Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008442.1 Hibiscus syriacus cultivar Beakdansim tig00111244_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: 816021
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:714624 original size:2 final size:2
Alignment explanation
Indices: 714559--714604 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
714549 ACCCAAATTA
*
714559 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
714599 AT AT AT
1 AT AT AT
714605 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:715333 original size:43 final size:43
Alignment explanation
Indices: 715270--715391 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
715260 TTCAAATGGC
* * *
715270 ACGATATCCTCCATCATGGAGTTGAAATCGTGGATGTGTGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGCGGATGTGTGGGT
*
715313 ACGATATCCTCCGTCGTGGAGTTGAAATCGCAGATGTGTGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGCGGATGTGTGGGT
*
715356 ACAATATCCTCCGTCGTGGAGTTGAAATCGCGGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGCGGATG
715392 GCCCATTCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGCGGATGTGTGGGT
Found at i:719413 original size:21 final size:21
Alignment explanation
Indices: 719387--719436 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
719377 TGGCATTATG
719387 TTGGCCACCCATTCCGGATAC
1 TTGGCCACCCATTCCGGATAC
719408 TTGGCCACCCATTCCGGATAC
1 TTGGCCACCCATTCCGGATAC
719429 TTGGCCAC
1 TTGGCCAC
719437 TTAAAGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.24
Consensus pattern (21 bp):
TTGGCCACCCATTCCGGATAC
Found at i:726932 original size:2 final size:2
Alignment explanation
Indices: 726925--726958 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
726915 CCCAAATTTA
726925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
726959 GTTTATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:729259 original size:232 final size:232
Alignment explanation
Indices: 728812--729266 Score: 878
Period size: 232 Copynumber: 2.0 Consensus size: 232
728802 ACAGCAAAAA
728812 AATTGAAGGGTCGATTACTAATGGATCTAATCAGACATTTAAAGTTGATACTTTAGAATCACGCT
1 AATTGAAGGGTCGATTACTAATGGATCTAATCAGACATTTAAAGTTGATACTTTAGAATCACGCT
728877 ACAATTCAGGTGCATCAGGAAGATGTTCATGAACCTTTTACAGAATAAATTCTAGATTCAGATTA
66 ACAATTCAGGTGCATCAGGAAGATGTTCATGAACCTTTTACAGAATAAATTCTAGATTCAGATTA
728942 CGGAGAGTGATTTCATTTCTAAAACAATCAGAGGTATCAAGATTATGCATTGAATTAACAGGATT
131 CGGAGAGTGATTTCATTTCTAAAACAATCAGAGGTATCAAGATTATGCATTGAATTAACAGGATT
729007 TTAGTCTATTGAACCAAATGGGGTATCAACAAAATCT
196 TTAGTCTATTGAACCAAATGGGGTATCAACAAAATCT
729044 AATTGAAGGGTCGATTACTAATGGATCTAATCAGACATTTAAAGTTGATACTTTAGAATCACGCT
1 AATTGAAGGGTCGATTACTAATGGATCTAATCAGACATTTAAAGTTGATACTTTAGAATCACGCT
729109 ACAATTCAGGTGCATCAGGAAGATGTTCATGAACC-TTTACAGAATAAATTCTAGATTCAGATTT
66 ACAATTCAGGTGCATCAGGAAGATGTTCATGAACCTTTTACAGAATAAATTCTAGATTCAGA-TT
729173 ACGGAGAGTGATTTCATTTCTAAAACAATCAGAGGTATTCAAGATTATGCATTGAATTAACAGGA
130 ACGGAGAGTGATTTCATTTCTAAAACAATCAGAGGTA-TCAAGATTATGCATTGAATTAACAGGA
729238 TTTTAGTCTATTGAA-CAAATGGGGTATCA
194 TTTTAGTCTATTGAACCAAATGGGGTATCA
729267 GAATCCTTTA
Statistics
Matches: 221, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
231 26 0.12
232 153 0.69
233 42 0.19
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (232 bp):
AATTGAAGGGTCGATTACTAATGGATCTAATCAGACATTTAAAGTTGATACTTTAGAATCACGCT
ACAATTCAGGTGCATCAGGAAGATGTTCATGAACCTTTTACAGAATAAATTCTAGATTCAGATTA
CGGAGAGTGATTTCATTTCTAAAACAATCAGAGGTATCAAGATTATGCATTGAATTAACAGGATT
TTAGTCTATTGAACCAAATGGGGTATCAACAAAATCT
Found at i:731360 original size:57 final size:56
Alignment explanation
Indices: 731272--731386 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 56
731262 CCCTAACCTA
731272 CAGACTACCAATCTTAGAAGACATTATTCTGACCATCACCCAGTCCTTTTAAAACAC
1 CAGACTACCAATCTTAGAAGACATTATTCTGACCATCACCCAGTCCTTTT-AAACAC
731329 CAGACTACCAATCTTAGAAGACATTATTCTGACCATCACCCAGTCCTTTTAAACAC
1 CAGACTACCAATCTTAGAAGACATTATTCTGACCATCACCCAGTCCTTTTAAACAC
731385 CA
1 CA
731387 ATATGGATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 8 0.14
57 50 0.86
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (56 bp):
CAGACTACCAATCTTAGAAGACATTATTCTGACCATCACCCAGTCCTTTTAAACAC
Found at i:734198 original size:29 final size:29
Alignment explanation
Indices: 734156--734242 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
734146 GTCCCAGGGG
*
734156 TAGGTCGCCATGCACGCCCGGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
* **
734185 TAGGTCGCCATGCACGCCCAGTGACCTGG
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
* *
734214 TAGGTCGCCATGCATGCCCTGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
734243 CAGCACCTCC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTAC
Found at i:734258 original size:10 final size:10
Alignment explanation
Indices: 734251--734303 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
734241 ACCAGCACCT
734251 CCATGCACGC
1 CCATGCACGC
734261 CCATGCACGC
1 CCATGCACGC
*
734271 CCA-ACGAC-C
1 CCATGC-ACGC
734280 TCCATGCACGC
1 -CCATGCACGC
734291 CCATGCACGC
1 CCATGCACGC
734301 CCA
1 CCA
734304 ACGAGCTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 2 0.05
10 33 0.89
11 2 0.05
ACGTcount: A:0.23, C:0.51, G:0.17, T:0.09
Consensus pattern (10 bp):
CCATGCACGC
Found at i:734279 original size:40 final size:40
Alignment explanation
Indices: 734221--734303 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
734211 TGGTAGGTCG
* **
734221 CCATGCATGCCCTGCGACCTACCA-GCAC-CTCCATGCACGC
1 CCATGCACGCCCAACGACCT-CCATGCACGC-CCATGCACGC
734261 CCATGCACGCCCAACGACCTCCATGCACGCCCATGCACGC
1 CCATGCACGCCCAACGACCTCCATGCACGCCCATGCACGC
734301 CCA
1 CCA
734304 ACGAGCTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.08
40 34 0.89
41 1 0.03
ACGTcount: A:0.22, C:0.49, G:0.17, T:0.12
Consensus pattern (40 bp):
CCATGCACGCCCAACGACCTCCATGCACGCCCATGCACGC
Found at i:734281 original size:30 final size:30
Alignment explanation
Indices: 734247--734471 Score: 182
Period size: 30 Copynumber: 7.6 Consensus size: 30
734237 ACCTACCAGC
734247 ACCTCCATGCACGCCCATGCACGCCCAACG
1 ACCTCCATGCACGCCCATGCACGCCCAACG
734277 ACCTCCATGCACGCCCATGCACGCCCAACG
1 ACCTCCATGCACGCCCATGCACGCCCAACG
* * ** *
734307 AGCTAC-TAGGTCG-CCATGCACGCCCAGCG
1 ACCTCCAT-GCACGCCCATGCACGCCCAACG
** ** * **
734336 ACCT-GGTAGGTCG-CCATGCATGCCCTGCG
1 ACCTCCAT-GCACGCCCATGCACGCCCAACG
734365 ACCTACCA-GCAC-CTCCATGCACGCCCAACG
1 ACCT-CCATGCACGC-CCATGCACGCCCAACG
*
734395 ACCTCCATGCACGCCCATGCACGCCC-AGG
1 ACCTCCATGCACGCCCATGCACGCCCAACG
*
734424 CACGC-CCA-ACGAC-CTCCATGCACGCCCAACG
1 -AC-CTCCATGC-ACGC-CCATGCACGCCCAACG
734455 ACCTCCATGCACGCCCA
1 ACCTCCATGCACGCCCA
734472 GCTCGCCAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 32
0.75 0.09 0.15
Matches are distributed among these distances:
29 54 0.34
30 99 0.62
31 6 0.04
ACGTcount: A:0.22, C:0.47, G:0.20, T:0.12
Consensus pattern (30 bp):
ACCTCCATGCACGCCCATGCACGCCCAACG
Found at i:734345 original size:29 final size:29
Alignment explanation
Indices: 734291--734398 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
734281 CCATGCACGC
* *
734291 CCATGCACGCCCAACGAGCTACTAGGTCG
1 CCATGCACGCCCAGCGACCTACTAGGTCG
**
734320 CCATGCACGCCCAGCGACCTGGTAGGTCG
1 CCATGCACGCCCAGCGACCTACTAGGTCG
* * * ** *
734349 CCATGCATGCCCTGCGACCTACCAGCACCT
1 CCATGCACGCCCAGCGACCTACTAG-GTCG
*
734379 CCATGCACGCCCAACGACCT
1 CCATGCACGCCCAGCGACCT
734399 CCATGCACGC
Statistics
Matches: 63, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 45 0.71
30 18 0.29
ACGTcount: A:0.21, C:0.43, G:0.22, T:0.14
Consensus pattern (29 bp):
CCATGCACGCCCAGCGACCTACTAGGTCG
Found at i:734400 original size:20 final size:20
Alignment explanation
Indices: 734375--734471 Score: 144
Period size: 20 Copynumber: 4.8 Consensus size: 20
734365 ACCTACCAGC
734375 ACCTCCATGCACGCCCAACG
1 ACCTCCATGCACGCCCAACG
*
734395 ACCTCCATGCACGCCC-ATG
1 ACCTCCATGCACGCCCAACG
*
734414 CACGC-CCAGGCACGCCCAACG
1 -AC-CTCCATGCACGCCCAACG
734435 ACCTCCATGCACGCCCAACG
1 ACCTCCATGCACGCCCAACG
734455 ACCTCCATGCACGCCCA
1 ACCTCCATGCACGCCCA
734472 GCTCGCCAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.04
20 63 0.91
21 3 0.04
ACGTcount: A:0.24, C:0.51, G:0.16, T:0.09
Consensus pattern (20 bp):
ACCTCCATGCACGCCCAACG
Found at i:734413 original size:128 final size:128
Alignment explanation
Indices: 734163--734438 Score: 425
Period size: 128 Copynumber: 2.2 Consensus size: 128
734153 GGGTAGGTCG
** *
734163 CCATGCACGCCCGGCGACCTACTAGGTCGCCATGCACGCCCAGTGACCTGGTAGGTCGCCATGCA
1 CCATGCACGCCCAACGACCTACTAGGTCGCCATGCACGCCCAGCGACCTGGTAGGTCGCCATGCA
*
734228 TGCCCTGCGACCTACCAGCACCTCCATGCACGCCCATGCACGCCCAACGACCTCCATGCACGC
66 TGCCCTGCGACCTACCAGCACCTCCATGCACGCCCACGCACGCCCAACGACCTCCATGCACGC
*
734291 CCATGCACGCCCAACGAGCTACTAGGTCGCCATGCACGCCCAGCGACCTGGTAGGTCGCCATGCA
1 CCATGCACGCCCAACGACCTACTAGGTCGCCATGCACGCCCAGCGACCTGGTAGGTCGCCATGCA
*
734356 TGCCCTGCGACCTACCAGCACCTCCATGCACGCCCAACG-AC-CTCC-ATGCACGC-CCATGCAC
66 TGCCCTGCGACCTACCAGCACCTCCATGCACGCCC-ACGCACGC-CCAACG-AC-CTCCATGCAC
734417 GC
127 GC
*
734419 CCAGGCACGCCCAACGACCT
1 CCATGCACGCCCAACGACCT
734439 CCATGCACGC
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
127 3 0.02
128 130 0.96
129 3 0.02
ACGTcount: A:0.21, C:0.44, G:0.22, T:0.13
Consensus pattern (128 bp):
CCATGCACGCCCAACGACCTACTAGGTCGCCATGCACGCCCAGCGACCTGGTAGGTCGCCATGCA
TGCCCTGCGACCTACCAGCACCTCCATGCACGCCCACGCACGCCCAACGACCTCCATGCACGC
Found at i:734414 original size:10 final size:10
Alignment explanation
Indices: 734399--734431 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
734389 CCAACGACCT
734399 CCATGCACGC
1 CCATGCACGC
734409 CCATGCACGC
1 CCATGCACGC
*
734419 CCAGGCACGC
1 CCATGCACGC
734429 CCA
1 CCA
734432 ACGACCTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.06
Consensus pattern (10 bp):
CCATGCACGC
Found at i:735145 original size:20 final size:20
Alignment explanation
Indices: 735099--735145 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
735089 ACATAAATTT
735099 AGTTAATTAGTTGTTAGTATA
1 AGTT-ATTAGTTGTTAGTATA
*
735120 AATTATTAGTTTGTTAGT-TA
1 AGTTATTAG-TTGTTAGTATA
735140 AGTTAT
1 AGTTAT
735146 ATTATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (20 bp):
AGTTATTAGTTGTTAGTATA
Found at i:735434 original size:14 final size:14
Alignment explanation
Indices: 735417--735508 Score: 98
Period size: 14 Copynumber: 6.3 Consensus size: 14
735407 AGATTATTTA
735417 TAATGATTTAATAC
1 TAATGATTTAATAC
*
735431 TAATGATTTCATAATTTAG
1 TAATGA-TT--TAA--TAC
735450 TAATGATTTAATAC
1 TAATGATTTAATAC
735464 TAATGATTTAATA-
1 TAATGATTTAATAC
*
735477 TAATGATTTAA-ATT
1 TAATGATTTAATA-C
735491 TAATGATTTAATAC
1 TAATGATTTAATAC
735505 TAAT
1 TAAT
735509 ATAATGATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.01
13 11 0.16
14 36 0.54
15 3 0.04
16 3 0.04
17 3 0.04
18 2 0.03
19 8 0.12
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (14 bp):
TAATGATTTAATAC
Found at i:735494 original size:27 final size:28
Alignment explanation
Indices: 735417--735508 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 28
735407 AGATTATTTA
*
735417 TAATGATTTAATACTAATGATTTCATAATTTAG
1 TAATGATTTAATACTAATGA-TT--TAA--TAC
735450 TAATGATTTAATACTAATGATTTAATA-
1 TAATGATTTAATACTAATGATTTAATAC
*
735477 TAATGATTTAA-ATTTAATGATTTAATAC
1 TAATGATTTAATA-CTAATGATTTAATAC
735505 TAAT
1 TAAT
735509 ATAATGATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
26 1 0.02
27 24 0.43
28 6 0.11
30 3 0.05
32 2 0.04
33 20 0.36
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (28 bp):
TAATGATTTAATACTAATGATTTAATAC
Found at i:735496 original size:41 final size:46
Alignment explanation
Indices: 735417--735508 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 46
735407 AGATTATTTA
735417 TAATGATTTAATACTAATGATTTCATAATTTAGTAATGATTTAATAC
1 TAATGATTTAATACTAATGATTTCATAATTTA-TAATGATTTAATAC
735464 TAATGATTTAATA-TAATGATTT-A-AA-TT-TAATGATTTAATAC
1 TAATGATTTAATACTAATGATTTCATAATTTATAATGATTTAATAC
735505 TAAT
1 TAAT
735509 ATAATGATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
41 18 0.40
43 2 0.04
44 2 0.04
45 1 0.02
46 9 0.20
47 13 0.29
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (46 bp):
TAATGATTTAATACTAATGATTTCATAATTTATAATGATTTAATAC
Found at i:735513 original size:19 final size:19
Alignment explanation
Indices: 735472--735526 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
735462 ACTAATGATT
735472 TAATATAATGATTTAA-A-
1 TAATATAATGATTTAATAC
735489 T--T-TAATGATTTAATAC
1 TAATATAATGATTTAATAC
*
735505 TAATATAATGATTTGATAC
1 TAATATAATGATTTAATAC
735524 TAA
1 TAA
735527 AAATCATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.34
15 2 0.06
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.50
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (19 bp):
TAATATAATGATTTAATAC
Found at i:737602 original size:8 final size:8
Alignment explanation
Indices: 737577--737618 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
737567 AACTTTAATA
737577 TAAT-AAC
1 TAATAAAC
* *
737584 TTATAATC
1 TAATAAAC
737592 TAATAAAC
1 TAATAAAC
737600 TAATAAAC
1 TAATAAAC
*
737608 TAACAAAC
1 TAATAAAC
737616 TAA
1 TAA
737619 ACTTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
7 3 0.10
8 26 0.90
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (8 bp):
TAATAAAC
Found at i:737605 original size:16 final size:16
Alignment explanation
Indices: 737572--737618 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
737562 CACAAAACTT
* *
737572 TAATATAAT-AACTTA
1 TAATCTAATAAACTAA
737587 TAATCTAATAAACTAA
1 TAATCTAATAAACTAA
* *
737603 TAAACTAACAAACTAA
1 TAATCTAATAAACTAA
737619 ACTTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATCTAATAAACTAA
Found at i:737730 original size:32 final size:33
Alignment explanation
Indices: 737657--737736 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 33
737647 ACCAACCCTT
737657 AAAC-AACTAATAAA-TATTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTATATAACTA
737688 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTT-A-TATAACTA
*
737721 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
737737 TACTAACTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 4 0.09
32 21 0.48
33 12 0.27
34 2 0.05
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (33 bp):
AAACTAACTAATAAACTATTTTTTATATAACTA
Found at i:737875 original size:43 final size:46
Alignment explanation
Indices: 737772--737903 Score: 120
Period size: 44 Copynumber: 3.0 Consensus size: 46
737762 TTCAACAAAC
737772 AATA-AACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTT
1 AATATAAC-TAACTA-TTAACTAACAAAAACTAATTAAATAATTTTTT
* *
737819 TATATAACTAACTATTAAC-AA-AACAAACTAATT-AATTATTTTTT
1 AATATAACTAACTATTAACTAACAA-AAACTAATTAAATAATTTTTT
* * *
737863 AACTAT-A-TAACTA-T--CAAACATATACTAATTAAATAATTTTT
1 AA-TATAACTAACTATTAACTAACAAAAACTAATTAAATAATTTTT
737904 AATTTATGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
40 1 0.01
41 10 0.14
42 11 0.15
43 6 0.08
44 14 0.19
45 14 0.19
46 5 0.07
47 9 0.12
48 3 0.04
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.39
Consensus pattern (46 bp):
AATATAACTAACTATTAACTAACAAAAACTAATTAAATAATTTTTT
Found at i:737931 original size:41 final size:40
Alignment explanation
Indices: 737843--737931 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
737833 TTAACAAAAC
* *
737843 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
737884 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
737925 AAACTAA
1 AAACTAA
737932 CTAACAATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:738000 original size:16 final size:18
Alignment explanation
Indices: 737971--738009 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
737961 ACTAATTAAC
*
737971 ATTTATAATAATAAACTA
1 ATTTATAATAATAAACAA
737989 ATTTA-AAT-ATAAACAA
1 ATTTATAATAATAAACAA
738005 ATTTA
1 ATTTA
738010 CCTTATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTATAATAATAAACAA
Found at i:738041 original size:19 final size:19
Alignment explanation
Indices: 738019--738063 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
738009 ACCTTATCTC
*
738019 CCTTTCTTCTTCTTACTTT
1 CCTTTCTTCTCCTTACTTT
*
738038 CCTTTCTTTCTCCTTTCTTT
1 CCTTTC-TTCTCCTTACTTT
738058 -CTTTCT
1 CCTTTCT
738064 CGGCTGCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 11 0.48
20 11 0.48
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (19 bp):
CCTTTCTTCTCCTTACTTT
Found at i:738059 original size:15 final size:16
Alignment explanation
Indices: 738034--738064 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
738024 CTTCTTCTTA
738034 CTTTCCTTTCTTTCTC
1 CTTTCCTTTCTTTCTC
738050 CTTT-CTTTCTTTCTC
1 CTTTCCTTTCTTTCTC
738065 GGCTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTTCCTTTCTTTCTC
Found at i:738357 original size:29 final size:29
Alignment explanation
Indices: 738315--738409 Score: 154
Period size: 29 Copynumber: 3.3 Consensus size: 29
738305 GTGACGCCGG
738315 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
738344 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
* ** *
738373 GGCGACCTATAAGGTCGCCCAGACTGCAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
738402 GGCGACCT
1 GGCGACCT
738410 CTCCATTGGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.23, C:0.32, G:0.31, T:0.15
Consensus pattern (29 bp):
GGCGACCTACAAGGTCGCCGGGACTACAT
Found at i:738437 original size:32 final size:32
Alignment explanation
Indices: 738396--738477 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
738386 GTCGCCCAGA
*
738396 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
738428 CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
738460 CTGCATGGCGACCTCTCC
1 CTGCATGGCGACCTCTCC
738478 TCGTATAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.27
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCAT
Found at i:738606 original size:29 final size:29
Alignment explanation
Indices: 738562--738621 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
738552 GTATGGTATG
738562 TCGCCTGGATTACATGGCGTCCTACAAGA
1 TCGCCTGGATTACATGGCGTCCTACAAGA
* *
738591 TCGCCTGGATTGCATGGCGTCCTACGAGA
1 TCGCCTGGATTACATGGCGTCCTACAAGA
738620 TC
1 TC
738622 ACTGTAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (29 bp):
TCGCCTGGATTACATGGCGTCCTACAAGA
Found at i:742006 original size:29 final size:29
Alignment explanation
Indices: 741961--742018 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
741951 GTGTTGGCCG
*
741961 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
741990 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
742019 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:742114 original size:10 final size:10
Alignment explanation
Indices: 742099--742178 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
742089 ACGAGCTATG
742099 CGAGGGCATC
1 CGAGGGCATC
* *
742109 CGAGGGTAAC
1 CGAGGGCATC
*
742119 CGAGCGAGCTATG
1 CGAG-G-GC-ATC
742132 CGAGGGCATC
1 CGAGGGCATC
*
742142 CGAGGGCAAC
1 CGAGGGCATC
*
742152 CGAGCGAGCTATG
1 CGAG-G-GC-ATC
*
742165 CGAGGGAATC
1 CGAGGGCATC
742175 CGAG
1 CGAG
742179 CGAGGGTACC
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
10 33 0.62
11 5 0.09
12 5 0.09
13 10 0.19
ACGTcount: A:0.25, C:0.25, G:0.40, T:0.10
Consensus pattern (10 bp):
CGAGGGCATC
Found at i:742127 original size:33 final size:33
Alignment explanation
Indices: 742075--742178 Score: 163
Period size: 33 Copynumber: 3.2 Consensus size: 33
742065 GGTCATCCGA
* * *
742075 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGCAT
*
742108 CCGAGGGTAACCGAGCGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGCAT
*
742141 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGCAT
742174 CCGAG
1 CCGAG
742179 CGAGGGTACC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.11
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGCAT
Found at i:742265 original size:12 final size:12
Alignment explanation
Indices: 742248--742272 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
742238 TGCCATGCAA
742248 CACGTTCATTCT
1 CACGTTCATTCT
742260 CACGTTCATTCT
1 CACGTTCATTCT
742272 C
1 C
742273 TCTGTTTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:742332 original size:29 final size:29
Alignment explanation
Indices: 742290--742345 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
742280 GAGCAAGGGT
742290 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
742319 AGGTCGCCCGGAGTGCATGGCGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
742346 TGGCCAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.30, G:0.36, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:747128 original size:2 final size:2
Alignment explanation
Indices: 747121--747160 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
747111 CATAAATTTA
747121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
747161 TTAATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:747985 original size:35 final size:35
Alignment explanation
Indices: 747946--748013 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
747936 CCTCAATTTT
*
747946 ATTTTAAACCGAAAATTCTAAAACAATTCAATTAC
1 ATTTTAAACCCAAAATTCTAAAACAATTCAATTAC
* * *
747981 ATTTTGAACCCTAAATTCTAAAATAATTCAATT
1 ATTTTAAACCCAAAATTCTAAAACAATTCAATT
748014 TAGGGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (35 bp):
ATTTTAAACCCAAAATTCTAAAACAATTCAATTAC
Found at i:750503 original size:21 final size:19
Alignment explanation
Indices: 750475--750520 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
750465 TCATTGAATC
750475 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
750495 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
750514 ACTTAGT
1 A-TTAGT
750521 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:752092 original size:21 final size:21
Alignment explanation
Indices: 752066--752105 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
752056 CTTGCAGGAA
752066 TTCATGGCCTCGACAAAAGAT
1 TTCATGGCCTCGACAAAAGAT
* *
752087 TTCATGGCGTCTACAAAAG
1 TTCATGGCCTCGACAAAAG
752106 CCTTGATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TTCATGGCCTCGACAAAAGAT
Found at i:758866 original size:15 final size:15
Alignment explanation
Indices: 758846--758895 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
758836 CCGTAGGAAC
758846 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
758861 ACTACGTCCTGAAGG
1 ACTACGTCCCGAAGG
758876 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
758891 ACTAC
1 ACTAC
758896 AATACCCTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:765728 original size:15 final size:15
Alignment explanation
Indices: 765708--765757 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
765698 CCGTAGGACC
765708 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
765723 ACTACGTTCCGAAGG
1 ACTACGTCCCGAAGG
* *
765738 ACTACATCCTGAAGG
1 ACTACGTCCCGAAGG
765753 ACTAC
1 ACTAC
765758 AATACCCTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:786888 original size:2 final size:2
Alignment explanation
Indices: 786881--786916 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
786871 TTGTGATAAG
786881 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
786917 GTGGATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:789040 original size:44 final size:44
Alignment explanation
Indices: 788990--789163 Score: 253
Period size: 44 Copynumber: 4.0 Consensus size: 44
788980 CCATGAGTAG
* *
788990 CACATTTCTGCCAATAATGCACCGTTATGCT-TTTTCATTTATGA
1 CACATTTCTACCAATAATGCACCGTTATG-TATTTTCTTTTATGA
789034 CACATTTCTACCAATAATGCACCGTTATGTATTTTCTTTTATGA
1 CACATTTCTACCAATAATGCACCGTTATGTATTTTCTTTTATGA
* *
789078 CACATTTCTGCCAATAATGCACCATTATGTATTTTCTTTTATGA
1 CACATTTCTACCAATAATGCACCGTTATGTATTTTCTTTTATGA
* * *
789122 CACCA-TTATACTAATAATGCACCGTTATGCATTTTCTTTTAT
1 CA-CATTTCTACCAATAATGCACCGTTATGTATTTTCTTTTAT
789164 TTCAGTAACA
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.01
44 116 0.97
45 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (44 bp):
CACATTTCTACCAATAATGCACCGTTATGTATTTTCTTTTATGA
Found at i:805474 original size:21 final size:20
Alignment explanation
Indices: 805450--805493 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
805440 TAATTTTTTA
*
805450 TTTTCTCTTTCATCCTTAACT
1 TTTTCTATTTCAT-CTTAACT
*
805471 TTTTCTATTTCATTTTAACT
1 TTTTCTATTTCATCTTAACT
805491 TTT
1 TTT
805494 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTCTATTTCATCTTAACT
Found at i:805488 original size:20 final size:20
Alignment explanation
Indices: 805450--805506 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
805440 TAATTTTTTA
* *
805450 TTTTCTCTTTCATCCTTAACT
1 TTTTCTATTTCAT-TTTAACT
805471 TTTTCTATTTCATTTTAACT
1 TTTTCTATTTCATTTTAACT
* *
805491 TTTACTTTTTC-TTTTA
1 TTTTCTATTTCATTTTA
805507 TTTCCTCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.16
20 15 0.47
21 12 0.38
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTCTATTTCATTTTAACT
Found at i:809579 original size:24 final size:24
Alignment explanation
Indices: 809534--809579 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
809524 CATTTTTCCT
* *
809534 TTTCCTTCTCTCTCTTTCTTCTTA
1 TTTCCTTCTCTCTCTCTATTCTTA
809558 TTTCC-TCTCCTCTCTCTATTCT
1 TTTCCTTCT-CTCTCTCTATTCT
809580 CTTTAAACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTCCTTCTCTCTCTCTATTCTTA
Found at i:811488 original size:24 final size:24
Alignment explanation
Indices: 811461--811512 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
811451 AAAGGATATA
*
811461 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
811485 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
811509 TCAA
1 TCAA
811513 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:811513 original size:24 final size:25
Alignment explanation
Indices: 811477--811592 Score: 118
Period size: 24 Copynumber: 4.8 Consensus size: 25
811467 ATCAAAACAT
*
811477 AAAT-CAGGTCAAGTATCATATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
*
811501 AAAT-CAGGTCAAGTAACAGATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
*
811525 -AATCCAAGTCAAGTATCAGATCAG
1 AAATCCAGGTCAAGTATCAGATCAG
* *
811549 -AATCCATGTC-AGATATCATATCAG
1 AAATCCAGGTCAAG-TATCAGATCAG
* *
811573 -AATCCATGTCATGTATCAGA
1 AAATCCAGGTCAAGTATCAGA
811593 ACATAATTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 5 0.06
24 75 0.93
25 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (25 bp):
AAATCCAGGTCAAGTATCAGATCAG
Found at i:811572 original size:48 final size:48
Alignment explanation
Indices: 811484--811592 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
811474 CATAAATCAG
*
811484 GTCAAGTATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
* * * *
811532 GTCAAGTATCAGATCAG-AATCCATGTC-AGATATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAAAT-CAGGTCAAG-TAACAGATCAGAATCCAA
*
811580 GTCATGTATCAGA
1 GTCAAGTATCAGA
811593 ACATAATTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 5 0.09
48 48 0.91
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAA
Found at i:812755 original size:18 final size:18
Alignment explanation
Indices: 812734--812768 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
812724 TGCCATCTGG
*
812734 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
812752 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
812769 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:814097 original size:13 final size:13
Alignment explanation
Indices: 814079--814103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814069 GTCAACGCCG
814079 GTCAACGGGTCGC
1 GTCAACGGGTCGC
814092 GTCAACGGGTCG
1 GTCAACGGGTCG
814104 TGTCGGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGC
Done.