Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019426.1 Corchorus olitorius cultivar O-4 contig19459, 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: 52551
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1316 original size:332 final size:332
Alignment explanation
Indices: 206--1621 Score: 1535
Period size: 333 Copynumber: 4.3 Consensus size: 332
196 ATGGGCGTGG
* * * * *
206 AACGCGTTTTTAGCCAAAAATCGTTATGATTATTACACGATTTTGGCTAAAATTTTGTAAAAATT
1 AACGCGTTTTTAGCCAAAAACCGTGATG-TTAGTACACGATTTTGGCTAAAATTTTGCAAAAAAT
* * ** * * *
271 GACCCGAAAGATATTTCTTCAATTTTTAGCCATAATACTCATAAATAATATATAATTGAACGCCA
65 GACCCGAAAGATATTTCCTCAATTTTTGGATAAAATACTCATAAAAAATATATAATTCAACGCCA
* * * * *
336 AAAAGATTAAAGGGTTTTTTACGCTTTTAATATCGTTTTTCATATTTTTTTGAATTAATTTCTAA
130 AAAAGATTGAAGGGCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAATTCTAA
* * * *
401 TTAAATCGAAACATGATTCAGATGCTCGTAAAAAAGAAAAATCTTAAATGCAATGTGGTTAAAAT
195 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAGCAAAATCTTAAATGCAATGTGGCTAAGAT
* * * * * *
466 TTTATTAGATGAATATACATATCTCAAGGATTGTCGGCACCAAAAATCTTGCAAAACTGAGCTGG
260 TTTATTAAATGAATATAGATATCTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGCTGG
531 TACCCCGA
325 TACCCCGA
* * *
539 AACGCGTATTTAGCCAAAAACCATGATGGT-GTACACGATTTTGGCTAAAATTTTGCAAAAAATG
1 AACGCGTTTTTAGCCAAAAACCGTGATGTTAGTACACGATTTTGGCTAAAATTTTGCAAAAAATG
* *
603 ACCCAGAAA-ATTTTTCCTCAATTTTTGGATAAAATACTCATAAAATATATATATAATTCAACGG
66 ACCC-GAAAGATATTTCCTCAATTTTTGGATAAAATACTCATAAAA-A-ATATATAATTCAACGC
* *
667 TAAAAAGATTGGAGGAG-TTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAATTC
128 CAAAAAGATTGAAGG-GCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAATTC
* * * * **
731 TAATTAAATCTAAACATGATTCGGATTCTCGTAAAAAATTAAAATCTTAAATGCAATGTGGCTAA
192 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAGCAAAATCTTAAATGCAATGTGGCTAA
* * * * *
796 GATTTTATTAGATGAATATAGATATTTAAAGGA-TTTTCGGCACCAAAAATCATACAAAACTGAG
257 GATTTTATTAAATGAATATAGATATCTCAAGGAGTCTT-GGCACCAAAAATCATGCAAAACTGAG
860 CTGGTACCCCGA
321 CTGGTACCCCGA
* *
872 AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTTGGCTAAAATTCTGCAAAAAAT
1 AACGCGTTTTTAGCCAAAAACCGTGAT-GTTAGTACACGATTTTGGCTAAAATTTTGCAAAAAAT
* * **
937 GACCCGAAAAAT-TTTCCTCAATTTTTGGATAAAATACTCATAAAATATATATAATTCAACGGTA
65 GACCCGAAAGATATTTCCTCAATTTTTGGATAAAATACTCATAAAAAATATATAATTCAACGCCA
* *
1001 AAAAGATTGGAGGAG-TTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAAATCTA
130 AAAAGATTGAAGG-GCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAATTCTA
* * * * * * *
1065 ATTAATTCGAAACAAGATTTAGATGCT-TTTAAAAA-CAAAATTTTAAATCCAATGTGGCTGAGA
194 ATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAGCAAAATCTTAAATGCAATGTGGCTAAGA
* * * *
1128 TTTGT-TTAAATGAATATAGAAATCTTAAGGAGTCTTGGCGCCAAGAATCATGCAAAACTGAG-T
259 TTT-TATTAAATGAATATAGATATCTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGCT
**
1191 CGG-GGCCCGAA
323 -GGTACCCCG-A
* * * * * * ** * * ** *
1202 AACGCTTTTTTA-TCGAAAACTGTGATGCTTATTACACAATTTCAGTTAAACTTTTGTTAAAATT
1 AACGCGTTTTTAGCCAAAAACCGTGATG-TTAGTACACGATTTTGGCTAAAATTTTGCAAAAAAT
* * *
1266 GACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAACTCATCGCCA
65 GACCCGAAAGATATTTCCTCAATTTTTGGATAAAATACTCATAAAAAATATATAATTCAACGCCA
* * * * *
1331 AAAAGATTGAAGGGCTTTTGAC-ATTTCTAATATCGTTTTTCCTATTTTT-TACAAATTAATTTC
130 AAAAGATTGAAGGGCTTTTCACGCTTT-TAATATCGTTTTTCATATTTTTCT--GAATTAAATTC
* * *
1394 TAATTAAATCGAAATAAGATTCCGATGCTCGT-AAAAA-C-AAATCCTTAAATGCAATGTGGCTG
192 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAGCAAAAT-CTTAAATGCAATGTGGCTA
* * * * * *
1456 AGATTTGATTAAATGAATTTGGATATCTCAAGTAGTCTTAGCGCCAAAAATCATGCAAAACTGAC
256 AGATTTTATTAAATGAATATAGATATCTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGA-
* * * *
1521 CCAGG--CCCTGG
320 GCTGGTACCCCGA
* * * * * * *
1532 AACTCATTTTTAGCCAAAAACCGTGATGATTATTATAAGA-TTCGGCTAAAATTTTGC--AAATT
1 AACGCGTTTTTAGCCAAAAACCGTGATG-TTAGTACACGATTTTGGCTAAAATTTTGCAAAAAAT
*
1594 GACCAGAAAGATATTTCCTCAAATTTTT
65 GACCCGAAAGATATTTCCTC-AATTTTT
1622 ACTAAATTAT
Statistics
Matches: 929, Mismatches: 129, Indels: 54
0.84 0.12 0.05
Matches are distributed among these distances:
328 25 0.03
329 64 0.07
330 198 0.21
331 208 0.22
332 113 0.12
333 243 0.26
334 40 0.04
335 38 0.04
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (332 bp):
AACGCGTTTTTAGCCAAAAACCGTGATGTTAGTACACGATTTTGGCTAAAATTTTGCAAAAAATG
ACCCGAAAGATATTTCCTCAATTTTTGGATAAAATACTCATAAAAAATATATAATTCAACGCCAA
AAAGATTGAAGGGCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAAATTCTAAT
TAAATCGAAACAAGATTCAGATGCTCGTAAAAAAGCAAAATCTTAAATGCAATGTGGCTAAGATT
TTATTAAATGAATATAGATATCTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGCTGGT
ACCCCGA
Found at i:2641 original size:333 final size:333
Alignment explanation
Indices: 1872--3259 Score: 1341
Period size: 333 Copynumber: 4.2 Consensus size: 333
1862 TTGACTGGGG
* * * * * *
1872 TTTGGTTAGATGAATATAAATAT-TTCAAGGATTGTCGGCACCAAAAATCATGCAAAACTGAG-C
1 TTTGATTAGATGAATATAGATATCTT-AAGGAATCTTGGCGCCAAAAATCATGCAAAACTGAGTC
* ** * * * *
1935 TAGTACCCCGAAACG-CGTTTTTAGCCAAAAACTGTGATGGTTTGTACACGATTTTGGCTAAAAT
65 -GGGGCCCCG-AACGTCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAT
* * * * *
1999 TTTGCAAAAAATGACCCGAAAATTTTTTTCCTAAATTTTTGGATAAAATACTTATAAAATATATA
128 TTTGCAAAAATTGACCCGAAAA-ATATTTCCTCAATTTTTGGATAAAATACTCATAAAATATATA
* * * *
2064 TAATTCAA-CGGTAAAAAGATTGGAGGTG-TATTCATGCTTT-TAATATCGTTTTTCATATTTTT
192 TAATTCAATC-GCAAAAAGATTGAAGG-GCTTTTCACGCTTTCTAATATCGTTTTTCATATTTTT
* * * *
2126 CTGAATTAATTTCTAATTAAAT-TAAACATGATTCAGATGCTCGTAAAAAAGAAAAAT-CTTAAA
255 CTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTAGT-AAAAA-CAAAATCCTTAAA
* * *
2189 TGCAATGTGGCTAAAA
318 TCCAATGTGGCTGAGA
* * *
2205 TTTTATTAGATGAATATAGATAT-TTAAAGGATTTTTGGCGCCAAAAATCATGCAAAACTGAG-C
1 TTTGATTAGATGAATATAGATATCTT-AAGGAATCTTGGCGCCAAAAATCATGCAAAACTGAGTC
** * *
2268 TGGTACCCCGAAACG-CGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTGGCTAAAAT
65 -GGGGCCCCG-AACGTCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAT
* *
2332 TTTGCAAAAACTGACCCGAAAAATTTTTCCTCAATTTTTGGATAAAATACTCATAAAATATATAT
128 TTTGCAAAAATTGACCCGAAAAATATTTCCTCAATTTTTGGATAAAATACTCATAAAATATATAT
* * *
2397 AATTCAATTGTAAAAAGATTATTGGAGGAG-TTTTCACGCTTT-TAATATCGTTTTTCATATTTT
193 AATTCAATCGCAAAAAG---ATTGAAGG-GCTTTTCACGCTTTCTAATATCGTTTTTCATATTTT
** * * ** *
2460 TCTGAATTAAAATCTAATTAATTCGAAACAAGATTTAGATGCTTTTAAAAACAAAAT-TTTAAAT
254 TCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTAGTAAAAACAAAATCCTTAAAT
2524 CCAATGTGGCTGAGA
319 CCAATGTGGCTGAGA
* * * * * *
2539 TTTGTTTAAATGAATATAGAAATCTTAAGGAGTCTTGGCGCCAAGAATCTTGCAAAACTGAGTCG
1 TTTGATTAGATGAATATAGATATCTTAAGGAATCTTGGCGCCAAAAATCATGCAAAACTGAGTCG
* ** * * *
2604 GGGCCCCAGAACGTC-TTTTTA-TCAAAAAATGTGATGGTTATTACACGGTTTCGGCTAAACTTT
66 GGGCCCC-GAACGTCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
* * * *
2667 TGTAAAAATTGACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAAATATATA
130 TGCAAAAATTGACCCGAAAAATATTTCCTCAATTTTTGGATAAAATACTCAT-AAAATATATATA
* * * * *
2732 ACTC-ATCGCCAAAAAGATTGAAGGGCTTTTGAC-ATTTCTAATATCGTTTTTCCT-TTTTTTTA
194 ATTCAATCG-CAAAAAGATTGAAGGGCTTTTCACGCTTTCTAATATCGTTTTTCATATTTTTCT-
* * * * *
2794 CAAAATAATTTCTAATTAAATCGAAATAAGATTCAGATGCTCGTAAAAAC-AAATCCTTAAATGC
257 -GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTAGTAAAAACAAAATCCTTAAATCC
2858 AATGTGGCTGAGA
321 AATGTGGCTGAGA
* * * * *
2871 TTTGATTAGATGAATATGGATATCTCAAGTAATCTTAGCGCCAAAAATCATGCAAAACTGACTCG
1 TTTGATTAGATGAATATAGATATCTTAAGGAATCTTGGCGCCAAAAATCATGCAAAACTGAGTCG
* * * * * *
2936 GGGCCCTGGAAC-TCATTTTTAGCCAAAAACCGTGATGATTATTACACCA-TTCAGCTAAATTTT
66 GGGCCC-CGAACGTCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTT
* * * *
2999 TGCAAAAATTGACCAGAAAGATATTTCCTCAAATTTTT--ACTAAATTA-TCATTAAAA-A-AAA
130 TGCAAAAATTGACCCGAAAAATATTTCCTC-AATTTTTGGA-TAAAATACTCA-TAAAATATATA
* * * *
3059 TAATTCAA-CACCAAAAATATTGAAGGGCTTTTTACG-TTTCTAATATCGTTTTTTCGA-CTTTT
192 TAATTCAATC-GCAAAAAGATTGAAGGGCTTTTCACGCTTTCTAATATCG-TTTTTC-ATATTTT
* * * * *
3121 TC-GAATTAATTTCTAATTAAATCGAAAAAATATTTAGATGCTAGTAAAAA-TAAATCGTTAAAT
254 TCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTAGTAAAAACAAAATCCTTAAAT
*
3184 CCAATTTGGCTGAGA
319 CCAATGTGGCTGAGA
* ** * *
3199 TTTGATTAGATGAATATAGATAGT-TCAAGGAGA-CTTGATGTCAAAAATCATGCAATACTGA
1 TTTGATTAGATGAATATAGATA-TCTTAAGGA-ATCTTGGCGCCAAAAATCATGCAAAACTGA
3260 CCCGAGGTCC
Statistics
Matches: 904, Mismatches: 120, Indels: 67
0.83 0.11 0.06
Matches are distributed among these distances:
328 116 0.13
329 44 0.05
330 18 0.02
331 46 0.05
332 232 0.26
333 251 0.28
334 110 0.12
335 70 0.08
336 17 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (333 bp):
TTTGATTAGATGAATATAGATATCTTAAGGAATCTTGGCGCCAAAAATCATGCAAAACTGAGTCG
GGGCCCCGAACGTCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTT
GCAAAAATTGACCCGAAAAATATTTCCTCAATTTTTGGATAAAATACTCATAAAATATATATAAT
TCAATCGCAAAAAGATTGAAGGGCTTTTCACGCTTTCTAATATCGTTTTTCATATTTTTCTGAAT
TAATTTCTAATTAAATCGAAACAAGATTCAGATGCTAGTAAAAACAAAATCCTTAAATCCAATGT
GGCTGAGA
Found at i:4850 original size:2 final size:2
Alignment explanation
Indices: 4843--4870 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4833 GAATTAAAGG
4843 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
4871 CAATAGCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6385 original size:49 final size:49
Alignment explanation
Indices: 6331--6427 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
6321 CCCTCCATCC
*
6331 CCATGTTTCCTAAATTTGCCCCGGACTTCATATTTGCAAGAACTCCAAA
1 CCATGTTTCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAAA
* * *
6380 CCATGTTTCCTAAATTTTCCCCTGCCTCCATATTTGCAAGAACTCCAA
1 CCATGTTTCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAA
6428 CATCTTGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (49 bp):
CCATGTTTCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAAA
Found at i:6456 original size:69 final size:69
Alignment explanation
Indices: 6380--6533 Score: 281
Period size: 69 Copynumber: 2.2 Consensus size: 69
6370 GAACTCCAAA
*
6380 CCATGTTTCCTAAATTTTCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCC
1 CCATGTTTCCTAAATTTGCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCC
6445 ATCT
66 ATCT
6449 CCATGTTTCCTAAATTTGCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCC
1 CCATGTTTCCTAAATTTGCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCC
6514 ATCT
66 ATCT
* *
6518 CTATATTTCCTAAATT
1 CCATGTTTCCTAAATT
6534 CAAGAATTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 82 1.00
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.37
Consensus pattern (69 bp):
CCATGTTTCCTAAATTTGCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCC
ATCT
Found at i:6481 original size:118 final size:118
Alignment explanation
Indices: 6273--6496 Score: 385
Period size: 118 Copynumber: 1.9 Consensus size: 118
6263 ACCTTGTCCA
6273 AAATTTGCCCCAGCCTCCATATTTGCAAGAAATCCAACATCTTGTTGTCCCTCCATCCCCATGTT
1 AAATTTGCCCCAGCCTCCATATTTGCAAGAAATCCAACATCTTGTTGTCCCTCCATCCCCATGTT
*
6338 TCCTAAATTTGCCCCGGACTTCATATTTGCAAGAACTCCAAACCATGTTTCCT
66 TCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAAACCATGTTTCCT
* * * *
6391 AAATTTTCCCCTGCCTCCATATTTGCAAGAACTCCAACATCTTGTTGTCCCTCCATCTCCATGTT
1 AAATTTGCCCCAGCCTCCATATTTGCAAGAAATCCAACATCTTGTTGTCCCTCCATCCCCATGTT
* *
6456 TCCTAAATTTGCCCCTGCCTCCATATTTGCAAGAACTCCAA
66 TCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAA
6497 CATCTTGTTG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 99 1.00
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.32
Consensus pattern (118 bp):
AAATTTGCCCCAGCCTCCATATTTGCAAGAAATCCAACATCTTGTTGTCCCTCCATCCCCATGTT
TCCTAAATTTGCCCCGGACTCCATATTTGCAAGAACTCCAAACCATGTTTCCT
Found at i:7158 original size:59 final size:56
Alignment explanation
Indices: 7095--7218 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 56
7085 GAGGAGAGAG
* * *
7095 TTGCAGAGAAAAAATATGAAAGAAAAAAAGTTTCAAGTTAAAGAGAGAAAC-GTTGAAAA
1 TTGCAGAGAAAAAAGATGAAAG----AAAGTTTCAAGTTAAAGAAAGAAACTATTGAAAA
* * **
7154 TTGCAGAGAAAAAAGGTGAAAGATAGTTTCAAGTTGCAGAAAGAAACTATTGAAAA
1 TTGCAGAGAAAAAAGATGAAAGAAAGTTTCAAGTTAAAGAAAGAAACTATTGAAAA
7210 TTGCAGAGA
1 TTGCAGAGA
7219 GAAGCTGTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
55 21 0.37
56 16 0.28
59 20 0.35
ACGTcount: A:0.51, C:0.06, G:0.23, T:0.20
Consensus pattern (56 bp):
TTGCAGAGAAAAAAGATGAAAGAAAGTTTCAAGTTAAAGAAAGAAACTATTGAAAA
Found at i:7215 original size:23 final size:23
Alignment explanation
Indices: 7187--7232 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7177 TAGTTTCAAG
7187 TTGCAGAAAGAAACTATTGAAAA
1 TTGCAGAAAGAAACTATTGAAAA
* * *
7210 TTGCAGAGAGAAGCTGTTGAAAA
1 TTGCAGAAAGAAACTATTGAAAA
7233 GACCGGTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.22
Consensus pattern (23 bp):
TTGCAGAAAGAAACTATTGAAAA
Found at i:8120 original size:287 final size:285
Alignment explanation
Indices: 7598--8216 Score: 1071
Period size: 287 Copynumber: 2.2 Consensus size: 285
7588 AACTTATGGA
7598 AATAACTATATACTATATAGCATGATTTTGAAAATTGCCCATTTTATAAGAATGCCCAATTCAAC
1 AATAACTATATACTATATAGCATGATTTTGAAAATTGCCCATTTTATAAGAATGCCCAATTCAAC
7663 AGAGTAAATGGCATGTCTACATGTATGACTTAGGAGATTAAAGAAAATCAATAAATGCCATCAGG
66 AGAGTAAATGGCATGTCTACATGTATGACTTAGGAGATTAAAGAAAATCAATAAATGCCATCAGG
* *
7728 CATTTGGCCTAATGGTAGAGTACTGAACTCTTAGTTCTAGCCTACTCAGACCAGGTCTTGGGTTC
131 CATTTGGCCTAATAGTAGAGTACTGAACTCTTAGTTCTAGCCTACCCAGACCAGGTCTTGGGTTC
* * * * * *
7793 AACTCTCACGGAATGTGAGTTTGTTTGTAATTGAGTTATTTATTTGGTAGGTAGATAGTTTATTT
196 AACTCTCACGGAATGTAAATTTATTTGTAATTGAGTTATTTATTTGATAAGTAGATAGATTATTT
7858 ATGGTATAGTTTCTAGTTTGGGTTG
261 ATGGTATAGTTTCTAGTTTGGGTTG
*
7883 AATAACTATATATACTATATAGCATGATTTTGAAAATTGCCCATTTTATAAGAATTCCCAATTCA
1 AATAAC--TATATACTATATAGCATGATTTTGAAAATTGCCCATTTTATAAGAATGCCCAATTCA
*
7948 ACAGAGTAAATGGCATGTCTACATGTATGACTTAGGAGATTAAAGAAAATCAATAAATGTCATCA
64 ACAGAGTAAATGGCATGTCTACATGTATGACTTAGGAGATTAAAGAAAATCAATAAATGCCATCA
*
8013 GGTATTTGGCCTAATAGTAGAGTACTGAACTCTTAGTTAC-AGCCTACCCAGACCAGGTCTTGGG
129 GGCATTTGGCCTAATAGTAGAGTACTGAACTCTTAGTT-CTAGCCTACCCAGACCAGGTCTTGGG
* *
8077 TTCAACTCTCACAGG-ATGTAAATTTATTTGTAATTGGGTTATTTATTTGATAAGTAGGTAGATT
193 TTCAACTCTCAC-GGAATGTAAATTTATTTGTAATTGAGTTATTTATTTGATAAGTAGATAGATT
8141 ATTTATGGTATAGTTTCTAGTTTGGGTTG
257 ATTTATGGTATAGTTTCTAGTTTGGGTTG
8170 AATAACTATATACTATATAGCATGATTTTGAAAATTGCCCATTTTAT
1 AATAACTATATACTATATAGCATGATTTTGAAAATTGCCCATTTTAT
8217 CACCTTGATT
Statistics
Matches: 317, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
285 47 0.15
287 267 0.84
288 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (285 bp):
AATAACTATATACTATATAGCATGATTTTGAAAATTGCCCATTTTATAAGAATGCCCAATTCAAC
AGAGTAAATGGCATGTCTACATGTATGACTTAGGAGATTAAAGAAAATCAATAAATGCCATCAGG
CATTTGGCCTAATAGTAGAGTACTGAACTCTTAGTTCTAGCCTACCCAGACCAGGTCTTGGGTTC
AACTCTCACGGAATGTAAATTTATTTGTAATTGAGTTATTTATTTGATAAGTAGATAGATTATTT
ATGGTATAGTTTCTAGTTTGGGTTG
Found at i:8283 original size:35 final size:35
Alignment explanation
Indices: 8234--8312 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
8224 ATTTATATCT
*
8234 TCCAACCTTTATAACGTTTTGGGCTTTTGGCTTTA
1 TCCAACCTTCATAACGTTTTGGGCTTTTGGCTTTA
8269 TCCAACCTTCATAACGTTTTGGGCTTTTGGCTTTA
1 TCCAACCTTCATAACGTTTTGGGCTTTTGGCTTTA
8304 TCCAACCTT
1 TCCAACCTT
8313 TATGGATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (35 bp):
TCCAACCTTCATAACGTTTTGGGCTTTTGGCTTTA
Found at i:10730 original size:205 final size:207
Alignment explanation
Indices: 10348--10773 Score: 644
Period size: 206 Copynumber: 2.1 Consensus size: 207
10338 TGGCTATATA
* * * *
10348 TATATATATATATAGGTAAATTATACAATACACCGGTGGTGGAGTTTAGTAGACTACACAAGCGA
1 TATATATATATATAGGCAAATTATACAATACACCAGCGGTGGAGTTTAGCAGACTACACAAGCGA
* * * *
10413 AACCTGAAGGGTGACATGTGTTCTTTAGGGATTAGATAGAAATATTTAAAAGTTAATTAATTAAA
66 AACCGGAAGGGTGACATGTGTTCTTTAGGGACTAAATAGAAATATTTAAAACTTAATTAATTAAA
*
10478 AAAAATGGACATGTGTCAACTCCAAAACCCGCTTGTGGAGTCCAAAATTTACACCGCCGGTGTAT
131 AAAAATGGACATGTGTCAACTCCAAAACCCGCTCGTGGAGTCCAAAATTTACACCGCCGGTGTAT
10543 CAAATAATTA-C
196 CAAATAATTACC
* *
10554 TCATATATATATAT-GGCAAATTATATAATACACTAGCGGTGGAGTTTAGCAGACTACACAAGCG
1 T-ATATATATATATAGGCAAATTATACAATACACCAGCGGTGGAGTTTAGCAGACTACACAAGCG
**** *
10618 GGTTCGGAAGGGTGACATGTG-TCTTCTAGGGACTAAATTGAAATATTTAAAACTTAATTAATT-
65 AAACCGGAAGGGTGACATGTGTTCTT-TAGGGACTAAATAGAAATATTTAAAACTTAATTAATTA
* *
10681 AAAAAAATGGACATGTGTCAACTCCACAACCCGCTCGTGGAGTCCAAAATTTACACCGTCGGTGT
129 AAAAAAATGGACATGTGTCAACTCCAAAACCCGCTCGTGGAGTCCAAAATTTACACCGCCGGTGT
10746 ATCAAATAATTACC
194 ATCAAATAATTACC
10760 TATATATATATATA
1 TATATATATATATA
10774 TATAGATTAA
Statistics
Matches: 198, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
205 90 0.45
206 96 0.48
207 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (207 bp):
TATATATATATATAGGCAAATTATACAATACACCAGCGGTGGAGTTTAGCAGACTACACAAGCGA
AACCGGAAGGGTGACATGTGTTCTTTAGGGACTAAATAGAAATATTTAAAACTTAATTAATTAAA
AAAAATGGACATGTGTCAACTCCAAAACCCGCTCGTGGAGTCCAAAATTTACACCGCCGGTGTAT
CAAATAATTACC
Found at i:12370 original size:456 final size:456
Alignment explanation
Indices: 11455--12512 Score: 1404
Period size: 456 Copynumber: 2.3 Consensus size: 456
11445 CTTCTGAAAG
* * * * * *
11455 ATGCAGATCTTCGTGAAAACCCTCACCGGAAAGACCATAACTCTCGAGGTCGAGAGTTCCGATAC
1 ATGCAGATCTTTGTAAAAACCTTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGATAC
* * * * *
11520 CATTGATAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCTCCCGACCAGCAGCGTCTCA
66 CATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCTCCAGACCAGCAACGTCTTA
* * * *
11585 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACTTTGGCCGATTACAACATCCAGAAGGAGTCG
131 TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCA
* * * *
11650 ACCCTCCACCTTGTCCTCCGTCTTCGTGGCGGTATGCAGATCTTCGTGAAAACCCTCACCGGAAA
196 ACCCTCCACCTTGTCCTCCGCCTTCGTGGAGGCATGCAAATCTTCGTGAAAACCCTCACCGGAAA
* * * * *
11715 GACCATCACCCTCGAGGTCGAGAGTTCCGACACGATCGACAACGTTAAAGCCAAGATCCAGGACA
261 AACCATAACCCTCGAGGTCGAGAGTTCCGACACAATCGACAACGTCAAAGCAAAGATCCAGGACA
*
11780 AAGAAGGCATCCCACCAGACCAGCAACGTCTGATCTTCGCCGGAAAGCAGCTCGAGGACGGCCGT
326 AAGAAGGAATCCCACCAGACCAGCAACGTCTGATCTTCGCCGGAAAGCAGCTCGAGGACGGCCGT
* * * * * * *
11845 ACCTTGGCTGATTACAACATCCAGAAGGAGTCGACACTCCACCTTGTCCTCCGTCTTCGTGGCGG
391 ACCTTAGCCGATTACAACATCCAAAAGGAGTCGACACTCCACCTTGTCCTCAGGCTTCGGGGAGG
11910 T
456 T
* * * * *
11911 ATGCAAATCTTTGTAAAAACCTTGACCGGAAAAACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAACCTTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGATAC
* *
11976 CATCGATAATGTCAAAGCCAAGATCCAAGACAAGG-AGGGAATTCCTCCAGACCAGCAACGTCTT
66 CATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGG-ATTCCTCCAGACCAGCAACGTCTT
*
12040 ATCTTCGCCGGGAAACAGCTCGAGGACGGGCGTACCTTGGCCGATTACAACATCCAAAAGGAGTC
130 ATCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTC
* * *
12105 AACCCTCCACCTTGTCCTCCGCCTTCGTGGAGGCATGCAAATCTTTGTTAAAACCCTGACCGGAA
195 AACCCTCCACCTTGTCCTCCGCCTTCGTGGAGGCATGCAAATCTTCGTGAAAACCCTCACCGGAA
* * * *
12170 AAACCATAACCTTGGAGGTCGAGAGTTCTGACACAATCGACAACGTCAAAGCAAAGATTCAGGAC
260 AAACCATAACCCTCGAGGTCGAGAGTTCCGACACAATCGACAACGTCAAAGCAAAGATCCAGGAC
*
12235 AAAGAAGGAATCCCACCAGACCAGCAACGTTTGATCTTCGCCGGGAAA-CAGCTCGAGGACGGCC
325 AAAGAAGGAATCCCACCAGACCAGCAACGTCTGATCTTCGCC-GGAAAGCAGCTCGAGGACGGCC
* * * * *
12299 GTACCTTAGCCGATTACAACATCCAAAAGGAGTCGACCCTTCATCTTGTCTTGAGGC-TCAGGGG
389 GTACCTTAGCCGATTACAACATCCAAAAGGAGTCGACACTCCACCTTGTCCTCAGGCTTC-GGGG
12363 AGGT
453 AGGT
* * * * * * * * *
12367 ATGCAGAT-TTTCGTTAAGACCTTGACAGGTAAAACAATAACCCTGGAGGTTGAAAGTTCTGATA
1 ATGCAGATCTTT-GTAAAAACCTTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGATA
* * * * * * * *
12431 CAATTGATAATGTCAAGGCAAAGATTCAGGACAAGGAAGGGATTCCCCCAGATCAGCAAAGGCTT
65 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCTCCAGACCAGCAACGTCTT
* *
12496 ATCTTTGCAGGGAAACA
130 ATCTTCGCCGGGAAACA
12513 ATTGGAAGAT
Statistics
Matches: 518, Mismatches: 79, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
455 9 0.02
456 500 0.97
457 9 0.02
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (456 bp):
ATGCAGATCTTTGTAAAAACCTTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGATAC
CATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCTCCAGACCAGCAACGTCTTA
TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCA
ACCCTCCACCTTGTCCTCCGCCTTCGTGGAGGCATGCAAATCTTCGTGAAAACCCTCACCGGAAA
AACCATAACCCTCGAGGTCGAGAGTTCCGACACAATCGACAACGTCAAAGCAAAGATCCAGGACA
AAGAAGGAATCCCACCAGACCAGCAACGTCTGATCTTCGCCGGAAAGCAGCTCGAGGACGGCCGT
ACCTTAGCCGATTACAACATCCAAAAGGAGTCGACACTCCACCTTGTCCTCAGGCTTCGGGGAGG
T
Found at i:12416 original size:228 final size:228
Alignment explanation
Indices: 11455--12512 Score: 1242
Period size: 228 Copynumber: 4.6 Consensus size: 228
11445 CTTCTGAAAG
* * * * * * *
11455 ATGCAGATCTTCGTGAAAACCCTCACCGGAAAGACCATAACTCTCGAGGTCGAGAGTTCCGATAC
1 ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACAC
* * * * * * * * *
11520 CATTGATAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCTCCCGACCAGCAGCGTCTCA
66 AATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAACGTCTGA
* * *
11585 TCTTCGCCGGAAAACAGCTCGAGGACGGCCGTACTTTGGCCGATTACAACATCCAGAAGGAGTCG
131 TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCG
*
11650 ACCCTCCACCTTGTCCTCCGTCTTCGTGGCGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGAGGT
* * * * * *
11683 ATGCAGATCTTCGTGAAAACCCTCACCGGAAAGACCATCACCCTCGAGGTCGAGAGTTCCGACAC
1 ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACAC
* * * * *
11748 GATCGACAACGTTAAAGCCAAGATCCAGGACAAAGAAGGCATCCCACCAGACCAGCAACGTCTGA
66 AATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAACGTCTGA
* *
11813 TCTTCGCC-GGAAAGCAGCTCGAGGACGGCCGTACCTTGGCTGATTACAACATCCAGAAGGAGTC
131 TCTTCGCCGGGAAA-CAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTC
* *
11877 GACACTCCACCTTGTCCTCCGTCTTCGTGGCGGT
195 GACCCTCCACCTTGTCCTCCGTCTTCGTGGAGGT
* * * * *
11911 ATGCAAATCTTTGTAAAAACCTTGACCGGAAAAACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACAC
* * * * * * *
11976 CATCGATAATGTCAAAGCCAAGATCCAAGACAAGGAGGGAATTCCTCCAGACCAGCAACGTCTTA
66 AATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAACGTCTGA
* *
12041 TCTTCGCCGGGAAACAGCTCGAGGACGGGCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCA
131 TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCG
* *
12106 ACCCTCCACCTTGTCCTCCGCCTTCGTGGAGGC
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGAGGT
* * *
12139 ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCTTGGAGGTCGAGAGTTCTGACAC
1 ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACAC
* * * * *
12204 AATCGACAACGTCAAAGCAAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAGCAACGTTTGA
66 AATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAACGTCTGA
*
12269 TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTAGCCGATTACAACATCCAAAAGGAGTCG
131 TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCG
* * * ** * *
12334 ACCCTTCATCTTGTCTTGAGGC-TCAGGGGAGGT
196 ACCCTCCACCTTGTCCTCCGTCTTC-GTGGAGGT
* * * * * * * * * * *
12367 ATGCAGAT-TTTCGTTAAGACCTTGACAGGTAAAACAATAACCCTGGAGGTTGAAAGTTCTGATA
1 ATGCAAATCTTT-GTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACA
* * * * * * * * *
12431 CAATTGATAATGTCAAGGCAAAGATTCAGGACAAGGAAGGGATTCCC-CCAGATCAGCAAAGGCT
65 CAATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAA-GGAATCCCACCAGACCAGCAACGTCT
* * *
12495 TATCTTTGCAGGGAAACA
129 GATCTTCGCCGGGAAACA
12513 ATTGGAAGAT
Statistics
Matches: 725, Mismatches: 100, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
227 9 0.01
228 704 0.97
229 12 0.02
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (228 bp):
ATGCAAATCTTTGTTAAAACCCTGACCGGAAAAACCATAACCCTCGAGGTCGAGAGTTCCGACAC
AATCGATAACGTCAAAGCCAAGATCCAGGACAAGGAAGGAATCCCACCAGACCAGCAACGTCTGA
TCTTCGCCGGGAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATCCAAAAGGAGTCG
ACCCTCCACCTTGTCCTCCGTCTTCGTGGAGGT
Found at i:16738 original size:19 final size:19
Alignment explanation
Indices: 16714--16750 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16704 CTTATCTGTA
16714 ACCGTTTCACCATCGTTTG
1 ACCGTTTCACCATCGTTTG
16733 ACCGTTTCACCATCGTTT
1 ACCGTTTCACCATCGTTT
16751 TGGGACCAAA
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:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (19 bp):
ACCGTTTCACCATCGTTTG
Found at i:32309 original size:28 final size:26
Alignment explanation
Indices: 32269--32325 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
32259 GTGATGAAAT
* *
32269 AAACTTTGGGTTACTTTCTGCCAAAAAA
1 AAACTTTGGGTTA-TAT-TGCAAAAAAA
32297 AAACTTTGGGTTATATTGCAAAAAAA
1 AAACTTTGGGTTATATTGCAAAAAAA
32323 AAA
1 AAA
32326 AAACATGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 12 0.44
27 2 0.07
28 13 0.48
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (26 bp):
AAACTTTGGGTTATATTGCAAAAAAA
Found at i:32341 original size:27 final size:29
Alignment explanation
Indices: 32291--32344 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
32281 ACTTTCTGCC
*
32291 AAAAAAAAACTTTGGGTTATATTGCAAAA
1 AAAAAAAAACTATGGGTTATATTGCAAAA
32320 AAAAAAAAAC-ATGGGTTA-ATTGCAA
1 AAAAAAAAACTATGGGTTATATTGCAA
32345 TTAAGCATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 7 0.29
29 10 0.42
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (29 bp):
AAAAAAAAACTATGGGTTATATTGCAAAA
Found at i:35005 original size:32 final size:32
Alignment explanation
Indices: 34969--35037 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
34959 TCGATATGGT
*
34969 AATGCCACATCATCAGTTTGGTTCAACGTGGC
1 AATGCCACATCATCAGTTTGGTCCAACGTGGC
** * *
35001 AATGCCATGTCATCGGTTTGGTCCGACGTGGC
1 AATGCCACATCATCAGTTTGGTCCAACGTGGC
35033 AATGC
1 AATGC
35038 TACGCCATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (32 bp):
AATGCCACATCATCAGTTTGGTCCAACGTGGC
Found at i:37907 original size:58 final size:58
Alignment explanation
Indices: 37817--37930 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 58
37807 TACAGATGAG
* * **
37817 ATTACACTGTACAGATTAGGTTAGGTACTCCGTTTGATCCCAAAACGGTGATGAAAAA
1 ATTACACTGTACAAATTAAGTTAAATACTCCGTTTGATCCCAAAACGGTGATGAAAAA
37875 ATTACACTGTACAAATTAAGTTAAATACTCCGTTTGATCCCAAAACGGTGATGAAA
1 ATTACACTGTACAAATTAAGTTAAATACTCCGTTTGATCCCAAAACGGTGATGAAA
37931 CGACTTACAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (58 bp):
ATTACACTGTACAAATTAAGTTAAATACTCCGTTTGATCCCAAAACGGTGATGAAAAA
Found at i:40991 original size:73 final size:73
Alignment explanation
Indices: 40892--41040 Score: 244
Period size: 73 Copynumber: 2.0 Consensus size: 73
40882 ACAAAAGTTC
* * *
40892 AAGTTTAGTGACTTTGGGGATTCAAATTTTGTGTTATTGAACATTTTAATGTAAACCCATGGTAG
1 AAGTTTAGTGACTTTGCGGATGCAAATTTTGTGTTATTGAACATTTTAATGTAAACCCATGATAG
*
40957 GATTAGGG
66 AATTAGGG
* *
40965 AAGTTTAGTGATTTTGCGGATGCAAATTTTGTGTTATTGAACATTTTAATGTAAACCCATTATAG
1 AAGTTTAGTGACTTTGCGGATGCAAATTTTGTGTTATTGAACATTTTAATGTAAACCCATGATAG
41030 AATTAGGG
66 AATTAGGG
41038 AAG
1 AAG
41041 GAGAGAGGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (73 bp):
AAGTTTAGTGACTTTGCGGATGCAAATTTTGTGTTATTGAACATTTTAATGTAAACCCATGATAG
AATTAGGG
Found at i:44201 original size:114 final size:114
Alignment explanation
Indices: 44001--44229 Score: 343
Period size: 114 Copynumber: 2.0 Consensus size: 114
43991 ACAACTTCAG
* * *
44001 TATTTAATAGTTGTATTGACCTCCGATATCCAGTAGTCACATTAGTGTTCGACTAATTCAGAATT
1 TATTTAATAGTCGTATCGACCTCCGATATCCAGTAGTCACATTAGCGTTCGACTAATTCAGAATT
* ** *
44066 GAGTTACGTCAGATCCTATTTA-AGAGAGACTCTTTTAATGTCTATTTTC
66 GAGTCACACCAGATCCTATTTAGA-AGAGACTCTGTTAATGTCTATTTTC
* *
44115 TATTTAATAGTCGTATCGACCTCCGATATCCATTAGTCACATTAGCGTTCGACTAATTCAGAGTT
1 TATTTAATAGTCGTATCGACCTCCGATATCCAGTAGTCACATTAGCGTTCGACTAATTCAGAATT
* *
44180 GAGTCACACCATATCCTATTTAGAATAGACTCTGTTAATGTCTATTTTC
66 GAGTCACACCAGATCCTATTTAGAAGAGACTCTGTTAATGTCTATTTTC
44229 T
1 T
44230 TTATTTGCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 102 0.99
115 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (114 bp):
TATTTAATAGTCGTATCGACCTCCGATATCCAGTAGTCACATTAGCGTTCGACTAATTCAGAATT
GAGTCACACCAGATCCTATTTAGAAGAGACTCTGTTAATGTCTATTTTC
Done.