Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_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: 1549336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:283437 original size:29 final size:28
Alignment explanation
Indices: 283356--283439 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
283346 GGCTGCTGGA
* *
283356 AACCGGTTTAACCGGTTTTGACCGGTTTC
1 AACCGGTTTGACCGG-TTTGACCGGTCTC
* * *
283385 AACCGGTTCGAATCGGTTTGACCGGTCTG
1 AACCGGTTTG-ACCGGTTTGACCGGTCTC
*
283414 AACCGGTTTGACCGGTCTGAACCGGT
1 AACCGGTTTGACCGGTTTG-ACCGGT
283440 TTGATCGGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 7 0.16
29 34 0.76
30 4 0.09
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (28 bp):
AACCGGTTTGACCGGTTTGACCGGTCTC
Found at i:283448 original size:9 final size:9
Alignment explanation
Indices: 283357--283454 Score: 79
Period size: 10 Copynumber: 10.3 Consensus size: 9
283347 GCTGCTGGAA
*
283357 ACCGGTTTA
1 ACCGGTTTG
283366 ACCGGTTTTG
1 ACCGG-TTTG
*
283376 ACCGGTTTCA
1 ACCGGTTT-G
*
283386 ACCGGTTCG
1 ACCGGTTTG
*
283395 AATCGGTTTG
1 -ACCGGTTTG
*
283405 ACCGGTCTG
1 ACCGGTTTG
283414 AACCGGTTTG
1 -ACCGGTTTG
*
283424 ACCGGTCTG
1 ACCGGTTTG
283433 AACCGGTTTG
1 -ACCGGTTTG
* *
283443 ATCGGTCTG
1 ACCGGTTTG
283452 ACC
1 ACC
283455 TAACCCGACC
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
9 32 0.46
10 38 0.54
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:283476 original size:22 final size:22
Alignment explanation
Indices: 283457--283515 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
283447 GTCTGACCTA
283457 ACCCGACCGTTGACCCGACCCG
1 ACCCGACCGTTGACCCGACCCG
*
283479 ATCCGACCGTTGACCCGACCCG
1 ACCCGACCGTTGACCCGACCCG
283501 ACCCGACCGTTGACC
1 ACCCGACCGTTGACC
283516 GTTGACCGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.12
Consensus pattern (22 bp):
ACCCGACCGTTGACCCGACCCG
Found at i:285415 original size:17 final size:17
Alignment explanation
Indices: 285377--285415 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
285367 GATAGTATAA
*
285377 TTTATTTATAATTTCAT
1 TTTATTTATAATGTCAT
* *
285394 GTTATTTATAATGTGAT
1 TTTATTTATAATGTCAT
285411 TTTAT
1 TTTAT
285416 ATTGATGGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (17 bp):
TTTATTTATAATGTCAT
Found at i:286768 original size:35 final size:34
Alignment explanation
Indices: 286683--286774 Score: 157
Period size: 34 Copynumber: 2.7 Consensus size: 34
286673 TGAAAGTATT
*
286683 AAAATGGTTTTCAAGTTTGGTAACCAACTTTGAA
1 AAAATGGTTTTCAAGTTTGGTAACCAACTTCGAA
*
286717 AAAATAGTTTTCAAGTTTGGTAACCAACTTCGAA
1 AAAATGGTTTTCAAGTTTGGTAACCAACTTCGAA
286751 AAAATGGTTTTCAAAGTTTGGTAA
1 AAAATGGTTTTC-AAGTTTGGTAA
286775 ATGTTTCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 43 0.80
35 11 0.20
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (34 bp):
AAAATGGTTTTCAAGTTTGGTAACCAACTTCGAA
Found at i:286818 original size:22 final size:21
Alignment explanation
Indices: 286778--286819 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
286768 TTGGTAAATG
*
286778 TTTCTTTGAAAATGATTTTTA
1 TTTCTTTGAAAAAGATTTTTA
286799 TTTCTTTGAAAAAGATTTTTA
1 TTTCTTTGAAAAAGATTTTTA
286820 AAGTTTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTCTTTGAAAAAGATTTTTA
Found at i:286872 original size:37 final size:35
Alignment explanation
Indices: 286799--286883 Score: 109
Period size: 37 Copynumber: 2.4 Consensus size: 35
286789 ATGATTTTTA
* *
286799 TTTCTTTGAAAAAGATTTTTAAAGTTTGGTAAATG
1 TTTCTTTGAAAAATATTTTTAAAGTTTGATAAATG
*
286834 TTTCTTTGAAAAATAGTTTTTCAAAGTTTGATAGATG
1 TTTCTTTGAAAAATA-TTTTT-AAAGTTTGATAAATG
*
286871 TTT-GTTGAAAAAT
1 TTTCTTTGAAAAAT
286884 GATAATGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 14 0.32
36 14 0.32
37 16 0.36
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (35 bp):
TTTCTTTGAAAAATATTTTTAAAGTTTGATAAATG
Found at i:291411 original size:37 final size:36
Alignment explanation
Indices: 291312--291430 Score: 145
Period size: 35 Copynumber: 3.3 Consensus size: 36
291302 TGGTAACCAA
291312 CTTTGAAAAA-ACGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA--GTTTTCAAAGTTTGGTAAATGTTT
* *
291349 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
* *
291384 CTTTGAAAAATAATTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-AGTTTTCAAAGTTTGGTAAATGTTT
*
291421 -GTTGAAAAAT
1 CTTTGAAAAAT
291431 GATAATGGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
35 28 0.39
36 18 0.25
37 26 0.36
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:291431 original size:72 final size:69
Alignment explanation
Indices: 291285--291428 Score: 175
Period size: 72 Copynumber: 2.1 Consensus size: 69
291275 TGAAAGTATT
* *
291285 AAAATGGTTTTCAAGTTTGGTAACCAACTTTGAAAAAACGGTTTTCAAAGTTTGGTAAATGTTTC
1 AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAACAGTTTTCAAAGTTTGGTAAATGTTTC
*
291350 TTTG
66 GTTG
* * * *
291354 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTGAAAAATA-ATTTTTCAAAGTTTGGTAGATG
1 AAAATGGTTTTC-AAGTTTGGTAAACA--ACTTTGAAAAA-ACAGTTTTCAAAGTTTGGTAAATG
291418 TTT-GTTG
62 TTTCGTTG
291425 AAAA
1 AAAA
291429 ATGATAATGG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
69 12 0.19
70 12 0.19
71 7 0.11
72 32 0.50
73 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (69 bp):
AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAACAGTTTTCAAAGTTTGGTAAATGTTTC
GTTG
Found at i:319514 original size:2 final size:2
Alignment explanation
Indices: 319507--319531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
319497 TCCAAACTTT
319507 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
319532 GTAGACATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:326637 original size:93 final size:93
Alignment explanation
Indices: 326478--326665 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 93
326468 GCACTTCACT
*
326478 AGAACGACAATCAATGTTAGCAGATTGACTTAAATACAACATGTTTTGATAGTGATACTAGATGT
1 AGAACGACAATCAATGTTAGCAGATTGACTTAAATACAACATGTTTTGATAGGGATACTAGATGT
* *
326543 GATGGTTTAATAAGTTTTTAGTAGTGCA
66 GATAGTTTAATAAGTTTTTAATAGTGCA
*
326571 AGAACGACAATCAATGTTAGCAGATTGACTTAAATGCAACATGTTTTGATAGGGATACTAGATGT
1 AGAACGACAATCAATGTTAGCAGATTGACTTAAATACAACATGTTTTGATAGGGATACTAGATGT
*
326636 GATAGTTTAATAAGTTTTTAATTGTGCA
66 GATAGTTTAATAAGTTTTTAATAGTGCA
326664 AG
1 AG
326666 TTATAATAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (93 bp):
AGAACGACAATCAATGTTAGCAGATTGACTTAAATACAACATGTTTTGATAGGGATACTAGATGT
GATAGTTTAATAAGTTTTTAATAGTGCA
Found at i:329590 original size:19 final size:19
Alignment explanation
Indices: 329519--329589 Score: 124
Period size: 19 Copynumber: 3.7 Consensus size: 19
329509 TTGGACTCTC
329519 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
329538 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
329557 AGTGCATCGGTGCATTAAG
1 AGTGCATCGGTGCACTAAG
*
329576 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
329590 TGAAATGCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:329733 original size:19 final size:19
Alignment explanation
Indices: 329709--329764 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
329699 AATTAATTCC
329709 ATGGTGCATCGATGCATGG
1 ATGGTGCATCGATGCATGG
329728 ATGGTGCATCGATGCATGG
1 ATGGTGCATCGATGCATGG
*
329747 ATTGGTGCATCGGTGCAT
1 A-TGGTGCATCGATGCAT
329765 AACTTTGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.29
Consensus pattern (19 bp):
ATGGTGCATCGATGCATGG
Found at i:330676 original size:18 final size:18
Alignment explanation
Indices: 330650--330687 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
330640 TATTCTCCAG
*
330650 CTCAGACTATCATTATTT
1 CTCAAACTATCATTATTT
330668 CTCAAACTATCATTATTT
1 CTCAAACTATCATTATTT
330686 CT
1 CT
330688 TTAATGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.45
Consensus pattern (18 bp):
CTCAAACTATCATTATTT
Found at i:338207 original size:38 final size:39
Alignment explanation
Indices: 338157--338239 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 39
338147 TAACCTATTG
338157 TTATTTGATCCATTGAAAGTTTGTAGGAAAATACTTAAT
1 TTATTTGATCCATTGAAAGTTTGTAGGAAAATACTTAAT
338196 TTATTT-ATCCATTGAAAGTTTGTAGGAAAATACTTAAT
1 TTATTTGATCCATTGAAAGTTTGTAGGAAAATACTTAAT
338234 TTATTT
1 TTATTT
338240 TAAATAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 38 0.86
39 6 0.14
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (39 bp):
TTATTTGATCCATTGAAAGTTTGTAGGAAAATACTTAAT
Found at i:339796 original size:35 final size:35
Alignment explanation
Indices: 339750--339825 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
339740 AAAATAGTCC
* *
339750 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
339785 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
339820 TCAATT
1 TCAATT
339826 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:340361 original size:130 final size:130
Alignment explanation
Indices: 340215--340462 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
340205 TATTTATATA
* **
340215 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
340280 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
340345 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCATGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
340410 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
340463 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:340493 original size:130 final size:129
Alignment explanation
Indices: 340229--340493 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
340219 ATTTGGTCCT
* ** *
340229 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
340294 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
340359 AAATTAAATAAAATTTAATAAATTAATCATTTAACCATGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
340424 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
340488 -A
128 CA
340489 AAATT
1 AAATT
340494 TAGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:340947 original size:16 final size:18
Alignment explanation
Indices: 340926--340959 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
340916 ATTTCTTATT
340926 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
340942 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
340960 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:341528 original size:2 final size:2
Alignment explanation
Indices: 341523--341549 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
341513 GAAATTTAAT
341523 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
341550 CAATATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:361415 original size:2 final size:2
Alignment explanation
Indices: 361408--361445 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
361398 AGGTATTGAA
361408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
361446 TCAGATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:361633 original size:16 final size:19
Alignment explanation
Indices: 361599--361636 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
361589 ATTATTCTAC
361599 TATTATAATTATAATTAAT
1 TATTATAATTATAATTAAT
361618 TATTATAATATATAATTAA
1 TATTATAAT-TATAATTAA
361637 ATAAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATAATTATAATTAAT
Found at i:361635 original size:13 final size:13
Alignment explanation
Indices: 361602--361655 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
361592 ATTCTACTAT
361602 TATAATTATAAT-
1 TATAATTATAATA
*
361614 TAATTATTATAATA
1 T-ATAATTATAATA
361628 TATAATTA-AATA
1 TATAATTATAATA
* *
361640 AATAATTAAAATA
1 TATAATTATAATA
361653 TAT
1 TAT
361656 TTAAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 12 0.34
13 22 0.63
14 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAATTATAATA
Found at i:361653 original size:25 final size:26
Alignment explanation
Indices: 361602--361655 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
361592 ATTCTACTAT
* * *
361602 TATAATTATAATTAATTATTATAATA
1 TATAATTATAATAAATAATTAAAATA
361628 TATAATTA-AATAAATAATTAAAATA
1 TATAATTATAATAAATAATTAAAATA
361653 TAT
1 TAT
361656 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TATAATTATAATAAATAATTAAAATA
Found at i:362008 original size:59 final size:58
Alignment explanation
Indices: 361933--362050 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
361923 TGGTCTCCTA
* *
361933 ATTATAGAGTGATACTTTATTGAGTTTCT-AACTATTAAAAATTAAAAAATAATCATCTG
1 ATTATAGAGTGATAC-TTATT-AGTCTCTCAACTATTAAAAATTAAAAAACAATCATCTG
* * * * * *
361992 ATTATAGGGTGTTACTTGTTAGTCTCTCGACTATTAAAAATTACAAAACGATCATCTG
1 ATTATAGAGTGATACTTATTAGTCTCTCAACTATTAAAAATTAAAAAACAATCATCTG
362050 A
1 A
362051 CTATTCATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 6 0.12
58 31 0.62
59 13 0.26
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (58 bp):
ATTATAGAGTGATACTTATTAGTCTCTCAACTATTAAAAATTAAAAAACAATCATCTG
Found at i:381056 original size:161 final size:162
Alignment explanation
Indices: 380809--381146 Score: 534
Period size: 161 Copynumber: 2.1 Consensus size: 162
380799 CGGTATTGAA
* * *
380809 ATGATAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* * *
380874 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
*
380939 TATCGATCCAAAACGATATACCAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
* *
380971 ATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* ** *
381035 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
* *
381100 TATCGATCCACAACGGTATAACAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
381132 ATGATAAAACCGGTA
1 ATGATAAAACCGGTA
381147 CCAAAATGAT
Statistics
Matches: 161, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
161 115 0.71
162 46 0.29
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAAT
Found at i:383428 original size:21 final size:21
Alignment explanation
Indices: 383402--383487 Score: 145
Period size: 21 Copynumber: 4.1 Consensus size: 21
383392 AAGACAATCA
*
383402 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
383423 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
383444 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
383465 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
383486 AG
1 AG
383488 GCATAAGGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.42, C:0.10, G:0.31, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:383560 original size:31 final size:32
Alignment explanation
Indices: 383525--383584 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
383515 AGATGGAGTG
*
383525 GTGAAAGAAGTAGAGGT-TTGAGGGGTGAAGT
1 GTGAAAGAAGTAGAGGTGTTAAGGGGTGAAGT
* *
383556 GTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 GTGAAAGAAGTAGAGGTGTTAAGGGGTGA
383585 TATTAAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (32 bp):
GTGAAAGAAGTAGAGGTGTTAAGGGGTGAAGT
Found at i:385332 original size:19 final size:19
Alignment explanation
Indices: 385308--385356 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
385298 AATGTAGGGT
385308 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
385327 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
385346 TAATTTTGTAT
1 TAATTTTGTAT
385357 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:386385 original size:399 final size:400
Alignment explanation
Indices: 385612--386731 Score: 1972
Period size: 399 Copynumber: 2.8 Consensus size: 400
385602 GTGCAACCAT
*
385612 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
385677 TCGGTACAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
385742 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
* * *
385807 TATAAAGAGTATCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* * *
385872 TCTAATCGGTGCAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTG
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTG
* *
385937 TAGTTTGTGTCTATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGAT
326 TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGAT
386002 CCATATATAA
391 CCATATATAA
*
386012 AAAGTGTCGATCCGATAAACATCG-AACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
386076 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* * *
386141 TGTGCCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
*
386206 TATAAAAAGTGTCGATCCGATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* * *
386271 TCTAACCGGTACAAGTATACCGGTTTTATAAGAGAATAGGTCTAAATAATGTTTCAACACTTTTT
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTG
386336 TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGAT
326 TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGAT
386401 CCATATATAA
391 CCATATATAA
386411 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
386476 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* * *
386541 TATGTCGATATTTTTGGTCCAGATTGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
* *
386606 TATAAAAAGTGTCGATCCCATAAACATCTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAA
196 TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
* * *
386671 TCTAACCGGTACAAGTATACCGGTGTTATGAGAGAATAGGTCTAAATAATATATCGACACT
261 TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACT
386732 ATTTAATATT
Statistics
Matches: 683, Mismatches: 36, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
399 379 0.55
400 304 0.45
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (400 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAAAAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAA
TCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCAACACTTTTG
TAGTTTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGAT
CCATATATAA
Found at i:386750 original size:200 final size:200
Alignment explanation
Indices: 385612--386731 Score: 1972
Period size: 200 Copynumber: 5.6 Consensus size: 200
385602 GTGCAACCAT
*
385612 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
385677 TCGGTACAAATATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* *
385742 TGTGTCGATATTTTTGGTCCAAAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
385807 TATAA
196 TATAA
* * *
385812 AGAGTATCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
385877 TCGGTGCAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
*
385942 TGTGTCTATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
386007 TATAA
196 TATAA
*
386012 AAAGTGTCGATCCGATAAACATCG-AACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
386076 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* *
386141 TGTGCCGATATTTTTGGTCCATAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
386206 TATAA
196 TATAA
*
386211 AAAGTGTCGATCCGATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * *
386276 CCGGTACAAGTATACCGGTTTTATAAGAGAATAGGTCTAAATAATGTTTCAACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
*
386341 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAAGGTGCAACAATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
386406 TATAA
196 TATAA
386411 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
*
386476 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
* * *
386541 TATGTCGATATTTTTGGTCCAGATTGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
386606 TATAA
196 TATAA
* *
386611 AAAGTGTCGATCCCATAAACATCTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
386676 CCGGTACAAGTATACCGGTGTTATGAGAGAATAGGTCTAAATAATATATCGACACT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACT
386732 ATTTAATATT
Statistics
Matches: 880, Mismatches: 39, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
199 192 0.22
200 688 0.78
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATA
TATAA
Found at i:389782 original size:182 final size:183
Alignment explanation
Indices: 389465--389868 Score: 702
Period size: 182 Copynumber: 2.2 Consensus size: 183
389455 CAAAGTTTTC
* *
389465 ACACTTTTTAATATTGTATCGGCACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
389530 CAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATATAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACATTTACACATCGAAACCCAAAATTATAATATAATAGATAATTTTACAATAT
389595 AACCGGTATAAATATACC-ATTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
389647 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAGAAAACTGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * * *
389712 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGCAATGT
66 CAAAAAGTGTCGACATTTACACATCGAAACCCAAAATTATAATATAATAGATAATTTTACAATAT
*
389777 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
389830 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
389869 TATAATGTAA
Statistics
Matches: 209, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
182 138 0.66
183 71 0.34
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGAAACCCAAAATTATAATATAATAGATAATTTTACAATAT
AACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:389959 original size:120 final size:120
Alignment explanation
Indices: 389746--389988 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
389736 CGGAACCCAA
*
389746 AATTATAATGTAATAGATAATTTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
389811 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
*
389866 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
389931 AGGTCTACAACCTATATCGACACTTTTTAATATTGTTTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
389986 AAT
1 AAT
389989 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGCAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:390106 original size:303 final size:303
Alignment explanation
Indices: 389562--390756 Score: 2115
Period size: 303 Copynumber: 3.9 Consensus size: 303
389552 ATCGAAACCC
* * *
389562 AGAATTATAATATAATAGATAATTTTATAATATAACCGGTATAAATATACC-ATTTTATGAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
389626 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
* *
389691 AAAACTGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* *
389756 TAATAGATAATTTTGCAATGTAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
*
389821 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
261 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
389864 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
389929 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTTTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
389994 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTGA-ACATCGGAACCCAGAATTATAAT
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTT-ACACATCGGAACCCAGAATTATAAT
*
390058 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGATCGAATAGGTCTACA
195 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACA
*
390123 ACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCA
260 ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
* * *
390167 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
390232 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
*
390297 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
*
390362 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
*
390427 CCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCA
261 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
* * *
390470 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
390535 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
*
390600 AAAAATGTGTCGATACATTGTCAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
131 AAAAATGTGTCGATACCTTGTC-AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAAT
* * *
390665 GTAATAGATAATTTTATAATATAACCGGTATAAATATATCGGTTTTATGAGCAAATAGGTCTACA
195 GTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACA
390730 ACCTATATCGACACTTTTTAATATTGT
260 ACCTATATCGACACTTTTTAATATTGT
390757 TTCGCTAATT
Statistics
Matches: 862, Mismatches: 27, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
302 50 0.06
303 683 0.79
304 129 0.15
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (303 bp):
AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
Found at i:390260 original size:120 final size:120
Alignment explanation
Indices: 390047--390291 Score: 427
Period size: 120 Copynumber: 2.0 Consensus size: 120
390037 ATCGGAACCC
*
390047 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGATCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
*
390112 ATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCA
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
* * *
390167 AGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
* *
390232 ATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
390287 AGAAT
1 AGAAT
390292 GGAAGAAAAA
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCA
Found at i:390504 original size:120 final size:120
Alignment explanation
Indices: 390352--390594 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 120
390342 CGGAACCCAT
390352 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
390417 AGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCAAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCAAG
* * * *
390472 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
* *
390537 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCAAG
390592 AAT
1 AAT
390595 GGAAGAAAAA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCAAG
Found at i:393516 original size:23 final size:23
Alignment explanation
Indices: 393485--393557 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
393475 ATATGTAAAA
*
393485 ATATGATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
393508 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
* *
393531 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGTTT
393554 ATAT
1 ATAT
393558 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:393956 original size:22 final size:22
Alignment explanation
Indices: 393912--393956 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
393902 ATTACATAAC
*
393912 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
393934 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
393956 T
1 T
393957 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:394005 original size:23 final size:23
Alignment explanation
Indices: 393974--394046 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
393964 ATAGGTAAAA
*
393974 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
393997 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
394020 ATATAATGTAATAAGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
394043 ATAT
1 ATAT
394047 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:394148 original size:489 final size:489
Alignment explanation
Indices: 393299--394932 Score: 2908
Period size: 489 Copynumber: 3.4 Consensus size: 489
393289 GACCCAAATT
*
393299 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
393364 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
* * *
393429 AAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATATGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGT
393494 AATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
196 AATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
* * *
393559 GTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAA
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTAA
393624 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
*
393689 TTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
391 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
*
393754 TATCTTTGGTTAATATTGTTAAATTTAAAATCTA
456 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
* *
393788 AATAATATTTTATAAAATATCAAAACAATCAAAT-ATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
393852 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAA
393917 AAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
130 AAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
* *
393982 TAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAGTGCTTATAT
195 TAATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
*
394047 TGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTA
260 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTA
394112 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
325 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
394177 TTTACGTTACGATATATATTATTATTAAATTAAAAA-AATAAACATATATATTACATATTTATTA
390 TTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
394241 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
455 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
394276 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
394341 ATATTGTATGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
66 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAA
*
394406 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATG
130 AAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATG
* *
394471 TAATAGGTAGTGTTTATATAATGTAATAGGTAGCGTTTATATAATATAATAGGTAGTGCTTATAT
195 TAATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATAT
* * *
394536 TGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTAGAAAATATTAATTTA
260 TGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTA
* ****
394601 AGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATATATCTAATGATTTA-TT
325 AGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTT
* *
394665 TTTATGTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
390 TTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTA
394730 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
455 TTATCTTTGGTTAATATTGTTAAATTTAAATTCTA
*
394765 AATATTATTTTATAAAATATTAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
394830 ATA-T-T--GTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
394890 AAAAGTATCGATCCTTTTTATAAAAAAGTAT-AGACACTTTCAA
131 AAAAGTATCGATCCTTTTTAT-AAAAAGTATGA-ACACTTTCAA
394933 CATATTATAA
Statistics
Matches: 1107, Mismatches: 33, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
483 54 0.05
484 19 0.02
485 22 0.02
487 1 0.00
488 193 0.17
489 818 0.74
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (489 bp):
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCGTTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
Found at i:394494 original size:23 final size:23
Alignment explanation
Indices: 394463--394535 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
394453 ATAGGTAAAA
*
394463 ATATGATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGTGTTT
*
394486 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGTTT
* *
394509 ATATAATATAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGTTT
394532 ATAT
1 ATAT
394536 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGTTT
Found at i:406723 original size:13 final size:13
Alignment explanation
Indices: 406686--406725 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
406676 TCTATATTGA
406686 AAAATAAATA-TT
1 AAAATAAATATTT
*
406698 AAAATAATTTATTT
1 AAAATAA-ATATTT
406712 AAAATAAATATTT
1 AAAATAAATATTT
406725 A
1 A
406726 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:407812 original size:22 final size:23
Alignment explanation
Indices: 407770--407812 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
407760 CCGGGTAATA
* *
407770 GACTACCATTCGGTGAGTCACCG
1 GACTACCAGTCGGTGACTCACCG
407793 GACTACCAGT-GGTGACTCAC
1 GACTACCAGTCGGTGACTCAC
407813 TGCTAGAGTA
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:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (23 bp):
GACTACCAGTCGGTGACTCACCG
Found at i:407908 original size:19 final size:19
Alignment explanation
Indices: 407884--407929 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
407874 ACTGGCAGCA
* **
407884 GAGGCGGCTGGAAGCTGTT
1 GAGGCGGCTGGAAACCATT
407903 GAGGCGGCTGGAAACCATT
1 GAGGCGGCTGGAAACCATT
407922 GAGGCGGC
1 GAGGCGGC
407930 GGCACACGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.15
Consensus pattern (19 bp):
GAGGCGGCTGGAAACCATT
Found at i:408044 original size:9 final size:9
Alignment explanation
Indices: 408030--408095 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
408020 TTTTTATTAT
408030 TATTTATAA
1 TATTTATAA
*
408039 TATTTA-ATG
1 TATTTATA-A
408048 TATTTAATAA
1 TATTT-ATAA
* *
408058 TAATAATAA
1 TATTTATAA
* *
408067 TAATAATAA
1 TATTTATAA
408076 TATTTATAA
1 TATTTATAA
*
408085 TAATTATAA
1 TATTTATAA
408094 TA
1 TA
408096 ATGATAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
8 1 0.02
9 41 0.87
10 4 0.09
11 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
TATTTATAA
Found at i:408060 original size:3 final size:3
Alignment explanation
Indices: 408052--408129 Score: 93
Period size: 3 Copynumber: 26.0 Consensus size: 3
408042 TTAATGTATT
* * * *
408052 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
408100 TAA TTA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
408130 ATTAATATGG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:408719 original size:113 final size:113
Alignment explanation
Indices: 408497--408920 Score: 611
Period size: 113 Copynumber: 3.8 Consensus size: 113
408487 TAGAATTATG
* ** * ** *
408497 CAAAAAGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTT-CTTC-AGATGACGAGTTCTTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTC
* * * * * *
408560 ATTATGAACTCTAC-CTGGCAATGTTAATCCATCAAATGATGAATTTAAA
65 ATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
*
408609 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
408674 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
* * *
408722 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
408787 TTATGAACTTCCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
*
408835 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTTCAGATGAGTTCTTCTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCTC
408900 ATTATGAACTTTCTCTGGAAA
65 ATTATGAACTTTCTCTGGAAA
408921 TGTCAATCTA
Statistics
Matches: 282, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
112 38 0.13
113 204 0.72
114 40 0.14
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAA
Found at i:409806 original size:83 final size:83
Alignment explanation
Indices: 409667--409896 Score: 399
Period size: 83 Copynumber: 2.8 Consensus size: 83
409657 GTAGTTCCTA
* *
409667 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
409732 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
409750 CCAAACTAGATCAGATAACTCAAATAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
409815 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
409833 CCAAA-TCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
1 CCAAACT-AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
409897 GTTAAGGTTT
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 1 0.01
83 138 0.99
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (83 bp):
CCAAACTAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:410946 original size:8 final size:8
Alignment explanation
Indices: 410929--411002 Score: 75
Period size: 8 Copynumber: 9.6 Consensus size: 8
410919 TGACCTCCCC
410929 TTTTTC-T
1 TTTTTCTT
410936 TTTTTCTT
1 TTTTTCTT
*
410944 TTTCTCTT
1 TTTTTCTT
*
410952 TTTCTCTT
1 TTTTTCTT
410960 TTTTT-TT
1 TTTTTCTT
410967 CTTTTT-TT
1 -TTTTTCTT
410975 TTTTT-TT
1 TTTTTCTT
*
410982 TTTTTGTT
1 TTTTTCTT
*
410990 TCTTTCTT
1 TTTTTCTT
410998 TTTTT
1 TTTTT
411003 TCTTCAGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
7 20 0.34
8 39 0.66
ACGTcount: A:0.00, C:0.12, G:0.01, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:410946 original size:13 final size:12
Alignment explanation
Indices: 410928--411006 Score: 97
Period size: 12 Copynumber: 6.2 Consensus size: 12
410918 TTGACCTCCC
410928 CTTTTTCTTTTTT
1 CTTTTT-TTTTTT
410941 CTTTTTCTCTTTTT
1 CTTTTT-T-TTTTT
*
410955 CTCTTTTTTTTT
1 CTTTTTTTTTTT
410967 CTTTTTTTTTTT
1 CTTTTTTTTTTT
410979 -TTTTTTTTGTTT
1 CTTTTTTTT-TTT
410991 CTTTCTTTTTTTT
1 CTTT-TTTTTTTT
411004 CTT
1 CTT
411007 CAGCATAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
11 8 0.13
12 19 0.32
13 18 0.30
14 15 0.25
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:410954 original size:21 final size:19
Alignment explanation
Indices: 410929--411006 Score: 97
Period size: 18 Copynumber: 4.1 Consensus size: 19
410919 TGACCTCCCC
410929 TTTTTCTTTTTTCTTTTTCT
1 TTTTTCTTTTTT-TTTTTCT
*
410949 CTTTTTCTCTTTTTTTTTCT
1 -TTTTTCTTTTTTTTTTTCT
410969 TTTTT-TTTTTTTTTTT-T
1 TTTTTCTTTTTTTTTTTCT
*
410986 TGTTTCTTTCTTTTTTTTCT
1 TTTTTCTTT-TTTTTTTTCT
411006 T
1 T
411007 CAGCATAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 13 0.25
20 9 0.18
21 11 0.22
ACGTcount: A:0.00, C:0.13, G:0.01, T:0.86
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTCT
Found at i:411021 original size:1 final size:1
Alignment explanation
Indices: 410929--411003 Score: 60
Period size: 1 Copynumber: 75.0 Consensus size: 1
410919 TGACCTCCCC
* * * * * * * * *
410929 TTTTTCTTTTTTCTTTTTCTCTTTTTCTCTTTTTTTTTCTTTTTTTTTTTTTTTTTTTGTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
410994 TCTTTTTTTT
1 TTTTTTTTTT
411004 CTTCAGCATA
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.12, G:0.01, T:0.87
Consensus pattern (1 bp):
T
Found at i:423951 original size:29 final size:29
Alignment explanation
Indices: 423783--423947 Score: 190
Period size: 29 Copynumber: 5.7 Consensus size: 29
423773 CCCGTTGAAC
* * *
423783 AGGTGATATTTTAGGAA-TTAATTCGAAAT
1 AGGTGCTATTTTGGGAATTTAATTC-AAAA
* **
423812 GGGTGCTATTTTAAGAATTTAATTCGAAAA
1 AGGTGCTATTTTGGGAATTTAATTC-AAAA
423842 AGGTGCTATTTTGGGAATTTAATTCAAAA
1 AGGTGCTATTTTGGGAATTTAATTCAAAA
* *
423871 AAGTGATATTTTGGGAATTTAATTCAAAA
1 AGGTGCTATTTTGGGAATTTAATTCAAAA
* *
423900 CGGTGCTATTTTGGGAA-TTATTTCAAAA
1 AGGTGCTATTTTGGGAATTTAATTCAAAA
*
423928 AGGGTGCTATTTTGGTAATT
1 A-GGTGCTATTTTGGGAATT
423948 ATTTAAAAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.08
29 74 0.63
30 34 0.29
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (29 bp):
AGGTGCTATTTTGGGAATTTAATTCAAAA
Found at i:423967 original size:29 final size:29
Alignment explanation
Indices: 423838--423968 Score: 113
Period size: 29 Copynumber: 4.5 Consensus size: 29
423828 ATTTAATTCG
* * *
423838 AAAAAGGTGCTATTTTGGGAATTTAATT-C
1 AAAAAAGTGCTATTTTGGGAA-TTATTTAA
* * *
423867 AAAAAAGTGATATTTTGGGAATTTAATT-C
1 AAAAAAGTGCTATTTTGGGAA-TTATTTAA
** *
423896 AAAACGGTGCTATTTTGGGAATTATTTCA
1 AAAAAAGTGCTATTTTGGGAATTATTTAA
** *
423925 AAAAGGGTGCTATTTTGGTAATTATTTAA
1 AAAAAAGTGCTATTTTGGGAATTATTTAA
*
423954 AAAAAAGTGTTATTT
1 AAAAAAGTGCTATTT
423969 CTGTAAAATT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 5 0.06
29 83 0.94
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (29 bp):
AAAAAAGTGCTATTTTGGGAATTATTTAA
Found at i:423968 original size:58 final size:57
Alignment explanation
Indices: 423783--423957 Score: 183
Period size: 59 Copynumber: 3.0 Consensus size: 57
423773 CCCGTTGAAC
* * * * * *
423783 AGGTGATATTTTAGGAATTAATTCGAAATGGGTGCTATTTTAAGAATTTAATTCGAAAA
1 AGGTGCTATTTTGGGAATTAATTCAAAAAGGGTGCTATTTT-GGAATTTAATT-AAAAA
* * *
423842 AGGTGCTATTTTGGGAATTTAATTCAAAAA-AGTGATATTTTGGGAATTTAATTCAAAA
1 AGGTGCTATTTTGGGAA-TTAATTCAAAAAGGGTGCTATTTT-GGAATTTAATTAAAAA
* * *
423900 CGGTGCTATTTTGGGAATTATTTCAAAAAGGGTGCTATTTTGGTAA-TTATTTAAAAA
1 AGGTGCTATTTTGGGAATTAATTCAAAAAGGGTGCTATTTTGG-AATTTAATTAAAAA
423957 A
1 A
423958 AAGTGTTATT
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 22 0.23
58 31 0.32
59 34 0.35
60 10 0.10
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (57 bp):
AGGTGCTATTTTGGGAATTAATTCAAAAAGGGTGCTATTTTGGAATTTAATTAAAAA
Found at i:425179 original size:17 final size:19
Alignment explanation
Indices: 425154--425192 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
425144 ATATCTGTAT
425154 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
425172 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
425191 TA
1 TA
425193 AGTTGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:431331 original size:2 final size:2
Alignment explanation
Indices: 431324--431354 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
431314 TCTATATTCT
431324 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
431355 CAATAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:434445 original size:17 final size:17
Alignment explanation
Indices: 434391--434445 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
434381 ATATAATGGG
*
434391 ATTTT-TATTTTTGTAA
1 ATTTTATATTTTTATAA
* *
434407 TTTTTACA-TTTTATATA
1 ATTTTATATTTTTATA-A
*
434424 GTTTTATATTTTTATAA
1 ATTTTATATTTTTATAA
434441 ATTTT
1 ATTTT
434446 TTAATATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 10 0.33
17 13 0.43
18 7 0.23
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
ATTTTATATTTTTATAA
Found at i:435798 original size:20 final size:20
Alignment explanation
Indices: 435746--435801 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
435736 AAAGGTTCCA
*
435746 AAATCGCAACGCAAATAGGT
1 AAATCGCAACGCGAATAGGT
435766 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATAGGT
435786 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
435802 TTTAGTATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (20 bp):
AAATCGCAACGCGAATAGGT
Found at i:435952 original size:57 final size:57
Alignment explanation
Indices: 435804--435955 Score: 259
Period size: 57 Copynumber: 2.7 Consensus size: 57
435794 ACGCGAATTT
* *
435804 TAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTGTGAATTTGAAAATCGCATTGCGA
* *
435861 TAGTACTGTTTACATATATCGGTAATTAGCGTTGTGAATTTGAAAATCGCGTTGCGA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTGTGAATTTGAAAATCGCATTGCGA
*
435918 TAGTACTGTTTACCTACATCGGTAATTAGCGTTGTGAA
1 TAGTACTGTTTACCTATATCGGTAATTAGCGTTGTGAA
435956 CTAAACAGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (57 bp):
TAGTACTGTTTACCTATATCGGTAATTAGCGTTGTGAATTTGAAAATCGCATTGCGA
Found at i:435982 original size:20 final size:20
Alignment explanation
Indices: 435957--436056 Score: 128
Period size: 20 Copynumber: 5.0 Consensus size: 20
435947 CGTTGTGAAC
*
435957 TAAACAGTACTATCACAATG
1 TAAACAGTACTATCGCAATG
435977 TAAACAGTACTATCGCAATG
1 TAAACAGTACTATCGCAATG
* * *
435997 TAAATAGTAATATCACAATG
1 TAAACAGTACTATCGCAATG
* * * *
436017 TAAATATTAATATTGCAATG
1 TAAACAGTACTATCGCAATG
436037 TAAACAGTACTATCGCAATG
1 TAAACAGTACTATCGCAATG
436057 AGTTTTTCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TAAACAGTACTATCGCAATG
Found at i:436166 original size:57 final size:57
Alignment explanation
Indices: 436078--436255 Score: 311
Period size: 57 Copynumber: 3.1 Consensus size: 57
436068 TTCGTAAAGA
*
436078 GATTTTCAAATTCGCAACGTTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
436135 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
** *
436192 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTATCGCAACGC
1 GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
*
436249 GAATTTC
1 GATTTTC
436256 TGAAATTGAG
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 116 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (57 bp):
GATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGC
Found at i:436295 original size:23 final size:22
Alignment explanation
Indices: 436247--436306 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
436237 CTATCGCAAC
*
436247 GCGAATTTCTGAAATT-GAGTT
1 GCGAATTTGTGAAATTGGAGTT
*
436268 GCGAATTTGTGAAATTGCGCGTT
1 GCGAATTTGTGAAATTG-GAGTT
436291 GCGAATTTG-GAAATTG
1 GCGAATTTGTGAAATTG
436307 TGAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 15 0.43
22 7 0.20
23 13 0.37
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (22 bp):
GCGAATTTGTGAAATTGGAGTT
Found at i:436325 original size:29 final size:30
Alignment explanation
Indices: 436274--436332 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
436264 AGTTGCGAAT
* *
436274 TTGTGAAATTGCGCGTTGCGAATTTGGAAA
1 TTGTGAAAATGCGCATTGCGAATTTGGAAA
436304 TTGTGAAAAT-CGCATTGCGAATTTGGAAA
1 TTGTGAAAATGCGCATTGCGAATTTGGAAA
436333 ATCCCGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (30 bp):
TTGTGAAAATGCGCATTGCGAATTTGGAAA
Found at i:436528 original size:15 final size:15
Alignment explanation
Indices: 436510--436545 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
436500 TTACCATTAA
*
436510 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
436525 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
*
436540 ACTAAA
1 ATTAAA
436546 CATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:437717 original size:2 final size:2
Alignment explanation
Indices: 437712--437767 Score: 103
Period size: 2 Copynumber: 27.5 Consensus size: 2
437702 TATTTGTGTG
437712 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
437754 TA TA TA TA TCA TA T
1 TA TA TA TA T-A TA T
437768 TATCATATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:445155 original size:44 final size:44
Alignment explanation
Indices: 445092--445185 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
445082 ACCCTTATTG
*
445092 TAAATATTAAAATATAAAAATTATTTATTTTATAGAAAGCTCAA
1 TAAATCTTAAAATATAAAAATTATTTATTTTATAGAAAGCTCAA
445136 TAAATCTTAAAATATAAAAATTATTTATTTTATAGAAAGCTCAA
1 TAAATCTTAAAATATAAAAATTATTTATTTTATAGAAAGCTCAA
445180 TAAATC
1 TAAATC
445186 CAGGCAAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (44 bp):
TAAATCTTAAAATATAAAAATTATTTATTTTATAGAAAGCTCAA
Found at i:447266 original size:20 final size:20
Alignment explanation
Indices: 447241--447293 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
447231 GATTTTTCAG
447241 AATCGCAACGC-AA-ATATGAA
1 AATCGCAACGCGAACATAT--A
447261 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
447281 AATCGCAACGCGA
1 AATCGCAACGCGA
447294 TTCTGACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 25 0.81
21 2 0.06
22 4 0.13
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:447345 original size:20 final size:20
Alignment explanation
Indices: 447320--447495 Score: 176
Period size: 20 Copynumber: 8.7 Consensus size: 20
447310 GAGTCTCCGT
*
447320 TAAATCGCAACGCGTATTCG
1 TAAATCGCAACGCGTATACG
* *
447340 TAAATCGCAAAGAC-AATACG
1 TAAATCGCAACG-CGTATACG
*
447360 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATACG
* *
447381 TAAATCGCAACGCGTGTCCG
1 TAAATCGCAACGCGTATACG
* * *
447401 TAAATCACAATGCGAATACG
1 TAAATCGCAACGCGTATACG
* *
447421 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCGTATACG
* *
447441 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATACG
*
447461 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATACG
447481 TAAAATCGCAACGCG
1 T-AAATCGCAACGCG
447496 GTTTTTAAAG
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
20 100 0.78
21 28 0.22
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
TAAATCGCAACGCGTATACG
Found at i:447347 original size:41 final size:40
Alignment explanation
Indices: 447302--447495 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
447292 GATTCTGACT
** * *
447302 ATCGCAACGAGTCTCCGTTAAATCGCAACGCGTATTCGTAA
1 ATCGCAACGAGAATACG-TAAATCGCAACGCGTATCCGTAA
* *
447343 ATCGCAAAGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* ** * * * * *
447384 ATCGCAACGCGTGTCCGTAAATCACAATGCGAATACGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
447424 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
447464 ATCGCAACGACAATACGTAAAATCGCAACGCG
1 ATCGCAACGAGAATACGT-AAATCGCAACGCG
447496 GTTTTTAAAG
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 69 0.55
41 57 0.45
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:448112 original size:21 final size:21
Alignment explanation
Indices: 448096--448147 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
448086 GAAAATGACT
448096 ATCGCAACGAGAGAAATGAAA
1 ATCGCAACGAGAGAAATGAAA
*
448117 ATCGCAAC--GCGAAATGAAA
1 ATCGCAACGAGAGAAATGAAA
448136 ATCGCAACGAGA
1 ATCGCAACGAGA
448148 TAATCGCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 18 0.67
21 9 0.33
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (21 bp):
ATCGCAACGAGAGAAATGAAA
Found at i:448192 original size:19 final size:19
Alignment explanation
Indices: 448170--448303 Score: 116
Period size: 20 Copynumber: 7.1 Consensus size: 19
448160 GAAACCAAAA
*
448170 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
448189 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATT
448205 TC-C-TTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
448222 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* **
448242 CTCTCGTTGCGATAGTCATT
1 -TCGCGTTGCGATTTTCATT
* **
448262 TCCGTGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
448282 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
448302 TC
1 TC
448304 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
14 6 0.06
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 25 0.27
20 34 0.36
21 15 0.16
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:448261 original size:40 final size:39
Alignment explanation
Indices: 448175--448303 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 39
448165 CAAAATCGCA
448175 TTGCGATTTTCATTTCGCGTTGCGAT--TC--TCTC-C-
1 TTGCGATTTTCATTTCGCGTTGCGATAGTCATTCTCTCG
**
448208 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATAGTCA-TTCTCTCG
** *
448248 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCGATAGTCATTCTCTCG
448288 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
448304 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
33 26 0.32
35 2 0.02
38 4 0.05
39 2 0.02
40 34 0.42
41 13 0.16
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.47
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATAGTCATTCTCTCG
Found at i:448272 original size:20 final size:20
Alignment explanation
Indices: 448217--448281 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
448207 CTTGCGATTT
* **
448217 TCATTT-CGCGTTGCGATTT
1 TCATTTCCGTGTTGCGATAG
448236 TCATTTCTC-TCGTTGCGATAG
1 TCATTTC-CGT-GTTGCGATAG
448257 TCATTTCCGTGTTGCGATAG
1 TCATTTCCGTGTTGCGATAG
448277 TCATT
1 TCATT
448282 CTCTCGTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.15
20 16 0.41
21 17 0.44
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (20 bp):
TCATTTCCGTGTTGCGATAG
Found at i:450071 original size:94 final size:94
Alignment explanation
Indices: 449910--450289 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
449900 TAGATTGCTT
* * *
449910 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
449975 ATTTATCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
450004 AGTAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTATTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
450069 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
450098 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
450163 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
450192 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
450257 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
450285 AGTAA
1 AGTAA
450290 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 26 0.10
94 247 0.90
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:450414 original size:33 final size:33
Alignment explanation
Indices: 450377--450503 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
450367 AAAAATGACT
*
450377 ATCGCAACGCGAAATCAAAATTGCAACGAGAGA
1 ATCGCAACGCGAAATCAAAATCGCAACGAGAGA
*
450410 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATCAAAATCGCAACGAGAGA
* * * * *
450443 ATCGCAACGTGAAATGAAAATCGTAACGACAAA
1 ATCGCAACGCGAAATCAAAATCGCAACGAGAGA
*
450476 ATCGCAACGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATCAAAATCGCAACG
450504 TGAAACTATA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATCAAAATCGCAACGAGAGA
Found at i:450418 original size:14 final size:14
Alignment explanation
Indices: 450399--450451 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
450389 AATCAAAATT
450399 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
450413 GCAACGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
450432 GCAACGAGAGAATC
1 GCAACGAGAGAATC
450446 GCAACG
1 GCAACG
450452 TGAAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:450433 original size:19 final size:19
Alignment explanation
Indices: 450337--450508 Score: 77
Period size: 19 Copynumber: 9.7 Consensus size: 19
450327 TAGTTTACTT
* *
450337 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
450357 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
*
450378 TCGCAACGCGAAATCAAAA
1 TCGCAACGCGAAATGAAAA
* *
450397 TTGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
450411 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
450430 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
450444 TCGCAACGTGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
450463 TCGTAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
**
450477 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
450496 TCGCAACGTGAAA
1 TCGCAACGCGAAA
450509 CTATAATCGC
Statistics
Matches: 113, Mismatches: 22, Indels: 35
0.66 0.13 0.21
Matches are distributed among these distances:
14 27 0.24
15 3 0.03
16 5 0.04
17 5 0.04
18 3 0.03
19 47 0.42
20 8 0.07
21 12 0.11
22 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:450537 original size:19 final size:19
Alignment explanation
Indices: 450515--450641 Score: 113
Period size: 19 Copynumber: 7.5 Consensus size: 19
450505 GAAACTATAA
450515 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
450534 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
450548 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
450567 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
450581 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
450600 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
450614 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
450633 TCGCGTTGC
1 TCGCGTTGC
450642 AATAGTCATT
Statistics
Matches: 85, Mismatches: 8, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.34
16 9 0.11
17 9 0.11
19 38 0.45
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:450558 original size:14 final size:14
Alignment explanation
Indices: 450539--450626 Score: 68
Period size: 14 Copynumber: 5.6 Consensus size: 14
450529 TCATTTCGCA
450539 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
450553 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
450572 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
450586 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
450605 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
450619 TTGCGATT
1 TTGCGATT
450627 TTCATTTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 28 0.47
16 6 0.10
17 6 0.10
19 20 0.33
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:450560 original size:33 final size:33
Alignment explanation
Indices: 450518--450641 Score: 239
Period size: 33 Copynumber: 3.8 Consensus size: 33
450508 ACTATAATCG
*
450518 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
450551 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
450584 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
450617 CGTTGCGATTTTCATTTCGCGTTGC
1 CGTTGCGATTTTCATTTCGCGTTGC
450642 AATAGTCATT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:451145 original size:21 final size:21
Alignment explanation
Indices: 451121--451187 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
451111 TCATTCCTCG
451121 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
451142 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
451163 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
451184 AGAG
1 AGAG
451188 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:451145 original size:42 final size:41
Alignment explanation
Indices: 451074--451187 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
451064 GCCTGTTATC
* * * * * *
451074 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCA-T
*
451116 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCAT
1 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
* * *
451157 CGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
451188 CCCGATTCAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (41 bp):
CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCAT
Found at i:452571 original size:14 final size:13
Alignment explanation
Indices: 452537--452575 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
452527 TTGATTGTTT
*
452537 AATTGATTTATAA
1 AATTGATTTGTAA
452550 AATATGATTTGTAA
1 AAT-TGATTTGTAA
452564 AAGTTGATTTGT
1 AA-TTGATTTGT
452576 TTAATTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:453431 original size:21 final size:21
Alignment explanation
Indices: 453389--453431 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
453379 TTTCTGGGTT
* * *
453389 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
453410 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
453431 A
1 A
453432 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:453491 original size:66 final size:69
Alignment explanation
Indices: 453411--453563 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 69
453401 ACCCATTCAA
* * * *
453411 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATGCTAGAGGGGAATTGGTACCCC-C
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
453474 A-GG
66 AGGG
* * * *
453477 GGGGAACCGATACCCCCTCATCGTACATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
453542 AGGGG
66 A-GGG
*
453547 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
453564 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
66 22 0.30
67 33 0.45
68 1 0.01
70 18 0.24
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCTA
AGGG
Found at i:453966 original size:30 final size:31
Alignment explanation
Indices: 453924--453983 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
453914 AGAAAAAGTT
*
453924 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
* *
453955 ATATGC-CTATGTGTTAAAGTTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
453984 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:454231 original size:22 final size:22
Alignment explanation
Indices: 454203--454247 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
454193 TTATGGACAT
454203 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
454225 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
454247 A
1 A
454248 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:454255 original size:22 final size:22
Alignment explanation
Indices: 454203--454255 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
454193 TTATGGACAT
*
454203 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
454225 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
454247 ATTTATACG
1 AATTATACG
454256 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:454881 original size:33 final size:33
Alignment explanation
Indices: 454839--454923 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
454829 AAAAATGACT
* *
454839 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
* *
454872 ATCGCAATGCGAAATGAAAATCTCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
*
454905 ATCGCAACGCGAAACTAAA
1 ATCGCAATGCGAAA-TAAA
454924 TTCGCGTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 42 0.93
34 3 0.07
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGACAAA
Found at i:454952 original size:19 final size:19
Alignment explanation
Indices: 454927--455033 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 19
454917 AACTAAATTC
454927 GCGTTGCGATTTTCATTTT
1 GCGTTGCGATTTTCATTTT
* *
454946 GCTTTGCGA--TTC--TCT
1 GCGTTGCGATTTTCATTTT
*
454961 -CGTTGCGATTTTCATTTC
1 GCGTTGCGATTTTCATTTT
* **
454979 GCATTGCGATAGTCATTTAT
1 GCGTTGCGATTTTCATTT-T
* *
454999 GCGTTGCGATATTCATATTC
1 GCGTTGCGATTTTCAT-TTT
455019 GCGTTGCGATTTTCA
1 GCGTTGCGATTTTCA
455034 CGTTGCGATT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
14 7 0.10
15 2 0.03
16 3 0.04
17 3 0.04
18 1 0.01
19 22 0.32
20 28 0.41
21 2 0.03
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.45
Consensus pattern (19 bp):
GCGTTGCGATTTTCATTTT
Found at i:454970 original size:33 final size:33
Alignment explanation
Indices: 454928--455094 Score: 190
Period size: 33 Copynumber: 4.8 Consensus size: 33
454918 ACTAAATTCG
* *
454928 CGTTGCGATTTTCATTTTGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
454961 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---TCT
* * * *
454999 GCGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 -CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
*
455034 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
455067 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
455095 AGACATTAAG
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
33 66 0.59
34 14 0.12
35 3 0.03
38 3 0.03
39 14 0.12
40 12 0.11
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:455039 original size:14 final size:14
Alignment explanation
Indices: 455020--455047 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
455010 TTCATATTCG
455020 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
455034 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
455048 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:455091 original size:19 final size:19
Alignment explanation
Indices: 454924--455094 Score: 111
Period size: 19 Copynumber: 9.7 Consensus size: 19
454914 CGAAACTAAA
*
454924 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
454943 TTTGCTTTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
454959 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
454976 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
* * *
454995 TTATGCGTTGCGATATTCAT
1 TT-CGCATTGCGATTTTCAT
*
455015 ATTCGCGTTGCGATTTTCA-
1 -TTCGCATTGCGATTTTCAT
455034 --CG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
455049 TTCGCATTGTGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
455064 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
455082 TTCGCATTGCGAT
1 TTCGCATTGCGAT
455095 AGACATTAAG
Statistics
Matches: 119, Mismatches: 16, Indels: 34
0.70 0.09 0.20
Matches are distributed among these distances:
14 27 0.23
16 11 0.09
17 12 0.10
19 39 0.33
20 28 0.24
21 2 0.02
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:457560 original size:24 final size:24
Alignment explanation
Indices: 457526--457579 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
457516 CTGAAAAATC
457526 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
457550 ATCAAAGTCCGGGTATTGACCCAG
1 ATCAAAATCCGAGTATTGACCAAG
457574 ATCAAA
1 ATCAAA
457580 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:458513 original size:21 final size:20
Alignment explanation
Indices: 458439--458592 Score: 116
Period size: 20 Copynumber: 7.6 Consensus size: 20
458429 GTCAGAATCT
458439 CGTTGCGATTTACGTAAT-CG
1 CGTTGCGATTTACG-AATACG
*** * *
458459 CAACGCGATTTACGTATTCG
1 CGTTGCGATTTACGAATACG
* *
458479 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGAATACG
* * ***
458499 CATTGCGATTTTACGTATTTT
1 CGTTGCGA-TTTACGAATACG
458520 CGTTGCGATTTACGAATACG
1 CGTTGCGATTTACGAATACG
*
458540 CGTTGCGATTTTACGAATACT
1 CGTTGCGA-TTTACGAATACG
*
458561 CGTTGCGATAGT-CAGAAT-CG
1 CGTTGCGAT-TTAC-GAATACG
458581 CGTTGCGATTTA
1 CGTTGCGATTTA
458593 TATGTTCGCG
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.03
20 65 0.61
21 39 0.36
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATTTACGAATACG
Found at i:458526 original size:41 final size:41
Alignment explanation
Indices: 458436--458569 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 41
458426 ATAGTCAGAA
**
458436 TCTCGTTGCGATTTACGTAAT-CGCAACGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACG-AATACGCATTGCGATTTTACGTAT
* * *
458476 TCGCATTGCGATTTACGGATACGCATTGCGATTTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCATTGCGATTTTACGTAT
* * *
458517 TTTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGAAT
1 TCTCGTTGCGATTTACGAATACGCATTGCGATTTTACGTAT
*
458558 ACTCGTTGCGAT
1 TCTCGTTGCGAT
458570 AGTCAGAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.03
40 23 0.29
41 54 0.68
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGAATACGCATTGCGATTTTACGTAT
Found at i:458583 original size:41 final size:41
Alignment explanation
Indices: 458481--458591 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
458471 CGTATTCGCA
* * * * **
458481 TTGCGATTTACGGATACGCATTGCGATTTTACGTATTTTCG
1 TTGCGATTCACGAATACGCGTTGCGATTTTACGAATACTCG
*
458522 TTGCGATTTACGAATACGCGTTGCGATTTTACGAATACTCG
1 TTGCGATTCACGAATACGCGTTGCGATTTTACGAATACTCG
458563 TTGCGATAGTCA-GAAT-CGCGTTGCGATTT
1 TTGCGAT--TCACGAATACGCGTTGCGATTT
458592 ATATGTTCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 56 0.90
42 4 0.06
43 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TTGCGATTCACGAATACGCGTTGCGATTTTACGAATACTCG
Found at i:458601 original size:20 final size:20
Alignment explanation
Indices: 458463--458630 Score: 90
Period size: 20 Copynumber: 8.3 Consensus size: 20
458453 TAATCGCAAC
* * *
458463 GCGATTTACGTATTCGCATT
1 GCGATTTTCATATTCGCGTT
* ** * *
458483 GCGATTTACGGATACGCATT
1 GCGATTTTCATATTCGCGTT
* **
458503 GCGATTTTACGTATTTTCGTT
1 GCGATTTT-CATATTCGCGTT
* *
458524 GCGATTTACGA-ATACGCGTT
1 GCGATTTTC-ATATTCGCGTT
* *
458544 GCGATTTTACGA-ATACTCGTT
1 GCGATTTT-C-ATATTCGCGTT
** * *
458565 GCGATAGTCAGAATCGCGTT
1 GCGATTTTCATATTCGCGTT
*
458585 GCGATTTAT-ATGTTCGCGTT
1 GCGATTT-TCATATTCGCGTT
458605 GCGATTTTCATATTCGCGTT
1 GCGATTTTCATATTCGCGTT
458625 GCGATT
1 GCGATT
458631 CTGGAAAATC
Statistics
Matches: 116, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.02
20 82 0.71
21 32 0.28
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
GCGATTTTCATATTCGCGTT
Found at i:458729 original size:20 final size:19
Alignment explanation
Indices: 458680--458733 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
458670 ATTCTTCATA
458680 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
458699 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
458720 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
458734 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:480015 original size:23 final size:23
Alignment explanation
Indices: 479971--480015 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
479961 AGAGTAAATG
* *
479971 AAATAAAGAAAATATTAGAAAAA
1 AAATAAAAAAAATATGAGAAAAA
479994 AAATAAAAAAAATGATGA-AAAA
1 AAATAAAAAAAAT-ATGAGAAAA
480016 CTAAAAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AAATAAAAAAAATATGAGAAAAA
Found at i:480310 original size:24 final size:23
Alignment explanation
Indices: 480265--480320 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
480255 ATATATATAT
*
480265 ATAATAAATATAATAACGAAAAAA
1 ATAAT-AATATAATAAAGAAAAAA
* *
480289 ATAATAATTTAATAAAGTAAAATA
1 ATAATAATATAATAAAG-AAAAAA
480313 ATAATAAT
1 ATAATAAT
480321 GCAATATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
ATAATAATATAATAAAGAAAAAA
Found at i:481067 original size:35 final size:36
Alignment explanation
Indices: 480992--481091 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
480982 GTGCTTGTGG
* * *
480992 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
* *
481029 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTTT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
481064 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
481092 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 26 0.47
36 11 0.20
37 18 0.33
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:481858 original size:106 final size:103
Alignment explanation
Indices: 481554--482409 Score: 755
Period size: 98 Copynumber: 8.2 Consensus size: 103
481544 TATTGTTCCA
* * ** * *
481554 AGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAGT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAA--ATGAAAATGTTTGTTGACAAT
* * * * *
481619 CAGCCGCCCCTCCGCTGTGAAGTTGAGCTTGTGCTGTCTCG
63 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * *
481660 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AACG-AAAT-CTTGTTGACAATCAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGAAAATGTTTGTTGACAATCAG
481722 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * *
481760 AGTCCAATATCCTTCGCTGCGAAGTTAAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA--TG-AAAATGTTTGTTGACAAT
481825 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
63 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * * * **
481866 AGTGACACGATATCCTCCG-TCGTGGAGTTTAAA-TCGCGGATGAAACTGAAAA-GTTATTCGTT
1 AGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAA-TGAAAATG-T-TT-GTT
481928 GACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC-
57 GACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * * * *
481974 AGGTAGCACGATATCC-TCTG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGCT
1 A-GT--C-CAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCT-GAAAT--GAAAATGTTTGTT
*
482037 GACAAGCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
57 GACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * * * * *
482084 AATCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAAT-----TGCTTCTCGACAGTCAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGAAAATGTTTGTTGACAATCAG
* * * * *
482144 CCG-CCCATTCGCTGTGAAGTTGAGCTTATGCTGTCTTG
66 CCGTCCC-TTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * * *
482182 GGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAAT-----TGTTTGTCGACAGTCAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGAAAATGTTTGTTGACAATCAG
* * * * * *
482242 CCGCCCCTTCGCTGTGAAGTTGAGCTTATGCTGTCTTG
66 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
* * * * * *
482280 GGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCCCTGAAACTGGGAAAT-TATTGTTGATAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-T-GAAAATGT-TTGTTGACAAT
482344 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
63 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
*
482385 AGTCCAATATCCTTCGTTGTGAAGT
1 AGTCCAATATCCTTCGCTGTGAAGT
482410 CAAAATTGAC
Statistics
Matches: 634, Mismatches: 82, Indels: 69
0.81 0.10 0.09
Matches are distributed among these distances:
97 3 0.00
98 168 0.26
99 4 0.01
100 81 0.13
101 5 0.01
102 1 0.00
103 1 0.00
104 2 0.00
105 74 0.12
106 113 0.18
107 9 0.01
108 11 0.02
109 148 0.23
110 8 0.01
111 5 0.01
112 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (103 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATGAAAATGTTTGTTGACAATCAG
CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
Found at i:482161 original size:55 final size:54
Alignment explanation
Indices: 482094--482265 Score: 152
Period size: 55 Copynumber: 3.4 Consensus size: 54
482084 AATCCAATAT
482094 CCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTCTCGACAGTCAGCCGC
1 CCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTCTCGACAGTCAGCCGC
* * ** ** *
482148 CCATTCGCTGTGAAGTTGAGCTTATGCT--G-TCTTGGGTC-C-A-A-T-A----T
1 CC-TTCGCTGTGAAGTTGAGATT-GGCTCCGAAATTGCTTCTCGACAGTCAGCCGC
* *
482192 CCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTCGACAGTCAGCCGCC
1 CCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTCTCGACAGTCAGCCG-C
482247 CCTTCGCTGTGAAGTTGAG
1 CCTTCGCTGTGAAGTTGAG
482266 CTTATGCTGT
Statistics
Matches: 88, Mismatches: 15, Indels: 29
0.67 0.11 0.22
Matches are distributed among these distances:
42 3 0.03
43 19 0.22
44 3 0.03
45 4 0.05
46 1 0.01
47 1 0.01
48 2 0.02
49 2 0.02
50 2 0.02
51 1 0.01
52 1 0.01
53 5 0.06
54 3 0.03
55 38 0.43
56 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (54 bp):
CCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATTGCTTCTCGACAGTCAGCCGC
Found at i:483036 original size:65 final size:65
Alignment explanation
Indices: 482932--483112 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
482922 GACAAAATTT
*
482932 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGATTTCAATGTTTA
* *
482997 TGTTTTAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGATTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGATTTCAATGTTTA
* * * *
483062 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTATTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
483113 CTATCTTAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 92 0.87
66 14 0.13
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGATTTCAATGTTTA
Found at i:483113 original size:37 final size:37
Alignment explanation
Indices: 483064--483472 Score: 184
Period size: 37 Copynumber: 11.8 Consensus size: 37
483054 AATGTTTATG
* *
483064 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* * * *
483101 TTTCGAGGGAAACTATCTTAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* * *
483137 TTTCAAGGGAAA-TGTTTTC-A-A-TG------TTTATG
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT-TA
* * *
483166 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* *
483203 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* ** *
483239 TTTCAAGGGAAA-TGTTTC--------CAATGTTTATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-TA
* * ** *
483268 TTTCAAGAGAAAATGTCTCAATG-GAGACGGAATTTTG
1 TTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTTTA
* * * *
483305 TTTCAAGGGAAACTATTTCAAGAGAGACAAAA-CTCA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* * *
483341 TTTCAAGGGAAA-TGTTTTC-A-A-TG------TTTATG
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT-TA
* * * *
483370 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
* * *
483407 TTTAAAGGGAAACTGTCTCAAGAGAGA-AAAAGTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
*
483443 TTTCAAGGGAAATTGTCTCAAGAGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
483473 TGGTGAGCAC
Statistics
Matches: 275, Mismatches: 58, Indels: 78
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.01
28 5 0.02
29 39 0.14
30 11 0.04
32 2 0.01
33 2 0.01
34 2 0.01
35 8 0.03
36 81 0.29
37 112 0.41
38 10 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (37 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTA
Found at i:483113 original size:102 final size:102
Alignment explanation
Indices: 482997--483455 Score: 731
Period size: 102 Copynumber: 4.5 Consensus size: 102
482987 TCAATGTTTA
* * * *
482997 TGTTTTAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGATTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
483062 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
483099 TATTTCGAGGGAAACTATCTTAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
483164 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
483201 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
483266 TGTTTCAAGAGAAAATGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
483303 TGTTTCAAGGGAAACTATTTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
483368 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
483405 TGTTTAAAGGGAAACTGTCTCAAGAGAGA-AAAAGTTTGTTTCAAGGGAAAT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAAT
483456 TGTCTCAAGA
Statistics
Matches: 327, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
101 4 0.01
102 323 0.99
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:483187 original size:167 final size:169
Alignment explanation
Indices: 482897--483214 Score: 514
Period size: 167 Copynumber: 1.9 Consensus size: 169
482887 AAGATGATGC
* *
482897 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTATTTCAAGAGAAACTATCTCAAGAGAGAC
* *
482962 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTTAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
483027 GAAA-TTCATTTCAAGGGAAATGATTTCAATGTTTATGT
131 AAAATTTCATTTCAAGGGAAATGATTTCAATGTTTATGT
* * *
483065 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTATTTCGAGGGAAACTATCTTAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTATTTCAAGAGAAACTATCTCAAGAGAGAC
* *
483129 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
483194 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
483215 CTATCTCAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
167 115 0.84
168 22 0.16
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTATTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGATTTCAATGTTTATGT
Found at i:483274 original size:50 final size:49
Alignment explanation
Indices: 483220--483379 Score: 126
Period size: 50 Copynumber: 3.2 Consensus size: 49
483210 GGAAACTATC
483220 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTT-CAATGTTTATGTT
** * ** * * * *** *
483270 TCAAGAGA-A-AATGTCTCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATT
1 TCAAGAGAGACAAAAT-TCATTTCA-AGGGAA--ATGTTTCAATGTTTA-TGTT
*
483322 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATG-TTTCAATGTTTATGTT
483372 TCAAGAGA
1 TCAAGAGA
483380 AACTGTCTCA
Statistics
Matches: 77, Mismatches: 25, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
48 3 0.04
49 6 0.08
50 26 0.34
51 13 0.17
52 21 0.27
53 6 0.08
54 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (49 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCAATGTTTATGTT
Found at i:483444 original size:36 final size:36
Alignment explanation
Indices: 483368--483469 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
483358 TCAATGTTTA
* * *
483368 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-AAAAAGTT
*
483405 TGTTTAAAGGGAAACTGTCTCAAGAGAGAAAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAGTT
*
483441 TGTTTCAAGGGAAATTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGA
483470 CAATGGTGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 34 0.58
37 25 0.42
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAAGTT
Found at i:484351 original size:22 final size:22
Alignment explanation
Indices: 484326--484376 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
484316 TTGTGTTTGG
484326 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
484348 TCAAAGGTTTGGTATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
484370 TCAAAGG
1 TCAAAGG
484377 ATTGATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:485029 original size:22 final size:22
Alignment explanation
Indices: 485004--485045 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
484994 TTTGTTCTTG
485004 TTTTTTCCTTTTTCCTTTTTAC
1 TTTTTTCCTTTTTCCTTTTTAC
* *
485026 TTTTTTTCTTTTTTCTTTTT
1 TTTTTTCCTTTTTCCTTTTT
485046 GCCCTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTCCTTTTTCCTTTTTAC
Found at i:485030 original size:15 final size:15
Alignment explanation
Indices: 485012--485045 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
485002 TGTTTTTTCC
485012 TTTTTCCTTTTTACT
1 TTTTTCCTTTTTACT
* *
485027 TTTTTTCTTTTTTCT
1 TTTTTCCTTTTTACT
485042 TTTT
1 TTTT
485046 GCCCTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCCTTTTTACT
Found at i:485053 original size:22 final size:23
Alignment explanation
Indices: 485005--485054 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
484995 TTGTTCTTGT
*
485005 TTTTTCCTTTTTCCTTTTTA-CT
1 TTTTTCCTTTTTCCTTTTTACCC
* * *
485027 TTTTTTCTTTTTTCTTTTTGCCC
1 TTTTTCCTTTTTCCTTTTTACCC
485050 TTTTT
1 TTTTT
485055 GTTCTGATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTCCTTTTTCCTTTTTACCC
Found at i:489553 original size:2 final size:2
Alignment explanation
Indices: 489543--489589 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
489533 AAACATTATG
489543 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
489583 AA AT AT A
1 AT AT AT A
489590 ATAACAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:489629 original size:16 final size:16
Alignment explanation
Indices: 489608--489645 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
489598 AAAAATAATT
489608 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
489624 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
489640 T-ATAAA
1 TAATAAA
489646 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:490385 original size:35 final size:36
Alignment explanation
Indices: 490315--490410 Score: 131
Period size: 35 Copynumber: 2.6 Consensus size: 36
490305 GTGCTTGTGG
* *
490315 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGCAAAATTCT
*
490352 ATCCTATTTTAGGAG-TTGAATCATAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
*
490387 ATCCTATTTTTGAGAGTTTGAATC
1 ATCCTATTTTAG-GAGTTTGAATC
490411 CTAGTAGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 28 0.53
36 11 0.21
37 14 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
Found at i:493900 original size:19 final size:17
Alignment explanation
Indices: 493876--493925 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
493866 ATATATTTAT
493876 ATTAAATAATAAAATAAAA
1 ATTAAATAATAAAAT--AA
493895 ATTAAA-AATTAAAATAA
1 ATTAAATAA-TAAAATAA
*
493912 AGTAAATAATAAAA
1 ATTAAATAATAAAA
493926 AATATGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 12 0.43
18 4 0.14
19 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
ATTAAATAATAAAATAA
Found at i:493927 original size:19 final size:19
Alignment explanation
Indices: 493878--493929 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
493868 ATATTTATAT
*
493878 TAAATAATAAAATAA-AAAT
1 TAAATAATAAAA-AATAAAG
*
493897 TAAA-AAT-TAAAATAAAG
1 TAAATAATAAAAAATAAAG
493914 TAAATAATAAAAAATA
1 TAAATAATAAAAAATA
493930 TGGTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.07
17 9 0.33
18 6 0.22
19 10 0.37
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAATAATAAAAAATAAAG
Done.