Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007825.1 Hibiscus syriacus cultivar Beakdansim tig00110163_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: 2082551
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:193153 original size:17 final size:17
Alignment explanation
Indices: 193124--193189 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
193114 CAAGCAACCT
193124 ATTTTATGGTTGCACCAC
1 ATTTTA-GGTTGCACCAC
193142 ATTTTAGGTTGCACCAC
1 ATTTTAGGTTGCACCAC
* * *
193159 TTTTTCAAGTTGCACAAC
1 ATTTT-AGGTTGCACCAC
*
193177 ATTTTTGGTTGCA
1 ATTTTAGGTTGCA
193190 ATTCTTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 21 0.51
18 20 0.49
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (17 bp):
ATTTTAGGTTGCACCAC
Found at i:193206 original size:35 final size:35
Alignment explanation
Indices: 193117--193207 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
193107 CAACAATCAA
* *
193117 GCAAC-CTATTTTATGGTTGCACCACATTTTAGGTT
1 GCAACACTTTTTTAT-GTTGCACAACATTTTAGGTT
* * * *
193152 GCACCACTTTTTCAAGTTGCACAACATTTTTGGTT
1 GCAACACTTTTTTATGTTGCACAACATTTTAGGTT
**
193187 GCAATTCTTTTTTATGTTGCA
1 GCAACACTTTTTTATGTTGCA
193208 ACCCTATTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
35 38 0.86
36 6 0.14
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (35 bp):
GCAACACTTTTTTATGTTGCACAACATTTTAGGTT
Found at i:193570 original size:14 final size:15
Alignment explanation
Indices: 193542--193571 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
193532 TAGAAATTTT
193542 ATTAAAAATATATAA
1 ATTAAAAATATATAA
193557 ATTAAAAATA-ATAA
1 ATTAAAAATATATAA
193571 A
1 A
193572 AAGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATATATAA
Found at i:197635 original size:3 final size:3
Alignment explanation
Indices: 197627--197716 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
197617 ATTAATTTAT
* * * *
197627 TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TAA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
197675 TTA TTA TTA TTA TTA CAA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
197717 AATATATATA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:198976 original size:14 final size:15
Alignment explanation
Indices: 198957--198998 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
198947 TATCGTTCTG
198957 GTTTTATTTTTA-TT
1 GTTTTATTTTTACTT
*
198971 GTTTTAATTTTACTT
1 GTTTTATTTTTACTT
198986 GTTTATATTTTTA
1 GTTT-TATTTTTA
198999 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 6 0.25
16 7 0.29
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (15 bp):
GTTTTATTTTTACTT
Found at i:199176 original size:12 final size:12
Alignment explanation
Indices: 199144--199177 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
199134 CTGGTATTTT
*
199144 AAATTATAAAAA
1 AAATTATATAAA
199156 AAATATATATAAA
1 AAAT-TATATAAA
199169 AAATTATAT
1 AAATTATAT
199178 TATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTATATAAA
Found at i:199770 original size:29 final size:28
Alignment explanation
Indices: 199728--199795 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
199718 AAAAGTTCAT
* *
199728 ATATTTAATTTTTAATTATTTCTTTTCAAA
1 ATATTT-ATATTTAATTA-TTATTTTCAAA
* * *
199758 ATTTTTATATTTACTTATTATTTTCATA
1 ATATTTATATTTAATTATTATTTTCAAA
199786 ATATTTATAT
1 ATATTTATAT
199796 GTTTTATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.56
29 9 0.28
30 5 0.16
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTATATTTAATTATTATTTTCAAA
Found at i:210446 original size:12 final size:11
Alignment explanation
Indices: 210429--210481 Score: 72
Period size: 11 Copynumber: 4.6 Consensus size: 11
210419 ATTATGCTTG
210429 AAGAAAAAAGAA
1 AAGAAAAAA-AA
210441 AAGAAAAAAAA
1 AAGAAAAAAAA
210452 AAGAAAAAAAA
1 AAGAAAAAAAA
210463 AGAGAAAAAAGAA
1 A-AGAAAAAA-AA
210476 AA-AAAA
1 AAGAAAA
210482 GGGGGTCAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
11 18 0.46
12 18 0.46
13 3 0.08
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:210452 original size:10 final size:10
Alignment explanation
Indices: 210433--210481 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
210423 TGCTTGAAGA
210433 AAAAAGAAAAG
1 AAAAA-AAAAG
210444 AAAAAAAAAAG
1 -AAAAAAAAAG
210455 AAAAAAAAAG
1 AAAAAAAAAG
*
210465 -AGAAAAAAG
1 AAAAAAAAAG
210474 AAAAAAAA
1 AAAAAAAA
210482 GGGGGTCAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 8 0.24
10 16 0.47
11 5 0.15
12 5 0.15
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:211768 original size:83 final size:83
Alignment explanation
Indices: 211629--212305 Score: 1282
Period size: 83 Copynumber: 8.2 Consensus size: 83
211619 GAATAAATGC
**
211629 AATGTGCTCATAAAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
211694 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
211712 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
211777 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
211795 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCGGGTTAGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
211860 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
211878 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
211943 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
211961 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
212026 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
212044 AATGTGCTCTTAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
*
212109 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
*
212127 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
212192 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
212210 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
212275 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
212293 AATTTGCTCATAG
1 AATGTGCTCATAG
212306 TAGAAATAAG
Statistics
Matches: 581, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 581 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:213288 original size:113 final size:113
Alignment explanation
Indices: 213088--213854 Score: 1132
Period size: 113 Copynumber: 6.8 Consensus size: 113
213078 GCAAAGATTT
* * * ****
213088 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
213153 AAGGAAGAATAAGTTCACAATGAGAAGAATTTATTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
213201 AAATCTATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
213266 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
213314 AAATCTATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
213379 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
213427 AAATCTATCACTTGATGAATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAA
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
213492 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
**
213540 AAATCTATCACTTGATGGATTATATTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
213605 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA-CTTTTCGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTC
* * * **** *
213653 AAATCCATCACTTGATGGATTAGATTTGCCAGAGAAAGTTCATAATGAGAAAAACTCATCTGAAG
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
213718 -AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * ****
213765 TAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---G
1 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
213827 AA-GAAGAAGAAGTTCATAATGAGAAGAA
66 AAGGAAGAAGAAGTTCATAATGAGAAGAA
213855 CTAATCTGAA
Statistics
Matches: 616, Mismatches: 35, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
109 26 0.04
110 1 0.00
112 100 0.16
113 489 0.79
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (113 bp):
AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:213847 original size:36 final size:36
Alignment explanation
Indices: 213800--213878 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
213790 TTTCCAGAGA
* *
213800 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
213836 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
1 AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
213872 AAGTTCA
1 AAGTTCA
213879 CCATGAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (36 bp):
AAGTTCATAATGAGAAGAACTAATCTGAAAAAGAAG
Found at i:214156 original size:6 final size:6
Alignment explanation
Indices: 214142--214270 Score: 195
Period size: 6 Copynumber: 21.5 Consensus size: 6
214132 ATTAATTTAT
* * * * *
214142 TTATTA TTATAA TTATAA TTATAA TTATAA TTATTA TTATAA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* *
214190 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATAA ATATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
214238 TTATTA TTATTA TTATTA TTATTA TTATTA TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTA
214271 AATATATATA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TTATTA
Found at i:214408 original size:16 final size:16
Alignment explanation
Indices: 214387--214430 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
214377 TAGCCCCATG
214387 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGCC
214403 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGCC
214419 TCCAGCCGCCTC
1 TCCAGCCGCCTC
214431 AGCCAACGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.07, C:0.57, G:0.18, T:0.18
Consensus pattern (16 bp):
TCCAGCCGCCTCTGCC
Found at i:215539 original size:14 final size:15
Alignment explanation
Indices: 215520--215561 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
215510 TATCGTTCTG
215520 GTTTTATTTTTA-TT
1 GTTTTATTTTTACTT
*
215534 GTTTTAATTTTACTT
1 GTTTTATTTTTACTT
215549 GTTTATATTTTTA
1 GTTT-TATTTTTA
215562 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 6 0.25
16 7 0.29
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (15 bp):
GTTTTATTTTTACTT
Found at i:215737 original size:16 final size:16
Alignment explanation
Indices: 215716--215746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
215706 TATTTTAAAT
215716 TATAAAAAAATATATA
1 TATAAAAAAATATATA
*
215732 TATAAAAATATATAT
1 TATAAAAAAATATAT
215747 TATTTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAAAAATATATA
Found at i:215738 original size:14 final size:14
Alignment explanation
Indices: 215716--215746 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
215706 TATTTTAAAT
215716 TATAAAAAAATATA
1 TATAAAAAAATATA
*
215730 TATATAAAAATATA
1 TATAAAAAAATATA
215744 TAT
1 TAT
215747 TATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATAAAAAAATATA
Found at i:218164 original size:14 final size:15
Alignment explanation
Indices: 218145--218186 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
218135 TATCGTTCTG
218145 GTTTTATTTTTA-TT
1 GTTTTATTTTTACTT
*
218159 GTTTTAATTTTACTT
1 GTTTTATTTTTACTT
218174 GTTTATATTTTTA
1 GTTT-TATTTTTA
218187 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 6 0.25
16 7 0.29
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (15 bp):
GTTTTATTTTTACTT
Found at i:218357 original size:17 final size:17
Alignment explanation
Indices: 218335--218367 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
218325 TATTTTAAAT
218335 TATAAAAAAAATATATA
1 TATAAAAAAAATATATA
218352 TATAAAAAAAATATAT
1 TATAAAAAAAATATAT
218368 TATTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TATAAAAAAAATATATA
Found at i:219420 original size:25 final size:25
Alignment explanation
Indices: 219392--219439 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
219382 TAAAAAGAAC
219392 AAAGAAAATGAAAATAAATCACCTA
1 AAAGAAAATGAAAATAAATCACCTA
219417 AAAGAAAATGAAAATAAATCACC
1 AAAGAAAATGAAAATAAATCACC
219440 CTTGCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.65, C:0.12, G:0.08, T:0.15
Consensus pattern (25 bp):
AAAGAAAATGAAAATAAATCACCTA
Found at i:222469 original size:12 final size:12
Alignment explanation
Indices: 222452--222485 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
222442 GAAAATAAAG
222452 AAAACTTAATGT
1 AAAACTTAATGT
*
222464 AAAACTTGATGT
1 AAAACTTAATGT
222476 AAAAC-TAATG
1 AAAACTTAATG
222486 GCCCTAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AAAACTTAATGT
Found at i:223524 original size:3 final size:3
Alignment explanation
Indices: 223516--223541 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
223506 GCTGCATCGT
223516 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
223542 TTTACAGCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:224714 original size:11 final size:11
Alignment explanation
Indices: 224698--224727 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
224688 TTCTAATTCG
224698 ATTTGATTAAA
1 ATTTGATTAAA
*
224709 ATTTGATAAAA
1 ATTTGATTAAA
224720 ATTTGATT
1 ATTTGATT
224728 CGGGTTGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (11 bp):
ATTTGATTAAA
Found at i:225727 original size:11 final size:11
Alignment explanation
Indices: 225713--225738 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
225703 TAATATATAA
225713 TATATATTATT
1 TATATATTATT
225724 TATATATTATT
1 TATATATTATT
225735 TATA
1 TATA
225739 AATTTATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:225968 original size:43 final size:43
Alignment explanation
Indices: 225907--225994 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
225897 CACCCATTTG
*
225907 AACATTATTTCTTCTCTATGACATATATAAGTTATTAACAGCC
1 AACATTATTTCTTCTCTATAACATATATAAGTTATTAACAGCC
225950 AACATTATTTCTTCTCTATAACATATATAAGTTATTAACAGCC
1 AACATTATTTCTTCTCTATAACATATATAAGTTATTAACAGCC
225993 AA
1 AA
225995 TGCCCGATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.39
Consensus pattern (43 bp):
AACATTATTTCTTCTCTATAACATATATAAGTTATTAACAGCC
Found at i:227128 original size:31 final size:30
Alignment explanation
Indices: 227073--227156 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
227063 AGTATGTCTT
*
227073 TAATAACAAATATTTAAAAAATTGAGCTAC
1 TAATAACAAATATTGAAAAAATTGAGCTAC
* * *
227103 TAATAATAATTATTGAAAATAATTGAGCCT-T
1 TAATAACAAATATTGAAAA-AATTGAG-CTAC
227134 TAATAACAAATATTAGAAAAAAT
1 TAATAACAAATATT-GAAAAAAT
227157 ATTAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 16 0.36
31 22 0.49
32 7 0.16
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (30 bp):
TAATAACAAATATTGAAAAAATTGAGCTAC
Found at i:235819 original size:88 final size:87
Alignment explanation
Indices: 235658--235832 Score: 341
Period size: 88 Copynumber: 2.0 Consensus size: 87
235648 GGGTCGTTTT
235658 GACGATTTTAAATTAAAAGTGTATCCCAACAGTGCACAAAAAAATTGATTCTTCACTTTAAATTT
1 GACGATTTTAAATTAAAAGTGTATCCCAACAGTGCACAAAAAAATTGATTCTTCACTTTAAATTT
235723 GGGAGTGAAAGAAAAAGAAATA
66 GGGAGTGAAAGAAAAAGAAATA
235745 GACGATTTTAAATTAAAAGTGTATCCCAACAGTGTCACAAAAAAATTGATTCTTCACTTTAAATT
1 GACGATTTTAAATTAAAAGTGTATCCCAACAGTG-CACAAAAAAATTGATTCTTCACTTTAAATT
235810 TGGGAGTGAAAGAAAAAGAAATA
65 TGGGAGTGAAAGAAAAAGAAATA
235833 TTCGGCCATT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 34 0.39
88 53 0.61
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (87 bp):
GACGATTTTAAATTAAAAGTGTATCCCAACAGTGCACAAAAAAATTGATTCTTCACTTTAAATTT
GGGAGTGAAAGAAAAAGAAATA
Found at i:237597 original size:21 final size:21
Alignment explanation
Indices: 237567--237652 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
237557 TAGTCGTACC
*
237567 AAAGATGAGAAGACCGTTCAT
1 AAAGAAGAGAAGACCGTTCAT
237588 AAAGAAGAGAAGACCGTTCAT
1 AAAGAAGAGAAGACCGTTCAT
* *
237609 AAAGATGAGAAGACCATTCAT
1 AAAGAAGAGAAGACCGTTCAT
* * *
237630 AGAGACA-TGAAGACCCTTCAT
1 AAAGA-AGAGAAGACCGTTCAT
237651 AA
1 AA
237653 GACATGAAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AAAGAAGAGAAGACCGTTCAT
Found at i:237614 original size:42 final size:42
Alignment explanation
Indices: 237567--237652 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
237557 TAGTCGTACC
* *
237567 AAAGATGAGAAGACCGTTCATAAAGA-AGAGAAGACCGTTCAT
1 AAAGATGAGAAGACCATTCATAAAGACA-AGAAGACCCTTCAT
* *
237609 AAAGATGAGAAGACCATTCATAGAGACATGAAGACCCTTCAT
1 AAAGATGAGAAGACCATTCATAAAGACAAGAAGACCCTTCAT
237651 AA
1 AA
237653 GACATGAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (42 bp):
AAAGATGAGAAGACCATTCATAAAGACAAGAAGACCCTTCAT
Found at i:237657 original size:20 final size:21
Alignment explanation
Indices: 237617--237663 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
237607 ATAAAGATGA
237617 GAAGACCATTCATAGAGACAT
1 GAAGACCATTCATAGAGACAT
*
237638 GAAGACCCTTCATA-AGACAT
1 GAAGACCATTCATAGAGACAT
237658 GAAGAC
1 GAAGAC
237664 TACATCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (21 bp):
GAAGACCATTCATAGAGACAT
Found at i:237920 original size:13 final size:13
Alignment explanation
Indices: 237902--237926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237892 TAGCACCTCG
237902 TGCATTTGCATTT
1 TGCATTTGCATTT
237915 TGCATTTGCATT
1 TGCATTTGCATT
237927 GCATGTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (13 bp):
TGCATTTGCATTT
Found at i:240337 original size:10 final size:10
Alignment explanation
Indices: 240313--240347 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
240303 AGAAAAAATT
*
240313 GAAAATG-AG
1 GAAAATGAAA
240322 GAAAATGAAA
1 GAAAATGAAA
240332 GAAAATGAAA
1 GAAAATGAAA
240342 GAAAAT
1 GAAAAT
240348 TGATCAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (10 bp):
GAAAATGAAA
Found at i:243090 original size:36 final size:36
Alignment explanation
Indices: 243049--243221 Score: 249
Period size: 36 Copynumber: 4.8 Consensus size: 36
243039 ACTAAAGAGG
* *
243049 AGTGAAGCAAACCATCTGAATCCTTCACTGGAGAAT
1 AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
243085 AGTGAAGCAAACCATCCT-AAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCAT-CTGAAGCCTTCACCGGAGAAT
243121 AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
* * * * *
243157 AGTGAAGTAATCAATCTGAAGCCTTCACCTGAGAGT
1 AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
* *
243193 AGTGAAGCAAACCATCTTAAGTCTTCACC
1 AGTGAAGCAAACCATCTGAAGCCTTCACC
243222 AAAAAGTAGT
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
35 2 0.02
36 119 0.97
37 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (36 bp):
AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
Found at i:243230 original size:36 final size:35
Alignment explanation
Indices: 243049--243255 Score: 198
Period size: 36 Copynumber: 5.7 Consensus size: 35
243039 ACTAAAGAGG
* * * *
243049 AGTGAAGCAAACCATCTGAATCCTTCACTGGAGAAT
1 AGTGAAGCAAACCATCTTAAGCCTTCAC-CGAAAAT
* *
243085 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCATCTTAAGCCTTCACC-GAAAAT
* *
243121 AGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCATCTTAAGCCTTCACC-GAAAAT
* * * * * *
243157 AGTGAAGTAATCAATCTGAAGCCTTCACCTGAGAGT
1 AGTGAAGCAAACCATCTTAAGCCTTCACC-GAAAAT
* *
243193 AGTGAAGCAAACCATCTTAAGTCTTCACCAAAAAGT
1 AGTGAAGCAAACCATCTTAAGCCTTCACCGAAAA-T
* *
243229 AGTGAAGCATATCCATTTTAAGCCTTC
1 AGTGAAGCA-AACCATCTTAAGCCTTC
243256 TCAGAAGAGT
Statistics
Matches: 146, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
35 2 0.01
36 130 0.89
37 14 0.10
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (35 bp):
AGTGAAGCAAACCATCTTAAGCCTTCACCGAAAAT
Found at i:243655 original size:51 final size:52
Alignment explanation
Indices: 243593--243988 Score: 518
Period size: 54 Copynumber: 7.6 Consensus size: 52
243583 GAAGATATCT
* *
243593 GAGTTCCATACT-CCTATAGAAAGAGAGAGCGAACCCGTTTGAAGATTGTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAGAATGTTC
*
243644 GAGTTCCATACTCCC--TAGAAAGAGGGAACGAACCCGTTTGAAG-ATGTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAGAATGTTC
* *
243693 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-ATGTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAGAATGTTC
* * *
243744 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAGA-ATGTTC
* * * * * *
243797 GAGTTCCATACTCCTTAAAGAAAGAAGGAGAGAACCCGTAAT-AAGAAGATTTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGT-TTGAAG-A-ATGTTC
*
243851 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTC
1 GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAG-A-ATGTTC
243905 GAGTTCCATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTC
1 GAGTTCCATACTCCCT-ATAGAAAGAGGGAGCGAACCCGTTTGAAG--AATGTTC
*
243959 GAGTTCCATACTCCCTAGAGAAAGAGGGAG
1 GAGTTCCATACTCCCTATAGAAAGAGGGAG
243989 AGATGTCCGA
Statistics
Matches: 313, Mismatches: 21, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
49 19 0.06
50 26 0.08
51 85 0.27
52 2 0.01
53 49 0.16
54 129 0.41
55 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (52 bp):
GAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCGTTTGAAGAATGTTC
Found at i:243960 original size:108 final size:106
Alignment explanation
Indices: 243577--244522 Score: 563
Period size: 108 Copynumber: 9.0 Consensus size: 106
243567 AGGTTCGATA
* * * *
243577 TTTGAAGAAGAT-ATCTGAGTTCCATACT-CCTATAGAAAGAGAGAGCGAACCCGTTTGAAGATT
1 TTTGAAGAAGATGTTC-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAT
*
243640 GTTCGAGTTCCATACTCCC--TAGAAAGAGGGAACGAACCCG
65 GTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
*
243680 TTT---GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-ATG
1 TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAATG
* * *
243741 TTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCG
66 TTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
* * * * *
243782 TTTGAAG-AGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGAGAACCCGTAAT-AAGAAG
1 TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT-TTGAAG-A-
* *
243845 ATTTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCTG
63 ATGTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
243889 TTTGAAGAAGATGTTCGAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAA
1 TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAG--A
*
243953 ATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGA--G-A---G
63 ATGTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
* *** * **** * ** * * * *** **
243991 -ATG--TCCGA-GTTCCA-TACTCC---CTAGAGAAAGAGGGAGCGAAC--CCGTTTGAAGAAG-
1 TTTGAAGAAGATGTTCGAGT--TCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT-TTGAAGA
*
244045 ATGTCT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
63 ATGT-TCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
* * * * *
244089 TTTGAAGAAAATATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAA-AATT
1 TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAA-T
** * * **
244153 GTTCGAGTTTTATACTCCCTAGAGAAAGAGAGAGCGAACTTG
65 GTTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
* * * * *
244195 TTTGCAGAAGATATTCGAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGT
1 TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--T-TTGAAGA
* * * * * *
244260 TTGTTCGAG-TCTTATACTCTCTGAAAG-AATAGGGAGC-AGACACG
63 ATGTTCGAGTTC-CATACTCCCT-ATAGAAAGAGGGAGCGA-ACCCG
* ** * * * * * * *
244304 ATTGTTGAAGATTATTCGAG-TCTCATACTCTCT-GAAAGAATAGGGAG-TAGACACGATTGTTA
1 TTTGAAGAAGA-TGTTCGAGTTC-CATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCG--T-TTG
* * * * *
244366 AAGATTGTTCGAG-TCTCATACTCTCTGA-AGGAATAGGGAGC-AGACACG
59 AAGAATGTTCGAGTTC-CATACTCCCT-ATAGAAAGAGGGAGCGA-ACCCG
* * * *
244414 TTTTCAA-AAGATTTTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGCAGAA
1 -TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAG-A
* * *
244477 GATTTTCAAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCG
63 -ATGTTCGAGTTCCATACTCCCT-ATAGAAAGAGGGAGCGAACCCG
244522 T
1 T
244523 AGGCAAAAGA
Statistics
Matches: 658, Mismatches: 126, Indels: 114
0.73 0.14 0.13
Matches are distributed among these distances:
92 33 0.05
93 1 0.00
94 3 0.00
95 5 0.01
96 11 0.02
97 1 0.00
98 6 0.01
99 7 0.01
100 36 0.05
101 37 0.06
102 25 0.04
103 4 0.01
104 57 0.09
105 8 0.01
106 91 0.14
107 50 0.08
108 112 0.17
109 81 0.12
110 88 0.13
111 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (106 bp):
TTTGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAATG
TTCGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCCG
Found at i:244008 original size:200 final size:198
Alignment explanation
Indices: 243787--244182 Score: 573
Period size: 200 Copynumber: 2.0 Consensus size: 198
243777 ACCCGTTTGA
* * *
243787 AGAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGAGAACCCGTAAT-AAGAAGAT-TTT
1 AGAGATGTCCGAGTTCCATACTCCCTAAAGAAAGAAGGAGAGAACCCGT-ATGAAGAAGATGTCT
* * * * *
243850 CGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCCATA
65 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATA
*
243915 CTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTCGAGTTCCATACTCCCTAGAG
129 CTCCCTAG-AGAAAGAGGGAGCGAACCCGTTCG-A-AAAATGTTCGAGTTCCATACTCCCTAGAG
243979 AAAGAGGG
191 AAAGAGGG
* * * *
243987 AGAGATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTG
1 AGAGATGTCCGAGTTCCATACTCCCTAAAGAAAGAAGGAGAGAACCCGTATGAAGAAGATGTCTG
*
244052 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCTATACT
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATACT
* **
244117 CCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAAATTGTTCGAGTTTTATACTCCCTAGAGAAAGA
131 CCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGA
244182 G
196 G
244183 AGAGCGAACT
Statistics
Matches: 176, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
198 32 0.18
199 2 0.01
200 139 0.79
201 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (198 bp):
AGAGATGTCCGAGTTCCATACTCCCTAAAGAAAGAAGGAGAGAACCCGTATGAAGAAGATGTCTG
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAAAATGTTCGAGTTCCATACTCCCTAGAGAAAGA
GGG
Found at i:244009 original size:38 final size:38
Alignment explanation
Indices: 243953--244026 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
243943 TTTGAAGAAA
*
243953 ATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAG
1 ATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAG
243991 ATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAG
1 ATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAG
244027 CGAACCCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (38 bp):
ATGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAG
Found at i:244055 original size:92 final size:92
Alignment explanation
Indices: 243897--244080 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 92
243887 TGTTTGAAGA
*
243897 AGATGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTCGAG
1 AGATGTCCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTCGAG
243962 TTCCATACTCCCTAGAGAAAGAGGGAG
66 TTCCATACTCCCTAGAGAAAGAGGGAG
*
243989 AGATGTCCGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TCTG
1 AGATGTCCGAGTTCCATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTC-G
244052 AGTTCCATACTCCCTAGAGAAAGAGGGAG
64 AGTTCCATACTCCCTAGAGAAAGAGGGAG
244081 CGAACCCGTT
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
91 3 0.03
92 85 0.97
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (92 bp):
AGATGTCCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTCGAG
TTCCATACTCCCTAGAGAAAGAGGGAG
Found at i:244116 original size:146 final size:146
Alignment explanation
Indices: 243850--244134 Score: 493
Period size: 146 Copynumber: 2.0 Consensus size: 146
243840 AGAAGATTTT
* *
243850 CGAGTTCCATACTCCCTATAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCCATA
1 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATA
* *
243915 CTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATGTTCGAGTTCCATACTCCCTAGAGA
66 CTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATACTCCCTAGAGA
243980 AAGAGGGAGAGATGTC
131 AAGAGGGAGAGATGTC
243996 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TCTGAGTTCCAT
1 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAGTTCCAT
*
244060 ACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCTATACTCCCTAGA
65 ACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATACTCCCTAGA
244124 GAAAGAGGGAG
129 GAAAGAGGGAG
244135 CGAACCCGTT
Statistics
Matches: 132, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
145 3 0.02
146 129 0.98
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (146 bp):
CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCCATA
CTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATATCCGAGTTCCATACTCCCTAGAGA
AAGAGGGAGAGATGTC
Found at i:244214 original size:106 final size:108
Alignment explanation
Indices: 243994--244248 Score: 363
Period size: 106 Copynumber: 2.4 Consensus size: 108
243984 GGGAGAGATG
*
243994 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCTGAGTTCCA
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAGAAGATGTCTGAGTTCCA
*
244059 TACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATA
66 TACTCCCTAGAGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
* * **
244102 TCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAA-AA-TTGT-TCGAGTTTT
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAGAAGATGTCT-GAGTTCC
** * *
244164 ATACTCCCTAGAGAAAGAGAGAGCGAACTTGTTTGCAGAAGATA
65 ATACTCCCTAGAGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
* * *
244208 TTCGAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCG
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
244249 ATTGTTGAAG
Statistics
Matches: 132, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.01
106 84 0.64
107 2 0.02
108 45 0.34
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (108 bp):
TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAAGAAGATGTCTGAGTTCCA
TACTCCCTAGAGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
Found at i:244286 original size:106 final size:104
Alignment explanation
Indices: 243994--244287 Score: 317
Period size: 106 Copynumber: 2.8 Consensus size: 104
243984 GGGAGAGATG
* * *
243994 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TCTGAGTTCC
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTGTAGAAGTTGTTC-GAGTT-T
*
244058 ATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAATA
63 ATACTCCCT--AGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
* *
244102 TCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCG-A-AAATTGTTCGAGTTTTA
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTT-GTAGAAGTTGTTCGAG-TTTA
** * *
244165 TACTCCCTAGAGAAAGAGAGAGCGAACTTGTTTGCAGAAGATA
64 TACTCCCT--AGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
* * * *
244208 TTCGAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTCGAGTCTT
1 TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TTGTAGAAG-TTGTTCGAGT-TT
*
244273 ATACTCTCT-GAAAGA
63 ATACTCCCTAGAAAGA
244288 ATAGGGAGCA
Statistics
Matches: 162, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
106 90 0.56
107 9 0.06
108 44 0.27
109 19 0.12
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (104 bp):
TCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTGTAGAAGTTGTTCGAGTTTATA
CTCCCTAGAAAGAGAGAGCGAACCCGTTTGAAGAAAATA
Found at i:244294 original size:55 final size:56
Alignment explanation
Indices: 244235--244413 Score: 242
Period size: 55 Copynumber: 3.3 Consensus size: 56
244225 CTAGAGAAAG
* * *
244235 AGGGAACGA-ACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAAT
1 AGGGAACGAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
* *
244290 AGGGAGC-AGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAAT
1 AGGGAACGAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
* *
244345 AGGG-A-GTAGACACGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTGAAGGAAT
1 AGGGAACG-AGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
*
244400 AGGGAGC-AGACACG
1 AGGGAACGAGACACG
244414 TTTTCAAAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.01
55 108 0.99
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (56 bp):
AGGGAACGAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
Found at i:244424 original size:55 final size:55
Alignment explanation
Indices: 244260--244565 Score: 258
Period size: 55 Copynumber: 5.6 Consensus size: 55
244250 TTGTTGAAGT
* * *
244260 TTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTGTT--GAAGA
1 TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT-TTCAAAAGA
* * *
244315 TTATTCGAGTCTCATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTT--AAAGA
1 TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT-TTCAAAAGA
244370 TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAAAAGA
1 TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAAAAGA
* * * * * *
244425 TT-TTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGCAGAAGA
1 TTGTTCGAGTCTC-ATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTTCAAAAGA
* * * * * ***
244479 TT-TTCAAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAACCCGTAGGCAAAAGA
1 TTGTTCGAGTCTC-ATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTTCAAAAGA
* *
244533 TTGTACGAGTTTC-TACTC-CTGAAGGAATAGGGA
1 TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGA
244566 TGAACATGTT
Statistics
Matches: 224, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
53 18 0.08
54 100 0.45
55 104 0.46
56 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (55 bp):
TTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTCAAAAGA
Found at i:244425 original size:110 final size:109
Alignment explanation
Indices: 244247--244448 Score: 293
Period size: 110 Copynumber: 1.8 Consensus size: 109
244237 GGAACGAACC
* * * *
244247 CGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGATTGTTGA
1 CGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGTTAA
*
244312 AGATTATTCGAG-TCTCATACTCTCTGAAAGAATAGGGAGTAGACA
66 AGATT-TTCGAGTTCT-ATACTCCCTGAAAGAATAGGGAGTAGACA
*
244357 CGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCAGACACG-TT-TTCA
1 CGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGTT--
244420 AAAGATTTTCGAGTTCTATACTCCCTGAA
64 AAAGATTTTCGAGTTCTATACTCCCTGAA
244449 GAAAGAGGGA
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
108 2 0.02
109 19 0.23
110 62 0.75
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (109 bp):
CGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGTTAA
AGATTTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGTAGACA
Found at i:244550 original size:54 final size:54
Alignment explanation
Indices: 243996--244565 Score: 372
Period size: 54 Copynumber: 10.6 Consensus size: 54
243986 GAGAGATGTC
* *
243996 CGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG-AAGAAGA-TGT
1 CGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAA-AAGATTTT
* * * *
244049 CTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTG-AAGAAAATATC
1 C-GAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAA-AAGATTTT
*
244104 CGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCG-TT-CGAAA-ATTGTT
1 CGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAAAAGATT-TT
* * ** * *
244156 CGAGTTTTATACTCCCT-AGAGAAAGAGAGAGCGAACTTGTTTGCAGAAGATATT
1 CGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAAAAGATTTT
* * * * *** *
244210 CGAGTTCCATAATCCCT-AGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTT
1 CGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCAAAAGATT-TT
* * * * ***
244265 CGAG-TCTTATACTCTCTGAA-AGAATAGGGAGC-AGACACGATTGTTGAAGATTATT
1 CGAGTTC-TATACTCCCTGAAGA-AAGAGGGAGCGA-ACCCGTTTGCAAAAGATT-TT
* * * * * **
244320 CGAG-TCTCATACTCTCTGAA-AGAATAGGGAG-TAGACACGATTGTTAAAGATTGTT
1 CGAGTTCT-ATACTCCCTGAAGA-AAGAGGGAGCGA-ACCCGTTTGCAAAAGATT-TT
* * * * *
244375 CGAG-TCTCATACTCTCTGAAGGAATAGGGAGC-AGACACGTTTTCAAAAGATTTT
1 CGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGCAAAAGATTTT
*
244429 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTTT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAAAAGATTTT
* ** *
244483 CAAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTAGGCAAAAGATTGTA
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAAAAGATT-TT
* * *
244538 CGAGTT-TCTACT-CCTGAAGGAATAGGGA
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGA
244566 TGAACATGTT
Statistics
Matches: 441, Mismatches: 57, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
51 2 0.00
52 38 0.09
53 20 0.05
54 232 0.53
55 148 0.34
56 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (54 bp):
CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAAAAGATTTT
Found at i:248216 original size:197 final size:199
Alignment explanation
Indices: 247881--248255 Score: 736
Period size: 197 Copynumber: 1.9 Consensus size: 199
247871 TGGGTGCCCA
247881 ATCACACCCTAATCAAAGATTGGTGGCGACTCCTCGAACCTTATATTTTTATCATAAAGGAATTT
1 ATCACACCCTAATCAAAGATTGGTGGCGACTCCTCGAACCTTATATTTTTATCATAAAGGAATTT
247946 CCAATTTTTCGAAACGAGAGATTTTCTAAAATCGCACTGTTTTTAATTAAAAATTCAATTGAAAA
66 CCAATTTTTCGAAACGAGAGATTTTCTAAAATCGCACTGTTTTTAATTAAAAATTCAATTGAAAA
248011 GAGAATAA-TAAAAATGACGCGGTTTTCCAAAATCTCGCTC-CCCAGTTTAAAAACGTAGGTGTG
131 GAGAATAATTAAAAATGACGCGGTTTTCCAAAATCTCGCTCGCCCAGTTTAAAAACGTAGGTGTG
248074 AGAG
196 AGAG
248078 ATCACACCCTAATCAAAGATTGGTGGCGACTCCTCGAACCTTATATTTTTATCATAAAGGAATTT
1 ATCACACCCTAATCAAAGATTGGTGGCGACTCCTCGAACCTTATATTTTTATCATAAAGGAATTT
248143 CCAATTTTTCGAAACGAGAGATTTTCTAAAATCGCACTGTTTTTAATTAAAAATTCAATTGAAAA
66 CCAATTTTTCGAAACGAGAGATTTTCTAAAATCGCACTGTTTTTAATTAAAAATTCAATTGAAAA
248208 GAGAATAATTAAAAATGACGCGGTTTTCCAAAATCTCGCTCGCCCAGT
131 GAGAATAATTAAAAATGACGCGGTTTTCCAAAATCTCGCTCGCCCAGT
248256 GAGTTAAAAA
Statistics
Matches: 176, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
197 138 0.78
198 32 0.18
199 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (199 bp):
ATCACACCCTAATCAAAGATTGGTGGCGACTCCTCGAACCTTATATTTTTATCATAAAGGAATTT
CCAATTTTTCGAAACGAGAGATTTTCTAAAATCGCACTGTTTTTAATTAAAAATTCAATTGAAAA
GAGAATAATTAAAAATGACGCGGTTTTCCAAAATCTCGCTCGCCCAGTTTAAAAACGTAGGTGTG
AGAG
Found at i:251491 original size:21 final size:21
Alignment explanation
Indices: 251465--251509 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
251455 GATTTCTGGG
* *
251465 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
251486 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
251507 CAA
1 CAA
251510 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:252449 original size:31 final size:31
Alignment explanation
Indices: 252394--252548 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
252384 AGGGTCGAGG
252394 GTTTACCTATGTTCTTC-GGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
252424 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
252455 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
252486 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
252517 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
252548 G
1 G
252549 GTCCTTCGGG
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
30 17 0.15
31 96 0.84
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:254290 original size:2 final size:2
Alignment explanation
Indices: 254283--254312 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
254273 GCTATCTAAA
254283 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
254313 ATTTTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:267555 original size:18 final size:18
Alignment explanation
Indices: 267532--267566 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
267522 ATACAAGCGA
*
267532 TATATTAAAACTTTAAAT
1 TATATTAAAACGTTAAAT
267550 TATATTAAAACGTTAAA
1 TATATTAAAACGTTAAA
267567 ATGTTACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
TATATTAAAACGTTAAAT
Found at i:267696 original size:17 final size:16
Alignment explanation
Indices: 267646--267697 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
267636 TATATATACA
* * *
267646 AAATTTTAATTAAATA
1 AAATATTAAATAAATT
267662 AAATATTAAA-AAATTT
1 AAATATTAAATAAA-TT
267678 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
267695 AAA
1 AAA
267698 AACAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 10 0.33
18 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATTAAATAAATT
Found at i:268437 original size:30 final size:30
Alignment explanation
Indices: 268402--268472 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
268392 CAAGATTTGA
268402 ATTGATTATCTATAAAACAAGTTAAACATG
1 ATTGATTATCTATAAAACAAGTTAAACATG
268432 ATTGATTATCTATAAAACAAGTTAAACATG
1 ATTGATTATCTATAAAACAAGTTAAACATG
*
268462 ATT-AATATCTA
1 ATTGATTATCTA
268473 CGCTCTAACT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 7 0.17
30 33 0.82
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (30 bp):
ATTGATTATCTATAAAACAAGTTAAACATG
Found at i:273462 original size:73 final size:71
Alignment explanation
Indices: 273305--273479 Score: 197
Period size: 73 Copynumber: 2.4 Consensus size: 71
273295 TTTTTTATAC
* * *
273305 TTAATATTTGGTTCAGTCTTAAGATTTGACACTTTAATATTATGGTTTAATTATGGATTTATTAT
1 TTAATATTTGGTTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAATTATGGATTTATTAT
* *
273370 TTTAGA
66 TCTAAA
* * * * * **
273376 GTAACATTATGGTTTGAATCTTGAGATTTGACATTTTAATATTGTGATTTGCTTATGGATTTATT
1 TTAATATT-TGG-TTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAATTATGGATTTATT
*
273441 GTTCTAAA
64 ATTCTAAA
*
273449 TTAATATTGTGGTTGAGTCTTGATATTTGAC
1 TTAATATT-TGGTTGAGTCTTGAGATTTGAC
273480 TTTATTTATA
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
71 6 0.07
72 20 0.24
73 58 0.69
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.49
Consensus pattern (71 bp):
TTAATATTTGGTTGAGTCTTGAGATTTGACACTTTAATATTATGATTTAATTATGGATTTATTAT
TCTAAA
Found at i:273523 original size:18 final size:19
Alignment explanation
Indices: 273481--273524 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
273471 ATATTTGACT
* *
273481 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
273500 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
273519 TTATTT
1 TTATTT
273525 TATATGACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:273607 original size:6 final size:6
Alignment explanation
Indices: 273598--273628 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
273588 GTCCCCGTTC
*
273598 CCGTAT CCGTAT CCGTAT CCGTAT CTGTAT C
1 CCGTAT CCGTAT CCGTAT CCGTAT CCGTAT C
273629 AGTGCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
CCGTAT
Found at i:276917 original size:42 final size:42
Alignment explanation
Indices: 276853--276950 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
276843 CTTTATAAAT
* *
276853 AAAATA-AAA-TTAAAGACAACAAATTATTGATAATTACGTA
1 AAAATACAAATTTAATGATAACAAATTATTGATAATTACGTA
* *
276893 AATATACAATTTTAATGATAACAAATTATTGATAATTACGTA
1 AAAATACAAATTTAATGATAACAAATTATTGATAATTACGTA
276935 AAAATACAAATTTAAT
1 AAAATACAAATTTAAT
276951 AGTATTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 5 0.10
41 2 0.04
42 43 0.86
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (42 bp):
AAAATACAAATTTAATGATAACAAATTATTGATAATTACGTA
Found at i:277346 original size:28 final size:27
Alignment explanation
Indices: 277315--277367 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
277305 GTGGCATAAG
*
277315 ATAAATATAAAAAATTAGATCTATAATA
1 ATAAATATAAAAAAATAGATC-ATAATA
277343 ATAAATATAAAAAAATAGATCATAA
1 ATAAATATAAAAAAATAGATCATAA
277368 AAACAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (27 bp):
ATAAATATAAAAAAATAGATCATAATA
Found at i:283358 original size:20 final size:20
Alignment explanation
Indices: 283333--283374 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
283323 CACCCGCATC
283333 ATCCATCCACCCATTA-ATAT
1 ATCCATCCACCC-TTATATAT
*
283353 ATCCATCCATCCTTATATAT
1 ATCCATCCACCCTTATATAT
283373 AT
1 AT
283375 ATTATCCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCCATCCACCCTTATATAT
Found at i:283676 original size:6 final size:6
Alignment explanation
Indices: 283657--283714 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
283647 TGTAATGAAC
* *
283657 CCTAAC CCTAAAA CCTAAA CCATAAA TCTTAAA CCTAAA CACTAAA CCTAAA
1 CCTAAA CCT-AAA CCTAAA CC-TAAA -CCTAAA CCTAAA C-CTAAA CCTAAA
*
283709 CTTAAA
1 CCTAAA
283715 ACCATTAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 24 0.55
7 19 0.43
8 1 0.02
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (6 bp):
CCTAAA
Found at i:283717 original size:13 final size:12
Alignment explanation
Indices: 283667--283714 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
283657 CCTAACCCTA
*
283667 AAACCTAAACCAT
1 AAACTTAAACC-T
283680 AAATCTTAAACCT
1 AAA-CTTAAACCT
*
283693 AAACACTAAACCT
1 AAAC-TTAAACCT
283706 AAACTTAAA
1 AAACTTAAA
283715 ACCATTAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.17
13 18 0.60
14 7 0.23
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.21
Consensus pattern (12 bp):
AAACTTAAACCT
Found at i:285585 original size:21 final size:21
Alignment explanation
Indices: 285559--285603 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
285549 CGGTAAAAAA
*
285559 TTACCTAAAACATTAATTTTT
1 TTACCTAAAACATTAATGTTT
285580 TTACCTAAAACATTAATGTTT
1 TTACCTAAAACATTAATGTTT
285601 TTA
1 TTA
285604 ATATTTATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (21 bp):
TTACCTAAAACATTAATGTTT
Found at i:293479 original size:18 final size:19
Alignment explanation
Indices: 293428--293479 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
293418 GTTTCAGGGT
* *
293428 AAAGTTTTGAAACCCTTAC
1 AAAGTTTCGAAACTCTTAC
293447 AAAAGTTTCCG-AACTCTTAC
1 -AAAGTTT-CGAAACTCTTAC
293467 -AAGTTTCGAAACT
1 AAAGTTTCGAAACT
293480 ATGAACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
20 15 0.54
21 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (19 bp):
AAAGTTTCGAAACTCTTAC
Found at i:294495 original size:18 final size:18
Alignment explanation
Indices: 294468--294507 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
294458 TGAAAAGAAA
294468 AAATGACACATCATACAT
1 AAATGACACATCATACAT
* *
294486 AAATGCCACATCATGCAT
1 AAATGACACATCATACAT
294504 AAAT
1 AAAT
294508 ATTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATGACACATCATACAT
Found at i:295014 original size:21 final size:21
Alignment explanation
Indices: 294973--295014 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
294963 ATACTATAAA
*
294973 ATATTAAACAATTAATCTTAT
1 ATATTAAACAATGAATCTTAT
*
294994 ATATTATAA-AATGAATTTTAT
1 ATATTA-AACAATGAATCTTAT
295015 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATTAAACAATGAATCTTAT
Found at i:304117 original size:21 final size:21
Alignment explanation
Indices: 304091--304186 Score: 74
Period size: 21 Copynumber: 4.6 Consensus size: 21
304081 GAATATGTAA
*
304091 ATCGCAAAGCGATAACACTTG
1 ATCGCAAAGCGATAACACGTG
*
304112 ATCGCAACA-CGATAATACGTG
1 ATCGCAA-AGCGATAACACGTG
* *
304133 ATCGCAACGCGAT-TCTGAC-T-
1 ATCGCAAAGCGATAAC--ACGTG
* *
304153 ATCGCAACGCGATAATACGTG
1 ATCGCAAAGCGATAACACGTG
*
304174 ATCGCAACGCGAT
1 ATCGCAAAGCGAT
304187 TCTGACTAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.03
20 14 0.23
21 42 0.69
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAAAGCGATAACACGTG
Found at i:304157 original size:41 final size:41
Alignment explanation
Indices: 304112--304199 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
304102 ATAACACTTG
304112 ATCGCAACACGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACACGATAATACGTGATCGCAACGCGATTCTGACT
*
304153 ATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACACGATAATACGTGATCGCAACGCGATTCTGACT
*
304194 AACGCA
1 ATCGCA
304200 TCACTGAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACACGATAATACGTGATCGCAACGCGATTCTGACT
Found at i:304158 original size:20 final size:20
Alignment explanation
Indices: 304133--304199 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
304123 ATAATACGTG
304133 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
304153 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
304173 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
304194 AACGCA
1 ATCGCA
304200 TCACTGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.51
21 15 0.38
22 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:305052 original size:24 final size:24
Alignment explanation
Indices: 305020--305073 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
305010 GTATTCGAAT
305020 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
305044 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
305068 TTTGAT
1 TTTGAT
305074 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:307359 original size:18 final size:18
Alignment explanation
Indices: 307336--307370 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
307326 AGCAAAAGAC
*
307336 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
307354 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
307371 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:307573 original size:20 final size:20
Alignment explanation
Indices: 307548--307788 Score: 202
Period size: 20 Copynumber: 12.7 Consensus size: 20
307538 CACATTCATT
307548 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
307568 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
307588 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
307605 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
307622 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
307642 TAACTATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
307662 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
307682 TAACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
*
307702 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
307719 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
307735 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
307755 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
*
307775 TGATTATCGCAACG
1 TGACTATCGCAACG
307789 AGAAAATCGC
Statistics
Matches: 182, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
14 15 0.08
15 1 0.01
16 6 0.03
17 7 0.04
18 2 0.01
19 14 0.08
20 137 0.75
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:307600 original size:40 final size:39
Alignment explanation
Indices: 307545--307829 Score: 206
Period size: 40 Copynumber: 7.6 Consensus size: 39
307535 TTACACATTC
*
307545 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGAATAT-ACTATCGCAACGCGA
* * *
307585 ATTTGAATATCGCAACG-G--GATA--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATATACTATCGCAACGCGA
** * * *
307619 AAATAACTATCGCAACGCGAATTTAACTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATAT-ACTATCGCAACGCGA
** * *
307659 AAATGACTATCGCAACGCGAATTTAACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGAATAT-ACTATCGCAACGCGA
*
307699 ATTTGACTATCGCAA--CG-AGATA--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATATACTATCGCAACGCGA
* * * *
307733 A-ATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGAATAT-ACTATCGCAACGCGA
* * * * *
307772 ATTTGATTATCGCAACGAG-A-A-A--ATCGCAAAGTGT
1 ATTTGACTATCGCAACGCGAATATACTATCGCAACGCGA
*
307806 ATTAGACTATCGCAACGCGAATAT
1 ATTTGACTATCGCAACGCGAATAT
307830 GATGCAGATT
Statistics
Matches: 197, Mismatches: 32, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
33 12 0.06
34 60 0.30
35 4 0.02
36 6 0.03
37 6 0.03
38 3 0.02
39 14 0.07
40 92 0.47
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (39 bp):
ATTTGACTATCGCAACGCGAATATACTATCGCAACGCGA
Found at i:307767 original size:73 final size:73
Alignment explanation
Indices: 307647--307832 Score: 255
Period size: 73 Copynumber: 2.5 Consensus size: 73
307637 GAATTTAACT
* * * *
307647 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTAACTATCGCAACGTGAATTTGACTATCGC
1 ATCGCAAAGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGC
*
307712 AACGAGATA
65 AACGAGAAA
* *
307721 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGATTATCGCA
1 ATCGCAAAGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCA
307786 ACGAGAAA
66 ACGAGAAA
* * * *
307794 ATCGCAAAGTGTATTAGACTATCGCAACGCGAATATGAT
1 ATCGCAAAGCGAAAT-GACTATCGCAACGCGAATTTGAT
307833 GCAGATTGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 68 0.68
74 32 0.32
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (73 bp):
ATCGCAAAGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCA
ACGAGAAA
Found at i:307963 original size:36 final size:34
Alignment explanation
Indices: 307923--308002 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 34
307913 TCAACTTTTA
307923 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
307959 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
307989 ATCAATTAAACAAA
1 ATCAATTAAACAAA
308003 TCAACTCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
30 28 0.70
32 2 0.05
34 3 0.08
36 7 0.17
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:307972 original size:30 final size:30
Alignment explanation
Indices: 307938--308003 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
307928 TTAAACAAGC
307938 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
307968 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
307998 ACAAAT
1 ACAAAT
308004 CAACTCTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:309411 original size:21 final size:21
Alignment explanation
Indices: 309387--309494 Score: 87
Period size: 21 Copynumber: 5.1 Consensus size: 21
309377 GAATGTTAGG
*
309387 AGGGACCTCTTCAACGATGAC
1 AGGGACCTCTTGAACGATGAC
* * *
309408 AGGGGCCTCTTGAACGGTGAG
1 AGGGACCTCTTGAACGATGAC
** *
309429 AGGGGA-CTCTTGAGGGATGAT
1 A-GGGACCTCTTGAACGATGAC
*
309450 AGGGGCCTCTTGAACGATAGA-
1 AGGGACCTCTTGAACGAT-GAC
*
309471 AGAGG-TCTCTTGAACGATGAC
1 AG-GGACCTCTTGAACGATGAC
309492 AGG
1 AGG
309495 TGAGTCGAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
20 6 0.09
21 56 0.81
22 7 0.10
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Found at i:309481 original size:42 final size:42
Alignment explanation
Indices: 309402--309494 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
309392 CCTCTTCAAC
* *
309402 GATGACAGGGGCCTCTTGAACGGTGAGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGAGAGAGGACTCTTGAGG
* * **
309444 GATGATAGGGGCCTCTTGAACGAT-AGAAGAGGTCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGATGAG-AGAGGACTCTTGAGG
309486 GATGACAGG
1 GATGACAGG
309495 TGAGTCGAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 41 0.95
ACGTcount: A:0.26, C:0.16, G:0.38, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGAGAGAGGACTCTTGAGG
Found at i:310013 original size:20 final size:20
Alignment explanation
Indices: 309981--310075 Score: 95
Period size: 20 Copynumber: 4.8 Consensus size: 20
309971 GAAACTTAAA
* *
309981 ATCGCAACTCGAAAATGATT
1 ATCGCAACGCGAAAATGACT
* **
310001 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
310021 ATCGCAACGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
*
310041 ATCGCAACG-GGAAATGACT
1 ATCGCAACGCGAAAATGACT
*
310060 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
310076 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 16 0.26
20 46 0.74
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:310095 original size:19 final size:19
Alignment explanation
Indices: 310071--310107 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
310061 TCGCAACGAG
310071 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
310090 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
310108 TAAATTCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.30, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:310182 original size:20 final size:19
Alignment explanation
Indices: 310166--310218 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
310156 AATAGTCAAA
310166 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATAGTCAT
* *
310185 TTCCGCGTTGCGATAGTCGTT
1 TT-CGCATTGCGATAGTC-AT
310206 TTCGCATTGCGAT
1 TTCGCATTGCGAT
310219 TATCCCGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (19 bp):
TTCGCATTGCGATAGTCAT
Found at i:310237 original size:74 final size:74
Alignment explanation
Indices: 310116--310260 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
310106 ACTAAATTCA
*
310116 CGTTGCGATAGTCATTTTCGCATTGCAATTATCCCGTTACAATAGTCAAATTCGCATTGCGATAG
1 CGTTGCGATAGTCATTTTCGCATTGCAATTATCCCGTTACAATAGTCAAATTCGCATTGCGATAA
310181 TCATTTCCG
66 TCATTTCCG
* * * **
310190 CGTTGCGATAGTCGTTTTCGCATTGCGATTATCCCGTTACGATAGTCAAATTCGTGTTGCGATAA
1 CGTTGCGATAGTCATTTTCGCATTGCAATTATCCCGTTACAATAGTCAAATTCGCATTGCGATAA
310255 TCATTT
66 TCATTT
310261 TTGTATTGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (74 bp):
CGTTGCGATAGTCATTTTCGCATTGCAATTATCCCGTTACAATAGTCAAATTCGCATTGCGATAA
TCATTTCCG
Found at i:310250 original size:34 final size:34
Alignment explanation
Indices: 310116--310252 Score: 121
Period size: 34 Copynumber: 3.9 Consensus size: 34
310106 ACTAAATTCA
* ** *
310116 CGTTGCGATAGTCATTTTCGCATTGCAATTATCC
1 CGTTACGATAGTCAAATTCGCATTGCGATTATCC
*
310150 CGTTACAATAGTCAAATTCGCATTGCGATAGTCATTTCC
1 CGTTACGATAGTCAAATTCGCATTGCGAT--T-A--TCC
* ***
310189 GCGTTGCGATAGTCGTTTTCGCATTGCGATTATCC
1 -CGTTACGATAGTCAAATTCGCATTGCGATTATCC
**
310224 CGTTACGATAGTCAAATTCGTGTTGCGAT
1 CGTTACGATAGTCAAATTCGCATTGCGAT
310253 AATCATTTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 47 0.58
35 3 0.04
36 1 0.01
37 2 0.02
38 1 0.01
39 3 0.04
40 24 0.30
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (34 bp):
CGTTACGATAGTCAAATTCGCATTGCGATTATCC
Found at i:310449 original size:32 final size:31
Alignment explanation
Indices: 310390--310451 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
310380 CTACTACCGA
310390 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
310421 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
310452 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:312301 original size:20 final size:20
Alignment explanation
Indices: 312278--312333 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
312268 TCTGAAACTT
312278 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
312298 AAAACCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
312318 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
312334 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:312363 original size:19 final size:20
Alignment explanation
Indices: 312303--312368 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
312293 AAATGAAAAC
* * *
312303 CGCAACACGAAAATGATTAT
1 CGCAACGCGAATATGACTAT
*
312323 CGCAACGCGAATTTGACTAT
1 CGCAACGCGAATATGACTAT
*
312343 CGCAACGCGAA-ATGGCTAT
1 CGCAACGCGAATATGACTAT
312362 CGCAACG
1 CGCAACG
312369 AGATAATCGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
CGCAACGCGAATATGACTAT
Found at i:312753 original size:22 final size:22
Alignment explanation
Indices: 312726--312798 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
312716 GATGGAGATA
* *
312726 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
*
312748 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAGATGGG
*
312770 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
312792 GACGGAT
1 GACGGAT
312799 GTCGCCGTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:312992 original size:20 final size:20
Alignment explanation
Indices: 312967--313073 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
312957 ATTAACGCAA
*
312967 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCGCGT
312987 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
**
313007 TGCGATCACGT-ATTATCGCGT
1 TGCGAT-A-GTCAGAATCGCGT
*
313028 TGCGATAGTCCGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
313048 TGCGATAGTCAGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
313068 TGCGAT
1 TGCGAT
313074 TAAGTGTTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.75
21 15 0.20
22 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:313033 original size:61 final size:61
Alignment explanation
Indices: 312967--313094 Score: 202
Period size: 61 Copynumber: 2.1 Consensus size: 61
312957 ATTAACGCAA
* *
312967 TGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCAAGTATTATCGCGT
* * * *
313028 TGCGATAGTCCGAATCGCGTTGCGATAGTCAGAATCGTGTTGCGATTAAGTGTTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCAAGTATTATCGCGT
313089 TGCGAT
1 TGCGAT
313095 TTACATATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (61 bp):
TGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCAAGTATTATCGCGT
Found at i:313111 original size:20 final size:20
Alignment explanation
Indices: 313083--313135 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
313073 TTAAGTGTTA
*
313083 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
313103 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
313123 TCGAATTGCGATT
1 TCGCATTGCGATT
313136 ATCTAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:313782 original size:32 final size:32
Alignment explanation
Indices: 313736--313797 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
313726 ATATTTTTTT
313736 GACGTCTTGCTTGGGATCTCCCGGCATCTTTA
1 GACGTCTTGCTTGGGATCTCCCGGCATCTTTA
* * *
313768 GACGTCTTGTTTGGGATCTTCCGGCGTCTT
1 GACGTCTTGCTTGGGATCTCCCGGCATCTT
313798 GAGGGTGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.27, T:0.37
Consensus pattern (32 bp):
GACGTCTTGCTTGGGATCTCCCGGCATCTTTA
Found at i:327615 original size:17 final size:17
Alignment explanation
Indices: 327593--327626 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
327583 AAAACACAAA
327593 AAATTTCCAAAATTTTT
1 AAATTTCCAAAATTTTT
* *
327610 AAATTTTCGAAATTTTT
1 AAATTTCCAAAATTTTT
327627 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTTCCAAAATTTTT
Found at i:341000 original size:28 final size:30
Alignment explanation
Indices: 340961--341017 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
340951 ATCTCTAAAT
340961 ATATAGTAAATATAATATT-TTAAT-AATAA
1 ATATAGTAAATA-AATATTGTTAATGAATAA
*
340990 ATAT-GTAAATAATTATTGTTAATGAATA
1 ATATAGTAAATAAATATTGTTAATGAATA
341018 TTTAACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (30 bp):
ATATAGTAAATAAATATTGTTAATGAATAA
Found at i:355669 original size:44 final size:44
Alignment explanation
Indices: 355619--355709 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
355609 AGCCATTACA
*
355619 AATAAATTAAGCATACGTGCACTTCTGTGAATAATACCGAAATT
1 AATAAATTAAGAATACGTGCACTTCTGTGAATAATACCGAAATT
*
355663 AATAAATTAAGAATACGTGCACTTCTGTGAATAATACTGAAATT
1 AATAAATTAAGAATACGTGCACTTCTGTGAATAATACCGAAATT
355707 AAT
1 AAT
355710 CAAAGTTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (44 bp):
AATAAATTAAGAATACGTGCACTTCTGTGAATAATACCGAAATT
Found at i:361876 original size:21 final size:21
Alignment explanation
Indices: 361852--361924 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
361842 TTTGGAATTA
361852 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
361873 ATCGCAA--CGAACTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
361892 AAATTGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
361915 ATCGCAACGC
1 ATCGCAACGC
361925 TAATTTGGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 10 0.24
21 22 0.52
23 10 0.24
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:361889 original size:42 final size:42
Alignment explanation
Indices: 361827--361962 Score: 195
Period size: 42 Copynumber: 3.2 Consensus size: 42
361817 TGCGATTTTG
* *
361827 GACTATCGCAATGAATTTGGAATTAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
361869 GACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
361911 GACTATCGCAACGCTAATTTGGAATAAATCGCAA--CGAACTTG
1 GACTATCGCAACG--AATTTGGAATAAATCGCAACGCGAACTTC
361953 GACTATCGCA
1 GACTATCGCA
361963 TTGCGATAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 68 0.80
44 17 0.20
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:361987 original size:21 final size:21
Alignment explanation
Indices: 361958--362010 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
361948 ACTTGGACTA
*
361958 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
361979 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
362000 TCGCGTTGCGA
1 TCGCGTTGCGA
362011 ATTGGAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:362381 original size:22 final size:22
Alignment explanation
Indices: 362351--362404 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
362341 ACAATAGAGA
362351 ATGTCACGACGTTGCATTAAAT
1 ATGTCACGACGTTGCATTAAAT
* * **
362373 ATGTTACGACGTTGTATTAAGC
1 ATGTCACGACGTTGCATTAAAT
362395 ATGTCACGAC
1 ATGTCACGAC
362405 ATTAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGTCACGACGTTGCATTAAAT
Found at i:367005 original size:36 final size:37
Alignment explanation
Indices: 366943--367014 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
366933 TTTTATAAAA
* * *
366943 ATTAATTATAATATTTATTACGGTGCATGAATCTTTG
1 ATTAATTATAATATTTACTACAGTGCATGAACCTTTG
*
366980 ATTAATTAT-ATATTTCCTACAGTGCATGAACCTTT
1 ATTAATTATAATATTTACTACAGTGCATGAACCTTT
367015 TACATCAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 22 0.71
37 9 0.29
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (37 bp):
ATTAATTATAATATTTACTACAGTGCATGAACCTTTG
Found at i:367685 original size:21 final size:20
Alignment explanation
Indices: 367599--367756 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
367589 AAATGACCAA
**
367599 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
367618 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
367638 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
367658 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
367679 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
367700 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
367720 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
367741 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
367757 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:367766 original size:20 final size:19
Alignment explanation
Indices: 367723--367897 Score: 107
Period size: 20 Copynumber: 8.7 Consensus size: 19
367713 CGATTTTCCA
** *
367723 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAA-CCGT
*
367743 AAATCGCAACGCGAACACAT
1 AAATCGCAACGCGAAC-CGT
* *
367763 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCG-AACCGT
***
367783 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCG-AACCGT
* *
367803 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCG-AACCGT
* *
367823 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACCGT
** * *
367843 AAATCGCAACGATAATACAT
1 AAATCGCAACGCGAA-CCGT
*
367863 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCG-AACCGT
367884 AAATCGCAACGCGA
1 AAATCGCAACGCGA
367898 TATTTAAAGC
Statistics
Matches: 124, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
19 2 0.02
20 106 0.85
21 15 0.12
22 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGCGAACCGT
Found at i:367787 original size:40 final size:39
Alignment explanation
Indices: 367723--367896 Score: 143
Period size: 40 Copynumber: 4.3 Consensus size: 39
367713 CGATTTTCCA
* ** * *
367723 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CGT
* ***
367763 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCGT
* * *
367803 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCGT
* * * *
367843 AAATCGCAACG-ATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGT-ATCCGT-AAATCGCAACGCG-AACCGT
367884 AAATCGCAACGCG
1 AAATCGCAACGCG
367897 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 78 0.71
41 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCGT
Found at i:367807 original size:60 final size:60
Alignment explanation
Indices: 367723--367896 Score: 188
Period size: 60 Copynumber: 2.9 Consensus size: 60
367713 CGATTTTCCA
* *
367723 AAATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATAGGAAAATCGCAACGCGTAAC-CATAAATCGCAACGCGTATCCGT
* * * * * * *
367783 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATAGGAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGT
** ** * *
367843 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATA-GGAAAATCGCAACGCGTAACCATAAATCGCAACGCG
367897 ATATTTAAAG
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
60 61 0.65
61 33 0.35
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGAATAGGAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGT
Found at i:367878 original size:41 final size:38
Alignment explanation
Indices: 367743--367894 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
367733 GCGAATATGA
* * * *
367743 AAATCGCAACGCG-AACACATAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATC-CGTAAATCGCAAC--GTATACAT
** * *
367783 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAA--CGTATACAT
*
367823 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-T-ATACAT
367863 AAAATCGCAACGCGTATCCGTAAATCGCAACG
1 -AAATCGCAACGCGTATCCGTAAATCGCAACG
367895 CGATATTTAA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 61 0.64
41 31 0.32
42 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (38 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGTATACAT
Found at i:368317 original size:33 final size:33
Alignment explanation
Indices: 368278--368348 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
368268 TTCACTTAGA
* *
368278 TTTCATTTCGCGTTACGATTCTGTCGTTGCAAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCAAT
* * *
368311 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCAAT
368344 TTTCA
1 TTTCA
368349 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCAAT
Found at i:368454 original size:21 final size:20
Alignment explanation
Indices: 368428--368533 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
368418 TGCAGAAGAG
368428 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
368449 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
368469 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
368490 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
368504 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
368523 TCGCAACGAGA
1 TCGCAACGAGA
368534 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:368472 original size:20 final size:21
Alignment explanation
Indices: 368426--368504 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
368416 TTTGCAGAAG
*
368426 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
368448 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
368467 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
368489 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
368505 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:368485 original size:41 final size:38
Alignment explanation
Indices: 368421--368537 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
368411 TTCAATTTGC
* *
368421 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
368459 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
368500 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
368533 AGAAT
1 AGAAT
368538 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:368510 original size:14 final size:14
Alignment explanation
Indices: 368491--368544 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
368481 AAATGAAAAG
368491 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
368505 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
368524 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
368538 CGCAACG
1 CGCAACG
368545 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:368520 original size:33 final size:33
Alignment explanation
Indices: 368480--368549 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
368470 CGCAACGAGA
368480 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
368513 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
368546 GAAA
1 GAAA
368550 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:368556 original size:33 final size:33
Alignment explanation
Indices: 368486--368560 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
368476 GAGAGAAATG
* **
368486 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
368519 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
368552 AAAATCGCA
1 AAAATCGCA
368561 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:368578 original size:19 final size:19
Alignment explanation
Indices: 368556--368653 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
368546 GAAACCAAAA
*
368556 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
368575 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
368589 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
368608 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
368622 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
368641 TCGCGTTGCGATT
1 TCGCGTTGCGATT
368654 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:368597 original size:14 final size:14
Alignment explanation
Indices: 368578--368667 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
368568 TTTCATTTCG
368578 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
368592 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
368611 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
368625 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
368642 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
368658 CGTTGCGATT
1 CGTTGCGATT
368668 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:368603 original size:33 final size:33
Alignment explanation
Indices: 368561--368675 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
368551 CAAAATCGCA
368561 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
368594 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
368627 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
368660 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
368676 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:370678 original size:93 final size:93
Alignment explanation
Indices: 370373--370751 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
370363 TAGATTGCTT
*
370373 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
370438 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
370466 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAC--TGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
370529 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
370557 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
370622 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
370650 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
370715 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
370743 AGTAAATTT
1 AGTAAATTT
370752 ATCCATTCAA
Statistics
Matches: 281, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 90 0.32
93 191 0.68
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:370682 original size:184 final size:185
Alignment explanation
Indices: 370373--370753 Score: 728
Period size: 184 Copynumber: 2.1 Consensus size: 185
370363 TAGATTGCTT
*
370373 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
370438 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
370503 GTGTATTCTTTAACAC-TGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
370557 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
370622 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
370687 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACAC-GTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
370743 AGTAAATTTAT
1 AGTAAATTTAT
370754 CCATTCAAGT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 144 0.75
186 48 0.25
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:370835 original size:19 final size:19
Alignment explanation
Indices: 370795--370922 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
370785 TAGTTTACTT
* *
370795 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
370815 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
370834 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
370852 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
370866 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
370885 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
370899 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
370918 TCGCA
1 TCGCA
370923 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
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:370891 original size:33 final size:32
Alignment explanation
Indices: 370831--370922 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
370821 CGCGAAACCA
**
370831 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
370862 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
370895 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
370923 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:370940 original size:19 final size:19
Alignment explanation
Indices: 370918--371052 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
370908 GAAACCAAAA
*
370918 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
370937 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
370953 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
370970 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
370986 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
371003 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
371022 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
371042 TCGTGTTGCGA
1 TCGCGTTGCGA
371053 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:370959 original size:14 final size:14
Alignment explanation
Indices: 370940--370996 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
370930 TTTCATTTCG
370940 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
370954 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
370971 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
370987 CGTTGCGATT
1 CGTTGCGATT
370997 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:370965 original size:33 final size:33
Alignment explanation
Indices: 370923--371015 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
370913 CAAAATCGCA
*
370923 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
370956 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
370989 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
371016 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Done.