Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009387.1 Hibiscus syriacus cultivar Beakdansim tig00113279_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: 929501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:380020 original size:21 final size:22
Alignment explanation
Indices: 379962--380020 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
379952 GACAGTGTGC
379962 ATCGATGCACATTCAAGGAGTGA
1 ATCGATGCACATTC-AGGAGTGA
* * *
379985 ATCGGTGCATC-TTCATGA-TGT
1 ATCGATGCA-CATTCAGGAGTGA
380006 ATCGATGCACATTCA
1 ATCGATGCACATTCA
380021 AAGGAATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.47
22 3 0.10
23 11 0.37
24 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (22 bp):
ATCGATGCACATTCAGGAGTGA
Found at i:387915 original size:18 final size:18
Alignment explanation
Indices: 387892--387928 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
387882 TTAATATGAA
*
387892 AATAATAATTATTATTAT
1 AATAATAAATATTATTAT
387910 AATAATAAATATTATTAT
1 AATAATAAATATTATTAT
387928 A
1 A
387929 TAAATCGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATAATAAATATTATTAT
Found at i:388363 original size:21 final size:21
Alignment explanation
Indices: 388335--388423 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
388325 AAACATTTCA
388335 ATGAAAGGACTTAACCTTTTG
1 ATGAAAGGACTTAACCTTTTG
* *
388356 ATTAAAGGACTTATCCTTTTG
1 ATGAAAGGACTTAACCTTTTG
* * *
388377 ATGGAAGGGCTTAACCTTTTC
1 ATGAAAGGACTTAACCTTTTG
* * *
388398 ATGAAAGGATTTAATCTTTTC
1 ATGAAAGGACTTAACCTTTTG
388419 ATGAA
1 ATGAA
388424 GAGAATTATT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGAAAGGACTTAACCTTTTG
Found at i:394638 original size:21 final size:20
Alignment explanation
Indices: 394613--394683 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
394603 GAAGGGTTAA
394613 GAAAGGACTTAACCTTTTGAT
1 GAAAGGA-TTAACCTTTTGAT
* *
394634 TAAAGGAATTATCCTTTTGAT
1 GAAAGG-ATTAACCTTTTGAT
* * *
394655 GAAGGGATTAACCTCTTCAT
1 GAAAGGATTAACCTTTTGAT
394675 GAAAGGATT
1 GAAAGGATT
394684 TAATCTTTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 19 0.46
21 21 0.51
22 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (20 bp):
GAAAGGATTAACCTTTTGAT
Found at i:394664 original size:20 final size:20
Alignment explanation
Indices: 394621--394683 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
394611 AAGAAAGGAC
* *
394621 TTAACCTTTTGATTAAAGGAA
1 TTAACCTTTTGA-TGAAGGGA
*
394642 TTATCCTTTTGATGAAGGGA
1 TTAACCTTTTGATGAAGGGA
* * *
394662 TTAACCTCTTCATGAAAGGA
1 TTAACCTTTTGATGAAGGGA
394682 TT
1 TT
394684 TAATCTTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
20 24 0.69
21 11 0.31
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
TTAACCTTTTGATGAAGGGA
Found at i:394686 original size:21 final size:20
Alignment explanation
Indices: 394613--394696 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 20
394603 GAAGGGTTAA
*
394613 GAAAGGACTTAACCTTTTGAT
1 GAAAGGA-TTAACCTTTTCAT
* * *
394634 TAAAGGAATTATCCTTTTGAT
1 GAAAGG-ATTAACCTTTTCAT
* *
394655 GAAGGGATTAACCTCTTCAT
1 GAAAGGATTAACCTTTTCAT
*
394675 GAAAGGATTTAATCTTTTCAT
1 GAAAGGA-TTAACCTTTTCAT
394696 G
1 G
394697 GAGAATTGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
20 17 0.33
21 33 0.65
22 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (20 bp):
GAAAGGATTAACCTTTTCAT
Found at i:398984 original size:17 final size:17
Alignment explanation
Indices: 398964--399002 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
398954 TAAAAGTATC
398964 AAATAAAAAAAATCGTA
1 AAATAAAAAAAATCGTA
** *
398981 AAATATGAAAAATTGTA
1 AAATAAAAAAAATCGTA
398998 AAATA
1 AAATA
399003 GACTGAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (17 bp):
AAATAAAAAAAATCGTA
Found at i:399216 original size:24 final size:22
Alignment explanation
Indices: 399182--399254 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
399172 ATGTATAAAC
*
399182 TATA-AAGTATATGATAAAAAG
1 TATATAAGTATATAATAAAAAG
*
399203 TAT-TAATGTATATAATATAAAG
1 TATATAA-GTATATAATAAAAAG
*
399225 TATATAAGTATATAAATATTAAAG
1 TATATAAGTATAT-AATA-AAAAG
399249 TATATA
1 TATATA
399255 CTATAAAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.11
22 22 0.49
23 7 0.16
24 11 0.24
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (22 bp):
TATATAAGTATATAATAAAAAG
Found at i:399217 original size:38 final size:38
Alignment explanation
Indices: 399174--399344 Score: 116
Period size: 36 Copynumber: 4.7 Consensus size: 38
399164 TTATATACAT
*
399174 GTATA-AACTATAAAGTATAT-G-ATAAAAAGTATTAAT
1 GTATATAACTATAAAGTATATAGTATAAAAA-TATTAAA
*
399210 GTATATAA-TATAAAGTATATAAGTATATAAATATTAAA
1 GTATATAACTATAAAGTATAT-AGTATAAAAATATTAAA
* * *
399248 GTATAT-ACTATAAAGTATTAAACTAT-ATAATA-T-AA
1 GTATATAACTATAAAGTA-TATAGTATAAAAATATTAAA
* * *
399283 GTATCA-AA-TATAAAGTATTAAAGTATATAAATA-T-GA
1 GTAT-ATAACTATAAAGTA-TATAGTATAAAAATATTAAA
*
399319 GTAT-TAAATATAAAGTATATAAGTAT
1 GTATATAACTATAAAGTATAT-AGTAT
399345 TAAAGTATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
35 27 0.24
36 44 0.39
37 7 0.06
38 26 0.23
39 8 0.07
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (38 bp):
GTATATAACTATAAAGTATATAGTATAAAAATATTAAA
Found at i:399229 original size:14 final size:14
Alignment explanation
Indices: 399210--399452 Score: 126
Period size: 14 Copynumber: 17.4 Consensus size: 14
399200 AAGTATTAAT
399210 GTATATAATATAAA
1 GTATATAATATAAA
*
399224 GTATATAA-GT--A
1 GTATATAATATAAA
399235 -TATA-AATATTAAA
1 GTATATAATA-TAAA
*
399248 GTATATACTATAAA
1 GTATATAATATAAA
399262 GTAT-TAAACTATATAA
1 GTATAT-AA-TATA-AA
*
399278 -TATA-AGTATCAAA
1 GTATATAATAT-AAA
399291 -TATA-AAGTATTAAA
1 GTATATAA-TA-TAAA
*
399305 GTATATAA-ATATGA
1 GTATATAATATA-AA
399319 GTAT-TAAATATAAA
1 GTATAT-AATATAAA
399333 GTATATAAGTATTAAA
1 GTATATAA-TA-TAAA
399349 GTATATAATATAAA
1 GTATATAATATAAA
*
399363 GTATTAAAATATATAA
1 GTA-TATAATATA-AA
* *
399379 -TACA-AGTATTAAA
1 GTATATAATA-TAAA
* *
399392 CTATATAATA-CAA
1 GTATATAATATAAA
399405 GTAT-TAA-ATAAAA
1 GTATATAATAT-AAA
399418 GTATATAAATATAAA
1 GTATAT-AATATAAA
399433 GTAT-TAAATATAAA
1 GTATAT-AATATAAA
399447 GTATAT
1 GTATAT
399453 TAATTATCAT
Statistics
Matches: 181, Mismatches: 16, Indels: 63
0.70 0.06 0.24
Matches are distributed among these distances:
9 2 0.01
10 4 0.02
11 3 0.02
12 3 0.02
13 32 0.18
14 71 0.39
15 46 0.25
16 20 0.11
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (14 bp):
GTATATAATATAAA
Found at i:399261 original size:21 final size:21
Alignment explanation
Indices: 399211--399446 Score: 117
Period size: 21 Copynumber: 11.3 Consensus size: 21
399201 AGTATTAATG
399211 TATATAATA-TAAAGTATATAAGTA
1 TATA-AATATTAAAGTATAT-A--A
*
399235 TATAAATATTAAAGTATATAC
1 TATAAATATTAAAGTATATAA
*
399256 TATAAAGTATTAAACTATATAA
1 TATAAA-TATTAAAGTATATAA
* *
399278 TATAAGTATCAAA-TATA-AA
1 TATAAATATTAAAGTATATAA
399297 GTATTAAAGTATATAAA-TATGAGT-A
1 -TA-TAAA-TAT-TAAAGTAT-A-TAA
399322 T-TAAATA-TAAAG----T-A
1 TATAAATATTAAAGTATATAA
*
399336 TATAAGTATTAAAGTATATAA
1 TATAAATATTAAAGTATATAA
*
399357 TATAAAGTATTAAAATATATAA
1 TATAAA-TATTAAAGTATATAA
* * *
399379 TACAAGTATTAAACTATATAA
1 TATAAATATTAAAGTATATAA
* * *
399400 TACAAGTATTAAA-TA-AAAGTA
1 TATAAATATTAAAGTATATA--A
399421 TATAAATA-TAAAGTAT-TAAA
1 TATAAATATTAAAGTATAT-AA
399441 TATAAA
1 TATAAA
399447 GTATATTAAT
Statistics
Matches: 172, Mismatches: 17, Indels: 50
0.72 0.07 0.21
Matches are distributed among these distances:
14 3 0.02
15 5 0.03
16 5 0.03
19 8 0.05
20 20 0.12
21 59 0.34
22 44 0.26
23 11 0.06
24 16 0.09
25 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
TATAAATATTAAAGTATATAA
Found at i:399266 original size:22 final size:22
Alignment explanation
Indices: 399220--399352 Score: 98
Period size: 22 Copynumber: 6.0 Consensus size: 22
399210 GTATATAATA
*
399220 TAAAGTATATAAGTATATAAATAT
1 TAAAGTATAT-AGTATA-AAGTAT
*
399244 TAAAGTATATACTATAAAGTAT
1 TAAAGTATATAGTATAAAGTAT
* *
399266 TAAACTATATAATAT-AAGTAT
1 TAAAGTATATAGTATAAAGTAT
* *
399287 CAAA-TATAAAGTATTAAAGTAT
1 TAAAGTATATAGTA-TAAAGTAT
*
399309 ATAAA-TAT-GAGTATTAAA-TA-
1 -TAAAGTATATAGTA-TAAAGTAT
399329 TAAAGTATATAAGTATTAAAGTAT
1 TAAAGTATAT-AGTA-TAAAGTAT
399353 ATAATATAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
19 4 0.04
20 10 0.11
21 12 0.13
22 42 0.46
23 13 0.14
24 10 0.11
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAAGTATATAGTATAAAGTAT
Found at i:399282 original size:43 final size:42
Alignment explanation
Indices: 399234--399414 Score: 173
Period size: 43 Copynumber: 4.4 Consensus size: 42
399224 GTATATAAGT
*
399234 ATATAAATATTAAAGTATATACTATA-AAGTATTAAACTATATA
1 ATATAAGTATTAAA-TATATA-TATACAAGTATTAAACTATATA
* *
399277 ATATAAGTA-T---CA-A-ATATA-AAGTATTAAAGTATATAA
1 ATATAAGTATTAAATATATATATACAAGTATTAAACTATAT-A
* * * *
399313 ATATGAGTATTAAATATAAAGTATATAAGTATTAAAGTATATA
1 ATATAAGTATTAAATATATA-TATACAAGTATTAAACTATATA
399356 ATATAAAGTATTAAA-ATATATAATACAAGTATTAAACTATATA
1 ATAT-AAGTATTAAATATATAT-ATACAAGTATTAAACTATATA
*
399399 ATACAAGTATTAAATA
1 ATATAAGTATTAAATA
399415 AAAGTATATA
Statistics
Matches: 116, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
35 19 0.16
36 10 0.09
37 2 0.02
38 1 0.01
40 1 0.01
41 1 0.01
42 13 0.11
43 44 0.38
44 25 0.22
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.35
Consensus pattern (42 bp):
ATATAAGTATTAAATATATATATACAAGTATTAAACTATATA
Found at i:399333 original size:28 final size:28
Alignment explanation
Indices: 399226--399452 Score: 168
Period size: 30 Copynumber: 7.9 Consensus size: 28
399216 AATATAAAGT
399226 ATATAAGTATATAAATATTAAAGTATAT-A
1 ATATAAGTAT-TAAATA-TAAAGTATATAA
* *
399255 CTATAAAGTATTAAACTATATA--ATATAA
1 ATAT-AAGTATTAAA-TATAAAGTATATAA
* *
399283 GTATCAAATA-TAAAGTATTAAAGTATATAA
1 ATAT-AAGTATTAAA-TA-TAAAGTATATAA
*
399313 ATATGAGTATTAAATATAAAGTATATAA
1 ATATAAGTATTAAATATAAAGTATATAA
*
399341 GTATTAAAGTA-TATAATATAAAGTAT-TAA
1 ATA-T-AAGTATTA-AATATAAAGTATATAA
* *
399370 A-ATATA-TAATACAAGTATTAAACTATAT-A
1 ATATA-AGTATTA-AA-TA-TAAAGTATATAA
*
399399 ATACAAGTATTAAATA-AAAGTATATAA
1 ATATAAGTATTAAATATAAAGTATATAA
399426 ATATAAAGTATTAAATATAAAGTATAT
1 ATAT-AAGTATTAAATATAAAGTATAT
399453 TAATTATCAT
Statistics
Matches: 159, Mismatches: 19, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
26 11 0.07
27 20 0.13
28 42 0.26
29 42 0.26
30 44 0.28
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATAAGTATTAAATATAAAGTATATAA
Found at i:399361 original size:101 final size:100
Alignment explanation
Indices: 399217--399452 Score: 311
Period size: 101 Copynumber: 2.4 Consensus size: 100
399207 AATGTATATA
* * *
399217 ATATAAAGTATATAAGTATATAAATATTAAAGTATATACTATAAAGTATTAAACTATATAATATA
1 ATATAAA-TATA-AAGTATATAAATATTAAAGTATATAATATAAAGTATTAAAATATATAATACA
**
399282 AGTATCAAA-TATA-AAGTATTAAAGTATATAAATATGAGT
64 AGTATCAAACTATATAA-TA--AAAGTAT-TAAATAAAAGT
*
399321 AT-TAAATATAAAGTATATAAGTATTAAAGTATATAATATAAAGTATTAAAATATATAATACAAG
1 ATATAAATATAAAGTATATAAATATTAAAGTATATAATATAAAGTATTAAAATATATAATACAAG
* *
399385 TATTAAACTATATAATACAAGTATTAAATAAAAGT
66 TATCAAACTATATAATAAAAGTATTAAATAAAAGT
399420 ATATAAATATAAAGTAT-TAAATA-TAAAGTATAT
1 ATATAAATATAAAGTATATAAATATTAAAGTATAT
399453 TAATTATCAT
Statistics
Matches: 120, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
98 10 0.08
99 16 0.13
100 20 0.17
101 56 0.47
102 10 0.08
103 6 0.05
104 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (100 bp):
ATATAAATATAAAGTATATAAATATTAAAGTATATAATATAAAGTATTAAAATATATAATACAAG
TATCAAACTATATAATAAAAGTATTAAATAAAAGT
Found at i:399364 original size:22 final size:22
Alignment explanation
Indices: 399281--399450 Score: 146
Period size: 22 Copynumber: 7.9 Consensus size: 22
399271 TATATAATAT
399281 AAGTATCA-AATATAAAGTATTA
1 AAGTAT-ATAATATAAAGTATTA
*
399303 AAGTATATAA-ATATGAGTATTA
1 AAGTATATAATATA-AAGTATTA
399325 AA-TATA-AAGTATATAAGTATTA
1 AAGTATATAA-TATA-AAGTATTA
399347 AAGTATATAATATAAAGTATTA
1 AAGTATATAATATAAAGTATTA
* *
399369 AAATATATAATA-CAAGTATTA
1 AAGTATATAATATAAAGTATTA
* *
399390 AACTATATAATA-CAAGTATTA
1 AAGTATATAATATAAAGTATTA
*
399411 AA-TA-A-AAGTATATAAATA-TA
1 AAGTATATAA-TATA-AAGTATTA
399431 AAGTAT-TAAATATAAAGTAT
1 AAGTATAT-AATATAAAGTAT
399451 ATTAATTATC
Statistics
Matches: 126, Mismatches: 8, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
18 2 0.02
19 3 0.02
20 8 0.06
21 48 0.38
22 53 0.42
23 10 0.08
24 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.34
Consensus pattern (22 bp):
AAGTATATAATATAAAGTATTA
Found at i:399704 original size:16 final size:16
Alignment explanation
Indices: 399680--399782 Score: 125
Period size: 16 Copynumber: 6.4 Consensus size: 16
399670 CGGATCATTT
* *
399680 ACAGATCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
399696 ACAGGTCAGATTCAAA
1 ACAGGTCAGGTTCAAA
*
399712 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
399728 ACAGGTCAGATTCAAA
1 ACAGGTCAGGTTCAAA
*
399744 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
* * *
399760 ATAGGTAAGGTTAAAA
1 ACAGGTCAGGTTCAAA
399776 ACAGGTC
1 ACAGGTC
399783 GGGTAATACC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 72 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:399777 original size:32 final size:32
Alignment explanation
Indices: 399680--399782 Score: 161
Period size: 32 Copynumber: 3.2 Consensus size: 32
399670 CGGATCATTT
*
399680 ACAGATCAGGTTCATAACAGGTCAGATTCAAA
1 ACAGGTCAGGTTCATAACAGGTCAGATTCAAA
399712 ACAGGTCAGGTTCATAACAGGTCAGATTCAAA
1 ACAGGTCAGGTTCATAACAGGTCAGATTCAAA
* * * *
399744 ACAGGTCAGGTTCATAATAGGTAAGGTTAAAA
1 ACAGGTCAGGTTCATAACAGGTCAGATTCAAA
399776 ACAGGTC
1 ACAGGTC
399783 GGGTAATACC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (32 bp):
ACAGGTCAGGTTCATAACAGGTCAGATTCAAA
Found at i:405023 original size:26 final size:26
Alignment explanation
Indices: 404981--405031 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
404971 CAGAAGGCGC
404981 GCTGACTAGATCCTCTACAAACTACT
1 GCTGACTAGATCCTCTACAAACTACT
* *
405007 GCTGACTGGA-CCTTCTAGAAACTAC
1 GCTGACTAGATCC-TCTACAAACTAC
405032 CACGTCAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (26 bp):
GCTGACTAGATCCTCTACAAACTACT
Found at i:409395 original size:18 final size:18
Alignment explanation
Indices: 409372--409408 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
409362 AAAAATAATT
409372 TTAACTTAGCTAGAACTC
1 TTAACTTAGCTAGAACTC
*
409390 TTAACTTAGCTAGGACTC
1 TTAACTTAGCTAGAACTC
409408 T
1 T
409409 CAATCTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
TTAACTTAGCTAGAACTC
Found at i:412846 original size:12 final size:12
Alignment explanation
Indices: 412814--412849 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
412804 GATTGAAGCT
*
412814 TCAAACTCAAAC
1 TCAAACTCGAAC
412826 TCAAACTCGAAC
1 TCAAACTCGAAC
*
412838 TCGAACTCGAAC
1 TCAAACTCGAAC
412850 CTGAACCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (12 bp):
TCAAACTCGAAC
Found at i:424821 original size:21 final size:22
Alignment explanation
Indices: 424792--424834 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
424782 AGAGATATTA
*
424792 AGGTGTATGATTTAGGGTTTAG
1 AGGTGTATGAGTTAGGGTTTAG
*
424814 AGGT-TATGAGTTATGGTTTAG
1 AGGTGTATGAGTTAGGGTTTAG
424835 GGATTAAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (22 bp):
AGGTGTATGAGTTAGGGTTTAG
Found at i:429201 original size:90 final size:89
Alignment explanation
Indices: 429044--429221 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 89
429034 AATTATACGG
* *
429044 TCTAGACAATGTTGAGAATGAAATGATTAATGAACTTTTGGATGAAAGTGAGAATATTAAAGACA
1 TCTAGACAATGTTAAGAACGAAATGATTAATGAACTTTTGGATGAAAGTGAGAATATTAAAGACA
429109 AGATTGAAACAATCTCTGTTCTAA
66 AGATTGAAACAATCTCTGTTCTAA
* *
429133 TCTAGACAATGTTAAGAACGAAATGATTAATGTACTTTTTGGGTGAAAGTGAGAATATTAAAGAC
1 TCTAGACAATGTTAAGAACGAAATGATTAATGAAC-TTTTGGATGAAAGTGAGAATATTAAAGAC
*
429198 AAGATTGAAATAATCTCTGTTCTA
65 AAGATTGAAACAATCTCTGTTCTA
429222 GCCATGGAAG
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 32 0.39
90 51 0.61
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (89 bp):
TCTAGACAATGTTAAGAACGAAATGATTAATGAACTTTTGGATGAAAGTGAGAATATTAAAGACA
AGATTGAAACAATCTCTGTTCTAA
Found at i:432152 original size:66 final size:66
Alignment explanation
Indices: 432080--432211 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
432070 GCACAAATAA
* *
432080 ATGGTCGACCATGTTATATTGTGAATCAAGAAGAAATACTGGTTGTTAATAAAAACAAATACCTA
1 ATGGTCGACCATGTTATATCGTGAATCAAGAAAAAATACTGGTTGTTAATAAAAACAAATACCTA
432145 T
66 T
* * *
432146 ATGGTCGATCATGTTATATCGTGAATCATGAAAAAATACTGGTTGTTAATCAAAACAAATACCTA
1 ATGGTCGACCATGTTATATCGTGAATCAAGAAAAAATACTGGTTGTTAATAAAAACAAATACCTA
432211 T
66 T
432212 CTACTCAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (66 bp):
ATGGTCGACCATGTTATATCGTGAATCAAGAAAAAATACTGGTTGTTAATAAAAACAAATACCTA
T
Found at i:435396 original size:2 final size:2
Alignment explanation
Indices: 435389--435431 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
435379 TTGGAAAATT
435389 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
435431 T
1 T
435432 TTGTACTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:436278 original size:18 final size:19
Alignment explanation
Indices: 436255--436299 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
436245 CGCAATAATC
436255 TTATTCC-CTAATAATCTT
1 TTATTCCACTAATAATCTT
*
436273 TTATTCCTACTGATAATCTT
1 TTATTCC-ACTAATAATCTT
*
436293 ATATTCC
1 TTATTCC
436300 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (19 bp):
TTATTCCACTAATAATCTT
Found at i:441049 original size:13 final size:14
Alignment explanation
Indices: 441031--441091 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
441021 ACACTATTGA
441031 AAAATAAT-TTATT
1 AAAATAATATTATT
*
441044 AAAATAATATTTTT
1 AAAATAATATTATT
* *
441058 ATTAATTAT-TTATT
1 A-AAATAATATTATT
*
441072 AAAATAATATTTTT
1 AAAATAATATTATT
441086 AAAATA
1 AAAATA
441092 TGGTTGATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 13 0.34
14 20 0.53
15 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:441060 original size:17 final size:17
Alignment explanation
Indices: 441038--441086 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
441028 TGAAAAATAA
441038 TTTATTAAAATAATATT
1 TTTATTAAAATAATATT
441055 TTTATT--AAT--TA--
1 TTTATTAAAATAATATT
441066 TTTATTAAAATAATATT
1 TTTATTAAAATAATATT
441083 TTTA
1 TTTA
441087 AAATATGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
11 6 0.23
13 5 0.19
15 5 0.19
17 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATTAAAATAATATT
Found at i:443151 original size:18 final size:18
Alignment explanation
Indices: 443128--443162 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
443118 TAATCATGGC
443128 AGCATGGTGAACGGTGGT
1 AGCATGGTGAACGGTGGT
*
443146 AGCATGGTGAATGGTGG
1 AGCATGGTGAACGGTGG
443163 CTCTGTCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.46, T:0.23
Consensus pattern (18 bp):
AGCATGGTGAACGGTGGT
Found at i:444254 original size:3 final size:3
Alignment explanation
Indices: 444203--444239 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
444193 TTACTATTTT
*
444203 TTA TTA TT- TTA CT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
444240 AATAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 3 0.10
3 27 0.90
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:445424 original size:35 final size:36
Alignment explanation
Indices: 445369--445439 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
445359 TTAAAAAATT
445369 TAATATTTTATTTATATTTTAATATTAAGAAAGGGA
1 TAATATTTTATTTATATTTTAATATTAAGAAAGGGA
*
445405 TAATA-TTTATTTATTTTTTAATATTAAGAAAGGGA
1 TAATATTTTATTTATATTTTAATATTAAGAAAGGGA
445440 CTGTCTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (36 bp):
TAATATTTTATTTATATTTTAATATTAAGAAAGGGA
Found at i:449255 original size:12 final size:12
Alignment explanation
Indices: 449240--449266 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
449230 ATGAAAGAAT
449240 AAGTGAAGATGG
1 AAGTGAAGATGG
449252 AAGTGAAGATGG
1 AAGTGAAGATGG
449264 AAG
1 AAG
449267 CAGCATGGTA
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:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (12 bp):
AAGTGAAGATGG
Found at i:456779 original size:7 final size:7
Alignment explanation
Indices: 456764--456816 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
456754 ATGCTTGAAG
456764 AAGAAAA
1 AAGAAAA
*
456771 AAGATAA
1 AAGAAAA
*
456778 AAGGAAA
1 AAGAAAA
*
456785 AAGGAAA
1 AAGAAAA
456792 AAGAAAA
1 AAGAAAA
*
456799 GAAAAAAA
1 -AAGAAAA
*
456807 AAAAAAA
1 AAGAAAA
456814 AAG
1 AAG
456817 GTCAAGATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:457929 original size:123 final size:123
Alignment explanation
Indices: 457707--458161 Score: 668
Period size: 123 Copynumber: 3.7 Consensus size: 123
457697 CACTCGATGG
* *
457707 ATCAACATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCTG-AGAATGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* * * *
457771 ATTGAGAAGAACTTATTCAACCTTTTGCTCTACTCTATCACAGAAGAAGATAGATCAGA
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
* * *
457830 ATCAAGATTGCCAGGTAGAGTTCATAATGAGAATAACTCATCTG-AGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* *
457894 AATGAGAAGAACGTGTTCAACCTTTTGCTCGACTCTATCACAGAACAAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
* * * *
457953 ACCAATATTTCCA-G-AGAGTTCATAATAAGAAGAACTCATCTGAAGACGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
458016 ATGAGAAAAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGAAT-AGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAG-ATCAGC
*
458074 ATCAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
458139 ATGAGAAGAACTTGTTCGACCTT
66 ATGAGAAGAACTTGTTCAACCTT
458162 AACTTGATTC
Statistics
Matches: 299, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
121 104 0.35
122 5 0.02
123 190 0.64
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (123 bp):
ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
Found at i:458224 original size:140 final size:136
Alignment explanation
Indices: 458074--458432 Score: 428
Period size: 140 Copynumber: 2.6 Consensus size: 136
458064 ATAGAATAGC
458074 ATCAACATTTCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * ** * *
458139 ATGAGAAGAACTTGTTCGACCTTAACTTGATTCGTCACT-TATGGAGTTGAAT-TATAGAAGAAC
65 ATGAGAAGAACTTGTTCAACCTTAACTTAATTAATCA-TATATGAAGTTGAATCAAT-G-A-AAC
458202 CTCATTTAAGGG
126 CTCATTTAA-GG
* * * *
458214 ATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGTAGAAAAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
** * * *
458279 ATGAGAAGAACTTGTTCAACCTTCCCTTAATTAATCATATATGAAGTTGAATCAATGACATCTCT
65 ATGAGAAGAACTTGTTCAACCTTAACTTAATTAATCATATATGAAGTTGAATCAATGAAACCTCA
*
458344 TTTGAGG
130 TTTAAGG
*
458351 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCGTCT------GAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
458410 ATGAGAAGAACTTGCTCAACCTT
65 ATGAGAAGAACTTGTTCAACCTT
458433 TTGCTAGATT
Statistics
Matches: 193, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
131 36 0.19
136 1 0.01
137 40 0.21
138 8 0.04
139 2 0.01
140 104 0.54
141 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (136 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTAACTTAATTAATCATATATGAAGTTGAATCAATGAAACCTCAT
TTAAGG
Found at i:458418 original size:17 final size:17
Alignment explanation
Indices: 458363--458419 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
458353 CAACATTTCC
*
458363 AGAAGGAGTTCATAATG
1 AGAAGAAGTTCATAATG
* * *
458380 AGAAGAA-CTCGT-CTG
1 AGAAGAAGTTCATAATG
458395 AAGAAGAAGTTCATAATG
1 -AGAAGAAGTTCATAATG
458413 AGAAGAA
1 AGAAGAA
458420 CTTGCTCAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 2 0.07
16 10 0.33
17 16 0.53
18 2 0.07
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.19
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:458702 original size:16 final size:15
Alignment explanation
Indices: 458678--458710 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
458668 TTGCCCATTT
458678 TTTTATTTATTATTA
1 TTTTATTTATTATTA
458693 TTTTACTTTATTATTA
1 TTTTA-TTTATTATTA
458709 TT
1 TT
458711 ATTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:460176 original size:24 final size:23
Alignment explanation
Indices: 460131--460184 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
460121 TCATTTTCTG
*
460131 ATATTT-TTAAATAAATAAATAT
1 ATATTTATAAAATAAATAAATAT
* *
460153 CATATTTATAAAATATATATATAT
1 -ATATTTATAAAATAAATAAATAT
460177 ATACTTTA
1 ATA-TTTA
460185 ATTTTATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTTATAAAATAAATAAATAT
Found at i:461560 original size:120 final size:123
Alignment explanation
Indices: 461219--461670 Score: 618
Period size: 123 Copynumber: 3.7 Consensus size: 123
461209 CACTCGATGG
*
461219 ATCAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGAAGGAAGAAGAAGTTCATA
1 ATCAATATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGAAGGAAGAAGAAGTTCATA
* *
461284 ATGAGAAGAACTTGGTCAACCTTTTGCTCGACTTTATCACAGAAGAAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
* * * * *
461342 ATCAACATTGT-CAGGTAGAGTTCATAATGAGAATAAATCATCTGAGAATGAAGAATAAGTTCAT
1 ATCAATATT-TCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGAAGGAAGAAGAAGTTCAT
* *
461406 AATGAGAAGAA-TGTGTTCAACCTTTTACTCGACTCTATCACAGAAGAAGATAGATCAAC
65 AATGAGAAGAACT-TGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
* *
461465 ACCAATATTTCCA-G-AGAATTCATAATGAGAAGAACTCATCTGA-AGAGGAA-AAGAAGTTCAT
1 ATCAATATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGA-AGGAAGAAGAAGTTCAT
* *
461526 AATGAGAAGAACTTGTTCAACCTTTTGCTTGACTCTATCACAGAA-AGAGATAGATTAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGA-AGATAGATCAGC
* * * *
461585 ATAAATATTTCCAGATAGAGTTCATAATGAGAAGAACTCAT-TGA-ATA-GTAGAAAAAGTTCAT
1 ATCAATATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGA-AGGAAGAAGAAGTTCAT
*
461647 AATGAGAAGAACTTGTTCGACCTT
65 AATGAGAAGAACTTGTTCAACCTT
461671 AACTTGATTC
Statistics
Matches: 293, Mismatches: 27, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
119 1 0.00
120 75 0.26
121 69 0.24
122 27 0.09
123 120 0.41
124 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (123 bp):
ATCAATATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGAAGATAGATCAGC
Found at i:461835 original size:138 final size:134
Alignment explanation
Indices: 461588--461936 Score: 438
Period size: 138 Copynumber: 2.6 Consensus size: 134
461578 GATTAGCATA
* *
461588 AATATTTCCAGATAGAGTTCATAATGAGAAGAACTCAT-TGAATAGTAGAAAAAGTTCATAATGA
1 AATATTTCCAGATGGAGTTCATAATGAGAAGAACTCATCTGAA-AGTAG-AGAAGTTCATAATGA
* * * * * * * *
461652 GAAGAACTTGTTCGACCTTAACTTGATTCATCACTTATGGAGTTGAATTATA-GAAGAACTCATT
64 GAAGAACTTGTTCAACATTAACTTAATTAATCACATATGAAGTTGAATCA-ACG-ACAACTCATT
461716 CGAGGGATC
127 CGA-GGATC
461725 AATATTTCCAGATGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGTAGAGAAGTTCATAATGA
1 AATATTTCCAGATGGAGTTCATAATGAGAAGAACTCATCTGAA-A-GTAGAGAAGTTCATAATGA
** * * *
461790 GAAGAACTTGTTCAACATTGCCTTAATTAATCACATATGAAGTTGAATCAACGACACCTCTTTTG
64 GAAGAACTTGTTCAACATTAACTTAATTAATCACATATGAAGTTGAATCAACGACAACTCATTCG
*
461855 AGTATC
129 AGGATC
* *
461861 AGTATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTG-AAG-A-AGAAGTTCATAATGAGA
1 AATATTTCCAGATGGAGTTCATAATGAGAAGAACTCATCTGAAAGTAGAGAAGTTCATAATGAGA
461923 AGAACTTGTTCAAC
66 AGAACTTGTTCAAC
461937 CTTTTTCTAG
Statistics
Matches: 190, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
131 31 0.16
132 1 0.01
133 1 0.01
134 1 0.01
135 1 0.01
136 43 0.23
137 47 0.25
138 61 0.32
139 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (134 bp):
AATATTTCCAGATGGAGTTCATAATGAGAAGAACTCATCTGAAAGTAGAGAAGTTCATAATGAGA
AGAACTTGTTCAACATTAACTTAATTAATCACATATGAAGTTGAATCAACGACAACTCATTCGAG
GATC
Found at i:461923 original size:17 final size:17
Alignment explanation
Indices: 461870--461926 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
461860 CAGTATTTCC
*
461870 AGAAGGAGTTCATAATG
1 AGAAGAAGTTCATAATG
* *
461887 AGAAGAA-CTCAT-CTG
1 AGAAGAAGTTCATAATG
461902 AAGAAGAAGTTCATAATG
1 -AGAAGAAGTTCATAATG
461920 AGAAGAA
1 AGAAGAA
461927 CTTGTTCAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 11 0.34
17 17 0.53
18 2 0.06
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:463539 original size:31 final size:31
Alignment explanation
Indices: 463504--463562 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
463494 TTACAATTTT
463504 TATTTATATT-TTAATATTAAGAAAGGGATAA
1 TATTTAT-TTATTAATATTAAGAAAGGGATAA
*
463535 TATTTATTTATTTATATTAAGAAAGGGA
1 TATTTATTTATTAATATTAAGAAAGGGA
463563 CAGTCTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (31 bp):
TATTTATTTATTAATATTAAGAAAGGGATAA
Found at i:463637 original size:22 final size:23
Alignment explanation
Indices: 463595--463637 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
463585 TATTTTATGA
*
463595 TATTTTTAAATAAATAAATATCC
1 TATTTATAAATAAATAAATATCC
*
463618 TATTTATAAA-AAATATATAT
1 TATTTATAAATAAATAAATAT
463638 ATATAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTATAAATAAATAAATATCC
Found at i:466344 original size:22 final size:22
Alignment explanation
Indices: 466316--466375 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
466306 TCAAACTATT
* *
466316 AAAAATTATTTTATTAATTTAA
1 AAAAATTATTTTATTAAATCAA
*
466338 AAAAATTATTTTACTAAATCAA
1 AAAAATTATTTTATTAAATCAA
**
466360 AATTATTATTTTATTA
1 AAAAATTATTTTATTA
466376 TATATATGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAATTATTTTATTAAATCAA
Found at i:470919 original size:22 final size:22
Alignment explanation
Indices: 470892--470938 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
470882 TATATTATTT
470892 AAATTATTTACGTTTATATGTA
1 AAATTATTTACGTTTATATGTA
*
470914 AAATTATTTACGTTTATCTGTA
1 AAATTATTTACGTTTATATGTA
470936 AAA
1 AAA
470939 ATTTTGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
AAATTATTTACGTTTATATGTA
Found at i:472809 original size:29 final size:30
Alignment explanation
Indices: 472747--472814 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
472737 CCATTTTATG
* *
472747 AAAATAGCATCATTTTCAAAAACAATTACC
1 AAAATATCACCATTTTCAAAAACAATTACC
* *
472777 AAAATATCACCATTTTC-AAAATAATTACT
1 AAAATATCACCATTTTCAAAAACAATTACC
472806 AAAATATCA
1 AAAATATCA
472815 TTTTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.29
Consensus pattern (30 bp):
AAAATATCACCATTTTCAAAAACAATTACC
Found at i:472826 original size:29 final size:28
Alignment explanation
Indices: 472765--472850 Score: 70
Period size: 29 Copynumber: 3.1 Consensus size: 28
472755 ATCATTTTCA
* *** *
472765 AAAACAATTACCAAAATATCACCATTTTC
1 AAAA-AATTACTAAAATATCATTTTTTTT
472794 AAAATAATTACTAAAATATCATTTTTTTT
1 AAAA-AATTACTAAAATATCATTTTTTTT
* *
472823 AAAAAAATA-TGAAAT-T-ATTTTTTTT
1 AAAAAATTACTAAAATATCATTTTTTTT
472848 AAA
1 AAA
472851 TTACGAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 12 0.24
26 1 0.02
27 5 0.10
28 4 0.08
29 27 0.55
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (28 bp):
AAAAAATTACTAAAATATCATTTTTTTT
Found at i:478866 original size:769 final size:774
Alignment explanation
Indices: 477381--478912 Score: 2668
Period size: 769 Copynumber: 2.0 Consensus size: 774
477371 CCACGTCCTG
477381 TCCTACGACCTCTAGCAGCACTCATTGTTGGATCTATCAGGCTCTACAGAAAGAATTTGAAACAT
1 TCCTACGACCTCTAGCAGCACTCATTGTTGGATCTATCAGGCTCTACAGAAAGAATTTGAAACAT
*
477446 ATGTCAGATTAGCATCAGGATCTCGAGAGAACTTTAAATCATAAAATAAGGTGACATTTTTTTTC
66 ATGTCAGATTAGCATAAGGATCTCGAGAGAACTTTAAATCATAAAATAAGGTGACATTTTTTTTC
*
477511 TTCAAAATTTCTTAAAAATAGAAAGTTTAGGACCCATATACAGTCCGAGTGTTTAAAACCGAAAA
131 TTCAAAATTTCTTAAAAATACAAAGTTTAGGACCCATATACAGTCCGAGTGTTTAAAACCGAAAA
* *
477576 CTCTGATACCACCAAATGTAACCCCCCAGACCCGGTTTGTAAGTTAGACCCAAACCTAATTGGTC
196 CTCGGATACCACCAAATGTAACCCCCCAGACCCGGTCTGTAAGTTAGACCCAAACCTAATTGGTC
477641 ACATATCCCATTCAGAGTTTTTTTTTAAATTCTTAAAATACATTAGATATAATATAGAACAAAAT
261 ACATATCCCATTCAGAG-TTTTTTTTAAATTCTTAAAATACATTAGATATAATATAGAACAAAAT
*
477706 ATTAATAATTCAGACATATCCAAAACGATAGCAAATACATGTCACCAAACATAACCGAAAAACAT
325 ATTAATAATACAGACATATCCAAAACGATAGCAAATACATGTCACCAAACATAACCGAAAAACAT
* *
477771 ATAGAGATATATGTTCGTACAAAATAAGTAGTTGATCTCCCCTGATGCCAAATATGCTAGCTTAC
390 ATAGAGATATACGTTCATACAAAATAAGTAGTTGATCTCCCCTGATGCCAAATATGCTAGCTTAC
* * *
477836 GGTCAGCTGTTATCTGAAAAAGGGTAAAAACTATATAATGAGCTAAAAAGCCCAGTGTGCTCCAT
455 GGTCAACTGTTATCTGAAAAAGGGTAAAAACTACATAATGAGCTAAAAAGCCCAATGTGCTCCAT
*
477901 ACAGTATAAAAAACATACAGATAAAATCTTTCAATAAAATCGGTTTATGCAACATGTTTTTATTT
520 ACAGTATAAAAAACATACAGATAAAATCTTTCAATAAAATCGGTTTATGCAACATGGTTTTATTT
*
477966 TTAAACATGAACACTACCCCCATCCGTTCATATCATAAATGTATAGGTTCCCCAGAACCATACAC
585 TTAAACATGAACACTACCCCCATCCGTTCACATCATAAATGTATAGGTTCCCCAGAACCATACAC
* *
478031 CCAACCGCACATGTCATTTAGACCCTGAGCACAAAGCCGAGAAGTCTGCAGATAATCTTTCTTCA
650 CCAACCGCACATGCCATTTAGACCCTGAGCACAAAGCCGAGAAGTCTGCAGATAATCTTCCTTCA
478096 ACAATACCCCCCAATGACAATATTAAACATGAATATTTTCAAGTGAAATAATATGTCATA
715 ACAATACCCCCCAATGACAATATTAAACATGAATATTTTCAAGTGAAATAATATGTCATA
*
478156 TCCTACGACCTCTATCAGCACTCATTGTTGGATCTATCAGGCTCTACAGAAAGAATTTGAAACAT
1 TCCTACGACCTCTAGCAGCACTCATTGTTGGATCTATCAGGCTCTACAGAAAGAATTTGAAACAT
478221 ATGTCAGATTAGCATAAGTGATCTCGAGAGAACTTTAAATCATAAAATAAGGTGACATTTTTTTT
66 ATGTCAGATTAGCATAAG-GATCTCGAGAGAACTTTAAATCATAAAATAAGGTGACATTTTTTTT
* *
478286 CTTCAAAATTTCTTAAAAATCCAAAGTTTAGGACCCATATACAGTCTGAGTGTTTAAAACCGAAA
130 CTTCAAAATTTCTTAAAAATACAAAGTTTAGGACCCATATACAGTCCGAGTGTTTAAAACCGAAA
* *
478351 GA-TCGGATACCACCAAATGTAA-CCCCCAGACTCGGTCTGTAAGTTAGACCCAAACTTAAGTT-
195 -ACTCGGATACCACCAAATGTAACCCCCCAGACCCGGTCTGTAAGTTAGACCCAAACCTAA-TTG
478413 GTCACATATCCCATTCAGAG-TTTTTTT-AATTCTTAAAATACATTAGATATAATATAGAACAAA
258 GTCACATATCCCATTCAGAGTTTTTTTTAAATTCTTAAAATACATTAGATATAATATAGAACAAA
* *
478476 ATATTAATAATACAGATATATCC-ACACGATAGCAAATACATGTCACCAAACATAACCGAAAAAC
323 ATATTAATAATACAGACATATCCAAAACGATAGCAAATACATGTCACCAAACATAACCGAAAAAC
* * *
478540 ATATATAGATATACGTTCATACAAAATAAGTAGTTGATCTCCCCTTATGCCAAATCTGCTAGCTT
388 ATATAGAGATATACGTTCATACAAAATAAGTAGTTGATCTCCCCTGATGCCAAATATGCTAGCTT
* *
478605 ACGGT-ATACTGTTATCTG-AAAATGGTAAAAGCTACATAATGAGCTAAAAAG-CCAATGTGCTC
453 ACGGTCA-ACTGTTATCTGAAAAAGGGTAAAAACTACATAATGAGCTAAAAAGCCCAATGTGCTC
478667 CATACAGTATAAAAAACATACAGATAAAATCTTTCAATAAAATCGGTTTATGCAACATGGTTTTA
517 CATACAGTATAAAAAACATACAGATAAAATCTTTCAATAAAATCGGTTTATGCAACATGGTTTTA
* *
478732 TTTTTAAACATGAACACTACCCCCATCTGTTCACATCATAAATGTGTAGGTTCCCCAGAACCATA
582 TTTTTAAACATGAACACTACCCCCATCCGTTCACATCATAAATGTATAGGTTCCCCAGAACCATA
* *
478797 CACCCAACCGCACATGCCATTTAGACCTTGAGCACAAAGCCGAGGAGTCTGCAGATAATCTTCCT
647 CACCCAACCGCACATGCCATTTAGACCCTGAGCACAAAGCCGAGAAGTCTGCAGATAATCTTCCT
* *
478862 TCAACAATACCCCCCAATGATAATATTAAACATGAATGTTTTCAAGTGAAA
712 TCAACAATACCCCCCAATGACAATATTAAACATGAATATTTTCAAGTGAAA
478913 ACAATGATTA
Statistics
Matches: 721, Mismatches: 32, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
769 246 0.34
770 31 0.04
771 115 0.16
772 57 0.08
773 7 0.01
775 135 0.19
776 129 0.18
777 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (774 bp):
TCCTACGACCTCTAGCAGCACTCATTGTTGGATCTATCAGGCTCTACAGAAAGAATTTGAAACAT
ATGTCAGATTAGCATAAGGATCTCGAGAGAACTTTAAATCATAAAATAAGGTGACATTTTTTTTC
TTCAAAATTTCTTAAAAATACAAAGTTTAGGACCCATATACAGTCCGAGTGTTTAAAACCGAAAA
CTCGGATACCACCAAATGTAACCCCCCAGACCCGGTCTGTAAGTTAGACCCAAACCTAATTGGTC
ACATATCCCATTCAGAGTTTTTTTTAAATTCTTAAAATACATTAGATATAATATAGAACAAAATA
TTAATAATACAGACATATCCAAAACGATAGCAAATACATGTCACCAAACATAACCGAAAAACATA
TAGAGATATACGTTCATACAAAATAAGTAGTTGATCTCCCCTGATGCCAAATATGCTAGCTTACG
GTCAACTGTTATCTGAAAAAGGGTAAAAACTACATAATGAGCTAAAAAGCCCAATGTGCTCCATA
CAGTATAAAAAACATACAGATAAAATCTTTCAATAAAATCGGTTTATGCAACATGGTTTTATTTT
TAAACATGAACACTACCCCCATCCGTTCACATCATAAATGTATAGGTTCCCCAGAACCATACACC
CAACCGCACATGCCATTTAGACCCTGAGCACAAAGCCGAGAAGTCTGCAGATAATCTTCCTTCAA
CAATACCCCCCAATGACAATATTAAACATGAATATTTTCAAGTGAAATAATATGTCATA
Found at i:479825 original size:29 final size:28
Alignment explanation
Indices: 479783--479864 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
479773 CCATTTTACG
*
479783 AAAATAGCATCATTTTAAAAAAAATGACC
1 AAAATATCA-CATTTTAAAAAAAATGACC
* * * *
479812 AAAATATCACCATTTTCAAAATAATTACT
1 AAAATATCA-CATTTTAAAAAAAATGACC
*
479841 AAAATATCATATTTTAAAAAAAAT
1 AAAATATCACATTTTAAAAAAAAT
479865 TACGAAATTA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 12 0.27
29 32 0.73
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAATATCACATTTTAAAAAAAATGACC
Found at i:479918 original size:29 final size:29
Alignment explanation
Indices: 479892--479961 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
479882 AAAAATTATG
479892 AAAATAACACCCTTTTCAAAATAATTACC
1 AAAATAACACCCTTTTCAAAATAATTACC
* * *
479921 AGAATAGCACCCTTTTCTAAATAATTACC
1 AAAATAACACCCTTTTCAAAATAATTACC
* *
479950 AGAATAGCACCC
1 AAAATAACACCC
479962 GGTCAACGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (29 bp):
AAAATAACACCCTTTTCAAAATAATTACC
Found at i:482915 original size:12 final size:12
Alignment explanation
Indices: 482898--482962 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 12
482888 AAATGGTAAT
482898 AAAAAAATTAAC
1 AAAAAAATTAAC
482910 AAAAAAATTAAC
1 AAAAAAATTAAC
* *
482922 --AAAAAGT-CC
1 AAAAAAATTAAC
*
482931 AACAAAATTAAC
1 AAAAAAATTAAC
*
482943 AAAATAAATTAAT
1 AAAA-AAATTAAC
482956 AAAAAAA
1 AAAAAAA
482963 GTCCAACCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 1 0.02
10 6 0.14
11 5 0.12
12 19 0.45
13 11 0.26
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAAATTAAC
Found at i:482969 original size:36 final size:34
Alignment explanation
Indices: 482901--482986 Score: 120
Period size: 36 Copynumber: 2.5 Consensus size: 34
482891 TGGTAATAAA
*
482901 AAAATTAACAAAA-AAATTAACAAAAAGTCCAAC
1 AAAATTAACAAAATAAATTAAAAAAAAGTCCAAC
482934 AAAATTAACAAAATAAATTAATAAAAAAAGTCCAAC
1 AAAATTAACAAAATAAATT-A-AAAAAAAGTCCAAC
* *
482970 CAAATTGACAAAATAAA
1 AAAATTAACAAAATAAA
482987 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 13 0.28
34 5 0.11
35 1 0.02
36 28 0.60
ACGTcount: A:0.66, C:0.13, G:0.03, T:0.17
Consensus pattern (34 bp):
AAAATTAACAAAATAAATTAAAAAAAAGTCCAAC
Found at i:483457 original size:20 final size:20
Alignment explanation
Indices: 483432--483473 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
483422 TCTAAAAGCC
*
483432 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
483452 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
483472 CA
1 CA
483474 GATGATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:491896 original size:20 final size:20
Alignment explanation
Indices: 491871--491912 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
491861 TCTAAAAGCC
*
491871 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
491891 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
491911 CA
1 CA
491913 GGTAGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:520397 original size:20 final size:20
Alignment explanation
Indices: 520354--520393 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
520344 GATTCTGACT
520354 ATCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
*
520374 ATCGCGTTGCGATTTA-GTA
1 ATCGCATTGCGATTTACGTA
520393 A
1 A
520394 ATCGTAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:521288 original size:24 final size:24
Alignment explanation
Indices: 521261--521314 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
521251 GTATTCAAAA
521261 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
521285 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
521309 TTTGAT
1 TTTGAT
521315 GATTTTTCAG
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:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:523829 original size:19 final size:20
Alignment explanation
Indices: 523787--523830 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
523777 CAATCATCTT
* *
523787 AATGTCTATCGTAATGCGGA
1 AATGACTATCGCAATGCGGA
523807 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAATGCGGA
523826 AATGA
1 AATGA
523831 AAATCGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (20 bp):
AATGACTATCGCAATGCGGA
Found at i:523836 original size:19 final size:19
Alignment explanation
Indices: 523794--523905 Score: 64
Period size: 19 Copynumber: 6.4 Consensus size: 19
523784 CTTAATGTCT
* **
523794 ATCGTAATGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
523814 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
523833 ATCGCAA--C--AA-GAGA
1 ATCGCAATGCGAAATGAAA
*
523847 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
523866 ATTGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
* *
523880 ATCGAAATGCTAAATGAAA
1 ATCGCAATGCGAAATGAAA
523899 ATCGCAA
1 ATCGCAA
523906 CGAGGGAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
14 18 0.26
15 3 0.04
16 2 0.03
17 3 0.04
18 3 0.04
19 32 0.46
20 9 0.13
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:523860 original size:33 final size:33
Alignment explanation
Indices: 523814--523940 Score: 166
Period size: 33 Copynumber: 3.8 Consensus size: 33
523804 GGAAATGACT
* *
523814 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
*
523847 ATCGCAATACGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
* * * *
523880 ATCGAAATGCTAAATGAAAATCGCAACGAGGGA
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
*
523913 ATCGTAA-AGCGAAATGAAAATCGCAACG
1 ATCGCAATA-CGAAATGAAAATCGCAACG
523941 CGAATTTAGT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATACGAAATGAAAATCGCAACGAGAGA
Found at i:523926 original size:66 final size:66
Alignment explanation
Indices: 523814--523940 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
523804 GGAAATGACT
* *
523814 ATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATACGAAATGAAAATTGCAACGAGAG
1 ATCGAAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATACGAAATGAAAATCGCAACGAGAG
523879 A
66 A
* * * *
523880 ATCGAAATGCTAAATGAAAATCGCAACGAGGGAATCGTAA-AGCGAAATGAAAATCGCAACG
1 ATCGAAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATA-CGAAATGAAAATCGCAACG
523941 CGAATTTAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (66 bp):
ATCGAAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATACGAAATGAAAATCGCAACGAGAG
A
Found at i:524005 original size:33 final size:33
Alignment explanation
Indices: 523950--524029 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
523940 GCGAATTTAG
* *
523950 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
* *
523983 TTTCGTGTTGTGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
524016 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
524030 AGTCATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:525591 original size:42 final size:42
Alignment explanation
Indices: 525545--525624 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
525535 CGATGACAGT
* * *
525545 GGCCTCTTGAACTGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACTATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
525587 GGCCTCTTCAACTATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACTATAGGAGGGGACTCTCGAGGAATGA
525625 AAGGTGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (42 bp):
GGCCTCTTCAACTATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:526106 original size:19 final size:18
Alignment explanation
Indices: 526079--526140 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 18
526069 GCAACGAGAG
526079 AATCACAACGGGAAATGAA
1 AATCACAAC-GGAAATGAA
* *
526098 AATCGCAAC-G--A-GAG
1 AATCACAACGGAAATGAA
526112 AATCACAACGCGAAATGAA
1 AATCACAACG-GAAATGAA
*
526131 AATCGCAACG
1 AATCACAACG
526141 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.58
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.10
Consensus pattern (18 bp):
AATCACAACGGAAATGAA
Found at i:526150 original size:14 final size:14
Alignment explanation
Indices: 526064--526152 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
526054 AACGCGAAAT
526064 GAATCGCAACGAGA
1 GAATCGCAACGAGA
*
526078 GAATCACAACGGGAAATGA
1 GAATCGCAAC--G--A-GA
*
526097 AAATCGCAACGAGA
1 GAATCGCAACGAGA
*
526111 GAATCACAACGCGAAATGA
1 GAATCGCAA--CG--A-GA
*
526130 AAATCGCAACGAGA
1 GAATCGCAACGAGA
526144 GAATCGCAA
1 GAATCGCAA
526153 TGCGAAATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 28 0.49
15 2 0.04
16 3 0.05
17 3 0.05
18 2 0.04
19 19 0.33
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:526173 original size:33 final size:33
Alignment explanation
Indices: 526053--526166 Score: 187
Period size: 33 Copynumber: 3.5 Consensus size: 33
526043 ATGACTATCG
526053 CAACGCGAAATG--AATCGCAACGAGAGAATCA
1 CAACGCGAAATGAAAATCGCAACGAGAGAATCA
*
526084 CAACGGGAAATGAAAATCGCAACGAGAGAATCA
1 CAACGCGAAATGAAAATCGCAACGAGAGAATCA
*
526117 CAACGCGAAATGAAAATCGCAACGAGAGAATCG
1 CAACGCGAAATGAAAATCGCAACGAGAGAATCA
*
526150 CAATGCGAAATGAAAAT
1 CAACGCGAAATGAAAAT
526167 TACAACGCGA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 11 0.14
33 66 0.86
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
CAACGCGAAATGAAAATCGCAACGAGAGAATCA
Found at i:526195 original size:19 final size:19
Alignment explanation
Indices: 526173--526235 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
526163 AAATTACAAC
526173 GCGATTAT-AGTGTCGCGTT
1 GCGATTATCA-TGTCGCGTT
* *
526192 GCGATTTTCATTTCGCGTT
1 GCGATTATCATGTCGCGTT
* * *
526211 GCGATTTTCATTTTGCGTT
1 GCGATTATCATGTCGCGTT
526230 GCGATT
1 GCGATT
526236 CTCTCGTTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 39 0.98
20 1 0.03
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (19 bp):
GCGATTATCATGTCGCGTT
Found at i:526262 original size:19 final size:19
Alignment explanation
Indices: 526185--526291 Score: 107
Period size: 19 Copynumber: 5.8 Consensus size: 19
526175 GATTATAGTG
526185 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
526204 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
526223 TTGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
526237 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
**
526256 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
526277 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
526292 AAGTTTCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
14 9 0.13
16 2 0.03
17 3 0.04
19 42 0.60
21 14 0.20
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:526504 original size:94 final size:94
Alignment explanation
Indices: 526358--526737 Score: 620
Period size: 94 Copynumber: 4.1 Consensus size: 94
526348 ATGGATTGCA
* * * *
526358 TTAC-TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
526422 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
526451 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
526516 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
526545 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
526610 TTAACAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
526639 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAA
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* ** *
526703 TTTAGCAGTATTGATAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
526733 TTACT
1 TTACT
526738 AAGCAATCTA
Statistics
Matches: 270, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
93 22 0.08
94 248 0.92
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:526609 original size:17 final size:17
Alignment explanation
Indices: 526587--526619 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
526577 ATACTAACTT
526587 CACAGTGTTAA-AGAATA
1 CACAGT-TTAACAGAATA
526604 CACAGTTTAACAGAAT
1 CACAGTTTAACAGAAT
526620 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.24
Consensus pattern (17 bp):
CACAGTTTAACAGAATA
Found at i:528458 original size:20 final size:20
Alignment explanation
Indices: 528433--528470 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
528423 TCTTTTGGTT
528433 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGCG
**
528453 GAAATGACTATCGCAACG
1 GAAATGAAAATCGCAACG
528471 AGAGAATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGCG
Found at i:528499 original size:33 final size:33
Alignment explanation
Indices: 528453--528534 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
528443 TCGCAACGCG
**
528453 GAAATGACTATCGCAACGAGAGAATCACAACAC
1 GAAATGAAAATCGCAACGAGAGAATCACAACAC
* *
528486 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCACAACAC
528519 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
528535 TGCGATTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCACAACAC
Found at i:528539 original size:19 final size:18
Alignment explanation
Indices: 528433--528539 Score: 59
Period size: 19 Copynumber: 6.1 Consensus size: 18
528423 TCTTTTGGTT
528433 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAA-GC
**
528452 GGAAATGACTATCGCAA-C
1 -GAAATGAAAATCGCAAGC
* * *
528470 G--A-GAGAATCACAACAC
1 GAAATGAAAATCGCAA-GC
528486 GAAATGAAAATCGCAA-C
1 GAAATGAAAATCGCAAGC
*
528503 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAA-GC
528519 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAA-GC
528538 GA
1 GA
528540 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 21
0.68 0.10 0.21
Matches are distributed among these distances:
14 18 0.27
15 2 0.03
16 4 0.06
17 3 0.04
18 3 0.04
19 23 0.34
20 14 0.21
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (18 bp):
GAAATGAAAATCGCAAGC
Found at i:528593 original size:19 final size:20
Alignment explanation
Indices: 528565--528644 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 20
528555 GCGATTATCT
*
528565 CGTTGTGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
*
528584 CGTTGCGATTTTCATTTCTCT
1 CGTTGCGATTTTCATTT-TCG
* **
528605 CGTTGTGATAGTCATTTTTCG
1 CGTTGCGATTTTCA-TTTTCG
*
528626 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTTTCATTTTC
528645 ATGTTGCAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
19 13 0.27
20 7 0.15
21 25 0.52
22 3 0.06
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:528638 original size:42 final size:40
Alignment explanation
Indices: 528562--528642 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
528552 GTTGCGATTA
**
528562 TCTCGTTGTGATTTTCATTTCGCGTTGCGATTTTCATTTC
1 TCTCGTTGTGATAGTCATTTCGCGTTGCGATTTTCATTTC
*
528602 TCTCGTTGTGATAGTCATTTTTCGTGTTGCGATTTTCATTT
1 TCTCGTTGTGATAGTCA--TTTCGCGTTGCGATTTTCATTT
528643 TCATGTTGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.42
42 21 0.58
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (40 bp):
TCTCGTTGTGATAGTCATTTCGCGTTGCGATTTTCATTTC
Found at i:528640 original size:21 final size:20
Alignment explanation
Indices: 528566--528657 Score: 80
Period size: 21 Copynumber: 4.5 Consensus size: 20
528556 CGATTATCTC
* *
528566 GTTGTGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
528585 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
* **
528605 CGTTGTGATAGTCATTTTTCGT
1 -GTTGCGATTTTCA-TTTTCGT
*
528627 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
*
528647 GTTGCAATTTT
1 GTTGCGATTTT
528658 AAGTTTAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
19 12 0.21
20 18 0.31
21 24 0.41
22 4 0.07
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.53
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:529233 original size:20 final size:21
Alignment explanation
Indices: 529210--529287 Score: 97
Period size: 20 Copynumber: 3.8 Consensus size: 21
529200 CGATAGTCAG
*
529210 ATTCACATTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
* *
529230 ATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTA
*
529251 ATTCGCATTGCGATTTACGCA
1 ATTCGCATTGCGATTTACGTA
*
529272 A-TCGCGTTGCGATTTA
1 ATTCGCATTGCGATTTA
529288 GGAAAATCGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 31 0.62
21 19 0.38
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:529297 original size:21 final size:20
Alignment explanation
Indices: 529215--529326 Score: 80
Period size: 21 Copynumber: 5.5 Consensus size: 20
529205 GTCAGATTCA
* *
529215 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACGAAATCG
* * *
529235 CATTGCGATTTTCCTAATTCG
1 CATTGCGA-TTTACGAAATCG
*
529256 CATTGCGATTTACGCAATCG
1 CATTGCGATTTACGAAATCG
* *
529276 CGTTGCGATTTAGGAAAATCG
1 CATTGCGATTTACG-AAATCG
** **
529297 CAACGCGAATTTGGGAAATCG
1 CATTGCG-ATTTACGAAATCG
*
529318 CAATGCGAT
1 CATTGCGAT
529327 AGTCAGAATC
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
20 30 0.41
21 38 0.51
22 6 0.08
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (20 bp):
CATTGCGATTTACGAAATCG
Found at i:529298 original size:41 final size:41
Alignment explanation
Indices: 529215--529298 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
529205 GTCAGATTCA
* * * * *
529215 CATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCG
1 CATTGCGATTTACGCAATCGCATTGCGATTTACCAAAATCG
* **
529256 CATTGCGATTTACGCAATCGCGTTGCGATTTAGGAAAATCG
1 CATTGCGATTTACGCAATCGCATTGCGATTTACCAAAATCG
529297 CA
1 CA
529299 ACGCGAATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
CATTGCGATTTACGCAATCGCATTGCGATTTACCAAAATCG
Found at i:529743 original size:12 final size:12
Alignment explanation
Indices: 529726--529774 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
529716 TAATTATATT
529726 TATTATATAAAA
1 TATTATATAAAA
529738 TATTATA-AAAA
1 TATTATATAAAA
* *
529749 TA-TATTTATAA
1 TATTATATAAAA
529760 TATTA-ATTAAAA
1 TATTATA-TAAAA
529772 TAT
1 TAT
529775 ATTAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 3 0.10
11 11 0.37
12 16 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATTATATAAAA
Found at i:531542 original size:24 final size:22
Alignment explanation
Indices: 531504--531575 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
531494 ACCATTTTAG
*
531504 ATAACAAAATAATAACCATTAT
1 ATAACAGAATAATAACCATTAT
**
531526 ATAACAGAATTATATAA-CATTCGG
1 ATAACAGAA-TA-ATAACCATT-AT
*
531550 ATAATAGAATAATAACCATTAT
1 ATAACAGAATAATAACCATTAT
531572 ATAA
1 ATAA
531576 GGATAACAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 16 0.40
23 12 0.30
24 12 0.30
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACAGAATAATAACCATTAT
Found at i:532660 original size:17 final size:17
Alignment explanation
Indices: 532638--532672 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
532628 TCTTAGATGC
532638 TTGGAAATTGTGTTTTG
1 TTGGAAATTGTGTTTTG
532655 TTGGAAATTGTGTTTTG
1 TTGGAAATTGTGTTTTG
532672 T
1 T
532673 ATCGAATTGA
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:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (17 bp):
TTGGAAATTGTGTTTTG
Found at i:532681 original size:17 final size:17
Alignment explanation
Indices: 532641--532678 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
532631 TAGATGCTTG
*
532641 GAAATTGTGTTTTGTTG
1 GAAATTGTGTTTTGTTC
532658 GAAATTGTGTTTTGTATC
1 GAAATTGTGTTTTGT-TC
532676 GAA
1 GAA
532679 TTGAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (17 bp):
GAAATTGTGTTTTGTTC
Found at i:536849 original size:20 final size:20
Alignment explanation
Indices: 536812--536850 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
536802 AGATTGAGTG
* * *
536812 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
536832 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
536851 AGTTTAGGAG
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:537057 original size:23 final size:21
Alignment explanation
Indices: 537031--537088 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
537021 TTCTCCTGTG
537031 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
537054 GGGGGAATCGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
*
537074 GGGGG-ATCGATTCCC
1 GGGGGAATCGGTTCCC
537089 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 2 0.06
22 3 0.09
23 13 0.39
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:551834 original size:60 final size:60
Alignment explanation
Indices: 551728--551899 Score: 202
Period size: 60 Copynumber: 2.9 Consensus size: 60
551718 ATTTAGATGG
* * * * * *
551728 AATTGGAATATTTAAAAGTTTGAA-GACCAATTTAGAAAGAGTGTCATAGTTTAGGGATAA
1 AATTAGAATATTCAAAA-CTTGAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGGATAA
* * * **
551788 AATTAGAATGTTCAAAACTTTAAGGTCTAATTTAGAATGAGAGTCATAGTTTAGGGATGG
1 AATTAGAATATTCAAAACTTGAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGGATAA
* * *
551848 AATTAGAATATTCAAAAGTTGAAGGACTAATTTAAAATGAGAGTTATAGTTT
1 AATTAGAATATTCAAAACTTGAAGGACTAATTTAGAATGAGAGTCATAGTTT
551900 GAGGACATAT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 90 0.96
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (60 bp):
AATTAGAATATTCAAAACTTGAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGGATAA
Found at i:554370 original size:20 final size:20
Alignment explanation
Indices: 554345--554397 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
554335 TTAGGATTTA
554345 TGCATCGATGCATGGTGTAG
1 TGCATCGATGCATGGTGTAG
554365 TGCATCGATGCATGGTGTAG
1 TGCATCGATGCATGGTGTAG
554385 TGCATCGATGCAT
1 TGCATCGATGCAT
554398 ACCTTCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (20 bp):
TGCATCGATGCATGGTGTAG
Found at i:555017 original size:23 final size:23
Alignment explanation
Indices: 554990--555046 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
554980 ATTATTATAT
*
554990 GGCACTATGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
555013 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
555036 GGCACTACGGT
1 GGCACTACGGT
555047 ACCATGAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:561189 original size:63 final size:64
Alignment explanation
Indices: 561095--561214 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 64
561085 CACTCTTTTA
*
561095 AAATACAAACATCGAATGCCATCGATGCATCGATGCATAAG-G-AGTGCATCGATGCACCCCATT
1 AAATACAAACATCGAATGCCATCGATACATCGATGCAT-AGTGTAGTGCATCGATGCACCCCATT
* ** *
561158 AAATACAAACATCGAATAG-GATTTATACATCGATGCATGGTGTAGTGCATCGATGCA
1 AAATACAAACATCGAAT-GCCATCGATACATCGATGCATAGTGTAGTGCATCGATGCA
561215 TACCTTCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
62 1 0.02
63 33 0.67
64 15 0.31
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (64 bp):
AAATACAAACATCGAATGCCATCGATACATCGATGCATAGTGTAGTGCATCGATGCACCCCATT
Found at i:568063 original size:63 final size:64
Alignment explanation
Indices: 567948--568088 Score: 153
Period size: 63 Copynumber: 2.2 Consensus size: 64
567938 ATGCACATGA
* ** * * *
567948 AGTGCATCGATGCACTCTTTTAAAATACAACATCGAATGCCATTGATGCATCGATGTATAAG-G-
1 AGTGCATCGATGCACCCCATTAAAATACAACATCGAATACCATTGATACATCGATGCAT-AGTGT
** * *
568011 AGTGCATCGATGCACCCCATT-AAATACAAACATCGAATATGATTTATACATCGATGCATGGTGT
1 AGTGCATCGATGCACCCCATTAAAATAC-AACATCGAATACCATTGATACATCGATGCATAGTGT
568075 AGTGCATCGATGCA
1 AGTGCATCGATGCA
568089 TGGTGTAGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
62 7 0.11
63 44 0.68
64 14 0.22
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCACCCCATTAAAATACAACATCGAATACCATTGATACATCGATGCATAGTGT
Found at i:568084 original size:20 final size:20
Alignment explanation
Indices: 568059--568149 Score: 182
Period size: 20 Copynumber: 4.5 Consensus size: 20
568049 ATGATTTATA
568059 CATCGATGCATGGTGTAGTG
1 CATCGATGCATGGTGTAGTG
568079 CATCGATGCATGGTGTAGTG
1 CATCGATGCATGGTGTAGTG
568099 CATCGATGCATGGTGTAGTG
1 CATCGATGCATGGTGTAGTG
568119 CATCGATGCATGGTGTAGTG
1 CATCGATGCATGGTGTAGTG
568139 CATCGATGCAT
1 CATCGATGCAT
568150 ACCTTCATTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (20 bp):
CATCGATGCATGGTGTAGTG
Found at i:568776 original size:23 final size:23
Alignment explanation
Indices: 568742--568787 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
568732 CATTATTATA
*
568742 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
568765 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
568788 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:570865 original size:16 final size:16
Alignment explanation
Indices: 570844--570876 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
570834 TTAAAACATG
570844 TAAACTCATAAAAACA
1 TAAACTCATAAAAACA
570860 TAAACTCATAAAAACA
1 TAAACTCATAAAAACA
570876 T
1 T
570877 TTATCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAACTCATAAAAACA
Found at i:576193 original size:10 final size:10
Alignment explanation
Indices: 576178--576236 Score: 75
Period size: 10 Copynumber: 5.7 Consensus size: 10
576168 ATATGATTAC
576178 TACTTATATA
1 TACTTATATA
576188 TACTTATATA
1 TACTTATATA
*
576198 TACATATATA
1 TACTTATATA
576208 TA-TATATATA
1 TACT-TATATA
576218 TACTTATGTATA
1 TACTTA--TATA
576230 TACTTAT
1 TACTTAT
576237 CATGTATAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 32 0.74
11 1 0.02
12 10 0.23
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (10 bp):
TACTTATATA
Found at i:576199 original size:12 final size:11
Alignment explanation
Indices: 576178--576253 Score: 70
Period size: 10 Copynumber: 7.0 Consensus size: 11
576168 ATATGATTAC
576178 TACT-TATATA
1 TACTATATATA
576188 TACT-TATATA
1 TACTATATATA
576198 TAC-ATATATA
1 TACTATATATA
576208 TA-TATATATA
1 TACTATATATA
*
576218 TACTTATGTATA
1 TAC-TATATATA
*
576230 TACTTATCATGTA
1 TAC-TAT-ATATA
*
576243 TAGTATATATA
1 TACTATATATA
576254 ACTCTCTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
10 30 0.54
11 4 0.07
12 17 0.30
13 5 0.09
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (11 bp):
TACTATATATA
Found at i:576231 original size:2 final size:2
Alignment explanation
Indices: 576182--576219 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
576172 GATTACTACT
*
576182 TA TA TA TA CT- TA TA TA TA CA 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
576220 CTTATGTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:576601 original size:16 final size:16
Alignment explanation
Indices: 576572--576621 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
576562 GTATTATTTT
576572 TTAAATTA-AATTTGA
1 TTAAATTATAATTTGA
576587 TTAAATTATAATTTGA
1 TTAAATTATAATTTGA
*
576603 TTAGATTATAATTTGA
1 TTAAATTATAATTTGA
576619 TTA
1 TTA
576622 GTATTATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 8 0.24
16 25 0.76
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
TTAAATTATAATTTGA
Found at i:576622 original size:16 final size:16
Alignment explanation
Indices: 576576--576628 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
576566 TATTTTTTAA
*
576576 ATTA-AATTTGATTAA
1 ATTATAATTTGATTAG
576591 ATTATAATTTGATTAG
1 ATTATAATTTGATTAG
576607 ATTATAATTTGATTAG
1 ATTATAATTTGATTAG
576623 TATTAT
1 -ATTAT
576629 GTATCATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 4 0.11
16 26 0.74
17 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
ATTATAATTTGATTAG
Found at i:592094 original size:40 final size:40
Alignment explanation
Indices: 592049--592128 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
592039 TGTTGTTTCT
592049 GTAATAGATAAATGAAAAGGTGAAGGAGTTATTGTCTTTA
1 GTAATAGATAAATGAAAAGGTGAAGGAGTTATTGTCTTTA
*
592089 GTAATAGATAAATGACAAGGTGAAGGAGTTATTGTCTTTA
1 GTAATAGATAAATGAAAAGGTGAAGGAGTTATTGTCTTTA
592129 CTAAAGTAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (40 bp):
GTAATAGATAAATGAAAAGGTGAAGGAGTTATTGTCTTTA
Found at i:593441 original size:53 final size:53
Alignment explanation
Indices: 593382--593493 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
593372 TGCATTGGTA
593382 ATGCATCGATGCAATCTTTTAAAATAGAAACATCGAATGCAATTAGTGCATCG
1 ATGCATCGATGCAATCTTTTAAAATAGAAACATCGAATGCAATTAGTGCATCG
*
593435 ATGCATCGATGCACTCTTTTAAAATAGAAACATCGAATGCAATTAGTGCATCG
1 ATGCATCGATGCAATCTTTTAAAATAGAAACATCGAATGCAATTAGTGCATCG
593488 ATGCAT
1 ATGCAT
593494 AAGTCATGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (53 bp):
ATGCATCGATGCAATCTTTTAAAATAGAAACATCGAATGCAATTAGTGCATCG
Found at i:595083 original size:151 final size:151
Alignment explanation
Indices: 594898--595203 Score: 551
Period size: 151 Copynumber: 2.0 Consensus size: 151
594888 GGGTAGAGGG
* *
594898 TCTACGCGGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACA
1 TCTACGCGGGTCATTCGAGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACA
* * *
594963 CATACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATTGACATTA
66 CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTAGTCCTTATGGACATTA
595028 TTATATGGCACTACGGTGCAAT
131 TTATATGGCA-TACGGTGCAAT
595050 TCTACGC-GGTCATTCGAGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACA
1 TCTACGCGGGTCATTCGAGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACA
595114 CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTAGTCCTTATGGACATTA
66 CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTAGTCCTTATGGACATTA
595179 TTATATGGCATACGGTGCAAT
131 TTATATGGCATACGGTGCAAT
595200 TCTA
1 TCTA
595204 ACGTGGCACT
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
150 15 0.10
151 127 0.85
152 7 0.05
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (151 bp):
TCTACGCGGGTCATTCGAGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACA
CATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTAGTCCTTATGGACATTA
TTATATGGCATACGGTGCAAT
Found at i:597016 original size:23 final size:23
Alignment explanation
Indices: 596986--597032 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
596976 GGAACCAGTC
596986 TGAATCCTATATGCAATCGGAAG
1 TGAATCCTATATGCAATCGGAAG
*
597009 TGAATCCTCTATGCAATCGGAAG
1 TGAATCCTATATGCAATCGGAAG
597032 T
1 T
597033 TCGATCCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
TGAATCCTATATGCAATCGGAAG
Found at i:602002 original size:149 final size:150
Alignment explanation
Indices: 601824--602129 Score: 560
Period size: 151 Copynumber: 2.0 Consensus size: 150
601814 GGGTAGAGGG
* *
601824 TCTACGCGGTCCTTCGGG-ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
1 TCTACGCGGTCATTCGGGAATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACA
* *
601888 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAGTAATATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATT
601953 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
601973 TCTACGCGGTCATTCGGGATATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCATTCGGGA-ATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACAC
602038 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
65 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
602103 TATATGGCACTACGGTGCAAT
130 TATATGGCACTACGGTGCAAT
602124 TCTACG
1 TCTACG
602130 TGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 17 0.11
151 134 0.89
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (150 bp):
TCTACGCGGTCATTCGGGAATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATT
ATATGGCACTACGGTGCAAT
Found at i:602141 original size:23 final size:23
Alignment explanation
Indices: 602107--602152 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
602097 CATTATTATA
*
602107 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
602130 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
602153 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:603044 original size:83 final size:83
Alignment explanation
Indices: 602910--603075 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
602900 ATATTCTAAC
*
602910 TATTGCCATCCTTTCCTGATTGCTTACTGCTTTACTTTCACTGCTTTGACAGGAGACATGCATCT
1 TATTGCCATCCTTTCCTGATTGCTTACTGCTTTACTTTAACTGCTTTGACAGGAGACATGCATCT
602975 CAAATCCAATTGAATATT
66 CAAATCCAATTGAATATT
602993 TATTGCCATCCTTTCCTGATTGCTTACTGCTTTACTTTAACTGCTTTGACAGGAGACATGCATCT
1 TATTGCCATCCTTTCCTGATTGCTTACTGCTTTACTTTAACTGCTTTGACAGGAGACATGCATCT
*
603058 CGAATCCAATTGAATATT
66 CAAATCCAATTGAATATT
603076 GTGAAGGACT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (83 bp):
TATTGCCATCCTTTCCTGATTGCTTACTGCTTTACTTTAACTGCTTTGACAGGAGACATGCATCT
CAAATCCAATTGAATATT
Found at i:607592 original size:2 final size:2
Alignment explanation
Indices: 607587--607614 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
607577 AAAAAAAAAA
607587 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
607615 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:607619 original size:2 final size:2
Alignment explanation
Indices: 607614--607644 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
607604 TATATATATA
607614 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
607645 TGTATATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:608087 original size:2 final size:2
Alignment explanation
Indices: 608077--608143 Score: 109
Period size: 2 Copynumber: 33.5 Consensus size: 2
608067 CAAAGAAAAA
*
608077 AT AT TT AT AT AT GA- 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
608119 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 A
608144 AGGGTAGGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.97
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:619889 original size:23 final size:23
Alignment explanation
Indices: 619857--619924 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
619847 TAAACCAACG
* * *
619857 TTAAACAAATATTTTCGTGAATA
1 TTAAATAAATATGTTCGTGAACA
**
619880 TTAAATAAATATGTTCACGAACA
1 TTAAATAAATATGTTCGTGAACA
*
619903 TTAAATAAACATGTTCGTGAAC
1 TTAAATAAATATGTTCGTGAAC
619925 GCTAAACGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (23 bp):
TTAAATAAATATGTTCGTGAACA
Found at i:623409 original size:83 final size:84
Alignment explanation
Indices: 623289--623458 Score: 227
Period size: 83 Copynumber: 2.0 Consensus size: 84
623279 TTTTATTGAT
* * * * *
623289 AGATAACCCTTCTTGCCTTGGGCTATGCTGTAGATGATGTGCC-TAAGAGCTAAGCGTAGTCGAA
1 AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCAT-AGAGCTAAGCGTAGTCGAA
*
623353 CTCGAAGGTC-TTTGTTGGC
65 CTCAAAGGTCTTTTGTTGGC
* * * *
623372 AGATAACCCTTCTCGACTTGAGTTATGCTGCAAATGATGTGCCATTGAGCTGAGCGTAGTCGAAT
1 AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCATAGAGCTAAGCGTAGTCGAAC
623437 TCAAAGGTCTTTTGTTGGC
66 TCAAAGGTCTTTTGTTGGC
623456 AGA
1 AGA
623459 CACTCCTTCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
83 62 0.83
84 13 0.17
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (84 bp):
AGATAACCCTTCTCGACTTGAGCTATGCTGCAAATGATGTGCCATAGAGCTAAGCGTAGTCGAAC
TCAAAGGTCTTTTGTTGGC
Found at i:624006 original size:210 final size:211
Alignment explanation
Indices: 623636--625058 Score: 2343
Period size: 210 Copynumber: 6.7 Consensus size: 211
623626 TCCAAGTAAG
* * * * * * *
623636 TTGCGTTGTTTCGAGGCCAATATCCTTCGCTGCGAAGTTGAAATTGACTCTGAAACTG-GAAAGT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA--
623700 GTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
64 -TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
* * * *
623765 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCC
128 TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCC
623829 CTTCGTCGTGAAGTTGAAC
193 CTTCGTCGTGAAGTTGAAC
* * * *
623848 TTGCGTTGTCTAGAGTCCAATAACCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
623913 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
623978 TTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTCGTTTATTGACAACCAGCGGTCCCTT
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTT
624043 CGTCGTGAAGTTGAAC
196 CGTCGTGAAGTTGAAC
*
624059 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-A
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* *
624123 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
624188 TTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTT
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTT
624253 CGTCGTGAAGTTGAAC
196 CGTCGTGAAGTTGAAC
*
624269 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-AT
* *
624334 GATTATTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCCAATATC
65 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
*
624398 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCT
130 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCT
624463 TCGTCGTGAAGTTGAAC
195 TCGTCGTGAAGTTGAAC
*
624480 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-A
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* *
624544 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * * *
624609 TTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTT
131 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTT
624674 CGTCGTGAAGTTGAAC
196 CGTCGTGAAGTTGAAC
*
624690 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-AT
* * *
624755 GATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATC
65 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
*
624820 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCT
130 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCT
624885 TCGTCGTGAAGTTGAAC
195 TCGTCGTGAAGTTGAAC
*
624902 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-AT
* *
624967 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
65 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
625032 CTTCGTTGTGAAGTTGAAATTGGCTCT
130 CTTCGTTGTGAAGTTGAAATTGGCTCT
625059 AAAGGCTGTA
Statistics
Matches: 1143, Mismatches: 61, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
209 32 0.03
210 469 0.41
211 265 0.23
212 373 0.33
213 4 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (211 bp):
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTT
CGTCGTGAAGTTGAAC
Found at i:624068 original size:106 final size:106
Alignment explanation
Indices: 623636--625058 Score: 2349
Period size: 106 Copynumber: 13.5 Consensus size: 106
623626 TCCAAGTAAG
* * * * * * *
623636 TTGCGTTGTTTCGAGGCCAATATCCTTCGCTGCGAAGTTGAAATTGACTCTGAAACTG-GAAAGT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGT
*
623700 GTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
65 -TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * *
623743 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-AT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
623807 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * * * *
623848 TTGCGTTGTCTAGAGTCCAATAACCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-AT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
623912 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * * * *
623953 TTACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTC
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
624018 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
624059 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--A
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* *
624122 ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * * * *
624163 ATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624228 ATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624269 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624334 GATTATTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624374 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624439 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
624480 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--A
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* *
624543 ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * * * *
624584 ATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624649 ATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624690 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624755 GATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
624796 TTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624861 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624902 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
624967 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
625008 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
625059 AAAGGCTGTA
Statistics
Matches: 1245, Mismatches: 64, Indels: 15
0.94 0.05 0.01
Matches are distributed among these distances:
104 191 0.15
105 303 0.24
106 697 0.56
107 53 0.04
108 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (106 bp):
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
GTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
Found at i:624486 original size:421 final size:422
Alignment explanation
Indices: 623636--625058 Score: 2413
Period size: 421 Copynumber: 3.4 Consensus size: 422
623626 TCCAAGTAAG
* * * * * * *
623636 TTGCGTTGTTTCGAGGCCAATATCCTTCGCTGCGAAGTTGAAATTGACTCTGAAACTG-GAAAGT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA--
* * *
623700 GTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
64 --ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATA
* * * * * * * *
623765 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCC
127 TCCTTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCC
* *
623829 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAACCTTCGTTGTGAAGTTGAAATTG
192 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
* * * * * *
623894 ACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACG
257 GCTCTGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * * * *
623958 TTGTCTGGAGTCCAATATCCTTCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTCGTTTA
322 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTA
624023 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
387 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624059 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
624124 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCT
66 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCT
624189 TCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTC
131 TCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTC
624254 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
196 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
624319 TGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGT
261 TGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
624383 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGA
326 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGA
624448 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
391 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
624480 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
624545 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCT
66 TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCT
624610 TCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTC
131 TCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTC
624675 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
196 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
624740 TGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
261 TGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
624805 TTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGA
326 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGA
624870 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
391 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
**
624902 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
* * *
624967 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
66 --TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATC
* *
625032 CTTCGTTGTGAAGTTGAAATTGGCTCT
129 CTTCGATGTGAAGTCGAAATTGGCTCT
625059 AAAGGCTGTA
Statistics
Matches: 955, Mismatches: 39, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
420 95 0.10
421 513 0.54
422 207 0.22
423 51 0.05
424 89 0.09
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (422 bp):
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAAT
TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCT
TCGATGTGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTC
GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
TGAAATTGAGAAGTTGATTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGA
CAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
Found at i:631999 original size:2 final size:2
Alignment explanation
Indices: 631992--632024 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
631982 CCAAATAAAC
631992 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
632025 GACACCAAAT
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:632480 original size:20 final size:20
Alignment explanation
Indices: 632457--632507 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
632447 TTCGACCATC
632457 GTGAATAGTGATCGATGGTG
1 GTGAATAGTGATCGATGGTG
632477 GTGAATAGTGATCGATGGTG
1 GTGAATAGTGATCGATGGTG
632497 GTGAATAGTGA
1 GTGAATAGTGA
632508 CCGACAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.04, G:0.39, T:0.29
Consensus pattern (20 bp):
GTGAATAGTGATCGATGGTG
Found at i:632517 original size:20 final size:20
Alignment explanation
Indices: 632457--632535 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
632447 TTCGACCATC
* *
632457 GTGAATAGTGATCGATGGTG
1 GTGAATAGTGACCGACGGTG
* *
632477 GTGAATAGTGATCGATGGTG
1 GTGAATAGTGACCGACGGTG
*
632497 GTGAATAGTGACCGACAGTG
1 GTGAATAGTGACCGACGGTG
*
632517 GTCGGAATAGTTACCGACG
1 GT--GAATAGTGACCGACG
632536 ATGACGGTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
20 39 0.75
22 13 0.25
ACGTcount: A:0.27, C:0.11, G:0.37, T:0.25
Consensus pattern (20 bp):
GTGAATAGTGACCGACGGTG
Found at i:633118 original size:23 final size:23
Alignment explanation
Indices: 633086--633132 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
633076 TTTTTAGAAA
633086 TTAATATTTTCTT-ATTTTTATT
1 TTAATATTTTCTTAATTTTTATT
633108 TTAATATTTTTCTTAATTTTTATT
1 TTAATA-TTTTCTTAATTTTTATT
633132 T
1 T
633133 ATTTCTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 10 0.43
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTAATATTTTCTTAATTTTTATT
Found at i:633317 original size:12 final size:12
Alignment explanation
Indices: 633300--633326 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
633290 GAATTGAATT
633300 TTTAAATTTCAA
1 TTTAAATTTCAA
633312 TTTAAATTTCAA
1 TTTAAATTTCAA
633324 TTT
1 TTT
633327 TCGTAATTAA
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:633487 original size:15 final size:16
Alignment explanation
Indices: 633448--633489 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
633438 AACGCATACC
*
633448 AATTTTTTTGTCTTAAA
1 AATTATTTT-TCTTAAA
*
633465 AATGATTTTTCTT-AA
1 AATTATTTTTCTTAAA
633480 AATTATTTTT
1 AATTATTTTT
633490 AAAAAGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 11 0.50
16 4 0.18
17 7 0.32
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (16 bp):
AATTATTTTTCTTAAA
Found at i:634803 original size:18 final size:18
Alignment explanation
Indices: 634780--634815 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
634770 AAACGTTTTT
634780 TTAATTTTAATAAAAATA
1 TTAATTTTAATAAAAATA
*
634798 TTAATTTTAATTAAAATA
1 TTAATTTTAATAAAAATA
634816 ACAAATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTTTAATAAAAATA
Found at i:636204 original size:110 final size:109
Alignment explanation
Indices: 636057--636293 Score: 250
Period size: 109 Copynumber: 2.2 Consensus size: 109
636047 ATCACTACAC
* * *
636057 ATGACTAAAATGCAAAAATACGCTTAAATAAGGGGGACTAAACAACAAA-TATTCC-AATAAACA
1 ATGACCAAAATGCAAAAATACGCTTAAATAAGAGGGACTAAA-AACAAATTA-ACCAAATAAACA
*
636120 CAT-A-ACATTCTAGAAAAAAGGGTAAATAACAATTTTGGTCCTTGTAG
64 CATAACACATT-T--AAAAAAGGGTAAATAACAATTTTGGTCATTGTAG
* * * * * * * *
636167 ATGACCAAAATGTAAAAATATGC-TAAACTTAGAGGGACTAAATAGAAATTAACCAAATCAATAT
1 ATGACCAAAATGCAAAAATACGCTTAAA-TAAGAGGGACTAAAAACAAATTAACCAAATAAACAC
*
636231 ATAACACATTTAAAAAAGGGTAAATACCAATTTTGGTCATTGTAG
65 ATAACACATTTAAAAAAGGGTAAATAACAATTTTGGTCATTGTAG
* *
636276 GTGACCAAAATACAAAAA
1 ATGACCAAAATGCAAAAA
636294 AGGCTAAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
109 57 0.54
110 42 0.40
111 2 0.02
112 5 0.05
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (109 bp):
ATGACCAAAATGCAAAAATACGCTTAAATAAGAGGGACTAAAAACAAATTAACCAAATAAACACA
TAACACATTTAAAAAAGGGTAAATAACAATTTTGGTCATTGTAG
Done.