Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 40
Found at i:2196594 original size:60 final size:60
Alignment explanation
Indices: 2196501--2196614 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
2196491 AATATATACA
* * **
2196501 TATAATTTGGAATGAAATTAAAATATTCAAAAAGTTTAGGGACTAATTTAAAATAAATGT
1 TATAATTTGGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAATAAATGT
*
2196561 TATAATTTGGGGATAAAACTAAAATATTC-AAAAGTTTAAAGACTAATTTAAAAT
1 TATAATTT-GGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAAT
2196615 GATAATTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 31 0.65
61 17 0.35
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.34
Consensus pattern (60 bp):
TATAATTTGGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAATAAATGT
Found at i:2196637 original size:60 final size:60
Alignment explanation
Indices: 2196501--2196640 Score: 142
Period size: 60 Copynumber: 2.3 Consensus size: 60
2196491 AATATATACA
* * * **
2196501 TATAA-TTTGGAATGAAATTAAAATATTCAAAAAGTTTAGGGACTAATTTAAAATAAATGT
1 TATAACTTAGGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAATAAA-GT
* * *
2196561 TATAATTTGGGGATAAAACTAAAATATTC-AAAAGTTTAAAGACTAATTTAAAATGATAA-T
1 TATAACTTAGGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAAT-A-AAGT
* *
2196621 TGTAGCTTAGGAATAAAACT
1 TATAACTTAGGAATAAAACT
2196641 GAGACATTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
60 44 0.67
61 20 0.30
62 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (60 bp):
TATAACTTAGGAATAAAACTAAAATATTCAAAAAGTTTAAAGACTAATTTAAAATAAAGT
Found at i:2200928 original size:38 final size:39
Alignment explanation
Indices: 2200871--2200946 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
2200861 ATGCGTAGGA
*
2200871 AACAGGATTATTTTGAAAATATCATTCTCAATATTGTTT
1 AACAAGATTATTTTGAAAATATCATTCTCAATATTGTTT
2200910 AACAAGATTA-TTTGAAAATATCATTCTCAATATTGTT
1 AACAAGATTATTTTGAAAATATCATTCTCAATATTGTT
2200947 GTTTGCTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (39 bp):
AACAAGATTATTTTGAAAATATCATTCTCAATATTGTTT
Found at i:2203321 original size:54 final size:54
Alignment explanation
Indices: 2203248--2203544 Score: 477
Period size: 54 Copynumber: 5.5 Consensus size: 54
2203238 TATATTTTGC
* * *
2203248 AATTACTGTATTGGTACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
* * *
2203302 AATTACCGTATTGGCACTATGTGTCCAACCTACGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
* *
2203356 AATTACCGTATCGACACTATGTATGCAACCTAAGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
*
2203410 AACTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
1 AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
* *
2203464 AATTACCGTATTGGCACTATGTGTGCAACCTAAATAATTCATAATGAGTTTGTG
1 AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
**
2203518 AATTACCGTATCAACACTATGTGTGCA
1 AATTACCGTATCGGCACTATGTGTGCA
2203545 TAATCACAAA
Statistics
Matches: 225, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 225 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (54 bp):
AATTACCGTATCGGCACTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTG
Found at i:2204429 original size:31 final size:31
Alignment explanation
Indices: 2204371--2204435 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
2204361 TCAATTCCCT
* * *
2204371 AGTGACTAAAACTTAATAAAATAATAACGTA
1 AGTGACCAAAACTTAATAAAACAATAACGCA
*
2204402 AGTGACCAAAACTTAATAAAACGATAACGCA
1 AGTGACCAAAACTTAATAAAACAATAACGCA
2204433 AGT
1 AGT
2204436 AGACAAACGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (31 bp):
AGTGACCAAAACTTAATAAAACAATAACGCA
Found at i:2204750 original size:18 final size:18
Alignment explanation
Indices: 2204724--2204758 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2204714 AAAAAAAATT
* *
2204724 AAAATTATATTTTTTTCA
1 AAAAATATAATTTTTTCA
2204742 AAAAATATAATTTTTTC
1 AAAAATATAATTTTTTC
2204759 TTGAATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAATATAATTTTTTCA
Found at i:2206282 original size:42 final size:41
Alignment explanation
Indices: 2206223--2206338 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 41
2206213 CCCGAATTCT
* *
2206223 CGTGTTTATTTCACGTAATTCGTTTTCTGAAAAATGTTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCTGAAAAAT-ATTTTC
* *
2206265 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCTGAAAAATATTTTC
*
2206306 CAGTGTTTGTTTCACGTAATTGGTTTTCCTGAA
1 C-GTGTTTGTTTCACGTAATTCGTTTT-CTGAA
2206339 CGTAATTCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 6 0.09
42 56 0.86
43 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (41 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCTGAAAAATATTTTC
Found at i:2206536 original size:17 final size:18
Alignment explanation
Indices: 2206516--2206565 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
2206506 ATCAAAATAT
2206516 TATTTATTAAT-TTATAA
1 TATTTATTAATATTATAA
*
2206533 TATTTA-TAATAATATAA
1 TATTTATTAATATTATAA
2206550 TATTT-TTAATATTATA
1 TATTTATTAATATTATA
2206566 TAAAATAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTATTAATATTATAA
Found at i:2206539 original size:9 final size:9
Alignment explanation
Indices: 2206516--2206568 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
2206506 ATCAAAATAT
*
2206516 TATTTATTA
1 TATTTATAA
2206525 -ATTTATAA
1 TATTTATAA
2206533 TATTTATAA
1 TATTTATAA
*
2206542 TA-ATATAA
1 TATTTATAA
*
2206550 TATTTTTAA
1 TATTTATAA
2206559 TATTATATAA
1 TATT-TATAA
2206569 AATAATCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.39
9 18 0.50
10 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTTATAA
Found at i:2206594 original size:29 final size:26
Alignment explanation
Indices: 2206525--2206685 Score: 70
Period size: 29 Copynumber: 6.0 Consensus size: 26
2206515 TTATTTATTA
*
2206525 ATTTATAATATTTATAATAATATAAT
1 ATTTATAATATATATAATAATATAAT
*
2206551 ATTTTTAATATTATATAA-AATAATCAATT
1 ATTTATAATA-TATATAATAAT-AT-AA-T
*
2206580 ATATTATAATATATA-AGATATTAT-AT
1 AT-TTATAATATATATA-ATAATATAAT
*
2206606 TTTTATTTTAATAATATATAATAA-A-AA-
1 ATTTA---TAAT-ATATATAATAATATAAT
2206633 ATTTAT-ATAT-T-TAATAATGAATAAT
1 ATTTATAATATATATAATAAT--ATAAT
* * * *
2206658 TTTTATATATTTAAATAATAATTTAAT
1 ATTTATA-ATATATATAATAATATAAT
2206685 A
1 A
2206686 AAGATATTTA
Statistics
Matches: 101, Mismatches: 12, Indels: 43
0.65 0.08 0.28
Matches are distributed among these distances:
20 6 0.06
21 1 0.01
22 2 0.02
23 3 0.03
24 3 0.03
25 8 0.08
26 14 0.14
27 20 0.20
28 9 0.09
29 25 0.25
30 10 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTTATAATATATATAATAATATAAT
Found at i:2206649 original size:23 final size:25
Alignment explanation
Indices: 2206623--2206679 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
2206613 TTAATAATAT
2206623 ATAATAA-AAAATTTATATATTT-A
1 ATAATAATAAAATTTATATATTTAA
**
2206646 ATAATGAATAATTTTTATATATTTAA
1 ATAAT-AATAAAATTTATATATTTAA
2206672 ATAATAAT
1 ATAATAAT
2206680 TTAATAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.17
24 2 0.07
25 16 0.55
26 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAATAATAAAATTTATATATTTAA
Found at i:2206707 original size:23 final size:22
Alignment explanation
Indices: 2206681--2206724 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2206671 AATAATAATT
2206681 TAATAAAGATATTTAAAATATAC
1 TAATAAAGAT-TTTAAAATATAC
* *
2206704 TAATTAATATTTTAAAATATA
1 TAATAAAGATTTTAAAATATA
2206725 ATATAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAC
Found at i:2206826 original size:29 final size:33
Alignment explanation
Indices: 2206763--2206833 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 33
2206753 TATAATATTT
*
2206763 ATAATATTTTTATTTCACTAAAATATACAAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAAA
*
2206796 ATAATATTTTTA-TT-AATAAAAT-TA-TAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAAA
*
2206825 ATACTATTT
1 ATAATATTT
2206834 AATAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.34
30 2 0.06
31 7 0.20
32 2 0.06
33 12 0.34
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (33 bp):
ATAATATTTTTATTTCAATAAAATATACAAAAA
Found at i:2206851 original size:19 final size:19
Alignment explanation
Indices: 2206829--2206891 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
2206819 ATAAAAATAC
2206829 TATTTAATAATAAATAAAT
1 TATTTAATAATAAATAAAT
*
2206848 TATTTTTAATAATAAA-AAAG
1 TA--TTTAATAATAAATAAAT
*
2206868 T-TTT-ATGATAAATAATAT
1 TATTTAATAATAAATAA-AT
2206886 TATTTA
1 TATTTA
2206892 TTGTATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
16 7 0.20
17 5 0.14
18 2 0.06
19 5 0.14
20 4 0.11
21 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTTAATAATAAATAAAT
Found at i:2207082 original size:20 final size:20
Alignment explanation
Indices: 2207045--2207083 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2207035 CCAGAAAACG
**
2207045 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
2207065 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
2207084 CAATAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:2207093 original size:15 final size:15
Alignment explanation
Indices: 2207073--2207123 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
2207063 CATTTTCCAG
*
2207073 AATTCAAATTCCAAT
1 AATTCAAATTCTAAT
2207088 AATTCAAATTCTAAT
1 AATTCAAATTCTAAT
*
2207103 AATTCAAATTCTAGT
1 AATTCAAATTCTAAT
2207118 AATTCA
1 AATTCA
2207124 TTTTTCGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (15 bp):
AATTCAAATTCTAAT
Found at i:2213237 original size:22 final size:24
Alignment explanation
Indices: 2213211--2213268 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 24
2213201 TATTTGTTCC
2213211 ATTTTTGTTTTATTT-ATATT--T
1 ATTTTTGTTTTATTTAATATTAAT
* *
2213232 AATTTTGTTTTTTTTAATATTAAT
1 ATTTTTGTTTTATTTAATATTAAT
*
2213256 ATTTTTATTTTAT
1 ATTTTTGTTTTAT
2213269 GCAATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 13 0.45
22 5 0.17
24 11 0.38
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (24 bp):
ATTTTTGTTTTATTTAATATTAAT
Found at i:2214296 original size:45 final size:45
Alignment explanation
Indices: 2214247--2214341 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
2214237 TAATTATATG
* ** *
2214247 TCTTTATATTGAAAGAATAAATTTGTTTGCTGTACATTATTTGTT
1 TCTTTAGATTGAAAGAATAAATTTGTGCGCTGTACATTATTTATT
* * * *
2214292 TCTTTAGATTTAAAGATTATATTTGTGCGTTGTACATTATTTATT
1 TCTTTAGATTGAAAGAATAAATTTGTGCGCTGTACATTATTTATT
2214337 TCTTT
1 TCTTT
2214342 TTATGTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (45 bp):
TCTTTAGATTGAAAGAATAAATTTGTGCGCTGTACATTATTTATT
Found at i:2219348 original size:11 final size:11
Alignment explanation
Indices: 2219332--2219378 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
2219322 CATGCATCAG
2219332 AAAAAAAAAGA
1 AAAAAAAAAGA
2219343 AAAAAAAAAGA
1 AAAAAAAAAGA
*
2219354 AAAAAAAGAGA
1 AAAAAAAAAGA
*
2219365 AAAGAGAAAAGA
1 AAA-AAAAAAGA
2219377 AA
1 AA
2219379 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:2220965 original size:51 final size:52
Alignment explanation
Indices: 2220883--2221017 Score: 193
Period size: 51 Copynumber: 2.6 Consensus size: 52
2220873 ATCTATCTGG
* *
2220883 GGCATCTTAAAGGCTCACATCAGCATGAAAAAGATACAAGTAATCCATGTG-
1 GGCATGTTAAAGGCTCACATCAGCATGAAAAAGACACAAGTAATCCATGTGA
* * *
2220934 GGTATTTTAAAGGCTCACATCAGCATGAAAAAGACAGAAGTAATCCATGTGA
1 GGCATGTTAAAGGCTCACATCAGCATGAAAAAGACACAAGTAATCCATGTGA
* *
2220986 GGCATGTTGAAGGCTCACACCAGCAT-AAAAAG
1 GGCATGTTAAAGGCTCACATCAGCATGAAAAAG
2221018 GTTGGGATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
51 53 0.71
52 22 0.29
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (52 bp):
GGCATGTTAAAGGCTCACATCAGCATGAAAAAGACACAAGTAATCCATGTGA
Found at i:2222506 original size:42 final size:42
Alignment explanation
Indices: 2222438--2222519 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
2222428 CACAAATTTG
* * *
2222438 TAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCT
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
2222480 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
2222520 ATAAGTCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
Found at i:2222566 original size:249 final size:249
Alignment explanation
Indices: 2222103--2223127 Score: 1737
Period size: 249 Copynumber: 4.1 Consensus size: 249
2222093 ACCAACCAAC
* * * *
2222103 AAGTTTCTCATTTAATCTTTTTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGT
1 AAGTTTCTCATTTAA--TGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGT
* * *
2222168 AAAGTATTTCCAACAAATTTGTAAATCTTTCGGGTCATTTGTTAGTCTTTCGAGCATGATGCTTA
64 AAAGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTA
* *
2222233 AAACCTTTGGGTCATCTGTCAGCCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGC
129 AAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGC
* **
2222298 CTTTGGGTAGGACGTTCACATATGATTTTCATATGAAAATGAGATAACGATTTCCA
194 CTTTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTCCA
* *
2222354 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAGGTAAAAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
2222419 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
2222484 ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
131 ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
* * ** *
2222549 TTGGGTAGGATGTTCACATATGATTTTTGCATGAAAATAAGATAGTGATTTTCA
196 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTCCA
*
2222603 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAGGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
*
2222668 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTTGTCTTTCGAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
2222733 ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
131 ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
*
2222798 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTTCA
196 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTCCA
2222852 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
*
2222917 AGTAATTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
* * * * * *
2222982 ACCTCCAGGTTATCTGTCAGTCTTTTGAGCAAGATAATAAGTCCTTAAGGCCATCCGTAAAGCCT
131 ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
* *
2223047 TTGGGTA-GATGTTCACATATGATTTTCGCATGAAAATGAGAAAACGATTACCA
196 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTCCA
*
2223100 AAGTTTCTTATTTAATGTTCTAGAAAAT
1 AAGTTTCTCATTTAATGTTCTAGAAAAT
2223128 TAAAACCTCC
Statistics
Matches: 736, Mismatches: 38, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
248 70 0.10
249 651 0.88
251 15 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (249 bp):
AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
ACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTCCA
Found at i:2222756 original size:42 final size:42
Alignment explanation
Indices: 2222687--2222768 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
2222677 CACAAATTTG
* ** *
2222687 TAAATCCTTCGGGTCATCTGTTTGTCTTTCGAGCATGATGCT
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
2222729 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
2222769 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
Found at i:2223267 original size:48 final size:47
Alignment explanation
Indices: 2223149--2223334 Score: 293
Period size: 47 Copynumber: 4.0 Consensus size: 47
2223139 GGTAATTTGT
* * *
2223149 AAAA-CCTTCGGGTCATCCATAAGACCTTCAGTGCAGGGTGTTATCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTTA
* *
2223195 GAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGAATGTTTTTTA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATG-TTTTTA
*
2223243 AAAAGCCTTCGGGTCATGCATAAGACCTTCAGTGCAGGATGTTTTTA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTTA
*
2223290 AAAAGCCTTCGGGTCATCCATAAGTCCTTCAGTGCAGGATGTTTT
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTT
2223335 CAAATGAGAT
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
46 3 0.02
47 83 0.65
48 42 0.33
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (47 bp):
AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTTA
Found at i:2223319 original size:95 final size:94
Alignment explanation
Indices: 2223149--2223334 Score: 300
Period size: 95 Copynumber: 2.0 Consensus size: 94
2223139 GGTAATTTGT
* *
2223149 AAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGGTGTTATCAGAAAGCCTTCGGGTCATCC
1 AAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTATCAAAAAGCCTTCGGGTCATCC
2223214 ATAAGACCTTCAGTGCAGAATGTTTTTTA
66 ATAAGACCTTCAGTGCAGAATGTTTTTTA
* * *
2223243 AAAAGCCTTCGGGTCATGCATAAGACCTTCAGTGCAGGATGTTTTTAAAAAGCCTTCGGGTCATC
1 AAAA-CCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTATCAAAAAGCCTTCGGGTCATC
* *
2223308 CATAAGTCCTTCAGTGCAGGATGTTTT
65 CATAAGACCTTCAGTGCAGAATGTTTT
2223335 CAAATGAGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 4 0.05
95 80 0.95
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (94 bp):
AAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTATCAAAAAGCCTTCGGGTCATCC
ATAAGACCTTCAGTGCAGAATGTTTTTTA
Found at i:2224689 original size:20 final size:21
Alignment explanation
Indices: 2224645--2224689 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
2224635 CTATATTTTT
2224645 ATTTTCTTTTATTTTGATATC
1 ATTTTCTTTTATTTTGATATC
2224666 -TTTTC-TTTATTTT-ATTATC
1 ATTTTCTTTTATTTTGA-TATC
2224685 ATTTT
1 ATTTT
2224690 AGTCATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 9 0.41
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTTCTTTTATTTTGATATC
Found at i:2224906 original size:24 final size:23
Alignment explanation
Indices: 2224862--2224907 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2224852 TATATTTAAG
**
2224862 TTTTTATTTTTTTAATATTAATA
1 TTTTTATTTTTGCAATATTAATA
*
2224885 TTTTTATTTTATGCAATTTTAAT
1 TTTTTATTTT-TGCAATATTAAT
2224908 TTAAGAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTATTTTTGCAATATTAATA
Found at i:2227806 original size:3 final size:3
Alignment explanation
Indices: 2227798--2227841 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2227788 ATTTATTTTG
2227798 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2227842 TGATAGTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2228254 original size:137 final size:137
Alignment explanation
Indices: 2228007--2228324 Score: 521
Period size: 137 Copynumber: 2.3 Consensus size: 137
2227997 CAACTGGTGT
* * * *
2228007 ATGACATTGTGCCTTCGCGATGAGGACGTCTGGCCATCTTTGAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * * *
2228072 CCTTCATGATGAGGACGTCTGGTTATCTGAGGATGACTCAGCTCCTACGTGATGAGGAGTTCTGG
66 CCTTCATAATGAGGACGTCTGGTTATCTAAAGATGACACAGCTCCTACGTGATGAGGAGTTCTGG
2228137 TCAGTGG
131 TCAGTGG
* *
2228144 ATGACATTGTTCCTTCGTGATAAGGACGTCTAGTCATCTTTAAAGATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
*
2228209 CCTTCGTAATGAGGACGTCTGGTTATCTAAAGATGACAC-GACTCCTACGTGATGAGGAGTTCTG
66 CCTTCATAATGAGGACGTCTGGTTATCTAAAGATGACACAG-CTCCTACGTGATGAGGAGTTCTG
2228273 GTCAGTGG
130 GTCAGTGG
2228281 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAA
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAA
2228325 ATTAAGGGAT
Statistics
Matches: 167, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
136 1 0.01
137 166 0.99
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (137 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
CCTTCATAATGAGGACGTCTGGTTATCTAAAGATGACACAGCTCCTACGTGATGAGGAGTTCTGG
TCAGTGG
Found at i:2232285 original size:17 final size:17
Alignment explanation
Indices: 2232265--2232299 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2232255 TTCAATACAA
2232265 TGTTATATTGCTAGAAC
1 TGTTATATTGCTAGAAC
2232282 TGTTATATTGCTAGAAC
1 TGTTATATTGCTAGAAC
2232299 T
1 T
2232300 TTTGGTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (17 bp):
TGTTATATTGCTAGAAC
Found at i:2239792 original size:65 final size:65
Alignment explanation
Indices: 2239717--2239839 Score: 194
Period size: 65 Copynumber: 1.9 Consensus size: 65
2239707 TTTCGAATGC
*
2239717 ATTTTGTGTACCGATGCACA-AGACATGCATCGATGCACTCTTGAATATTTTGAAACATTGAATT
1 ATTTTGTGTACCGATGCACATA-ACATGCATCGATGCACTCCTGAATATTTTGAAACATTGAATT
2239781 G
65 G
* **
2239782 ATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCTGGCTATTTTGAAACAT
1 ATTTTGTGTACCGATGCACATAACATGCATCGATGCACTCCTGAATATTTTGAAACAT
2239840 CAAATGCAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (65 bp):
ATTTTGTGTACCGATGCACATAACATGCATCGATGCACTCCTGAATATTTTGAAACATTGAATTG
Found at i:2240168 original size:17 final size:18
Alignment explanation
Indices: 2240146--2240188 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2240136 AGTTTGAGCT
*
2240146 ATTCAAGCTT-ATTTTTC
1 ATTCAAGATTCATTTTTC
*
2240163 ATTCAATATTCATTTTTC
1 ATTCAAGATTCATTTTTC
*
2240181 TTTCAAGA
1 ATTCAAGA
2240189 ACACCATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTCAAGATTCATTTTTC
Found at i:2241989 original size:25 final size:26
Alignment explanation
Indices: 2241927--2241990 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 26
2241917 ATGCATTTCC
*
2241927 TTTTTTACTT-TAGTATATATTTTTAT
1 TTTTTTA-TTATAGTATATATTATTAT
2241953 TTTTTTAGATTATA-TATATATATATTA-
1 TTTTTT--ATTATAGTATATAT-TATTAT
2241980 TTTTTTATTAT
1 TTTTTTATTAT
2241991 CAGTTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 15 0.45
28 7 0.21
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTTTATTATAGTATATATTATTAT
Found at i:2242011 original size:42 final size:40
Alignment explanation
Indices: 2241952--2242068 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 40
2241942 TATATTTTTA
*
2241952 TTTTTTTAGATTATATATATATATATTATTTTTTATTATCAG
1 TTTTATTA-ATTATATATATATATATTATTTTTT-TTATCAG
* ***
2241994 TTTTATTAATTTATATATATATATATTAACTATTTTTTATTTT
1 TTTTATTAA-TTATATATATATATATT-A-TTTTTTTTATCAG
* *
2242037 TTTTATTTATTATATATATATATATTGTTTTT
1 TTTTATTAATTATATATATATATATTATTTTT
2242069 ACTTTTTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.06
41 1 0.02
42 41 0.64
43 13 0.20
44 5 0.08
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (40 bp):
TTTTATTAATTATATATATATATATTATTTTTTTTATCAG
Found at i:2242085 original size:42 final size:42
Alignment explanation
Indices: 2241962--2242086 Score: 113
Period size: 42 Copynumber: 3.0 Consensus size: 42
2241952 TTTTTTTAGA
*
2241962 TTATATATATATATATTATTTTTTATTA-TCAGTTTTATTA--AT
1 TTATATATATATATATTATTATTT-TTACT-A-TTTTATTATTAT
*
2242004 TTATATATATATATATTAACTATTTTT--TATTTT-TT-TTAT
1 TTATATATATATATATT-ATTATTTTTACTATTTTATTATTAT
* *
2242043 TTAT-TATATATATATATATTGTTTTTACTTTTTTATTATTAT
1 TTATATATATATATAT-TATTATTTTTACTATTTTATTATTAT
2242085 TT
1 TT
2242087 TATTTATTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
38 20 0.29
39 11 0.16
40 6 0.09
41 3 0.04
42 25 0.36
43 5 0.07
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (42 bp):
TTATATATATATATATTATTATTTTTACTATTTTATTATTAT
Found at i:2242101 original size:32 final size:36
Alignment explanation
Indices: 2241946--2242100 Score: 97
Period size: 42 Copynumber: 4.1 Consensus size: 36
2241936 TTAGTATATA
* * *
2241946 TTTTTATTTTTTTAGATTA-TATATATATATATTATTT
1 TTTTTACTTTTTTA-TTTATTATATATATATA-TATTG
2241983 TTTATTATCAGTTTTATTAATTTA-TATATATATATATTAACTAT-
1 TTT-TTA-C--TTTT-TT-ATTTATTATATATATATA-T-A-T-TG
*
2242027 TTTTTATTTTTTTTATTTATTATATATATATATATTG
1 TTTTTA-CTTTTTTATTTATTATATATATATATATTG
* *
2242064 TTTTTACTTTTTTA-TTATTAT-TTTATTTAT-TTG
1 TTTTTACTTTTTTATTTATTATATATATATATATTG
2242097 TTTT
1 TTTT
2242101 ATTTATATAT
Statistics
Matches: 101, Mismatches: 6, Indels: 26
0.76 0.05 0.20
Matches are distributed among these distances:
33 7 0.07
34 7 0.07
35 7 0.07
36 8 0.08
37 10 0.10
38 4 0.04
39 6 0.06
40 14 0.14
41 8 0.08
42 19 0.19
43 6 0.06
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (36 bp):
TTTTTACTTTTTTATTTATTATATATATATATATTG
Found at i:2242142 original size:51 final size:48
Alignment explanation
Indices: 2241994--2242146 Score: 133
Period size: 49 Copynumber: 3.2 Consensus size: 48
2241984 TTATTATCAG
* * *
2241994 TTTTATTAATTTATATATATATATA-----TTAACTATTTTTTATTTT
1 TTTTATTTATTTATATATATATATATTGTTTTTACTTTTTTTTATTTT
*
2242037 TTTTATTTA-TTATATATATATATATTGTTTTTACTTTTTTATTA-TTA
1 TTTTATTTATTTATATATATATATATTGTTTTTACTTTTTT-TTATTTT
* * * *
2242084 TTTTATTTATTTGTTTTATTTATATATT-TTTTCTTCTTTTTCTTTATTTT
1 TTTTATTTATTT-ATATATATATATATTGTTTT-TACTTTTT-TTTATTTT
2242134 TTTATATTTATTT
1 TTT-TATTTATTT
2242147 TACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
42 15 0.17
43 8 0.09
47 20 0.22
48 9 0.10
49 22 0.25
50 6 0.07
51 9 0.10
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (48 bp):
TTTTATTTATTTATATATATATATATTGTTTTTACTTTTTTTTATTTT
Found at i:2242158 original size:46 final size:46
Alignment explanation
Indices: 2242081--2242190 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 46
2242071 TTTTTTATTA
* * *
2242081 TTATTTTATTTATTTGTTTTATTTATATATTTTTTCTTCT-TTTTCT
1 TTATTTTATTTATTTATTTTACTTATATATTTTATCTT-TGTTTTCT
* *
2242127 TTATTTTTTTATATTTATTTTACTTA-CTATTTTATCTTTGTTTTCT
1 TTATTTTATT-TATTTATTTTACTTATATATTTTATCTTTGTTTTCT
* *
2242173 TTATCTTATCT-TTTATTT
1 TTATTTTATTTATTTATTT
2242191 AATTTGTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
44 7 0.13
45 2 0.04
46 32 0.59
47 13 0.24
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (46 bp):
TTATTTTATTTATTTATTTTACTTATATATTTTATCTTTGTTTTCT
Found at i:2245296 original size:14 final size:12
Alignment explanation
Indices: 2245272--2245318 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 12
2245262 AGATTTAATC
2245272 AAAACAAAAAGAG
1 AAAA-AAAAAGAG
2245285 AAAAAATCAAAGAG
1 AAAAAA--AAAGAG
2245299 AAAATAAAAAGAG
1 AAAA-AAAAAGAG
2245312 AAAAAAA
1 AAAAAAA
2245319 TAAAGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.16
13 14 0.45
14 10 0.32
15 2 0.06
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:2245302 original size:13 final size:14
Alignment explanation
Indices: 2245272--2245328 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
2245262 AGATTTAATC
*
2245272 AAAACAAAAAGAGA
1 AAAATAAAAAGAGA
*
2245286 AAAA-ATCAAAGAG-
1 AAAATA-AAAAGAGA
2245299 AAAATAAAAAGAGA
1 AAAATAAAAAGAGA
2245313 AAAA-AATAAAG-GA
1 AAAATAA-AAAGAGA
2245326 AAA
1 AAA
2245329 TTTAAGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 18 0.49
14 19 0.51
ACGTcount: A:0.77, C:0.04, G:0.14, T:0.05
Consensus pattern (14 bp):
AAAATAAAAAGAGA
Found at i:2245310 original size:27 final size:26
Alignment explanation
Indices: 2245272--2245329 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
2245262 AGATTTAATC
*
2245272 AAAACAAAAAGAG-AAAAAATCAAAGAG
1 AAAATAAAAAGAGAAAAAAAT-AAAG-G
2245299 AAAATAAAAAGAGAAAAAAATAAAGG
1 AAAATAAAAAGAGAAAAAAATAAAGG
2245325 AAAAT
1 AAAAT
2245330 TTAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 16 0.55
28 7 0.24
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (26 bp):
AAAATAAAAAGAGAAAAAAATAAAGG
Found at i:2245323 original size:14 final size:14
Alignment explanation
Indices: 2245279--2245328 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
2245269 ATCAAAACAA
2245279 AAAGAG-AAAAAAT
1 AAAGAGAAAAAAAT
*
2245292 CAAAGAGAAAATAA-
1 -AAAGAGAAAAAAAT
2245306 AAAGAGAAAAAAAT
1 AAAGAGAAAAAAAT
2245320 AAAG-GAAAA
1 AAAGAGAAAA
2245329 TTTAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 17 0.53
14 10 0.31
15 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (14 bp):
AAAGAGAAAAAAAT
Found at i:2245519 original size:69 final size:69
Alignment explanation
Indices: 2245401--2245538 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
2245391 GATTCAAACT
* * *
2245401 ATGAGATTGATTAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
2245466 TCAA
66 TCAA
* * * *
2245470 ATGAGATTGATCAAGCACAATCATTTCTAAATTACTGAATCACTCCACTCGAAGATCATGGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
2245535 TCAA
66 TCAA
2245539 GAGAGAGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:2246499 original size:32 final size:31
Alignment explanation
Indices: 2246462--2246577 Score: 133
Period size: 32 Copynumber: 3.6 Consensus size: 31
2246452 AGAACAATGA
2246462 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTG-AGATTCAACATCAAATGTTG
* * *
2246494 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCA-TCTTTGAGATTCAACATCAAATGTTG
* * *
2246526 GGGCATTTTTTGAGATTCAACATCGAATATTG
1 GGGCA-TCTTTGAGATTCAACATCAAATGTTG
*
2246558 GGGCATCTTTGGGAATTCAA
1 GGGCATCTTTGAG-ATTCAA
2246578 TATCCTGATG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 6 0.08
32 63 0.86
33 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (31 bp):
GGGCATCTTTGAGATTCAACATCAAATGTTG
Found at i:2247287 original size:106 final size:106
Alignment explanation
Indices: 2247159--2247480 Score: 455
Period size: 106 Copynumber: 3.0 Consensus size: 106
2247149 ATATCGTGCC
* * * * *
2247159 ACTCAAGACAACACAAGTTCAACTCCACAACGAAGGGATGACTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2247224 AATTTTAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
2247265 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
2247330 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
* * * * * **
2247371 ACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * * *
2247436 AGTTCCAGAGCCAATTTTAACTTCACGGTGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
2247477 ACTC
1 ACTC
2247481 AGAACAATAC
Statistics
Matches: 193, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 193 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
Found at i:2247924 original size:37 final size:37
Alignment explanation
Indices: 2247849--2247935 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
2247839 ATTGAAAACA
* * * **
2247849 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
2247885 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
2247922 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
2247936 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:2247936 original size:87 final size:87
Alignment explanation
Indices: 2247738--2247916 Score: 322
Period size: 87 Copynumber: 2.1 Consensus size: 87
2247728 GACAGTTTAT
*
2247738 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
2247803 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* * *
2247825 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
2247890 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
2247912 CTTGA
1 CTTGA
2247917 GACAGTTTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:2247936 original size:102 final size:102
Alignment explanation
Indices: 2247825--2248064 Score: 356
Period size: 102 Copynumber: 2.4 Consensus size: 102
2247815 TTTTGTCTCC
* *
2247825 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
2247890 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * * * * **
2247927 CTTGAAACATAAACATTGAAAACATTTCCTTTAAAATTAATTTTGTCTCTCTTTAGATAGTTTTT
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
2247992 CTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
*
2248029 CTTGAAACATAAACCA-TGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAA-CATTGAAAACATTTCCCTTGAAA
2248065 CACAAAATAT
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
102 121 0.98
103 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:2248022 original size:37 final size:37
Alignment explanation
Indices: 2247965--2248037 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
2247955 CTTTAAAATT
* * *
2247965 AATTTTGTCTCTCTTTAGATAGTTTTTCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAA
2248002 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
2248038 TAAACCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAA
Found at i:2248278 original size:36 final size:36
Alignment explanation
Indices: 2248183--2248298 Score: 137
Period size: 36 Copynumber: 3.2 Consensus size: 36
2248173 TATCTTTTCC
* * *
2248183 TTGAAACAAATTTCGTCTCCT-TTGAGATAGTTTCTT
1 TTGAAACTAATTTTGTC-CCTCTTGAGACAGTTTCTT
* *
2248219 TTAAAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGAAACTAA-TTTTGTCCCTCTTGAGACAGTTTCTT
*
2248256 TTGAAA-TGAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACT-AATTTTGTCCCTCTTGAGACAGTTTCTT
2248292 TTGAAAC
1 TTGAAAC
2248299 ACAAAAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
36 41 0.60
37 27 0.40
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (36 bp):
TTGAAACTAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:2248327 original size:37 final size:39
Alignment explanation
Indices: 2248285--2248376 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
2248275 TCTTGAGACA
*
2248285 GTTTCTCTTGAAACACA-A-AAAAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACACACAAAAAAAACCCTCGAAAAT
* * *
2248322 GTTTCTCTTGAAACACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACACAAAAAAAACCCTCGAAAAT
*
2248361 ATTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
2248377 CAAACCCTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 17 0.35
38 1 0.02
39 30 0.62
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (39 bp):
GTTTCTCTTGAAACACACACAAAAAAAACCCTCGAAAAT
Found at i:2249626 original size:39 final size:37
Alignment explanation
Indices: 2249509--2249636 Score: 123
Period size: 43 Copynumber: 3.2 Consensus size: 37
2249499 TTTACTTTAG
* ** * *
2249509 TATATATTTTTATTTTTTTAGATTATATATATATATA
1 TATATATTTATATTTTTTTATTTTTTATTTATATATA
2249546 TATATATATTAT-TTTTATTATCAGTTTTATTAATTTATATATA
1 TATATAT-TTATATTTT-TT-T-A-TTTT-TT-ATTTATATATA
2249589 TATATATTTACTATTTTTTTATTTTTTATTTATTATATA
1 TATATATTTA-TATTTTTTTATTTTTTATTTA-TATATA
2249628 TATATATTT
1 TATATATTT
2249637 CCCTTTAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
37 11 0.14
38 10 0.13
39 18 0.24
40 5 0.07
41 3 0.04
42 5 0.07
43 20 0.26
44 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (37 bp):
TATATATTTATATTTTTTTATTTTTTATTTATATATA
Found at i:2252235 original size:28 final size:28
Alignment explanation
Indices: 2252203--2252274 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
2252193 TCCTTAAGGA
*
2252203 GTGGTCATTCGGGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
*
2252231 GTGGTCCTTCGAGACATATGTGTTATAT
1 GTGGTCCTTCGGGACATATGTGTTATAT
*
2252259 GTGGTCCTTTGGGACA
1 GTGGTCCTTCGGGACA
2252275 AATCATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (28 bp):
GTGGTCCTTCGGGACATATGTGTTATAT
Found at i:2253193 original size:15 final size:14
Alignment explanation
Indices: 2253171--2253206 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
2253161 TAATTTTCTT
2253171 TTCTTTTCTTTTTA
1 TTCTTTTCTTTTTA
2253185 TTCTATTTCTTTTTA
1 TTCT-TTTCTTTTTA
2253200 TTCTTTT
1 TTCTTTT
2253207 TTTAATCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTTTTA
Found at i:2253273 original size:17 final size:17
Alignment explanation
Indices: 2253251--2253284 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2253241 CTTTTAATTG
2253251 ATTTTTAATTTAATTTA
1 ATTTTTAATTTAATTTA
* *
2253268 ATTTTTATTTTATTTTA
1 ATTTTTAATTTAATTTA
2253285 TTTATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTAATTTA
Found at i:2253357 original size:67 final size:64
Alignment explanation
Indices: 2253215--2253372 Score: 151
Period size: 69 Copynumber: 2.4 Consensus size: 64
2253205 TTTTTAATCC
** **
2253215 TTTTTTA-T-TTTTTATTTCTTTTTCTTCTTTTAATTGATTTTTAATTTAATTTAATTTTTATT
1 TTTTTTATTATTTTTATTTCTTTTTCTTCTTTTAATTGATTTTTAATTTAAGCTAATTTTTAGG
* * *
2253277 TTATTTTATTTATTTTTATTTCTGTTTTCTTCTTTTTGAATTGTTTTTTAATTTTAGCTAGTTTT
1 TT-TTTTA-TTATTTTTATTTCT-TTTTCTTC-TTTT-AATTGATTTTTAATTTAAGCTAATTTT
2253342 CT-GG
61 -TAGG
2253346 TTTTTTATTATTTCATTTATTTCTTTT
1 TTTTTTATTA-TT--TTTATTTCTTTT
2253373 AAACTAAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
62 2 0.03
63 5 0.06
65 1 0.01
66 11 0.14
67 11 0.14
68 11 0.14
69 27 0.35
70 10 0.13
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.72
Consensus pattern (64 bp):
TTTTTTATTATTTTTATTTCTTTTTCTTCTTTTAATTGATTTTTAATTTAAGCTAATTTTTAGG
Found at i:2258043 original size:51 final size:51
Alignment explanation
Indices: 2257984--2258084 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
2257974 TTCAGGGGAG
* *
2257984 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
2258035 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
2258085 CCTTTCCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
Found at i:2260330 original size:14 final size:14
Alignment explanation
Indices: 2260311--2260338 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2260301 TAACAGACTT
2260311 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
2260325 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
2260339 AATGCAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:2263741 original size:28 final size:28
Alignment explanation
Indices: 2263688--2263742 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
2263678 GATGATGTTA
2263688 ACATAATTTTTTATTTTTTTCCAATTTCT
1 ACATAATTTTTTATTTTTTT-CAATTTCT
2263717 ACATAATTTTTTATTCTTTTT-AATTT
1 ACATAATTTTTTATT-TTTTTCAATTT
2263743 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.20
29 15 0.60
30 5 0.20
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (28 bp):
ACATAATTTTTTATTTTTTTCAATTTCT
Found at i:2263836 original size:32 final size:31
Alignment explanation
Indices: 2263800--2263859 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
2263790 AATAAAATTG
2263800 AATTAAAAATAA-TAAAAGAATAATTATATGAA
1 AATTAAAAATAATTAAAA-AAT-ATTATATGAA
2263832 AATTAAAAATAATTAAAAAATATTATAT
1 AATTAAAAATAATTAAAAAATATTATAT
2263860 TAGTATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 7 0.26
32 15 0.56
33 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
AATTAAAAATAATTAAAAAATATTATATGAA
Found at i:2269239 original size:21 final size:21
Alignment explanation
Indices: 2269214--2269258 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2269204 TAATGTGTTA
2269214 TAATTATTATATTTATAATTT
1 TAATTATTATATTTATAATTT
2269235 TAATTATTATATTTATAATTT
1 TAATTATTATATTTATAATTT
2269256 TAA
1 TAA
2269259 GTAAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATTATTATATTTATAATTT
Found at i:2269946 original size:2 final size:2
Alignment explanation
Indices: 2269939--2269990 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2269929 ATAATTTATT
2269939 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2269981 TA TA TA TA TA
1 TA TA TA TA TA
2269991 AAATTTGTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2270789 original size:19 final size:19
Alignment explanation
Indices: 2270765--2270815 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
2270755 ACCAACTAAA
2270765 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
2270784 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
2270803 TCGCAATGCGATC
1 TCGCAATGCGATC
2270816 TCCGGTATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (19 bp):
TCGCAATGCGATCGATAAT
Found at i:2271570 original size:20 final size:20
Alignment explanation
Indices: 2271545--2271598 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2271535 TGAAACCGAG
2271545 AATGACTATCGCAATGCGAA
1 AATGACTATCGCAATGCGAA
2271565 AATGACTATCGCAATGCGAA
1 AATGACTATCGCAATGCGAA
**
2271585 TTTGACTATCGCAA
1 AATGACTATCGCAA
2271599 CAAGAGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
AATGACTATCGCAATGCGAA
Found at i:2271667 original size:20 final size:20
Alignment explanation
Indices: 2271642--2271691 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2271632 TGCGATTCTT
2271642 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
2271662 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
2271682 GTGTTGCGAT
1 GCGTTGCGAT
2271692 TTAAAGTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:2273607 original size:20 final size:20
Alignment explanation
Indices: 2273582--2273653 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
2273572 CAACGAGAGA
2273582 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
2273602 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
2273622 ATTGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
2273642 ATCGCATTGCGA
1 ATCGCAATGCGA
2273654 TAGTCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:2273729 original size:33 final size:34
Alignment explanation
Indices: 2273667--2273752 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 34
2273657 TCATTTTCGC
* * * * * *
2273667 GTCATTTTCGCGTTGCGATTTTGTTGTTGCAATT
1 GTCAATTTCGCATTGCGATTCTCTCGTTGCAATA
* *
2273701 TTC-ATTTCGCATTGCGATTCTCTCGTTGCGATA
1 GTCAATTTCGCATTGCGATTCTCTCGTTGCAATA
*
2273734 GTCAAATTCGCATTGCGAT
1 GTCAATTTCGCATTGCGAT
2273753 AGTCATTTTC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 25 0.61
34 16 0.39
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (34 bp):
GTCAATTTCGCATTGCGATTCTCTCGTTGCAATA
Found at i:2273751 original size:20 final size:20
Alignment explanation
Indices: 2273726--2273812 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
2273716 GATTCTCTCG
**
2273726 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
2273746 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
2273766 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
2273786 TTGCGATAGTCATTTTCGCT
1 TTGCGATAGTCATTTTCGCA
2273806 TTGCGAT
1 TTGCGAT
2273813 TTTAAGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:2274338 original size:18 final size:20
Alignment explanation
Indices: 2274297--2274341 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
2274287 ACTCACTTGT
2274297 TATCATTCAAGAGGCCTTCCC
1 TATCATTCAAGAGGCC-TCCC
2274318 TATCATTCAAGAGG-C-CCC
1 TATCATTCAAGAGGCCTCCC
2274336 TATCAT
1 TATCAT
2274342 CCCTCAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.38
20 1 0.04
21 14 0.58
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (20 bp):
TATCATTCAAGAGGCCTCCC
Found at i:2274348 original size:21 final size:22
Alignment explanation
Indices: 2274324--2274383 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
2274314 TCCCTATCAT
2274324 TCAAGAGGCCCCTATCATCC-C
1 TCAAGAGGCCCCTATCATCCGC
* ** *
2274345 TCAAGAGTCCCCTCCCA-CCGT
1 TCAAGAGGCCCCTATCATCCGC
*
2274366 TCAAGAGGCCACTATCAT
1 TCAAGAGGCCCCTATCAT
2274384 TGTTGAAGAG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.20
Consensus pattern (22 bp):
TCAAGAGGCCCCTATCATCCGC
Found at i:2274393 original size:42 final size:42
Alignment explanation
Indices: 2274323--2274403 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
2274313 TTCCCTATCA
*
2274323 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
*** *
2274365 TTCAAGAGGCCACTATCATTGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
2274404 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:2275775 original size:14 final size:14
Alignment explanation
Indices: 2275756--2275791 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2275746 ATTGTTTAAT
2275756 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2275770 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2275784 TGATTTGT
1 TGATTTGT
2275792 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2275974 original size:20 final size:20
Alignment explanation
Indices: 2275949--2276053 Score: 158
Period size: 20 Copynumber: 5.2 Consensus size: 20
2275939 TTCTCTCATG
2275949 GCGATAGTCATTTCCGCATT
1 GCGATAGTCATTTCCGCATT
2275969 GCGATAGTCATTTCCGCATT
1 GCGATAGTCATTTCCGCATT
2275989 GCGATAGTCATTTCCGCATT
1 GCGATAGTCATTTCCGCATT
* **
2276009 GCGATAGTCATTTTCGTGTT
1 GCGATAGTCATTTCCGCATT
*
2276029 GCGATAGTCATATT-CGCGTT
1 GCGATAGTCAT-TTCCGCATT
2276049 GCGAT
1 GCGAT
2276054 TTCCGCGTTG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
20 78 0.98
21 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (20 bp):
GCGATAGTCATTTCCGCATT
Found at i:2278520 original size:24 final size:24
Alignment explanation
Indices: 2278486--2278539 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2278476 CTGAAAAATC
2278486 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2278510 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2278534 ATCAAA
1 ATCAAA
2278540 TTTCAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2279540 original size:20 final size:20
Alignment explanation
Indices: 2279401--2279547 Score: 224
Period size: 20 Copynumber: 7.3 Consensus size: 20
2279391 CAGAATCTCG
2279401 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
2279421 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
2279441 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
2279461 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
2279481 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
2279501 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
2279522 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
2279542 TTGCGA
1 TTGCGA
2279548 ATTAGGAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.01
20 99 0.86
21 15 0.13
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:2279568 original size:21 final size:21
Alignment explanation
Indices: 2279544--2279589 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2279534 TATTCGCATT
2279544 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
2279565 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
2279586 GCGA
1 GCGA
2279590 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2297433 original size:31 final size:31
Alignment explanation
Indices: 2297383--2297456 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
2297373 TCAGTATTTA
2297383 TTATTTA-TTTAATTTATTTGAAAGAATTAT
1 TTATTTATTTTAATTTATTTGAAAGAATTAT
*
2297413 TTATTTATTTTATTTTATTTGAAAGAATTAT
1 TTATTTATTTTAATTTATTTGAAAGAATTAT
2297444 TTATTTATTTTAA
1 TTATTTATTTTAA
2297457 GATTTAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 7 0.17
31 34 0.83
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TTATTTATTTTAATTTATTTGAAAGAATTAT
Found at i:2297725 original size:33 final size:33
Alignment explanation
Indices: 2297683--2297748 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
2297673 TGATAGTTCA
*
2297683 AAATATCATGCTTGCTAAGCATTTACGCTCAAG
1 AAATATCATGCTTGCTAAGCATCTACGCTCAAG
*
2297716 AAATATCATGCTTGCTAAGCATCTAGGCTCAAG
1 AAATATCATGCTTGCTAAGCATCTACGCTCAAG
2297749 TCAAGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (33 bp):
AAATATCATGCTTGCTAAGCATCTACGCTCAAG
Found at i:2299468 original size:25 final size:25
Alignment explanation
Indices: 2299435--2299483 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2299425 TTCTATTGCG
*
2299435 GCGTTTGTAAAAAAACGCTGCTAAT
1 GCGTTTGTAAAAAAACGCCGCTAAT
*
2299460 GCGTTTGTATAAAAACGCCGCTAA
1 GCGTTTGTAAAAAAACGCCGCTAA
2299484 GGTACTACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
GCGTTTGTAAAAAAACGCCGCTAAT
Found at i:2299575 original size:32 final size:32
Alignment explanation
Indices: 2299539--2299605 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
2299529 ATCTTATGGC
**
2299539 GTTTAGAATATAAACGTCGCTATATGTTTAAA
1 GTTTAGAATATAAACACCGCTATATGTTTAAA
2299571 GTTTAGAATATAAACACCGCTATATGTTTAAA
1 GTTTAGAATATAAACACCGCTATATGTTTAAA
2299603 GTT
1 GTT
2299606 AATAACGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (32 bp):
GTTTAGAATATAAACACCGCTATATGTTTAAA
Found at i:2303497 original size:24 final size:25
Alignment explanation
Indices: 2303461--2303511 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
2303451 GCATATTTAG
2303461 TCAAACTGCGAATA-TTTTGTTGAA
1 TCAAACTGCGAATATTTTTGTTGAA
* *
2303485 TCAAATTGTGAATATTTTTGTTGAA
1 TCAAACTGCGAATATTTTTGTTGAA
2303510 TC
1 TC
2303512 GGATTGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (25 bp):
TCAAACTGCGAATATTTTTGTTGAA
Found at i:2304077 original size:2 final size:2
Alignment explanation
Indices: 2304070--2304099 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2304060 TGATTTTTAG
2304070 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
2304100 TCAGGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2304484 original size:21 final size:21
Alignment explanation
Indices: 2304460--2304507 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2304450 ATATACGCAA
*
2304460 GTTAGACCAATGACATCTGTT
1 GTTAGACCAATGACATATGTT
2304481 GTTAGACCAATGACATATGTT
1 GTTAGACCAATGACATATGTT
2304502 GTTAGA
1 GTTAGA
2304508 TTGTTAGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (21 bp):
GTTAGACCAATGACATATGTT
Found at i:2308479 original size:14 final size:15
Alignment explanation
Indices: 2308460--2308492 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2308450 TGAGTAAGCA
2308460 GTTAATGTGCAG-TT
1 GTTAATGTGCAGTTT
*
2308474 GTTAATGTGTAGTTT
1 GTTAATGTGCAGTTT
2308489 GTTA
1 GTTA
2308493 GGATAGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.48
Consensus pattern (15 bp):
GTTAATGTGCAGTTT
Found at i:2311329 original size:51 final size:51
Alignment explanation
Indices: 2311253--2311352 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
2311243 GATGAGATAG
* * *
2311253 TTCCTGTTGAGGTGACTGGCCAGACCGAGGCTGCTCCAGCGAGTTCCTCCA
1 TTCCTATTGAGGTGACTAGCCAGACCGAGGCTACTCCAGCGAGTTCCTCCA
* * *
2311304 TTCCTATTGTGGTGACTAGTCAGACCGAGGCTACTCCAGTGAGTTCCTC
1 TTCCTATTGAGGTGACTAGCCAGACCGAGGCTACTCCAGCGAGTTCCTC
2311353 TGTTTACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (51 bp):
TTCCTATTGAGGTGACTAGCCAGACCGAGGCTACTCCAGCGAGTTCCTCCA
Found at i:2313108 original size:14 final size:15
Alignment explanation
Indices: 2313089--2313121 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2313079 TGAGTAAGCA
2313089 GTTAATGTGCAG-TT
1 GTTAATGTGCAGTTT
2313103 GTTAATGTGCAGTTT
1 GTTAATGTGCAGTTT
2313118 GTTA
1 GTTA
2313122 TGATAGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.45
Consensus pattern (15 bp):
GTTAATGTGCAGTTT
Found at i:2313494 original size:2 final size:2
Alignment explanation
Indices: 2313487--2313533 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2313477 TGGAATTCGA
2313487 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
2313529 A- AT AT
1 AT AT AT
2313534 TCAAGTATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2313559 original size:15 final size:15
Alignment explanation
Indices: 2313539--2313569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2313529 AATATTCAAG
*
2313539 TATGTGTTGTTTGGA
1 TATGTGTTATTTGGA
2313554 TATGTGTTATTTGGA
1 TATGTGTTATTTGGA
2313569 T
1 T
2313570 CGGATCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (15 bp):
TATGTGTTATTTGGA
Found at i:2313836 original size:24 final size:25
Alignment explanation
Indices: 2313804--2313855 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
2313794 TTAGTTAGAA
2313804 TGTGAATATTTTT-TTGAATCGGAT
1 TGTGAATATTTTTGTTGAATCGGAT
2313828 TGTGAATATTTTTGTTGAATCGGAT
1 TGTGAATATTTTTGTTGAATCGGAT
2313853 TGT
1 TGT
2313856 ATGTTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (25 bp):
TGTGAATATTTTTGTTGAATCGGAT
Found at i:2315954 original size:30 final size:30
Alignment explanation
Indices: 2315918--2315980 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
2315908 TTTCGTTGCT
2315918 GTTAGTTGCTTGTTGTGTCTTCTCTCTTTC
1 GTTAGTTGCTTGTTGTGTCTTCTCTCTTTC
2315948 GTTAGTTGCTTGTTGTGTCTTCTCTCTTTC
1 GTTAGTTGCTTGTTGTGTCTTCTCTCTTTC
2315978 GTT
1 GTT
2315981 TGTTTCTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.03, C:0.19, G:0.21, T:0.57
Consensus pattern (30 bp):
GTTAGTTGCTTGTTGTGTCTTCTCTCTTTC
Found at i:2324014 original size:146 final size:146
Alignment explanation
Indices: 2323740--2324015 Score: 489
Period size: 146 Copynumber: 1.9 Consensus size: 146
2323730 TCTCAACAAT
*
2323740 AAACATGGCAGCACCCTTCATCGCCTCTTGCATATCTCTTTAACTCAAATATCACACGCTTCTCT
1 AAACATGGCAGCACCCTTCATCGCATCTTGCATATCTCTTTAACTCAAATATCACACGCTTCTCT
* * *
2323805 TTAAATGCTACCTAATTGTATATCTCATCGCTCCTAATATAGCAACAATGAATGAAACTGGCCTA
66 TTAAATGCTACCTAATTGCATATCTCATCACTCCTAATATAGCAACAATAAATGAAACTGGCCTA
2323870 CAAGTAAGAAGATTAC
131 CAAGTAAGAAGATTAC
* * *
2323886 AAACGTGGCGGCACCCTTCATTGCATCTTGCATATCTCTTTAACTCAAATATCACACGCTTCTCT
1 AAACATGGCAGCACCCTTCATCGCATCTTGCATATCTCTTTAACTCAAATATCACACGCTTCTCT
2323951 TTAAATGCTACCTAATTGCATATCTCATCACTCCTAATATAGCAACAATAAATGAAACTGGCCTA
66 TTAAATGCTACCTAATTGCATATCTCATCACTCCTAATATAGCAACAATAAATGAAACTGGCCTA
2324016 ATTCAAGTAC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 123 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (146 bp):
AAACATGGCAGCACCCTTCATCGCATCTTGCATATCTCTTTAACTCAAATATCACACGCTTCTCT
TTAAATGCTACCTAATTGCATATCTCATCACTCCTAATATAGCAACAATAAATGAAACTGGCCTA
CAAGTAAGAAGATTAC
Found at i:2328138 original size:31 final size:31
Alignment explanation
Indices: 2328102--2328162 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2328092 AACTTAAAAG
* *
2328102 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
2328133 AGTTTTATAATACTGAAATTTAAATAATTT
1 AGTTTTACAATACTGAAATTTAAATAATTT
2328163 ATACAACTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2328872 original size:14 final size:14
Alignment explanation
Indices: 2328851--2328938 Score: 77
Period size: 14 Copynumber: 6.9 Consensus size: 14
2328841 AAATATCTAT
2328851 AATA-TAATATTAA
1 AATATTAATATTAA
*
2328864 AATATTAATATT-T
1 AATATTAATATTAA
2328877 AAT-TT-AT-TTAA
1 AATATTAATATTAA
2328888 AA-ATTAATATT-A
1 AATATTAATATTAA
*
2328900 AA-ATTAATATCTAT
1 AATATTAATAT-TAA
2328914 AATA-TAATATTAA
1 AATATTAATATTAA
*
2328927 AAAATTAATATT
1 AATATTAATATT
2328939 TAATTTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 17
0.73 0.06 0.20
Matches are distributed among these distances:
10 2 0.03
11 6 0.10
12 15 0.25
13 15 0.25
14 22 0.36
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAATATTAA
Found at i:2328920 original size:63 final size:64
Alignment explanation
Indices: 2328834--2328984 Score: 259
Period size: 63 Copynumber: 2.4 Consensus size: 64
2328824 TTATATGATA
*
2328834 TAAAATTAAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAA-TTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAACTTAATAT
*
2328898 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAACTTGATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAACTTAATAT
*
2328962 TAAAATTAATATTTATAATATAA
1 TAAAATTAATATCTATAATATAA
2328985 AAATTAAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
63 48 0.58
64 35 0.42
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAACTTAATAT
Found at i:2329869 original size:18 final size:18
Alignment explanation
Indices: 2329846--2329890 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2329836 AACATTCCCA
*
2329846 GTAATCTTATTCCCGCTG
1 GTAATCTTATTCCCACTG
* *
2329864 GTAATCCTATTCTCACTG
1 GTAATCTTATTCCCACTG
2329882 GTAATCTTA
1 GTAATCTTA
2329891 CATTCCGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACTG
Found at i:2332726 original size:15 final size:15
Alignment explanation
Indices: 2332708--2332757 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
2332698 CCGGTTTCGG
2332708 TTTTAAAAAACCGGTTT
1 TTTTAAAAAACCGG--T
2332725 TTTTAAAAAACCGGT
1 TTTTAAAAAACCGGT
* * *
2332740 TATAAAAAAACCGAT
1 TTTTAAAAAACCGGT
2332755 TTT
1 TTT
2332758 AATATTCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (15 bp):
TTTTAAAAAACCGGT
Found at i:2332730 original size:17 final size:17
Alignment explanation
Indices: 2332708--2332740 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2332698 CCGGTTTCGG
2332708 TTTTAAAAAACCGGTTT
1 TTTTAAAAAACCGGTTT
2332725 TTTTAAAAAACCGGTT
1 TTTTAAAAAACCGGTT
2332741 ATAAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTTAAAAAACCGGTTT
Found at i:2333169 original size:13 final size:13
Alignment explanation
Indices: 2333153--2333207 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2333143 AAGTTCAATA
*
2333153 AATTTAAATACTT
1 AATTGAAATACTT
2333166 AATTGAAATACTT
1 AATTGAAATACTT
* *
2333179 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
2333193 AATTGAAATACTT
1 AATTGAAATACTT
2333206 AA
1 AA
2333208 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:2333289 original size:32 final size:33
Alignment explanation
Indices: 2333193--2333291 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2333183 AACTCAACAT
* * *
2333193 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2333226 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2333259 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2333291 A
1 A
2333292 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:2333310 original size:21 final size:21
Alignment explanation
Indices: 2333286--2333325 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2333276 ACTTCAAGTT
2333286 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
2333307 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
2333326 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:2345877 original size:33 final size:33
Alignment explanation
Indices: 2345840--2345905 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2345830 AAAGTTCTTC
2345840 AAACCCAAACTCTGTATCGAACAAACTAACATA
1 AAACCCAAACTCTGTATCGAACAAACTAACATA
2345873 AAACCCAAACTCTGTATCGAACAAACTAACATA
1 AAACCCAAACTCTGTATCGAACAAACTAACATA
2345906 CCCGAAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (33 bp):
AAACCCAAACTCTGTATCGAACAAACTAACATA
Found at i:2349481 original size:57 final size:59
Alignment explanation
Indices: 2349357--2349484 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 59
2349347 AAAGTTTTGA
* * * *
2349357 GATCAATTTAGAATAGGGGTCATAGGTTGGAGATAAAATTAGAATATTAAAAACTTAAG
1 GATCAATTTAAAATAAGAGTCATAGGTTGGAGATAAAATTAAAATATTAAAAACTTAAG
* * * * * *
2349416 GA-CTAATTTAAAATAATAGTCATA-GTTTGAGAT-AAATTAAAATATTCAAAAGTTTAT
1 GATC-AATTTAAAATAAGAGTCATAGGTTGGAGATAAAATTAAAATATTAAAAACTTAAG
2349473 GATCAATTTAAA
1 GATCAATTTAAA
2349485 GTATTTTAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
57 29 0.51
58 10 0.18
59 18 0.32
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (59 bp):
GATCAATTTAAAATAAGAGTCATAGGTTGGAGATAAAATTAAAATATTAAAAACTTAAG
Found at i:2349527 original size:20 final size:21
Alignment explanation
Indices: 2349502--2349595 Score: 50
Period size: 20 Copynumber: 4.4 Consensus size: 21
2349492 AACGTATAAA
2349502 TTTAAAAATATTA-ATTAACT
1 TTTAAAAATATTACATTAACT
** ** * *
2349522 TTTAAATTTTAAAATATTAATT
1 TTTAAA-AATATTACATTAACT
*
2349544 TGTTAAAAA-ATTAACATATAAAT
1 T-TTAAAAATATT-ACAT-TAACT
*
2349567 TTTAAAAATATTA-GTTAACT
1 TTTAAAAATATTACATTAACT
*
2349587 TTTTAAAAT
1 TTTAAAAAT
2349596 TTTGTTAAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
20 18 0.33
21 5 0.09
22 18 0.33
23 13 0.24
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAAAAATATTACATTAACT
Found at i:2353657 original size:3 final size:3
Alignment explanation
Indices: 2353649--2353690 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
2353639 TAATATAGTG
* *
2353649 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAGA AAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
2353691 GATAGTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:2357022 original size:9 final size:9
Alignment explanation
Indices: 2357008--2357038 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2356998 TTTACAGCAA
2357008 CAACAATAT
1 CAACAATAT
*
2357017 CAACAAAAT
1 CAACAATAT
2357026 CAACAATAT
1 CAACAATAT
2357035 CAAC
1 CAAC
2357039 CTTATAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.58, C:0.26, G:0.00, T:0.16
Consensus pattern (9 bp):
CAACAATAT
Found at i:2361631 original size:24 final size:24
Alignment explanation
Indices: 2361567--2361648 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
2361557 AACCAAAGTG
* *
2361567 CCACATAG-ATTTTTCCCGAAGGA
1 CCACGTAGAATTTGTCCCGAAGGA
* *
2361590 CCACGTAAAAATTTGTCCCGAAAGA
1 CCACGT-AGAATTTGTCCCGAAGGA
2361615 CCACGTAGAATTTGTCCCGAAGGA
1 CCACGTAGAATTTGTCCCGAAGGA
2361639 CCACGTAGAA
1 CCACGTAGAA
2361649 CCCTCGACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.10
24 27 0.53
25 19 0.37
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (24 bp):
CCACGTAGAATTTGTCCCGAAGGA
Found at i:2362285 original size:20 final size:21
Alignment explanation
Indices: 2362262--2362313 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2362252 ATTTCAATTA
2362262 CAGTATCGATACCTCAAC-AT
1 CAGTATCGATACCTCAACAAT
* **
2362282 CAGTATCGATACTTCTTCAAT
1 CAGTATCGATACCTCAACAAT
2362303 CAGTATCGATA
1 CAGTATCGATA
2362314 TTGTTCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (21 bp):
CAGTATCGATACCTCAACAAT
Found at i:2363599 original size:180 final size:180
Alignment explanation
Indices: 2363288--2363650 Score: 672
Period size: 180 Copynumber: 2.0 Consensus size: 180
2363278 CTTCATAGGC
* *
2363288 TAAAATCTGCACTGGTTCTTCCTCATATGTCATGTCAGATTGAACTTCTATTTCTTTCAGTACTA
1 TAAAATATACACTGGTTCTTCCTCATATGTCATGTCAGATTGAACTTCTATTTCTTTCAGTACTA
2363353 TGATGTGTGAAGGATCTGATCGATATCTTCTAAGCATCGACACATGAAAAATATTATGGATCTTT
66 TGATGTGTGAAGGATCTGATCGATATCTTCTAAGCATCGACACATGAAAAATATTATGGATCTTT
* *
2363418 TCCATTTATGGTGGCAATGCTAAGTGATATGCCATTAGTCAAACACTTTT
131 TCCATTTATGGTGGCAATGCTAAGTAATATACCATTAGTCAAACACTTTT
2363468 TAAAATATACACTGGTTCTTCCTCATATGTCATGTCAGATTGAACTTCTATTTCTTTCAGTACTA
1 TAAAATATACACTGGTTCTTCCTCATATGTCATGTCAGATTGAACTTCTATTTCTTTCAGTACTA
*
2363533 TGATGTGTGAAGGATCTGATCGATATCTTCTAAGCATCGACACATGAAAAATATTGTGGATCTTT
66 TGATGTGTGAAGGATCTGATCGATATCTTCTAAGCATCGACACATGAAAAATATTATGGATCTTT
*
2363598 TCCATTTATGGTGGCAATGCTAAGTAATATACTATTAGTCAAACACTTTT
131 TCCATTTATGGTGGCAATGCTAAGTAATATACCATTAGTCAAACACTTTT
2363648 TAA
1 TAA
2363651 GATCTCATAA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (180 bp):
TAAAATATACACTGGTTCTTCCTCATATGTCATGTCAGATTGAACTTCTATTTCTTTCAGTACTA
TGATGTGTGAAGGATCTGATCGATATCTTCTAAGCATCGACACATGAAAAATATTATGGATCTTT
TCCATTTATGGTGGCAATGCTAAGTAATATACCATTAGTCAAACACTTTT
Found at i:2368612 original size:25 final size:25
Alignment explanation
Indices: 2368574--2368647 Score: 114
Period size: 24 Copynumber: 3.0 Consensus size: 25
2368564 TGCCACATAG
* *
2368574 ATTTGTCCCAAAGGACTGCGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
*
2368599 ATTTGTCCCGAAGGACCACGTAG-A
1 ATTTGTCCCGAAGGACCGCGTAGAA
2368623 ATTTGTCCCGAAGGACCGCGTAGAA
1 ATTTGTCCCGAAGGACCGCGTAGAA
2368648 CCCTTGACTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 23 0.52
25 21 0.48
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (25 bp):
ATTTGTCCCGAAGGACCGCGTAGAA
Found at i:2371258 original size:32 final size:32
Alignment explanation
Indices: 2371221--2371281 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
2371211 GTAAATGCAC
* *
2371221 AATGCAGATATGCAAGTGCAAGTGAAAATATA
1 AATGCAAAGATGCAAGTGCAAGTGAAAATATA
* *
2371253 AATGCAAAGATGCAAGTGCATGTGTAAAT
1 AATGCAAAGATGCAAGTGCAAGTGAAAAT
2371282 GCTAATGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (32 bp):
AATGCAAAGATGCAAGTGCAAGTGAAAATATA
Found at i:2371289 original size:32 final size:32
Alignment explanation
Indices: 2371210--2371290 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
2371200 AATACAAAGA
* * *
2371210 TGTAAATGCACAATGCAGATATGCAAGTGCAAG
1 TGTAAATGC-TAATGCAAAGATGCAAGTGCAAG
* * *
2371243 TGAAAAT-ATAAATGCAAAGATGCAAGTGCATG
1 TGTAAATGCT-AATGCAAAGATGCAAGTGCAAG
2371275 TGTAAATGCTAATGCA
1 TGTAAATGCTAATGCA
2371291 GAATGGAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (32 bp):
TGTAAATGCTAATGCAAAGATGCAAGTGCAAG
Found at i:2376638 original size:20 final size:20
Alignment explanation
Indices: 2376613--2376684 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
2376603 CGATGGGTGT
2376613 ATCGATGCACAGCATAGTGC
1 ATCGATGCACAGCATAGTGC
*
2376633 ATCGATGCACATTCA-AGGGATGC
1 ATCGATGCACA-GCATA--G-TGC
*
2376656 ATCGATGCACTGTC-TAGTGC
1 ATCGATGCACAG-CATAGTGC
2376676 ATCGATGCA
1 ATCGATGCA
2376685 TTATGCACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 24 0.56
21 3 0.07
22 1 0.02
23 15 0.35
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (20 bp):
ATCGATGCACAGCATAGTGC
Found at i:2376802 original size:5 final size:5
Alignment explanation
Indices: 2376788--2376826 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
2376778 AACTATGTTC
2376788 AATC- AATCA AATCA AATCA AATCA AATCA AATCA AATCA
1 AATCA AATCA AATCA AATCA AATCA AATCA AATCA AATCA
2376827 TTAAACATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
AATCA
Found at i:2382545 original size:19 final size:19
Alignment explanation
Indices: 2382521--2382566 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2382511 ATATTCAATA
2382521 GTGCATCGATGAACGACAT
1 GTGCATCGATGAACGACAT
*
2382540 GTGCATCGATGCACGACAT
1 GTGCATCGATGAACGACAT
2382559 GTGCATCG
1 GTGCATCG
2382567 GTACACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (19 bp):
GTGCATCGATGAACGACAT
Found at i:2384887 original size:22 final size:22
Alignment explanation
Indices: 2384859--2384941 Score: 130
Period size: 22 Copynumber: 3.6 Consensus size: 22
2384849 TTGTATATAA
2384859 AATAAATATTTATTTAAATATT
1 AATAAATATTTATTTAAATATT
2384881 AATAAATATTTATTTATTTAAATATT
1 AAT-AA-A--TATTTATTTAAATATT
2384907 AATAAATATTTATTTAAATATT
1 AATAAATATTTATTTAAATATT
2384929 AATAAATATTTAT
1 AATAAATATTTAT
2384942 GTAATTTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
22 32 0.56
23 2 0.04
24 2 0.04
25 2 0.04
26 19 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATAAATATTTATTTAAATATT
Found at i:2384894 original size:26 final size:26
Alignment explanation
Indices: 2384865--2384941 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
2384855 ATAAAATAAA
2384865 TATTTATTTAAATATTAATAAATATT
1 TATTTATTTAAATATTAATAAATATT
2384891 TATTTATTTAAATATTAAT-AA-A--
1 TATTTATTTAAATATTAATAAATATT
2384913 TATTTATTTAAATATTAATAAATATT
1 TATTTATTTAAATATTAATAAATATT
2384939 TAT
1 TAT
2384942 GTAATTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
22 19 0.40
23 2 0.04
24 2 0.04
25 2 0.04
26 22 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTATTTAAATATTAATAAATATT
Found at i:2385712 original size:18 final size:18
Alignment explanation
Indices: 2385689--2385724 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2385679 ACCAAATCAA
2385689 CTATTGATATCAACTACT
1 CTATTGATATCAACTACT
2385707 CTATTGATATCAACTACT
1 CTATTGATATCAACTACT
2385725 AACTATAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (18 bp):
CTATTGATATCAACTACT
Found at i:2386082 original size:14 final size:14
Alignment explanation
Indices: 2385993--2386068 Score: 127
Period size: 14 Copynumber: 5.5 Consensus size: 14
2385983 CTTTTTTCTC
*
2385993 TTTC-TTTCCTTTA
1 TTTCTTTTCCTTTG
*
2386006 TTCCTTTTCCTTTG
1 TTTCTTTTCCTTTG
2386020 TTTCTTTTCCTTTG
1 TTTCTTTTCCTTTG
2386034 TTTCTTTTCCTTTG
1 TTTCTTTTCCTTTG
2386048 TTTCTTTTCCTTTG
1 TTTCTTTTCCTTTG
2386062 TTTCTTT
1 TTTCTTT
2386069 GTTTATTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
13 3 0.05
14 56 0.95
ACGTcount: A:0.01, C:0.22, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTCTTTTCCTTTG
Found at i:2387217 original size:30 final size:29
Alignment explanation
Indices: 2387181--2387301 Score: 104
Period size: 30 Copynumber: 4.1 Consensus size: 29
2387171 TTACAAGACC
*
2387181 AAAATAGCAAAAACAGAAACATAAAGTACT
1 AAAATAG-AAAAACAGAAACATAAAGGACT
* **
2387211 AAAATAGAAAAAATAGAAATTTAAAGGACT
1 AAAATAG-AAAAACAGAAACATAAAGGACT
*
2387241 AAAATAGAAAACACAGAAATTCA-GAA-GACT
1 AAAATAGAAAA-ACAGAAA--CATAAAGGACT
* **
2387271 AAAATAGTAAAACA-AAATTTAAAGGACT
1 AAAATAGAAAAACAGAAACATAAAGGACT
2387299 AAA
1 AAA
2387302 CTATAAATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
27 2 0.03
28 10 0.14
29 7 0.10
30 52 0.71
31 2 0.03
ACGTcount: A:0.63, C:0.09, G:0.12, T:0.17
Consensus pattern (29 bp):
AAAATAGAAAAACAGAAACATAAAGGACT
Found at i:2388674 original size:3 final size:3
Alignment explanation
Indices: 2388666--2388721 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
2388656 CTGTAAAATG
2388666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2388714 TAA TAA TA
1 TAA TAA TA
2388722 TTTTTGTATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Done.