT-TCTACGGAACATATGGAC
* * *
163124 -AATATACATATGTTCTAAGGAATATATGGAC
1 GAAT-TACCTATGTTCTACGGAACATATGGAC
* * * * *
163155 -AGTTTACCTAGGTTCTTCGGGACCTATGGAC
1 GA-ATTACCTATGTTCTACGGAACATATGGAC
163186 AGTTACTGAG
Statistics
Matches: 181, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
30 11 0.06
31 84 0.46
32 78 0.43
33 8 0.04
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (31 bp):
GAATTACCTATGTTCTACGGAACATATGGAC
Found at i:163057 original size:95 final size:95
Alignment explanation
Indices: 162935--163124 Score: 312
Period size: 95 Copynumber: 2.0 Consensus size: 95
162925 AAGAGTCGAG
* * *
162935 GAATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAATATATGGA-ACG
1 GAATTACCTATGTCTTTCGGGACATATGGACAATATACCTATGTTCTACAGAACATATGGACA-G
162999 AATTACCTATGT-TCTACGGAACATATGGACA
65 AATTACCTATGTCTCT-CGGAACATATGGACA
163030 GAATTACCTATGTCTTTCGGGACATATGGACAATATACCTATGTTCTACAGAACATATGGACAGA
1 GAATTACCTATGTCTTTCGGGACATATGGACAATATACCTATGTTCTACAGAACATATGGACAGA
*
163095 ATTACCTATGTCTCTCGGGACATATGGACA
66 ATTACCTATGTCTCTCGGAACATATGGACA
163125 ATATACATAT
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
95 85 0.96
96 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (95 bp):
GAATTACCTATGTCTTTCGGGACATATGGACAATATACCTATGTTCTACAGAACATATGGACAGA
ATTACCTATGTCTCTCGGAACATATGGACA
Found at i:163069 original size:63 final size:63
Alignment explanation
Indices: 162939--163186 Score: 292
Period size: 63 Copynumber: 4.0 Consensus size: 63
162929 GTCGAGGAAT
* * * * * *
162939 TACCTATG-TCTTTCGGGACATATGGACAGTA-TACCTATGTTCTACGGAATATATGGAACGAAT
1 TACCTATGTTC-TACGGAACATATGGACAGAATTACCTATGTTCTTCGGGACATATGG-AC-AAT
163002 -
63 A
163002 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATG-TCTTTCGGGACATATGGACAATA
1 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTTC-TTCGGGACATATGGACAATA
*
163065 TACCTATGTTCTACAGAACATATGGACAGAATTACCTATG-TCTCTCGGGACATATGGACAATA
1 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTTCT-TCGGGACATATGGACAATA
* * * * * *
163128 TACATATGTTCTAAGGAATATATGGACAG-TTTACCTAGGTTCTTCGGGACCTATGGACA
1 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTTCTTCGGGACATATGGACA
163187 GTTACTGAGG
Statistics
Matches: 165, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
62 27 0.16
63 117 0.71
64 21 0.13
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (63 bp):
TACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTTCTTCGGGACATATGGACAATA
Found at i:164652 original size:35 final size:35
Alignment explanation
Indices: 164606--164676 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
164596 ATCATGGAGG
164606 ACATGTAGCTTCAGTATCCTCACCTCTTCTATCCA
1 ACATGTAGCTTCAGTATCCTCACCTCTTCTATCCA
*
164641 ACATGTAGCTTCAGTATCCTCACCTTTTCTATCCA
1 ACATGTAGCTTCAGTATCCTCACCTCTTCTATCCA
164676 A
1 A
164677 GTAAATTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.35
Consensus pattern (35 bp):
ACATGTAGCTTCAGTATCCTCACCTCTTCTATCCA
Found at i:170267 original size:28 final size:29
Alignment explanation
Indices: 170230--170296 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
170220 CAAATTATTT
*
170230 AATATATTTTAATT-TTATTTTAAC-TTAA
1 AATATATTTT-ATTCTTATCTTAACTTTAA
170258 AATATATTTTATTCTTATCTTAACTTTAA
1 AATATATTTTATTCTTATCTTAACTTTAA
*
170287 AATATTTTTT
1 AATATATTTT
170297 TAAAGTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 13 0.37
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (29 bp):
AATATATTTTATTCTTATCTTAACTTTAA
Found at i:170401 original size:30 final size:30
Alignment explanation
Indices: 170306--170388 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
170296 TTAAAGTATT
170306 TTATTCTTTTATTAACTTAGAAATATATATA
1 TTATTCTTTTATTAACTTA-AAATATATATA
* * * * *
170337 TTGTTATTATCTTAACTTCAAATATATATA
1 TTATTCTTTTATTAACTTAAAATATATATA
170367 TTATTCTTTTATTAACTTAAAA
1 TTATTCTTTTATTAACTTAAAA
170389 GATGTATTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 28 0.67
31 14 0.33
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATTCTTTTATTAACTTAAAATATATATA
Found at i:170422 original size:61 final size:61
Alignment explanation
Indices: 170306--170422 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
170296 TTAAAGTATT
* * * *
170306 TTATTCTTTTATTAACTTAGAAATATATATATTGTTATTATCTTAACTTCAAATATATATA
1 TTATTCTTTTATTAACTTAGAAAGATATATATTATTATTATCTTAACATAAAATATATATA
* * * *
170367 TTATTCTTTTATTAACTTA-AAAGATGTATTTTATTGTTATCTTAAGATAATAATAT
1 TTATTCTTTTATTAACTTAGAAAGATATATATTATTATTATCTTAACATAA-AATAT
170423 GAAATTAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 23 0.49
61 24 0.51
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (61 bp):
TTATTCTTTTATTAACTTAGAAAGATATATATTATTATTATCTTAACATAAAATATATATA
Found at i:171885 original size:75 final size:73
Alignment explanation
Indices: 171759--171943 Score: 248
Period size: 75 Copynumber: 2.5 Consensus size: 73
171749 GTTAAATGAC
* * *
171759 TAGGGGTATTTGTACCTCTAAG-GGGGTATC-GTACCCATCAGACATTCTGTTTTTCTCGGAGCC
1 TAGGGGTA-TCGTACC-CTATGAGGGGTATCGGTACCCATCAGACATTCTGTTTTTCTCAGAGCC
171822 AAAAATTGGCA
64 -AAAATTGGCA
** *
171833 TAGGGGTATCGGTACCCTATGAGGGGTATCGGTACCCATTTGGCATTCTGTTTTTCTCAGAGCCA
1 TAGGGGTATC-GTACCCTATGAGGGGTATCGGTACCCATCAGACATTCTGTTTTTCTCAGAGCCA
171898 AAATTGGCA
65 AAATTGGCA
171907 TAGGGGTATCGTACACCCTATGAGGGGTATCGGTACC
1 TAGGGGTATCGT--ACCCTATGAGGGGTATCGGTACC
171944 TCCCTATTTA
Statistics
Matches: 100, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
73 7 0.07
74 41 0.41
75 52 0.52
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (73 bp):
TAGGGGTATCGTACCCTATGAGGGGTATCGGTACCCATCAGACATTCTGTTTTTCTCAGAGCCAA
AATTGGCA
Found at i:172585 original size:21 final size:18
Alignment explanation
Indices: 172548--172590 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 18
172538 TAATATCATT
172548 CAAACAAAAATAAACATC
1 CAAACAAAAATAAACATC
172566 CAAACAAACAATTCAAACATC
1 CAAACAAA-AA-T-AAACATC
172587 CAAA
1 CAAA
172591 TTCCAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 1 0.05
21 11 0.50
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.12
Consensus pattern (18 bp):
CAAACAAAAATAAACATC
Found at i:180357 original size:55 final size:54
Alignment explanation
Indices: 180270--180444 Score: 228
Period size: 54 Copynumber: 3.2 Consensus size: 54
180260 TACCTCTAAG
*
180270 GGGGTATCGGTACCCA-TCGAGCATTCTGTTTTTCTCGGAGCCAAAAATTAGCATA
1 GGGGTATCGGTACCCATTTGA-CATTCTGTTTTTCTCGGAGCC-AAAATTAGCATA
* *
180325 GGGGTATCGGTACCCATTTGACATTCTATTTTTCTCGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCATTTGACATTCTGTTTTTCTCGGAGCCAAAATTAGCATA
* * * * **
180379 GAGGTATCGATACCCATTTGGCATTATGTTTTTCTCACA-CCAAAATTAGCATA
1 GGGGTATCGGTACCCATTTGACATTCTGTTTTTCTCGGAGCCAAAATTAGCATA
*
180432 AGGGTATCGGTAC
1 GGGGTATCGGTAC
180445 ACCCTATGAG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
53 23 0.22
54 43 0.41
55 36 0.34
56 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (54 bp):
GGGGTATCGGTACCCATTTGACATTCTGTTTTTCTCGGAGCCAAAATTAGCATA
Found at i:189639 original size:34 final size:36
Alignment explanation
Indices: 189601--189678 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 36
189591 TTAAATTCTA
189601 AAATTTTAATATT-ATTTTT-TTATTATAACTAACT
1 AAATTTTAATATTCATTTTTCTTATTATAACTAACT
* * *
189635 AAATTTTATTTTTCCATTTTTCCTTATTATAACTAATT
1 AAATTTTAATATT-CATTTTT-CTTATTATAACTAACT
189673 AAATTT
1 AAATTT
189679 CACATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 11 0.30
36 6 0.16
38 20 0.54
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (36 bp):
AAATTTTAATATTCATTTTTCTTATTATAACTAACT
Found at i:190986 original size:2 final size:2
Alignment explanation
Indices: 190979--191009 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
190969 TTAAATAAAG
*
190979 TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
191010 TAAACATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:191282 original size:22 final size:22
Alignment explanation
Indices: 191257--191301 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
191247 ATCTGCAATC
191257 AATAAACAAAACATTTAATATA
1 AATAAACAAAACATTTAATATA
191279 AATAAACAAAACATTTAATATA
1 AATAAACAAAACATTTAATATA
191301 A
1 A
191302 GTATTAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAACAAAACATTTAATATA
Found at i:193052 original size:130 final size:132
Alignment explanation
Indices: 192627--193121 Score: 545
Period size: 130 Copynumber: 3.8 Consensus size: 132
192617 CCAATGGTGT
* *
192627 ATGA-ATTATTCCTTCGTGATGAGGACGGTCTGGCCA-CTTGAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGAC-GTCTGGCCATCTTTAAGATATTTGAGATAACAC-GTT
* * * * * ** *
192690 -CTT-GTGATGAGGACGTCTAGTTAT-TGAGG-TGACTCAGC-CCTACGTGATGAGGAGTTCTGG
64 CCTTCGTGATGAGGACATCTGGCTATCTAAGGATGAGT-TTCTCCTTCGTGATGAGGAGTTCTGG
192750 TCAGTGG
128 --AGTGG
* * * *
192757 ATGAAATTGTTCCTTCGTGATGAGGATGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTT-AAGATATTTGAGATAACA-CGTT
* * * *
192822 TCTTCGTGATAAGGACATCTGGCTATCTAATGAT--G-TTGTCCTTCGTGATGAGGAGTTCT-GA
64 CCTTCGTGATGAGGACATCTGGCTATCTAAGGATGAGTTTCTCCTTCGTGATGAGGAGTTCTGGA
192883 TTGTGG
129 --GTGG
* * * *
192889 ATGACA-TGTTCCTTGGTGATGAGAACGTATGGCCATCTTTAAGATATTTGAGATAACACGATCC
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAGATATTTGAGATAACACGTTCC
* *
192953 TTCGTGATGAGGACATCTGGCTATCTAAGGATGAGTTTCTCCTTCATG-TGAGGAGTTTTGGA-T
66 TTCGTGATGAGGACATCTGGCTATCTAAGGATGAGTTTCTCCTTCGTGATGAGGAGTTCTGGAGT
193016 GG
131 GG
*
193018 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAA-AGATTTGAGATAACACGGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAGATATTTGAGATAACAC-GTTC
*
193082 CTTCGTGATGAGGACGTCTGG-TATCTAAGGATGATGTTTC
65 CTTCGTGATGAGGACATCTGGCTATCTAAGGATGA-GTTTC
193122 CTAAAATATC
Statistics
Matches: 311, Mismatches: 36, Indels: 36
0.81 0.09 0.09
Matches are distributed among these distances:
129 70 0.23
130 92 0.30
131 63 0.20
132 43 0.14
133 22 0.07
134 17 0.05
135 3 0.01
136 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (132 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAGATATTTGAGATAACACGTTCC
TTCGTGATGAGGACATCTGGCTATCTAAGGATGAGTTTCTCCTTCGTGATGAGGAGTTCTGGAGT
GG
Found at i:193118 original size:261 final size:259
Alignment explanation
Indices: 192635--193123 Score: 623
Period size: 261 Copynumber: 1.9 Consensus size: 259
192625 GTATGAATTA
* * * *
192635 TTCCTTCGTGATGAGGACGGTCTGGCCACTTGAAGATATTTGAGATAACACGGTTCTTGTGATGA
1 TTCCTTCGTGATGAGAACGGTATGGCCACTTGAAGATATTTGAGATAACACGATCCTTGTGATGA
* * * *
192700 GGACGTCTAGTTATTGAGGTGACTCAGCCCTACGTGATGAGGAGTTCTGGTCAGTGGATGAAATT
66 GGACATCTAGCTATTAAGGTGACTCAGCCCTACATGATGAGGAGTTCTGG-CAGTGGATGAAATT
* * *
192765 GTTCCTTCGTGATGAGGATGTCTAGCCATCTTTAAAGATATTTGAGATAACATGGTTTCTTCGTG
130 GTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGA-ATTTGAGATAACACGGTTCCTTCGTG
192830 ATAAGGACATCTGGCTATCTAATGATGTTGTCCTTCGTGATGAGGAGTTCTGATTGTGGATGACA
194 ATAAGGACATCTGGCTATCTAATGATGTT-TCCTTCGTGATGAGGAGTTCTGATTGTGGATGACA
192895 TG
258 TG
* *
192897 TTCCTTGGTGATGAGAAC-GTATGGCCATCTTTAAGATATTTGAGATAACACGATCCTTCGTGAT
1 TTCCTTCGTGATGAGAACGGTATGGCCA-CTTGAAGATATTTGAGATAACACGATCCTT-GTGAT
* * ** * *
192961 GAGGACATCTGGCTATCTAAGGATGAGT-TTCTCCTTCATG-TGAGGAGTTTTGG-A-TGGATGA
64 GAGGACATCTAGCTAT-TAAGG-TGACTCAGC-CCTACATGATGAGGAGTTCTGGCAGTGGATGA
* *
193022 CATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAG-ATTTGAGATAACACGGTTCCTTC
126 AATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGAATTTGAGATAACACGGTTCCTTC
* *
193086 GTGATGAGGACGTCTGG-TATCTAAGGATGATGTTTCCT
191 GTGATAAGGACATCTGGCTATCT-A--ATGATGTTTCCT
193124 AAAATATCAA
Statistics
Matches: 196, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
258 5 0.03
259 37 0.19
260 4 0.02
261 61 0.31
262 44 0.22
263 18 0.09
264 17 0.09
265 10 0.05
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (259 bp):
TTCCTTCGTGATGAGAACGGTATGGCCACTTGAAGATATTTGAGATAACACGATCCTTGTGATGA
GGACATCTAGCTATTAAGGTGACTCAGCCCTACATGATGAGGAGTTCTGGCAGTGGATGAAATTG
TTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGAATTTGAGATAACACGGTTCCTTCGTGAT
AAGGACATCTGGCTATCTAATGATGTTTCCTTCGTGATGAGGAGTTCTGATTGTGGATGACATG
Found at i:201864 original size:12 final size:12
Alignment explanation
Indices: 201847--201871 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
201837 ATATAAGGAT
201847 ATAAAAAATAAA
1 ATAAAAAATAAA
201859 ATAAAAAATAAA
1 ATAAAAAATAAA
201871 A
1 A
201872 AAATGAATTG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:202584 original size:2 final size:2
Alignment explanation
Indices: 202577--202616 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
202567 AATAAACTAA
202577 AT AT AT AT AT 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 AT AT AT AT AT
202617 TAAACATGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203529 original size:22 final size:23
Alignment explanation
Indices: 203491--203534 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
203481 AGGGAGCTTC
203491 GACCACCGATCGATCACTATTCT
1 GACCACCGATCGATCACTATTCT
*
203514 GACCACC-ATCGGTCACTATTC
1 GACCACCGATCGATCACTATTC
203535 ACCGTCGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.25
Consensus pattern (23 bp):
GACCACCGATCGATCACTATTCT
Found at i:204070 original size:3 final size:3
Alignment explanation
Indices: 204062--204091 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
204052 AATTTATTTT
*
204062 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
204092 TGATAGTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:207014 original size:15 final size:16
Alignment explanation
Indices: 206994--207023 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
206984 TTGTTTTGCG
206994 TTAAATTA-TTACAAC
1 TTAAATTACTTACAAC
207009 TTAAATTACTTACAA
1 TTAAATTACTTACAA
207024 TGAATATTAA
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:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATTACTTACAAC
Found at i:208217 original size:15 final size:15
Alignment explanation
Indices: 208197--208247 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
208187 ACTAAAGTTG
208197 ATTAATTTTCTTCAA
1 ATTAATTTTCTTCAA
** *
208212 ATTAA-TAACTTAAA
1 ATTAATTTTCTTCAA
208226 GATTAATTTTCTTCAA
1 -ATTAATTTTCTTCAA
*
208242 TTTAAT
1 ATTAAT
208248 AACTTAAAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 6 0.22
15 15 0.56
16 6 0.22
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTAATTTTCTTCAA
Found at i:208230 original size:30 final size:30
Alignment explanation
Indices: 208196--208257 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
208186 TACTAAAGTT
208196 GATTAATTTTCTTCAAATTAATAACTTAAA
1 GATTAATTTTCTTCAAATTAATAACTTAAA
*
208226 GATTAATTTTCTTCAATTTAATAACTTAAA
1 GATTAATTTTCTTCAAATTAATAACTTAAA
208256 GA
1 GA
208258 AAATTCTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (30 bp):
GATTAATTTTCTTCAAATTAATAACTTAAA
Found at i:210138 original size:12 final size:12
Alignment explanation
Indices: 210117--210150 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
210107 AATTAATAAA
*
210117 TAATAATAATAG
1 TAATAATAATAC
*
210129 TAATAGTAATAC
1 TAATAATAATAC
210141 TAATAATAAT
1 TAATAATAAT
210151 TAAATATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:218439 original size:40 final size:38
Alignment explanation
Indices: 218370--218467 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 38
218360 AATAATTATT
* *
218370 TTTTTATAAAATACATATTTAAAAATTATTTGATTAA-AAA
1 TTTTTA-AAAATATATATTTAAAAATTA-TT-AATAATAAA
* * *
218410 TTTTTAAAAATATATTTTTAAAATTTTATTAATAATAAT
1 TTTTTAAAAATATATATTTAAAA-ATTATTAATAATAAA
218449 TTTTTAAAAAATATATATT
1 TTTTT-AAAAATATATATT
218468 GATGGAGAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 4 0.08
39 24 0.49
40 21 0.43
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (38 bp):
TTTTTAAAAATATATATTTAAAAATTATTAATAATAAA
Found at i:218451 original size:23 final size:24
Alignment explanation
Indices: 218387--218458 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
218377 AAAATACATA
218387 TTTAAAAAT-TATTTGATTAAAAATT
1 TTTAAAAATATATTT--TTAAAAATT
*
218412 TTTAAAAATATATTTTTAAAATTT
1 TTTAAAAATATATTTTTAAAAATT
*
218436 TATTAATAATA-ATTTTTTAAAAA
1 T-TTAAAAATATA-TTTTTAAAAA
218459 ATATATATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.24
25 26 0.63
26 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
TTTAAAAATATATTTTTAAAAATT
Found at i:219501 original size:48 final size:48
Alignment explanation
Indices: 219449--219737 Score: 443
Period size: 48 Copynumber: 6.0 Consensus size: 48
219439 CTTCACGACG
* *
219449 GGAGGACTAGGGTATACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
1 GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
* *
219497 GGAGGACTCGGGTATACGGGAGGCTTTGGAGTTGGTGGTTTCACAATT
1 GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
*
219545 GGCGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
1 GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
*
219593 GGCGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
1 GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
* *
219641 GGCGGACTCGGGTAGACGGGAGGCTTTGGAGATGGTGGCTTCACAATT
1 GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
* * * *
219689 GGAGGGCTCGGATAGACGGGAGGCTTCAGTGGCGTTGGCGGCTTCACAA
1 GGAGGACTCGGGTAGACGGGAGGCTT---TGGAGTTGGTGGCTTCACAA
219738 CGGGTGGCTT
Statistics
Matches: 226, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
48 209 0.92
51 17 0.08
ACGTcount: A:0.18, C:0.16, G:0.41, T:0.25
Consensus pattern (48 bp):
GGAGGACTCGGGTAGACGGGAGGCTTTGGAGTTGGTGGCTTCACAATT
Found at i:220800 original size:21 final size:21
Alignment explanation
Indices: 220774--220816 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
220764 AAATACTTTT
*
220774 ATTTTTTATAATATT-TTATAA
1 ATTTTTAATAAT-TTATTATAA
220795 ATTTTTAATAATTTATTATAA
1 ATTTTTAATAATTTATTATAA
220816 A
1 A
220817 AAAATAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTAATAATTTATTATAA
Found at i:221646 original size:255 final size:249
Alignment explanation
Indices: 221095--221698 Score: 839
Period size: 255 Copynumber: 2.4 Consensus size: 249
221085 CTTATTCATA
* *
221095 TATTGAATAAAAATATTTTTTTATTATTTCGGGT----CCGG-TTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAATTCATATATT---GT
*
221155 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCG
63 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTC-GAT--GTTTTTTTAAGTGTGATATTCGGGTCG
* * *
221220 GGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATA
125 GGTCGAGTACGAGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATA
* * * *
221285 TTTAGGAATAATTACAATAATTCCCTCTATATATACTTTTTTTCAATTAAGTCATTGTTTT
190 TTTAGGAATAATTACAATAATCCCCTCTATATATAC-TATTTTCAATTAAATCACTGTTTT
*
221346 TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAGTTCATATA-T-TCGG
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAATTCATATATTGTCGG
* *
221409 GTCGGGTGAAACTTTATTTTGGTCGGGTCGAT-TTTTTTTAAGTGTGATATTCGGGTTGGGTCGG
66 GTCGGGTGAAACTTTATTTTGGTCGGGTCGATGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGA
221473 GTACGAGTTTAGGGTGAAAAATACTCGACCCGACCCGAACCAAAAAATATATAATTTTACCTTAT
131 GTACGAGTTTAGGGTG-AAAA-A-T--ACCCGACCCG----AAAAAATATATAATTTTACCTTAT
*
221538 ATATTTAGGAATAATTACAATAATACCCCTCTCTATATA-TATTTTCAATTAAATCACTGTTTT
187 ATATTTAGGAATAATTACAATAAT-CCCCTCTATATATACTATTTTCAATTAAATCACTGTTTT
221601 TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAATTCATATATTTGGGT
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAATTCATATA-TT--GT
221666 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCG
63 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCG
221699 GGTCTCGGAT
Statistics
Matches: 318, Mismatches: 15, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
247 44 0.14
248 4 0.01
249 1 0.00
250 3 0.01
251 66 0.21
252 10 0.03
255 82 0.26
256 61 0.19
257 13 0.04
260 34 0.11
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (249 bp):
TATTGAATAAAAATAATTTTTTATTATTTCGGGTAGGGTCGGATTTCTAATTCATATATTGTCGG
GTCGGGTGAAACTTTATTTTGGTCGGGTCGATGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGA
GTACGAGTTTAGGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGG
AATAATTACAATAATCCCCTCTATATATACTATTTTCAATTAAATCACTGTTTT
Found at i:222090 original size:17 final size:17
Alignment explanation
Indices: 222064--222110 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
222054 TATGGAATTG
222064 GATTCCAATTCCTGACA
1 GATTCCAATTCCTGACA
* *
222081 GATTCTAATTCCGGACA
1 GATTCCAATTCCTGACA
222098 GATTCCAATTCCT
1 GATTCCAATTCCT
222111 TCATAGATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (17 bp):
GATTCCAATTCCTGACA
Found at i:226566 original size:14 final size:13
Alignment explanation
Indices: 226536--226574 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
226526 ATTTTTTTTT
226536 AATTTTATTATTA
1 AATTTTATTATTA
*
226549 AATTTTATATATTG
1 AATTTTAT-TATTA
*
226563 AATTTTTTTATT
1 AATTTTATTATT
226575 CATTTCGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (13 bp):
AATTTTATTATTA
Found at i:227717 original size:31 final size:32
Alignment explanation
Indices: 227682--227744 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
227672 CAATACAGTT
*
227682 CCCC-AACATTTAGTCCGTTTGCAAAATGGTC
1 CCCCAAACATTTAGTCCATTTGCAAAATGGTC
* *
227713 CCCCAAACATTTAGTCTATTTGCAATATGGTC
1 CCCCAAACATTTAGTCCATTTGCAAAATGGTC
227745 TCCGACCGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (32 bp):
CCCCAAACATTTAGTCCATTTGCAAAATGGTC
Found at i:228199 original size:16 final size:16
Alignment explanation
Indices: 228178--228218 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
228168 TGCAAATCCA
228178 GGTACCCGGATTTTCG
1 GGTACCCGGATTTTCG
228194 GGTACCC-GATTTTCG
1 GGTACCCGGATTTTCG
228209 GGTACCCGGA
1 GGTACCCGGA
228219 ACTTCCGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.27
Consensus pattern (16 bp):
GGTACCCGGATTTTCG
Found at i:230396 original size:65 final size:64
Alignment explanation
Indices: 230256--230465 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 64
230246 TGCACTAAGA
* * *
230256 GTGCATCGATGCATCAAGTGCATTCGATGATTTAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCATGGCTG
* * *
230320 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTT-A-AAATAGCCACAGTGCATCGATGCATGGCT
*
230383 AT
64 -G
* * ** ** * *
230385 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATAGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAT-AGCCACAGTGCATCGATGCATGG-CT
230449 G
64 G
*
230450 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
230466 CTCTGAAAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 53 0.44
65 62 0.51
66 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:233107 original size:20 final size:20
Alignment explanation
Indices: 233082--233133 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
233072 ACCCGACGGA
*
233082 TGCATCGATGCATGACCCTG
1 TGCATCGATGCATGACCATG
*
233102 TGCATCGATGTATGACCATG
1 TGCATCGATGCATGACCATG
233122 TGCATCGATGCA
1 TGCATCGATGCA
233134 ATTCAAGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCATGACCATG
Found at i:233214 original size:20 final size:20
Alignment explanation
Indices: 233189--233241 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
233179 TTCAAAGGGA
233189 TGCATCGATGCATTGTTAAG
1 TGCATCGATGCATTGTTAAG
233209 TGCATCGATGCATTGTTAAG
1 TGCATCGATGCATTGTTAAG
*
233229 TGCATCGGTGCAT
1 TGCATCGATGCAT
233242 GAAGCATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (20 bp):
TGCATCGATGCATTGTTAAG
Found at i:240358 original size:19 final size:20
Alignment explanation
Indices: 240333--240386 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
240323 CTAGTCGGTA
*
240333 AAAAATAAATATATTAAATT
1 AAAAATAAATAAATTAAATT
240353 -AAAATAAATAAATTAAATT
1 AAAAATAAATAAATTAAATT
240372 AAAAATAAAATAAAT
1 AAAAAT-AAATAAAT
240387 ATTATCATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 18 0.58
20 5 0.16
21 8 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATAAATAAATTAAATT
Done.