Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007772.1 Hibiscus syriacus cultivar Beakdansim tig00110053_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: 1636317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:200000 original size:8 final size:8
Alignment explanation
Indices: 199971--200017 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
199961 GGTTTAATAC
199971 TAATGATT
1 TAATGATT
*
199979 TAATCA--
1 TAATGATT
199985 TAAT-ATT
1 TAATGATT
199992 TAATGATT
1 TAATGATT
200000 TAAT-A-T
1 TAATGATT
200006 TAATGATT
1 TAATGATT
200014 TAAT
1 TAAT
200018 AATGATTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 1 0.03
6 9 0.27
7 6 0.18
8 17 0.52
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (8 bp):
TAATGATT
Found at i:200013 original size:73 final size:73
Alignment explanation
Indices: 199897--200042 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 73
199887 TAATTATTAA
*
199897 TAATGATTTAATGATTTAAATATAACGATTTAATACTAATGATTTAATAAAAATTACTAATAACG
1 TAATGATTTAATCA-TTAAATATAACGATTTAATACTAATGATTTAATAAAAATTACTAATAACG
*
199962 GTTTAATAC
65 ATTTAATAC
* * * ** *
199971 TAATGATTTAATCA-TAATATTTAATGATTTAATATTAATGATTTAATAATGATTACTAATAATG
1 TAATGATTTAATCATTAA-ATATAACGATTTAATACTAATGATTTAATAAAAATTACTAATAACG
200035 ATTTAATA
65 ATTTAATA
200043 ATGATTACTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
72 3 0.05
73 47 0.75
74 13 0.21
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (73 bp):
TAATGATTTAATCATTAAATATAACGATTTAATACTAATGATTTAATAAAAATTACTAATAACGA
TTTAATAC
Found at i:200048 original size:35 final size:37
Alignment explanation
Indices: 199897--200042 Score: 147
Period size: 38 Copynumber: 4.0 Consensus size: 37
199887 TAATTATTAA
* * *
199897 TAATGATTTAATGAT-TTA-AATATAACGATTTAATAC
1 TAATGATTTAATAATATTACTA-ATAATGATTTAATAC
* * *
199933 TAATGATTTAATAAAAATTACTAATAACGGTTTAATAC
1 TAATGATTTAAT-AATATTACTAATAATGATTTAATAC
* * * *
199971 TAATGATTTAATCATAATA-T-TTAATGATTTAATAT
1 TAATGATTTAATAATATTACTAATAATGATTTAATAC
200006 TAATGATTTAATAATGATTACTAATAATGATTTAATA
1 TAATGATTTAATAAT-ATTACTAATAATGATTTAATA
200043 ATGATTACTA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
35 25 0.28
36 16 0.18
37 6 0.07
38 42 0.47
39 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (37 bp):
TAATGATTTAATAATATTACTAATAATGATTTAATAC
Found at i:201670 original size:195 final size:194
Alignment explanation
Indices: 201445--201799 Score: 579
Period size: 195 Copynumber: 1.8 Consensus size: 194
201435 AACTAAATAA
* * * *
201445 ACGTTCTTGATATCCCACTTGTTTGCTTTCACTGGTTTCTTGAACACCCACTTTTTTTCTTTTCT
1 ACGTGCTTGATATCACACTTGTTTGCTTTCACTGGTTTCTTCAACACCCACTTTTTTTCTTCTCT
*
201510 TTCACCTACACAAAAAAAAAAATTATGTCTTCACCGGGTAAGTAAACAAACTATCCCCAC-CCAA
66 TTCAACTACAC--AAAAAAAAATTATGTCTTCACCGGGTAAGTAAACAAACTATCCCCACACCAA
201574 TATATAATATTACAACCCTCA-CTAACCCAACCCAACCCAACCAAACCAAACCAATAATTCTCAT
129 TATATAATATTACAACCCTCATC-AACCCAACCCAACCCAACCAAACCAAACCAATAATTCTCAT
201638 TC
193 TC
201640 ACGTGCTTGATATCACACTTGTTTGCTTTCACTGGTTTCTTCAACACCCACTTTTTTTCTTCTCT
1 ACGTGCTTGATATCACACTTGTTTGCTTTCACTGGTTTCTTCAACACCCACTTTTTTTCTTCTCT
*****
201705 TTCAACTACACAAAATTTTTTTATGTCTTCACCGGGTAAGTAAACAAACTATCCCCACACCAATA
66 TTCAACTACACAAAAAAAAATTATGTCTTCACCGGGTAAGTAAACAAACTATCCCCACACCAATA
201770 TATAATATTACAACCCTCATCAACCCAACC
131 TATAATATTACAACCCTCATCAACCCAACC
201800 AAACAAAATC
Statistics
Matches: 148, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
193 42 0.28
194 34 0.23
195 72 0.49
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (194 bp):
ACGTGCTTGATATCACACTTGTTTGCTTTCACTGGTTTCTTCAACACCCACTTTTTTTCTTCTCT
TTCAACTACACAAAAAAAAATTATGTCTTCACCGGGTAAGTAAACAAACTATCCCCACACCAATA
TATAATATTACAACCCTCATCAACCCAACCCAACCCAACCAAACCAAACCAATAATTCTCATTC
Found at i:210448 original size:14 final size:15
Alignment explanation
Indices: 210414--210452 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
210404 ATTATTAATC
* *
210414 TAATGATTTGATATT
1 TAATGATTTAATATA
210429 TAATGATTTAATA-A
1 TAATGATTTAATATA
210443 TAATGATTTA
1 TAATGATTTA
210453 GTCATGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (15 bp):
TAATGATTTAATATA
Found at i:211261 original size:21 final size:21
Alignment explanation
Indices: 211228--211276 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
211218 AATATAATAT
211228 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
211249 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
211270 ATTAACT
1 A-TAACT
211277 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:211893 original size:28 final size:29
Alignment explanation
Indices: 211836--211924 Score: 153
Period size: 28 Copynumber: 3.1 Consensus size: 29
211826 CCACAGCTTG
*
211836 GTCGCTGGGACTCCATGGCGACCTACCAT
1 GTCGCCGGGACTCCATGGCGACCTACCAT
211865 GTCGCCGGGACTCCAT-GCGACCTACCAT
1 GTCGCCGGGACTCCATGGCGACCTACCAT
211893 GTCGCCGGGACTCCATGGCGACCTACACAT
1 GTCGCCGGGACTCCATGGCGACCTAC-CAT
211923 GT
1 GT
211925 AAGATTTCCC
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 28 0.49
29 24 0.42
30 5 0.09
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.19
Consensus pattern (29 bp):
GTCGCCGGGACTCCATGGCGACCTACCAT
Found at i:212085 original size:29 final size:29
Alignment explanation
Indices: 212052--212119 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
212042 CATGCATGAA
212052 TCCTTGGTCGCCCCGAGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
**** *
212081 TCCTTGGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
212110 TCCTTGGTCG
1 TCCTTGGTCG
212120 TTGGGCGTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.07, C:0.32, G:0.34, T:0.26
Consensus pattern (29 bp):
TCCTTGGTCGCCCCGAGTGCATGGCGACC
Found at i:212120 original size:29 final size:29
Alignment explanation
Indices: 212068--212139 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
212058 GTCGCCCCGA
212068 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
212097 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
212126 GTGCATGGCGACCT
1 GTGCATGGCGACCT
212140 ACACATGCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.08, C:0.28, G:0.38, T:0.26
Consensus pattern (29 bp):
GTGCATGGCGACCTCCTTGGTCGTTGGGC
Found at i:212353 original size:80 final size:81
Alignment explanation
Indices: 212193--212373 Score: 339
Period size: 80 Copynumber: 2.3 Consensus size: 81
212183 TTGGTCGGTC
*
212193 ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCCTCA
1 ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCCCCA
212258 ATCTCCCCATGCATGA
66 ATCTCCCCATGCATGA
212274 ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGAG-CCCGAGTGCATGGCACGATCTCCCCA
1 ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCCCCA
212338 ATCTCCCCATGCATGA
66 ATCTCCCCATGCATGA
212354 ATCCTTGGTCGCC-CGAGTGC
1 ATCCTTGGTCGCCTCGAGTGC
212374 ATGGAGACCT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
79 7 0.07
80 54 0.55
81 38 0.38
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (81 bp):
ATCCTTGGTCGCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCCCCA
ATCTCCCCATGCATGA
Found at i:212387 original size:28 final size:29
Alignment explanation
Indices: 212355--212422 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
212345 CATGCATGAA
212355 TCCTTGGTCG-CCCGAGTGCATGGAGACC
1 TCCTTGGTCGTCCCGAGTGCATGGAGACC
*** * *
212383 TCCTTGGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGTCCCGAGTGCATGGAGACC
212412 TCCTTGGTCGT
1 TCCTTGGTCGT
212423 TGGGCGTGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.09, C:0.29, G:0.34, T:0.28
Consensus pattern (29 bp):
TCCTTGGTCGTCCCGAGTGCATGGAGACC
Found at i:212411 original size:29 final size:29
Alignment explanation
Indices: 212370--212448 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
212360 GGTCGCCCGA
*
212370 GTGCATGGAGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
212399 GTGCATGGCGACCTCCTTGGTCGTTGGGC
1 GTGCATGGCGACCTCCTTGGTCGTTGGGC
*
212428 GTGCATGGCGA-CTCTTTGGTC
1 GTGCATGGCGACCTCCTTGGTC
212449 ACTGTACAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 9 0.19
29 39 0.81
ACGTcount: A:0.09, C:0.25, G:0.37, T:0.29
Consensus pattern (29 bp):
GTGCATGGCGACCTCCTTGGTCGTTGGGC
Found at i:219584 original size:2 final size:2
Alignment explanation
Indices: 219566--219615 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
219556 GTTCCAAACC
*
219566 TA TA TC TA TA T- 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
219607 TA TA TA TA T
1 TA TA TA TA T
219616 TGTAAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:220161 original size:20 final size:20
Alignment explanation
Indices: 220117--220154 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
220107 ATTATTGTAA
*
220117 ATTTTAGAATTAATAATACT
1 ATTTTAGAATGAATAATACT
*
220137 ATTTTATAATGAATAATA
1 ATTTTAGAATGAATAATA
220155 TTCTTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTTTAGAATGAATAATACT
Found at i:222025 original size:18 final size:18
Alignment explanation
Indices: 222002--222068 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
221992 AAGAAGGGTG
222002 GTATCGATACTAAACTGA
1 GTATCGATACTAAACTGA
222020 GTATCGATACTCCTAAACTG-
1 GTATCGATA---CTAAACTGA
* **
222040 GTTATCAATACTATCCTGA
1 G-TATCGATACTAAACTGA
222059 GTATCGATAC
1 GTATCGATAC
222069 CAAATTTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 23 0.57
19 1 0.03
20 1 0.03
21 15 0.38
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (18 bp):
GTATCGATACTAAACTGA
Found at i:222045 original size:21 final size:21
Alignment explanation
Indices: 222011--222051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
222001 GGTATCGATA
*
222011 CTAAACTGAGTATCGATACTC
1 CTAAACTGAGTATCAATACTC
222032 CTAAACTG-GTTATCAATACT
1 CTAAACTGAG-TATCAATACT
222052 ATCCTGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (21 bp):
CTAAACTGAGTATCAATACTC
Found at i:222143 original size:20 final size:20
Alignment explanation
Indices: 222100--222143 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
222090 AAAAAATGTT
* *
222100 AGTATTGATATCCTACTAAG
1 AGTATTGATATCCTACCAAC
* *
222120 AGTATTGATATTCTACCACC
1 AGTATTGATATCCTACCAAC
222140 AGTA
1 AGTA
222144 CTAATACTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (20 bp):
AGTATTGATATCCTACCAAC
Found at i:229895 original size:20 final size:19
Alignment explanation
Indices: 229870--229909 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
229860 TATGGGTTCG
* *
229870 AGTATCGGTATTGGGTGACC
1 AGTATCGATA-TGGATGACC
229890 AGTATCGATATGGATGACC
1 AGTATCGATATGGATGACC
229909 A
1 A
229910 ACATTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (19 bp):
AGTATCGATATGGATGACC
Found at i:229909 original size:19 final size:20
Alignment explanation
Indices: 229870--229926 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
229860 TATGGGTTCG
* *
229870 AGTATCGGTATTGGGTGACC
1 AGTATCGATATTGGATGACC
229890 AGTATCGATA-TGGATGACC
1 AGTATCGATATTGGATGACC
** *
229909 AACATTGATATTGGATGA
1 AGTATCGATATTGGATGA
229927 ACTATGACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
AGTATCGATATTGGATGACC
Found at i:235768 original size:20 final size:20
Alignment explanation
Indices: 235709--235767 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
235699 AAAATTTTCA
*
235709 GCCTGGTTTCGAAAATCCCTT
1 GCCTGGTTTCG-AAACCCCTT
235730 GCCTGGTTTCGAAACCCCTT
1 GCCTGGTTTCGAAACCCCTT
235750 GTACCTGGTTTC-AAACCC
1 G--CCTGGTTTCGAAACCC
235768 TCTTTGGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 9 0.26
21 17 0.49
22 9 0.26
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.31
Consensus pattern (20 bp):
GCCTGGTTTCGAAACCCCTT
Found at i:242839 original size:12 final size:12
Alignment explanation
Indices: 242824--242873 Score: 82
Period size: 12 Copynumber: 4.2 Consensus size: 12
242814 CTTAAAACAT
*
242824 ATATTAATATTA
1 ATATTATTATTA
242836 ATATTATTATTA
1 ATATTATTATTA
242848 ATATTATTATTA
1 ATATTATTATTA
*
242860 TTATTATTATTA
1 ATATTATTATTA
242872 AT
1 AT
242874 TAGTTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:242845 original size:3 final size:3
Alignment explanation
Indices: 242825--242884 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
242815 TTAAAACATA
* * *
242825 TAT TAA TAT TAA TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
242874 TAGT T-T TAT TA
1 TA-T TAT TAT TA
242885 CACTATTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:245344 original size:27 final size:27
Alignment explanation
Indices: 245314--245373 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
245304 GAAATGATTG
245314 AAATA-CCCTAGATATGTAAAATGAC-CA
1 AAATACCCCTAGA-AT-TAAAATGACTCA
*
245341 AAATACCCCTATAATTAAAATGACTCA
1 AAATACCCCTAGAATTAAAATGACTCA
245368 AGAATA
1 A-AATA
245374 TCACCAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.31
27 10 0.34
28 10 0.34
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.23
Consensus pattern (27 bp):
AAATACCCCTAGAATTAAAATGACTCA
Found at i:246492 original size:24 final size:23
Alignment explanation
Indices: 246465--246547 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 23
246455 ATTTTCGATT
*
246465 TGAATTTTGTTCTGACATCTAATC
1 TGAATTTTGTTCTGA-ATCTGATC
* * *
246489 TGAAATCTGTTCTGATTCCTGA-C
1 TGAATTTTGTTCTGAAT-CTGATC
*
246512 ATGGATTTTGTTCTGATATCTGATC
1 -TGAATTTTGTTCTGA-ATCTGATC
*
246537 TGAATTATGTT
1 TGAATTTTGTT
246548 TTATTTTCTG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.04
24 41 0.91
25 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (23 bp):
TGAATTTTGTTCTGAATCTGATC
Found at i:248996 original size:129 final size:128
Alignment explanation
Indices: 248623--249080 Score: 562
Period size: 129 Copynumber: 3.5 Consensus size: 128
248613 CCACCGTTAA
* *
248623 CCGTTGACTTTGACCAAAAAAGTTAAAATTTTTGAAAAGTCATATTTTATGTTTTTCGACGTCTT
1 CCGTTGACTTTGACC-AAAAAGTCAAAATTTTTGAAAAGTCATATTTTATGTTTTTTGACGTCTT
* *
248688 TAGTTCGATTATGAAGTCCGTTTTTTCCAAATTCAAACCCGAAAACCTCCAAATTGTCAGTTAAA
65 TAGTTCGATTACGAAGTCCG-TTTTTCCAAATTCAAACCAG-AAACCTCCAAATTGTCAGTTAAA
248753 C
128 C
* * * *
248754 CCGTTGACTTTGACTAAAAAAGTTAAAAATTTTGAAAAGTCATATTTTATGTTTTCTGACGTCTT
1 CCGTTGACTTTGAC-CAAAAAGTCAAAATTTTTGAAAAGTCATATTTTATGTTTTTTGACGTCTT
248819 TAGTTCGATT-CTGAAGTCCGTTTTTCCAAATTCAAACCCA-ACAACCTCCAAATTGTCAGTTAA
65 TAGTTCGATTAC-GAAGTCCGTTTTTCCAAATTCAAA-CCAGA-AACCTCCAAATTGTCAGTTAA
248882 AC
127 AC
* *
248884 CCGTTGACTTTGACCAAAAAGTCACAATTTTTGAAAAGTCATATTTTATGTTTTTTGATGT-TCT
1 CCGTTGACTTTGACCAAAAAGTCAAAATTTTTGAAAAGTCATATTTTATGTTTTTTGACGTCT-T
* * * * * * * *
248948 GAGTTTGATTACGAAATCTGTTTTTCCAAATTCGAACCAGAAAGCCTCCAAATTATCAGTCAATC
65 TAGTTCGATTACGAAGTCCGTTTTTCCAAATTCAAACCAGAAA-CCTCCAAATTGTCAGTTAAAC
* * * *
249013 CCGTTGACTTTGACATTGACCAAAAAGTCAAAATTTTCGAAAAATCATATTTTATGCTTTTCGAC
1 CCGTTGAC--T----TTGACCAAAAAGTCAAAATTTTTGAAAAGTCATATTTTATGTTTTTTGAC
249078 GTC
60 GTC
249081 CTGAGTCCGA
Statistics
Matches: 286, Mismatches: 26, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
128 6 0.02
129 99 0.35
130 54 0.19
131 81 0.28
135 46 0.16
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (128 bp):
CCGTTGACTTTGACCAAAAAGTCAAAATTTTTGAAAAGTCATATTTTATGTTTTTTGACGTCTTT
AGTTCGATTACGAAGTCCGTTTTTCCAAATTCAAACCAGAAACCTCCAAATTGTCAGTTAAAC
Found at i:249372 original size:135 final size:134
Alignment explanation
Indices: 249125--249387 Score: 341
Period size: 134 Copynumber: 2.0 Consensus size: 134
249115 AAAATTTTGG
* * *
249125 CTTTGACCGAAAAAGTTAAAATTCTCGTAAAGTCTATTTTATGTTTTTCGACATCCTGAATTCGA
1 CTTTAACCGAAAAAGTCAAAATTCTCGAAAAGTCTATTTTATGTTTTTCGACATCCTGAATTCGA
* * * * *
249190 TTCCGAAGTCCTTTTTCTAAATTCAAACCCGAAAGCTTCCAAATTGTCAGTCAAACCCGTTGAAT
66 TTACGAAGTCCTTTTTCCAAATTCAAACCCAAAAACCTCCAAATTGTCAGTCAAACCCGTTGAAT
249255 TTTA
131 TTTA
* * * * * *
249259 CTTTAACC-AAAAAGTCGAAATTTTCGAAAAGTCATATTTTTTGTTTTTTGACATCTTGAGTTCG
1 CTTTAACCGAAAAAGTCAAAATTCTCGAAAAGTC-TATTTTATGTTTTTCGACATCCTGAATTCG
* *
249323 ATTATGAAGTCCGTTTTTCCAAATTTGAAA-CCAAAAACCTCCAAATTGTCAGTCAAACCCGTTG
65 ATTACGAAGTCC-TTTTTCCAAA-TTCAAACCCAAAAACCTCCAAATTGTCAGTCAAACCCGTTG
249387 A
128 A
249388 CATCGATCAA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
133 21 0.19
134 43 0.39
135 41 0.37
136 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (134 bp):
CTTTAACCGAAAAAGTCAAAATTCTCGAAAAGTCTATTTTATGTTTTTCGACATCCTGAATTCGA
TTACGAAGTCCTTTTTCCAAATTCAAACCCAAAAACCTCCAAATTGTCAGTCAAACCCGTTGAAT
TTTA
Found at i:251268 original size:29 final size:29
Alignment explanation
Indices: 251208--251364 Score: 172
Period size: 29 Copynumber: 5.3 Consensus size: 29
251198 GAAAAATACA
* *
251208 AAAATATCACCTTTATTAAAAATAATTACC
1 AAAATATCACCATT-TTAAAAATAATTCCC
*
251238 AAAATATCACCATTTTACAAATAATTCCC
1 AAAATATCACCATTTTAAAAATAATTCCC
* * * *
251267 AAAATTTCATCATTTTAAAAATAATTACT
1 AAAATATCACCATTTTAAAAATAATTCCC
* *
251296 AGAATATCACTATTTTTTAAAAA-AATTCCC
1 AAAATATCACCA--TTTTAAAAATAATTCCC
* *
251326 AAAATATCACCTTTTTCAAAATAATTCCC
1 AAAATATCACCATTTTAAAAATAATTCCC
*
251355 AAAATGTCAC
1 AAAATATCAC
251365 TGGGCCGGGT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
28 8 0.08
29 61 0.58
30 27 0.26
31 9 0.09
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATATCACCATTTTAAAAATAATTCCC
Found at i:251365 original size:59 final size:58
Alignment explanation
Indices: 251208--251365 Score: 192
Period size: 59 Copynumber: 2.7 Consensus size: 58
251198 GAAAAATACA
* *
251208 AAAATATCACCTTTATTAAAAATAATTACCAAAATATCACCATTTTACAAATAATTCCC
1 AAAATATCACCTTT-TTAAAAATAATTACCAAAATATCACTATTTTACAAAAAATTCCC
* * * * *
251267 AAAATTTCATCATTTTAAAAATAATTACTAGAATATCACTATTTTTTA-AAAAAATTCCC
1 AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACTA--TTTTACAAAAAATTCCC
* * *
251326 AAAATATCACCTTTTTCAAAATAATTCCCAAAATGTCACT
1 AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACT
251366 GGGCCGGGTC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 24 0.29
59 53 0.65
60 5 0.06
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (58 bp):
AAAATATCACCTTTTTAAAAATAATTACCAAAATATCACTATTTTACAAAAAATTCCC
Found at i:258578 original size:30 final size:29
Alignment explanation
Indices: 258544--258653 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
258534 GAAAAATACA
*
258544 AAAATATCACCTTTATTAAAAATAATTACC
1 AAAATATCACCATT-TTAAAAATAATTACC
* * * *
258574 AAAATATCATCGTTTTACAAATAATTCCC
1 AAAATATCACCATTTTAAAAATAATTACC
* * *
258603 AAAATGTCATCATTTTAAAAATAATAACC
1 AAAATATCACCATTTTAAAAATAATTACC
* * *
258632 AGAATGTCACTATTTTTAAAAA
1 AAAATATCACCA-TTTTAAAAA
258654 AAAAAATCCT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 46 0.69
30 21 0.31
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATATCACCATTTTAAAAATAATTACC
Found at i:258604 original size:29 final size:29
Alignment explanation
Indices: 258544--258632 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
258534 GAAAAATACA
* *
258544 AAAATATCACCTTTATTAAAAATAATTACC
1 AAAATATCATCATT-TTAAAAATAATTACC
* * *
258574 AAAATATCATCGTTTTACAAATAATTCCC
1 AAAATATCATCATTTTAAAAATAATTACC
* *
258603 AAAATGTCATCATTTTAAAAATAATAACC
1 AAAATATCATCATTTTAAAAATAATTACC
258632 A
1 A
258633 GAATGTCACT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 38 0.76
30 12 0.24
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAATATCATCATTTTAAAAATAATTACC
Found at i:258637 original size:29 final size:29
Alignment explanation
Indices: 258559--258758 Score: 115
Period size: 29 Copynumber: 6.8 Consensus size: 29
258549 ATCACCTTTA
* *
258559 TTAAAAATAATTACCAAAATATCATCGTT
1 TTAAAAATAATTACCAAAATGTCATCATT
* *
258588 TTACAAATAATTCCCAAAATGTCATCATT
1 TTAAAAATAATTACCAAAATGTCATCATT
* *
258617 TTAAAAATAATAACCAGAATGTCA-CTATTT
1 TTAAAAATAATTACCAAAATGTCATC-A-TT
* ** * *
258647 TTAAAAAAAAAAATCCTAAAATGT-AACTTT
1 TTAAAAATAATTA-CC-AAAATGTCATCATT
* *
258677 TTCCAAAATAATT-CCTAAAATGTCA-CTTTT
1 TT-AAAAATAATTACC-AAAATGTCATC-ATT
* ** *
258707 TTCAAAATAATTTTCAAAATGTCA-CTTT
1 TTAAAAATAATTACCAAAATGTCATCATT
**
258735 TTTCAAATAATT-CTCAAAATGTCA
1 TTAAAAATAATTAC-CAAAATGTCA
258759 CTGGGTCGGG
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
28 24 0.17
29 77 0.55
30 24 0.17
31 9 0.06
32 7 0.05
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (29 bp):
TTAAAAATAATTACCAAAATGTCATCATT
Found at i:258739 original size:17 final size:17
Alignment explanation
Indices: 258693--258741 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
258683 AATAATTCCT
258693 AAAATGTCACTTTTTTC
1 AAAATGTCACTTTTTTC
*
258710 AAAA--T-A--ATTTTC
1 AAAATGTCACTTTTTTC
258722 AAAATGTCACTTTTTTC
1 AAAATGTCACTTTTTTC
258739 AAA
1 AAA
258742 TAATTCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
12 9 0.36
14 2 0.08
15 2 0.08
17 12 0.48
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (17 bp):
AAAATGTCACTTTTTTC
Found at i:258744 original size:28 final size:29
Alignment explanation
Indices: 258664--258760 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
258654 AAAAAATCCT
* * *
258664 AAAATGTAACTTTTTCCAAAATAA-TTCC
1 AAAATGTCACTTTTTTCAAAATAATTTTC
258692 TAAAATGTCACTTTTTTCAAAATAATTTTC
1 -AAAATGTCACTTTTTTCAAAATAATTTTC
*
258722 AAAATGTCACTTTTTTC-AAATAATTCTC
1 AAAATGTCACTTTTTTCAAAATAATTTTC
258750 AAAATGTCACT
1 AAAATGTCACT
258761 GGGTCGGGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 21 0.33
29 39 0.62
30 3 0.05
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.40
Consensus pattern (29 bp):
AAAATGTCACTTTTTTCAAAATAATTTTC
Found at i:261756 original size:24 final size:24
Alignment explanation
Indices: 261674--261756 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
261664 ATTTCCGATT
*
261674 TGAATTATGTTCTGACATCTGATC
1 TGAATTATGTTCTGATATCTGATC
* * **
261698 TGAAATCTGTTCTGAT-TCCTGGCC
1 TGAATTATGTTCTGATAT-CTGATC
* * *
261722 TGGATTCTGTTCTGATATTTGATC
1 TGAATTATGTTCTGATATCTGATC
261746 TGAATTATGTT
1 TGAATTATGTT
261757 TTGTTTTCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
23 1 0.02
24 43 0.96
25 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (24 bp):
TGAATTATGTTCTGATATCTGATC
Found at i:263429 original size:30 final size:30
Alignment explanation
Indices: 263395--263467 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
263385 TTTATTTGTG
*
263395 TTTTAGTCCCTTAAATGTCTTTTTTTACTA
1 TTTTAGTCCCTTAAATGTCTATTTTTACTA
* * * **
263425 TTTTAGACCCTTTAATTTTCTATTTTTGGTA
1 TTTTAGTCCC-TTAAATGTCTATTTTTACTA
263456 -TTTAGTCCCTTA
1 TTTTAGTCCCTTA
263468 GGCTTACATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 3 0.09
30 17 0.49
31 15 0.43
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.56
Consensus pattern (30 bp):
TTTTAGTCCCTTAAATGTCTATTTTTACTA
Found at i:263684 original size:21 final size:22
Alignment explanation
Indices: 263643--263686 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
263633 ATGTATGTAC
*
263643 ATGTTGTAAATGTTATTATTTT
1 ATGTTGTAAATATTATTATTTT
*
263665 ATGTTGTAATTATT-TTATTTT
1 ATGTTGTAAATATTATTATTTT
263686 A
1 A
263687 CCTCTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (22 bp):
ATGTTGTAAATATTATTATTTT
Found at i:264580 original size:11 final size:11
Alignment explanation
Indices: 264557--264585 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
264547 ATTGGAAAAC
264557 TAATTTA-TTT
1 TAATTTATTTT
264567 TAATTTATTTT
1 TAATTTATTTT
264578 TAATTTAT
1 TAATTTAT
264586 ATATTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TAATTTATTTT
Found at i:267318 original size:24 final size:23
Alignment explanation
Indices: 267286--267338 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
267276 TTTTCTTTAA
*
267286 TTATATAATTTAATATTATATATAT
1 TTAT-TAATATAATATTATATAT-T
*
267311 TTATTAATATAATATTTTATATT
1 TTATTAATATAATATTATATATT
267334 TTATT
1 TTATT
267339 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTAATATAATATTATATATT
Found at i:267349 original size:31 final size:31
Alignment explanation
Indices: 267314--267374 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
267304 TATATATTTA
* * * *
267314 TTAATATAATATTTTATATTTTATTTTTATT
1 TTAATATAAAAATGTATATTTTATCTTTATT
*
267345 TTAATGTAAAAATGTATATTTTATCTTTAT
1 TTAATATAAAAATGTATATTTTATCTTTAT
267375 CTTCACTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (31 bp):
TTAATATAAAAATGTATATTTTATCTTTATT
Found at i:267386 original size:31 final size:31
Alignment explanation
Indices: 267328--267397 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
267318 TATAATATTT
* * *
267328 TATATTTTATTTTTATTTTAATGTAAAAATG
1 TATATTTTATCTTTATTTCAATGTAAAAATA
*
267359 TATATTTTATCTTTATCTTCACT-TAAAAATA
1 TATATTTTATCTTTAT-TTCAATGTAAAAATA
267390 TAT-TTTTA
1 TATATTTTA
267398 AAAATATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.15
31 25 0.74
32 4 0.12
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (31 bp):
TATATTTTATCTTTATTTCAATGTAAAAATA
Found at i:267400 original size:14 final size:14
Alignment explanation
Indices: 267381--267407 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
267371 TTATCTTCAC
267381 TTAAAAATATATTT
1 TTAAAAATATATTT
267395 TTAAAAATATATT
1 TTAAAAATATATT
267408 AACTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAAATATATTT
Found at i:267429 original size:21 final size:22
Alignment explanation
Indices: 267401--267450 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
267391 ATTTTTAAAA
267401 ATATATTAACTTTAA-ATATTTT
1 ATATATT-ACTTTAATATATTTT
*
267423 AT-TATTATTTTAATATATTTT
1 ATATATTACTTTAATATATTTT
267444 ATATATT
1 ATATATT
267451 CATATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 13 0.52
22 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTACTTTAATATATTTT
Found at i:268755 original size:23 final size:21
Alignment explanation
Indices: 268717--268759 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
268707 TTAATTATTT
268717 AAAAAATTAAATAAAAATATA
1 AAAAAATTAAATAAAAATATA
*
268738 AAAAACATTTAATAAAAA-ATA
1 AAAAA-ATTAAATAAAAATATA
268759 A
1 A
268760 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATA
Found at i:269397 original size:21 final size:19
Alignment explanation
Indices: 269365--269416 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
269355 AAAACCGATT
*
269365 TTCAACCGGTTCACGGTCCGG
1 TTCAA-CGGTTCACAGT-CGG
269386 TTCGAACGGTTCACAGTCGG
1 TTC-AACGGTTCACAGTCGG
269406 TTCAACGGTTC
1 TTCAACGGTTC
269417 CTTCCGATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.28
20 6 0.21
21 13 0.45
22 2 0.07
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (19 bp):
TTCAACGGTTCACAGTCGG
Found at i:273359 original size:2 final size:2
Alignment explanation
Indices: 273352--273383 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
273342 TGCCACACGA
273352 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
273384 TTGAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:283676 original size:2 final size:2
Alignment explanation
Indices: 283669--283699 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
283659 TTTTCTTCTC
283669 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
283700 CCTTTTGAGA
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:297583 original size:2 final size:2
Alignment explanation
Indices: 297576--297680 Score: 176
Period size: 2 Copynumber: 53.0 Consensus size: 2
297566 ATTAAGTTGC
*
297576 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
297618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
297660 AT AT AT AT AT A- AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
297681 GATTTTGTTA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
1 1 0.01
2 95 0.99
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:301845 original size:13 final size:14
Alignment explanation
Indices: 301816--301852 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
301806 TTTAAAAAAA
*
301816 TAATTATTTACTTT
1 TAATAATTTACTTT
301830 TAATAATTTA-TTT
1 TAATAATTTACTTT
301843 TAATAATTTA
1 TAATAATTTA
301853 AAAATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATAATTTACTTT
Found at i:310637 original size:20 final size:22
Alignment explanation
Indices: 310586--310640 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
310576 AAAAAAATCG
*
310586 AAAATATTATTAAAATTCATATA
1 AAAATATT-TAAAAATTCATATA
*
310609 AAACCTATTTAAAAATT-ATA-A
1 AAA-ATATTTAAAAATTCATATA
310630 AAAATATTTAA
1 AAAATATTTAA
310641 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 3 0.11
23 10 0.36
24 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATTTAAAAATTCATATA
Found at i:310754 original size:2 final size:2
Alignment explanation
Indices: 310749--310797 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
310739 ACACACACAC
310749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
310791 AT AT AT A
1 AT AT AT A
310798 CGACTTTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:315781 original size:2 final size:2
Alignment explanation
Indices: 315770--315806 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
315760 GATTTCTATG
315770 AT AT -T 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
315807 GCAAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:320094 original size:12 final size:12
Alignment explanation
Indices: 320077--320102 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
320067 GAGGAAGAAC
320077 GACGAGAACAGA
1 GACGAGAACAGA
320089 GACGAGAACAGA
1 GACGAGAACAGA
320101 GA
1 GA
320103 AGAGCACGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.35, T:0.00
Consensus pattern (12 bp):
GACGAGAACAGA
Found at i:320896 original size:14 final size:14
Alignment explanation
Indices: 320862--320903 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
320852 TAATTTCAAT
320862 ATTTTA-TATTTTA
1 ATTTTATTATTTTA
**
320875 ATCCTATTATTTTA
1 ATTTTATTATTTTA
320889 ATTTTATTTATTTTA
1 ATTTTA-TTATTTTA
320904 GTCACTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTATTTTA
Found at i:321195 original size:2 final size:2
Alignment explanation
Indices: 321188--321227 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
321178 AGTCATATTA
321188 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
321228 GAAAGATTAA
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:327125 original size:21 final size:21
Alignment explanation
Indices: 327100--327180 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
327090 CAGAACCCCA
* *
327100 GGGGGTATCGATTCCCTTGTG
1 GGGGGAATCGATTCCCTTATG
* **
327121 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATT-CCCTT-ATG
* *
327144 GGGGGAATCGGTTCCCTCATG
1 GGGGGAATCGATTCCCTTATG
327165 GGGGG-ATCGATTCCCT
1 GGGGGAATCGATTCCCT
327181 CTGCACCATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 17 0.35
22 9 0.18
23 13 0.27
ACGTcount: A:0.15, C:0.23, G:0.36, T:0.26
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTATG
Found at i:333903 original size:20 final size:21
Alignment explanation
Indices: 333859--333911 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
333849 TTTTTCATTA
333859 CATTTGCATTTTTAATGTTTG
1 CATTTGCATTTTTAATGTTTG
333880 CATTTGCATTTTTATAT-TTT-
1 CATTTGCATTTTTA-ATGTTTG
*
333900 CATTTACATTTT
1 CATTTGCATTTT
333912 CATTTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 11 0.37
21 17 0.57
22 2 0.07
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (21 bp):
CATTTGCATTTTTAATGTTTG
Found at i:334942 original size:19 final size:18
Alignment explanation
Indices: 334918--334954 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
334908 GAAGGAATTC
*
334918 GAGAATTTATTGATAAATG
1 GAGAATTAATTGA-AAATG
334937 GAGAATTAATTGAAAATG
1 GAGAATTAATTGAAAATG
334955 TGATCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (18 bp):
GAGAATTAATTGAAAATG
Found at i:337411 original size:42 final size:40
Alignment explanation
Indices: 337273--337417 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 40
337263 GGGCAGCTCA
* * *
337273 AAAGCCCATTTTAGACAGAAATGATCCATGTGGGACATCTTG
1 AAAGCCCATTTCAAACAGAAATGAT-CATGTGGGGCATC-TG
* * * *
337315 AAAGTCCATTTCAACCAGAAATAGA--ATGTTGGGGCATTTT
1 AAAGCCCATTTCAAACAGAAAT-GATCATG-TGGGGCATCTG
* * *
337355 AAATGTCTAATTCAAACAGAAATGATTCATGTGGGGCATGCTG
1 AAA-GCCCATTTCAAACAGAAATGA-TCATGTGGGGCAT-CTG
*
337398 AAAGCCCATTTCAATCAGAA
1 AAAGCCCATTTCAAACAGAA
337418 TCAAGAATGT
Statistics
Matches: 80, Mismatches: 16, Indels: 14
0.73 0.15 0.13
Matches are distributed among these distances:
40 9 0.11
41 23 0.29
42 39 0.49
43 9 0.11
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (40 bp):
AAAGCCCATTTCAAACAGAAATGATCATGTGGGGCATCTG
Found at i:339526 original size:28 final size:28
Alignment explanation
Indices: 339486--339580 Score: 181
Period size: 28 Copynumber: 3.4 Consensus size: 28
339476 AATAGTAAGA
*
339486 AAACGATTTCCAAAGTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
339514 AAACTATTTCCAAAGTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
339542 AAACTATTTCCAAAGTTTCTTACTTAGT
1 AAACTATTTCCAAAGTTTCTTACTTAGT
339570 AAACTATTTCC
1 AAACTATTTCC
339581 CACATCTGTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (28 bp):
AAACTATTTCCAAAGTTTCTTACTTAGT
Found at i:339647 original size:45 final size:45
Alignment explanation
Indices: 339583--339718 Score: 236
Period size: 45 Copynumber: 3.0 Consensus size: 45
339573 CTATTTCCCA
339583 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
339628 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
* *
339673 CATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCGGG
339719 AGCTTTTTGA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
45 75 0.86
47 12 0.14
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGT
Found at i:339786 original size:76 final size:76
Alignment explanation
Indices: 339650--340021 Score: 606
Period size: 76 Copynumber: 4.9 Consensus size: 76
339640 CTTCAGTGCA
* *
339650 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
339715 CGGGAGCTTTT
66 CGGGAGCTTTT
* * *
339726 TGATATTTTTAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
339791 CGGGAGCTTTT
66 CGGGAGCTTTT
339802 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
339867 CGGGGAGCTTTT
66 C-GGGAGCTTTT
* *
339879 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
339944 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * *
339955 TGATATTTTCAAAACCTTCGAGAT-ATCTGTAAGACCTACAATGCATGATGTTTTC-AAAA-CCT
1 TGATATTTTCAAAGCCTTCG-GGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
340017 TCGGG
65 TCGGG
340022 TCATCTATAA
Statistics
Matches: 282, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
74 8 0.03
75 4 0.01
76 194 0.69
77 76 0.27
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:339936 original size:153 final size:153
Alignment explanation
Indices: 339650--340021 Score: 608
Period size: 153 Copynumber: 2.5 Consensus size: 153
339640 CTTCAGTGCA
* *
339650 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* * * *
339715 C-GGGAGCTTTTTGATATTTTTAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTT
66 CGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
339779 TCAAAAAGCCTTCGGGAGCTTTT
131 TCAAAAAGCCTTCGGGAGCTTTT
339802 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
339867 CGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
66 CGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
*
339932 TCAAAAATCCTTCGGGAGCTTTT
131 TCAAAAAGCCTTCGGGAGCTTTT
* * * *
339955 TGATATTTTCAAAACCTTCGAGAT-ATCTGTAAGACCTACAATGCATGATGTTTTC-AAAA-CCT
1 TGATATTTTCAAAGCCTTCG-GGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCT
340017 TCGGG
65 TCGGG
340022 TCATCTATAA
Statistics
Matches: 207, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
151 8 0.04
152 68 0.33
153 129 0.62
154 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (153 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
TCAAAAAGCCTTCGGGAGCTTTT
Found at i:340054 original size:45 final size:45
Alignment explanation
Indices: 339956--340058 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
339946 GGAGCTTTTT
* *
339956 GATATTTTCAAAACCTTCGAGATATCTGTAAGACCTACAATGCAT
1 GATATTTTCAAAACCTTCGAGATATCTATAAGACCTACAATGCAG
* * * * *
340001 GATGTTTTCAAAACCTTCG-GGTCATCTATAAGCCCTATAGTGCAG
1 GATATTTTCAAAACCTTCGAGAT-ATCTATAAGACCTACAATGCAG
340046 GATATTTTCAAAA
1 GATATTTTCAAAA
340059 AACCTTCAGG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.04
45 47 0.96
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (45 bp):
GATATTTTCAAAACCTTCGAGATATCTATAAGACCTACAATGCAG
Found at i:340085 original size:76 final size:76
Alignment explanation
Indices: 340005--340210 Score: 306
Period size: 76 Copynumber: 2.7 Consensus size: 76
339995 ATGCATGATG
* * * *
340005 TTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATATTTTCAAAAAACCTTCAG-G
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTT-AGAG
340069 AGCTTTTTAATA
65 AGCTTTTTAATA
* *
340081 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGAGA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTAGAGA
*
340146 GCTTTTTGATA
66 GCTTTTTAATA
* * *
340157 TTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAA
340211 CCTTCGGGTC
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
75 1 0.01
76 118 0.99
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (76 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAACCTTAGAGA
GCTTTTTAATA
Found at i:340099 original size:274 final size:271
Alignment explanation
Indices: 339726--340218 Score: 806
Period size: 274 Copynumber: 1.8 Consensus size: 271
339716 GGGAGCTTTT
* * * * * *
339726 TGATATTTTTAAAGCCTTCGGGTCATCTGTAAGCCCTACAGTGTAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATATTTTCAAAAAACCTT
* * *
339791 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
66 CAGGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
* * * *
339856 CAAAAAGCCTTCGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGT
131 CAAAAAGCCTT-GGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGT
339921 GCAAGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGATATCTGTA
195 GCAAGATGTTTTC-AAAA-CCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGATATCTGTA
339986 AGACCTACAATGCA
258 AGACCTACAATGCA
* *
340000 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATATTTTCAAAAAACCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATATTTTCAAAAAACCTT
340065 CAGGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
66 CAGGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
*
340130 CAAAAAGCCTTTGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
131 CAAAAAGCCTTGGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
*
340195 CATGATGTTTTCAAAACCTTCGGG
196 CAAGATGTTTTCAAAACCTTCGGG
340219 TCATCCATAA
Statistics
Matches: 202, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
271 8 0.04
272 4 0.02
273 60 0.30
274 130 0.64
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (271 bp):
TGATATTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATATTTTCAAAAAACCTT
CAGGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
CAAAAAGCCTTGGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
CAAGATGTTTTCAAAACCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGATATCTGTAAGA
CCTACAATGCA
Found at i:340104 original size:121 final size:121
Alignment explanation
Indices: 339879--340134 Score: 379
Period size: 121 Copynumber: 2.1 Consensus size: 121
339869 GGGAGCTTTT
* * * * *
339879 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAATCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATATTTTCAAAAAACCTT
* *
339944 CGGGAGCTTTTTGATATTTTCAAAACCTTCGAGATATCTGTAAGACCTACAATGCA
66 CAGGAGCTTTTTAATATTTTCAAAACCTTCGAGATATCTGTAAGACCTACAATGCA
* * *
340000 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATATTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATATTTTCAAAAAACCTT
* *
340065 CAGGAGCTTTTTAATATTTTCAAAACCTTCG-GGTCATCTGTAAGACCTACAGTGCA
66 CAGGAGCTTTTTAATATTTTCAAAACCTTCGAGAT-ATCTGTAAGACCTACAATGCA
*
340121 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
340135 AGCCTTTGAG
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
120 2 0.02
121 119 0.98
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATATTTTCAAAAAACCTT
CAGGAGCTTTTTAATATTTTCAAAACCTTCGAGATATCTGTAAGACCTACAATGCA
Found at i:340150 original size:197 final size:197
Alignment explanation
Indices: 339802--340330 Score: 835
Period size: 197 Copynumber: 2.7 Consensus size: 197
339792 GGGAGCTTTT
* * * *
339802 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
339867 CGGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
66 C-AGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTT
* * * *
339932 TCAAAAATCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGAGATATCTGTAAGACCTACAAT
130 TCAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGAGACATCTGTAAGACCTACAAT
339997 GCA
195 GCA
* * *
340000 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTATAGTGCAGGATATTTTCAAAAAACCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* * *
340065 CAGGAGCTTTTTAATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTT
66 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
* * *
340130 CAAAAAGCCTTTGAGAGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTG
131 CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGAGACATCTGTAAGACCTACAATG
340195 CA
196 CA
* * * *
340197 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAATGCAAGATGTTTTCAAAAAGCGTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
340262 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGAT-TTTT
66 CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
340326 CAAAA
131 CAAAA
340331 CCTTCAGGTC
Statistics
Matches: 303, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
196 9 0.03
197 235 0.78
198 59 0.19
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (197 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CAGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTTTT
CAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACATTCGAGACATCTGTAAGACCTACAATG
CA
Found at i:340206 original size:121 final size:121
Alignment explanation
Indices: 340081--340728 Score: 1010
Period size: 121 Copynumber: 5.3 Consensus size: 121
340071 CTTTTTAATA
** *
340081 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGAGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGA
*
340146 GCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATG
66 GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
* * * * **
340202 TTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAATGCAAGATGTTTTCAAAAAGCGTTCAGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGA
* *
340267 GCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGAT-
66 GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
* * **
340322 TTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAAATCTTTCGG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAGCCTTT-GG
* *
340387 GAGCTTTTTAATATTTTCAAAACCTTCGGGACATTTGTAAGACCTACAGTGCATGATG
64 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
* **
340445 TTTTCAAAACTTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCTTTGGGA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGA
*
340510 GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTG
66 GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
* * *
340566 TTTTCAAAACCTTCGGATCATACATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCCTTCGG
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAA-GCCTTTGG
*
340631 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCATGATG
64 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
*
340689 TTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
340729 AGATAATAAG
Statistics
Matches: 480, Mismatches: 42, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
120 46 0.10
121 219 0.46
122 70 0.15
123 145 0.30
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (121 bp):
TTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGA
GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
Found at i:340235 original size:45 final size:45
Alignment explanation
Indices: 340152--340255 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
340142 GAGAGCTTTT
* ** *
340152 TGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
* * *
340197 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGCCCTACAATGCA
1 TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
*
340242 AGATGTTTTCAAAA
1 TGATGTTTTCAAAA
340256 AGCGTTCAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (45 bp):
TGATGTTTTCAAAACATTCGGGACATCCATAAGACCTACAATGCA
Found at i:340341 original size:44 final size:45
Alignment explanation
Indices: 340273--340375 Score: 154
Period size: 44 Copynumber: 2.3 Consensus size: 45
340263 AGGAGCTTTT
* * **
340273 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
340318 TGAT-TTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
*
340362 TGATGTTTTCAAAA
1 TGATATTTTCAAAA
340376 AAATCTTTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 40 0.75
45 13 0.25
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
TGATATTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
Found at i:340440 original size:243 final size:242
Alignment explanation
Indices: 340081--340732 Score: 1022
Period size: 243 Copynumber: 2.7 Consensus size: 242
340071 CTTTTTAATA
** ** *
340081 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTT-GAG
1 TTTTCAAAACCTTC-GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCTTTCGGG
*
340145 AGCTTTTTGATATTTTCAAAACATTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAA
65 AGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAA
* *
340210 ACCTTCGGGTCATCCATAAGCCCTACAATGCAAGATGTTTTC-AAAAAGCGTTCAGGAGCTTTTT
130 ACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAGC-TTCAGGAGCTTTTT
* *
340274 GATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGAT-
194 GATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
*
340322 TTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAAATCTTTCGG
1 TTTTCAAAACCTTC-GGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAAATCTTTCGG
* *
340387 GAGCTTTTTAATATTTTCAAAACCTTCGGGACATTTGTAAGACCTACAGTGCATGATGTTTTCAA
64 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAA
* * * **
340452 AACTTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCTTTGGGAGCTTTTT
129 AACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAGCTTCAGGAGCTTTTT
*
340517 GATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTG
194 GATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
* *
340566 TTTTCAAAACCTTCGGATCATACATAAGACCTACAGTGCAGGATGTTTTCAAAAAATGCCTTCGG
1 TTTTCAAAACCTTCGG-TCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAAT-CTTTCGG
*
340631 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCATGATGTTTTCAA
64 GAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAA
*
340696 AACCTCCGGGTCATCCATAAGACCTACAGTGCAAGAT
129 AACCTTCGGGTCATCCATAAGACCTACAGTGCAAGAT
340733 AATAAGACCT
Statistics
Matches: 376, Mismatches: 29, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
241 46 0.12
242 9 0.02
243 168 0.45
244 153 0.41
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (242 bp):
TTTTCAAAACCTTCGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAATCTTTCGGGA
GCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
CCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAAGCTTCAGGAGCTTTTTGA
TATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGATG
Found at i:340473 original size:45 final size:45
Alignment explanation
Indices: 340400--340498 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
340390 CTTTTTAATA
*** *
340400 TTTTCAAAACCTTCGGGACATTTGTAAGACCTACAGTGCATGATG
1 TTTTCAAAACCTTCGGGACATCCATAAGACCTACAGTGCAGGATG
* *
340445 TTTTCAAAACTTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGACATCCATAAGACCTACAGTGCAGGATG
340490 TTTTCAAAA
1 TTTTCAAAA
340499 AATCTTTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGACATCCATAAGACCTACAGTGCAGGATG
Found at i:340594 original size:45 final size:45
Alignment explanation
Indices: 340521--340619 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
340511 CTTTTTGATA
* * *
340521 TTTTCAAAACCTTCGGGACATCTGTAAGACCTACAGTGCATGTTG
1 TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
340566 TTTTCAAAACCTTC-GGATCATAC-ATAAGACCTACAGTGCAGGATG
1 TTTTCAAAACCTTCGGGA-CAT-CTATAAGACCTACAGTGCAGGATG
340611 TTTTCAAAA
1 TTTTCAAAA
340620 AATGCCTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 3 0.06
45 45 0.92
46 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (45 bp):
TTTTCAAAACCTTCGGGACATCTATAAGACCTACAGTGCAGGATG
Found at i:340695 original size:45 final size:45
Alignment explanation
Indices: 340639--340733 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
340629 GGGAGCTTTT
* ** *
340639 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTTCAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
* *
340684 TGATGTTTTCAAAACCTCCGGGTCATCCATAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
*
340729 AGATA
1 TGATA
340734 ATAAGACCTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (45 bp):
TGATATTTTCAAAACCTCCGGGACATCCATAAGACCTACAGTGCA
Found at i:340924 original size:3 final size:3
Alignment explanation
Indices: 340916--340963 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
340906 TTTTAAAATT
340916 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
340964 AATTTACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:342126 original size:21 final size:20
Alignment explanation
Indices: 342102--342146 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
342092 AATTAGTATC
*
342102 TTTAATTTTAATATTTTATAT
1 TTTAATTCTAATATTTTA-AT
*
342123 TTTAATTCTATTATTTTAAT
1 TTTAATTCTAATATTTTAAT
342143 TTTA
1 TTTA
342147 TTTATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTCTAATATTTTAAT
Found at i:342137 original size:14 final size:15
Alignment explanation
Indices: 342120--342155 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
342110 TAATATTTTA
342120 TATTTTAATTCTA-T
1 TATTTTAATTCTATT
*
342134 TATTTTAATTTTATT
1 TATTTTAATTCTATT
342149 TATTTTA
1 TATTTTA
342156 GTCACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTAATTCTATT
Found at i:342153 original size:15 final size:15
Alignment explanation
Indices: 342106--342155 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
342096 AGTATCTTTA
*
342106 ATTTTAATATTT-TAT
1 ATTTTAAT-TTTATTT
*
342121 ATTTTAATTCTA-TT
1 ATTTTAATTTTATTT
342135 ATTTTAATTTTATTT
1 ATTTTAATTTTATTT
342150 ATTTTA
1 ATTTTA
342156 GTCACTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTAATTTTATTT
Found at i:342408 original size:2 final size:2
Alignment explanation
Indices: 342401--342432 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
342391 TGTCATATTA
342401 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
342433 GAAAGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:344259 original size:172 final size:172
Alignment explanation
Indices: 343973--344322 Score: 646
Period size: 172 Copynumber: 2.0 Consensus size: 172
343963 ATGACAAAAA
* ***
343973 GTGAAAGCAATTACAGAAAATTTGAGACAGGGGGGCAGGACATGTCTTTTTCACACTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
344038 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
344103 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
*
344145 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACATTCAAATTTA
1 GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
344210 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
66 GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
*
344275 AAGTCTAGAAACTATTGGTTGGTCATCCTAATGCTGGACATG
131 AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
344317 GTGAAA
1 GTGAAA
344323 TTTAAGCATT
Statistics
Matches: 172, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (172 bp):
GTGAAAGCAATTACAGAAAACTTGAGACAGGGAAACAGGACATGTCTTTTTCACACTCAAATTTA
GAAGGAAAAAGAAAAGAGTAAATATCATCTTTCTAAATAGCCAAAACAAAGAACATGTCACACCC
AAGTCTAGAAACTATTGGCTGGTCATCCTAATGCTGGACATG
Found at i:344855 original size:2 final size:2
Alignment explanation
Indices: 344848--344919 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
344838 GAATGTCTAC
344848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
344890 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
344920 GCTGTTATAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:349656 original size:17 final size:17
Alignment explanation
Indices: 349625--349657 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
349615 ATTTAATTAA
349625 AATATAAATATTAAATT
1 AATATAAATATTAAATT
349642 AATA-AAATATATAAAT
1 AATATAAATAT-TAAAT
349658 ACTGAATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAATATTAAATT
Found at i:359532 original size:2 final size:2
Alignment explanation
Indices: 359525--359557 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
359515 AGTCTTCCTC
359525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
359558 GTAAGAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:360639 original size:17 final size:17
Alignment explanation
Indices: 360613--360654 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
360603 ACATAACTCA
*
360613 TCATTTCAATCATTACC
1 TCATTCCAATCATTACC
360630 TCATTCCAATCATTACC
1 TCATTCCAATCATTACC
360647 TCATTCCA
1 TCATTCCA
360655 TTATCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (17 bp):
TCATTCCAATCATTACC
Found at i:360945 original size:24 final size:24
Alignment explanation
Indices: 360918--361012 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
360908 CACCATAGCT
*
360918 CGTATAAATTGCACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
* *
360942 CGTAGAATTTGCATCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
* * *
360966 CGTAGAATTTGCATCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCA
360990 CGTAGAAA-TGCACC-ATAGTGCCA
1 CGTAGAAATTGCACCGA-AGTGCCA
361013 TATAATATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 1 0.02
23 11 0.17
24 51 0.81
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:362254 original size:21 final size:21
Alignment explanation
Indices: 362228--362271 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
362218 AATATAAATT
362228 GTGTATCAATGCACCGCTACA
1 GTGTATCAATGCACCGCTACA
* *
362249 GTGTATCGATGCACTGCTACA
1 GTGTATCAATGCACCGCTACA
362270 GT
1 GT
362272 AACTTCAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
GTGTATCAATGCACCGCTACA
Found at i:364013 original size:21 final size:21
Alignment explanation
Indices: 363989--364036 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
363979 AAATATGAGC
* *
363989 AAAAAATTTCATTTTCAGG-GT
1 AAAAAA-TTCATTTACAGGAAT
*
364010 AAAATATTCATTTACAGGAAT
1 AAAAAATTCATTTACAGGAAT
364031 AAAAAA
1 AAAAAA
364037 ATATATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAAATTCATTTACAGGAAT
Found at i:365171 original size:21 final size:21
Alignment explanation
Indices: 365145--365204 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
365135 AGATTGTTTG
*
365145 GATGGTACCGGTACCCCCTTA
1 GATGGTACCGATACCCCCTTA
*
365166 GATGGTACTGATACCCCCTTA
1 GATGGTACCGATACCCCCTTA
365187 GATGGTACCGATACCCCC
1 GATGGTACCGATACCCCC
365205 ATGACAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (21 bp):
GATGGTACCGATACCCCCTTA
Found at i:365263 original size:21 final size:21
Alignment explanation
Indices: 365237--365293 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
365227 AAACAGCTCA
365237 GATGGTACCGATACCTTCCTT
1 GATGGTACCGATACCTTCCTT
365258 GATGGTACCGATACCTTCCTT
1 GATGGTACCGATACCTTCCTT
365279 GATGGTACCGATACC
1 GATGGTACCGATACC
365294 CCTAGTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (21 bp):
GATGGTACCGATACCTTCCTT
Found at i:366343 original size:38 final size:38
Alignment explanation
Indices: 366294--366507 Score: 189
Period size: 38 Copynumber: 5.6 Consensus size: 38
366284 ATTCTAATAC
* * *
366294 AAAAATCAGGTTGCAACCGAAAATCTAGTTTCTATGTG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* * *
366332 AACAATTAGGTTGCAACCTAAAATTTAGTTTCCATATG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* * *
366370 AAAAATCAGGTTGCAACCAAAAATCTGGTTTCTATATG
1 AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
* * * * * *
366408 AAAAATTAAGTTGCACCCTAAAATATGGTTGAC-ATATA
1 AAAAATTAGGTTGCAACCTAAAATCTAGTT-TCTATATG
* * * * * *
366446 AAAAATCATGTTGCAGCCT-AAATTTCGGTTTCAATATG
1 AAAAATTAGGTTGCAACCTAAAATCT-AGTTTCTATATG
* *
366484 AAAAATCATGTTGCAACCTAAAAT
1 AAAAATTAGGTTGCAACCTAAAAT
366508 TTGGTTCCCA
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
37 6 0.04
38 135 0.92
39 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (38 bp):
AAAAATTAGGTTGCAACCTAAAATCTAGTTTCTATATG
Found at i:366421 original size:76 final size:75
Alignment explanation
Indices: 366294--366509 Score: 252
Period size: 76 Copynumber: 2.8 Consensus size: 75
366284 ATTCTAATAC
* * * *
366294 AAAAATCAGGTTGCAACCGAAAATCTAGTTTCTATGTGAACAATTAGGTTGCAACCTAAAATTTA
1 AAAAATCAGGTTGCAACC-AAAATCTGGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTTA
** *
366359 GTTTCCATATG
65 GTTGACATATA
* * *
366370 AAAAATCAGGTTGCAACCAAAAATCTGGTTTCTATATGAAAAATTAAGTTGCACCCTAAAATATG
1 AAAAATCAGGTTGCAACC-AAAATCTGGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTTA
366435 GTTGACATATA
65 GTTGACATATA
* * * * * * *
366446 AAAAATCATGTTGCAGCCTAAATTTCGGTTTCAATATGAAAAATCATGTTGCAACCTAAAATTT
1 AAAAATCAGGTTGCAACCAAAATCT-GGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTT
366510 GGTTCCCAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
75 5 0.04
76 114 0.96
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (75 bp):
AAAAATCAGGTTGCAACCAAAATCTGGTTTCTATATGAAAAATTAAGTTGCAACCTAAAATTTAG
TTGACATATA
Found at i:370355 original size:20 final size:20
Alignment explanation
Indices: 370332--370506 Score: 129
Period size: 20 Copynumber: 8.7 Consensus size: 20
370322 GCAAATATGA
370332 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* *
370352 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
370372 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
370392 AAAATCGCAACGCGTATGGGT
1 -AAATCGCAACGCGTAACCAT
* * *
370413 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
370433 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
370453 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
370473 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
370494 AAATCGCAACGCG
1 AAATCGCAACGCG
370507 ATATTTAAAG
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.02
20 94 0.72
21 32 0.25
22 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:370396 original size:61 final size:61
Alignment explanation
Indices: 370331--370506 Score: 246
Period size: 61 Copynumber: 2.9 Consensus size: 61
370321 CGCAAATATG
* *
370331 AAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
370392 AAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
**
370453 -AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
370507 ATATTTAAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 14 0.14
61 84 0.86
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (61 bp):
AAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:370403 original size:41 final size:41
Alignment explanation
Indices: 370352--370504 Score: 211
Period size: 41 Copynumber: 3.8 Consensus size: 41
370342 GCGAACACAT
370352 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
** * *
370393 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
* * * *
370433 ATATCGCAACGCGTATCCGTAAATCGCAACGAT-AATACATA
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGTA
370474 AAATCGCAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGTATCCGTAAATCGCAACG
370505 CGATATTTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 31 0.32
41 66 0.68
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
Found at i:370403 original size:81 final size:81
Alignment explanation
Indices: 370313--370485 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
370303 GATTTTCAAT
*
370313 AATCGCAACGCAAATATGAAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATC
1 AATCGCAACGCAAATAGGAAAATCGCAACGCGTAAC-CATAAATCGCAACGCGTATCCGTAAATC
* * *
370377 GCAACG-TGTATCCGTAA
65 GCAACGAT-AATACATAA
** * * * * * *
370394 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCG
1 AATCGCAACGCAAATAGGAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTAAATCG
370459 CAACGATAATACATAA
66 CAACGATAATACATAA
370475 AATCGCAACGC
1 AATCGCAACGC
370486 GTATCCGTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 75 0.96
82 3 0.04
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (81 bp):
AATCGCAACGCAAATAGGAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTAAATCG
CAACGATAATACATAA
Found at i:370486 original size:81 final size:81
Alignment explanation
Indices: 370354--370502 Score: 237
Period size: 81 Copynumber: 1.8 Consensus size: 81
370344 GAACACATAA
* * * **
370354 ATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAAATCGCAACGCGTATGGGTAAATCG
1 ATCGCAACGCGTATCCGTAAATCGCAACGTGAATACATAAAATCGCAACGCGTATCCGTAAATCG
370419 CAATGCGTATCCGTAT
66 CAATGCGTATCCGTAT
370435 ATCGCAACGCGTATCCGTAAATCGCAACGAT-AATACATAAAATCGCAACGCGTATCCGTAAATC
1 ATCGCAACGCGTATCCGTAAATCGCAACG-TGAATACATAAAATCGCAACGCGTATCCGTAAATC
370499 GCAA
65 GCAA
370503 CGCGATATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 61 0.98
82 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (81 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGTGAATACATAAAATCGCAACGCGTATCCGTAAATCG
CAATGCGTATCCGTAT
Found at i:370928 original size:33 final size:33
Alignment explanation
Indices: 370886--370956 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
370876 TTCACTTAGA
*
370886 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCAAT
***
370919 TTTCATTTCGCGTTGCTATTCTCTCGTTGCAAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCAAT
370952 TTTCA
1 TTTCA
370957 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTAAGATTCTCTCGTTGCAAT
Found at i:371096 original size:14 final size:14
Alignment explanation
Indices: 371077--371131 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
371067 AGAATGACTG
371077 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
371091 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
371110 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
371124 TCGCAACG
1 TCGCAACG
371132 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:371114 original size:33 final size:33
Alignment explanation
Indices: 371077--371147 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
371067 AGAATGACTG
**
371077 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
371110 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
371143 TCGCA
1 TCGCA
371148 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:371165 original size:19 final size:19
Alignment explanation
Indices: 371143--371273 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
371133 GAAACCAAAA
*
371143 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
371162 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
371176 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
371195 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
371209 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
371228 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
371242 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
371261 TCGCGTTGCGATT
1 TCGCGTTGCGATT
371274 CTCTCGTTGC
Statistics
Matches: 89, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
14 30 0.34
16 8 0.09
17 9 0.10
19 42 0.47
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:371184 original size:14 final size:14
Alignment explanation
Indices: 371165--371287 Score: 93
Period size: 14 Copynumber: 7.7 Consensus size: 14
371155 TTTCATTTCG
371165 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
371179 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
371198 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
371212 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
371231 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
371245 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
371262 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
371278 CGTTGCGATT
1 CGTTGCGATT
371288 TTCATTTCAA
Statistics
Matches: 90, Mismatches: 4, Indels: 30
0.73 0.03 0.24
Matches are distributed among these distances:
14 38 0.42
15 1 0.01
16 11 0.12
17 11 0.12
18 1 0.01
19 28 0.31
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:371190 original size:33 final size:33
Alignment explanation
Indices: 371148--371295 Score: 278
Period size: 33 Copynumber: 4.5 Consensus size: 33
371138 CAAAATCGCA
371148 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
371181 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
371214 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
371247 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
371280 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
371296 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:373150 original size:93 final size:93
Alignment explanation
Indices: 372991--373463 Score: 898
Period size: 93 Copynumber: 5.1 Consensus size: 93
372981 TAGATTGCTT
372991 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
373056 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
373084 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
373149 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
373177 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
373241 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
373269 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG-ATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
373332 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
373360 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
373425 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
373453 AGTAAATTTAT
1 AGTAAATTTAT
373464 CCATTCAAGT
Statistics
Matches: 376, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 91 0.24
92 91 0.24
93 194 0.52
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:373545 original size:19 final size:19
Alignment explanation
Indices: 373505--373632 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
373495 TAGTTTACTT
* *
373505 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
373525 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
373544 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
373563 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
373577 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
373596 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
373610 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
373628 TCGCA
1 TCGCA
373633 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 9 0.10
19 38 0.43
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:373584 original size:33 final size:32
Alignment explanation
Indices: 373541--373632 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
373531 CGCGAAACCA
**
373541 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
373573 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
373606 AAGATCGCAACGCGAAACC-AAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
373633 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
32 10 0.18
33 46 0.82
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:373655 original size:19 final size:19
Alignment explanation
Indices: 373628--373762 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
373618 CGAAACCAAA
*
373628 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
373647 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
**
373663 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
373680 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
373696 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
373713 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
373732 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
373752 TCGTGTTGCGA
1 TCGCGTTGCGA
373763 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 10 0.11
17 10 0.11
19 46 0.49
20 12 0.13
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:373669 original size:14 final size:14
Alignment explanation
Indices: 373650--373706 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
373640 TTTCATTTCG
373650 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
373664 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
373681 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
373697 CGTTGCGATT
1 CGTTGCGATT
373707 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 7 0.20
19 6 0.17
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:373675 original size:33 final size:33
Alignment explanation
Indices: 373633--373725 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
373623 CCAAATCGCA
*
373633 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
** *
373666 TTGCGATTTTGGTTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
373699 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
373726 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:375677 original size:14 final size:14
Alignment explanation
Indices: 375658--375693 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
375648 ATTGTTTAAT
375658 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
375672 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
375686 TGATTTGT
1 TGATTTGT
375694 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:375815 original size:19 final size:17
Alignment explanation
Indices: 375799--375875 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 17
375789 AAAAATGACT
375799 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
375818 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
375832 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
375851 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
375865 ATCGCAATGCG
1 ATCGCAATGCG
375876 TTTATAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
14 16 0.33
16 8 0.17
17 9 0.19
19 15 0.31
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:375889 original size:33 final size:33
Alignment explanation
Indices: 375799--375875 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
375789 AAAAATGACT
375799 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
375832 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
375865 ATCGCAATGCG
1 ATCGCAATGCG
375876 TTTATAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:375919 original size:33 final size:33
Alignment explanation
Indices: 375882--376277 Score: 294
Period size: 33 Copynumber: 11.5 Consensus size: 33
375872 TGCGTTTATA
375882 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
375915 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
375951 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
375986 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT--ATCTCG--TTGCGATTTTC
*
376024 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
376064 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
376095 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
376128 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
376162 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
376195 ATTTCCGCATTGCGATTTTCAT-GTTGCGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
* *
376229 ATTTCCGCATTGCGATTTTCAT-GTTGGGA-TTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
376262 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
376278 GTATTTTCCG
Statistics
Matches: 321, Mismatches: 19, Indels: 47
0.83 0.05 0.12
Matches are distributed among these distances:
31 9 0.03
32 17 0.05
33 102 0.32
34 83 0.26
35 14 0.04
36 13 0.04
37 5 0.02
38 63 0.20
39 6 0.02
40 9 0.03
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:375928 original size:19 final size:19
Alignment explanation
Indices: 375904--376250 Score: 412
Period size: 19 Copynumber: 19.7 Consensus size: 19
375894 GATTATCTCG
375904 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
375923 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
375942 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
375956 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
375975 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
375994 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
376013 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
376032 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
376051 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
376065 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
376084 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
376103 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
376117 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
376137 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
376151 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
376170 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
376184 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
376204 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
376218 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
376238 TTGCGATTTTCAT
1 TTGCGATTTTCAT
376251 GTTGGGATTT
Statistics
Matches: 285, Mismatches: 10, Indels: 65
0.79 0.03 0.18
Matches are distributed among these distances:
14 47 0.16
16 33 0.12
17 26 0.09
18 7 0.02
19 135 0.47
20 37 0.13
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:375938 original size:52 final size:52
Alignment explanation
Indices: 375882--376250 Score: 493
Period size: 52 Copynumber: 7.0 Consensus size: 52
375872 TGCGTTTATA
*
375882 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
375934 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
375986 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
376043 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
376095 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
* * * * * *
376148 ATGTTGGGATTTTC-ATT-TCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
1 AT-TTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
376195 ATTTCCGCATTGCGATTTTCAT-GTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
376249 AT
1 AT
376251 GTTGGGATTT
Statistics
Matches: 284, Mismatches: 15, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
46 5 0.02
47 18 0.06
48 8 0.03
49 2 0.01
50 5 0.02
51 5 0.02
52 133 0.47
53 28 0.10
54 25 0.09
55 9 0.03
56 2 0.01
57 44 0.15
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:376221 original size:14 final size:14
Alignment explanation
Indices: 376204--376230 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
376194 CATTTCCGCA
376204 TTGCGATTTTCATG
1 TTGCGATTTTCATG
376218 TTGCGATTTTCAT
1 TTGCGATTTTCAT
376231 TTCCGCATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.52
Consensus pattern (14 bp):
TTGCGATTTTCATG
Found at i:378574 original size:12 final size:12
Alignment explanation
Indices: 378557--378581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
378547 TCTTCGGGGA
378557 CTTTTTCTTCTT
1 CTTTTTCTTCTT
378569 CTTTTTCTTCTT
1 CTTTTTCTTCTT
378581 C
1 C
378582 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:378795 original size:24 final size:23
Alignment explanation
Indices: 378756--378801 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
378746 CTGAAACATC
378756 ATCAAATCCGTGTATTGACCAAT
1 ATCAAATCCGTGTATTGACCAAT
378779 ATCAAAGTCCG-GATATTGACCAA
1 ATCAAA-TCCGTG-TATTGACCAA
378802 GACCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (23 bp):
ATCAAATCCGTGTATTGACCAAT
Found at i:379505 original size:20 final size:20
Alignment explanation
Indices: 379477--379827 Score: 422
Period size: 20 Copynumber: 17.4 Consensus size: 20
379467 AAATTTCAGT
* * * *
379477 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
379497 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
379517 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
379537 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
379557 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
379577 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
379597 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
379617 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
379637 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
379657 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
379678 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
379698 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
379718 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
379738 GTTGCGATTTTACGGATACAC
1 GTTGCGA-TTTACGGATACGC
379759 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
379779 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
379799 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
379819 GTTGCGATT
1 GTTGCGATT
379828 ATTGAAAATC
Statistics
Matches: 289, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 6 0.02
20 246 0.85
21 35 0.12
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:379846 original size:81 final size:81
Alignment explanation
Indices: 379477--379846 Score: 371
Period size: 81 Copynumber: 4.6 Consensus size: 81
379467 AAATTTCAGT
* * * * * *
379477 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATCG--TTGCGATTTACGGATACGCGTT
1 GTTGCGATTTACGGATACGCGTTGCGATTTA-TGAATATCGCATTGCGATTTACGGATACGCGTT
*
379540 GCGATTTACGGATTA-TC
65 GCGATTTACGGA-TACGC
* *
379557 GTTGCGATTTACGGATACGCGTTGCGATTTACGGATA-CGCATTGCGATTTACGGATACGCGTTG
1 GTTGCGATTTACGGATACGCGTTGCGATTTATGAATATCGCATTGCGATTTACGGATACGCGTTG
*
379621 CGATTTACGGATACAC
66 CGATTTACGGATACGC
*
379637 GTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCG--TTGCGATTTACGGATACGCGT
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTATG-AATATCGCATTGCGATTTACGGATACGCGT
*
379700 TGCGATATACGGATACGC
64 TGCGATTTACGGATACGC
* ** * * * *
379718 ATTGCGATTTACCCATACGCGTTGCGATTTTACGGATA-CACGTTGCGATTTACGGATACGCGTT
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTATGAATATCGCATTGCGATTTACGGATACGCGTT
* *
379782 GCGATTTATGTG-TTCGC
65 GCGATTTACG-GATACGC
* ** * * *
379799 GTTGCGATTTTCATATTCGCGTTGCGA-TTATTGAAAATCGCAATGCGA
1 GTTGCGATTTACGGATACGCGTTGCGATTTA-TGAATATCGCATTGCGA
379847 ATTTGTACTA
Statistics
Matches: 245, Mismatches: 34, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 9 0.04
80 94 0.38
81 135 0.55
82 3 0.01
83 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (81 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTATGAATATCGCATTGCGATTTACGGATACGCGTTG
CGATTTACGGATACGC
Found at i:383188 original size:38 final size:38
Alignment explanation
Indices: 383146--383222 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
383136 AGAGTGGAAG
383146 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
1 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
*
383184 CTAAATATAAAAGTAAAGAGACTAAAACTGCCATTTAC
1 CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
383222 C
1 C
383223 GTGAAGATCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (38 bp):
CTAAATATAAAAGTAAAGAGACTAAAACAGCCATTTAC
Done.