Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 38
Found at i:7240262 original size:20 final size:19
Alignment explanation
Indices: 7240237--7240294 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
7240227 ATAAAATGAA
7240237 ATATATAAAATAATAAATAT
1 ATATATAAAAT-ATAAATAT
* *
7240257 ATATATAACATATAATTAT
1 ATATATAAAATATAAATAT
*
7240276 AGTA-ATAAAA-ATATATAT
1 A-TATATAAAATATAAATAT
7240294 A
1 A
7240295 AATAATAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 7 0.22
19 13 0.41
20 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATATAAAATATAAATAT
Found at i:7241966 original size:110 final size:110
Alignment explanation
Indices: 7241824--7242028 Score: 304
Period size: 110 Copynumber: 1.9 Consensus size: 110
7241814 TCTGGAAATT
* * *
7241824 GTTTGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGCCTCGAGTTCAATATC
1 GTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGCCTCGAGTCCAATATC
7241889 -CTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTG
66 AC-TCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTG
* * * *
7241934 GTTTGTTGACAATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATC
1 GTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGCCTCGAGTCCAATATC
* * *
7241999 ACTCGTTGTGAAGTTGAAATTGGCTCTGAA
66 ACTCGCTGTGAAGTTAAAATTGACTCTGAA
7242029 ACTGGGAAGC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 83 0.99
111 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (110 bp):
GTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGCCTCGAGTCCAATATC
ACTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAGTG
Found at i:7243054 original size:16 final size:16
Alignment explanation
Indices: 7243033--7243063 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7243023 TGAACCACCT
7243033 TATTTTTTGTTCTTTC
1 TATTTTTTGTTCTTTC
7243049 TATTTTTTGTTCTTT
1 TATTTTTTGTTCTTT
7243064 TTTCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTGTTCTTTC
Found at i:7253396 original size:17 final size:17
Alignment explanation
Indices: 7253374--7253552 Score: 58
Period size: 16 Copynumber: 10.7 Consensus size: 17
7253364 ACAAATATAA
7253374 AAAATATATATAAAAAT
1 AAAATATATATAAAAAT
*
7253391 AAAATACATA-AAATAA-
1 AAAATATATATAAA-AAT
* * *
7253407 AGAAGATA-ATAACAAT
1 AAAATATATATAAAAAT
* *
7253423 AACAATACAAAAATAAAAAT
1 AA-AAT--ATATATAAAAAT
* *
7253443 AGAAGATA-A-AAAAAT
1 AAAATATATATAAAAAT
*
7253458 GAAATATATA-AAATAAT
1 AAAATATATATAAA-AAT
*
7253475 -AAATATATAT-AACAT
1 AAAATATATATAAAAAT
* *
7253490 -ATA-AT-TATAATAAT
1 AAAATATATATAAAAAT
*
7253504 AAAA-ATATATATAAAT
1 AAAATATATATAAAAAT
*
7253520 AATAATGATATATGAAAAAG
1 AA-AAT-ATATAT-AAAAAT
*
7253540 AATTATATATATA
1 AA-AATATATATA
7253553 TATATATAAC
Statistics
Matches: 120, Mismatches: 25, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
13 3 0.03
14 5 0.04
15 22 0.18
16 36 0.30
17 20 0.17
18 1 0.01
19 16 0.13
20 17 0.14
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATATATATAAAAAT
Found at i:7253436 original size:32 final size:32
Alignment explanation
Indices: 7253360--7253486 Score: 105
Period size: 33 Copynumber: 3.9 Consensus size: 32
7253350 AAAGAGGCAC
* *
7253360 AAAA-ACAAATATAAAAAATATATATAAAAAT
1 AAAATACAAAAATAAAAAAGATATATAAAAAT
* *
7253391 AAAATACATAAAATAAAGAAGATA-ATAACAAT
1 AAAATACA-AAAATAAAAAAGATATATAAAAAT
* *
7253423 AACAATACAAAAATAAAAATAGAAGATAAAAAAAT
1 AA-AATACAAAAATAAAAA-AG-ATATATAAAAAT
* * * *
7253458 GAAATATATAAAATAATAAATATATATAA
1 AAAATACA-AAAATAAAAAAGATATATAA
7253487 CATATAATTA
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
31 4 0.05
32 21 0.28
33 26 0.35
34 8 0.11
35 16 0.21
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (32 bp):
AAAATACAAAAATAAAAAAGATATATAAAAAT
Found at i:7253443 original size:14 final size:15
Alignment explanation
Indices: 7253386--7253443 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 15
7253376 AATATATATA
7253386 AAAAT-AAAATACAT
1 AAAATAAAAATACAT
7253400 AAAATAAAGAAGATA-AT
1 AAAAT-AA-AA-ATACAT
*
7253417 AACAATAACAATACA-
1 AA-AATAAAAATACAT
7253432 AAAATAAAAATA
1 AAAATAAAAATA
7253444 GAAGATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 3 0.08
17 8 0.22
18 6 0.17
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATACAT
Found at i:7253470 original size:16 final size:16
Alignment explanation
Indices: 7253448--7253524 Score: 72
Period size: 16 Copynumber: 4.8 Consensus size: 16
7253438 AAAATAGAAG
*
7253448 ATAAAAAAATGAAATAT
1 ATAAAATAAT-AAATAT
7253465 ATAAAATAATAAATAT
1 ATAAAATAATAAATAT
7253481 ATATAACAT-AT-AAT-T
1 ATA-AA-ATAATAAATAT
7253496 ATAATAATAA-AAATAT
1 ATAA-AATAATAAATAT
7253512 ATATAAATAATAA
1 ATA-AAATAATAA
7253525 TGATATATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
14 3 0.06
15 9 0.18
16 21 0.41
17 16 0.31
18 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (16 bp):
ATAAAATAATAAATAT
Found at i:7253510 original size:31 final size:31
Alignment explanation
Indices: 7253464--7253525 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
7253454 AAATGAAATA
7253464 TATAAAATAATAAATATATATAACAT-ATAAT
1 TATAAAATAATAAATATATATAA-ATAATAAT
7253495 TATAATAATAA-AAATATATATAAATAATAAT
1 TATAA-AATAATAAATATATATAAATAATAAT
7253526 GATATATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 2 0.07
31 22 0.76
32 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
TATAAAATAATAAATATATATAAATAATAAT
Found at i:7263429 original size:15 final size:15
Alignment explanation
Indices: 7263409--7263438 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7263399 GTAATATCTT
7263409 CCTTGGTATGAACCA
1 CCTTGGTATGAACCA
7263424 CCTTGGTATGAACCA
1 CCTTGGTATGAACCA
7263439 GAACACAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
CCTTGGTATGAACCA
Found at i:7263972 original size:6 final size:6
Alignment explanation
Indices: 7263958--7264034 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
7263948 GGAAAATAAA
* * * *
7263958 GATGAT GATGCT GATGCT GATGCT AATGGT GATG-T CGGTGCT GATGCT
1 GATGCT GATGCT GATGCT GATGCT GATGCT GATGCT -GATGCT GATGCT
* * *
7264006 GATGCT AATGGT GATG-T CGGTGCT GATGC
1 GATGCT GATGCT GATGCT -GATGCT GATGC
7264035 AAATGCTAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
5 2 0.04
6 52 0.93
7 2 0.04
ACGTcount: A:0.18, C:0.13, G:0.36, T:0.32
Consensus pattern (6 bp):
GATGCT
Found at i:7264000 original size:30 final size:30
Alignment explanation
Indices: 7263966--7264051 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
7263956 AAGATGATGA
7263966 TGCTGATGCTGATGCTAATGGTGATGTCGG
1 TGCTGATGCTGATGCTAATGGTGATGTCGG
7263996 TGCTGATGCTGATGCTAATGGTGATGTCGG
1 TGCTGATGCTGATGCTAATGGTGATGTCGG
**
7264026 TGCTGATGCAAATGCTAATGGTGATG
1 TGCTGATGCTGATGCTAATGGTGATG
7264052 CCAGTGTTGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.33
Consensus pattern (30 bp):
TGCTGATGCTGATGCTAATGGTGATGTCGG
Found at i:7268430 original size:22 final size:23
Alignment explanation
Indices: 7268370--7268418 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7268360 CCCCCTGTGT
7268370 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
7268393 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
7268415 GGGG
1 GGGG
7268419 ATATCGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.18, C:0.24, G:0.37, T:0.20
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:7284097 original size:47 final size:47
Alignment explanation
Indices: 7284038--7284319 Score: 361
Period size: 47 Copynumber: 6.0 Consensus size: 47
7284028 AATGCTTAAT
* * *
7284038 GCATCCTTTCATGCCTTTATTCAACCTTTCATGCATTTTTAATTATG
1 GCATCCGTTCATGCCTTTATTCATCCTTTCATGCATTTTCAATTATG
* *
7284085 CCATCCGTTCATGCCTTTATGT-ATTCTTTCATGCATTTTCAATTATG
1 GCATCCGTTCATGCCTTTAT-TCATCCTTTCATGCATTTTCAATTATG
* * * *
7284132 GAATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATG
1 GCATCCGTTCATGCCTTTATTCATCCTTTCATGCATTTTCAATTATG
* * *
7284179 GCATCTGTTCATGCCTTTATGT-ATTCTTTCATGCATTTTCAATTTTG
1 GCATCCGTTCATGCCTTTAT-TCATCCTTTCATGCATTTTCAATTATG
* * * *
7284226 GAATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATG
1 GCATCCGTTCATGCCTTTATTCATCCTTTCATGCATTTTCAATTATG
* * *
7284273 GCATCTGTTCATGCCTTTATGCAACCTTTCATGCATTTTCAATTATG
1 GCATCCGTTCATGCCTTTATTCATCCTTTCATGCATTTTCAATTATG
7284320 AAATTGATTT
Statistics
Matches: 200, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
47 199 1.00
48 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (47 bp):
GCATCCGTTCATGCCTTTATTCATCCTTTCATGCATTTTCAATTATG
Found at i:7284168 original size:94 final size:94
Alignment explanation
Indices: 7284040--7284319 Score: 452
Period size: 94 Copynumber: 3.0 Consensus size: 94
7284030 TGCTTAATGC
* * * * * * * *
7284040 ATCCTTTCATGCCTTTATTCAACCTTTCATGCATTTTTAATTATGCCATCCGTTCATGCCTTTAT
1 ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
7284105 GTATTCTTTCATGCATTTTCAATTATGGA
66 GTATTCTTTCATGCATTTTCAATTATGGA
7284134 ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
1 ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
*
7284199 GTATTCTTTCATGCATTTTCAATTTTGGA
66 GTATTCTTTCATGCATTTTCAATTATGGA
7284228 ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
1 ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
* **
7284293 GCAACCTTTCATGCATTTTCAATTATG
66 GTATTCTTTCATGCATTTTCAATTATG
7284320 AAATTGATTT
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 173 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (94 bp):
ATCCGTTCATGGCTTTATACATCTTTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTAT
GTATTCTTTCATGCATTTTCAATTATGGA
Found at i:7284189 original size:27 final size:27
Alignment explanation
Indices: 7284153--7284286 Score: 84
Period size: 27 Copynumber: 5.5 Consensus size: 27
7284143 TGGCTTTATA
*
7284153 CATCTTTTCATGCATTTTCAATTATGG
1 CATCTGTTCATGCATTTTCAATTATGG
*
7284180 CATCTGTTCATGC-CTTT--ATGTAT--
1 CATCTGTTCATGCATTTTCAAT-TATGG
*
7284203 --TCT-TTCATGCATTTTCAATTTTGG
1 CATCTGTTCATGCATTTTCAATTATGG
* *
7284227 AATCCGTTCATGGC--TTT--A-TA---
1 CATCTGTTCAT-GCATTTTCAATTATGG
*
7284247 CATCTTTTCATGCATTTTCAATTATGG
1 CATCTGTTCATGCATTTTCAATTATGG
7284274 CATCTGTTCATGC
1 CATCTGTTCATGC
7284287 CTTTATGCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 36
0.63 0.08 0.29
Matches are distributed among these distances:
19 2 0.03
20 15 0.19
21 9 0.11
22 2 0.03
23 4 0.05
24 5 0.06
25 3 0.04
26 8 0.10
27 29 0.37
28 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (27 bp):
CATCTGTTCATGCATTTTCAATTATGG
Found at i:7284736 original size:21 final size:21
Alignment explanation
Indices: 7284710--7284827 Score: 93
Period size: 22 Copynumber: 5.6 Consensus size: 21
7284700 TCTGGCCCTT
7284710 TGGTATCGATACCCCTACTTA
1 TGGTATCGATACCCCTACTTA
*
7284731 TGGTATCGATATTACCCTA-TTA
1 TGGTATCGATA--CCCCTACTTA
* * * *
7284753 GGGTATTGATACCCCTGCTTC
1 TGGTATCGATACCCCTACTTA
7284774 TGGTATCGATACTACCCTA-TTA
1 TGGTATCGATAC--CCCTACTTA
* *
7284796 GGGTATCTATACCCC--CTTCA
1 TGGTATCGATACCCCTACTT-A
7284816 T-GTATCGATACC
1 TGGTATCGATACC
7284828 AAAATTAACT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
19 12 0.16
20 8 0.11
21 23 0.30
22 24 0.32
23 9 0.12
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCCCTACTTA
Found at i:7284778 original size:43 final size:42
Alignment explanation
Indices: 7284711--7284826 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 42
7284701 CTGGCCCTTT
* * *
7284711 GGTATCGATACCCCTACTTATGGTATCGATATTACCCTATTAG
1 GGTATTGATACCCCT-CTTCTGGTATCGATACTACCCTATTAG
7284754 GGTATTGATACCCCTGCTTCTGGTATCGATACTACCCTATTAG
1 GGTATTGATACCCCT-CTTCTGGTATCGATACTACCCTATTAG
7284797 GGTATCT-ATACCCC-CTTCAT-GTATCGATAC
1 GGTAT-TGATACCCCTCTTC-TGGTATCGATAC
7284827 CAAAATTAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
41 14 0.21
42 1 0.01
43 51 0.76
44 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (42 bp):
GGTATTGATACCCCTCTTCTGGTATCGATACTACCCTATTAG
Found at i:7291190 original size:47 final size:47
Alignment explanation
Indices: 7291133--7291341 Score: 301
Period size: 47 Copynumber: 4.4 Consensus size: 47
7291123 AATACACCCT
* **
7291133 TTTCAAGCATTTTCAATTATGGCATCCGTTCATGCCTCAATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
* * * *
7291180 TTTCATGCATTTTAAATTATGGAATCCATTCATGCCTTTATACATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
* ** *
7291227 TTTCATGCATTTTCAATTATGGCATCTGTTCATGCCTTTGGGCATCA
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
* *
7291274 TTTCATGCATTTTCAATCATGGCATCCGTTCAAGCCTTTATGCATCC
1 TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
7291321 TTTCATGCATTTTCAATTATG
1 TTTCATGCATTTTCAATTATG
7291342 AAATTGATTT
Statistics
Matches: 140, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (47 bp):
TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGCATCC
Found at i:7297659 original size:131 final size:131
Alignment explanation
Indices: 7297432--7297675 Score: 287
Period size: 131 Copynumber: 1.9 Consensus size: 131
7297422 TATCTTCCCT
* * * * * * *
7297432 AAGAGTAGTGGAGCATATCCTTATTTCTCAGATTTGATCTTCCTGAAAATTAGTGAAGTAAGTCA
1 AAGAGTAGCGGAGCAGATCCTCATTTCCCAGATTTGATCTTCCTGAAAAATAGTGAAGCAAATCA
**
7297497 ACATTGATTCAATGTTTCATGAAGAACAGTGAAATAAACCAAAATTTTAGAGTATGATCTCCCTT
66 ACATTGATTCAATCCTTCATGAAGAACAGTGAAATAAACCAAAATTTTAGAGTATGATCTCCCTT
7297562 A
131 A
* *
7297563 AAGAGTAGCGGAGCAGATCCTCAGTTTCCCATATTTGGTCTTCCT-AAAGAATAGTGAAGCAAAT
1 AAGAGTAGCGGAGCAGATCCTCA-TTTCCCAGATTTGATCTTCCTGAAA-AATAGTGAAGCAAAT
* * ** * *
7297627 CAGC-TTCGATTCAA-CCTTCTTGAAGAGTAGTGAAATGAATCAAAATTTT
64 CAACATT-GATTCAATCCTTCATGAAGAACAGTGAAATAAACCAAAATTTT
7297676 CAGATTTGAA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
131 53 0.57
132 40 0.43
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (131 bp):
AAGAGTAGCGGAGCAGATCCTCATTTCCCAGATTTGATCTTCCTGAAAAATAGTGAAGCAAATCA
ACATTGATTCAATCCTTCATGAAGAACAGTGAAATAAACCAAAATTTTAGAGTATGATCTCCCTT
A
Found at i:7299426 original size:2 final size:2
Alignment explanation
Indices: 7299419--7299474 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
7299409 TTTCTACATC
*
7299419 AT AT AT AT AT AT AT AT AT AT AT AT GAT GT AT A- 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
7299461 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7299475 TGGTATGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7302178 original size:156 final size:160
Alignment explanation
Indices: 7301951--7302268 Score: 592
Period size: 156 Copynumber: 2.0 Consensus size: 160
7301941 CTGAAGGCTG
7301951 AACAAAATATACCCCATTTGAGTTGAAGAGTAACACATTAAAACACAAGGAATGTCCTTAGGAGA
1 AACAAAATATACCCCATTTGAGTTGAAGAGTAACACATTAAAACACAAGGAATGTCCTTAGGAGA
7302016 AA-TTTTTTCAAGATAG-TAAGTTTGGTAGCATAACATAAGCAA-C-AATACCCCTTAAATGA-A
66 AATTTTTTTCAAGATAGTTAAGTTTGGTAGCATAACATAAGCAACCAAATA-CCCTTAAATGAGA
7302076 AAGATTAGGAGCTTTGTGATGAAGAGCTTCA
130 AAGATTAGGAGCTTTGTGATGAAGAGCTTCA
7302107 AACAAAATATACCCCATTTGAGTTGAAGAGTAACACATTAAAACACAAGGAATGTCCTTAGGAGA
1 AACAAAATATACCCCATTTGAGTTGAAGAGTAACACATTAAAACACAAGGAATGTCCTTAGGAGA
7302172 AATTTTTTTCAAGATAGTTAAGTTTGGTAGCATAACATAAGCAACCAAATACCCTTAAATGAGAA
66 AATTTTTTTCAAGATAGTTAAGTTTGGTAGCATAACATAAGCAACCAAATACCCTTAAATGAGAA
7302237 AGATTAGGAGCTTTGTGATGAAGAGCTTCA
131 AGATTAGGAGCTTTGTGATGAAGAGCTTCA
7302267 AA
1 AA
7302269 AGGAGTTTTG
Statistics
Matches: 157, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
156 67 0.43
157 14 0.09
158 26 0.17
159 12 0.08
160 38 0.24
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (160 bp):
AACAAAATATACCCCATTTGAGTTGAAGAGTAACACATTAAAACACAAGGAATGTCCTTAGGAGA
AATTTTTTTCAAGATAGTTAAGTTTGGTAGCATAACATAAGCAACCAAATACCCTTAAATGAGAA
AGATTAGGAGCTTTGTGATGAAGAGCTTCA
Found at i:7303908 original size:20 final size:20
Alignment explanation
Indices: 7303865--7303919 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
7303855 TTTGGTTCAC
*
7303865 GGAATGTAAGATTACCACTT
1 GGAATGTAAGATTACCACTG
*
7303885 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCACTG
**
7303905 GGAATAAAAGATTAC
1 GGAATGTAAGATTAC
7303920 TAGGGAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (20 bp):
GGAATGTAAGATTACCACTG
Found at i:7309051 original size:20 final size:20
Alignment explanation
Indices: 7309011--7309052 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7309001 ACTATCCTAA
* *
7309011 AAGAAAAGTCTAAGCTGAAT
1 AAGAAAAGTCTAACCTAAAT
7309031 AAGAAAAGTCTAACCTAAAT
1 AAGAAAAGTCTAACCTAAAT
7309051 AA
1 AA
7309053 TCACTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (20 bp):
AAGAAAAGTCTAACCTAAAT
Found at i:7310714 original size:59 final size:60
Alignment explanation
Indices: 7310641--7310807 Score: 266
Period size: 59 Copynumber: 2.8 Consensus size: 60
7310631 AATATTTCTC
** *
7310641 ATACGGAAATTCATACACTTAGTATGAATTTCTTATTATTTTAGCACACAAAGTGCC-CA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAA
* *
7310700 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTTCCAAA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAA
*
7310760 ATACGGAAATTGATACACTTAGTATGAATTTCTTAACATTTT-GCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
7310808 TTACTGCCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 59 0.59
60 41 0.41
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (60 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCAAA
Found at i:7311161 original size:20 final size:21
Alignment explanation
Indices: 7311136--7311214 Score: 90
Period size: 20 Copynumber: 3.8 Consensus size: 21
7311126 TATGGTTCTT
7311136 TAGTATCGATAC-CCCTACCA
1 TAGTATCGATACTCCCTACCA
* *
7311156 TAGTATTGATACTACC-ACCA
1 TAGTATCGATACTCCCTACCA
*
7311176 TAGTATCGATACTACCCTACTA
1 TAGTATCGATACT-CCCTACCA
* *
7311198 TGGTATCGATACCCCCT
1 TAGTATCGATACTCCCT
7311215 TCCGGTATCG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 27 0.55
21 8 0.16
22 14 0.29
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.29
Consensus pattern (21 bp):
TAGTATCGATACTCCCTACCA
Found at i:7311312 original size:74 final size:74
Alignment explanation
Indices: 7311177--7311335 Score: 230
Period size: 74 Copynumber: 2.1 Consensus size: 74
7311167 CTACCACCAT
* * * *
7311177 AGTATCGATACTACCCTACTATGGTATCGATACCCCCTTCCGGTATCGATACCAAAATAGATTCG
1 AGTATCGATACTAACCTACTATGGTACCGATACCCCCTTCCAGTATCGATAACAAAATAGATTCG
7311242 ATGTGGCCA
66 ATGTGGCCA
** *
7311251 AGTATCGATACTAATGTACTATGGTACCGATA-CCCCTTTCAGTATCGATAACAAAATTAGATTC
1 AGTATCGATACTAACCTACTATGGTACCGATACCCCCTTCCAGTATCGATAACAAAA-TAGATTC
*
7311315 GATGTGGCCT
65 GATGTGGCCA
7311325 AGTATCGATAC
1 AGTATCGATAC
7311336 CCTTATAATG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
73 21 0.28
74 55 0.72
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (74 bp):
AGTATCGATACTAACCTACTATGGTACCGATACCCCCTTCCAGTATCGATAACAAAATAGATTCG
ATGTGGCCA
Found at i:7311350 original size:94 final size:95
Alignment explanation
Indices: 7311252--7311433 Score: 249
Period size: 95 Copynumber: 1.9 Consensus size: 95
7311242 ATGTGGCCAA
* *
7311252 GTATCGATACTAATGTACTATGGTACCGATACCCCTTTCAG-TATCGATAACAAAATTAGATTCG
1 GTATCGATACTAATATACTATGGTACCAATACCCCTTTCAGATATCGATAACAAAATTAGATTCG
7311316 ATGTGGCCTAGTATCGATACCCTTATAATG
66 ATGTGGCCTAGTATCGATACCCTTATAATG
* * ** * * *
7311346 GTATCGATACTACTATACTATGTTTTCAATACCCCTTTCCGATATCGATACCAAAATTAGGTTCG
1 GTATCGATACTAATATACTATGGTACCAATACCCCTTTCAGATATCGATAACAAAATTAGATTCG
* * *
7311411 ATGTTGCCTGGTATTGATACCCT
66 ATGTGGCCTAGTATCGATACCCT
7311434 GCTACCCCGT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 34 0.45
95 41 0.55
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (95 bp):
GTATCGATACTAATATACTATGGTACCAATACCCCTTTCAGATATCGATAACAAAATTAGATTCG
ATGTGGCCTAGTATCGATACCCTTATAATG
Found at i:7315525 original size:24 final size:20
Alignment explanation
Indices: 7315485--7315539 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
7315475 TCTACTCATG
* *
7315485 ACTCCATTGAGCCGGAAGGA
1 ACTCCGTTGAGCCAGAAGGA
7315505 ACTCCGTTGAGCCAGAAGGA
1 ACTCCGTTGAGCCAGAAGGA
7315525 ACTCCGTTGAGCCAG
1 ACTCCGTTGAGCCAG
7315540 GCTCTTGCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (20 bp):
ACTCCGTTGAGCCAGAAGGA
Found at i:7323556 original size:79 final size:79
Alignment explanation
Indices: 7323470--7323984 Score: 789
Period size: 79 Copynumber: 6.5 Consensus size: 79
7323460 TTTCAACTTT
* * *
7323470 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTTTACCGATAATGTACCCGTA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
7323535 TACATATCAGCTAA
66 TACATATCAGCTAA
* * * *
7323549 GGTATCCTTTCATCCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCTATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
7323614 TACATATCAGCTAA
66 TACATATCAGCTAA
* *
7323628 GGCATCCTTTCTTGCCACTAATGCACCCATATGCATTATTATGTTATGTCGATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
7323693 TACATATCAGCTAA
66 TACATATCAGCTAA
* *
7323707 GACATCCTTTCATGCCACTAATGCACTCATATGCATTATTATGTTATGCCGATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
7323772 TACATATCAGCTAA
66 TACATATCAGCTAA
* * * * **
7323786 GGCATCCTTTCATGTCACTAATGCACCCATACGCATTATTCTATTATGCTAATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
*
7323851 TACATACCAGCTAA
66 TACATATCAGCTAA
* * * *
7323865 GGCATCCTTTAATGCCACTAATGCACCCATATGCATTATTTTGTTACGCCGATAATATA-CCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
*
7323929 TACACATATCAGATAA
66 T--ACATATCAGCTAA
*
7323945 GGCATCCTTTAATGCCACTAATGCACCCATATGCATTATT
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATT
7323985 CTTTTATTCA
Statistics
Matches: 397, Mismatches: 37, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
78 6 0.02
79 340 0.86
80 51 0.13
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (79 bp):
GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTATGTTATGCCGATAATGTACCCATA
TACATATCAGCTAA
Found at i:7325762 original size:2 final size:2
Alignment explanation
Indices: 7325755--7325813 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
7325745 CCATAAAATC
7325755 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
7325797 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
7325814 CTAACATCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7327701 original size:81 final size:81
Alignment explanation
Indices: 7327594--7327742 Score: 228
Period size: 81 Copynumber: 1.8 Consensus size: 81
7327584 TAAAATTCCT
*
7327594 TTATTCTATTACTCAACAGTCTTTAACCCTTCATCTAACTAGCATAATTGACACCTTTCTGCCAA
1 TTATTCTATTACTCAACAGTCTTTAACCCTTCATCTAACTAGCATAATTAACACCTTTCTGCCAA
7327659 TTGTACAGTCAGACCA
66 TTGTACAGTCAGACCA
* * * * *
7327675 TTATTCTTTTACTCAACGGTAC-TTAACCGTTCATCTAACTGGCATAATTAACACCTTTCTGTCA
1 TTATTCTATTACTCAACAGT-CTTTAACCCTTCATCTAACTAGCATAATTAACACCTTTCTGCCA
7327739 ATTG
65 ATTG
7327743 CGTAGCTAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (81 bp):
TTATTCTATTACTCAACAGTCTTTAACCCTTCATCTAACTAGCATAATTAACACCTTTCTGCCAA
TTGTACAGTCAGACCA
Found at i:7328287 original size:79 final size:79
Alignment explanation
Indices: 7328198--7328717 Score: 754
Period size: 79 Copynumber: 6.6 Consensus size: 79
7328188 TTTCAACTTT
* * *
7328198 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTTTGTTATACCAATAATGTACTCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
7328263 TACATATCAGCTAA
66 TACATATCAGCTAA
*
7328277 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTTTGTTATGCCAATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
7328342 TACATATCAGCTAA
66 TACATATCAGCTAA
* * * * *
7328356 GGCATCCTTTCATGCCACTAATGTACCCATATGCAATATTCTGTTATGTCGATAATGTACCAATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
* *
7328421 TGCATATCAACTAA
66 TACATATCAGCTAA
*** * * *
7328435 GGCATCCTTTCATGCCACTAATGCACATGTATTCATTATTCTATTATGCTAATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
*
7328500 TACATATTAGCTAA
66 TACATATCAGCTAA
* * *
7328514 TGCCTCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCGATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
7328579 TACATATCAGCTAA
66 TACATATCAGCTAA
* * * * * *
7328593 GGCATCATTTCATGTCACTTATGCACCTATATACATTATTCTGTTATGCCAATAATGTACCTATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
7328658 TACATATCAGCTAA
66 TACATATCAGCTAA
* * * *
7328672 GGCATTCTTTCATGTCACTAATGCACCCAAAT-CATTATTCTTTTAT
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTAT
7328718 TCATTAGTTT
Statistics
Matches: 392, Mismatches: 49, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
78 13 0.03
79 379 0.97
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (79 bp):
GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTGTTATGCCAATAATGTACCCATA
TACATATCAGCTAA
Found at i:7330213 original size:59 final size:59
Alignment explanation
Indices: 7330144--7330539 Score: 623
Period size: 59 Copynumber: 6.7 Consensus size: 59
7330134 CCCCATACAA
* * * *
7330144 AAATTCATACAGTTAGTATGAATTTCTTATCATTTTAGAACACAAGGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
*
7330203 AAATTCATACACTTAGTATGAATTTCTTAATATTTTAGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
* * * *
7330262 AAATTAATACATTTAGTATGAATTTTTTAACATTTTAGCACACAAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
* * *
7330321 AAATTCATAAACTTAGTATGAATTTCTCAACATTTTAGCACATAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
*
7330380 AAATTCATACACTTAGTATTAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
* ***
7330439 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCATACAAAGTGCCCAATATAT
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
*
7330498 AAATTCATACACTTAGTATGATTTTCTTAACATTTT-GCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
7330540 TTAGTGCCAT
Statistics
Matches: 309, Mismatches: 28, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
58 5 0.02
59 304 0.98
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGG
Found at i:7330912 original size:22 final size:20
Alignment explanation
Indices: 7330870--7330922 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 20
7330860 TAGTTCTTCA
7330870 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
*
7330890 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACCATG
7330912 GTATCGATACC
1 GTATCGATACC
7330923 ACCTTCCGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 11 0.37
22 19 0.63
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:7331056 original size:98 final size:99
Alignment explanation
Indices: 7330870--7331065 Score: 254
Period size: 98 Copynumber: 2.0 Consensus size: 99
7330860 TAGTTCTTCA
* * *
7330870 GTATCGATACCCCTACCATGGTATCGATACTACCCTACTATGGTATCGATACCACCTTCCGGTAT
1 GTATCGATACCCCTACCAAGGTATCAATACTACCATACTATGGTATCGATACCACCTTCCGGTAT
*
7330935 CGAAACCAAAATTAGATTCGATGTGGCCTGGTAG
66 CGAAACCAAAATTAGATTCGATGTAGCCTGGTAG
* * *
7330969 GTATCGATA-CCTTACCAAGGTATCAATACTACTATACTATGGTAGT-GATACC-CCTTTCTGGT
1 GTATCGATACCCCTACCAAGGTATCAATACTACCATACTATGGTA-TCGATACCACC-TTCCGGT
* * * *
7331031 ATTGATACCAAAATTAGATTTGATGTAGTCTGGTA
64 ATCGAAACCAAAATTAGATTCGATGTAGCCTGGTA
7331066 TCGATACCCT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
97 2 0.02
98 72 0.86
99 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (99 bp):
GTATCGATACCCCTACCAAGGTATCAATACTACCATACTATGGTATCGATACCACCTTCCGGTAT
CGAAACCAAAATTAGATTCGATGTAGCCTGGTAG
Found at i:7331086 original size:20 final size:18
Alignment explanation
Indices: 7331060--7331110 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 18
7331050 TTGATGTAGT
7331060 CTGGTATCGATACCCTTAC
1 CTGGTATCGATACCCTT-C
7331079 CATGGTATCGATACCCTTC
1 C-TGGTATCGATACCCTTC
7331098 C-GGTATCGATACC
1 CTGGTATCGATACC
7331111 AAAATTAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.39
19 3 0.10
20 16 0.52
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (18 bp):
CTGGTATCGATACCCTTC
Found at i:7331112 original size:71 final size:71
Alignment explanation
Indices: 7331028--7331163 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
7331018 ACCCCTTTCT
* * *
7331028 GGTATTGATACCAAAATTAGATTTGATG-TAGTCTGGTATCGATACCCTTACCATGGTATCGATA
1 GGTATCGATACCAAAATTAGATTCGATGTTA-CCTGGTATCGATACCCTTACCATGGTATCGATA
7331092 CCCTTCC
65 CCCTTCC
* * *
7331099 GGTATCGATACCAAAATTAGGTTCGATGTTACCTTGTATCGATACCCTTACCATGGTATTGATAC
1 GGTATCGATACCAAAATTAGATTCGATGTTACCTGGTATCGATACCCTTACCATGGTATCGATAC
7331164 TACCTCGTCG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 56 0.97
72 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (71 bp):
GGTATCGATACCAAAATTAGATTCGATGTTACCTGGTATCGATACCCTTACCATGGTATCGATAC
CCTTCC
Found at i:7340112 original size:9 final size:9
Alignment explanation
Indices: 7340100--7340151 Score: 70
Period size: 9 Copynumber: 5.8 Consensus size: 9
7340090 AATAATAATT
7340100 ATTATTATA
1 ATTATTATA
7340109 ATTATTATA
1 ATTATTATA
*
7340118 ATTATTATT
1 ATTATTATA
*
7340127 ATTATTATT
1 ATTATTATA
7340136 ATT-TTATAA
1 ATTATTAT-A
7340145 ATTATTA
1 ATTATTA
7340152 CAAAGAAAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
8 4 0.10
9 32 0.82
10 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTATTATA
Found at i:7340151 original size:3 final size:3
Alignment explanation
Indices: 7340097--7340142 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
7340087 AATAATAATA
* *
7340097 ATT ATT ATT ATA ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7340143 AAATTATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7341545 original size:18 final size:19
Alignment explanation
Indices: 7341524--7341562 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7341514 TCCTTATTGT
*
7341524 TTTAATTTTA-TATGTTTA
1 TTTAATATTATTATGTTTA
*
7341542 TTTAATATTATTATTTTTA
1 TTTAATATTATTATGTTTA
7341561 TT
1 TT
7341563 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTAATATTATTATGTTTA
Found at i:7341562 original size:41 final size:42
Alignment explanation
Indices: 7341468--7341576 Score: 97
Period size: 41 Copynumber: 2.7 Consensus size: 42
7341458 TTCCTAGTTT
* *
7341468 TATTATTATTTTTA-TG--TTAATATTATAGTTTTAATTTCA
1 TATTATTATTTTTATTGTTTTAATTTTATAGTTTTAATTTAA
*
7341507 T-TTATT-TTCCTTATTGTTTTAATTTTATA-TGTTT-ATTTAA
1 TATTATTATT-TTTATTGTTTTAATTTTATAGT-TTTAATTTAA
* *
7341547 TATTATTATTTTTATTATTTTTATTATTAT
1 TATTATTATTTTTATTGTTTTAATT-TTAT
7341577 TATAAATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
37 2 0.04
38 8 0.14
39 3 0.05
40 7 0.12
41 30 0.54
42 6 0.11
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.67
Consensus pattern (42 bp):
TATTATTATTTTTATTGTTTTAATTTTATAGTTTTAATTTAA
Found at i:7341563 original size:9 final size:9
Alignment explanation
Indices: 7341549--7341579 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7341539 TTATTTAATA
7341549 TTATTATTT
1 TTATTATTT
7341558 TTATTATTT
1 TTATTATTT
*
7341567 TTATTATTA
1 TTATTATTT
7341576 TTAT
1 TTAT
7341580 AAATATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTATTT
Found at i:7341590 original size:14 final size:15
Alignment explanation
Indices: 7341571--7341603 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7341561 TTATTTTTAT
*
7341571 TATTATTATAAATA-
1 TATTATAATAAATAC
7341585 TATTATAATAAATAC
1 TATTATAATAAATAC
7341600 TATT
1 TATT
7341604 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTATAATAAATAC
Found at i:7353057 original size:15 final size:14
Alignment explanation
Indices: 7353028--7353071 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7353018 TTGAAGGAAA
*
7353028 AAAAGGAAAAAATG
1 AAAAGAAAAAAATG
*
7353042 AAATGAAAAGAAATG
1 AAAAGAAAA-AAATG
7353057 AAAAGAAAAAAATG
1 AAAAGAAAAAAATG
7353071 A
1 A
7353072 TGAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAAAATG
Found at i:7354711 original size:17 final size:17
Alignment explanation
Indices: 7354656--7354716 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 17
7354646 ACTGTTCCAA
7354656 AAGAAGTTCATAATGAG
1 AAGAAGTTCATAATGAG
* *
7354673 AAGAACTCATCTGAAGAATGAG
1 AAGAAGT--TC---ATAATGAG
7354695 AAGAAGTTCATAATGAG
1 AAGAAGTTCATAATGAG
7354712 AAGAA
1 AAGAA
7354717 CTTGTTTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 18 0.51
19 2 0.06
20 2 0.06
22 13 0.37
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.20
Consensus pattern (17 bp):
AAGAAGTTCATAATGAG
Found at i:7354838 original size:113 final size:112
Alignment explanation
Indices: 7354624--7355182 Score: 560
Period size: 113 Copynumber: 4.9 Consensus size: 112
7354614 GCGAAGATTC
* * * *
7354624 GAATCCATCATTCAATGGATCAACTGTTCCAAAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
1 GAATTCATCATTCGATGGATCAACTTTTCCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAG
* *
7354689 AATG-AGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
65 AAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
*
7354736 GAATTCATCATTCGATGGATCAA-TATTTCCCGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
1 GAATTCATCATTCGATGGATCAACT-TTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
7354800 AAGGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCATTTGCTT
65 AAGG-AAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
* * * * * * *
7354849 GAATTCATCACTT-GATGGATCAGCATTGCTAGGTAGGGTTCATAATGAGAAGAACTCATCTAAA
1 GAATTCATCA-TTCGATGGATCAACTTTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
7354913 GAAGGAGAAAA-AA-TTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTT
64 GAAGGA-AAAAGAAGTTCATAATGAGAAGAACTTGTT-TAACCTTTTGCTT
* * * *
7354962 GAATTCATCACTCGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 GAATTCATCATTCGATGGATCAACTTTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
7355027 -AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTCCATT
65 AAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC-TT
* * * * * *
7355075 --ACTCTATCACGAAAAGAGATAGATCAGCATCAACATTTCCAGAAGTGTTCATAATGAGAAGAA
1 GAATTC-AT--C------A-TTCGAT--GGATCAACTTTTCCAGAAGAGTTCATAATGAGAAGAA
* *
7355138 CTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAATTTGTT
54 CTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
7355183 CAAACTTGCC
Statistics
Matches: 377, Mismatches: 44, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
111 39 0.10
112 67 0.18
113 150 0.40
114 41 0.11
120 1 0.00
121 4 0.01
122 58 0.15
123 17 0.05
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
GAATTCATCATTCGATGGATCAACTTTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTT
Found at i:7355039 original size:225 final size:225
Alignment explanation
Indices: 7354661--7355065 Score: 627
Period size: 225 Copynumber: 1.8 Consensus size: 225
7354651 TCCAAAAGAA
* * * * *
7354661 GTTCATAATGAGAAGAACTCATCTGAAGAATGAGAAGAAGTTCATAATGAGAAGAACTTGTTTAA
1 GTTCATAATGAGAAGAACTCATCTAAAGAAGGAGAAAAAATTCATAATGAGAAGAACTTGTTAAA
* * *
7354726 CCTTTTGCTTGAATTCATCATTCGATGGATCAATATTTCCCGAAGAGTTCATAATGAGAAGAACT
66 CCTTTTGCTTGAATTCATCACTCGATGGATCAATATTTCCAGAAAAGTTCATAATGAGAAGAACT
*
7354791 CATCTGAAGAAGGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCATTTGCTTGAATTCA
131 CATCTGAAGAAGGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATTTGCTTGAATTCA
7354856 TCACTTGATGGATCAGCATTGCTAGGTAGG
196 TCACTTGATGGATCAGCATTGCTAGGTAGG
*
7354886 GTTCATAATGAGAAGAACTCATCTAAAGAAGGAGAAAAAATTCATAATGAGAAGAATTTGTTCAA
1 GTTCATAATGAGAAGAACTCATCTAAAGAAGGAGAAAAAATTCATAATGAGAAGAACTTGTT-AA
* *
7354951 ACCTTTTGTTTGAATTCATCACTCGATGGATTAACT-TTTCCAGAGAAAGTTCATAATGAGAAGA
65 ACCTTTTGCTTGAATTCATCACTCGATGGATCAA-TATTTCCAGA-AAAGTTCATAATGAGAAGA
* * *
7355015 ACTTATCTGAAG-AGG-AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC
128 ACTCATCTGAAGAAGGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
7355066 TTTTCCATTA
Statistics
Matches: 162, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
225 90 0.56
226 42 0.26
227 30 0.19
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (225 bp):
GTTCATAATGAGAAGAACTCATCTAAAGAAGGAGAAAAAATTCATAATGAGAAGAACTTGTTAAA
CCTTTTGCTTGAATTCATCACTCGATGGATCAATATTTCCAGAAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCATTTGCTTGAATTCA
TCACTTGATGGATCAGCATTGCTAGGTAGG
Found at i:7355618 original size:3 final size:3
Alignment explanation
Indices: 7355526--7355609 Score: 161
Period size: 3 Copynumber: 28.3 Consensus size: 3
7355516 ATTTTTTGAT
7355526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7355574 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7355610 AAATTATTAC
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.03
3 78 0.98
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7357284 original size:18 final size:19
Alignment explanation
Indices: 7357261--7357305 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
7357251 ATAAATTATA
*
7357261 TATTAATCTAT-TTTATTT
1 TATTAATATATATTTATTT
*
7357279 TATTAATATTTATTTATTT
1 TATTAATATATATTTATTT
7357298 T-TTAATAT
1 TATTAATAT
7357306 TAAGAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTAATATATATTTATTT
Found at i:7360449 original size:183 final size:181
Alignment explanation
Indices: 7359973--7360619 Score: 927
Period size: 183 Copynumber: 3.5 Consensus size: 181
7359963 CAAATAAAAT
* * * * * *
7359973 ATGTATCGATACATAACAATATATCAGGTAAAAATATGAGAAAAC-CAGGTTCAATATGACAAAA
1 ATGTATCGATACACAACAATATAACAGGTAAAAATATGATAAAACTGA-TTTCATTATGACAAAA
* *
7360037 CTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTAAAATAAGTATCGACACTTTTG
65 CTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAAGTATCGACACTTTTG
*
7360102 AAATTTAAAAGAAAAGTAGTACTAGCGCCTAAAAAGTATCGATAATTTATAAAA
130 -AATTTAAAAGAAAAGTAGTAATAGCGCCTAAAAAGTATCGATAATTTAT-AAA
* * *
7360156 ATTGTATCGATACACAACAATATAACAGATAAAAATATGATCAAACCGATTTCATTATGACAAAA
1 A-TGTATCGATACACAACAATATAACAGGTAAAAATATGATAAAACTGATTTCATTATGACAAAA
* * **
7360221 CCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAATTATAAACACTTTTA
65 CTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAAGTATCGACACTTTT-
7360286 GAATTTAAAAGAAAAGTAGTAATAGCGCCTAAAAAGTATCGATAATTTATAAA
129 GAATTTAAAAGAAAAGTAGTAATAGCGCCTAAAAAGTATCGATAATTTATAAA
* * * *
7360339 CATGTATCGATCCACAACAATATAACATGTCAAAATATGATAAAACTGATTTCATTATGACAAAC
1 -ATGTATCGATACACAACAATATAACAGGTAAAAATATGATAAAACTGATTTCATTATGACAAAA
*
7360404 CTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTTCATTGAAATAAGTATCGACACTTTTG
65 CTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAAGTATCGACACTTTT-
* * * *
7360469 GAATTTAAAAGAAAAGCAGTAATAGTGCCTATAAAGTATCGATATTTTATAATA
129 GAATTTAAAAGAAAAGTAGTAATAGCGCCTAAAAAGTATCGATAATTTATAA-A
* * * * * *
7360523 ATGTATCGATCCATAACAATATAACAGGTAAAACTATGACAAAACTGGTTTCATTATGACAAAAT
1 ATGTATCGATACACAACAATATAACAGGTAAAAATATGATAAAACTGATTTCATTATGACAAAAC
*
7360588 TGGTAAAGCGCTACCGGATATGTTGAATGTAT
66 TGGTAAAGCGCTACCGGATATGTTGAAAGTAT
7360620 TAATACTTTA
Statistics
Matches: 418, Mismatches: 41, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
183 255 0.61
184 161 0.39
185 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (181 bp):
ATGTATCGATACACAACAATATAACAGGTAAAAATATGATAAAACTGATTTCATTATGACAAAAC
TGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAAGTATCGACACTTTTGA
ATTTAAAAGAAAAGTAGTAATAGCGCCTAAAAAGTATCGATAATTTATAAA
Found at i:7362733 original size:18 final size:18
Alignment explanation
Indices: 7362685--7362733 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7362675 TTATTGACAA
*
7362685 GGAGGTAGAGGAGGCAAT
1 GGAGGAAGAGGAGGCAAT
* * * *
7362703 GGATGCAGTGGAGGCAGT
1 GGAGGAAGAGGAGGCAAT
7362721 GGAGGAAGAGGAG
1 GGAGGAAGAGGAG
7362734 AATGAAGAAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.53, T:0.10
Consensus pattern (18 bp):
GGAGGAAGAGGAGGCAAT
Found at i:7368191 original size:17 final size:17
Alignment explanation
Indices: 7368169--7368201 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7368159 TCGGCTTAAA
7368169 AGAAATGGTTAGGGTAT
1 AGAAATGGTTAGGGTAT
*
7368186 AGAAATGGTTATGGTA
1 AGAAATGGTTAGGGTA
7368202 CAGTAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
AGAAATGGTTAGGGTAT
Found at i:7368273 original size:16 final size:18
Alignment explanation
Indices: 7368243--7368275 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
7368233 ATGGTAATGA
7368243 AATAAGAAAAGATGAAAG
1 AATAAGAAAAGATGAAAG
7368261 AATAA-AAAA-ATGAAA
1 AATAAGAAAAGATGAAA
7368276 TAGTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AATAAGAAAAGATGAAAG
Found at i:7368503 original size:14 final size:14
Alignment explanation
Indices: 7368484--7368523 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7368474 TGTAGGACTA
*
7368484 TTTTCTTCTTTTTG
1 TTTTCTTCTTTTTC
7368498 TTTTCTTCTTCTTTC
1 TTTTCTTCTT-TTTC
7368513 TTTT-TTCTTTT
1 TTTTCTTCTTTT
7368524 GTTACAGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 2 0.08
14 15 0.62
15 7 0.29
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTCTTCTTTTTC
Found at i:7368508 original size:17 final size:17
Alignment explanation
Indices: 7368486--7368521 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7368476 TAGGACTATT
7368486 TTCTTCTTT-TTGTTTTC
1 TTCTTCTTTCTT-TTTTC
7368503 TTCTTCTTTCTTTTTTC
1 TTCTTCTTTCTTTTTTC
7368520 TT
1 TT
7368522 TTGTTACAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTCTTTCTTTTTTC
Found at i:7374064 original size:200 final size:200
Alignment explanation
Indices: 7373697--7374839 Score: 1604
Period size: 200 Copynumber: 5.7 Consensus size: 200
7373687 TTTTAAAATT
* * *
7373697 GTATCGATCCCAAAAACA--AAAACTGATAATTATAATGTAATAGGTAAATTTACAATATAACAG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
* * * * * * *
7373760 ATAGAAATATA-C-ATGCTTAATTAGAAAAAATGTTAACATAATGTATTGAT-GCTTTTTAAATT
66 GTAAAAATATACCGAT--TTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAA-T
* * *
7373822 TGTGTCGATACTTTTGGTCCATAATGAATGCCCAATGAGGTGCACGCATAAAGTGTCGATACATT
128 TGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATT
7373887 TATT-ATAA
193 TATTGA-AA
* * * *
7373895 GTATTGATCCTAAAAACATCGAAACCGATAATTATAATGTAATATGTAAATTTACAATGTAACAT
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
7373960 GTAAAAATATACCGATTTAATT-GAAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTG
66 GTAAAAATATACCGATTTAATTAG-AAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTG
7374024 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTTA
7374089 TTGAAA
195 TTGAAA
* * * *
7374095 GTATCAATCCTAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGAAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
* * * *
7374160 GGAAAAATATA--GTAGTTTAATTGGAAAATAAGCCAACATAATGTATCGATACCTTTTTAAATT
66 GTAAAAATATACCG-A-TTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATT
* * * *
7374223 GTGTCAATACTTTTGGTCCAGAATAAATACCCAACGAGGTGCACGCACAAAGTGTCGATTCATTT
129 GTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTT
*
7374288 ATTGACA
194 ATTGAAA
* * * * *
7374295 GTATTGATCACAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGAAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
*
7374360 GTAAAAATATACCGGTTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTGT
66 GTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTGT
*
7374425 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACTTTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTTAT
7374490 TGAAA
196 TGAAA
* *
7374495 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGCAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
* * * * * * *
7374560 ATAGAAATATACCGGTTTAATTAGAAAATAGGTAAACAAAATGTATCAATACATTTTTAAATTGT
66 GTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTGT
* * * * * *
7374625 GCCGATACTTTAGATCCAGAATAAATGCCCAACGAGGTGAACGCATAAAGTGTCGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTTAT
*
7374690 TGTAA
196 TGAAA
*
7374695 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTGAA-T
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT-AACA
** * * * *
7374759 GGTAGGAATATACAGGTTTAATTAGAAAATAGGTCAACATAATATATCGATACATTTTTAAATTG
65 GGTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTG
7374824 TGTCGATACTTTTGGT
130 TGTCGATACTTTTGGT
7374840 AAATTACGCG
Statistics
Matches: 854, Mismatches: 78, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
198 17 0.02
199 2 0.00
200 818 0.96
201 14 0.02
202 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (200 bp):
GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACAG
GTAAAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGATACCTTTTTAAATTGT
GTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCACAAAGTGTCGATACATTTAT
TGAAA
Found at i:7375174 original size:18 final size:16
Alignment explanation
Indices: 7375130--7375192 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 16
7375120 CGGTCCTTCT
*
7375130 CAACCTTGTTCTCAAC
1 CAACCTTCTTCTCAAC
*
7375146 CAAAC-TCTTCTCAAC
1 CAACCTTCTTCTCAAC
7375161 GACAACCTTCTTCTCAAC
1 --CAACCTTCTTCTCAAC
7375179 CAAGCGCTTCTTCT
1 CAA-C-CTTCTTCT
7375193 GAACAAATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 9 0.23
16 7 0.18
17 5 0.13
18 18 0.46
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.30
Consensus pattern (16 bp):
CAACCTTCTTCTCAAC
Found at i:7375503 original size:2 final size:2
Alignment explanation
Indices: 7375496--7375521 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7375486 ATGGGGAAGG
7375496 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
7375522 CCGGATTCTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7376341 original size:12 final size:12
Alignment explanation
Indices: 7376324--7376359 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
7376314 ACCAAGTTCT
7376324 CAATGAAGATGA
1 CAATGAAGATGA
7376336 CAATGAAGATGA
1 CAATGAAGATGA
* *
7376348 CGATGATGATGA
1 CAATGAAGATGA
7376360 AGATGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.28, T:0.19
Consensus pattern (12 bp):
CAATGAAGATGA
Found at i:7376352 original size:18 final size:18
Alignment explanation
Indices: 7376326--7376365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7376316 CAAGTTCTCA
7376326 ATGAAGATGACAATGAAG
1 ATGAAGATGACAATGAAG
* **
7376344 ATGACGATGATGATGAAG
1 ATGAAGATGACAATGAAG
7376362 ATGA
1 ATGA
7376366 TTATGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (18 bp):
ATGAAGATGACAATGAAG
Found at i:7376357 original size:3 final size:3
Alignment explanation
Indices: 7376338--7376381 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
7376328 GAAGATGACA
* * * *
7376338 ATG AAG ATG ACG ATG ATG ATG AAG ATG ATT ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
7376382 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:7376371 original size:18 final size:18
Alignment explanation
Indices: 7376338--7376377 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7376328 GAAGATGACA
7376338 ATGAAGATGACGATGATG
1 ATGAAGATGACGATGATG
**
7376356 ATGAAGATGATTATGATG
1 ATGAAGATGACGATGATG
7376374 ATGA
1 ATGA
7376378 TGATCCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.28
Consensus pattern (18 bp):
ATGAAGATGACGATGATG
Found at i:7378848 original size:17 final size:16
Alignment explanation
Indices: 7378826--7378859 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7378816 TAAAAACAGT
7378826 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
7378843 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
7378859 A
1 A
7378860 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:7391467 original size:199 final size:200
Alignment explanation
Indices: 7390873--7391498 Score: 950
Period size: 200 Copynumber: 3.1 Consensus size: 200
7390863 CAAACATGTA
* *
7390873 TCGACACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGGTAATTATAAAGTAATAGGT
1 TCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAGGT
7390938 AAATTTACAATGTAACTGGTAAAAAATATATCGGTTTTATGACAGAATAGGTCAACATAATGTAT
66 AAATTTACAATGTAACTGGT-AAAAATATATCGGTTTTATGACAGAATAGGTCAACATAATGTAT
**
7391003 CGATACTTTTTAAATTTGTGTCGATACTTTTAATCCAGAATGAATGCCCAACGAGGTGCACGCAT
130 CGATACTTTTTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
7391068 AAAGTG
195 AAAGTG
* * *
7391074 TCGATACATTTATTATAAGTATTGATCCAAAAAAACATCAAAACCGATAATTATAAAGTAAT-GG
1 TCGATACATTTATTGTAAGTATCGATCC-CAAAAACATCAAAACCGATAATTATAAAGTAATAGG
* * * *
7391138 TACATTTACAATGTAACGGGTAAAAATATATTGGTTTTATGACAGAATATGTCAACATAATGTAT
65 TAAATTTACAATGTAACTGGTAAAAATATATCGGTTTTATGACAGAATAGGTCAACATAATGTAT
* * * *
7391203 TGATACTTTTTACATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCTAACAAGGTGCACGCAT
130 CGATACTTTTTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCAT
7391268 AAAGTG
195 AAAGTG
* * ***
7391274 TCGATACATTTATTGTAAGTATCGATCCCAAAAATATCGAAACATTTAATTATAAAGTAATAGGT
1 TCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAGGT
* * * *
7391339 AAATTTACAATGTAACTGGTAAATATTTACCGATTTTATGACAGAATAGGTCAACATAATGTA-C
66 AAATTTACAATGTAACTGGTAAAAATATATCGGTTTTATGACAGAATAGGTCAACATAATGTATC
* * * *
7391403 GATACTTTTTAAATTTGTGTCGATACTTTTGGTTCATAATGAATGCCCAGCGAGGTGTACGCATA
131 GATACTTTTTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
7391468 AAGTG
196 AAGTG
* *
7391473 TCGATACATTTACTGTATGTATCGAT
1 TCGATACATTTATTGTAAGTATCGAT
7391499 ACATAATGAT
Statistics
Matches: 382, Mismatches: 41, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
199 114 0.30
200 191 0.50
201 46 0.12
202 31 0.08
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (200 bp):
TCGATACATTTATTGTAAGTATCGATCCCAAAAACATCAAAACCGATAATTATAAAGTAATAGGT
AAATTTACAATGTAACTGGTAAAAATATATCGGTTTTATGACAGAATAGGTCAACATAATGTATC
GATACTTTTTAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATA
AAGTG
Found at i:7392185 original size:15 final size:15
Alignment explanation
Indices: 7392165--7392205 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
7392155 AGGCTCCAAA
*
7392165 TGGTAAGCTAAGAAT
1 TGGTAAGATAAGAAT
7392180 TGGTAAGATAAGAAT
1 TGGTAAGATAAGAAT
7392195 TGGTAAGATAA
1 TGGTAAGATAA
7392206 TCTTTCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (15 bp):
TGGTAAGATAAGAAT
Found at i:7393275 original size:2 final size:2
Alignment explanation
Indices: 7393268--7393293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7393258 AAATGTATCG
7393268 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
7393294 TCCATACTTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7393965 original size:23 final size:23
Alignment explanation
Indices: 7393917--7393966 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7393907 ACCTATTTTA
*
7393917 TTATATAAGTGCTACCTACTACG
1 TTATATAAGTGCTACCTAATACG
* *
7393940 TTATATAAGTTCTACCTAATATG
1 TTATATAAGTGCTACCTAATACG
7393963 TTAT
1 TTAT
7393967 TGTGCTAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (23 bp):
TTATATAAGTGCTACCTAATACG
Found at i:7394063 original size:158 final size:158
Alignment explanation
Indices: 7393792--7394166 Score: 579
Period size: 158 Copynumber: 2.4 Consensus size: 158
7393782 TTACGTAAGC
* * ** ** * *
7393792 GCTACCTAATATGTTATTATGCTTGATAATGTTTCCAATAATTAAACAGTTATGTTATCCTTTGT
1 GCTACCTAATATGTTATTGTGCTTGATAATATTAACGGTAATTAAACAGTTATGTTATCATTGGT
* *
7393857 AATATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACCTATTTTATTATA
66 AACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTTATTATA
*
7393922 TAAGTGCTACCTACTACGTTATATAAGT
131 TAAGTGCTACCTACTACGTTATATAAAT
* * *
7393950 TCTACCTAATATGTTATTGTGCTAGATAATATTAACGGTAATTAATCAGTTATGTTATCATTGGT
1 GCTACCTAATATGTTATTGTGCTTGATAATATTAACGGTAATTAAACAGTTATGTTATCATTGGT
7394015 AACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTTATTATA
66 AACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTTATTATA
* * *
7394080 TAAGTGTTACCTATTATGTTATATAAAT
131 TAAGTGCTACCTACTACGTTATATAAAT
* *
7394108 GCTACCTAATATGTTATTGTGCTTGATAATATTAACGGTAATTAACCGGTTATGTTATC
1 GCTACCTAATATGTTATTGTGCTTGATAATATTAACGGTAATTAAACAGTTATGTTATC
7394167 GTCTATATTT
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
158 196 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (158 bp):
GCTACCTAATATGTTATTGTGCTTGATAATATTAACGGTAATTAAACAGTTATGTTATCATTGGT
AACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAATAATTAACCTATTTTATTATA
TAAGTGCTACCTACTACGTTATATAAAT
Found at i:7394101 original size:23 final size:23
Alignment explanation
Indices: 7394065--7394124 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
7394055 TAAATAATTA
* * * *
7394065 ACCTATTTTATTATATAAGTGTT
1 ACCTATTATGTTATATAAATGCT
7394088 ACCTATTATGTTATATAAATGCT
1 ACCTATTATGTTATATAAATGCT
*
7394111 ACCTAATATGTTAT
1 ACCTATTATGTTAT
7394125 TGTGCTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (23 bp):
ACCTATTATGTTATATAAATGCT
Found at i:7398519 original size:17 final size:16
Alignment explanation
Indices: 7398468--7398537 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
7398458 ATCCATGCAT
7398468 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
7398485 GTTAGTTCATTAAT-AA
1 -CTAGTTCATTAATAAA
*
7398501 CTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
*
7398518 CTAGTTCATTTATTAAA
1 CTAGTTCA-TTAATAAA
7398535 CTA
1 CTA
7398538 ACTCTTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.25
16 2 0.05
17 19 0.43
18 12 0.27
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:7407660 original size:14 final size:15
Alignment explanation
Indices: 7407631--7407668 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
7407621 AAACAGTTAA
7407631 AATAATATATTTTAT
1 AATAATATATTTTAT
7407646 AATAATATA-TTTAT
1 AATAATATATTTTAT
7407660 AATAATATA
1 AATAATATA
7407669 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:7407705 original size:2 final size:2
Alignment explanation
Indices: 7407693--7407748 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
7407683 AAAATATTAA
7407693 AT AT A- 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
7407734 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
7407749 AATTAACCTG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7408814 original size:75 final size:75
Alignment explanation
Indices: 7408675--7408931 Score: 318
Period size: 75 Copynumber: 3.4 Consensus size: 75
7408665 CTTAACTGGA
* * * * * * *
7408675 TAAAATAAAATAGGTGTTGCCCATTATGTT-AACTACCCACCGGTTTGTTTGAATGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAATGTTACTAATA
* *
7408739 ATGTAAAGGG
66 ATGTAGACGG
* * * * * **
7408749 TTAAATAAAATAGGTGTTACATATTTTGTTAAAAAACCTACCAGTTTGTTTAAATGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAATGTTACTAATA
7408814 ATGTAGACGG
66 ATGTAGACGG
* * * *
7408824 TAAAATAAAATAGGCACTACCTATTACGTTAAACTATCTACCAGTTTGTTTAAATATTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAATGTTACTAATA
*
7408889 ATGTAGATGG
66 ATGTAGACGG
7408899 TAAAATAAAATAGGCGCTACCTATTATGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTATGTTAAA
7408932 TAGGCGCTAC
Statistics
Matches: 156, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 25 0.16
75 131 0.84
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCTACCTATTATGTTAAACTACCTACCAGTTTGTTTAAATGTTACTAATA
ATGTAGACGG
Found at i:7408935 original size:23 final size:23
Alignment explanation
Indices: 7408906--7408999 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
7408896 TGGTAAAATA
*
7408906 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
7408929 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
**
7408952 AAATA-ATGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
* * *
7408974 AAATAAGTGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
7408997 AAA
1 AAA
7409000 CTAACTATCG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.31
23 45 0.69
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTACGTT
Found at i:7408963 original size:45 final size:45
Alignment explanation
Indices: 7408914--7408999 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
7408904 TAAAATAGGC
* *
7408914 GCTACCTATTATGTTAAATAGGCGCTACCTATTACGTTAAATAAT
1 GCTACCTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAT
* *
7408959 GCTACCTATTACGTTAAATAAGTGCTACCTATTATGTTAAA
1 GCTACCTATTACGTTAAATAAGCGCTACCTATTACGTTAAA
7409000 CTAACTATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (45 bp):
GCTACCTATTACGTTAAATAAGCGCTACCTATTACGTTAAATAAT
Found at i:7409308 original size:17 final size:17
Alignment explanation
Indices: 7409286--7409321 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7409276 CTCTAAAGGT
7409286 TAATAATAATGTATTCA
1 TAATAATAATGTATTCA
7409303 TAATAATAATGTATTCA
1 TAATAATAATGTATTCA
7409320 TA
1 TA
7409322 CTTACTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TAATAATAATGTATTCA
Found at i:7409688 original size:106 final size:108
Alignment explanation
Indices: 7409578--7410027 Score: 331
Period size: 108 Copynumber: 4.1 Consensus size: 108
7409568 TTTCGAATAT
*
7409578 CCCATCAAG-TTAAACTTTGGTAACATTTTAGGTGCTACCTAATATGTTGATAATATTAATAACA
1 CCCATC-AGCTTAAACTTTGATAACATTTTAGGTGCTACCTAATATGTTGATAATATTAATAA-A
* * **
7409642 AAA-TAAGTAAAT-A-TTATTTTGTTATCGTTGGATTTCTAAGGC
64 AAATTAAATAAATAACCTATTTTGTTATCGTCAGATTTCTAAGGC
* * * *
7409684 CCCATCAGCTTAAACTTTGATAACATTTTAGGTGTTGCCTGATATGTTGATAATATTGATAAAAA
1 CCCATCAGCTTAAACTTTGATAACATTTTAGGTGCTACCTAATATGTTGATAATATTAATAAAAA
*
7409749 ATTAAATAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGC
66 ATTAAATAAATAACCTATTTTGTTATCGTCAGATTTCTAAGGC
* ** * ** * * ** *
7409792 TCCGCCAGCATTAAAAAGTGCTACATATTAC-TTTAAATAAGTGCTA-ATTGTGATGTT-ATTAT
1 CCCATCAGC-TT--AAACT--TTGATA--ACATTT---TAGGTGCTACCTAAT-ATGTTGATAAT
* * *** * * * * *
7409854 GGTTGA-AAATTTTTCCAGTAATTAACCTATTTTGTTATCATCAGATTTTTAAGGC
55 -ATTAATAAAAAATT-AAATAAATAACCTATTTTGTTATCGTCAGATTTCTAAGGC
* * * * * *
7409909 TCCATCAGCTTAAACTTAGGTAACATTTTAGGTGCTACCTAATAAGTTGATAATATTGATAACAA
1 CCCATCAGCTTAAACTTTGATAACATTTTAGGTGCTACCTAATATGTTGATAATATTAATAAAAA
* * * * *
7409974 ATCAAGTAATTAACCTATGTTGTTATCGCCAGATTTCTAAGGC
66 ATTAAATAAATAACCTATTTTGTTATCGTCAGATTTCTAAGGC
7410017 CCCATCAGCTT
1 CCCATCAGCTT
7410028 TAAAAAGGCG
Statistics
Matches: 269, Mismatches: 54, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
105 6 0.02
106 61 0.23
107 1 0.00
108 93 0.35
109 11 0.04
110 2 0.01
111 7 0.03
112 4 0.01
113 4 0.01
114 7 0.03
115 2 0.01
116 13 0.05
117 58 0.22
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (108 bp):
CCCATCAGCTTAAACTTTGATAACATTTTAGGTGCTACCTAATATGTTGATAATATTAATAAAAA
ATTAAATAAATAACCTATTTTGTTATCGTCAGATTTCTAAGGC
Found at i:7413116 original size:22 final size:22
Alignment explanation
Indices: 7413091--7413174 Score: 141
Period size: 22 Copynumber: 3.8 Consensus size: 22
7413081 CGAGGGTTAT
7413091 ATAGGTCCTTCGTGACATATAC
1 ATAGGTCCTTCGTGACATATAC
7413113 ATAGGTCCTTCGTGACATATAC
1 ATAGGTCCTTCGTGACATATAC
7413135 ATAGGTCCTTCGTGACATATAC
1 ATAGGTCCTTCGTGACATATAC
* *
7413157 ATGAGATCCTTCGGGACA
1 AT-AGGTCCTTCGTGACA
7413175 AATTTCATAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
22 46 0.78
23 13 0.22
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
ATAGGTCCTTCGTGACATATAC
Found at i:7420056 original size:23 final size:22
Alignment explanation
Indices: 7420002--7420057 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
7419992 CGAGGGTTAT
7420002 ATAGGTCCTTCGGGACTTATAC
1 ATAGGTCCTTCGGGACTTATAC
7420024 ATAGGTCCTTCGGGACTTATAC
1 ATAGGTCCTTCGGGACTTATAC
7420046 ATGAGGTCCTTC
1 AT-AGGTCCTTC
7420058 AGGATAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
ATAGGTCCTTCGGGACTTATAC
Found at i:7420978 original size:3 final size:3
Alignment explanation
Indices: 7420958--7421028 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
7420948 TTTACTACAA
* *
7420958 ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7421006 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
7421029 AACTAATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7423039 original size:30 final size:30
Alignment explanation
Indices: 7422999--7423055 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
7422989 CTTAAAAGAG
* *
7422999 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
7423029 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
7423056 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:7423128 original size:54 final size:54
Alignment explanation
Indices: 7423069--7423918 Score: 484
Period size: 54 Copynumber: 15.8 Consensus size: 54
7423059 ACAACTACAA
7423069 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
7423123 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAA-TC-TA-TATTTTAA-AATAAATCAATCCATAC
** * *
7423180 TTTTAAA--A--T-AAATCAATCGATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
* *
7423235 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
7423283 AAATAAATTATTTAAAAAAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATC-A---AT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
** * * *
7423346 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATA--C
* * * * * *
7423403 TAAAATAAATCAATTCATACT-AAT-AA-AT-TA-TTTAAAATAAATTAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * *
7423455 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCGATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
7423503 TAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATC--TA-TATTTTAA-AATAAATCAATCCATA--C
* * * * * *
7423563 TAAAATAAATCAATCAATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCC--A-
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * * *
7423612 T-A-AAACTA--CAATAATAAATCAATCCATATTTTCAAATAAATCAATCCATAC
1 TAATAAATTATTTAA-AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
7423663 AAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
7423717 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCGATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
7423771 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
7423825 TAATAAATTATTTAAAAT--A--AA--T-TATTTTAAAATAAATCAATCTATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATA----C
* *
7423876 TAATAATTTATTTTAAAATAAATCAATCTATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCTATATTTTAAAATAA
7423919 TTTATTTTAA
Statistics
Matches: 628, Mismatches: 83, Indels: 165
0.72 0.09 0.19
Matches are distributed among these distances:
43 5 0.01
44 8 0.01
45 8 0.01
46 1 0.00
47 28 0.04
48 65 0.10
49 8 0.01
50 9 0.01
51 11 0.02
52 26 0.04
53 8 0.01
54 295 0.47
55 17 0.03
56 6 0.01
57 15 0.02
58 42 0.07
59 19 0.03
60 3 0.00
61 4 0.01
62 18 0.03
63 6 0.01
64 24 0.04
65 2 0.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:7423130 original size:22 final size:22
Alignment explanation
Indices: 7423081--7423129 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7423071 ATAAATTATT
* **
7423081 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
7423103 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
7423126 TAAA
1 TAAA
7423130 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:7423171 original size:80 final size:80
Alignment explanation
Indices: 7423084--7423399 Score: 499
Period size: 80 Copynumber: 3.9 Consensus size: 80
7423074 AATTATTTAA
*
7423084 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
7423149 TCATACAACTACAAT
66 CCATACAACTACAAT
*
7423164 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
7423229 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
7423244 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAAAAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
7423309 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
7423328 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
7423393 ATCCATA
64 ATCCATA
7423400 TTTTAAAATA
Statistics
Matches: 218, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
80 147 0.67
81 2 0.01
82 1 0.00
84 1 0.00
86 67 0.31
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:7423290 original size:22 final size:22
Alignment explanation
Indices: 7423217--7423290 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
7423207 AAATTATTTA
*
7423217 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
7423242 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
7423264 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
7423287 AAAT
1 AAAT
7423291 TATTTAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:7423351 original size:22 final size:22
Alignment explanation
Indices: 7423325--7423367 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7423315 TAATAAATTA
7423325 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
7423347 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
7423368 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:7423376 original size:22 final size:22
Alignment explanation
Indices: 7423327--7423375 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
7423317 ATAAATTATT
**
7423327 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
7423349 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
7423372 TAAA
1 TAAA
7423376 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:7423405 original size:22 final size:22
Alignment explanation
Indices: 7423379--7423421 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7423369 TAATAAATTA
7423379 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
7423401 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
7423422 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:7423430 original size:22 final size:22
Alignment explanation
Indices: 7423381--7423429 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7423371 ATAAATTATT
**
7423381 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
7423403 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
7423426 TAAA
1 TAAA
7423430 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:7423484 original size:80 final size:80
Alignment explanation
Indices: 7423384--7423846 Score: 523
Period size: 80 Copynumber: 5.8 Consensus size: 80
7423374 AATTATTTAA
*
7423384 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
7423449 CCATACAACTACAAT
66 CCATACAACTACAAT
7423464 AATAAATCAATCCATATTTTAAAATAAATCAA-TCGATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAA
*
7423528 TCAATACAACTACAAT
65 TCCATACAACTACAAT
*
7423544 AATAAATCAATCCATATTTTAAAATAAATCAA-TCAATACAAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAA
*
7423608 TCCATAAAACTACAAT
65 TCCATACAACTACAAT
* * *
7423624 AATAAATCAATCCATATTTTCAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
* * **
7423689 -C-TA-TATTTTAA-
66 CCATACAACTACAAT
* ** * ** * * * **
7423700 AATAAATCAATTCATACTAATAAATTATTTAAAAT-A-AATCAATCCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATTCATACT-AATAAATTA-TTTAAAATAAATC
* *
7423762 AATCGATACTAA-TAAATTATTT
63 AATCCATAC-AACTACA--A--T
*
7423784 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 --AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
7423847 TATTTTAAAA
Statistics
Matches: 322, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
75 3 0.01
76 36 0.11
77 13 0.04
78 4 0.01
79 5 0.02
80 213 0.66
81 2 0.01
85 10 0.03
86 32 0.10
87 4 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:7423590 original size:22 final size:22
Alignment explanation
Indices: 7423517--7423590 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
7423507 AAATTATTTA
*
7423517 AAATAAATCAATCAATACAACT
1 AAATAAATCAATCAATACAAAT
* * *
7423539 ACAAT-AATAAATCAATCCATATTTT
1 A-AATAAATCAATCAATACA-A--AT
7423564 AAAATAAATCAATCAATACAAAT
1 -AAATAAATCAATCAATACAAAT
7423587 AAAT
1 AAAT
7423591 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 17 0.43
23 5 0.12
25 5 0.12
26 13 0.32
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCAATACAAAT
Found at i:7423670 original size:22 final size:22
Alignment explanation
Indices: 7423595--7423669 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
7423585 ATAAATTATT
7423595 TAAAATAAATCAATCCATAAAA
1 TAAAATAAATCAATCCATAAAA
***
7423617 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATAAAA
*
7423643 TCAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATA-AAA
7423666 TAAA
1 TAAA
7423670 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 16 0.40
23 5 0.12
25 3 0.08
26 16 0.40
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAAATCAATCCATAAAA
Found at i:7423778 original size:22 final size:22
Alignment explanation
Indices: 7423729--7423777 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7423719 ATAAATTATT
**
7423729 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
7423751 TAAAATAAATCAATCGATACTAA
1 TAAAATAAATCAATCCATA-TAA
7423774 TAAA
1 TAAA
7423778 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:7423787 original size:380 final size:378
Alignment explanation
Indices: 7423084--7423801 Score: 1072
Period size: 380 Copynumber: 1.9 Consensus size: 378
7423074 AATTATTTAA
*
7423084 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
7423149 TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTAT
66 TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTAT
*
7423214 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
131 TTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
* * *
7423279 ATACAAATAAATTATTTAAAAAAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCA
196 ATACAAATAAATTATTTAAAAAAAATCAATCTATACTAATAAATAATTCAAAATAAATAAAT-C-
* ** **
7423344 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
259 TATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAAT
*
7423409 AAATCAATTCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
324 AAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
*
7423464 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAA-
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
7423528 TCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTA
66 TC-ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTA
*
7423593 TTTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTCAAATAAATCAATC
130 TTTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
* * * *
7423658 CATACAAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACT-AATA
195 CATACAAATAAATTATTTAAAAAAAATCAATCTATA--CT--AATAAAT-AATTCAAAATAAATA
** * **
7423722 AAT-TA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCGATACTAATAAAT-TAT
255 AATCTATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAAT-C-AATAAATAT-T
7423782 TTAAAATAAATCAATCCATA
317 TTAAAATAAATCAATCCATA
7423802 TTTTAAAATA
Statistics
Matches: 305, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
378 5 0.02
379 12 0.04
380 266 0.87
381 2 0.01
382 1 0.00
384 13 0.04
385 6 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (378 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTAT
TTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAAAAAATCAATCTATACTAATAAATAATTCAAAATAAATAAATCTA
TTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAATAA
ATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
Found at i:7423807 original size:22 final size:22
Alignment explanation
Indices: 7423781--7423918 Score: 92
Period size: 22 Copynumber: 6.5 Consensus size: 22
7423771 TAATAAATTA
7423781 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
7423803 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
7423826 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
*
7423850 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
*
7423872 TTT---AT-AAT-AAT--TTAT
1 TTTAAAATAAATCAATCCATAT
*
7423887 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
*
7423909 TTTATAATAA
1 TTTAAAATAA
7423919 TTTATTTTAA
Statistics
Matches: 87, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
15 6 0.07
17 3 0.03
18 5 0.06
19 5 0.06
20 3 0.03
22 39 0.45
23 12 0.14
24 12 0.14
25 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:7423855 original size:15 final size:15
Alignment explanation
Indices: 7423826--7424010 Score: 183
Period size: 15 Copynumber: 11.5 Consensus size: 15
7423816 AATCCATACT
7423826 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
7423840 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
7423855 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
*
7423877 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
7423892 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
*
7423914 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
7423929 AATAAATTATTTTAT
1 AATAAATTATTTTAA
7423944 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
7423959 AATAAATTATTTTAT
1 AATAAATTATTTTAA
7423974 AATAAATTATTTTAA
1 AATAAATTATTTTAA
7423989 AATAAATTATTTTAA
1 AATAAATTATTTTAA
7424004 AATAAAT
1 AATAAAT
7424011 AGCCTTATTA
Statistics
Matches: 144, Mismatches: 12, Indels: 29
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.06
15 102 0.71
16 2 0.01
17 2 0.01
18 2 0.01
19 3 0.02
20 2 0.01
21 2 0.01
22 20 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:7423885 original size:47 final size:46
Alignment explanation
Indices: 7423800--7423995 Score: 135
Period size: 37 Copynumber: 4.3 Consensus size: 46
7423790 AATCAATCCA
* * * *
7423800 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TATTTTAAAATAAATCAATCTATATTTAT-AATAATTTAAAATAAAT
7423847 TATTTTAAAATAAATCAATCTATATTT-T-ATAA--T--AAT---T
1 TATTTTAAAATAAATCAATCTATATTTATAATAATTTAAAATAAAT
7423884 TATTTTAAAATAAATCAATCTATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCTATA-TTTATAAT-A---A-TTTAAAATAAAT
* * * * ** * *
7423936 TATTTTATAATAAATTATTTTA-AAATA-AATTATTTTATAATAAAT
1 TATTTTAAAATAAATCAATCTATATTTATAA-TAATTTAAAATAAAT
7423981 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
7423996 TATTTTAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 34
0.72 0.08 0.20
Matches are distributed among these distances:
37 25 0.21
38 3 0.03
39 1 0.01
40 5 0.04
41 1 0.01
42 1 0.01
44 4 0.03
45 25 0.21
46 1 0.01
47 25 0.21
49 6 0.05
50 3 0.03
51 1 0.01
52 19 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (46 bp):
TATTTTAAAATAAATCAATCTATATTTATAATAATTTAAAATAAAT
Found at i:7426809 original size:9 final size:9
Alignment explanation
Indices: 7426797--7426837 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
7426787 TCAAAAAAAG
7426797 AAAAACAAA
1 AAAAACAAA
7426806 AAAAACAAA
1 AAAAACAAA
7426815 AAAAACAAA
1 AAAAACAAA
7426824 AAAAA-AACA
1 AAAAACAA-A
7426833 AAAAA
1 AAAAA
7426838 GCCAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 2 0.06
9 29 0.94
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:7426855 original size:1 final size:1
Alignment explanation
Indices: 7426789--7426837 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
7426779 TATTTTTTTC
* * * * *
7426789 AAAAAAAGAAAAACAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7426838 GCCAAAATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:7432182 original size:25 final size:25
Alignment explanation
Indices: 7432129--7432231 Score: 102
Period size: 25 Copynumber: 4.1 Consensus size: 25
7432119 TTATCGAAAC
****
7432129 TTCATCAAACATTTTTCAAAAAAAA
1 TTCATCAAACATTTTTCAAAATTCT
*
7432154 TTCATCAAACATTTCTCAAAATTCT
1 TTCATCAAACATTTTTCAAAATTCT
* *
7432179 TTCATTAAACATTTTTTTAAAATTCT
1 TTCATCAAACA-TTTTTCAAAATTCT
7432205 TTCAT-AAA-ATATTTTCAAAACTTCT
1 TTCATCAAACAT-TTTTCAAAA-TTCT
7432230 TT
1 TT
7432232 ATTAAACTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.02
24 9 0.14
25 39 0.59
26 17 0.26
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.44
Consensus pattern (25 bp):
TTCATCAAACATTTTTCAAAATTCT
Found at i:7435051 original size:2 final size:2
Alignment explanation
Indices: 7434998--7435032 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7434988 ATATTTTAAC
7434998 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
7435033 GTTTTCTTTA
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:7437612 original size:3 final size:3
Alignment explanation
Indices: 7437604--7437678 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
7437594 AAATTTAAAT
** * *
7437604 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7437652 ATA ATA TATA TTA TTTA TTAA TTA TTA
1 TTA TTA T-TA TTA -TTA TT-A TTA TTA
7437679 CAAGCTCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
3 50 0.85
4 9 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:7437616 original size:15 final size:15
Alignment explanation
Indices: 7437598--7437651 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
7437588 CATTTTAAAT
*
7437598 TTAAATTTATTATTA
1 TTAAAATTATTATTA
7437613 TTAAAATTATTATTA
1 TTAAAATTATTATTA
** *
7437628 TTATTATAATTATTA
1 TTAAAATTATTATTA
*
7437643 TTAATATTA
1 TTAAAATTA
7437652 ATAATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAAATTATTATTA
Found at i:7438669 original size:139 final size:139
Alignment explanation
Indices: 7438503--7438866 Score: 606
Period size: 139 Copynumber: 2.6 Consensus size: 139
7438493 ACATTTTTAA
*
7438503 TATTTATTTTATTTATTAATATTAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTT
1 TATTTA-TTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTT
*
7438568 TATATTCATAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTATTTTTAGAAAAAAT
65 GATATTCATAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTATTTTTAGAAAAAAT
7438633 GTTTTTTAGT
130 GTTTTTTAGT
*
7438643 TCTTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
*
7438708 ATATTCATAAATAAATAAATATCCTGTTTTTATAAATTATATATTAATTATTTTTAGAAAAAATG
66 ATATTCATAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTATTTTTAGAAAAAATG
7438773 TTTTTTAGT
131 TTTTTTAGT
* * * *
7438782 TATTTATTTATTTTTTAATATCGAAGAAATGAGCTGTCTTAAAGCACCTAGAAG--CTATTTTCT
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCT-TTTTTT
**
7438845 GATATTTTTAAATAAATAAATA
65 GATATTCATAAATAAATAAATA
7438867 AATATCTTAT
Statistics
Matches: 212, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
137 2 0.01
138 25 0.12
139 180 0.85
140 5 0.02
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (139 bp):
TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
ATATTCATAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTATTTTTAGAAAAAATG
TTTTTTAGT
Found at i:7441786 original size:7 final size:7
Alignment explanation
Indices: 7441751--7441791 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
7441741 TTTTCATATA
7441751 TGCATTT
1 TGCATTT
7441758 T-CATTT
1 TGCATTT
7441764 TGCATCTT
1 TGCAT-TT
7441772 TGCATTT
1 TGCATTT
*
7441779 TTCATTT
1 TGCATTT
7441786 TGCATT
1 TGCATT
7441792 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:7446938 original size:115 final size:115
Alignment explanation
Indices: 7446778--7447118 Score: 607
Period size: 115 Copynumber: 3.0 Consensus size: 115
7446768 AAGTGCCATA
7446778 TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
7446843 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
7446893 TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
7446958 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
*
7447008 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * *
7447073 TGGTTTGGTA-GAA-ACCACAGAA-CAATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCA-AAAACCAATCATTGGATTTGAAAGATGAA
7447119 CTGCATGATC
Statistics
Matches: 220, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
113 25 0.11
114 6 0.03
115 189 0.86
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATT
Found at i:7449512 original size:22 final size:22
Alignment explanation
Indices: 7449487--7449563 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
7449477 ATTTACATTC
7449487 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
7449509 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
7449531 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
7449553 TTCAAAGATGA
1 TTCAAAGATGA
7449564 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:7450389 original size:165 final size:167
Alignment explanation
Indices: 7450078--7450401 Score: 519
Period size: 165 Copynumber: 2.0 Consensus size: 167
7450068 AAAATGAGCA
**
7450078 TTATCTTCAGATTGGGTTATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
* **
7450143 ATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
* *
7450208 CTTAGTTTTTTTACTTAGTAAACTATTTCTAACAGCC
131 CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
* ** *
7450245 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
7450308 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
7450373 TCATAG-TTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTTCTTACTTAGTAAACTATTTC
7450402 CCACTTCTGT
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
165 62 0.43
166 43 0.30
167 40 0.28
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.39
Consensus pattern (167 bp):
TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:7450530 original size:75 final size:75
Alignment explanation
Indices: 7450407--7451122 Score: 1251
Period size: 75 Copynumber: 9.6 Consensus size: 75
7450397 ATTTCCCACT
7450407 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450472 CTTCGGGTCA
66 CTTCGGGTCA
7450482 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450547 CTTCGGGTCA
66 CTTCGGGTCA
*
7450557 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAATC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450622 CTTCGGGTCA
66 CTTCGGGTCA
7450632 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450696 CTTC-GGTCA
66 CTTCGGGTCA
*
7450705 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450770 CTTCGGGTCA
66 CTTCGGGTCA
*
7450780 TCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450845 CTTCGGGTCA
66 CTTCGGGTCA
* *
7450855 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450920 CTTCGGGTCA
66 CTTCGGGTCA
* * * *
7450930 TTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCAAAC
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
*
7450995 CTTAGGGTCA
66 CTTCGGGTCA
* * *
7451005 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAG
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAG
*
7451070 CCTTAGGGTCA
65 CCTTCGGGTCA
* *
7451081 TCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
7451123 TCATCTGTAA
Statistics
Matches: 619, Mismatches: 19, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
73 51 0.08
74 48 0.08
75 479 0.77
76 41 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (75 bp):
TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
CTTCGGGTCA
Found at i:7450949 original size:298 final size:300
Alignment explanation
Indices: 7450407--7451122 Score: 1262
Period size: 298 Copynumber: 2.4 Consensus size: 300
7450397 ATTTCCCACT
*
7450407 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
*
7450472 CTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
66 CTTCGGGTCATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
*
7450537 GTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
131 GTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
* *
7450602 GCTTTTTGATGTTTTCAATCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAA
196 GCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAA
*
7450667 GCCTTCGGGAGC-TTTTGATGTTTTCAAGCCTT-CGGTCA
261 GCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTACGGTCA
7450705 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
7450770 CTTCGGGTCATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
66 CTTCGGGTCATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
7450835 GTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
131 GTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
*
7450900 GCTTTTTGATGTTTTCAAACCTTCGGGTCATTTGTAAGTCCTACAGTGCATGATGTTTCCAAAAA
196 GCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAA
* *
7450965 GTCTTCGGGAGCTTTTTGATGTTTTCAAACCTTAGGGTCA
261 GCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTACGGTCA
* *
7451005 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAG
1 TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAG
* *
7451070 CCTTAGGGTCATCTGTAAGTCCTT-CAGTGCATGATGTTTTC-AAAA-CCTTCGGG
65 CCTTCGGGTCATCTGTAAGT-CTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
7451123 TCATCTGTAA
Statistics
Matches: 401, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
298 265 0.66
299 27 0.07
300 68 0.17
301 38 0.09
302 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (300 bp):
TCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAGC
CTTCGGGTCATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
GTTTTCAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
GCTTTTTGATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAA
GCCTTCGGGAGCTTTTTGATGTTTTCAAACCTTACGGTCA
Found at i:7451112 original size:45 final size:45
Alignment explanation
Indices: 7451056--7451157 Score: 168
Period size: 45 Copynumber: 2.3 Consensus size: 45
7451046 GAGAGCTTTT
* * *
7451056 TGATATTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
*
7451101 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
7451146 TGATGTTTTCAA
1 TGATGTTTTCAA
7451158 CATTTCCATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7451302 original size:3 final size:3
Alignment explanation
Indices: 7451294--7451368 Score: 78
Period size: 3 Copynumber: 24.0 Consensus size: 3
7451284 AAATTTAAAT
** *
7451294 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7451342 ATA ATA TATA TTA TTTA TTAA TTA TTA
1 TTA TTA T-TA TTA -TTA TT-A TTA TTA
7451369 CAAGCCCAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 52 0.85
4 9 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:7451306 original size:15 final size:15
Alignment explanation
Indices: 7451288--7451336 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
7451278 CATTTTAAAT
7451288 TTAAATTTATTATTA
1 TTAAATTTATTATTA
*
7451303 TTAAAATTATTATTA
1 TTAAATTTATTATTA
*
7451318 TT-ATTATTATTATTA
1 TTAAAT-TTATTATTA
7451333 TTAA
1 TTAA
7451337 TATTAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAAATTTATTATTA
Found at i:7452620 original size:20 final size:20
Alignment explanation
Indices: 7452595--7452633 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7452585 TTTAATTTCT
7452595 TTATTT-TGATCATTTTTATA
1 TTATTTGTGAT-ATTTTTATA
*
7452615 TTATTTGTTATATTTTTAT
1 TTATTTGTGATATTTTTAT
7452634 TTTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTTGTGATATTTTTATA
Found at i:7452942 original size:134 final size:136
Alignment explanation
Indices: 7452771--7453134 Score: 558
Period size: 134 Copynumber: 2.7 Consensus size: 136
7452761 ACATTTTTAA
7452771 TATTTATTTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTT
1 TATTTA-TTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTT
*
7452836 TATATTCATAATAAATAAATATCCTATTTTTATAAAT-TATATTAATTATTTTTAGAAAAAATGT
65 GATATTCATAATAAATAAATATCCTATTTTTA-AAATATATATTAATTATTTTTAGAAAAAATGT
7452900 TTTTTAGT
129 TTTTTAGT
7452908 TA-TTATTTATTTATTAATATC-AAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
* *
7452971 ATATTCATAA-ATAATAAATATCCTGTTTTTAAATTATATATTAATTATTTTTAGAAAAAATGTT
66 ATATTCATAATA-AATAAATATCCTATTTTTAAAATATATATTAATTATTTTTAGAAAAAATGTT
7453035 TTTTAGT
130 TTTTAGT
* * * * *
7453042 TATTTATTTATTTTTTAATATCGAAGAAATGAGCTGTCTTAAAGCACCTAGAAGCTC-TTTTCTG
1 TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
** *
7453106 ATATTTTTAAATAAATAAATATCTTATTT
66 ATATTCAT-AATAAATAAATATCCTATTT
7453135 ATACATATTA
Statistics
Matches: 210, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
133 4 0.02
134 106 0.50
135 46 0.22
136 51 0.24
137 3 0.01
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (136 bp):
TATTTATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTTCTTTTTTTG
ATATTCATAATAAATAAATATCCTATTTTTAAAATATATATTAATTATTTTTAGAAAAAATGTTT
TTTAGT
Found at i:7455466 original size:17 final size:17
Alignment explanation
Indices: 7455444--7455487 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
7455434 ATGTCAAAAT
7455444 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
7455461 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
7455478 AAATATTTAA
1 AAATATTTAA
7455488 TAAGTAGGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:7455606 original size:7 final size:7
Alignment explanation
Indices: 7455594--7455618 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7455584 AGAAGTTGTC
7455594 TTTTGAG
1 TTTTGAG
7455601 TTTTGAG
1 TTTTGAG
7455608 TTTTGAG
1 TTTTGAG
7455615 TTTT
1 TTTT
7455619 TTTTATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (7 bp):
TTTTGAG
Found at i:7457037 original size:23 final size:25
Alignment explanation
Indices: 7457005--7457055 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
7456995 ATATTTTTAT
7457005 AAAAGTTATA-TGA-AATAATTATAA
1 AAAAGTTATATTGATAAT-ATTATAA
*
7457029 AAAAG-TATATTTATAATATTATAA
1 AAAAGTTATATTGATAATATTATAA
7457053 AAA
1 AAA
7457056 TATTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAAGTTATATTGATAATATTATAA
Found at i:7457209 original size:16 final size:17
Alignment explanation
Indices: 7457163--7457211 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
7457153 GGTTCCATAC
*
7457163 AATATTATTTAAAATTA
1 AATATTATTTAAAAATA
*
7457180 AATAGATAATTTAAAAAT-
1 AAT--ATTATTTAAAAATA
7457198 AATATTATTTAAAA
1 AATATTATTTAAAA
7457212 TATTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 10 0.37
17 3 0.11
18 3 0.11
19 11 0.41
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATTATTTAAAAATA
Found at i:7457209 original size:35 final size:37
Alignment explanation
Indices: 7457163--7457232 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
7457153 GGTTCCATAC
*
7457163 AATATTATTT-AAA-ATTAAATAGATAATTTAAAAAT
1 AATATTATTTAAAATATTAAATAAATAATTTAAAAAT
*
7457198 AATATTATTTAAAATATTAAATAAATATTTTAAAA
1 AATATTATTTAAAATATTAAATAAATAATTTAAAA
7457233 CAGTTTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 10 0.32
36 3 0.10
37 18 0.58
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (37 bp):
AATATTATTTAAAATATTAAATAAATAATTTAAAAAT
Done.