Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001466.1 Hibiscus syriacus cultivar Beakdansim tig00002841_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: 1236886
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:592184 original size:41 final size:41
Alignment explanation
Indices: 592154--592242 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
592144 ATAGTCAGTA
* * * *
592154 TCGCATTGCGATTTTCCCAATTTGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
592195 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTACGATTTTCCCAATTCGCGTTGCGATTCACGTAT
592236 TCGCATT
1 TCGCATT
592243 GCGAATTGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (41 bp):
TCGCATTACGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:592185 original size:21 final size:21
Alignment explanation
Indices: 592154--592229 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
592144 ATAGTCAGTA
*
592154 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* * **
592175 TTGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
* *
592195 TCGCATTACGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
592216 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
592230 ACTTATTCGC
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:592244 original size:20 final size:20
Alignment explanation
Indices: 592180--592246 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
592170 CCAATTTGCG
592180 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
* * ** *
592200 TTACGATTTTCCCAATTCGCG
1 TTGCGA-TTTACTTATTCGCA
592221 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
592241 TTGCGA
1 TTGCGA
592247 ATTGGGAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:596300 original size:69 final size:69
Alignment explanation
Indices: 596189--596327 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
596179 GGTGATCTAT
596189 ATCTGTACCTTATGTTTTGATCTTATTTATACCTTGCAATGGAACATTAAAACTGAGAGAGAAAG
1 ATCTGTACCTTATGTTTTGATCTTATTTATACCTTGCAATGGAACATTAAAACTGAGAGAGAAAG
596254 ATAA
66 ATAA
* *
596258 ATCTGTACCTTGTGTTTTGATCTTATTTATACCTTGCGATGGAACATTAAAACTGAGAGAGAAAG
1 ATCTGTACCTTATGTTTTGATCTTATTTATACCTTGCAATGGAACATTAAAACTGAGAGAGAAAG
596323 ATAA
66 ATAA
596327 A
1 A
596328 CCATTTACTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (69 bp):
ATCTGTACCTTATGTTTTGATCTTATTTATACCTTGCAATGGAACATTAAAACTGAGAGAGAAAG
ATAA
Found at i:597460 original size:183 final size:184
Alignment explanation
Indices: 597152--597520 Score: 731
Period size: 183 Copynumber: 2.0 Consensus size: 184
597142 TTATTTCGTG
597152 TGTTTCACAGTATAATGCTTTAATACAAAGCCGGAGTCATCGTGGAGCTGTGATAGAGCTTATAA
1 TGTTTCACAGTATAATGCTTTAATACAAAGCCGGAGTCATCGTGGAGCTGTGATAGAGCTTATAA
597217 ATCAAAAGGAGGTTTTAGGAGATCTCTTTAACCAACTACGACTGGCTCTGCAACGTCGATCCAAA
66 ATCAAAAGGAGGTTTTAGGAGATCTCTTTAACCAACTACGACTGGCTCTGCAACGTCGATCCAAA
597282 GGACGTCCGGCTCAGGTGACTTTATCCTATTACATGATG-CCCTTGAAATTCCT
131 GGACGTCCGGCTCAGGTGACTTTATCCTATTACATGATGCCCCTTGAAATTCCT
597335 TGTTTCACAGTATAATGCTTTAATACAAAGCCGGAGTCATCGTGGAGCTGTGATAGAGCTTATAA
1 TGTTTCACAGTATAATGCTTTAATACAAAGCCGGAGTCATCGTGGAGCTGTGATAGAGCTTATAA
597400 ATCAAAAGGAGGTTTTAGGAGATCTCTTTAACCAACTACGACTGGCTCTGCAACGTCGATCCAAA
66 ATCAAAAGGAGGTTTTAGGAGATCTCTTTAACCAACTACGACTGGCTCTGCAACGTCGATCCAAA
597465 GGACGTCCGGCTCAGGTGACTTTATCCTATTACATGATGCCCCTTGAAATTCCT
131 GGACGTCCGGCTCAGGTGACTTTATCCTATTACATGATGCCCCTTGAAATTCCT
597519 TG
1 TG
597521 GATTTTAGAT
Statistics
Matches: 185, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 169 0.91
184 16 0.09
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (184 bp):
TGTTTCACAGTATAATGCTTTAATACAAAGCCGGAGTCATCGTGGAGCTGTGATAGAGCTTATAA
ATCAAAAGGAGGTTTTAGGAGATCTCTTTAACCAACTACGACTGGCTCTGCAACGTCGATCCAAA
GGACGTCCGGCTCAGGTGACTTTATCCTATTACATGATGCCCCTTGAAATTCCT
Found at i:599927 original size:2 final size:2
Alignment explanation
Indices: 599920--599945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
599910 CAATTTTCAT
599920 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
599946 ATTACTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:603539 original size:20 final size:20
Alignment explanation
Indices: 603514--603556 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
603504 TAGCATATGT
603514 TATCACTTTTGATGCAATCG
1 TATCACTTTTGATGCAATCG
603534 TATCACTTTTGATGCAATCG
1 TATCACTTTTGATGCAATCG
603554 TAT
1 TAT
603557 TCATGATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (20 bp):
TATCACTTTTGATGCAATCG
Found at i:604323 original size:56 final size:56
Alignment explanation
Indices: 604254--604453 Score: 256
Period size: 56 Copynumber: 3.6 Consensus size: 56
604244 CCTTATTTTT
* * ** **
604254 TAGATATATTCGATTTCGGGGGCCCTATTTTTATGCTTCTTAATGGCAACAACAAA
1 TAGATATACTCGATTTCGAGACCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
* * * ** * * *
604310 TACATATACTCGATTTTGGGGTCTCTATTTTTATGCTTCTTAATGACAACAATTGA
1 TAGATATACTCGATTTCGAGACCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
*
604366 TAGATATACTCGATTTCGAGACCCCTATTTTTATGCTTATTAATGGCAACAACTGA
1 TAGATATACTCGATTTCGAGACCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
*
604422 TAGATATATTCGATTTCGAGACCCCTATTTTT
1 TAGATATACTCGATTTCGAGACCCCTATTTTT
604454 TGGGGCTCTG
Statistics
Matches: 125, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 125 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (56 bp):
TAGATATACTCGATTTCGAGACCCCTATTTTTATGCTTCTTAATGGCAACAACTGA
Found at i:607312 original size:64 final size:63
Alignment explanation
Indices: 607226--607414 Score: 215
Period size: 65 Copynumber: 2.9 Consensus size: 63
607216 TGCACTAAGA
* * *
607226 GTGCAACGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCATAGTGCATCGATGCATGGCT-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATA-CCATAGTGCATCGATGCATGG-TAT
*
607290 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CACTGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATACCA-T-AGTGCATCGATGCATGGT
607353 AT
62 AT
* * *
607355 GTGCCTCGATGCATAAAATGCATTCGATG-TTCAATTAATTCCATGGTGCATCGATGCATG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA--AATACCATAGTGCATCGATGCATG
607415 AATCGGTGCA
Statistics
Matches: 109, Mismatches: 7, Indels: 18
0.81 0.05 0.13
Matches are distributed among these distances:
62 1 0.01
63 6 0.06
64 45 0.41
65 52 0.48
66 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATACCATAGTGCATCGATGCATGGTAT
Found at i:613451 original size:49 final size:49
Alignment explanation
Indices: 613381--613480 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
613371 AACAGAATTA
* * *
613381 TTGACGTAATAACTTTGTATTTTTCTCTGAATTATGACATGATATTATC
1 TTGACGTAATAACTTTGTATTTTTATCTCAATGATGACATGATATTATC
* * *
613430 TTGATGTAATGACTTTTTATTTTTATCTCAATGATGACATGATATTATC
1 TTGACGTAATAACTTTGTATTTTTATCTCAATGATGACATGATATTATC
613479 TT
1 TT
613481 ATGATGAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (49 bp):
TTGACGTAATAACTTTGTATTTTTATCTCAATGATGACATGATATTATC
Found at i:615656 original size:17 final size:18
Alignment explanation
Indices: 615621--615656 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
615611 AGAGAAAAAG
*
615621 TTTTATTTAATTATTAAC
1 TTTTAATTAATTATTAAC
615639 TTTTAATTAATT-TTAAC
1 TTTTAATTAATTATTAAC
615656 T
1 T
615657 ATATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAATTAATTATTAAC
Found at i:626209 original size:59 final size:60
Alignment explanation
Indices: 626104--626243 Score: 187
Period size: 60 Copynumber: 2.4 Consensus size: 60
626094 ATATACATAG
* * *
626104 AGTTT-GGGATGAAATTAGAATGTTCAAAAATTTTGGGGACCAATTTAGAATG-CAGTCAT
1 AGTTTAGGGATGAAATTA-AATGTTCAAAAATTTTAGAGACCAATTTAGAATGACAATCAT
* *
626163 AGTTTAGGGATGAAATTGAAATGTTC-AAAATTTTAGAGACTAATTTAGAATGATAATCAT
1 AGTTTAGGGATGAAATT-AAATGTTCAAAAATTTTAGAGACCAATTTAGAATGACAATCAT
*
626223 AGTTTAGGGATAAAATTAAAT
1 AGTTTAGGGATGAAATTAAAT
626244 TAAAAGTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
59 32 0.44
60 39 0.54
61 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (60 bp):
AGTTTAGGGATGAAATTAAATGTTCAAAAATTTTAGAGACCAATTTAGAATGACAATCAT
Found at i:640540 original size:20 final size:20
Alignment explanation
Indices: 640504--640541 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
640494 TAAACAATAC
*
640504 AATGCAATTTTAGATGTCAT
1 AATGCAATTTTAAATGTCAT
640524 AATG-AATTTTGAAATGTC
1 AATGCAATTTT-AAATGTC
640542 TTCAGTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (20 bp):
AATGCAATTTTAAATGTCAT
Found at i:643739 original size:57 final size:57
Alignment explanation
Indices: 643651--643765 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
643641 ATTACCTAAA
643651 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
*
643708 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
643765 G
1 G
643766 AAGGTTCCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
Found at i:680272 original size:3 final size:3
Alignment explanation
Indices: 680266--680314 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
680256 AATTTTTTTC
680266 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
680312 TTA
1 TTA
680315 AATAAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:680323 original size:22 final size:22
Alignment explanation
Indices: 680266--680325 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
680256 AATTTTTTTC
* *
680266 TTATTATTATTAT-TATTATTA
1 TTATTAATATAATATATTATTA
* *
680287 TTATTATTATTATATATTATTA
1 TTATTAATATAATATATTATTA
680309 TTATTAA-ATAAATATAT
1 TTATTAATAT-AATATAT
680326 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTAATATAATATATTATTA
Found at i:680328 original size:28 final size:28
Alignment explanation
Indices: 680267--680331 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
680257 ATTTTTTTCT
* * *
680267 TATTAT-TATTATTATTATTATTATTAT
1 TATTATATATTATTATTATTATAATAAA
680294 TATTATATATTATTATTATTA-AATAAA
1 TATTATATATTATTATTATTATAATAAA
680321 TATATATATAT
1 TAT-TATATAT
680332 ATATATACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTATATATTATTATTATTATAATAAA
Found at i:689605 original size:83 final size:83
Alignment explanation
Indices: 689466--689682 Score: 373
Period size: 83 Copynumber: 2.6 Consensus size: 83
689456 AACATTAACT
689466 AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGAAC
1 AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAAC
689530 AGAACCAATCATTGAATTC
66 AGAA-CAATCATTGAATTC
* *
689549 AGAAGATAAATTTGCCAATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGAC
1 AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAAC
* *
689614 AGAACAATCATTGAGTTT
66 AGAACAATCATTGAATTC
*
689632 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
689683 AGTTTGGTAT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
83 118 0.93
84 9 0.07
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (83 bp):
AGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAAC
AGAACAATCATTGAATTC
Found at i:692246 original size:22 final size:22
Alignment explanation
Indices: 692217--692271 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
692207 ATCTACACTC
692217 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
692239 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
692261 TTCAAAGATGA
1 TTCAAAGATGA
692272 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:693032 original size:76 final size:76
Alignment explanation
Indices: 692950--693549 Score: 1017
Period size: 76 Copynumber: 8.0 Consensus size: 76
692940 CTATTTCCCA
*
692950 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
693015 ATCCTTCGGGT
66 ATCCTTCGGGT
*
693026 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA--TATT---
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
693086 -TCC--C---A
66 ATCCTTCGGGT
*
693091 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
693156 ATCCTTCGGGT
66 ATCCTTCGGGT
693167 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
693232 ATCCTTCGGGT
66 ATCCTTCGGGT
693243 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
693308 AGCCTTCGGGT
66 ATCCTTCGGGT
693319 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
693384 ATCCTTCGGGT
66 ATCCTTCGGGT
*
693395 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCATTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
693460 ATCCTTCGGGT
66 ATCCTTCGGGT
* * *
693471 CATCTGTAAGCCCTTCAGTGCATGACGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
693536 A-CCCTCAGGGT
66 ATCCTTC-GGGT
693547 CAT
1 CAT
693550 TCATAAGACC
Statistics
Matches: 497, Mismatches: 15, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
65 55 0.11
67 3 0.01
68 1 0.00
70 3 0.01
71 3 0.01
73 1 0.00
74 3 0.01
75 4 0.01
76 424 0.85
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTCGGGT
Found at i:696130 original size:13 final size:14
Alignment explanation
Indices: 696100--696129 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
696090 TTTTTATTCT
696100 AAATTATCCATAAA
1 AAATTATCCATAAA
*
696114 AAATTATCTATAAA
1 AAATTATCCATAAA
696128 AA
1 AA
696130 TAAGGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTATCCATAAA
Found at i:701443 original size:17 final size:17
Alignment explanation
Indices: 701421--701453 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
701411 CATTATCGGC
701421 GAGGTTAAGAAACTAAT
1 GAGGTTAAGAAACTAAT
701438 GAGGTTAAGAAACTAA
1 GAGGTTAAGAAACTAA
701454 CATGTGACTC
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:0.48, C:0.06, G:0.24, T:0.21
Consensus pattern (17 bp):
GAGGTTAAGAAACTAAT
Found at i:702605 original size:45 final size:45
Alignment explanation
Indices: 702550--702640 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
702540 TTATCATGTG
* * * **
702550 CATCATATTACAAATTTATGGTAATTTCTATTATTATTCATTCTT
1 CATCAGATTACAAACTTATGATAACGTCTATTATTATTCATTCTT
*
702595 CATCAGATTACAAACTTATGATTACGTCTATTATTATTCATTCTT
1 CATCAGATTACAAACTTATGATAACGTCTATTATTATTCATTCTT
702640 C
1 C
702641 TGTAGTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (45 bp):
CATCAGATTACAAACTTATGATAACGTCTATTATTATTCATTCTT
Found at i:708355 original size:2 final size:2
Alignment explanation
Indices: 708300--708342 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
708290 GTACCTGGTT
708300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
708342 T
1 T
708343 TCTTTAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:716145 original size:18 final size:18
Alignment explanation
Indices: 716122--716167 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
716112 TTTACGGAAT
**
716122 ATAAGATTATTAGTGGGA
1 ATAAGATTACCAGTGGGA
*
716140 ATAAGATTACCGGTGGGA
1 ATAAGATTACCAGTGGGA
716158 ATAAGATTAC
1 ATAAGATTAC
716168 TAGGAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (18 bp):
ATAAGATTACCAGTGGGA
Found at i:728298 original size:105 final size:105
Alignment explanation
Indices: 728167--728389 Score: 252
Period size: 105 Copynumber: 2.1 Consensus size: 105
728157 TATTGTCCAT
* * * * * * *
728167 AAGGACCACATA-TAAATTCTTTAAGAACCATATACATAT-ATCAAGGATCAAGTAAGTGTCTCA
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATGCT-AAGGACCAAATAAGTGTCGCA
*
728230 AAAGACCTCATACATGCTCCAAAGAATATATATACGTCCCG
65 AAAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
* * *
728271 AATGACCACGTAGAAAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATGTGTCGCAA
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATGCTAAGGACCAAATAAGTGTCGCAA
* * * * * * *
728336 AGGACCTCATAGATGTTCCATAGGATACCTATATGTCCCG
66 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
*
728376 AAGGACCGCGTAGA
1 AAGGACCACGTAGA
728390 CCCTCGACTC
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
104 10 0.10
105 86 0.89
106 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (105 bp):
AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATGCTAAGGACCAAATAAGTGTCGCAA
AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
Found at i:729224 original size:2 final size:2
Alignment explanation
Indices: 729217--729272 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
729207 TCTTATATTC
729217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
729259 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
729273 GCCAATGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:729862 original size:21 final size:21
Alignment explanation
Indices: 729837--729880 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
729827 TTATGGTTCG
* * *
729837 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
729858 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
729879 CT
1 CT
729881 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:731664 original size:15 final size:15
Alignment explanation
Indices: 731644--731697 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
731634 TTTTTTTAAA
731644 AATAAATATAAATGC
1 AATAAATATAAATGC
731659 AAT--A-A-AAATG-
1 AATAAATATAAATGC
731669 AATTAAATATAAATGC
1 AA-TAAATATAAATGC
*
731685 AATAAAAATAAAT
1 AATAAATATAAAT
731698 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
10 2 0.06
11 6 0.19
12 1 0.03
13 2 0.06
14 1 0.03
15 18 0.56
16 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAAATATAAATGC
Found at i:731682 original size:26 final size:26
Alignment explanation
Indices: 731646--731708 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
731636 TTTTTAAAAA
*
731646 TAAATATAAATGCAATAAAAATGAAT
1 TAAATATAAATGCAATAAAAATAAAT
731672 TAAATATAAATGCAATAAAAATAAAT
1 TAAATATAAATGCAATAAAAATAAAT
*
731698 TAAAAATAAAT
1 TAAATATAAAT
731709 AAAATTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
TAAATATAAATGCAATAAAAATAAAT
Found at i:731711 original size:10 final size:10
Alignment explanation
Indices: 731685--731725 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
731675 ATATAAATGC
731685 AATAAAAATA
1 AATAAAAATA
731695 AATTAAAAATA
1 AA-TAAAAATA
* *
731706 AATAAAATTC
1 AATAAAAATA
731716 AATAAAAATA
1 AATAAAAATA
731726 TAATGTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (10 bp):
AATAAAAATA
Found at i:732988 original size:28 final size:29
Alignment explanation
Indices: 732952--733006 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
732942 TTACATTATA
732952 TTTTTATTGAAT-TTTATTCATTTTTAAT
1 TTTTTATTGAATCTTTATTCATTTTTAAT
* *
732980 TTTTTATTGCATCTTTATTTATTTTTA
1 TTTTTATTGAATCTTTATTCATTTTTA
733007 GAAAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (29 bp):
TTTTTATTGAATCTTTATTCATTTTTAAT
Found at i:734198 original size:25 final size:25
Alignment explanation
Indices: 734170--734222 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
734160 TTTAAATTCA
** *
734170 TATTTATTTATTTTAAATATTTTTT
1 TATTTATTTATTAAAAATATATTTT
*
734195 TATTTTTTTATTAAAAATATATTTT
1 TATTTATTTATTAAAAATATATTTT
734220 TAT
1 TAT
734223 CTTCCTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TATTTATTTATTAAAAATATATTTT
Found at i:742998 original size:64 final size:62
Alignment explanation
Indices: 742913--743072 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 62
742903 TTGTTTAAGG
* * * *
742913 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TT-AATA-AAAACATCGAATAGGATTTA
* *
742977 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAATAAAAACATCGAATAGGATTTA
*
743040 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
743073 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
62 1 0.01
63 33 0.39
64 48 0.56
65 2 0.02
66 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAATAAAAACATCGAATAGGATTTA
Found at i:743587 original size:18 final size:18
Alignment explanation
Indices: 743564--743598 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
743554 CTAGGAGATT
743564 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
743582 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
743599 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:744658 original size:23 final size:23
Alignment explanation
Indices: 744625--744669 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
744615 ATTATTATAT
*
744625 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
744648 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
744670 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:746373 original size:21 final size:21
Alignment explanation
Indices: 746349--746391 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
746339 TCATATTCGT
*
746349 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
746370 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
746391 T
1 T
746392 AACCCATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:748621 original size:24 final size:20
Alignment explanation
Indices: 748564--748660 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 20
748554 TTTCCCTTGA
*
748564 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
748584 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
748607 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
*
748628 A-TGCATCGATGCACTCCT-T
1 AGTGCATCGATGCA-TCCTAC
748647 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
748661 TAATTGCATT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.01
19 31 0.46
20 14 0.21
21 2 0.03
22 1 0.01
23 4 0.06
24 14 0.21
25 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:748634 original size:19 final size:19
Alignment explanation
Indices: 748610--748659 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
748600 CCTTAACATG
748610 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
748629 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
748648 TGCATCGATGCA
1 TGCATCGATGCA
748660 TTAATTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:752001 original size:23 final size:23
Alignment explanation
Indices: 751975--752043 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
751965 CACCACAACT
*
751975 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
751998 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
752021 CGTAGAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
752044 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:752440 original size:2 final size:2
Alignment explanation
Indices: 752433--752472 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
752423 TATCTTATCC
752433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
752473 GATAGTCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:752547 original size:2 final size:2
Alignment explanation
Indices: 752540--752576 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
752530 TTCATCTTCC
752540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
752577 CATTTCCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:753703 original size:24 final size:20
Alignment explanation
Indices: 753646--753723 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
753636 TTTCCCTTGA
*
753646 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
753666 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
753689 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
753710 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
753724 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:754801 original size:61 final size:61
Alignment explanation
Indices: 754733--754863 Score: 244
Period size: 61 Copynumber: 2.1 Consensus size: 61
754723 GAGGATAAAG
754733 AGTGTTTGAGAGGTTAGAAATCCAAAAGATTAGATAATTATGAAAGAAAATGAAATTTGAC
1 AGTGTTTGAGAGGTTAGAAATCCAAAAGATTAGATAATTATGAAAGAAAATGAAATTTGAC
* *
754794 AGTGTTTGAGAGGTTAGAAATCCAAAAGGTTAGATAATTATGAAAGAAAATGAAATTTGAG
1 AGTGTTTGAGAGGTTAGAAATCCAAAAGATTAGATAATTATGAAAGAAAATGAAATTTGAC
754855 AGTGTTTGA
1 AGTGTTTGA
754864 TAAAAATAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.29
Consensus pattern (61 bp):
AGTGTTTGAGAGGTTAGAAATCCAAAAGATTAGATAATTATGAAAGAAAATGAAATTTGAC
Found at i:756596 original size:349 final size:349
Alignment explanation
Indices: 755957--756655 Score: 1389
Period size: 349 Copynumber: 2.0 Consensus size: 349
755947 CGTGAAAATT
755957 TTAAACAAAAATATTACACCATAGGCAGGGAAACTTGGGGGAATGGAGGAAAAGAGATAGAAGAT
1 TTAAACAAAAATATTACACCATAGGCAGGGAAACTTGGGGGAATGGAGGAAAAGAGATAGAAGAT
756022 GTTTTGTACCACACTGTTTTAGATTGTTCTTTATGTTGTTGAATATGAGCCATGTTACTTGGACC
66 GTTTTGTACCACACTGTTTTAGATTGTTCTTTATGTTGTTGAATATGAGCCATGTTACTTGGACC
*
756087 TGGGTTTGAGTGTCCGACGGTTACGTGTCTCGTTTTTTAAAAATGTTTTCCGTTTACTTGGAGGT
131 TGGGTTTGAGTGTCCGACGGTTACATGTCTCGTTTTTTAAAAATGTTTTCCGTTTACTTGGAGGT
756152 TCCTATTCTCACACATGTCAGGATTTGTGTTGAACATGGGTACTTAAAGAGAAACGAAAAGTCGT
196 TCCTATTCTCACACATGTCAGGATTTGTGTTGAACATGGGTACTTAAAGAGAAACGAAAAGTCGT
756217 TTCAACATAGAATATGGATATGAGTATTGCTTCTTTCTTTTAAATCTCACTTTGTGTGGATTATG
261 TTCAACATAGAATATGGATATGAGTATTGCTTCTTTCTTTTAAATCTCACTTTGTGTGGATTATG
756282 TGATATGGACTACCTGCAGGAAGA
326 TGATATGGACTACCTGCAGGAAGA
756306 TTAAACAAAAATATTACACCATAGGCAGGGAAACTTGGGGGAATGGAGGAAAAGAGATAGAAGAT
1 TTAAACAAAAATATTACACCATAGGCAGGGAAACTTGGGGGAATGGAGGAAAAGAGATAGAAGAT
756371 GTTTTGTACCACACTGTTTTAGATTGTTCTTTATGTTGTTGAATATGAGCCATGTTACTTGGACC
66 GTTTTGTACCACACTGTTTTAGATTGTTCTTTATGTTGTTGAATATGAGCCATGTTACTTGGACC
756436 TGGGTTTGAGTGTCCGACGGTTACATGTCTCGTTTTTTAAAAATGTTTTCCGTTTACTTGGAGGT
131 TGGGTTTGAGTGTCCGACGGTTACATGTCTCGTTTTTTAAAAATGTTTTCCGTTTACTTGGAGGT
756501 TCCTATTCTCACACATGTCAGGATTTGTGTTGAACATGGGTACTTAAAGAGAAACGAAAAGTCGT
196 TCCTATTCTCACACATGTCAGGATTTGTGTTGAACATGGGTACTTAAAGAGAAACGAAAAGTCGT
756566 TTCAACATAGAATATGGATATGAGTATTGCTTCTTTCTTTTAAATCTCACTTTGTGTGGATTATG
261 TTCAACATAGAATATGGATATGAGTATTGCTTCTTTCTTTTAAATCTCACTTTGTGTGGATTATG
756631 TGATATGGACTACCTGCAGGAAGA
326 TGATATGGACTACCTGCAGGAAGA
756655 T
1 T
756656 ATACTCAAGT
Statistics
Matches: 349, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
349 349 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (349 bp):
TTAAACAAAAATATTACACCATAGGCAGGGAAACTTGGGGGAATGGAGGAAAAGAGATAGAAGAT
GTTTTGTACCACACTGTTTTAGATTGTTCTTTATGTTGTTGAATATGAGCCATGTTACTTGGACC
TGGGTTTGAGTGTCCGACGGTTACATGTCTCGTTTTTTAAAAATGTTTTCCGTTTACTTGGAGGT
TCCTATTCTCACACATGTCAGGATTTGTGTTGAACATGGGTACTTAAAGAGAAACGAAAAGTCGT
TTCAACATAGAATATGGATATGAGTATTGCTTCTTTCTTTTAAATCTCACTTTGTGTGGATTATG
TGATATGGACTACCTGCAGGAAGA
Found at i:770026 original size:97 final size:97
Alignment explanation
Indices: 769918--770116 Score: 380
Period size: 97 Copynumber: 2.1 Consensus size: 97
769908 GTCAAAGAGA
*
769918 AACAGAAAACATATAGCTATCTGTTTAAGTTGTATTTGAGCTGTTCTATCCTTTCTCCATATATC
1 AACAGAAAACATATAGCTATCTGTTTAAGTTGTATCTGAGCTGTTCTATCCTTTCTCCATATATC
769983 TCTACTCGCAACGGTTTGTTTCTTTCCTTGGC
66 TCTACTCGCAACGGTTTGTTTCTTTCCTTGGC
*
770015 AACAGAAAACATATAGCTATCTGTTTAAGTTGTATCTGAGCTGTTCTATTCTTTCTCCATATATC
1 AACAGAAAACATATAGCTATCTGTTTAAGTTGTATCTGAGCTGTTCTATCCTTTCTCCATATATC
770080 TCTACTCGCAACGGTTTGTTTCTTTCCTTGGC
66 TCTACTCGCAACGGTTTGTTTCTTTCCTTGGC
770112 AACAG
1 AACAG
770117 TGTGCATGTC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (97 bp):
AACAGAAAACATATAGCTATCTGTTTAAGTTGTATCTGAGCTGTTCTATCCTTTCTCCATATATC
TCTACTCGCAACGGTTTGTTTCTTTCCTTGGC
Found at i:774426 original size:48 final size:50
Alignment explanation
Indices: 774329--774438 Score: 161
Period size: 48 Copynumber: 2.2 Consensus size: 50
774319 TGTTTCTTAC
*
774329 ATGATAATTTGAGGTTCAACACACCATTCAATGAGTGTCGGAGACATCTAAT
1 ATGACAATTTGAGGTTCAACACACC--TCAATGAGTGTCGGAGACATCTAAT
* *
774381 ATGGCAATTTGAGGTTCAACACA-C-CAATGAGTGTCGGATACATCTAAT
1 ATGACAATTTGAGGTTCAACACACCTCAATGAGTGTCGGAGACATCTAAT
774429 ATGACAATTT
1 ATGACAATTT
774439 TCTTGTCTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 32 0.59
51 1 0.02
52 21 0.39
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (50 bp):
ATGACAATTTGAGGTTCAACACACCTCAATGAGTGTCGGAGACATCTAAT
Found at i:784655 original size:27 final size:27
Alignment explanation
Indices: 784625--784684 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
784615 ATATGTAGAT
*
784625 TTAATTGATTTAA-AACAATTAAATCAA
1 TTAAATGATTTAATAAC-ATTAAATCAA
*
784652 TTAAATGATTTAATATCATTAAATCAA
1 TTAAATGATTTAATAACATTAAATCAA
784679 TTAAAT
1 TTAAAT
784685 CAAACCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (27 bp):
TTAAATGATTTAATAACATTAAATCAA
Found at i:784657 original size:9 final size:9
Alignment explanation
Indices: 784634--784687 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
784624 TTTAATTGAT
*
784634 TTAAAACAA
1 TTAAATCAA
784643 TTAAATCAA
1 TTAAATCAA
* *
784652 TTAAATGAT
1 TTAAATCAA
784661 TTAATATC-A
1 TTAA-ATCAA
784670 TTAAATCAA
1 TTAAATCAA
784679 TTAAATCAA
1 TTAAATCAA
784688 ACCCAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
8 3 0.08
9 33 0.87
10 2 0.05
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (9 bp):
TTAAATCAA
Found at i:788706 original size:64 final size:63
Alignment explanation
Indices: 788573--788729 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
788563 TAATGAGGGT
* * * ** *
788573 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
788637 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
788699 G
63 G
*
788700 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
788730 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:792601 original size:16 final size:16
Alignment explanation
Indices: 792580--792613 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
792570 ACTTATAATT
792580 AAAAAACATTTAACTA
1 AAAAAACATTTAACTA
*
792596 AAAAAACATTTGACTA
1 AAAAAACATTTAACTA
792612 AA
1 AA
792614 CAAAGTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAACATTTAACTA
Found at i:805004 original size:31 final size:31
Alignment explanation
Indices: 804909--805004 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
804899 AACATTTAAA
804909 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
* ** * ** * *
804940 AGTTTAGGGA-TGAAAGTATAAT--GTTTAAA
1 AGTTTAAGGACT-AATTTAGAATGAGAGTCAT
804969 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
805000 AGTTT
1 AGTTT
805005 GAATATGAAT
Statistics
Matches: 45, Mismatches: 16, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
29 19 0.42
30 2 0.04
31 24 0.53
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (31 bp):
AGTTTAAGGACTAATTTAGAATGAGAGTCAT
Found at i:805013 original size:60 final size:60
Alignment explanation
Indices: 804846--805054 Score: 246
Period size: 60 Copynumber: 3.5 Consensus size: 60
804836 CGGCACATTC
* * * * *
804846 AAAAGTTTGAGAACTAATTTATAAAGAG-GCTCATAGTTTAGGTATGAAAGTATAACATTT
1 AAAAGTTTAAGGACTAATTTAGAATGAGAG-TCATAGTTTAGGTATGAAAGTATAATATTT
* *
804906 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAAGTATAATGTTT
1 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGTATGAAAGTATAATATTT
* ** *
804966 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTT-GAATATGAATTTGA-AATATTC
1 AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAG-GTATGAAAGT-ATAATATTT
*
805026 AAAAGTTTAAGGA-TCAATTTAAAATGAGA
1 AAAAGTTTAAGGACT-AATTTAGAATGAGA
805055 TTTATTATTT
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
59 2 0.02
60 127 0.97
61 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAGGTATGAAAGTATAATATTT
Found at i:805689 original size:37 final size:37
Alignment explanation
Indices: 805599--805695 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
805589 CCTTTTCGTC
*
805599 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
805636 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** *
805673 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
805696 GATGAGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:806171 original size:2 final size:2
Alignment explanation
Indices: 806158--806192 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
806148 CCTTATTATT
*
806158 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
806193 TTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:806249 original size:8 final size:9
Alignment explanation
Indices: 806236--806284 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
806226 TTTTTTGCGT
806236 TATATTATA
1 TATATTATA
*
806245 T-TATT-TT
1 TATATTATA
*
806252 TCTATTATA
1 TATATTATA
806261 TATA-TATA
1 TATATTATA
806269 TATATATATA
1 TATAT-TATA
806279 TATATT
1 TATATT
806285 CTTACTTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
7 2 0.06
8 16 0.48
9 6 0.18
10 9 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATTATA
Found at i:806264 original size:2 final size:2
Alignment explanation
Indices: 806257--806283 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
806247 ATTTTTCTAT
806257 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
806284 TCTTACTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:806548 original size:25 final size:25
Alignment explanation
Indices: 806519--806601 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
806509 TTTGTATATA
806519 TATTTTATCTTCATTTATTTTATTT
1 TATTTTATCTTCATTTATTTTATTT
*
806544 TATTTTA--TTCAATTTCATTTTTTTT
1 TATTTTATCTTC-ATTT-ATTTTATTT
* * *
806569 TGTTTCATC--CAATTATTTTATGTT
1 TATTTTATCTTCATTTATTTTAT-TT
806593 TATTATTAT
1 TATT-TTAT
806602 TGGTTTCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
23 9 0.20
24 12 0.27
25 24 0.53
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTTTATCTTCATTTATTTTATTT
Found at i:810892 original size:19 final size:18
Alignment explanation
Indices: 810868--810917 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
810858 GCAAAGAAGC
810868 AAAAAAGAAGAAAACAAAA
1 AAAAAAGAA-AAAACAAAA
*
810887 AAAAAAGAAAGAACAAAA
1 AAAAAAGAAAAAACAAAA
*
810905 ATCAAAAGAAAAA
1 A-AAAAAGAAAAA
810918 GGGACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.82, C:0.06, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAAACAAAA
Found at i:810904 original size:16 final size:16
Alignment explanation
Indices: 810852--810905 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
810842 GGGTAAAAAT
810852 AAAAAAGCAAAGAAGCAA
1 AAAAAAG-AAAGAA-CAA
*
810870 AAAAGAAGAAA-ACAAAA
1 AAAA-AAGAAAGA-ACAA
810887 AAAAAAGAAAGAACAA
1 AAAAAAGAAAGAACAA
810903 AAA
1 AAA
810906 TCAAAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 12 0.39
17 8 0.26
18 8 0.26
19 3 0.10
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAACAA
Found at i:813767 original size:106 final size:106
Alignment explanation
Indices: 812492--813766 Score: 1942
Period size: 106 Copynumber: 12.0 Consensus size: 106
812482 ATAACGTGCC
* * *
812492 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* * *
812556 CAAATTCAAAGCCAATTTCAACTTCACATCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** *
812598 ACTCCAGACAACACAAGTTCAACTTCACGACGAAAAGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
812663 AATTTCAGAACCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
812704 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGAGACCGATGGTTGTCAATAAACAA-TTTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
812768 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
812809 ACTCAAGACAACTCAAGTTCAACTTTATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
812874 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
812915 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAACAAAAAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
812980 AATTTCAGAGCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
813021 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
813086 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
813127 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
813192 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
813233 ACTCCAGACAATGTAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
813298 AATTTCGGAGTCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
813339 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
813404 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
813445 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
813510 AATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
813551 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
813616 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
813657 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
813722 GATTCCAGAGCCAATTTCAACTTCACGATGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
813763 ACTC
1 ACTC
813767 GGAACAATGC
Statistics
Matches: 1074, Mismatches: 93, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
105 92 0.09
106 980 0.91
107 2 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:814606 original size:37 final size:37
Alignment explanation
Indices: 814516--814620 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
814506 CATTTTCGTC
* *
814516 CTACTAGGATTCAAACTCCTAAAAATAAGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
814553 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
814590 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
814621 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:815080 original size:2 final size:2
Alignment explanation
Indices: 815067--815105 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
815057 CCTTATTATT
*
815067 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
815106 TTAATTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:815376 original size:16 final size:16
Alignment explanation
Indices: 815326--815376 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
815316 ATTATATGTA
815326 TATTTATT-TTTCA-TT
1 TATTTATTATTT-ATTT
*
815341 TATTTATTA-TTATTAC
1 TATTTATTATTTATT-T
815357 TATTTATTATTTATTT
1 TATTTATTATTTATTT
815373 TATT
1 TATT
815377 ATACATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.37
16 13 0.43
17 5 0.17
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATTATTTATTT
Found at i:815391 original size:2 final size:2
Alignment explanation
Indices: 815384--815424 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
815374 ATTATACATT
815384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
815425 TTTATTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:816383 original size:16 final size:16
Alignment explanation
Indices: 816362--816395 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
816352 TCTTGAATTC
816362 AAACAGTTTCATCTAT
1 AAACAGTTTCATCTAT
816378 AAACAGTTTCATCTAT
1 AAACAGTTTCATCTAT
816394 AA
1 AA
816396 TGTGTATGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (16 bp):
AAACAGTTTCATCTAT
Found at i:821192 original size:23 final size:24
Alignment explanation
Indices: 821166--821216 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
821156 AATTAGATTA
* *
821166 CAGGG-CGCGAAATGACAAAATTT
1 CAGGGACGCAAAATAACAAAATTT
* *
821189 CAGGGATGCAAAATAATAAAATTT
1 CAGGGACGCAAAATAACAAAATTT
821213 CAGG
1 CAGG
821217 AGTGTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.20
Consensus pattern (24 bp):
CAGGGACGCAAAATAACAAAATTT
Found at i:821354 original size:49 final size:49
Alignment explanation
Indices: 821287--821424 Score: 240
Period size: 49 Copynumber: 2.8 Consensus size: 49
821277 AAATTCAGGT
* * *
821287 CATCCCTATCTTCAACAGCCCAAGCCTTTGACAACTGCAGCCTTCGGTC
1 CATCCCTGTTTTCGACAGCCCAAGCCTTTGACAACTGCAGCCTTCGGTC
821336 CATCCCTGTTTTCGACAGCCCAAGCCTTTGACAACTGCAGCCTTCGGTC
1 CATCCCTGTTTTCGACAGCCCAAGCCTTTGACAACTGCAGCCTTCGGTC
*
821385 CATCCCTGTTTTCGACAGCCCGAGCCTTTGACAACTGCAG
1 CATCCCTGTTTTCGACAGCCCAAGCCTTTGACAACTGCAG
821425 TGTTGCTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 85 1.00
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.25
Consensus pattern (49 bp):
CATCCCTGTTTTCGACAGCCCAAGCCTTTGACAACTGCAGCCTTCGGTC
Found at i:823728 original size:30 final size:30
Alignment explanation
Indices: 823693--823761 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
823683 TAAATTATTC
*
823693 ATTTTATAATCGTTTTGA-T-TTTTATTAAT
1 ATTTTATAAT-GTTGTGAGTATTTTATTAAT
823722 ATTTT-TAATGTTGTGATGTATTTTATTAAT
1 ATTTTATAATGTTGTGA-GTATTTTATTAAT
*
823752 GTTTTTATAA
1 -ATTTTATAA
823762 CACAGGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 6 0.18
28 4 0.12
29 6 0.18
30 10 0.30
31 4 0.12
32 3 0.09
ACGTcount: A:0.28, C:0.01, G:0.10, T:0.61
Consensus pattern (30 bp):
ATTTTATAATGTTGTGAGTATTTTATTAAT
Found at i:825001 original size:16 final size:16
Alignment explanation
Indices: 824982--825015 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
824972 CAATATACGA
824982 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
824998 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
825014 AT
1 AT
825016 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:825089 original size:16 final size:18
Alignment explanation
Indices: 825057--825090 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
825047 TATTAATGTA
825057 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
825075 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
825091 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:825765 original size:130 final size:130
Alignment explanation
Indices: 825561--825808 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
825551 AATTTTCTTC
*
825561 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCAGGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCAGGATCATGTGCTAACACATGTCAGAT
* **
825626 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * * *
825691 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTTAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCAGGATCATGTGCTAACACATGTCAGAT
825756 CATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
825809 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCAGGATCATGTGCTAACACATGTCAGAT
CATAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:826255 original size:35 final size:35
Alignment explanation
Indices: 826205--826280 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
826195 AATTGAATTG
** *
826205 AATTGAATTGTTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
826240 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
826275 AATTGA
1 AATTGA
826281 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:831402 original size:16 final size:16
Alignment explanation
Indices: 831368--831416 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
831358 CTTTTTGCAC
*
831368 ATATGTTTTATGTATAAT
1 ATATGTTTT-TTTA-AAT
831386 ATATGTTTTTTTAAAT
1 ATATGTTTTTTTAAAT
*
831402 ATATTTATTTTTTAA
1 ATATGT-TTTTTTAA
831417 TATTTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.29
17 11 0.39
18 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATATGTTTTTTTAAAT
Found at i:831418 original size:16 final size:16
Alignment explanation
Indices: 831368--831419 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
831358 CTTTTTGCAC
*
831368 ATATGTTTTATGTATAAT
1 ATATGTTTT-T-TTTAAT
*
831386 ATATGTTTTTTTAAAT
1 ATATGTTTTTTTTAAT
831402 ATAT-TTATTTTTTAAT
1 ATATGTT-TTTTTTAAT
831418 AT
1 AT
831420 TTAATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 18 0.60
17 1 0.03
18 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
ATATGTTTTTTTTAAT
Found at i:832273 original size:19 final size:19
Alignment explanation
Indices: 832249--832285 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
832239 ATGACCAACA
*
832249 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
832268 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
832286 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:832415 original size:20 final size:20
Alignment explanation
Indices: 832392--832462 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
832382 GAATATGTAA
832392 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
832412 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
832432 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
832453 GTCGCAACGC
1 ATCGCAACGC
832463 TGAATTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 24 0.56
21 15 0.35
22 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:833308 original size:24 final size:24
Alignment explanation
Indices: 833281--833334 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
833271 GTATTCGAAA
833281 TTTGATATTGGTCAATACACGGAC
1 TTTGATATTGGTCAATACACGGAC
* * *
833305 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACACGGAC
833329 TTTGAT
1 TTTGAT
833335 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:833517 original size:3 final size:3
Alignment explanation
Indices: 833509--833535 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
833499 ATATAACCCT
833509 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
833536 ATCCTCGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:833556 original size:14 final size:14
Alignment explanation
Indices: 833527--833563 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
833517 AGAAGAAGAA
833527 GAAGAAGAAATCCTC
1 GAAGAA-AAATCCTC
*
833542 GAAGAAAAGTCCTC
1 GAAGAAAAATCCTC
833556 GAAGAAAA
1 GAAGAAAA
833564 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (14 bp):
GAAGAAAAATCCTC
Found at i:835631 original size:18 final size:18
Alignment explanation
Indices: 835599--835633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
835589 AGAAAAATGC
**
835599 AATCAAAATTGCAATCAA
1 AATCAAAATCCCAATCAA
835617 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
835634 CAACCAGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:835943 original size:140 final size:140
Alignment explanation
Indices: 835691--835973 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
835681 ACAAACGTTG
*
835691 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGTATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
835756 TTGAACATTACTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTAAACATTACTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
835821 CGAATTTGAC
131 CGAATTTGAC
835831 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
835896 TTAAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTAAACATTACTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
835961 CGAATTTGAC
131 CGAATTTGAC
835971 TAT
1 TAT
835974 CGCAACGCGA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTAAACATTACTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:835969 original size:20 final size:20
Alignment explanation
Indices: 835944--836038 Score: 145
Period size: 20 Copynumber: 4.8 Consensus size: 20
835934 TTACACATTC
*
835944 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
835964 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
835984 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* **
836004 ATTTGACTATCACAACATGA
1 ATTTGACTATCGCAACGCGA
836024 ATTTGACTATCGCAA
1 ATTTGACTATCGCAA
836039 TGAGAAAATC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:836223 original size:36 final size:36
Alignment explanation
Indices: 836182--836290 Score: 119
Period size: 36 Copynumber: 3.3 Consensus size: 36
836172 TTACATTCCA
836182 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
* * *
836218 ATCAA-T---TAA--ACAAAT--CAACT-TTTACAA
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
*
836245 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
836281 ATCAATTAAA
1 ATCAATTAAA
836291 CAAATCAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
27 11 0.19
28 4 0.07
30 6 0.11
31 2 0.04
32 3 0.05
33 6 0.11
35 4 0.07
36 21 0.37
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.28
Consensus pattern (36 bp):
ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
Found at i:836265 original size:63 final size:63
Alignment explanation
Indices: 836162--836312 Score: 257
Period size: 63 Copynumber: 2.3 Consensus size: 63
836152 ATGCAGATTG
*
836162 AAATCAACTTTTACATTCCAATCAATTAAATAAGCACAAATAAGAATTATTTACACATCAATTAA
1 AAATCAACTTTTACA----AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAA
836227 AC
62 AC
836229 AAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAAC
1 AAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAAC
836292 AAATCAACTTTTACAAATCAA
1 AAATCAACTTTTACAAATCAA
836313 CTTTTACAAA
Statistics
Matches: 83, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
63 68 0.82
67 15 0.18
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (63 bp):
AAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAAC
Found at i:836309 original size:14 final size:14
Alignment explanation
Indices: 836290--836326 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
836280 CATCAATTAA
836290 ACAAATCAACTTTT
1 ACAAATCAACTTTT
836304 ACAAATCAACTTTT
1 ACAAATCAACTTTT
836318 ACAAATCAA
1 ACAAATCAA
836327 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:837771 original size:42 final size:42
Alignment explanation
Indices: 837712--837834 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
837702 ATGAATCGGG
*
837712 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
* ** *
837754 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACCTCTTGAACGATGACAGGGGC
* * *
837796 CTTTTGAATGATAGGAGAGG-CCTCTTGAACGATGACAGG
1 CTCTTGAATGGTGGGAG-GGACCTCTTGAACGATGACAGG
837835 TGAGTCGAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 61 0.92
43 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:837772 original size:21 final size:21
Alignment explanation
Indices: 837712--837826 Score: 79
Period size: 21 Copynumber: 5.5 Consensus size: 21
837702 ATGAATCGGG
* *
837712 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
837733 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
837754 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
837775 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * * * *
837796 CTTTTGAATGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
837817 CTCTTGAACG
1 CTCTTGAACG
837827 ATGACAGGTG
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 3 0.04
21 63 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:838360 original size:19 final size:20
Alignment explanation
Indices: 838319--838361 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
838309 AATAGTTTCT
*
838319 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGCAACAC
* *
838339 GAAACTT-AAATTGCAACGC
1 GAAACTTAAAATCGCAACAC
838358 GAAA
1 GAAA
838362 ATGACTATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:838376 original size:20 final size:20
Alignment explanation
Indices: 838351--838390 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
838341 AACTTAAATT
838351 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
**
838371 GCAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
838391 ACAATGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:838437 original size:14 final size:14
Alignment explanation
Indices: 838418--838448 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
838408 ATGCGAAATA
838418 AAAATCGCAACGAG
1 AAAATCGCAACGAG
*
838432 AAAATCGCAACGCG
1 AAAATCGCAACGAG
838446 AAA
1 AAA
838449 CTAAATTCAC
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:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAG
Found at i:838511 original size:33 final size:34
Alignment explanation
Indices: 838464--838533 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
838454 TTCACATTGT
* *
838464 GATTTTCATTTTCGCATTGCGATTTTCTCGTTGC
1 GATTTTCATTTTCGCATTGCGATTATCCCGTTGC
*
838498 GATTTTTA-TTTCGCATTGCGATTATCCCGTTGC
1 GATTTTCATTTTCGCATTGCGATTATCCCGTTGC
838531 GAT
1 GAT
838534 AATCAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (34 bp):
GATTTTCATTTTCGCATTGCGATTATCCCGTTGC
Found at i:838554 original size:20 final size:20
Alignment explanation
Indices: 838525--838570 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
838515 GCGATTATCC
838525 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
* * **
838545 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAATCAAATTCG
838565 CGTTGC
1 CGTTGC
838571 AATTTTTAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:840491 original size:20 final size:20
Alignment explanation
Indices: 840468--840541 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
840458 TCTGAAACTT
840468 AAAATCACAACACGAAAATG
1 AAAATCACAACACGAAAATG
* *
840488 AAAATCGCAACACG--ACT-
1 AAAATCACAACACGAAAATG
* *
840505 ---ATCGCAACGC-AAAATG
1 AAAATCACAACACGAAAATG
840521 AAAATCACAACACGAAAATG
1 AAAATCACAACACGAAAATG
840541 A
1 A
840542 CTATCGCAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
14 9 0.22
15 2 0.05
18 2 0.05
19 8 0.20
20 20 0.49
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (20 bp):
AAAATCACAACACGAAAATG
Found at i:840551 original size:20 final size:20
Alignment explanation
Indices: 840501--840567 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
840491 ATCGCAACAC
840501 GACTATCGCAACGC-AAAAT
1 GACTATCGCAACGCGAAAAT
** * *
840520 GAAAATCACAACACGAAAAT
1 GACTATCGCAACGCGAAAAT
**
840540 GACTATCGCAACGCGAATTT
1 GACTATCGCAACGCGAAAAT
840560 GACTATCG
1 GACTATCG
840568 TTGCGATTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
GACTATCGCAACGCGAAAAT
Found at i:840968 original size:22 final size:22
Alignment explanation
Indices: 840940--840991 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
840930 AGATGGAGAT
840940 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGTCGGAGATGG
* *
840962 GGACGGATTTCGTTGGAGATGG
1 AGACGGATTTCGTCGGAGATGG
840984 AGACGGAT
1 AGACGGAT
840992 GTCGCCGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.42, T:0.23
Consensus pattern (22 bp):
AGACGGATTTCGTCGGAGATGG
Found at i:841188 original size:20 final size:20
Alignment explanation
Indices: 841163--841209 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
841153 TATTATCGCA
841163 TTGCGATAGTCATTTTCATG
1 TTGCGATAGTCATTTTCATG
*
841183 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCATG
841203 TTGCGAT
1 TTGCGAT
841210 TTAGAGATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCATG
Found at i:843391 original size:38 final size:38
Alignment explanation
Indices: 843349--843478 Score: 111
Period size: 40 Copynumber: 3.2 Consensus size: 38
843339 TAGATAGCAT
843349 AAATTTAATTTTGGAATAAATATCATAATTATACATTA
1 AAATTTAATTTTGGAATAAATATCATAATTATACATTA
* * ** *
843387 AAATTTAAAGCTTTT-AAATATATATTGTAAGT-TACATTGA
1 AAATTT-AA--TTTTGGAATAAATATCATAATTATACATT-A
843427 TTTAAAGCTTTTAATTTTGGAATAAATATCATAATTATACATTA
1 ---AAA---TTTAATTTTGGAATAAATATCATAATTATACATTA
843471 AAATTTAA
1 AAATTTAA
843479 AGCTTTTAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
38 11 0.16
39 8 0.11
40 13 0.19
41 7 0.10
43 7 0.10
44 13 0.19
45 8 0.11
46 3 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (38 bp):
AAATTTAATTTTGGAATAAATATCATAATTATACATTA
Found at i:843432 original size:37 final size:37
Alignment explanation
Indices: 843389--843513 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 37
843379 ATACATTAAA
843389 ATTTAAAGCTTTTAAATATATATTGTAAGTTACATTG
1 ATTTAAAGCTTTTAAATATATATTGTAAGTTACATTG
* ** * *
843426 ATTTAAAGCTTTTAATTTTGGAATAAATATCATAATTATACATTAAA
1 ATTTAAAGCTTTT-A------AATATATATTGTAAGT-TACATT--G
843473 ATTTAAAGCTTTTAAATATATATTGTAAGTTACATTG
1 ATTTAAAGCTTTTAAATATATATTGTAAGTTACATTG
843510 ATTT
1 ATTT
843514 TAACCGCTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
37 17 0.25
38 1 0.01
39 6 0.09
40 12 0.18
44 12 0.18
45 6 0.09
46 1 0.01
47 13 0.19
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (37 bp):
ATTTAAAGCTTTTAAATATATATTGTAAGTTACATTG
Found at i:843449 original size:84 final size:84
Alignment explanation
Indices: 843352--843513 Score: 324
Period size: 84 Copynumber: 1.9 Consensus size: 84
843342 ATAGCATAAA
843352 TTTAATTTTGGAATAAATATCATAATTATACATTAAAATTTAAAGCTTTTAAATATATATTGTAA
1 TTTAATTTTGGAATAAATATCATAATTATACATTAAAATTTAAAGCTTTTAAATATATATTGTAA
843417 GTTACATTGATTTAAAGCT
66 GTTACATTGATTTAAAGCT
843436 TTTAATTTTGGAATAAATATCATAATTATACATTAAAATTTAAAGCTTTTAAATATATATTGTAA
1 TTTAATTTTGGAATAAATATCATAATTATACATTAAAATTTAAAGCTTTTAAATATATATTGTAA
843501 GTTACATTGATTT
66 GTTACATTGATTT
843514 TAACCGCTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (84 bp):
TTTAATTTTGGAATAAATATCATAATTATACATTAAAATTTAAAGCTTTTAAATATATATTGTAA
GTTACATTGATTTAAAGCT
Found at i:845673 original size:19 final size:19
Alignment explanation
Indices: 845651--845689 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
845641 ACTCGATTCG
845651 ATTTAAAAAATAAAATAAA
1 ATTTAAAAAATAAAATAAA
**
845670 ATTTAAATTATAAAATAAA
1 ATTTAAAAAATAAAATAAA
845689 A
1 A
845690 CTTTTCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAAAATAAAATAAA
Found at i:847896 original size:18 final size:19
Alignment explanation
Indices: 847858--847897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
847848 TGGTGGCGGT
* *
847858 TGTATGAATCTTGAAATAC
1 TGTATGAATCATGAAACAC
847877 TGTATGAAT-ATGAAACAC
1 TGTATGAATCATGAAACAC
847895 TGT
1 TGT
847898 TACTGTATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATGAATCATGAAACAC
Found at i:848381 original size:25 final size:25
Alignment explanation
Indices: 848352--848421 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
848342 ATCGAAACCT
848352 GTACAAGCTGCGGTGGCATCGACCC
1 GTACAAGCTGCGGTGGCATCGACCC
848377 GTACAAGCTGCGGTGGCATCGACCC
1 GTACAAGCTGCGGTGGCATCGACCC
*
848402 ATACAAGCTGCGGTGGCATC
1 GTACAAGCTGCGGTGGCATC
848422 AGCTCTGGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.21, C:0.30, G:0.31, T:0.17
Consensus pattern (25 bp):
GTACAAGCTGCGGTGGCATCGACCC
Found at i:849646 original size:145 final size:146
Alignment explanation
Indices: 849382--849674 Score: 579
Period size: 145 Copynumber: 2.0 Consensus size: 146
849372 TTATTATAGA
849382 AGGTTGAGTTCAGTTTCTTCTTCTGACAAATTTTCCCCCAAATGGACACTTTGTTTCTTAATTAT
1 AGGTTGAGTTCAGTTTCTTCTTCTGACAAATTTTCCCCCAAATGGACACTTTGTTTCTTAATTAT
849447 GATTTATGTGTGCCATTTTTTGAATGTAAAAACTTATTTTGGTATCGTTAAGAGTAGCCTAAGAG
66 GATTTATGTGTGCCATTTTTTGAATGTAAAAACTTATTTTGGTATCGTTAAGAGTAGCCTAAGAG
849512 TGCAATGTTTATTTTC
131 TGCAATGTTTATTTTC
849528 AGGTTGAGTTCAGTTTCTTCTTCTGACAAATTTT-CCCCAAATGGACACTTTGTTTCTTAATTAT
1 AGGTTGAGTTCAGTTTCTTCTTCTGACAAATTTTCCCCCAAATGGACACTTTGTTTCTTAATTAT
849592 GATTTATGTGTGCCATTTTTTGAATGTAAAAACTTATTTTGGTATCGTTAAGAGTAGCCTAAGAG
66 GATTTATGTGTGCCATTTTTTGAATGTAAAAACTTATTTTGGTATCGTTAAGAGTAGCCTAAGAG
849657 TGCAATGTTTATTTTC
131 TGCAATGTTTATTTTC
849673 AG
1 AG
849675 AGATTGATAT
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 113 0.77
146 34 0.23
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (146 bp):
AGGTTGAGTTCAGTTTCTTCTTCTGACAAATTTTCCCCCAAATGGACACTTTGTTTCTTAATTAT
GATTTATGTGTGCCATTTTTTGAATGTAAAAACTTATTTTGGTATCGTTAAGAGTAGCCTAAGAG
TGCAATGTTTATTTTC
Found at i:853727 original size:26 final size:25
Alignment explanation
Indices: 853681--853730 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
853671 AAAAAAATTT
853681 CTCAGGAGATAAAAATTATGAATTAA
1 CTCAGGAGATAAAAA-TATGAATTAA
853707 CTCAGGAGATAGAGAAA-ATGAATT
1 CTCAGGAGATA-A-AAATATGAATT
853731 TTTATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 18 0.82
27 1 0.05
28 3 0.14
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (25 bp):
CTCAGGAGATAAAAATATGAATTAA
Found at i:858318 original size:200 final size:200
Alignment explanation
Indices: 857975--858369 Score: 790
Period size: 200 Copynumber: 2.0 Consensus size: 200
857965 AAAGATGAAT
857975 TTTTTATAAGGGATGATGTAGGTTTTATTTGTTCAAATGAGGTGAATATTATAATGTTTAAGGAA
1 TTTTTATAAGGGATGATGTAGGTTTTATTTGTTCAAATGAGGTGAATATTATAATGTTTAAGGAA
858040 AACATCTGAATTATCTGATGTCTTTGAAAGAAGACACAACGTCTTCTCGTGTGTTTGTTTAGGAA
66 AACATCTGAATTATCTGATGTCTTTGAAAGAAGACACAACGTCTTCTCGTGTGTTTGTTTAGGAA
858105 AGACGTCGAGTTTTTTATGTGTATTTATGAAACGTCTTCTCTACAATGGGTGACCCGATAATCTT
131 AGACGTCGAGTTTTTTATGTGTATTTATGAAACGTCTTCTCTACAATGGGTGACCCGATAATCTT
858170 GTTTC
196 GTTTC
858175 TTTTTATAAGGGATGATGTAGGTTTTATTTGTTCAAATGAGGTGAATATTATAATGTTTAAGGAA
1 TTTTTATAAGGGATGATGTAGGTTTTATTTGTTCAAATGAGGTGAATATTATAATGTTTAAGGAA
858240 AACATCTGAATTATCTGATGTCTTTGAAAGAAGACACAACGTCTTCTCGTGTGTTTGTTTAGGAA
66 AACATCTGAATTATCTGATGTCTTTGAAAGAAGACACAACGTCTTCTCGTGTGTTTGTTTAGGAA
858305 AGACGTCGAGTTTTTTATGTGTATTTATGAAACGTCTTCTCTACAATGGGTGACCCGATAATCTT
131 AGACGTCGAGTTTTTTATGTGTATTTATGAAACGTCTTCTCTACAATGGGTGACCCGATAATCTT
858370 TACCTATGTA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 195 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (200 bp):
TTTTTATAAGGGATGATGTAGGTTTTATTTGTTCAAATGAGGTGAATATTATAATGTTTAAGGAA
AACATCTGAATTATCTGATGTCTTTGAAAGAAGACACAACGTCTTCTCGTGTGTTTGTTTAGGAA
AGACGTCGAGTTTTTTATGTGTATTTATGAAACGTCTTCTCTACAATGGGTGACCCGATAATCTT
GTTTC
Found at i:858767 original size:15 final size:16
Alignment explanation
Indices: 858749--858778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
858739 TCCAGTAAGC
858749 TCTT-CTACTCAAATT
1 TCTTCCTACTCAAATT
858764 TCTTCCTACTCAAAT
1 TCTTCCTACTCAAAT
858779 GCTTGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (16 bp):
TCTTCCTACTCAAATT
Found at i:859264 original size:21 final size:21
Alignment explanation
Indices: 859221--859260 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
859211 ATATTCCGAT
*
859221 ATATATTGACTAAATTTATTG
1 ATATATTGACTAAATTCATTG
*
859242 ATATATTG-CTCAATTCATT
1 ATATATTGACTAAATTCATT
859261 TGATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
ATATATTGACTAAATTCATTG
Found at i:869917 original size:16 final size:15
Alignment explanation
Indices: 869896--869944 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
869886 TAACTGTATA
869896 TTTAAAAAATAATAAT
1 TTTAAAAAAT-ATAAT
*
869912 TTTAAAATCATATAAT
1 TTTAAAA-AATATAAT
* *
869928 ATTAAAATATATAAT
1 TTTAAAAAATATAAT
869943 TT
1 TT
869945 GAGATGTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 8 0.29
16 18 0.64
17 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAAATATAAT
Found at i:869918 original size:15 final size:15
Alignment explanation
Indices: 869901--869944 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
869891 GTATATTTAA
869901 AAAATA-ATAATTTT
1 AAAATATATAATTTT
*
869915 AAAATCATATAATATT
1 AAAAT-ATATAATTTT
869931 AAAATATATAATTT
1 AAAATATATAATTT
869945 GAGATGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 5 0.19
15 9 0.35
16 12 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATATAATTTT
Found at i:873402 original size:221 final size:221
Alignment explanation
Indices: 873019--873460 Score: 884
Period size: 221 Copynumber: 2.0 Consensus size: 221
873009 TCGAGACATC
873019 TGGCGATGCTGCCACGCGGTGGGAGGCTGCTTAGCTTGTTGATTAGAGTCTCGACGTCGTAGCTG
1 TGGCGATGCTGCCACGCGGTGGGAGGCTGCTTAGCTTGTTGATTAGAGTCTCGACGTCGTAGCTG
873084 TACTTGCCTTTTTCTACGGTCACGGCGGGGTTTCCGAGGACAATCTCTCGACCCTTTGCTCTGCA
66 TACTTGCCTTTTTCTACGGTCACGGCGGGGTTTCCGAGGACAATCTCTCGACCCTTTGCTCTGCA
873149 TATTCCAGCGCTGCCGGAGAGGAAGCTACGGTTGCCGCCGGTGAATATTCGAGTGGAAGAGAGGT
131 TATTCCAGCGCTGCCGGAGAGGAAGCTACGGTTGCCGCCGGTGAATATTCGAGTGGAAGAGAGGT
873214 GCAGCCGGTCAATTGAAAGATTAGGA
196 GCAGCCGGTCAATTGAAAGATTAGGA
873240 TGGCGATGCTGCCACGCGGTGGGAGGCTGCTTAGCTTGTTGATTAGAGTCTCGACGTCGTAGCTG
1 TGGCGATGCTGCCACGCGGTGGGAGGCTGCTTAGCTTGTTGATTAGAGTCTCGACGTCGTAGCTG
873305 TACTTGCCTTTTTCTACGGTCACGGCGGGGTTTCCGAGGACAATCTCTCGACCCTTTGCTCTGCA
66 TACTTGCCTTTTTCTACGGTCACGGCGGGGTTTCCGAGGACAATCTCTCGACCCTTTGCTCTGCA
873370 TATTCCAGCGCTGCCGGAGAGGAAGCTACGGTTGCCGCCGGTGAATATTCGAGTGGAAGAGAGGT
131 TATTCCAGCGCTGCCGGAGAGGAAGCTACGGTTGCCGCCGGTGAATATTCGAGTGGAAGAGAGGT
873435 GCAGCCGGTCAATTGAAAGATTAGGA
196 GCAGCCGGTCAATTGAAAGATTAGGA
873461 GGCTGCGTGA
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 221 1.00
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (221 bp):
TGGCGATGCTGCCACGCGGTGGGAGGCTGCTTAGCTTGTTGATTAGAGTCTCGACGTCGTAGCTG
TACTTGCCTTTTTCTACGGTCACGGCGGGGTTTCCGAGGACAATCTCTCGACCCTTTGCTCTGCA
TATTCCAGCGCTGCCGGAGAGGAAGCTACGGTTGCCGCCGGTGAATATTCGAGTGGAAGAGAGGT
GCAGCCGGTCAATTGAAAGATTAGGA
Found at i:877708 original size:130 final size:130
Alignment explanation
Indices: 877462--877709 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
877452 TATTTATATA
*
877462 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
877527 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACATAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACATAATTATTTATATATGCT
877592 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * * * *
877657 TTAACATATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACATAATTA
877710 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACATAATTATTTATATATGCT
Found at i:877740 original size:130 final size:129
Alignment explanation
Indices: 877476--877740 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
877466 ATTTGGTCCT
* *
877476 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
877541 TGACACGTGTCATTGGTGACACGTGTTACCACATAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACATAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
877606 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACATATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * * *
877671 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACATAATT--AAGAAAA-TAAGCTATCAAAGAAGT
877735 -A
128 CA
877736 AAATT
1 AAATT
877741 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACATAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:878068 original size:28 final size:27
Alignment explanation
Indices: 878037--878099 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
878027 AGTTGATACA
*
878037 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
878065 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
878093 ATATTTT
1 ATATTTT
878100 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:878194 original size:15 final size:16
Alignment explanation
Indices: 878170--878206 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
878160 TTTAATTTCT
878170 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
878184 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
878200 TGATTCA
1 T-ATTCA
878207 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:878353 original size:21 final size:21
Alignment explanation
Indices: 878329--878371 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
878319 TATTACCTTA
878329 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
878350 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
878371 A
1 A
878372 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:878389 original size:35 final size:35
Alignment explanation
Indices: 878340--878425 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
878330 ATTGAAGTAT
** * *
878340 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
878375 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
878410 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
878426 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:882549 original size:17 final size:17
Alignment explanation
Indices: 882506--882557 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
882496 TCTACAGTAG
*
882506 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
882523 --ACTCAGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
882538 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
882555 AAA
1 AAA
882558 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:883015 original size:2 final size:2
Alignment explanation
Indices: 883008--883042 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
882998 ATTATTAATA
883008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
883043 AATAAAGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:886808 original size:17 final size:17
Alignment explanation
Indices: 886781--886819 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
886771 AATTTACAAT
886781 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
886797 TAATTATAAATAATATC
1 TAATTATAAATAATATC
886814 TAATTA
1 TAATTA
886820 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Done.