Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 399 of 425
Found at i:121949383 original size:49 final size:48
Alignment explanation
Indices: 121949310--121949415 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 48
121949300 TATGGTCTTA
* * * *
121949310 CACATATTCAAATATCGATGCCATAGCCCAGCTTTGGTCTTACAGGTAAT
1 CACATA-TCAAATAACGATGCCATAGCCCAGCTATGGTCGTACACG-AAT
*
121949360 CACATATCACATAACGATGCCATAGCCCAGCTATGGTCGTACACGAAT
1 CACATATCAAATAACGATGCCATAGCCCAGCTATGGTCGTACACGAAT
121949408 CACATATC
1 CACATATC
121949416 TCACTGATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 11 0.22
49 34 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (48 bp):
CACATATCAAATAACGATGCCATAGCCCAGCTATGGTCGTACACGAAT
Found at i:121949475 original size:47 final size:46
Alignment explanation
Indices: 121949325--121949497 Score: 157
Period size: 47 Copynumber: 3.7 Consensus size: 46
121949315 ATTCAAATAT
* * * * * * *
121949325 CGATGCCATAGCCCAGCTTTGGTCTTACAGGTAATCACATATCACATAA
1 CGATGCCATATCCCAGATATGGTCTTATACG-AAGCACATATCAC--AC
* * * * * *
121949374 CGATGCCATAGCCCAGCTATGGTCGTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
121949420 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
*
121949467 CGATGCCATATCCCAAATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
121949498 GAAATCACTT
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
46 27 0.25
47 40 0.37
48 12 0.11
49 28 0.26
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:121949558 original size:31 final size:31
Alignment explanation
Indices: 121949515--121949663 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
121949505 CTTGTCACTT
* *
121949515 GTAGTCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
121949546 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
121949577 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
121949608 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
121949639 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
121949664 TGTTATTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:121949744 original size:50 final size:51
Alignment explanation
Indices: 121949639--121949767 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
121949629 CACTGATCAG
* * * *
121949639 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
121949690 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
121949740 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
121949768 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:121952977 original size:15 final size:15
Alignment explanation
Indices: 121952959--121953025 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
121952949 TTATAATTAA
121952959 ATAAATTTTAATATT
1 ATAAATTTTAATATT
*
121952974 AT-AATAATTAATATTAT
1 ATAAAT-TTTAATA-T-T
*
121952991 ATAAATTTTTAA-ATA
1 ATAAA-TTTTAATATT
121953006 ATAAATTTT-ATATT
1 ATAAATTTTAATATT
121953020 -TAAATT
1 ATAAATT
121953026 GGAAACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
13 7 0.17
14 9 0.21
15 13 0.31
16 2 0.05
17 4 0.10
18 6 0.14
19 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAATTTTAATATT
Found at i:121953739 original size:27 final size:26
Alignment explanation
Indices: 121953678--121953739 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
121953668 TAAATATTAT
*
121953678 AATTATACATAAATTTGAATGTATAA
1 AATTATATATAAATTTGAATGTATAA
* * *
121953704 TATTATATATAAATTTTAATTTTATAA
1 AATTATATATAAATTTGAA-TGTATAA
*
121953731 AATTTTATA
1 AATTATATA
121953740 CATAATTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (26 bp):
AATTATATATAAATTTGAATGTATAA
Found at i:121955139 original size:67 final size:67
Alignment explanation
Indices: 121955054--121955180 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
121955044 CAGCTTATTA
* *
121955054 TTAGAATTTTAACGGTTTTTGATTAAAATAAATTAATTGATAAGTTAGATGATTTTTTTTTATAA
1 TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTTTATAA
121955119 TT
66 TT
* *
121955121 TTAGTATTTTAACTGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTT
1 TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTT
121955181 AGAGTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (67 bp):
TTAGAATTTTAACGGTTTTCGATTAAAATAAATTAATTGATAAGTCAGATGATTTTTTTTTATAA
TT
Found at i:121965985 original size:14 final size:15
Alignment explanation
Indices: 121965968--121966009 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
121965958 AATATATTCA
121965968 TATAATTTTAT-TTT
1 TATAATTTTATATTT
121965982 TAT-ATTTTATATTT
1 TATAATTTTATATTT
121965996 TATATATTTT-TATT
1 TATA-ATTTTATATT
121966010 AATCAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.28
14 9 0.36
15 4 0.16
16 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATAATTTTATATTT
Found at i:121965991 original size:7 final size:7
Alignment explanation
Indices: 121965972--121966000 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
121965962 TATTCATATA
121965972 ATTTTAT
1 ATTTTAT
121965979 -TTTTAT
1 ATTTTAT
121965985 ATTTTAT
1 ATTTTAT
121965992 ATTTTAT
1 ATTTTAT
121965999 AT
1 AT
121966001 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:121966003 original size:9 final size:8
Alignment explanation
Indices: 121965976--121966008 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
121965966 CATATAATTT
121965976 TATTTTTA
1 TATTTTTA
121965984 TA-TTTTA
1 TATTTTTA
121965991 TATTTTATA
1 TATTTT-TA
121966000 TATTTTTA
1 TATTTTTA
121966008 T
1 T
121966009 TAATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 8 0.35
9 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTTTTA
Found at i:121967625 original size:27 final size:27
Alignment explanation
Indices: 121967595--121967650 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
121967585 TATGTCAAAT
* * *
121967595 GCGCGACTAGTTGAGCCTTTCTCAGAG
1 GCGCGACTAATCGAGCCTATCTCAGAG
*
121967622 GCGCGACTAATCGTGCCTATCTCAGAG
1 GCGCGACTAATCGAGCCTATCTCAGAG
121967649 GC
1 GC
121967651 ACAAATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (27 bp):
GCGCGACTAATCGAGCCTATCTCAGAG
Found at i:121967778 original size:13 final size:13
Alignment explanation
Indices: 121967757--121967798 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
121967747 ATGCATTATT
121967757 AAAATTAAATTAA
1 AAAATTAAATTAA
*
121967770 AATATTAAA-TAA
1 AAAATTAAATTAA
*
121967782 AAAATAAAATTATA
1 AAAATTAAATTA-A
121967796 AAA
1 AAA
121967799 CAATATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 10 0.42
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTAAATTAA
Found at i:121980315 original size:20 final size:22
Alignment explanation
Indices: 121980292--121980331 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
121980282 ATGAAAATAA
121980292 TTTTAGGGGC-TAAA-AAATTG
1 TTTTAGGGGCATAAATAAATTG
121980312 TTTTAGGGGCATAAATAAAT
1 TTTTAGGGGCATAAATAAAT
121980332 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (22 bp):
TTTTAGGGGCATAAATAAATTG
Found at i:121982450 original size:24 final size:24
Alignment explanation
Indices: 121982401--121982451 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
121982391 AATGGCCTAC
* ** *
121982401 ATACATATACATATACGTATGTAT
1 ATACATAAACATATACACATGCAT
121982425 ATACATAAACATATACACATGCAT
1 ATACATAAACATATACACATGCAT
121982449 ATA
1 ATA
121982452 GAACAGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (24 bp):
ATACATAAACATATACACATGCAT
Found at i:121988511 original size:4 final size:4
Alignment explanation
Indices: 121988502--121988536 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
121988492 AGATGGTTAA
*
121988502 TATG TATG TATG TATG TATG AATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
121988537 ACATGTGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:122013584 original size:27 final size:28
Alignment explanation
Indices: 122013553--122013606 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
122013543 ATATATATGC
*
122013553 AGAAACAG-TG-GAGAAAGATGGGAAAAG
1 AGAAACAGATGAGAG-AAGAAGGGAAAAG
*
122013580 AGAAAGAGATGAGAGAAGAAGGGAAAA
1 AGAAACAGATGAGAGAAGAAGGGAAAA
122013607 CCTTGAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 13 0.57
29 3 0.13
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.06
Consensus pattern (28 bp):
AGAAACAGATGAGAGAAGAAGGGAAAAG
Found at i:122022688 original size:17 final size:17
Alignment explanation
Indices: 122022666--122022715 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
122022656 ACCACATCAG
*
122022666 CTTTTAACCGTAGAAAA
1 CTTTTAACAGTAGAAAA
122022683 CTTTTAACAGTAGAAAA
1 CTTTTAACAGTAGAAAA
122022700 CTTTTAACAGTAGAAA
1 CTTTTAACAGTAGAAA
122022716 TGGATAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (17 bp):
CTTTTAACAGTAGAAAA
Found at i:122042185 original size:14 final size:14
Alignment explanation
Indices: 122042166--122042194 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
122042156 GTTCATTAAT
122042166 AGCCTGCCCAAAAG
1 AGCCTGCCCAAAAG
122042180 AGCCTGCCCAAAAG
1 AGCCTGCCCAAAAG
122042194 A
1 A
122042195 AAGGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.34, G:0.21, T:0.07
Consensus pattern (14 bp):
AGCCTGCCCAAAAG
Found at i:122049897 original size:39 final size:39
Alignment explanation
Indices: 122049853--122049988 Score: 218
Period size: 39 Copynumber: 3.5 Consensus size: 39
122049843 AGCTTGATGA
122049853 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
122049892 GCTTCAGTTAGCCTTCGGGTTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
122049931 GCTTCAGTTAGCTTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
122049970 GCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
122049989 TTTCAGATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:122056433 original size:18 final size:18
Alignment explanation
Indices: 122056412--122056553 Score: 90
Period size: 19 Copynumber: 7.4 Consensus size: 18
122056402 GCTCTGATGA
*
122056412 GCTTCAGTTAGCCTTCGA
1 GCTTCAGTTAGCCTTCGG
*
122056430 GCTTCCGTTTAGCACTT-GTG
1 GCTTCAG-TTAGC-CTTCG-G
122056450 TGCTTCAGTTAGCCTTCGG
1 -GCTTCAGTTAGCCTTCGG
* *
122056469 GTTTCCGTTTAGCACTT-GTG
1 GCTTCAG-TTAGC-CTTCG-G
122056489 TGCTTCAGTTAGCCTTCGG
1 -GCTTCAGTTAGCCTTCGG
* * *
122056508 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAGC-CTT-CGG
* *
122056529 GCTTCAGCTAGACTTCGG
1 GCTTCAGTTAGCCTTCGG
122056547 GCTTCAG
1 GCTTCAG
122056554 ATCACGATGT
Statistics
Matches: 96, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
18 25 0.26
19 28 0.29
20 25 0.26
21 18 0.19
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.37
Consensus pattern (18 bp):
GCTTCAGTTAGCCTTCGG
Found at i:122056456 original size:39 final size:39
Alignment explanation
Indices: 122056412--122056551 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
122056402 GCTCTGATGA
*
122056412 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
122056451 GCTTCAGTTAGCCTTCGGGTTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
122056490 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
122056529 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
122056552 AGATCACGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:122059670 original size:46 final size:46
Alignment explanation
Indices: 122059604--122059835 Score: 313
Period size: 46 Copynumber: 5.0 Consensus size: 46
122059594 GTGTGCTCTC
* *
122059604 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
122059650 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
122059696 TGATATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
122059742 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
122059788 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
122059834 TG
1 TG
122059836 TCAAAGATAA
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:122067463 original size:28 final size:28
Alignment explanation
Indices: 122067431--122067484 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
122067421 CAATAAGTAC
122067431 TGTATGTAGTGGTAACTAATATTATAGT
1 TGTATGTAGTGGTAACTAATATTATAGT
122067459 TGTATGTAGTGGTAACTAATATTATA
1 TGTATGTAGTGGTAACTAATATTATA
122067485 CTTTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (28 bp):
TGTATGTAGTGGTAACTAATATTATAGT
Found at i:122069209 original size:16 final size:16
Alignment explanation
Indices: 122069188--122069226 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
122069178 GTTTGGTTCA
*
122069188 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
122069204 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
122069220 CTGTAAT
1 CTGTAAT
122069227 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:122069301 original size:44 final size:46
Alignment explanation
Indices: 122069208--122069301 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
122069198 ATAGGGCTGT
*
122069208 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
*
122069254 AATGGAATAGAACTGTAAT-AGT-ATTCTTA-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTC-AACTGTTTGGTTGAATGG
122069298 AATG
1 AATG
122069302 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:122069484 original size:58 final size:58
Alignment explanation
Indices: 122069405--122069530 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
122069395 TTTTAATAAG
* *
122069405 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
122069463 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
122069521 ATTATTATTA
1 ATTATTATTA
122069531 TATGAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.36
58 39 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:122069551 original size:58 final size:56
Alignment explanation
Indices: 122069392--122069558 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 56
122069382 TATTGTTATT
* * * *
122069392 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAA-AAAAATAATATATAATTTAACA
* * *
122069450 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATTTAACA
*
122069507 AAATTCTTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT
122069559 ACTATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
56 11 0.12
57 24 0.26
58 58 0.62
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATTTAACA
Found at i:122079290 original size:20 final size:20
Alignment explanation
Indices: 122079253--122079291 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
122079243 CTCACCAACC
* *
122079253 AATTTATTTTTTACTAATTG
1 AATTGATTTTGTACTAATTG
*
122079273 AATTGATTTTGTATTAATT
1 AATTGATTTTGTACTAATT
122079292 ATTTGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
AATTGATTTTGTACTAATTG
Found at i:122097099 original size:23 final size:23
Alignment explanation
Indices: 122097073--122097119 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
122097063 CAAATATAGG
*
122097073 AAAAAGCTTTTAAAATTAAACAT
1 AAAAAGCCTTTAAAATTAAACAT
122097096 AAAAAGCCTTTAAAATTAAACAT
1 AAAAAGCCTTTAAAATTAAACAT
122097119 A
1 A
122097120 CCCTAGCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAAAGCCTTTAAAATTAAACAT
Found at i:122099689 original size:29 final size:29
Alignment explanation
Indices: 122099651--122099707 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
122099641 ATTTTCTTAT
*
122099651 ATATAATTTT-TTAAAATTTTTATAACTTG
1 ATATAATTTTAGT-AAATTTTTATAACTTG
* *
122099680 ATATACTTTTAGTAAGTTTTTATAACTT
1 ATATAATTTTAGTAAATTTTTATAACTT
122099708 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (29 bp):
ATATAATTTTAGTAAATTTTTATAACTTG
Found at i:122099760 original size:10 final size:10
Alignment explanation
Indices: 122099747--122099796 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
122099737 CATTTAAATT
122099747 ATTTTATATA
1 ATTTTATATA
*
122099757 ATTTTCTATA
1 ATTTTATATA
122099767 A-TTTATA-A
1 ATTTTATATA
122099775 ATTTT-TATA
1 ATTTTATATA
*
122099784 ATATTTATTTA
1 AT-TTTATATA
122099795 AT
1 AT
122099797 ATTTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 4 0.12
9 11 0.33
10 13 0.39
11 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTATATA
Found at i:122099791 original size:19 final size:19
Alignment explanation
Indices: 122099749--122099785 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
122099739 TTTAAATTAT
122099749 TTTATATAATTTTCTATAA
1 TTTATATAATTTTCTATAA
122099768 TTTATA-AATTTT-TATAA
1 TTTATATAATTTTCTATAA
122099785 T
1 T
122099786 ATTTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATAATTTTCTATAA
Found at i:122099963 original size:23 final size:21
Alignment explanation
Indices: 122099919--122099970 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
122099909 CCAATTTTTT
*
122099919 ATAATATTTTAATAAAATTTTA
1 ATAAT-TTTTAATAAAAATTTA
*
122099941 GATAATTTTTTATAATAAATTTA
1 -ATAATTTTTAATAA-AAATTTA
122099964 A-AATTTT
1 ATAATTTT
122099971 CATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 9 0.35
23 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATAATTTTTAATAAAAATTTA
Found at i:122101206 original size:17 final size:19
Alignment explanation
Indices: 122101172--122101211 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
122101162 AAAATTATAA
122101172 TATT-ATATTAAAATA-TT
1 TATTAATATTAAAATATTT
122101189 TATTAATATTAAAA-ATTT
1 TATTAATATTAAAATATTT
122101207 TATTA
1 TATTA
122101212 CACCCTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAATATTAAAATATTT
Found at i:122102431 original size:29 final size:28
Alignment explanation
Indices: 122102399--122102465 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
122102389 GTTAAACTTG
* * *
122102399 AATTTTAACATCTAAAAAGTA-GAAAATTA
1 AATTTTAAAAT-TAAAAA-TATAAAAACTA
122102428 AATTCTTAAAATTAAAAATATAAAAACTA
1 AATT-TTAAAATTAAAAATATAAAAACTA
122102457 AATTTTAAA
1 AATTTTAAA
122102466 TTTACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 7 0.21
29 20 0.61
30 6 0.18
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (28 bp):
AATTTTAAAATTAAAAATATAAAAACTA
Found at i:122103081 original size:7 final size:7
Alignment explanation
Indices: 122103065--122103113 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
122103055 ACAGAGAGAT
122103065 AAAAAA-
1 AAAAAAG
122103071 AAAAAAG
1 AAAAAAG
122103078 AAAAAAG
1 AAAAAAG
122103085 AAAAAAG
1 AAAAAAG
122103092 AAAAAAG
1 AAAAAAG
122103099 AAAAAAG
1 AAAAAAG
122103106 AAAAAAG
1 AAAAAAG
122103113 A
1 A
122103114 GAAGAGAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:122109502 original size:26 final size:27
Alignment explanation
Indices: 122109462--122109512 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
122109452 AAGTTTCTTT
122109462 ATATATTCTTTAAAATTATTT-TAAAAA
1 ATATATTCTTTAAAATT-TTTATAAAAA
122109489 ATATATT-TTTAAAATTTTTATAAA
1 ATATATTCTTTAAAATTTTTATAAA
122109513 TATTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATATTCTTTAAAATTTTTATAAAAA
Found at i:122109503 original size:13 final size:13
Alignment explanation
Indices: 122109462--122109503 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
122109452 AAGTTTCTTT
122109462 ATATATTCTTTAAA
1 ATATATT-TTTAAA
*
122109476 AT-TATTTTAAAAA
1 ATATATTTT-TAAA
122109489 ATATATTTTTAAA
1 ATATATTTTTAAA
122109502 AT
1 AT
122109504 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 2 0.08
13 14 0.58
14 8 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATTTTTAAA
Found at i:122109535 original size:19 final size:20
Alignment explanation
Indices: 122109479--122109537 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
122109469 CTTTAAAATT
122109479 ATTTTAAAAAATATATTTTTAAA
1 ATTTT-AAAAAT-TA-TTTTAAA
*
122109502 ATTTTTATAAA-TATTTT-AA
1 A-TTTTAAAAATTATTTTAAA
122109521 ATTTTAAAAATTATTTT
1 ATTTTAAAAATTATTTT
122109538 GACCTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 4 0.12
21 2 0.06
23 5 0.16
24 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTAAAAATTATTTTAAA
Found at i:122109938 original size:9 final size:9
Alignment explanation
Indices: 122109924--122109956 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
122109914 AAATTATTCG
122109924 AATCGAGTT
1 AATCGAGTT
122109933 AATCGAGTT
1 AATCGAGTT
*
122109942 AATCGAATT
1 AATCGAGTT
122109951 AATCGA
1 AATCGA
122109957 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:122109957 original size:9 final size:9
Alignment explanation
Indices: 122109924--122109969 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
122109914 AAATTATTCG
*
122109924 AATCGAGTT
1 AATCGAATT
*
122109933 AATCGAGTT
1 AATCGAATT
122109942 AATCGAATT
1 AATCGAATT
*
122109951 AATCGAATC
1 AATCGAATT
122109960 AACTCGAATT
1 AA-TCGAATT
122109970 TTTTTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:122126937 original size:6 final size:6
Alignment explanation
Indices: 122126896--122126920 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
122126886 ATATAAATTT
122126896 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
122126921 TTCACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:122129614 original size:84 final size:84
Alignment explanation
Indices: 122129473--122129683 Score: 296
Period size: 84 Copynumber: 2.5 Consensus size: 84
122129463 TAGCTTCGAC
* * * * *
122129473 GAAACTATCATTAATGAAAGTAGCAATCAACATAATATAGTTGTTGCGGAAAAGGGCATCGAAAC
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCAGAAAAGGGCACCGAAAC
122129538 GCCCATCATTAGCTATGAT
66 GCCCATCATTAGCTATGAT
* ** *
122129557 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGTAGAAGGGGGCACCGAAAT
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCAGAAAAGGGCACCGAAAC
* **
122129622 GTCTGTCATTAGCTATGAT
66 GCCCATCATTAGCTATGAT
* *
122129641 GAAACCGTCGCTAATGAAAGAAGCAATCAACATAATATAGTTG
1 GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTG
122129684 ATGTGGATGA
Statistics
Matches: 113, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 113 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (84 bp):
GAAACCATCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGCAGAAAAGGGCACCGAAAC
GCCCATCATTAGCTATGAT
Found at i:122135677 original size:13 final size:13
Alignment explanation
Indices: 122135661--122135722 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
122135651 TTCTTCATTA
*
122135661 CTTTTGAAAAGTA
1 CTTTTGAAAAGTG
122135674 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
122135687 CTGTAGAAAAGTG
1 CTTTTGAAAAGTG
* *
122135700 TTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
122135713 CTTTGGAAAA
1 CTTTTGAAAA
122135723 ATTTAAGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:122139192 original size:26 final size:26
Alignment explanation
Indices: 122139153--122139202 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
122139143 TCAACTCAAC
* *
122139153 GAGCTCGGGTGTTCGTATCCATAAGT
1 GAGCTCGGGCGTTCGCATCCATAAGT
122139179 GAGCTCGGGCGTTCGCATCCATAA
1 GAGCTCGGGCGTTCGCATCCATAA
122139203 AACATCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (26 bp):
GAGCTCGGGCGTTCGCATCCATAAGT
Found at i:122146679 original size:3 final size:3
Alignment explanation
Indices: 122146671--122146736 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
122146661 ATTTATTTAC
122146671 ATT ATT ATT ATT 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
122146719 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
122146737 CTTGAGCAAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:122154364 original size:21 final size:23
Alignment explanation
Indices: 122154339--122154386 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
122154329 GAATATGCTG
*
122154339 TAAATTGAAAGTTTA-TGATAGA
1 TAAATTGAAAGGTTATTGATAGA
122154361 -AAA-TGAAAGGTTATTGATAGA
1 TAAATTGAAAGGTTATTGATAGA
122154382 TAAAT
1 TAAAT
122154387 CACATTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (23 bp):
TAAATTGAAAGGTTATTGATAGA
Found at i:122155214 original size:29 final size:29
Alignment explanation
Indices: 122155171--122155269 Score: 153
Period size: 29 Copynumber: 3.4 Consensus size: 29
122155161 TGTGTGTACC
* *
122155171 ATGTGAAAAAGGGATAGTTTTGGCTATCGA
1 ATGTG-AAAAGGGATAGCTTCGGCTATCGA
122155201 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
122155230 ATGCGAAAAGGGATAGCTTCGGCTATCAA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
122155259 ATGTGAAAAGG
1 ATGTGAAAAGG
122155270 AAAGGTATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 59 0.92
30 5 0.08
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:122155301 original size:33 final size:32
Alignment explanation
Indices: 122155264--122155385 Score: 83
Period size: 33 Copynumber: 3.9 Consensus size: 32
122155254 ATCAAATGTG
122155264 AAAAGGAAAGGTATACTTTGTGTATACCACATA
1 AAAAGGAAAGGTATACTTTGTGTATACCAC-TA
** * * *
122155297 AAAAGGCTATGTACACTTTGTGTATA-CACTT
1 AAAAGGAAAGGTATACTTTGTGTATACCACTA
* * * * * *
122155328 GAAACG--A--CATACTTTGTGTATATCATTTG
1 AAAAGGAAAGGTATACTTTGTGTATACCA-CTA
*
122155357 AAAAGGAAAGGTATACTTTGTGTGTACCA
1 AAAAGGAAAGGTATACTTTGTGTATACCA
122155386 TTTGAAAAGG
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
27 13 0.19
28 2 0.03
29 6 0.09
31 6 0.09
32 3 0.04
33 37 0.55
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (32 bp):
AAAAGGAAAGGTATACTTTGTGTATACCACTA
Found at i:122155388 original size:33 final size:33
Alignment explanation
Indices: 122155336--122155429 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
122155326 TTGAAACGAC
*
122155336 ATACTTTGTGTATATCATTTGAAAAGGAAAGGT
1 ATACTTTGTGTATACCATTTGAAAAGGAAAGGT
* *
122155369 ATACTTTGTGTGTACCATTTGAAAAGGAAATGT
1 ATACTTTGTGTATACCATTTGAAAAGGAAAGGT
* ***
122155402 ACAC--AAAGTATACCATTTGAAAAGGAAA
1 ATACTTTGTGTATACCATTTGAAAAGGAAA
122155430 TGTACACCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 20 0.38
33 33 0.62
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (33 bp):
ATACTTTGTGTATACCATTTGAAAAGGAAAGGT
Found at i:122159029 original size:46 final size:46
Alignment explanation
Indices: 122158975--122159289 Score: 504
Period size: 46 Copynumber: 6.8 Consensus size: 46
122158965 CTATGATAGA
122158975 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
122159021 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
122159067 AAACGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
122159113 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
122159159 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* ***
122159205 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * *
122159252 AAATGAATAAGAGCATGGTTGAATGATACCATGGCAAC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
122159290 ATGTGTAACA
Statistics
Matches: 255, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
46 220 0.86
47 35 0.14
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:122160560 original size:46 final size:44
Alignment explanation
Indices: 122160501--122160615 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
122160491 ACAGGACAGA
* *
122160501 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
122160547 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
122160591 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
122160616 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:122160596 original size:44 final size:45
Alignment explanation
Indices: 122160501--122160634 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
122160491 ACAGGACAGA
* *
122160501 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
122160547 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
122160591 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
122160635 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:122164474 original size:21 final size:20
Alignment explanation
Indices: 122164434--122164474 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
122164424 ATTTCAATTA
*
122164434 GCCCGTTTTGTCTATTTTTG
1 GCCCGTTTTATCTATTTTTG
*
122164454 GCCCGTTTTATGCTCTTTTTG
1 GCCCGTTTTAT-CTATTTTTG
122164475 TTCCCCTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.22, G:0.20, T:0.54
Consensus pattern (20 bp):
GCCCGTTTTATCTATTTTTG
Found at i:122170344 original size:7 final size:7
Alignment explanation
Indices: 122170332--122170366 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
122170322 TATATATGGG
122170332 AGAGTGA
1 AGAGTGA
122170339 AGAGTGA
1 AGAGTGA
122170346 AGAGTGA
1 AGAGTGA
122170353 AGAGTGA
1 AGAGTGA
*
122170360 AAAGTGA
1 AGAGTGA
122170367 TGGCGTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.40, T:0.14
Consensus pattern (7 bp):
AGAGTGA
Found at i:122170619 original size:21 final size:20
Alignment explanation
Indices: 122170562--122170632 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
122170552 GTATTACTGC
122170562 ATTAATAATAATATTTATATTA
1 ATTAAT-ATAATATTTA-ATTA
*
122170584 ATTTAAT-TAAAATTTAATTA
1 A-TTAATATAATATTTAATTA
*
122170604 ATTAATAGTAATATTT-TTTA
1 ATTAATA-TAATATTTAATTA
122170624 ATGTAATAT
1 AT-TAATAT
122170633 TAATTAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
19 5 0.12
20 11 0.26
21 20 0.48
22 1 0.02
23 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTAATATAATATTTAATTA
Found at i:122170639 original size:15 final size:16
Alignment explanation
Indices: 122170600--122170639 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
122170590 TTAAAATTTA
122170600 ATTAATTAATAGTAAT
1 ATTAATTAATAGTAAT
**
122170616 ATTTTTTAAT-GTAAT
1 ATTAATTAATAGTAAT
122170631 ATTAATTAA
1 ATTAATTAA
122170640 ATGATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTAATTAATAGTAAT
Found at i:122170767 original size:33 final size:33
Alignment explanation
Indices: 122170730--122170795 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
122170720 AAAAATCTAT
*
122170730 TTTTATAATAATATCA-AAATTAAACTATAATTA
1 TTTTA-AATAAAATCATAAATTAAACTATAATTA
* *
122170763 TTTTAAATAAAATTATAAATTAAATTATAATTA
1 TTTTAAATAAAATCATAAATTAAACTATAATTA
122170796 CCACAACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTTAAATAAAATCATAAATTAAACTATAATTA
Found at i:122170927 original size:18 final size:19
Alignment explanation
Indices: 122170880--122170928 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
122170870 TACATCAAAC
122170880 TTTTAAATA-ATAATTATA
1 TTTTAAATATATAATTATA
**
122170898 AATTAAAT-TATAATTAT-
1 TTTTAAATATATAATTATA
122170915 TTTTAAATATATAA
1 TTTTAAATATATAA
122170929 ATATGTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTAAATATATAATTATA
Found at i:122172386 original size:40 final size:40
Alignment explanation
Indices: 122172331--122172412 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
122172321 ATTTAACCGA
122172331 TTTATGTTTGAGAGTGTGACTGGTTTTGACTGTATTCTTT
1 TTTATGTTTGAGAGTGTGACTGGTTTTGACTGTATTCTTT
122172371 TTTATGTTTGAGAGTGTGACTGGTTTTGACTGTATTCTTT
1 TTTATGTTTGAGAGTGTGACTGGTTTTGACTGTATTCTTT
122172411 TT
1 TT
122172413 GGCGTTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.07, G:0.24, T:0.54
Consensus pattern (40 bp):
TTTATGTTTGAGAGTGTGACTGGTTTTGACTGTATTCTTT
Found at i:122191031 original size:22 final size:22
Alignment explanation
Indices: 122191006--122191051 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
122190996 ATAGAGATTT
122191006 TAATATGATATTAACCATTTAG
1 TAATATGATATTAACCATTTAG
122191028 TAATATGATATTAACCATTTAG
1 TAATATGATATTAACCATTTAG
122191050 TA
1 TA
122191052 TGACAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (22 bp):
TAATATGATATTAACCATTTAG
Found at i:122194432 original size:3 final size:3
Alignment explanation
Indices: 122194424--122194456 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
122194414 AGAAGTAGAA
122194424 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
122194457 AAGAAGAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:122195741 original size:31 final size:31
Alignment explanation
Indices: 122195662--122195741 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
122195652 TGTATATATG
* *
122195662 AACTTTAA-TTTGGTGTAATTATACACATGA
1 AACTTTAATTTTGGTTTAAATATACACATGA
* * * *
122195692 AACTGTAATTGTGGTTTAAATATATACTTGA
1 AACTTTAATTTTGGTTTAAATATACACATGA
*
122195723 AACTTTAATTTTGATTTAA
1 AACTTTAATTTTGGTTTAA
122195742 TCATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 7 0.17
31 33 0.82
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (31 bp):
AACTTTAATTTTGGTTTAAATATACACATGA
Found at i:122195818 original size:24 final size:25
Alignment explanation
Indices: 122195774--122195822 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
122195764 ATACATCAAT
*
122195774 TTATTTTTATATTAGATAAATATAA
1 TTATTTTTATATTAGACAAATATAA
*
122195799 TTATTTTTATA-TATACAAATATAA
1 TTATTTTTATATTAGACAAATATAA
122195823 ACATAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATTTTTATATTAGACAAATATAA
Found at i:122197150 original size:18 final size:20
Alignment explanation
Indices: 122197114--122197150 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
122197104 GTTATAAAAA
*
122197114 TTAAAAATTACTATGAAATC
1 TTAAAAATTACTATAAAATC
122197134 TTAAAAA-TA-TATAAAAT
1 TTAAAAATTACTATAAAAT
122197151 GCTAAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TTAAAAATTACTATAAAATC
Found at i:122198326 original size:23 final size:22
Alignment explanation
Indices: 122198290--122198340 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
122198280 TTAATAAATC
122198290 AATTTTATAAATATATTTATTA-A
1 AATTTTATAAATATA--TATTAGA
**
122198313 AATTTTATTTATATATATTAGA
1 AATTTTATAAATATATATTAGA
122198335 AATTTT
1 AATTTT
122198341 TCCTTCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 7 0.28
23 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTTATAAATATATATTAGA
Found at i:122204480 original size:16 final size:17
Alignment explanation
Indices: 122204448--122204480 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
122204438 TAATAATAAT
*
122204448 AAATTAATATAATATTA
1 AAATTAATATAAAATTA
122204465 AAATTAA-ATAAAATTA
1 AAATTAATATAAAATTA
122204481 TTTTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAATATAAAATTA
Found at i:122204761 original size:30 final size:29
Alignment explanation
Indices: 122204673--122204762 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
122204663 TTAAATCATC
* *
122204673 AAAATTAATATTGAGTGATAAAATTTAATTAA
1 AAAATTAAAATTTA-TGATAAAATTTAA-T-A
* * *
122204705 AAAATTAAAATTTGTGACAAATTTTAAT-
1 AAAATTAAAATTTATGATAAAATTTAATA
122204733 AAAATTCAAAATTTAATGATAAAATTTAAT
1 AAAATT-AAAATTT-ATGATAAAATTTAAT
122204763 CGCATAAGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 6 0.12
29 7 0.15
30 13 0.27
31 11 0.23
32 11 0.23
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (29 bp):
AAAATTAAAATTTATGATAAAATTTAATA
Found at i:122212230 original size:16 final size:16
Alignment explanation
Indices: 122212174--122212230 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
122212164 AAACATTAAA
122212174 TATTATTTTCTCAATT
1 TATTATTTTCTCAATT
122212190 TATTAAATATTT-TGCAATT
1 TATT--AT-TTTCT-CAATT
*
122212209 ACATTATTTTCTCAATT
1 -TATTATTTTCTCAATT
122212226 TATTA
1 TATTA
122212231 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 6 0.18
19 8 0.24
20 3 0.09
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTATTTTCTCAATT
Found at i:122214139 original size:6 final size:6
Alignment explanation
Indices: 122214111--122214160 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
122214101 CTCTTTTATG
122214111 TTTTT- TTTTATC -TTTTC -TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
122214157 TTTT
1 TTTT
122214161 GTTCCCTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 11 0.26
6 31 0.74
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:122214142 original size:24 final size:23
Alignment explanation
Indices: 122214092--122214160 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
122214082 TTTTTCTACC
* * *
122214092 TTTTATCATCTCTTTTATGTTTTT
1 TTTTATCTTTTCTTTTCT-TTTTT
*
122214116 TTTTATCTTTTCTTTTCTTTTTC
1 TTTTATCTTTTCTTTTCTTTTTT
122214139 TTTT-TCTTTTTCTTTTTCTTTT
1 TTTTATC-TTTTC-TTTTCTTTT
122214161 GTTCCCTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.05
23 13 0.33
24 24 0.62
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTATCTTTTCTTTTCTTTTTT
Found at i:122215253 original size:23 final size:23
Alignment explanation
Indices: 122215223--122215272 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
122215213 AAAATGGAAC
122215223 TGTTTTGTTTTGCTTCCATTGTG
1 TGTTTTGTTTTGCTTCCATTGTG
122215246 TGTTTTGTTTTGCTTCCATTGTG
1 TGTTTTGTTTTGCTTCCATTGTG
122215269 TGTT
1 TGTT
122215273 CTTCTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.04, C:0.12, G:0.22, T:0.62
Consensus pattern (23 bp):
TGTTTTGTTTTGCTTCCATTGTG
Found at i:122224932 original size:6 final size:5
Alignment explanation
Indices: 122224899--122224931 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
122224889 TTGTGTGTTC
122224899 TTTAT TTTA- TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
122224932 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:122229629 original size:4 final size:4
Alignment explanation
Indices: 122229620--122229646 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
122229610 TCCCTTTTTA
122229620 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
122229647 TTTTTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:122231830 original size:6 final size:5
Alignment explanation
Indices: 122231797--122231829 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
122231787 TTGTGTGTTC
122231797 TTTAT TTTA- TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
122231830 TCACATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:122239767 original size:20 final size:21
Alignment explanation
Indices: 122239739--122239788 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
122239729 ATTATGTTTA
122239739 TTTTCTTTAAATT-AAGAGTTG
1 TTTT-TTTAAATTCAAGAGTTG
* *
122239760 TTTTTTTAACTTCATGAGTTG
1 TTTTTTTAAATTCAAGAGTTG
*
122239781 TTTATTTA
1 TTTTTTTA
122239789 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (21 bp):
TTTTTTTAAATTCAAGAGTTG
Found at i:122242367 original size:9 final size:9
Alignment explanation
Indices: 122242353--122242387 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
122242343 AAAATACAAA
122242353 AATATTTTT
1 AATATTTTT
122242362 AATATTTTT
1 AATATTTTT
*
122242371 AATATTATT
1 AATATTTTT
*
122242380 AAAATTTT
1 AATATTTT
122242388 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
AATATTTTT
Found at i:122243898 original size:29 final size:28
Alignment explanation
Indices: 122243866--122243926 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
122243856 AAATAAAATA
*
122243866 TAAAAACTATCAAAAAATTAAAAATTATT
1 TAAAAACAAT-AAAAAATTAAAAATTATT
* * *
122243895 TAAAAAACAATAAATATTTAATAATTATT
1 T-AAAAACAATAAAAAATTAAAAATTATT
122243924 TAA
1 TAA
122243927 TAATGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.07
29 17 0.63
30 8 0.30
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
TAAAAACAATAAAAAATTAAAAATTATT
Found at i:122248457 original size:2 final size:2
Alignment explanation
Indices: 122248402--122248438 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
122248392 TGGTATTTAA
*
122248402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122248439 ATAGTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:122249047 original size:16 final size:16
Alignment explanation
Indices: 122249028--122249113 Score: 67
Period size: 16 Copynumber: 5.7 Consensus size: 16
122249018 TTTCTTCTTT
122249028 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
*
122249044 TTTTTTTTGGGGTAGG
1 TTTTTTTTGGGTTAGG
*
122249060 TTTTTCTTT---TT--C
1 TTTTT-TTTGGGTTAGG
** * *
122249072 TTTTTTTT-TCTTTGT
1 TTTTTTTTGGGTTAGG
122249087 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGTTAGG
122249103 TTTTTTTTGGG
1 TTTTTTTTGGG
122249114 GGCTTAATGG
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
11 3 0.05
12 5 0.09
13 2 0.04
14 1 0.02
15 8 0.14
16 34 0.61
17 3 0.05
ACGTcount: A:0.03, C:0.03, G:0.23, T:0.70
Consensus pattern (16 bp):
TTTTTTTTGGGTTAGG
Found at i:122249942 original size:30 final size:30
Alignment explanation
Indices: 122249906--122249967 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
122249896 TTTTGAAAAA
122249906 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
122249936 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
122249966 CA
1 CA
122249968 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:122250084 original size:14 final size:14
Alignment explanation
Indices: 122250061--122250095 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
122250051 TGAGTTGATT
122250061 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
122250074 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
122250088 TTTGAAAA
1 TTTGAAAA
122250096 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:122250396 original size:72 final size:73
Alignment explanation
Indices: 122250113--122250645 Score: 388
Period size: 72 Copynumber: 6.8 Consensus size: 73
122250103 ACATGTAACC
* * * *
122250113 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
122250178 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
122250191 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
122250256 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * *
122250269 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
122250334 ACGTGTCT
66 GCGTGTCT
* ** * * *
122250342 TGAGGCTCAACTCATTTCTCACAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
122250406 GCGTGTCC
66 GCGTGTCT
*
122250414 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTTTGAAATGCAGAAATTGAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--------TTTTTTGAAA-ACAGAAATTG--
** ** *
122250479 AAATGGAAATTGAAAATACCTCGACGTGTGAT
55 --A---AAA-T--ACCT-CAGC---GTGT-CT
* * * *
122250511 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAATAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
122250576 CAGCGTGTC-
64 CAGCGTGTCT
* *
122250585 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
122250646 ACGGAAATTG
Statistics
Matches: 364, Mismatches: 58, Indels: 69
0.74 0.12 0.14
Matches are distributed among these distances:
72 65 0.18
73 29 0.08
74 43 0.12
75 31 0.09
76 14 0.04
77 41 0.11
78 5 0.01
79 51 0.14
80 2 0.01
81 8 0.02
82 10 0.03
83 2 0.01
86 2 0.01
89 2 0.01
90 9 0.02
91 9 0.02
92 2 0.01
93 2 0.01
96 4 0.01
97 1 0.00
98 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:122250598 original size:172 final size:168
Alignment explanation
Indices: 122250310--122250788 Score: 702
Period size: 165 Copynumber: 2.9 Consensus size: 168
122250300 TGATTTTTTG
* * * ** * *
122250310 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
122250373 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
122250437 ATATGAGTTGATTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA---TTTTTTTTTTTGAAAGGCAAAAATTGA
*
122250478 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
122250543 TGACTTTTTTGACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
122250608 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
122250643 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
122250708 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
122250773 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
122250789 GAAAAAGTAG
Statistics
Matches: 282, Mismatches: 21, Indels: 15
0.89 0.07 0.05
Matches are distributed among these distances:
165 156 0.55
168 27 0.10
169 1 0.00
170 30 0.11
172 68 0.24
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:122250607 original size:74 final size:75
Alignment explanation
Indices: 122250484--122250628 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
122250474 TTGAAAAATG
*
122250484 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
122250549 TTTTGACAATA
65 TTTTGACAATA
* * *
122250560 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
122250623 TTTTGA
65 TTTTGA
122250629 AAGGCAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
75 1 0.02
76 21 0.33
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAATA
Found at i:122250689 original size:408 final size:397
Alignment explanation
Indices: 122249739--122251000 Score: 1046
Period size: 408 Copynumber: 3.2 Consensus size: 397
122249729 AACAGACATT
* * * *
122249739 AAAAACAGAAATTG-AAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATG
1 AAAAATAGAAATTGAAAAATACCTCAGCGTGT-A-CCTGAGGCTCAACTCACCTCTCGCAATATG
* * ** ***
122249802 AGTTGA-TTTTTTGAAA-CTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGG
64 AGTTGATTTTTTTGAAAGC--AAATTGAAAAAC-GAAATTGAAAATACCTCGGCGTGTGACCT-G
* *
122249864 AGGTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGACTCAACTC
125 AGGTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAA-A-T-ACCTC
* * *
122249928 AAC-TCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAA
186 AACGTGT--C-----TT--GAGGCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTG---A
* * *
122249992 AAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTT
236 AAACAGAAATTGAAAATACCTCAG-ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* **
122250057 GATTTTTGAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCA
300 GATTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCA
** *
122250122 ACTCACATCTCGCAATGTGAGTTGATTTTTTTG
365 ACTCACATCTCGCAATACGAGTTGACTTTTTTG
* * * *
122250155 AAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATG
1 AAAAATAGAAATTG-AAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATG
* * ** *
122250220 AGTTGATTTTTTTGAAAG---A-T-----A-GAAATTGAAAATAGCTCAGCGCATGAGCC-AAGG
64 AGTTGATTTTTTTGAAAGCAAATTGAAAAACGAAATTGAAAATACCTCGGCGTGTGA-CCTGA-G
*
122250274 GTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTG
127 GTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTG
** * *
122250339 TCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
192 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
* * *
122250404 CAG-CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTTTTGAAATG
257 CAGACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---------TTTTTGAAA-A
** * * * * *
122250468 CAGAAATTGAAAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCG
312 CAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCG
122250533 CAATACGAGTTGACTTTTTTG
377 CAATACGAGTTGACTTTTTTG
* *
122250554 -ACAATAGAAATTG-AAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAG
122250616 TTGATTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
66 TTGATTTTTTTGAAA-GC--AAATTGAAAAAC-GAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * * * *
122250681 GCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
127 G-TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACG
* *
122250746 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAA-AG---TAG-AAAT--
190 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATAC
* *
122250803 -T---A----A---AAGGTTCAAC-CTACCTCTCGCAATATGAGTTGATTCTTGAACAAC-GTAA
255 CTCAGACGTGACCCAAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTTGAA-AACAG-AA
* * *
122250855 ATTG-AAAACAGAAATTGAAAATACCTC-AGC--GTGACCTGAGGCTCAACTCACCTCTCGCAAT
317 ATTGAAAAACAGAAATTGAAAATACCTCGA-CATGTAACCCGAGGCTCAACTCACATCTCGCAAT
* **
122250916 ATGAGTTGA---AATT-
381 ACGAGTTGACTTTTTTG
* * * * *
122250929 AAAACACAAAAATTG-AAAATACCTCAGCGTG-CCCCGAGGCTCAACTCACCTCTAGCAATATGA
1 AAAA-ATAGAAATTGAAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGA
122250992 GTTGATTTT
65 GTTGATTTT
122251001 GAAAAACAAA
Statistics
Matches: 711, Mismatches: 90, Indels: 129
0.76 0.10 0.14
Matches are distributed among these distances:
376 4 0.01
377 61 0.09
379 38 0.05
380 1 0.00
381 23 0.03
382 14 0.02
383 1 0.00
389 37 0.05
390 1 0.00
391 52 0.07
394 50 0.07
395 1 0.00
396 15 0.02
397 29 0.04
398 20 0.03
399 75 0.11
400 2 0.00
401 1 0.00
403 3 0.00
404 3 0.00
405 7 0.01
406 4 0.01
407 25 0.04
408 101 0.14
409 72 0.10
414 1 0.00
416 12 0.02
417 1 0.00
418 47 0.07
419 10 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (397 bp):
AAAAATAGAAATTGAAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGCAAATTGAAAAACGAAATTGAAAATACCTCGGCGTGTGACCTGAGGTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGA
CGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAA
CAGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATACGAGTTGAC
TTTTTTG
Found at i:122250774 original size:74 final size:75
Alignment explanation
Indices: 122250649--122250788 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
122250639 TTGAAAAACG
* *
122250649 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
122250714 TTTTGACAACA
65 TTTTGACAACA
* * *
122250725 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
122250789 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:122250987 original size:72 final size:71
Alignment explanation
Indices: 122250853--122251018 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
122250843 TGAACAACGT
* * * *
122250853 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
122250918 GAGTTG
66 GAGTTG
*
122250924 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
122250989 TGAGTTG
65 TGAGTTG
**
122250996 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
122251019 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:122251161 original size:71 final size:71
Alignment explanation
Indices: 122251018--122251281 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
122251008 AAAAATTAAA
* * * * *
122251018 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
122251081 GCCCCG
66 GCCCCG
* *
122251087 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
122251152 GTCTTG
66 GCCCCG
* * *
122251158 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
122251221 TGCCCCG
65 TGCCCCG
*
122251228 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
122251282 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:122251239 original size:70 final size:69
Alignment explanation
Indices: 122251018--122251281 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
122251008 AAAAATTAAA
* ** * * *
122251018 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
122251083 CCCG
66 CCCG
* * *
122251087 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
122251152 GTCTTG
64 GCCCCG
* *
122251158 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
122251223 CCCCG
65 CCCCG
*
122251228 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
122251282 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:122251264 original size:263 final size:257
Alignment explanation
Indices: 122250856--122251448 Score: 1042
Period size: 257 Copynumber: 2.3 Consensus size: 257
122250846 ACAACGTAAA
* * * * * *
122250856 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122250921 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
122250986 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
122251051 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
122251116 TGATT
253 TGATT
122251121 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122251186 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
122251251 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
122251316 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
122251378 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122251443 TTGATT
66 TTGATT
122251449 TTCCTTGAAA
Statistics
Matches: 320, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:122258500 original size:39 final size:37
Alignment explanation
Indices: 122258403--122258500 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
122258393 TATGGTATTT
* * * *
122258403 AAAATATATATAT-ATATATGTATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
122258439 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
122258478 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
122258501 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:122259035 original size:15 final size:15
Alignment explanation
Indices: 122259017--122259051 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
122259007 TTTCTTCTTT
*
122259017 TTTTTTTGGGTTAGG
1 TTTTTTTGGGGTAGG
122259032 TTTTTTTGGGGTAGG
1 TTTTTTTGGGGTAGG
122259047 TTTTT
1 TTTTT
122259052 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.63
Consensus pattern (15 bp):
TTTTTTTGGGGTAGG
Found at i:122259066 original size:16 final size:15
Alignment explanation
Indices: 122259047--122259082 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
122259037 TTGGGGTAGG
*
122259047 TTTTTCTTTTTCTTTT
1 TTTTTCTTTGT-TTTT
122259063 TTTTTCTTTGTTTTT
1 TTTTTCTTTGTTTTT
122259078 TTTTT
1 TTTTT
122259083 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:122260479 original size:20 final size:20
Alignment explanation
Indices: 122260443--122260481 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
122260433 ATCTTTTTAT
*
122260443 TTAATTTAATTTTTAATATA
1 TTAATTTAATTTATAATATA
122260463 TTAATTT-ATTCTATAATAT
1 TTAATTTAATT-TATAATAT
122260482 TTCGTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTTAATTTATAATATA
Found at i:122261726 original size:12 final size:11
Alignment explanation
Indices: 122261709--122261738 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
122261699 AACCCAACCC
*
122261709 AAAAAAAAAAT
1 AAAAAAAAAAG
122261720 AAAAAAAAAAG
1 AAAAAAAAAAG
122261731 AAAAAAAA
1 AAAAAAAA
122261739 CCTAATCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:122261964 original size:24 final size:24
Alignment explanation
Indices: 122261932--122261982 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
122261922 GAGAGAAAAA
122261932 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
122261956 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
122261980 TTT
1 TTT
122261983 CTTTTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:122262467 original size:3 final size:3
Alignment explanation
Indices: 122262459--122262496 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
122262449 TGCATTTTAA
122262459 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
122262497 GTGTATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:122262599 original size:3 final size:3
Alignment explanation
Indices: 122262591--122262620 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
122262581 TGTATTTCTA
122262591 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
122262621 ATGGTAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:122262746 original size:16 final size:15
Alignment explanation
Indices: 122262715--122262757 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
122262705 CCTTCATTCC
*
122262715 ATTATTATTATTACT
1 ATTATTATTTTTACT
122262730 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
122262746 ATCATTATTTTT
1 ATTATTATTTTT
122262758 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:122262882 original size:16 final size:16
Alignment explanation
Indices: 122262861--122262892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
122262851 CTATTGTTAC
122262861 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
122262877 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
122262893 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:122262934 original size:11 final size:13
Alignment explanation
Indices: 122262904--122262935 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
122262894 TTATTATAAT
122262904 TTATTATTGTTAC
1 TTATTATTGTTAC
122262917 TTATTATT-TTAC
1 TTATTATTGTTAC
122262929 -TATTATT
1 TTATTATT
122262936 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:122263154 original size:22 final size:22
Alignment explanation
Indices: 122263124--122263184 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
122263114 TTATTATATC
*
122263124 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
122263146 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
122263168 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
122263185 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:122263158 original size:3 final size:3
Alignment explanation
Indices: 122262892--122263139 Score: 111
Period size: 3 Copynumber: 83.3 Consensus size: 3
122262882 TTCTCATCAC
* * *
122262892 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
122262938 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
*
122262983 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
122263031 TAG CAC TACT T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
** * * * * *
122263076 TAT CGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
122263120 TAT CTTT TAC TAT TAT TAT T
1 TAT -TAT TAT TAT TAT TAT T
122263140 GTTGTATTTT
Statistics
Matches: 180, Mismatches: 47, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
2 16 0.09
3 148 0.82
4 16 0.09
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:122279729 original size:205 final size:206
Alignment explanation
Indices: 122279377--122280165 Score: 1286
Period size: 205 Copynumber: 3.9 Consensus size: 206
122279367 GTAATAGGCC
* *
122279377 ACACATAGCAGATCTCGCCTTCAGACGATTTCA--CTGAAGCAGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATGATTT-ATGCTGAAGCAGATCCAAGATGGTTTGGCATCC
*
122279440 TTGTGTTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
65 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
*
122279505 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTT
130 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
122279570 GATGGAGAGCAG
195 GATGGAGAGCAG
*
122279582 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
122279646 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
*
122279711 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATATTCACTTTG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
122279776 ATGGAGAGCAG
196 ATGGAGAGCAG
*
122279787 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
122279851 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
122279916 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
122279981 ATGGAGAGCAG
196 ATGGAGAGCAG
* * * *
122279992 ACACATAGCAGATCTCACCTTCGGATG-TTTATGCTGAAACGGATCCAAGATGGATTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
* * * * ** * * *
122280056 TATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAA
66 TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
* * * * * *
122280120 ATCT-AGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
131 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
122280166 AAATAAATCT
Statistics
Matches: 551, Mismatches: 29, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
203 37 0.07
204 43 0.08
205 468 0.85
206 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (206 bp):
ACACATAGCAGATCTCACCTTCAGATGATTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
TGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
ATGGAGAGCAG
Found at i:122280297 original size:44 final size:43
Alignment explanation
Indices: 122280219--122280304 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
122280209 GATTTCAGCA
* *
122280219 TGGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGA-AGCAGATT
**
122280263 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGTTTATAAGGAACAAG-TCGAAGAAGCAGAT
122280305 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCCCTGTGTTTATAAGGAACAAGTCGAAGAAGCAGATT
Found at i:122280729 original size:24 final size:24
Alignment explanation
Indices: 122280697--122280747 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
122280687 AGAGAATAAA
*
122280697 TTTTTTGAGATTGAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
122280721 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
122280745 TTT
1 TTT
122280748 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:122281233 original size:3 final size:3
Alignment explanation
Indices: 122281225--122281390 Score: 98
Period size: 3 Copynumber: 54.0 Consensus size: 3
122281215 TGCATTTTAA
122281225 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
122281273 GTA- CAT ATAT GTAT GTAT ATACT TAT ATAT ATAG TAT TGT T-T T-T TA-
1 -TAT TAT -TAT -TAT -TAT -TA-T TAT -TAT -TAT TAT TAT TAT TAT TAT
* * *
122281319 AATT TAA TAT T-T TAT T-T GCTCT T-T GTAT T-T CTA- TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT --TAT TAT -TAT TAT -TAT TAT TAT TAT
122281361 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
122281391 ATGGTAGTGT
Statistics
Matches: 135, Mismatches: 11, Indels: 34
0.75 0.06 0.19
Matches are distributed among these distances:
2 13 0.10
3 96 0.71
4 24 0.18
5 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:122281516 original size:16 final size:15
Alignment explanation
Indices: 122281485--122281527 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
122281475 CCTTCATTCC
*
122281485 ATTATTATTATTACT
1 ATTATTATTTTTACT
122281500 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
122281516 ATCATTATTTTT
1 ATTATTATTTTT
122281528 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:122281651 original size:16 final size:16
Alignment explanation
Indices: 122281630--122281661 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
122281620 CTATTGTTAC
122281630 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
122281646 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
122281662 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:122281703 original size:11 final size:13
Alignment explanation
Indices: 122281673--122281704 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
122281663 TTATTATAAT
122281673 TTATTATTGTTAC
1 TTATTATTGTTAC
122281686 TTATTATT-TTAC
1 TTATTATTGTTAC
122281698 -TATTATT
1 TTATTATT
122281705 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:122281926 original size:22 final size:22
Alignment explanation
Indices: 122281896--122281956 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
122281886 TTATTATATC
*
122281896 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
122281918 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
122281940 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
122281957 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:122281930 original size:3 final size:3
Alignment explanation
Indices: 122281661--122281911 Score: 99
Period size: 3 Copynumber: 84.3 Consensus size: 3
122281651 TTCTCATCAC
* * *
122281661 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
122281707 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
122281752 CAT CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
122281800 TAT TAG CAC TACT T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
** * * * * *
122281845 TAT TAT CGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
122281890 TA- TAT CTTT TAC TAT TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT T
122281912 GTTGTATTTT
Statistics
Matches: 184, Mismatches: 46, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
2 16 0.09
3 152 0.83
4 16 0.09
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:122287636 original size:13 final size:13
Alignment explanation
Indices: 122287620--122287645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122287610 ATAATCAACT
122287620 TTTTATTTAATTA
1 TTTTATTTAATTA
122287633 TTTTATTTAATTA
1 TTTTATTTAATTA
122287646 GAGGATATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTTAATTA
Found at i:122294223 original size:25 final size:25
Alignment explanation
Indices: 122294189--122294238 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122294179 CGCCAGCAAT
122294189 GAAGTTCCTTTCTTTTCAGATTTAA
1 GAAGTTCCTTTCTTTTCAGATTTAA
122294214 GAAGTTCCTTTCTTTTCAGATTTAA
1 GAAGTTCCTTTCTTTTCAGATTTAA
122294239 CTTTTACATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (25 bp):
GAAGTTCCTTTCTTTTCAGATTTAA
Found at i:122300211 original size:12 final size:12
Alignment explanation
Indices: 122300191--122300256 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
122300181 TCATCGTCGT
* *
122300191 CTTCTTCTTCAA
1 CTTCCTCTTCTA
122300203 CTTCCTCTTCTA
1 CTTCCTCTTCTA
** *
122300215 CTTCAACTTCTT
1 CTTCCTCTTCTA
*
122300227 CTTCCACTTCTA
1 CTTCCTCTTCTA
*
122300239 CTTCCTCTTCCA
1 CTTCCTCTTCTA
122300251 CTTCCT
1 CTTCCT
122300257 GTAGTTGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.12, C:0.41, G:0.00, T:0.47
Consensus pattern (12 bp):
CTTCCTCTTCTA
Found at i:122300213 original size:18 final size:18
Alignment explanation
Indices: 122300190--122300254 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
122300180 GTCATCGTCG
*
122300190 TCTTCTTCTTCAACTTCC
1 TCTTCTACTTCAACTTCC
*
122300208 TCTTCTACTTCAACTTCT
1 TCTTCTACTTCAACTTCC
* *
122300226 TCTTCCACTTCTACTTCC
1 TCTTCTACTTCAACTTCC
*
122300244 TCTTCCACTTC
1 TCTTCTACTTC
122300255 CTGTAGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTTCTACTTCAACTTCC
Found at i:122305118 original size:13 final size:13
Alignment explanation
Indices: 122305079--122305136 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
122305069 AGCTCTTCAT
*
122305079 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
* * *
122305092 TGCTGTAGAAAAG
1 TGCTTTTGAGAAG
*
122305105 TGTTTTTGAGAAG
1 TGCTTTTGAGAAG
*
122305118 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
122305131 TGCTTT
1 TGCTTT
122305137 GAAAAAATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:122306256 original size:21 final size:21
Alignment explanation
Indices: 122306231--122306270 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
122306221 AATTGATTTT
122306231 ATTAAATATGTTATATAAATA
1 ATTAAATATGTTATATAAATA
* *
122306252 ATTAAATTTGTTATTTAAA
1 ATTAAATATGTTATATAAA
122306271 ACTAATGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTAAATATGTTATATAAATA
Found at i:122306668 original size:29 final size:29
Alignment explanation
Indices: 122306635--122306692 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
122306625 TTATAAACCC
122306635 GAAAATTTTATAATAATGCACTAACATTA
1 GAAAATTTTATAATAATGCACTAACATTA
**
122306664 GAAAATTTTATAATTGTGCACTAACATTA
1 GAAAATTTTATAATAATGCACTAACATTA
122306693 TACTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (29 bp):
GAAAATTTTATAATAATGCACTAACATTA
Done.