Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009607.1 Hibiscus syriacus cultivar Beakdansim tig00116991_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: 270985
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:186626 original size:22 final size:22
Alignment explanation
Indices: 186598--186639 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
186588 CTCTATTTTA
186598 TCATCAACACCA-ACAACATCAT
1 TCATCAACACCATA-AACATCAT
*
186620 TCATCAAGACCATAAACATC
1 TCATCAACACCATAAACATC
186640 TTCTTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.19
Consensus pattern (22 bp):
TCATCAACACCATAAACATCAT
Found at i:189867 original size:2 final size:2
Alignment explanation
Indices: 189862--189910 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
189852 ATTTATTTTC
189862 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
*
189904 AT CT AT A
1 AT AT AT A
189911 GTTATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:192177 original size:18 final size:18
Alignment explanation
Indices: 192147--192192 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
192137 TAGTTTGATT
*
192147 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
192165 AATTAACTAACATTATTC
1 AATGAACTAACATTATTC
192183 AATGAACTAA
1 AATGAACTAA
192193 ATGCATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:192268 original size:17 final size:17
Alignment explanation
Indices: 192248--192289 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
192238 ACTACTTCCC
192248 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
192265 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
192282 TTAATGAA
1 TAAATGAA
192290 CAACATACGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:195852 original size:18 final size:18
Alignment explanation
Indices: 195822--195867 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
195812 TAGTTTGATT
*
195822 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
195840 AATTAACTAACATTATTC
1 AATGAACTAACATTATTC
195858 AATGAACTAA
1 AATGAACTAA
195868 ATGCATGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:195943 original size:17 final size:17
Alignment explanation
Indices: 195923--195964 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
195913 ACTACTTCCC
195923 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
195940 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
195957 TTAATGAA
1 TAAATGAA
195965 CAACATACGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:197525 original size:94 final size:94
Alignment explanation
Indices: 197364--197539 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 94
197354 CCATGGTATT
* * * * * *
197364 GATACTTCTATATTGTGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCTGGATC
1 GATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATTCTGGATC
197429 CATGATATCGATACTTTTCTCCTAGTACC
66 CATGATATCGATACTTTTCTCCTAGTACC
*
197458 GATACTTCTAAACTATGGTACCGATAC-CCCTTTCAGTATCAATATCAATTCGACATTCTGGAAT
1 GATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATTCTGG-AT
*
197522 CCATGGTATCGATACTTT
65 CCATGATATCGATACTTT
197540 CCTTTTGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 30 0.41
94 43 0.59
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.36
Consensus pattern (94 bp):
GATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATTCTGGATC
CATGATATCGATACTTTTCTCCTAGTACC
Found at i:197555 original size:94 final size:94
Alignment explanation
Indices: 197357--197556 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 94
197347 ACCCCTACCA
* * * * * * *
197357 TGGTATTGATACTTCTATATTGTGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATT
1 TGGTATCGATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATT
*
197422 CTGGATCCATGATATCGATACTTTTCTCC
66 CTGGATCCATGATATCGATACTTTCCTCC
* * *
197451 TAGTACCGATACTTCTAAACTATGGTACCGATAC-CCCTTTCAGTATCAATATCAATTCGACATT
1 TGGTATCGATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATT
* **
197515 CTGGAATCCATGGTATCGATACTTTCCTTT
66 CTGG-ATCCATGATATCGATACTTTCCTCC
197545 TGGTATCGATAC
1 TGGTATCGATAC
197557 CCCATCAGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 30 0.34
94 59 0.66
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (94 bp):
TGGTATCGATACTTCTAAACTATGGTACCGATACTCCCTTTCAGTATCAATACCAATTCGACATT
CTGGATCCATGATATCGATACTTTCCTCC
Found at i:198393 original size:20 final size:20
Alignment explanation
Indices: 198368--198412 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
198358 ACACACCTTG
* *
198368 AGTCGAACTAAGTTGAGTCA
1 AGTCGAACTAAGTTAAGCCA
* *
198388 AGTCGAGCTGAGTTAAGCCA
1 AGTCGAACTAAGTTAAGCCA
198408 AGTCG
1 AGTCG
198413 CGTTGCATCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (20 bp):
AGTCGAACTAAGTTAAGCCA
Found at i:200219 original size:21 final size:21
Alignment explanation
Indices: 200178--200219 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
200168 CTTACAATCA
* *
200178 ATGGGTCTAAGGTAAATCCTT
1 ATGGATCTAAGGTAAACCCTT
*
200199 ATGGATCTAAGGTAACCCCTT
1 ATGGATCTAAGGTAAACCCTT
200220 GGGTTGACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (21 bp):
ATGGATCTAAGGTAAACCCTT
Found at i:206236 original size:23 final size:24
Alignment explanation
Indices: 206201--206269 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 24
206191 GTGGCATATA
* *
206201 AAATTTCCTCGAAGGACCACGTAG
1 AAATGTCCTCGAAGGACCACATAG
206225 AAATGTCC-CGAAGGACCACATAG
1 AAATGTCCTCGAAGGACCACATAG
* * *
206248 AATTCTCCT-TAAGGACCACATA
1 AAATGTCCTCGAAGGACCACATA
206270 TATATTCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 32 0.82
24 7 0.18
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (24 bp):
AAATGTCCTCGAAGGACCACATAG
Found at i:206664 original size:13 final size:13
Alignment explanation
Indices: 206646--206670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206636 ATAGTTTATC
206646 ACACATACATGCT
1 ACACATACATGCT
206659 ACACATACATGC
1 ACACATACATGC
206671 ATTCACAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (13 bp):
ACACATACATGCT
Found at i:210382 original size:15 final size:14
Alignment explanation
Indices: 210362--210418 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 14
210352 AACCGGGTAT
210362 CGGGTACCCGATTCC
1 CGGGTACCCGATT-C
*
210377 CGGGTACCCGCAAAATC
1 CGGGTACCCG---ATTC
210394 CGGGTACCCGATTAC
1 CGGGTACCCGATT-C
210409 CGGGTACCCG
1 CGGGTACCCG
210419 TAACATCCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 2 0.06
15 21 0.58
17 11 0.31
18 2 0.06
ACGTcount: A:0.19, C:0.37, G:0.28, T:0.16
Consensus pattern (14 bp):
CGGGTACCCGATTC
Found at i:210398 original size:17 final size:16
Alignment explanation
Indices: 210376--210430 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
210366 TACCCGATTC
210376 CCGGGTACCCGCAAAAT
1 CCGGGTACCCG-AAAAT
**
210393 CCGGGTACCCGATTA-
1 CCGGGTACCCGAAAAT
*
210408 CCGGGTACCCGTAACAT
1 CCGGGTACCCG-AAAAT
210425 CCGGGT
1 CCGGGT
210431 CGGGACACGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 17 0.53
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (16 bp):
CCGGGTACCCGAAAAT
Found at i:210403 original size:32 final size:32
Alignment explanation
Indices: 210362--210430 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
210352 AACCGGGTAT
*
210362 CGGGTACCCGATTCCCGGGTACCCGCAAAATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
* *
210394 CGGGTACCCGATTACCGGGTACCCGTAACATC
1 CGGGTACCCGATTACCGGGTACCCGCAAAATC
210426 CGGGT
1 CGGGT
210431 CGGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGCAAAATC
Found at i:210652 original size:26 final size:26
Alignment explanation
Indices: 210623--210678 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
210613 TCGAAACTGC
*
210623 CGTATAAAATTTGCACCGAAGTGCCA
1 CGTATAAAATATGCACCGAAGTGCCA
*
210649 CG--TAGAATATGCACCGAAGTGCCA
1 CGTATAAAATATGCACCGAAGTGCCA
*
210673 CATATA
1 CGTATA
210679 TTTGTCCCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 21 0.84
26 4 0.16
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (26 bp):
CGTATAAAATATGCACCGAAGTGCCA
Found at i:210699 original size:23 final size:23
Alignment explanation
Indices: 210673--210746 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
210663 CGAAGTGCCA
* *
210673 CATATATTTGTCCCGAAGAACCG
1 CATATAATTGTCCCGAAGGACCG
*
210696 CATATAATTGTCCCGAAGGACCA
1 CATATAATTGTCCCGAAGGACCG
* *
210719 CATAGAATTATCCCCGAAGGACCG
1 CATATAATTGT-CCCGAAGGACCG
210743 CATA
1 CATA
210747 GAACCCTCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 29 0.66
24 15 0.34
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
CATATAATTGTCCCGAAGGACCG
Found at i:210915 original size:57 final size:57
Alignment explanation
Indices: 210821--211040 Score: 248
Period size: 57 Copynumber: 3.9 Consensus size: 57
210811 ACCATATAAT
* * *
210821 TATTTCACATAGTATTATTCAAATTATCATTTGTTCACATAAAACATATAATCATAG
1 TATTTCACATAGCATTATCCAAATTATCATTTATTCACATAAAACATATAATCATAG
* * *
210878 TATTTCACATAGCATTA-CCAAATTTATTATTTATTCACATAGAACA-ATTATTCATAG
1 TATTTCACATAGCATTATCCAAA-TTATCATTTATTCACATAAAACATA-TAATCATAG
* * * * *
210935 CATTTCATATAGCATTA-CTCAACTTATCATTTATTCACATAGAACATATACTCATAG
1 TATTTCACATAGCATTATC-CAAATTATCATTTATTCACATAAAACATATAATCATAG
* * * * *
210992 TGTTTCATATAACATTATTCAAATTATCATTTATTCCCATAAAACATAT
1 TATTTCACATAGCATTATCCAAATTATCATTTATTCACATAAAACATAT
211041 TCACATAAAT
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
56 5 0.04
57 131 0.94
58 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.40
Consensus pattern (57 bp):
TATTTCACATAGCATTATCCAAATTATCATTTATTCACATAAAACATATAATCATAG
Found at i:211024 original size:114 final size:114
Alignment explanation
Indices: 210822--211037 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
210812 CCATATAATT
* * *
210822 ATTTCACATAGTATTATTCAAATTATCATTTGTTCACATAAAACATATAATCATAGTATTTCACA
1 ATTTCACATAGCATTACTCAAATTATCATTTATTCACATAAAACATATAATCATAGTATTTCACA
* * *
210887 TAGCATTACCAAATTTATTATTTATTCACATAGAACAATTATTCATAGC
66 TAACATTACCAAATTTATCATTTATTCACATAAAACAATTATTCATAGC
* * * * * *
210936 ATTTCATATAGCATTACTCAACTTATCATTTATTCACATAGAACATATACTCATAGTGTTTCATA
1 ATTTCACATAGCATTACTCAAATTATCATTTATTCACATAAAACATATAATCATAGTATTTCACA
* *
211001 TAACATTATTCAAA-TTATCATTTATTCCCATAAAACA
66 TAACATTA-CCAAATTTATCATTTATTCACATAAAACA
211038 TATTCACATA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
114 83 0.95
115 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (114 bp):
ATTTCACATAGCATTACTCAAATTATCATTTATTCACATAAAACATATAATCATAGTATTTCACA
TAACATTACCAAATTTATCATTTATTCACATAAAACAATTATTCATAGC
Found at i:215267 original size:6 final size:6
Alignment explanation
Indices: 215256--215282 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
215246 AACGTAATTA
215256 ATAACT ATAACT ATAACT ATAACT ATA
1 ATAACT ATAACT ATAACT ATAACT ATA
215283 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAACT
Found at i:221293 original size:21 final size:20
Alignment explanation
Indices: 221245--221303 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
221235 ATTTTTGAAA
221245 TATTCTTTTAATAAT-TTT-TT
1 TATT-TTTTAA-AATATTTATT
*
221265 TAGTTTTTAAAATATTTATT
1 TATTTTTTAAAATATTTATT
*
221285 TATTATTTTTAAATATTTA
1 TATT-TTTTAAAATATTTA
221304 AATATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 9 0.27
20 8 0.24
21 13 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTTAAAATATTTATT
Found at i:221309 original size:21 final size:22
Alignment explanation
Indices: 221268--221309 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
221258 ATTTTTTTAG
**
221268 TTTTTAAAATATTTATTTATTA
1 TTTTTAAAATATTTAAATATTA
221290 TTTTT-AAATATTTAAATATT
1 TTTTTAAAATATTTAAATATT
221310 TTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTAAAATATTTAAATATTA
Found at i:224903 original size:142 final size:142
Alignment explanation
Indices: 224647--224935 Score: 578
Period size: 142 Copynumber: 2.0 Consensus size: 142
224637 TGGATTCAAC
224647 ATATCATATATCCATTAGCACTGCAGTTTCTGTTATACACCCTAACTTCCAATCTGTTGATTCTA
1 ATATCATATATCCATTAGCACTGCAGTTTCTGTTATACACCCTAACTTCCAATCTGTTGATTCTA
224712 ACTTCCTAAATGAATTACTATTTAATTTTCACTTTTAATGATGCAGCTTTCGAAGGATATGTATG
66 ACTTCCTAAATGAATTACTATTTAATTTTCACTTTTAATGATGCAGCTTTCGAAGGATATGTATG
224777 ATGAGCTTGAAG
131 ATGAGCTTGAAG
224789 ATATCATATATCCATTAGCACTGCAGTTTCTGTTATACACCCTAACTTCCAATCTGTTGATTCTA
1 ATATCATATATCCATTAGCACTGCAGTTTCTGTTATACACCCTAACTTCCAATCTGTTGATTCTA
224854 ACTTCCTAAATGAATTACTATTTAATTTTCACTTTTAATGATGCAGCTTTCGAAGGATATGTATG
66 ACTTCCTAAATGAATTACTATTTAATTTTCACTTTTAATGATGCAGCTTTCGAAGGATATGTATG
224919 ATGAGCTTGAAG
131 ATGAGCTTGAAG
224931 ATATC
1 ATATC
224936 TCATATTCTT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 147 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (142 bp):
ATATCATATATCCATTAGCACTGCAGTTTCTGTTATACACCCTAACTTCCAATCTGTTGATTCTA
ACTTCCTAAATGAATTACTATTTAATTTTCACTTTTAATGATGCAGCTTTCGAAGGATATGTATG
ATGAGCTTGAAG
Found at i:229608 original size:132 final size:132
Alignment explanation
Indices: 229371--229629 Score: 414
Period size: 132 Copynumber: 2.0 Consensus size: 132
229361 TTATCTTATC
* * *
229371 AGCATCCCAAACTTACTCCATTTCCGATTAGCCGAACGACAAAACCTTATCCTCGATGCTAAACT
1 AGCATCCCAAACTTACTCCATTTCCGATTAGCCGAACGAAAAAACCTTATCCCCAATGCTAAACT
* *
229436 TTAAATCACACAAGCCAAAGCAGATATGATAGCAAGATTTAGGTC-TTAGCATACCTAGCTATAG
66 TTAAATCAAACAAGCCAAAGCAGATATGATAGCAAGATTTA-GTCTTTAGCATACCCAGCTATAG
229500 ACT
130 ACT
* *
229503 AGCATCCCAAACTTACTTCATTTCCGATTAGCCGAATGAAAAAACCTTATCCCCAATGCTAAACT
1 AGCATCCCAAACTTACTCCATTTCCGATTAGCCGAACGAAAAAACCTTATCCCCAATGCTAAACT
*
229568 TTCAATCAAACAAGCCAAAGCAGA-ACTGATAGCAAGATTTAGTCTTTAGCATACCCAGCTAT
66 TTAAATCAAACAAGCCAAAGCAGATA-TGATAGCAAGATTTAGTCTTTAGCATACCCAGCTAT
229630 GGATAAACTA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
131 4 0.03
132 113 0.97
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (132 bp):
AGCATCCCAAACTTACTCCATTTCCGATTAGCCGAACGAAAAAACCTTATCCCCAATGCTAAACT
TTAAATCAAACAAGCCAAAGCAGATATGATAGCAAGATTTAGTCTTTAGCATACCCAGCTATAGA
CT
Found at i:231707 original size:229 final size:228
Alignment explanation
Indices: 231301--231750 Score: 751
Period size: 229 Copynumber: 2.0 Consensus size: 228
231291 GTAAATTATC
* * *
231301 TATCCTTTTTATAAAAAGTGTCCATACTTATTTCACTGTAAAAATATATTTATTATTATCTTTAG
1 TATCATTTTTATAAAAAGTGTCCATACTTATTTCACTGTAAAAACATATTTATTATTATATTTAG
**
231366 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTT
66 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
231431 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTTAAA-AAAT
131 TTGTGTAAATGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTA-TTAAATAAAT
231495 TGAAACATAAATTACATAACTTTCAAAAAAGTATA
195 TGAAACATAAATTACATAACTTT-AAAAAAGTATA
* * *
231530 TATCATTTTTAT-AAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTG
1 TATCATTTTTATAAAAAGTGTCCATACTTATTTCACTG-TAAAAACATATTTATTATTATATTTA
*
231594 GTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 GTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
231659 TTTGTGTAAATTAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAATAAAT
130 TTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAATAAAT
231724 TGAAACATAAATTACATAACTTTAAAA
195 TGAAACATAAATTACATAACTTTAAAA
231751 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
228 33 0.16
229 174 0.84
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAAGTGTCCATACTTATTTCACTGTAAAAACATATTTATTATTATATTTAG
TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
TTGTGTAAATGAAATTATTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAAATAAATT
GAAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:231839 original size:20 final size:19
Alignment explanation
Indices: 231816--231861 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
231806 CGATATACCA
231816 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
231836 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
231856 GGTAAA
1 GGTAAA
231862 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:232006 original size:20 final size:19
Alignment explanation
Indices: 231983--232029 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
231973 CGATATAACA
231983 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
232003 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
232023 GGTAAAA
1 GGTAAAA
232030 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:232031 original size:17 final size:19
Alignment explanation
Indices: 231992--232034 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
231982 AGGTAAAAAT
231992 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
232012 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
232029 ATGATA
1 ATGATA
232035 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:234307 original size:21 final size:21
Alignment explanation
Indices: 234260--234324 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
234250 AAGATAATCA
* *
234260 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
234282 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
234302 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
234323 AG
1 AG
234325 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:234400 original size:33 final size:33
Alignment explanation
Indices: 234358--234423 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
234348 AAATAGATGG
*
234358 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
234391 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
234424 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:236239 original size:19 final size:19
Alignment explanation
Indices: 236215--236263 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
236205 AATGTAGGGT
236215 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
236234 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
236253 TATTTTTGTAT
1 TAATTTTGTAT
236264 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:237096 original size:199 final size:199
Alignment explanation
Indices: 236382--237346 Score: 1889
Period size: 198 Copynumber: 4.9 Consensus size: 199
236372 CAATATGGCC
236382 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
236447 CAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
236512 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
236577 GGAA
196 GGAA
236581 AACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
236645 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
236710 AATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
236775 GGAA
196 GGAA
236779 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
236843 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
236908 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
236973 GGAA
196 GGAA
236977 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
237042 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
237107 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
237172 GGAA
196 GGAA
237176 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
237241 CAGAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
237306 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
237347 ACTAATTTAA
Statistics
Matches: 760, Mismatches: 4, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
198 393 0.52
199 367 0.48
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:237115 original size:397 final size:397
Alignment explanation
Indices: 236382--237346 Score: 1887
Period size: 397 Copynumber: 2.4 Consensus size: 397
236372 CAATATGGCC
236382 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
236447 CAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
236512 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
236577 GGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
236642 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
236707 GAGAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
236772 AATGGAA
391 AATGGAA
236779 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
236843 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
236908 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
236973 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
237038 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
237103 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
237168 GAATGGAA
390 GAATGGAA
237176 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
237241 CAGAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
237306 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
237347 ACTAATTTAA
Statistics
Matches: 563, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
396 173 0.31
397 256 0.45
398 134 0.24
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (397 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
AATGGAA
Found at i:238832 original size:6 final size:6
Alignment explanation
Indices: 238808--238896 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
238798 AGCGGTCGCA
* * * * * *
238808 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * *
238856 GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GA
238897 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:238843 original size:3 final size:3
Alignment explanation
Indices: 238823--238900 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
238813 TGAAGCTGAC
* * * * * ** *
238823 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
238871 GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
238901 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:238862 original size:36 final size:39
Alignment explanation
Indices: 238811--238892 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
238801 GGTCGCAGAA
238811 GATGAAGCTGACGATG-A-A-GATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
* *
238847 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
238886 GATGAAG
1 GATGAAG
238893 ATGATGATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 15 0.37
37 1 0.02
38 1 0.02
39 24 0.59
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (39 bp):
GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
Found at i:238900 original size:12 final size:12
Alignment explanation
Indices: 238811--238896 Score: 91
Period size: 12 Copynumber: 6.9 Consensus size: 12
238801 GGTCGCAGAA
*
238811 GATGAAGCTGAC
1 GATGAAGATGAC
238823 GATGAAGATGAC
1 GATGAAGATGAC
*
238835 GATGATGATGAC
1 GATGAAGATGAC
* *
238847 GATGAAGCTGGC
1 GATGAAGATGAC
238859 GATGAAGATGATGAC
1 GATG-A-A-GATGAC
* *
238874 GATGATGATGAT
1 GATGAAGATGAC
238886 GATGAAGATGA
1 GATGAAGATGA
238897 TGATCCAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
12 50 0.82
13 1 0.02
14 2 0.03
15 8 0.13
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:238900 original size:18 final size:18
Alignment explanation
Indices: 238811--238900 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
238801 GGTCGCAGAA
* * *
238811 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
* *
238829 GATGACGATGATGATGAC
1 GATGAAGATGATGATGAT
* *
238847 GATGAAGCTGGCGATGAAGAT
1 GATGAAGAT---GATGATGAT
*
238868 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
238886 GATGAAGATGATGAT
1 GATGAAGATGATGAT
238901 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 43 0.75
21 14 0.25
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:240675 original size:183 final size:183
Alignment explanation
Indices: 240367--240891 Score: 951
Period size: 183 Copynumber: 2.9 Consensus size: 183
240357 CTTTCAACAT
** * * *
240367 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
240432 GGTCTACAACATATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
240497 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
240550 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
240615 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
240680 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
240733 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
240798 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
240863 AATGTGTCGATACCATTTAAAAGAGTGTC
131 AATGTGTCGATACGATTTAAAAAAGTGTC
240892 AGTAATTTTA
Statistics
Matches: 331, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 331 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:241620 original size:16 final size:17
Alignment explanation
Indices: 241599--241631 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
241589 TCTGCGTACT
241599 TTGAC-AAAATATAATG
1 TTGACAAAAATATAATG
241615 TTGACAAAAATATAATG
1 TTGACAAAAATATAATG
241632 AATCAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (17 bp):
TTGACAAAAATATAATG
Found at i:241721 original size:18 final size:18
Alignment explanation
Indices: 241700--241736 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
241690 GTAATTGGAG
241700 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
241718 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
241736 T
1 T
241737 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:241744 original size:24 final size:24
Alignment explanation
Indices: 241692--241738 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
241682 TTTCATATGT
* *
241692 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
241716 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
241739 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:242038 original size:39 final size:39
Alignment explanation
Indices: 241995--242081 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
241985 TCCGATGCTC
*
241995 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
242034 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
242073 ATCAAAATC
1 ATCAAAATC
242082 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:242516 original size:23 final size:23
Alignment explanation
Indices: 242485--242548 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
242475 ATAGGTAAAC
*
242485 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
242508 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
242531 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
242549 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:242555 original size:23 final size:23
Alignment explanation
Indices: 242485--242557 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
242475 ATAGGTAAAC
* **
242485 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
242508 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
242531 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
242554 ATAT
1 ATAT
242558 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:243676 original size:26 final size:28
Alignment explanation
Indices: 243619--243676 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
243609 TATTATAAAT
**
243619 AAATATTTAAAATATATTATTTTTATTT
1 AAATATTTAAAATATATTATTTTTATCA
243647 AAATATTTAAAATAT-TTA-TTTTATCA
1 AAATATTTAAAATATATTATTTTTATCA
243673 AAAT
1 AAAT
243677 TAGTAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 10 0.36
27 3 0.11
28 15 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AAATATTTAAAATATATTATTTTTATCA
Found at i:246814 original size:21 final size:23
Alignment explanation
Indices: 246767--246814 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
246757 TCAATCCCTA
*
246767 TTTTCAAATTTAAATTTAGTAAT
1 TTTTCAAATTTAAATTTAGTAAC
*
246790 TTTTC-AATTTAAA-TTCGTAAC
1 TTTTCAAATTTAAATTTAGTAAC
246811 TTTT
1 TTTT
246815 TATTTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 8 0.35
23 5 0.22
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTCAAATTTAAATTTAGTAAC
Found at i:247772 original size:37 final size:37
Alignment explanation
Indices: 247721--247892 Score: 174
Period size: 37 Copynumber: 4.6 Consensus size: 37
247711 TAATGTTATG
247721 TTATTTA-AAGATTTATATTCAATTAAAATATGAATATA
1 TTATTTACAA-ATTTATATTCAATTAAAATA-GAATATA
* * *
247759 TTA-TTACGAATTTATATTCTATTGAAATAGGAATATA
1 TTATTTACAAATTTATATTCAATTAAAATA-GAATATA
* * * *
247796 TTATTTATAAATTTATATT--TTTTAAATACAAATATA
1 TTATTTACAAATTTATATTCAATTAAAATA-GAATATA
**
247832 TTATTTATGAATTTATATTCAATTAAAATAGAAATATA
1 TTATTTACAAATTTATATTCAATTAAAATAG-AATATA
*
247870 TTA-TTACAAATTTATATACAATT
1 TTATTTACAAATTTATATTCAATT
247893 GTAATACAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
36 31 0.28
37 48 0.43
38 33 0.29
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
TTATTTACAAATTTATATTCAATTAAAATAGAATATA
Found at i:247813 original size:19 final size:19
Alignment explanation
Indices: 247791--247849 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
247781 TGAAATAGGA
247791 ATATATTATTTATAAATTT
1 ATATATTATTTATAAATTT
***
247810 ATAT-TT-TTTA-AATACAA
1 ATATATTATTTATAA-ATTT
*
247827 ATATATTATTTATGAATTT
1 ATATATTATTTATAAATTT
247846 ATAT
1 ATAT
247850 TCAATTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 4 0.14
19 13 0.45
20 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATATATTATTTATAAATTT
Found at i:247814 original size:17 final size:17
Alignment explanation
Indices: 247792--247850 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
247782 GAAATAGGAA
247792 TATATTATTTATAAATT
1 TATATTATTTATAAATT
* *
247809 TATATTTTTTAAATACAA-A
1 TATATTATTT--ATA-AATT
*
247828 TATATTATTTATGAATT
1 TATATTATTTATAAATT
247845 TATATT
1 TATATT
247851 CAATTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.06
17 17 0.52
19 12 0.36
20 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TATATTATTTATAAATT
Found at i:248001 original size:10 final size:10
Alignment explanation
Indices: 247986--248020 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
247976 CAATTCAGAA
247986 AAGTTTGAAT
1 AAGTTTGAAT
* *
247996 AAGTTTTAAC
1 AAGTTTGAAT
248006 AAGTTTGAAT
1 AAGTTTGAAT
248016 AAGTT
1 AAGTT
248021 CCACAAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (10 bp):
AAGTTTGAAT
Found at i:248028 original size:19 final size:20
Alignment explanation
Indices: 247986--248030 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
247976 CAATTCAGAA
*
247986 AAGTTTGAATAAGTTTTAAC
1 AAGTTTGAATAAGTTTCAAC
*
248006 AAGTTTGAATAAG-TTCCAC
1 AAGTTTGAATAAGTTTCAAC
248025 AAGTTT
1 AAGTTT
248031 TTTGACAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (20 bp):
AAGTTTGAATAAGTTTCAAC
Found at i:249360 original size:17 final size:17
Alignment explanation
Indices: 249338--249372 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
249328 AATTTGATGA
249338 ATATTATTCACAACATG
1 ATATTATTCACAACATG
249355 ATATTATTCACAACATG
1 ATATTATTCACAACATG
249372 A
1 A
249373 AGTTTTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (17 bp):
ATATTATTCACAACATG
Found at i:253243 original size:21 final size:22
Alignment explanation
Indices: 253210--253254 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
253200 TAAGAATTTT
253210 TATTTTTATATTATT-AAAATA
1 TATTTTTATATTATTAAAAATA
253231 TATTATTTA-ATTATTAAAAATA
1 TATT-TTTATATTATTAAAAATA
253253 TA
1 TA
253255 AAATTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTTTATATTATTAAAAATA
Found at i:253284 original size:29 final size:27
Alignment explanation
Indices: 253244--253300 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 27
253234 TATTTAATTA
253244 TTAAAAATAT-AAAATTATACAATATAT
1 TTAAAAATATAAAAATTATA-AATATAT
253271 TTAAAATATAATAAAAATTATAAATATAT
1 TTAAAA-AT-ATAAAAATTATAAATATAT
253300 T
1 T
253301 ATTATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.22
28 2 0.07
29 10 0.37
30 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAAAATATAAAAATTATAAATATAT
Found at i:253565 original size:37 final size:38
Alignment explanation
Indices: 253501--253670 Score: 175
Period size: 37 Copynumber: 4.6 Consensus size: 38
253491 GCCCATCCCT
* * *
253501 AATTTATATTAAATTAAAATGTAAATATATTA-TTACA
1 AATTTATATTCAATTGAAATATAAATATATTATTTACA
* *
253538 AATTTATATTCAATTGAAATATGAATATATTATTTATA
1 AATTTATATTCAATTGAAATATAAATATATTATTTACA
** * **
253576 AATTTATATTTTATT-AAATAAAAATATATTATTTATG
1 AATTTATATTCAATTGAAATATAAATATATTATTTACA
* * * *
253613 AATTTATATTCAATTCAAATGTGAATATATTA-TTACG
1 AATTTATATTCAATTGAAATATAAATATATTATTTACA
* *
253650 AATTTATATTCGATTGGAATA
1 AATTTATATTCAATTGAAATA
253671 CAATATTATA
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 81 0.73
38 30 0.27
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (38 bp):
AATTTATATTCAATTGAAATATAAATATATTATTTACA
Found at i:256841 original size:3 final size:3
Alignment explanation
Indices: 256833--256857 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
256823 AAGATGAAAG
256833 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
256858 GTTTGGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:261599 original size:187 final size:185
Alignment explanation
Indices: 261351--261873 Score: 519
Period size: 187 Copynumber: 2.8 Consensus size: 185
261341 TTAGACATTT
* * * * *
261351 TCACGATAAGAAAATAAGTTAAAAGCTAAAAATGTTATGA-ATATTTATAATAAATACGGTTGTG
1 TCACGATAATAAAAAAAATTAAAAGCTAAAAATGTTAT-ATATATCTATAATAAATACGGTTGAG
* * *
261415 CCCAATAATGTCATAGTTCACTAAGAAATTAGGTGTC-ATCTGGAATATTAATATTTTTATTAAT
65 CCCAAAAATGTTAT-GTTCACTAAGAAATTAGGTGTCGATCTGGAATGTTAATATTTTTATTAAT
*
261479 AAAATTGGTTGCACCTAAAATATTACCAGAGTTTACA-CTGATAGAGCCTTAGATTTTC
129 AAAATTGGTTGCACCTAAAATATTACCAGAGTTTA-AGCTGATAGACCCTTA-ATTTTC
* * *
261537 -C-CGTAATAATAAAAAAAAATTAAAAGCTGAAAATGTTATATATAGCTATGATAAATACGGTTG
1 TCACG--ATAAT-AAAAAAAATTAAAAGCTAAAAATGTTATATATATCTATAATAAATACGGTTG
* * * * *
261600 CGTCAAAAAATGTTATGGTTTACTAAGAAAGTAGGT-TCTGATCTGGAATGTTAATATTTTTTAT
63 AGCCCAAAAATGTTAT-GTTCACTAAGAAATTAGGTGTC-GATCTGGAATGTTAATA-TTTTTAT
* ** * * *
261664 TAATAAAATGGGTTGCGTCTAAAATGTTATCAGAGTTTAAGTTGATAGACCCTTAATTTTC
125 TAATAAAATTGGTTGCACCTAAAATATTACCAGAGTTTAAGCTGATAGACCCTTAATTTTC
* * * * * *
261725 TCACGATAATAAATAAGA-TAAAGGCTAAAAATGTTA-ATAGTATCTATAAAAAATACGATTGAA
1 TCACGATAATAAAAAAAATTAAAAGCTAAAAATGTTATATA-TATCTATAATAAATACGGTTGAG
* * * * *
261788 CACAAGAATTTTATGATACACTAA-ATAATTTGGTCG-CGATCTGGAATGTTAATATTTTTATTA
65 CCCAAAAATGTTATG-TTCACTAAGA-AATTAGGT-GTCGATCTGGAATGTTAATATTTTTATTA
*
261851 ATAAAA-TGTGTTGAACCTAAAAT
127 ATAAAATTG-GTTGCACCTAAAAT
261874 GTTAGGGGCT
Statistics
Matches: 275, Mismatches: 46, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
184 3 0.01
185 32 0.12
186 78 0.28
187 79 0.29
188 27 0.10
189 54 0.20
190 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (185 bp):
TCACGATAATAAAAAAAATTAAAAGCTAAAAATGTTATATATATCTATAATAAATACGGTTGAGC
CCAAAAATGTTATGTTCACTAAGAAATTAGGTGTCGATCTGGAATGTTAATATTTTTATTAATAA
AATTGGTTGCACCTAAAATATTACCAGAGTTTAAGCTGATAGACCCTTAATTTTC
Found at i:264572 original size:2 final size:2
Alignment explanation
Indices: 264565--264599 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
264555 TCGTTCCATT
*
264565 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
264600 GGTTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:264715 original size:37 final size:37
Alignment explanation
Indices: 264582--265046 Score: 386
Period size: 37 Copynumber: 12.5 Consensus size: 37
264572 ATATATATAT
* * * *
264582 ATATATATATATTTATATGGTTTAAAAACATTTTTAAAA
1 ATATATATA-ATATATA-GTTTTTAAAACATTTTTGAAA
* * *
264621 CATATATATAATATATAGTTTTGAAAATATGTTTGAAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTTG-AAA
* * *
264660 CATTTATATATTATATAGTTTTTAAAACGTTTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* * *
264698 ATAAATATAATATATAGTTTTTAAAACATTATTCAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
264735 ACATATATATTATATAGTTTTTAAAACA-TTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
*** *
264771 ATATGCCTAATATATAGTTTTTAAAACA-TTTTAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
*
264807 ATTATGTATAATATATAGTTTTTTAAAAACATTTTTG---
1 A-TATATATAATATATAG-TTTTT-AAAACATTTTTGAAA
*
264844 A-AT-TAT--TATATAGTTTTTAAAACA-ATTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTG-AAA
* *
264877 CATATATATATTATATAGTTTTTAAAACA-TTTTAAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* * *
264914 ACATATATACATTATATAATTTTTAAAACGTTTTTGAAA
1 ATATATATA-A-TATATAGTTTTTAAAACATTTTTGAAA
*
264953 A-AGTATATAATATATAAGTTTTTAAAATAATTTTTGAAA
1 ATA-TATATAATATAT-AGTTTTTAAAA-CATTTTTGAAA
* * *
264992 ATATATAT--TATATAGTTTTGAAAATTATTTTTTAAA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTTGAAA
*
265028 CATATATGT--TATATAGTTT
1 -ATATATATAATATATAGTTT
265047 AAAAAATGTT
Statistics
Matches: 356, Mismatches: 47, Indels: 47
0.79 0.10 0.10
Matches are distributed among these distances:
29 4 0.01
30 6 0.02
31 5 0.01
32 7 0.02
34 4 0.01
35 4 0.01
36 68 0.19
37 101 0.28
38 70 0.20
39 73 0.21
40 14 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:264896 original size:38 final size:37
Alignment explanation
Indices: 264847--265015 Score: 173
Period size: 38 Copynumber: 4.5 Consensus size: 37
264837 ATTTTTGAAT
264847 TATTATATAGTTTTTAAAACAATTTGAAAACATATATA
1 TATTATATAGTTTTTAAAACAATTTGAAAA-ATATATA
* *
264885 TATTATATAGTTTTTAAAACATTTTAAAAACATATATA
1 TATTATATAGTTTTTAAAACAATTTGAAAA-ATATATA
* * **
264923 CATTATATAATTTTTAAAACGTTTTTGAAAAAGTATATA
1 TATTATATAGTTTTTAAAAC-AATTTGAAAAA-TATATA
* ***
264962 -A-TATATAAGTTTTTAAAATAATTTTTGAAA-ATATA
1 TATTATAT-AGTTTTTAAAACAATTTGAAAAATATATA
*
264997 TATTATATAGTTTTGAAAA
1 TATTATATAGTTTTTAAAA
265016 TTATTTTTTA
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
35 5 0.04
36 11 0.10
37 16 0.14
38 66 0.59
39 14 0.12
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TATTATATAGTTTTTAAAACAATTTGAAAAATATATA
Done.