Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 14 of 253
Found at i:4098065 original size:30 final size:30
Alignment explanation
Indices: 4098029--4098192 Score: 224
Period size: 30 Copynumber: 5.5 Consensus size: 30
4098019 TAAATCTTAG
4098029 CTTTTCCACCACCAACTCCACTAGCCACAC
1 CTTTTCCACCACCAACTCCACTAGCCACAC
*
4098059 CTTTTCCACCACCAACTCCACTAGCCACTC
1 CTTTTCCACCACCAACTCCACTAGCCACAC
4098089 CTTTTCCACCACCAACTCCACTAGCCACAC
1 CTTTTCCACCACCAACTCCACTAGCCACAC
*
4098119 CTTTTCCACCACCAAATCCACTAGCCACA-
1 CTTTTCCACCACCAACTCCACTAGCCACAC
* ** * *
4098148 CTTGCTCCATTACCTACTCCACTAACCACA-
1 CTT-TTCCACCACCAACTCCACTAGCCACAC
*
4098178 CTTGCTCCACCACCA
1 CTT-TTCCACCACCA
4098193 CTTGTACCTA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
29 3 0.02
30 118 0.98
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (30 bp):
CTTTTCCACCACCAACTCCACTAGCCACAC
Found at i:4098066 original size:18 final size:18
Alignment explanation
Indices: 4098045--4098127 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 18
4098035 CACCACCAAC
4098045 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
4098063 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
*
4098075 TCCACTAGCCACTCCTTT
1 TCCACTAGCCACACCTTT
*
4098093 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
4098105 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
4098123 TCCAC
1 TCCAC
4098128 CACCAAATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 24
0.61 0.08 0.31
Matches are distributed among these distances:
12 12 0.26
13 6 0.13
14 1 0.02
15 4 0.09
16 1 0.02
17 6 0.13
18 17 0.36
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:4098757 original size:2 final size:2
Alignment explanation
Indices: 4098750--4098811 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
4098740 CTATATTACG
* * *
4098750 TA TA TA TA TA TA TA TA CTA T- TT TA TG TA TA TA TT TA -A TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4098790 TA TA T- TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
4098812 TTTACATGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
1 4 0.08
2 42 0.88
3 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:4098793 original size:14 final size:14
Alignment explanation
Indices: 4098750--4098813 Score: 69
Period size: 14 Copynumber: 4.5 Consensus size: 14
4098740 CTATATTACG
*
4098750 TATATATATATATA
1 TATATTTATATATA
*
4098764 TACTATTT-TATGTA
1 TA-TATTTATATATA
4098778 TATATTTA-ATATTA
1 TATATTTATATA-TA
4098792 TATTATTTATATATA
1 TA-TATTTATATATA
4098807 TATATTT
1 TATATTT
4098814 TACATGTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 7 0.17
14 18 0.43
15 14 0.33
16 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:4098809 original size:29 final size:31
Alignment explanation
Indices: 4098757--4098836 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
4098747 ACGTATATAT
* *
4098757 ATATATATACTATTT-TATGTATATA-TTTA-
1 ATAT-TATATTATTTATATATATATATTTTAC
4098786 ATATTATATTATTTATATATATATATTTTAC
1 ATATTATATTATTTATATATATATATTTTAC
* * *
4098817 ATGTTATCTTATGTATATAT
1 ATATTATATTATTTATATAT
4098837 CTTAACTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 9 0.21
29 13 0.30
30 4 0.09
31 17 0.40
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (31 bp):
ATATTATATTATTTATATATATATATTTTAC
Found at i:4098853 original size:22 final size:24
Alignment explanation
Indices: 4098825--4098883 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
4098815 ACATGTTATC
4098825 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
4098847 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
4098872 TTATGTACATAT
1 TTATGTATATAT
4098884 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:4098873 original size:25 final size:25
Alignment explanation
Indices: 4098841--4098889 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4098831 ATATATCTTA
**
4098841 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
4098866 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
4098890 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:4099069 original size:16 final size:15
Alignment explanation
Indices: 4099045--4099092 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4099035 TAATTATTAT
*
4099045 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
4099061 TATTTTAATATTTTA
1 TATTTTAATATTTTA
4099076 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
4099092 T
1 T
4099093 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:4099080 original size:7 final size:8
Alignment explanation
Indices: 4099045--4099096 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
4099035 TAATTATTAT
*
4099045 TATTCTAA
1 TATTTTAA
*
4099053 TATTTTGA
1 TATTTTAA
4099061 TATTTTAA
1 TATTTTAA
4099069 TATTTT-A
1 TATTTTAA
4099076 TATTTTATA
1 TATTTTA-A
*
4099085 TATTTTAT
1 TATTTTAA
4099093 TATT
1 TATT
4099097 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:4101405 original size:21 final size:22
Alignment explanation
Indices: 4101367--4101407 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4101357 TAAAATTTTA
4101367 AAATATTTAAAAATTAATTAAT
1 AAATATTTAAAAATTAATTAAT
*
4101389 AAATTTTTAAAAA-TAATTA
1 AAATATTTAAAAATTAATTA
4101408 TTATTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATTTAAAAATTAATTAAT
Found at i:4110694 original size:18 final size:19
Alignment explanation
Indices: 4110671--4110708 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4110661 TAATAGTAGT
4110671 AATAATAATA-AAGTAATA
1 AATAATAATATAAGTAATA
* *
4110689 AATAATGATATTAGTAATA
1 AATAATAATATAAGTAATA
4110708 A
1 A
4110709 GTTAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
AATAATAATATAAGTAATA
Found at i:4110803 original size:24 final size:24
Alignment explanation
Indices: 4110738--4110803 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
4110728 AAGTAATAGA
*
4110738 TAAATAA-ATATAAAAAGGAAGGTG
1 TAAATAATA-ATAAAAATGAAGGTG
* * *
4110762 TATAAT-ATAACAATAATGATGGTG
1 TA-AATAATAATAAAAATGAAGGTG
4110786 TAAATAATAATAAAAATG
1 TAAATAATAATAAAAATG
4110804 GCATTAGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 3 0.09
24 26 0.79
25 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (24 bp):
TAAATAATAATAAAAATGAAGGTG
Found at i:4110828 original size:6 final size:6
Alignment explanation
Indices: 4110813--4110856 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
4110803 GGCATTAGGG
4110813 TAAA-A TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAA
4110857 TGATAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAATA
Found at i:4110862 original size:18 final size:17
Alignment explanation
Indices: 4110815--4110862 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
4110805 CATTAGGGTA
4110815 AAATA-AATATAAATAT
1 AAATATAATATAAATAT
4110831 AAATATAAATATAAATAT
1 AAATAT-AATATAAATAT
4110849 AAATATAATGATAA
1 AAATATAAT-ATAA
4110863 CAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 21 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATATAATATAAATAT
Found at i:4111090 original size:3 final size:3
Alignment explanation
Indices: 4111084--4111117 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4111074 ATACCAAGGG
*
4111084 TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4111118 GATGATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4111337 original size:21 final size:21
Alignment explanation
Indices: 4111291--4111344 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
4111281 AGAAAGAGAG
* *
4111291 ATAATAATAATAACATATATAT
1 ATAA-AATAATAACATATAGAA
4111313 ATAAAATAATAACAGT-TAGAA
1 ATAAAATAATAACA-TATAGAA
4111334 ATAAAA-AATAA
1 ATAAAATAATAA
4111345 TAGAAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 5 0.17
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
ATAAAATAATAACATATAGAA
Found at i:4111382 original size:21 final size:21
Alignment explanation
Indices: 4111352--4111392 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4111342 TAATAGAAGT
* *
4111352 AATAATAATAATGGTAATAAA
1 AATAAAAATAATAGTAATAAA
4111373 AATAAAAATAATAGTAATAA
1 AATAAAAATAATAGTAATAA
4111393 TAATGAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAAAAATAATAGTAATAAA
Found at i:4113608 original size:21 final size:21
Alignment explanation
Indices: 4113582--4113626 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4113572 TTTATGAGAA
*
4113582 TTAAAATA-TAAATTTAAAATT
1 TTAAAAGATTAAA-TTAAAATT
*
4113603 TTAAAAGATTAAATTATAATT
1 TTAAAAGATTAAATTAAAATT
4113624 TTA
1 TTA
4113627 TTATTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAAGATTAAATTAAAATT
Found at i:4114535 original size:25 final size:25
Alignment explanation
Indices: 4114501--4114550 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4114491 AAAGAAAGAA
4114501 AATTTGACTCGCCTTATTTCATTGC
1 AATTTGACTCGCCTTATTTCATTGC
4114526 AATTTGACTCGCCTTATTTCATTGC
1 AATTTGACTCGCCTTATTTCATTGC
4114551 CATTGATGGT
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:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (25 bp):
AATTTGACTCGCCTTATTTCATTGC
Found at i:4114606 original size:21 final size:19
Alignment explanation
Indices: 4114576--4114618 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
4114566 TGAAGATAAA
*
4114576 ATTTTAAAAATTAATTAATAT
1 ATTTTAAAAAATAA-TAAT-T
*
4114597 ATTTTTAAAAATAATAATT
1 ATTTTAAAAAATAATAATT
4114616 ATT
1 ATT
4114619 GATAAAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAAAAAATAATAATT
Found at i:4114770 original size:8 final size:8
Alignment explanation
Indices: 4114757--4114783 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4114747 AGCAATATAA
4114757 TAAAGAAG
1 TAAAGAAG
4114765 TAAAGAAG
1 TAAAGAAG
4114773 TAAAGAAG
1 TAAAGAAG
4114781 TAA
1 TAA
4114784 TGGCAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (8 bp):
TAAAGAAG
Found at i:4117883 original size:43 final size:43
Alignment explanation
Indices: 4117836--4117923 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
4117826 TAAAACCATT
* * * *
4117836 ATAATTTGTAAAAATATTTT-ATTTAAATTCCATTTGGTTTTTA
1 ATAATTCGGAAAAATATTTTAAATAAAATT-CATTTGGTTTTTA
*
4117879 ATAATTCGGAAAATTATTTTAAATAAAATTCATTTGGTTTTTA
1 ATAATTCGGAAAAATATTTTAAATAAAATTCATTTGGTTTTTA
4117922 AT
1 AT
4117924 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (43 bp):
ATAATTCGGAAAAATATTTTAAATAAAATTCATTTGGTTTTTA
Found at i:4119653 original size:13 final size:14
Alignment explanation
Indices: 4119637--4119677 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
4119627 TTTACAGATA
4119637 CAGATA-ACAGAAT
1 CAGATATACAGAAT
4119650 CAGATATACAGAA-
1 CAGATATACAGAAT
* *
4119663 CAGGTATATAGAAT
1 CAGATATACAGAAT
4119677 C
1 C
4119678 CTACCCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:4129319 original size:18 final size:18
Alignment explanation
Indices: 4129296--4129341 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
4129286 TAAATTCACA
4129296 CTTTTTGCCTGCAAATTT
1 CTTTTTGCCTGCAAATTT
4129314 CTTTTTGCCTGCAAATTT
1 CTTTTTGCCTGCAAATTT
*
4129332 CCTTTTGCCT
1 CTTTTTGCCT
4129342 TTAATTCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (18 bp):
CTTTTTGCCTGCAAATTT
Found at i:4131935 original size:62 final size:62
Alignment explanation
Indices: 4131860--4131983 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
4131850 TTGAAAAATC
*
4131860 AAATGTTAGTGTATACAGTTTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
1 AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
*
4131922 AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAATACTTGGCTATT
1 AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
4131984 CTCTTCAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (62 bp):
AAATGTTAGTGTATACAGTGTTGGCATTTTTTATGACACATGGCATAGAAGACTTGGCTATT
Found at i:4133996 original size:25 final size:21
Alignment explanation
Indices: 4133949--4133992 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4133939 TGTGTAGGAG
4133949 TTATTTAGTTTGTTTTTATGA
1 TTATTTAGTTTGTTTTTATGA
*
4133970 TTATTTAGTTTGTTGTTATGA
1 TTATTTAGTTTGTTTTTATGA
4133991 TT
1 TT
4133993 GATTGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.66
Consensus pattern (21 bp):
TTATTTAGTTTGTTTTTATGA
Found at i:4148001 original size:36 final size:36
Alignment explanation
Indices: 4147972--4148041 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
4147962 TTACTAAACC
*
4147972 CAAGATATCATAATATATTTATATAGTTACAAGACA
1 CAAGATATAATAATATATTTATATAGTTACAAGACA
* * *
4148008 CAAGGTATAATAATATATTTATATAATCACAAGA
1 CAAGATATAATAATATATTTATATAGTTACAAGA
4148042 AACCAAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (36 bp):
CAAGATATAATAATATATTTATATAGTTACAAGACA
Found at i:4153334 original size:20 final size:20
Alignment explanation
Indices: 4153309--4153347 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4153299 TTTCCTCCCC
4153309 ATGTTGCTTTCCGACCAAAT
1 ATGTTGCTTTCCGACCAAAT
4153329 ATGTTGCTTTCCGACCAAA
1 ATGTTGCTTTCCGACCAAA
4153348 CAATGAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTTGCTTTCCGACCAAAT
Found at i:4153746 original size:21 final size:21
Alignment explanation
Indices: 4153721--4153762 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4153711 ACTTGTTTAG
4153721 TGCCTTCAATCTCTAATCTAA
1 TGCCTTCAATCTCTAATCTAA
*
4153742 TGCCTTTAATCTCTAATCTAA
1 TGCCTTCAATCTCTAATCTAA
4153763 CACTTGCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (21 bp):
TGCCTTCAATCTCTAATCTAA
Found at i:4165010 original size:15 final size:16
Alignment explanation
Indices: 4164981--4165017 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4164971 CGAACGATGC
4164981 GATG-AAATGCAATGA
1 GATGCAAATGCAATGA
4164996 GATGCAAATGC-ATGA
1 GATGCAAATGCAATGA
4165011 -ATGCAAA
1 GATGCAAA
4165018 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (16 bp):
GATGCAAATGCAATGA
Found at i:4169179 original size:26 final size:28
Alignment explanation
Indices: 4169129--4169183 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
4169119 ATAGAAGATG
*
4169129 AAATATATACACAATATAATAATATAAT
1 AAATATATACACAATATAAAAATATAAT
*
4169157 AAATA-ATACA-AATTTAAAAATATAAT
1 AAATATATACACAATATAAAAATATAAT
4169183 A
1 A
4169184 CTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 5 0.20
28 5 0.20
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAATATATACACAATATAAAAATATAAT
Found at i:4171431 original size:22 final size:22
Alignment explanation
Indices: 4171401--4171447 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
4171391 TTCCAAGGTA
4171401 TATCCAATTAATGTCGCCAATG
1 TATCCAATTAATGTCGCCAATG
*
4171423 TATCTAATTAATGTCGCCAATG
1 TATCCAATTAATGTCGCCAATG
4171445 TAT
1 TAT
4171448 ATCTCAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (22 bp):
TATCCAATTAATGTCGCCAATG
Found at i:4172375 original size:23 final size:24
Alignment explanation
Indices: 4172344--4172388 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4172334 TATGAAGATA
*
4172344 AAATATTTAAAAA-ATTAATTAAT
1 AAATATTTAAAAATAATAATTAAT
*
4172367 AAATTTTTAAAAATAATAATTA
1 AAATATTTAAAAATAATAATTA
4172389 TTGATAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATATTTAAAAATAATAATTAAT
Found at i:4175658 original size:160 final size:151
Alignment explanation
Indices: 4175387--4175727 Score: 488
Period size: 160 Copynumber: 2.2 Consensus size: 151
4175377 TATATTTTCT
* *
4175387 AACATTACATTGATATTTTCTAACATTTGAGCAAGGGCAGTTTGACACTCAATCCAAATTTAACG
1 AACATTACATTGATATTTTCTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTTAACG
4175452 AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGACTTTTC
66 AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGAC--TTC
* *
4175517 TCTTTCTTTTGATGTAATTTTG-
129 TCTTTCCTTTCATGTAATTTTGA
*
4175539 AACAATTACATTGATATTTTCTAACATTTAAGCAAGGG-GGTTTGACAATCAATCCAAATTTAAT
1 AAC-ATTACATTGATATTTTCTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTT-A-
* *
4175603 GACTAAAAGAAACTAAAAATCAAATACTAAAGTAATGCTTTTGTTTTTTGAAATGACTGAATATT
63 -AC-----GAAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATT
*
4175668 TGACTTCTCTTTCCTTTCATGTCATTTTGA
122 TGACTTCTCTTTCCTTTCATGTAATTTTGA
*
4175698 AACATTACATTGATATTTTCTTACATTTAA
1 AACATTACATTGATATTTTCTAACATTTAA
4175728 TATATATATT
Statistics
Matches: 170, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
152 24 0.14
153 34 0.20
155 2 0.01
158 48 0.28
159 3 0.02
160 59 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (151 bp):
AACATTACATTGATATTTTCTAACATTTAAGCAAGGGCAGTTTGACAATCAATCCAAATTTAACG
AAACTAAAAATCAAATACAAAAATAATGCTTTTGTTTTTTGAAATGACTGAATATTTGACTTCTC
TTTCCTTTCATGTAATTTTGA
Found at i:4177758 original size:24 final size:24
Alignment explanation
Indices: 4177713--4177759 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4177703 ATTTAGTAGT
*
4177713 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
4177737 ATAATATATTTTA-CATTAATTAG
1 ATAATATA-TTTAGCATTAATTAG
4177760 AATTAGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:4177898 original size:27 final size:25
Alignment explanation
Indices: 4177854--4177908 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
4177844 TTCCTCTCCC
4177854 CGTGATTTTTCTCGAAAGAGTTTCAA
1 CGTGATTTTTCTCGAAAG-GTTTCAA
* * *
4177880 CGTGGTTTTTCTTGAAAAGGTTTCCA
1 CGTGATTTTTCTCG-AAAGGTTTCAA
4177906 CGT
1 CGT
4177909 AAAACCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (25 bp):
CGTGATTTTTCTCGAAAGGTTTCAA
Found at i:4178135 original size:20 final size:21
Alignment explanation
Indices: 4178101--4178150 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
4178091 TGTCACTAAA
*
4178101 TAATCAAATTAAATTTATTTT
1 TAATCAAATTAAATTAATTTT
4178122 TAATCAAA-TAAATTAATTTT
1 TAATCAAATTAAATTAATTTT
*
4178142 TGA-CAAATT
1 TAATCAAATT
4178151 TGGATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATCAAATTAAATTAATTTT
Found at i:4178241 original size:12 final size:12
Alignment explanation
Indices: 4178224--4178256 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4178214 TTCCCTGTAA
4178224 AATAGTAAAAAT
1 AATAGTAAAAAT
*
4178236 AATAGTAAAAGT
1 AATAGTAAAAAT
4178248 AATAGTAAA
1 AATAGTAAA
4178257 GACGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:4179678 original size:30 final size:30
Alignment explanation
Indices: 4179639--4179695 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4179629 TTTTATAAGT
4179639 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
4179669 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
4179696 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:4179898 original size:26 final size:26
Alignment explanation
Indices: 4179869--4179934 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
4179859 TTTAAACCAA
*
4179869 ACTTTTTAAAAGCACTCCTCAAAAGC
1 ACTTTTTAAAAGCACTCCTCAAAAAC
* * * **
4179895 ACTTTTTCACAGCATTTTTCAAAAAC
1 ACTTTTTAAAAGCACTCCTCAAAAAC
*
4179921 ACTTTTCAAAAGCA
1 ACTTTTTAAAAGCA
4179935 TTGCCAAACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ACTTTTTAAAAGCACTCCTCAAAAAC
Found at i:4185766 original size:14 final size:16
Alignment explanation
Indices: 4185747--4185778 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4185737 CATAAAGTGC
4185747 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
4185761 AATAAATCCAACAATT
1 AATAAATCCAACAATT
4185777 AA
1 AA
4185779 ATACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:4195926 original size:7 final size:7
Alignment explanation
Indices: 4195914--4195939 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4195904 AAATAGTATT
4195914 TAATATA
1 TAATATA
4195921 TAATATA
1 TAATATA
4195928 TAATATA
1 TAATATA
4195935 TAATA
1 TAATA
4195940 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:4196321 original size:14 final size:13
Alignment explanation
Indices: 4196292--4196340 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
4196282 ATGAAAATTT
4196292 ATATGTAAAAATA
1 ATATGTAAAAATA
4196305 ATATGTAAAAATA
1 ATATGTAAAAATA
* *
4196318 A-ATAT-ATAAT-
1 ATATGTAAAAATA
4196328 ATATGTAAAAATA
1 ATATGTAAAAATA
4196341 TAATAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
10 1 0.03
11 7 0.24
12 7 0.24
13 14 0.48
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
ATATGTAAAAATA
Found at i:4196334 original size:23 final size:21
Alignment explanation
Indices: 4196326--4196367 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4196316 TAAATATATA
4196326 ATATATGTAAAAATATAATAAT
1 ATATATGTAAAAATA-AATAAT
*
4196348 ATATATATAAAAAT-AATAAT
1 ATATATGTAAAAATAAATAAT
4196368 TATGAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATATGTAAAAATAAATAAT
Found at i:4196348 original size:20 final size:20
Alignment explanation
Indices: 4196305--4196371 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 20
4196295 TGTAAAAATA
4196305 ATATGTAAAAATAAATATATAAT
1 ATATGTAAAAAT--ATA-ATAAT
4196328 ATATGTAAAAATATAATAAT
1 ATATGTAAAAATATAATAAT
*
4196348 ATATATATAAAA-ATAATAAT
1 ATATGTA-AAAATATAATAAT
4196368 -TATG
1 ATATG
4196372 AGAGAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.07
20 19 0.46
21 7 0.17
23 12 0.29
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATGTAAAAATATAATAAT
Found at i:4196485 original size:19 final size:19
Alignment explanation
Indices: 4196449--4196498 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
4196439 GAAATAAAAT
*
4196449 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
*
4196466 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
4196485 TAAAATAAATATAG
1 TAAAATAAATATAG
4196499 GACTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:4197457 original size:21 final size:21
Alignment explanation
Indices: 4197431--4197480 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
4197421 AGGGACGAAC
4197431 GCATTGATGACGCGTCAGTGT
1 GCATTGATGACGCGTCAGTGT
4197452 GCATTGATGACGCGTCAGTGT
1 GCATTGATGACGCGTCAGTGT
4197473 GCATTGAT
1 GCATTGAT
4197481 AGCCTCGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (21 bp):
GCATTGATGACGCGTCAGTGT
Found at i:4199320 original size:24 final size:24
Alignment explanation
Indices: 4199292--4199342 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4199282 TTTTTAAAAT
*
4199292 ATTTAGTAGTATAATATATTTAAC
1 ATTTAGTAGCATAATATATTTAAC
* *
4199316 ATTTATTAGCATAATATATTTTAC
1 ATTTAGTAGCATAATATATTTAAC
4199340 ATT
1 ATT
4199343 AATTAGAATT
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:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTAGTAGCATAATATATTTAAC
Found at i:4199347 original size:24 final size:24
Alignment explanation
Indices: 4199302--4199348 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4199292 ATTTAGTAGT
*
4199302 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTAATTAGC
*
4199326 ATAATATATTTTACATTAATTAG
1 ATAATATATTTAACATTAATTAG
4199349 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAACATTAATTAGC
Found at i:4205882 original size:24 final size:24
Alignment explanation
Indices: 4205837--4205882 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4205827 ATTTAGTAGT
*
4205837 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTAATTAGC
4205861 ATAATATATTTTA-CATTAATTA
1 ATAATATA-TTTAGCATTAATTA
4205883 TAATTAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAGCATTAATTAGC
Found at i:4206287 original size:20 final size:20
Alignment explanation
Indices: 4206247--4206286 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
4206237 TGTCACTATA
*
4206247 TAATCAAATTAAATTTATTT
1 TAATCAAATTAAATTCATTT
4206267 TAATCAAA-TAAATTCATTT
1 TAATCAAATTAAATTCATTT
4206286 T
1 T
4206287 TGAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATCAAATTAAATTCATTT
Found at i:4207868 original size:26 final size:26
Alignment explanation
Indices: 4207832--4207885 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
4207822 TTTTATTCTA
*
4207832 TATATATTATTAATTCTATGTTGCTT
1 TATATATTATTAATTCTATGTTACTT
4207858 TATATATTATTAATTCTATGTTACTT
1 TATATATTATTAATTCTATGTTACTT
4207884 TA
1 TA
4207886 CATACATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (26 bp):
TATATATTATTAATTCTATGTTACTT
Found at i:4208863 original size:128 final size:128
Alignment explanation
Indices: 4208632--4208864 Score: 351
Period size: 128 Copynumber: 1.8 Consensus size: 128
4208622 ATTTTGAACC
* *
4208632 AACTTTAAAACAAAGGCGATGTTTGATGTTTGGAAATTCAGAAAATTGTGCCCTAACGTGTTGGG
1 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCAGAAAATTGTGCCCTAACGTGCTGGG
* * * * **
4208697 TTTCGATTTTCTGTTTATCCAAATAATTAAATGTCCCTTTAAAACTTCGTCCGCATTTTCTAA
66 TTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTTAAAACTTCGTCCGCATTTTCTAA
4208760 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTC-GAGAAATTGTGCCCTAACGTGCTGG
1 AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCAGA-AAATTGTGCCCTAACGTGCTGG
* * *
4208824 GTTTCAATTTTCCGTTTGTATAAATAATCGAATACCCCTTT
65 GTTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTT
4208865 TAATTCCGTC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
127 2 0.02
128 91 0.98
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (128 bp):
AACTTTAAAACAAAGGCGATATTTGATGTTTGGAAATTCAGAAAATTGTGCCCTAACGTGCTGGG
TTTCAATTTTCCGTTTATACAAATAATCAAATACCCCTTTAAAACTTCGTCCGCATTTTCTAA
Found at i:4209392 original size:14 final size:15
Alignment explanation
Indices: 4209373--4209429 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
4209363 AATCTTTAAG
4209373 GATATG-CAATCTTA
1 GATATGACAATCTTA
4209387 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
4209404 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
4209423 GATATGA
1 GATATGA
4209430 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4209414 original size:36 final size:38
Alignment explanation
Indices: 4209373--4209451 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
4209363 AATCTTTAAG
4209373 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
4209409 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
4209449 GAT
1 GAT
4209452 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:4209420 original size:19 final size:19
Alignment explanation
Indices: 4209373--4209451 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
4209363 AATCTTTAAG
4209373 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4209392 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4209409 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4209428 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4209449 GAT
1 GAT
4209452 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4215538 original size:17 final size:16
Alignment explanation
Indices: 4215503--4215542 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4215493 AGAGAGCAGG
* *
4215503 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
4215519 GGAAAAAAAGGAAAGAA
1 GGAAAAAAA-GAAAGAA
4215536 GGAAAAA
1 GGAAAAA
4215543 GGGAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:4217750 original size:50 final size:51
Alignment explanation
Indices: 4217631--4217862 Score: 281
Period size: 46 Copynumber: 4.8 Consensus size: 51
4217621 TCTGATATGA
* * * *
4217631 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATG
1 AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAATG
*
4217681 --T--GTAAGACCATGGTTGAAAGATACTATGGCAACGTGACA-GAAAATG
1 AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAATG
* *
4217727 AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGACATGAAAA-G
1 AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAATG
*
4217777 -A--A-TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATG
1 AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAATG
* * *
4217823 AATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATG
4217863 TCAAAGATAA
Statistics
Matches: 159, Mismatches: 12, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
45 6 0.04
46 76 0.48
47 2 0.01
48 2 0.01
49 2 0.01
50 66 0.42
51 5 0.03
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (51 bp):
AATGAGTAAGACCATGGTTGAAAGATACTATGGCAACATGACATGAAAATG
Found at i:4217800 original size:96 final size:96
Alignment explanation
Indices: 4217631--4217862 Score: 356
Period size: 96 Copynumber: 2.4 Consensus size: 96
4217621 TCTGATATGA
* * * * * * * **
4217631 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTT
1 AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGACATGAAAAGAATAAGACCATGGTT
* *
4217696 GAAAGATACTATGGCAACGTGACAGAAAATG
66 GAAAGATACCATGGCAACATGACAGAAAATG
4217727 AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGACATGAAAAGAATAAGACCATGGTT
1 AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGACATGAAAAGAATAAGACCATGGTT
4217792 GAAAGATACCATGGCAACATGACAGAAAATG
66 GAAAGATACCATGGCAACATGACAGAAAATG
*
4217823 AATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATG
4217863 TCAAAGATAA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 124 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (96 bp):
AATGAGTAAGACCATAGTTGAAAGACACTATGGCAACATGACATGAAAAGAATAAGACCATGGTT
GAAAGATACCATGGCAACATGACAGAAAATG
Found at i:4219035 original size:18 final size:19
Alignment explanation
Indices: 4219012--4219075 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 19
4219002 TTCTATTTCA
4219012 AAAAAAAAT-AA-AAAAAG
1 AAAAAAAATAAAGAAAAAG
* *
4219029 GAAAAAATTAAAGAAAAAG
1 AAAAAAAATAAAGAAAAAG
* *
4219048 AAAAAAAGAAAAATAAAAAAG
1 AAAAAAA-ATAAA-GAAAAAG
4219069 AAAAAAA
1 AAAAAAA
4219076 TGGAGAGGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 7 0.19
18 2 0.05
19 12 0.32
20 3 0.08
21 13 0.35
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAAAAAATAAAGAAAAAG
Found at i:4219059 original size:13 final size:12
Alignment explanation
Indices: 4219011--4219075 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 12
4219001 CTTCTATTTC
*
4219011 AAAAAAA-AATA
1 AAAAAAAGAAAA
*
4219022 AAAAAAGGAAAA
1 AAAAAAAGAAAA
**
4219034 AATTAAAGAAAAA
1 AAAAAAAG-AAAA
4219047 GAAAAAAAGAAAA
1 -AAAAAAAGAAAA
4219060 ATAAAAAAGAAAA
1 A-AAAAAAGAAAA
4219073 AAA
1 AAA
4219076 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.14
12 11 0.26
13 20 0.47
14 6 0.14
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:4219068 original size:27 final size:27
Alignment explanation
Indices: 4219011--4219073 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
4219001 CTTCTATTTC
* *
4219011 AAAA-AAAAATAAAAAAAGGAAAAAAT
1 AAAAGAAAAAGAAAAAAAGGAAAAAAA
*
4219037 TAAAGAAAAAGAAAAAAA-GAAAAATAA
1 AAAAGAAAAAGAAAAAAAGGAAAAA-AA
4219064 AAAAGAAAAA
1 AAAAGAAAAA
4219074 AATGGAGAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (27 bp):
AAAAGAAAAAGAAAAAAAGGAAAAAAA
Found at i:4220164 original size:84 final size:84
Alignment explanation
Indices: 4220023--4220806 Score: 1088
Period size: 84 Copynumber: 9.4 Consensus size: 84
4220013 CAAAATTCAG
*
4220023 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
4220088 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
4220107 CGCCTTAATCCTCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
4220172 GTGGAGCATATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
4220191 CGCTTTAATTCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
4220251 GCGGAGCAGATCGACGATGACT
66 GTGGAGCAGATCGA--A-GACT
*
4220273 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
4220338 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
4220357 CGCTTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATTTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
4220422 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* *
4220441 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
4220506 GTAGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * * *
4220525 CACCTTAATCCTCTAAGTAGTAGGGTAACAGG-----TTCGCAGATCTTCTCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
4220585 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * *
4220607 CGCCTTAATCCCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
4220672 GTGGAGCAGATTGAAGACC
66 GTGGAGCAGATCGAAGACT
* * *
4220691 CGCATTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--TCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
4220754 GCGGAGCAGATCGAAGAAGAT
66 GTGGAGCAGATCGAAG-A-CT
* *
4220775 GCACCTTAACCCCCTAAGCAGTAGGGTAACAG
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAG
4220807 TTGAAGACAT
Statistics
Matches: 618, Mismatches: 63, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
79 75 0.12
81 2 0.00
82 90 0.15
83 1 0.00
84 343 0.56
85 30 0.05
87 77 0.12
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:4220466 original size:250 final size:249
Alignment explanation
Indices: 4220025--4220806 Score: 1082
Period size: 250 Copynumber: 3.1 Consensus size: 249
4220015 AAATTCAGCG
*
4220025 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
4220090 GGAGCAGATCGAAGACTCGCCTTAA-TCCTCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATC
66 GGAGCAGATCGAAGACTCGCCTTAATTCC-CTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATC
* * * * *
4220154 TTATCTCCCTAAGTAGTAGTGGAGCATATCGAAGACTCGCTTTAATTCCCTAAGCAGTAGGGTAA
130 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCATTAATCCCCTAAGCAGTAGGGTAA
4220219 CAGG-TTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGATGACTCA
195 CAGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGA-GA-GACTCA
4220275 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
4220340 GGAGCAGATCGAAGACTCGCTTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATTT
66 GGAGCAGATCGAAGACTCGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* *
4220405 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAAC
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCATTAATCCCCTAAGCAGTAGGGTAAC
* * **
4220470 AGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTAGTAGAGCAGATCGA-AGACTCA
196 AGG----ATTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAGAGACTCA
* * * * *
4220527 CCTTAATCCTCTAAGTAGTAGGGTAACAGG-----TTCGCAGATCTTCTCTCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
4220587 GGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGA
66 GGAGCAGATCGA--A-GACTCGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
4220652 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCGCATTAATCCCCTAAGCAGTAGGGT
128 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCATTAATCCCCTAAGCAGTAGGGT
* *
4220717 AACAGGTTAAATCTGCAGATCTTA--TCCCTAAGCAATAGCGGAGCAGATCGAAGAAGA-TGCA
193 AACAGG---ATTC-GCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCG-AG-AGACT-CA
*
4220778 CCTTAACCCCCTAAGCAGTAGGGTAACAG
1 CCTTAATCCCCTAAGCAGTAGGGTAACAG
4220807 TTGAAGACAT
Statistics
Matches: 480, Mismatches: 38, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
247 39 0.08
248 22 0.05
249 6 0.01
250 306 0.64
251 34 0.07
252 34 0.07
253 1 0.00
255 38 0.08
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (249 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACTCGCCTTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCATTAATCCCCTAAGCAGTAGGGTAAC
AGGATTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAGAGACTCA
Found at i:4220642 original size:334 final size:334
Alignment explanation
Indices: 4220027--4220806 Score: 1260
Period size: 334 Copynumber: 2.3 Consensus size: 334
4220017 ATTCAGCGCC
*
4220027 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTAGTGG
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGG
* *
4220092 AGCAGATCGAAGACTCGCCTTAATCCTCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTA
66 AGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTA
* * * *
4220157 TCTCCCTAAGTAGTAGTGGAGCATATCGAAGACTCGCTTTAATTCCCTAAGCAGTAGGGTAACAG
131 TCTCCCTAAGTAGTAGTAGAGCAGATCGAAGACTCACCTTAATTCCCTAAGCAGTAGGGTAACAG
*
4220222 GTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGATGACTCACCTTAATCCCCT
196 GTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCT
* *
4220287 AAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
261 AAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
* *
4220352 AGACTCGCT
326 AGACCCGCA
* *
4220361 TTAATTCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATTTTATCTCCCTAAGCAGTAGTGG
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGG
4220426 AGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTA
66 AGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTA
*
4220491 TCTCCCTAAGTAGTAGTAGAGCAGATCGAAGACTCACCTTAA-TCCTCTAAGTAGTAGGGTAACA
131 TCTCCCTAAGTAGTAGTAGAGCAGATCGAAGACTCACCTTAATTCC-CTAAGCAGTAGGGTAACA
* *
4220555 GGTTCGCAGATCTTCTCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCGCCTTAATCCCC
195 GGTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCC
* *
4220620 TAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTG
260 TAAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
4220685 AAGACCCGCA
325 AAGACCCGCA
* * *
4220695 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--TCCCTAAGCAATAGCGG
1 TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGG
** * * *
4220758 AGCAGATCGAAGAAGATGCACCTTAACCCCCTAAGCAGTAGGGTAACAG
66 AGCAGATC---GAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAG
4220807 TTGAAGACAT
Statistics
Matches: 413, Mismatches: 29, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
332 23 0.06
333 3 0.01
334 354 0.86
335 33 0.08
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (334 bp):
TTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTA
TCTCCCTAAGTAGTAGTAGAGCAGATCGAAGACTCACCTTAATTCCCTAAGCAGTAGGGTAACAG
GTTCGCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGACGACGACTCACCTTAATCCCCT
AAGCAATAGGGTAACAGGTTAAATTTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
AGACCCGCA
Found at i:4220746 original size:41 final size:41
Alignment explanation
Indices: 4220617--4220750 Score: 105
Period size: 41 Copynumber: 3.2 Consensus size: 41
4220607 CGCCTTAATC
* * * *
4220617 CCCTAAGCAATAGGGTAATAGGTTAAATTTGAAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTA--T
* * * * *
4220660 CCCTAAGCAGTAGTGG-AGCAGATTGAAGACCCGC--AT-TAAT
1 CCCTAAGCAGTAG-GGTAACAGGTT-AA-ATCTGCAGATCTTAT
4220700 CCCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
1 -CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
4220742 CCCTAAGCA
1 CCCTAAGCA
4220751 ATAGCGGAGC
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
39 4 0.06
40 5 0.07
41 30 0.43
42 5 0.07
43 19 0.28
44 4 0.06
45 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATCTGCAGATCTTAT
Found at i:4221494 original size:19 final size:19
Alignment explanation
Indices: 4221467--4221564 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
4221457 AATCTTTAAG
*
4221467 GATAAGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4221486 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4221505 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4221522 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4221541 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4221562 GAT
1 GAT
4221565 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4221497 original size:36 final size:36
Alignment explanation
Indices: 4221473--4221564 Score: 130
Period size: 36 Copynumber: 2.4 Consensus size: 36
4221463 TAAGGATAAG
*
4221473 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATAGGATA
*
4221509 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATAGGATA
4221545 TGCAATCTTGAAGATATGAT
1 --CAATCTT--AGATATGAT
4221565 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.69
38 7 0.13
40 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATAGGATA
Found at i:4221503 original size:14 final size:15
Alignment explanation
Indices: 4221486--4221542 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
4221476 TCTTAGATAT
4221486 GATATG-CAATCTTA
1 GATATGACAATCTTA
4221500 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
4221517 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
4221536 GATATGA
1 GATATGA
4221543 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4225395 original size:23 final size:23
Alignment explanation
Indices: 4225356--4225431 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
4225346 TTCTAATACC
4225356 ATTATTAT-TGTATTATTACTATT
1 ATTATTATCT-TATTATTACTATT
* *
4225379 ATTATTATCTTAGTATTA-AATT
1 ATTATTATCTTATTATTACTATT
* * *
4225401 AATTATTTTCATATTGTTACTATT
1 -ATTATTATCTTATTATTACTATT
4225425 A-TATTAT
1 ATTATTAT
4225432 ATATTTTCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
22 8 0.19
23 30 0.71
24 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTATTATCTTATTATTACTATT
Found at i:4225596 original size:3 final size:3
Alignment explanation
Indices: 4225590--4225700 Score: 71
Period size: 3 Copynumber: 36.7 Consensus size: 3
4225580 TTGTTGTGTC
* * * * *
4225590 ATT ATT ATT ATT ATT ATT ACT ATT AGT ACT ATT TTT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
4225638 TTT ATT ATT ATT ACT ACT ACT ATC ACT ATAT AGTT ATT ATT ACT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT ATT ATT
*
4225685 A-T ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT AT
4225701 ACTATTTTTA
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
2 1 0.01
3 76 0.93
4 4 0.05
5 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:4225685 original size:23 final size:22
Alignment explanation
Indices: 4225640--4225705 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
4225630 CTATTATTTT
* *
4225640 TATTATTATTACTACTACTATCA
1 TATTATCATTATTA-TACTATCA
4225663 CTA-TAT-AGTTATTATTACTATCA
1 -TATTATCA-TTATTA-TACTATCA
4225686 TATTATCATTATTATACTAT
1 TATTATCATTATTATACTAT
4225706 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 9 0.24
23 25 0.68
24 3 0.08
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATCATTATTATACTATCA
Found at i:4225831 original size:18 final size:18
Alignment explanation
Indices: 4225810--4225847 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4225800 TTATTACTTG
4225810 TATTATTACCATTAATAT
1 TATTATTACCATTAATAT
* *
4225828 TATTATTATCATTACTAT
1 TATTATTACCATTAATAT
4225846 TA
1 TA
4225848 CTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTACCATTAATAT
Found at i:4241311 original size:17 final size:18
Alignment explanation
Indices: 4241258--4241364 Score: 146
Period size: 18 Copynumber: 5.9 Consensus size: 18
4241248 AATCATATCT
*
4241258 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
4241277 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
4241295 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
4241312 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
4241330 TCTAAGATTG-TATCGTA
1 TCTAAGATTGCTATCATA
4241347 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
4241365 TGAAGATTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
17 31 0.40
18 32 0.41
19 15 0.19
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:4241316 original size:35 final size:35
Alignment explanation
Indices: 4241258--4241364 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
4241248 AATCATATCT
4241258 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
4241295 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
4241330 TCTAAGATTGTATCGTATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
4241365 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 53 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:4242404 original size:208 final size:207
Alignment explanation
Indices: 4241766--4242474 Score: 1123
Period size: 207 Copynumber: 3.4 Consensus size: 207
4241756 GCTTCTTCAG
* * * * **
4241766 TTTGTTCCCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
* *
4241831 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
* * ** * *
4241895 TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
4241960 GCCAAACTTTGA
196 GCCAAACTTTGA
* *
4241972 TTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGTTTCAACGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
*
4242037 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
* *
4242102 TGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCATCGAATATGGAGAC
131 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
4242167 GCCAAACTTTGA
196 GCCAAACTTTGA
* *
4242179 TTTGTTCTTTGACAATACAGAGATACCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
4242244 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCCAAACCATCTTGGATC
66 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATG-CCAAACCATCTTGGATC
* * * *
4242309 TTGCTTTAGTATAAACATCTAAAGGCCAAATCTGCTATGTGTCTGCCCTCCGTCGAATACGGAGA
130 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGA
* *
4242374 TGCCAAAATTTGA
195 CGCCAAACTTTGA
* * * *
4242387 TTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCATCATAAGCACGTGAAA
1 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
4242452 GCCAAATCAGCTATGTCTTCGAT
66 GCCAAATCAGCTATGTCTTCGAT
4242475 CTACTCTCCG
Statistics
Matches: 463, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
206 118 0.25
207 176 0.38
208 169 0.37
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
GCCAAACTTTGA
Found at i:4242872 original size:84 final size:84
Alignment explanation
Indices: 4242599--4242890 Score: 388
Period size: 84 Copynumber: 3.4 Consensus size: 84
4242589 TCTGCTATAC
*
4242599 TTTAACCTGTTACCCTACTACTTAGGGGGGTTAAGGCGCA-TCTTCGATCTGTTCCACTACTGCT
1 TTTAACCTGTTACCCTACTACTTA-GGGGATTAAGGCG-AGTCTTCGATCTGTTCCACTACTGCT
*
4242663 TAGGGAGATAAGATCTTCAAT
64 TAGGGAGATAAGATCTGCAAT
* * * * **
4242684 TTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCATTGATTTGTTCTGCTACTGC
1 TTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTC-T--TCGATCTGTTCCACTACTGC
*
4242749 TTAGGGAGATAAGATCTGTAAT
63 TTAGGGAGATAAGATCTGCAAT
* * * *
4242771 TTTAGCCTGTTAACCTACTACTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGTTCCACTACTGCTTA
*
4242836 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAT
* *
4242855 TTTAACCTGCTACCCTACTGCTTAGGGGATTAAGGC
1 TTTAACCTGTTACCCTACTACTTAGGGGATTAAGGC
4242891 ACTGAATTTT
Statistics
Matches: 177, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
83 1 0.01
84 80 0.45
85 23 0.13
86 1 0.01
87 72 0.41
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGTTCCACTACTGCTTA
GGGAGATAAGATCTGCAAT
Found at i:4243849 original size:8 final size:8
Alignment explanation
Indices: 4243836--4243878 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
4243826 GGCCTCTCTA
4243836 TTTTTCTT
1 TTTTTCTT
*
4243844 TTTTTCTC
1 TTTTTCTT
4243852 TTTTTC-T
1 TTTTTCTT
*
4243859 TTTCT-TT
1 TTTTTCTT
4243866 TTTTTCTT
1 TTTTTCTT
4243874 TTTTT
1 TTTTT
4243879 TTGAAATAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 9 0.31
8 20 0.69
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:4243861 original size:21 final size:19
Alignment explanation
Indices: 4243836--4243880 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 19
4243826 GGCCTCTCTA
4243836 TTTTTCTTTTTTTCTCTTTT
1 TTTTTCTTTTTTT-TCTTTT
4243856 TCTTTTCTTTTTTTTCTTTT
1 T-TTTTCTTTTTTTTCTTTT
4243876 TTTTT
1 TTTTT
4243881 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 12 0.50
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTTTT
Found at i:4249289 original size:30 final size:28
Alignment explanation
Indices: 4249242--4249308 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
4249232 AATATATTTT
* *
4249242 TTAAAACAA-TGAATAATA-TAGAATTTAA
1 TTAAAAAAATTGAATAATACTA-AAATT-A
4249270 TTAAAAAAATTGATATAATACTAAAATTA
1 TTAAAAAAATTGA-ATAATACTAAAATTA
4249299 TTAAAAAAAT
1 TTAAAAAAAT
4249309 AAAATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 8 0.24
29 14 0.41
30 10 0.29
31 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (28 bp):
TTAAAAAAATTGAATAATACTAAAATTA
Found at i:4249683 original size:35 final size:35
Alignment explanation
Indices: 4249625--4249742 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
4249615 AATCATATCT
4249625 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
4249662 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
4249697 TCTAAGATTGTATCATATCTAAGATCGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
4249733 TCTAAGATTG
1 TCTAAGATTG
4249743 CATATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 53 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:4252534 original size:59 final size:59
Alignment explanation
Indices: 4252456--4252573 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
4252446 GATTCAACAA
4252456 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
1 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
4252515 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
1 GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
4252574 TGATTCTAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (59 bp):
GAATGAGTGGGTAAAGATGAGCAAAGTAAGCTAGTCAGCCTTCGAAGAAACACTGGATT
Found at i:4254532 original size:20 final size:20
Alignment explanation
Indices: 4254507--4254686 Score: 181
Period size: 20 Copynumber: 9.2 Consensus size: 20
4254497 ATCAGTATAT
**
4254507 GGCACAAAGCCATGTGTAGC
1 GGCACAAAGCCATCAGTAGC
*
4254527 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
*
4254547 GGTAC--A-CCATCAGTAGC
1 GGCACAAAGCCATCAGTAGC
*
4254564 GGCACAAAGCCATCAGTAGT
1 GGCACAAAGCCATCAGTAGC
* * *
4254584 GGCACAAAGCCTTCAATAGT
1 GGCACAAAGCCATCAGTAGC
* *
4254604 GGCACAAA-CCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* *
4254623 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
* * *
4254643 AGCACAAA-CCATCAATAGT
1 GGCACAAAGCCATCAGTAGC
*
4254662 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGC
4254682 GGCAC
1 GGCAC
4254687 TCAAACATAG
Statistics
Matches: 142, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
17 14 0.10
18 1 0.01
19 37 0.26
20 90 0.63
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGC
Found at i:4254623 original size:39 final size:39
Alignment explanation
Indices: 4254506--4254686 Score: 215
Period size: 39 Copynumber: 4.7 Consensus size: 39
4254496 TATCAGTATA
*** *
4254506 TGGCACAAAGCCATGTGTAGCGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAG
* * * * *
4254546 CGGTAC--A-CCATCAGTAGCGGCACAAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAG
*
4254583 TGGCACAAAGCCTTCAATAGTGGCACAAACCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
*
4254622 TGGCACAAAGCCATCAATAGTAGCACAAACCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
*
4254661 TGGCACAAAGCCATCAATAGCGGCAC
1 TGGCACAAAGCCATCAATAGTGGCAC
4254687 TCAAACATAG
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.25
38 1 0.01
39 71 0.58
40 20 0.16
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (39 bp):
TGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAG
Found at i:4254633 original size:59 final size:59
Alignment explanation
Indices: 4254507--4254686 Score: 240
Period size: 59 Copynumber: 3.1 Consensus size: 59
4254497 ATCAGTATAT
** * * * *
4254507 GGCACAAAGCCATGTGTAGCGGCACAAAGCCATCAATAGCGGTAC--ACCATCAGTAGC
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
* *
4254564 GGCACAAAGCCATCAGTAGTGGCACAAAGCCTTCAATAGTGGCACAAACCATCAATAGT
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
* *
4254623 GGCACAAAGCCATCAATAGTAGCACAAA-CCATCAATAGTGGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAA-CCATCAATAGC
4254682 GGCAC
1 GGCAC
4254687 TCAAACATAG
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 39 0.36
58 18 0.17
59 51 0.47
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (59 bp):
GGCACAAAGCCATCAGTAGTGGCACAAAGCCATCAATAGTGGCACAAACCATCAATAGC
Found at i:4254992 original size:26 final size:28
Alignment explanation
Indices: 4254955--4255008 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4254945 ATCATAGCAC
*
4254955 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
4254982 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
4255009 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:4258581 original size:14 final size:14
Alignment explanation
Indices: 4258562--4258591 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4258552 TTATATCGAG
4258562 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
4258576 ACCAATCCAATTCA
1 ACCAATCCAAATCA
4258590 AC
1 AC
4258592 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:4258635 original size:23 final size:23
Alignment explanation
Indices: 4258591--4258635 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4258581 TCCAATTCAA
* * *
4258591 CATATTTTTAATATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
4258614 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
4258636 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:4264832 original size:16 final size:15
Alignment explanation
Indices: 4264811--4264840 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4264801 ATATAGATAA
4264811 TAATATTAATAAAATT
1 TAATATTAA-AAAATT
4264827 TAATATTAAAAAAT
1 TAATATTAAAAAAT
4264841 AAAACATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATATTAAAAAATT
Found at i:4264859 original size:22 final size:20
Alignment explanation
Indices: 4264818--4264867 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
4264808 TAATAATATT
*
4264818 AATAAAATTTAATATTAAAA
1 AATAAAAATTAATATTAAAA
4264838 AATAAAACATTAATAATTAAAA
1 AATAAAA-ATTAAT-ATTAAAA
4264860 AATTAAAA
1 AA-TAAAA
4264868 GTATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 9 0.35
23 5 0.19
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAAAATTAATATTAAAA
Found at i:4265094 original size:16 final size:17
Alignment explanation
Indices: 4265075--4265107 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4265065 AATTTTATAG
4265075 ATTTTA-ATAGTTATTA
1 ATTTTATATAGTTATTA
*
4265091 ATTTTATATATTTATTA
1 ATTTTATATAGTTATTA
4265108 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTATATAGTTATTA
Found at i:4265107 original size:17 final size:17
Alignment explanation
Indices: 4265045--4265107 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
4265035 CCATTATATA
* * *
4265045 TTATATAATCATTAAAT
1 TTATATATTTATTAATT
*
4265062 TTAAAT-TTTA-TAGATT
1 TTATATATTTATTA-ATT
*
4265078 TTA-ATAGTTATTAATT
1 TTATATATTTATTAATT
4265094 TTATATATTTATTA
1 TTATATATTTATTA
4265108 TACATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.11
16 16 0.44
17 16 0.44
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATATATTTATTAATT
Found at i:4267712 original size:22 final size:23
Alignment explanation
Indices: 4267665--4267711 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4267655 GATGGCTTAG
4267665 AATAGGTGTTTTGAAGGGAAAAA
1 AATAGGTGTTTTGAAGGGAAAAA
4267688 AATAGGTGTTTTGAAGGGAAAAA
1 AATAGGTGTTTTGAAGGGAAAAA
4267711 A
1 A
4267712 TTCCGCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.26
Consensus pattern (23 bp):
AATAGGTGTTTTGAAGGGAAAAA
Found at i:4275688 original size:6 final size:6
Alignment explanation
Indices: 4275677--4275714 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
4275667 ATAAAATAAT
4275677 AACTTA AACTTA AACTTA AACTTA AACTTA AACTTA AA
1 AACTTA AACTTA AACTTA AACTTA AACTTA AACTTA AA
4275715 ACAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AACTTA
Found at i:4276673 original size:43 final size:42
Alignment explanation
Indices: 4276553--4276676 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
4276543 AAACAAGCTG
*
4276553 CCACTAGGCTGTGGATGCGCAACAATTTCCCAGATAAAAACTA
1 CCACTAGGCTGTGGATGCGCAACAATTT-ACAGATAAAAACTA
* ** * * *
4276596 CCACTAGGCTATGGATGCATAGCGAATTCACAGATAAAAACTT
1 CCACTAGGCTGTGGATGCGCAAC-AATTTACAGATAAAAACTA
* * * *
4276639 CTAGTAGGCTGTAGATGCGCAACAAATTTGCAGATAAA
1 CCACTAGGCTGTGGATGCGCAAC-AATTTACAGATAAA
4276677 CTGCCACTGG
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
CCACTAGGCTGTGGATGCGCAACAATTTACAGATAAAAACTA
Found at i:4276821 original size:34 final size:34
Alignment explanation
Indices: 4276783--4276856 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
4276773 CTTATCATAG
**
4276783 ATCAATACAATAGCAATGGACATGATTATAACAA
1 ATCAATACAATAGCAATAAACATGATTATAACAA
** * **
4276817 ATCAATACGGTAGCAATAAATATTCTTATAACAA
1 ATCAATACAATAGCAATAAACATGATTATAACAA
4276851 ATCAAT
1 ATCAAT
4276857 GTTGTAGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (34 bp):
ATCAATACAATAGCAATAAACATGATTATAACAA
Found at i:4276879 original size:34 final size:35
Alignment explanation
Indices: 4276803--4276879 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 35
4276793 TAGCAATGGA
*
4276803 CATGATTATAACAAATCAATACGGTAGCAATAAAT
1 CATGCTTATAACAAATCAATACGGTAGCAATAAAT
* *** *
4276838 -ATTCTTATAACAAATCAATGTTGTAGCAA-AAGT
1 CATGCTTATAACAAATCAATACGGTAGCAATAAAT
4276871 CATGCTTAT
1 CATGCTTAT
4276880 CATGAATTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (35 bp):
CATGCTTATAACAAATCAATACGGTAGCAATAAAT
Found at i:4277656 original size:13 final size:13
Alignment explanation
Indices: 4277638--4277663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4277628 GGAGTTACTA
4277638 AATCGAATAATAG
1 AATCGAATAATAG
4277651 AATCGAATAATAG
1 AATCGAATAATAG
4277664 GAACGAGGTG
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:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
AATCGAATAATAG
Found at i:4278687 original size:15 final size:16
Alignment explanation
Indices: 4278667--4278704 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4278657 CAATTCAATT
4278667 AAATAAA-TCATAAAA
1 AAATAAATTCATAAAA
**
4278682 AAATAAATTCATTTAA
1 AAATAAATTCATAAAA
4278698 AAATAAA
1 AAATAAA
4278705 AAAACTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAATTCATAAAA
Found at i:4288915 original size:21 final size:21
Alignment explanation
Indices: 4288866--4288915 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
4288856 TTGAACCATG
*
4288866 ACCCTAAATCCCAAATCCTAA
1 ACCCTAAATCCAAAATCCTAA
** **
4288887 ACATTAAATCCAAAATTTTAA
1 ACCCTAAATCCAAAATCCTAA
4288908 ACCCTAAA
1 ACCCTAAA
4288916 CCTTGAATAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (21 bp):
ACCCTAAATCCAAAATCCTAA
Found at i:4288956 original size:34 final size:34
Alignment explanation
Indices: 4288905--4288978 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
4288895 TCCAAAATTT
* * *
4288905 TAAACCCTAAACCTTGAATATTGACCTCAAATCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
*
4288939 TAAACCCCAAACGTTGAACATTGACCTCAAACCC
1 TAAACCCCAAACCTTGAACATTGACCTCAAACCC
4288973 TAAACC
1 TAAACC
4288979 TTAAATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (34 bp):
TAAACCCCAAACCTTGAACATTGACCTCAAACCC
Found at i:4289701 original size:15 final size:15
Alignment explanation
Indices: 4289665--4289707 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4289655 CAAAGAAAAA
*
4289665 AAATAATGAGTAAACT
1 AAATTATGAGT-AACT
* *
4289681 ATATTATTAGTAACT
1 AAATTATGAGTAACT
4289696 AAATTATGAGTA
1 AAATTATGAGTA
4289708 GATTTTTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (15 bp):
AAATTATGAGTAACT
Found at i:4290804 original size:17 final size:17
Alignment explanation
Indices: 4290782--4290838 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4290772 AGTCATAAAG
4290782 TTATTAAAAATAAAAAA
1 TTATTAAAAATAAAAAA
* * **
4290799 TTATTAAGATTGTAAAA
1 TTATTAAAAATAAAAAA
4290816 TTATTTAAAAATATAAATAA
1 TTA-TTAAAAATA-AAA-AA
4290836 TTA
1 TTA
4290839 AATAATTACT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 16 0.55
18 6 0.21
19 2 0.07
20 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TTATTAAAAATAAAAAA
Found at i:4291409 original size:30 final size:30
Alignment explanation
Indices: 4291373--4291542 Score: 269
Period size: 28 Copynumber: 5.8 Consensus size: 30
4291363 ACTTTTCTCA
*
4291373 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
4291403 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
4291433 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
4291462 -CTAGCCACACC-TTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
4291490 ACTAGCCAC-TC-TTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
4291518 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
4291543 CTTGTACCTA
Statistics
Matches: 130, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
28 52 0.40
29 29 0.22
30 49 0.38
ACGTcount: A:0.25, C:0.51, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:4292068 original size:22 final size:23
Alignment explanation
Indices: 4292043--4292152 Score: 66
Period size: 25 Copynumber: 4.7 Consensus size: 23
4292033 TTCTTAATAT
4292043 TATATTATATATAT-TCTTTTAA
1 TATATTATATATATATCTTTTAA
** *
4292065 TATA-T-TAGGTATAT-TTTAAA
1 TATATTATATATATATCTTTTAA
* *
4292085 TTTATATTACGTATATATATATTTTAC
1 --TATATTA--TATATATATCTTTTAA
* * *
4292112 TATTTTATTTATATATCTTTAATAT
1 TATATTATATATATATCTTT--TAA
4292137 TATATTATATATATAT
1 TATATTATATATATAT
4292153 ATATATTTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
20 10 0.15
21 2 0.03
22 8 0.12
23 12 0.18
25 22 0.34
26 7 0.11
27 4 0.06
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (23 bp):
TATATTATATATATATCTTTTAA
Found at i:4292124 original size:21 final size:23
Alignment explanation
Indices: 4292098--4292150 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
4292088 ATATTACGTA
* *
4292098 TATATATAT-TTTACTATTTTAT
1 TATATATATCTTTAATATTATAT
4292120 T-TATATATCTTTAATATTATAT
1 TATATATATCTTTAATATTATAT
4292142 TATATATAT
1 TATATATAT
4292151 ATATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 13 0.48
23 7 0.26
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATATATCTTTAATATTATAT
Found at i:4292203 original size:22 final size:24
Alignment explanation
Indices: 4292175--4292233 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
4292165 ACATGTTATC
4292175 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
4292197 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
4292222 TTATGTACATAT
1 TTATGTATATAT
4292234 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:4292223 original size:25 final size:25
Alignment explanation
Indices: 4292191--4292239 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4292181 ATATATCTTA
**
4292191 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
4292216 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
4292240 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:4305626 original size:29 final size:30
Alignment explanation
Indices: 4305567--4305739 Score: 230
Period size: 29 Copynumber: 5.9 Consensus size: 30
4305557 AAACTTTTCT
*
4305567 CACTAGGCCACTCCTTTTCCACCACCAACTC
1 CACTA-GCCACACCTTTTCCACCACCAACTC
4305598 CACTAGCCACACCTTTT-CACCACCAACTC
1 CACTAGCCACACCTTTTCCACCACCAACTC
* *
4305627 CACTAGCCACTCTTTTTCCACCACCAACT-
1 CACTAGCCACACCTTTTCCACCACCAACTC
*
4305656 CGCTAGCCACA-CTTTTCCACCACCAACTC
1 CACTAGCCACACCTTTTCCACCACCAACTC
* *
4305685 CACCTAGCCACTCTTTTTCCA-C-CCAACTC
1 CA-CTAGCCACACCTTTTCCACCACCAACTC
*
4305714 CACTAGCCACACCTTCTCCACCACCA
1 CACTAGCCACACCTTTTCCACCACCA
4305740 CTTGTACCTA
Statistics
Matches: 124, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
28 31 0.25
29 47 0.38
30 34 0.27
31 12 0.10
ACGTcount: A:0.24, C:0.49, G:0.05, T:0.23
Consensus pattern (30 bp):
CACTAGCCACACCTTTTCCACCACCAACTC
Found at i:4305749 original size:59 final size:60
Alignment explanation
Indices: 4305573--4305739 Score: 261
Period size: 59 Copynumber: 2.8 Consensus size: 60
4305563 TTCTCACTAG
* *
4305573 GCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCACCACCAACTCCA-CTA
1 GCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCCACCTA
* *
4305632 GCCACTCTTTTTCCACCACCAACT-CGCTAGCCACACTTTTCCACCACCAACTCCACCTA
1 GCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCCACCTA
4305691 GCCACTCTTTTTCCA-C-CCAACTCCACTAGCCACACCTTCTCCACCACCA
1 GCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTT-TCCACCACCA
4305740 CTTGTACCTA
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
57 6 0.06
58 42 0.42
59 51 0.52
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.23
Consensus pattern (60 bp):
GCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCCACCTA
Found at i:4306423 original size:25 final size:23
Alignment explanation
Indices: 4306394--4306458 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
4306384 ATCTTAACTA
4306394 ATTATGTATGTATTTTTTAACACTT
1 ATTATGTAT-TATTTTTTAACA-TT
* * *
4306419 ATTATGTA-CATATTTTAATATT
1 ATTATGTATTATTTTTTAACATT
4306441 A-TATGTATTTATTTTTTA
1 ATTATGTA-TTATTTTTTA
4306459 TATAGTGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 6 0.18
22 3 0.09
23 16 0.48
25 8 0.24
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (23 bp):
ATTATGTATTATTTTTTAACATT
Found at i:4306473 original size:20 final size:21
Alignment explanation
Indices: 4306421--4306473 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
4306411 TAACACTTAT
4306421 TATGTACATATTTTAATATTA
1 TATGTACATATTTTAATATTA
** *
4306442 TATGTATTTATTTT-TTA-TA
1 TATGTACATATTTTAATATTA
4306461 TAGTGTACATATT
1 TA-TGTACATATT
4306474 GATGTAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.57
Consensus pattern (21 bp):
TATGTACATATTTTAATATTA
Found at i:4306593 original size:19 final size:18
Alignment explanation
Indices: 4306542--4306604 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
4306532 TGTACATCTT
*
4306542 TTTTATTTCT-AT-TTTA
1 TTTTATTTCTAATATTAA
*
4306558 TTTTATTTGTCAATATTAA
1 TTTTATTTCT-AATATTAA
4306577 TTATTATTTCTAATATTAA
1 TT-TTATTTCTAATATTAA
4306596 TTTTTATTT
1 -TTTTATTT
4306605 TATATATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 9 0.23
18 2 0.05
19 19 0.49
20 9 0.23
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTTCTAATATTAA
Found at i:4315178 original size:67 final size:66
Alignment explanation
Indices: 4315044--4315242 Score: 282
Period size: 67 Copynumber: 3.0 Consensus size: 66
4315034 TTTGTTTTCA
*
4315044 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTCAATTTCTGT
1 AAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGT
4315108 GTT
65 -TT
*
4315111 TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGC-AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCTG
4315176 TTT
64 TTT
*
4315179 CAAAATCAACTCATATTGC-GA-GTGAGTTGAGCCTCAGGACACG-TGAGGTATTTTAATTTC-G
1 --AAATCAACTCATATTGCAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTG
4315240 TTT
64 TTT
4315243 TCAATTTCTG
Statistics
Matches: 123, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
64 4 0.03
65 10 0.08
66 6 0.05
67 56 0.46
68 17 0.14
69 14 0.11
70 16 0.13
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (66 bp):
AAATCAACTCATATTGCAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCTGTT
T
Found at i:4315682 original size:69 final size:74
Alignment explanation
Indices: 4315394--4316275 Score: 778
Period size: 70 Copynumber: 11.8 Consensus size: 74
4315384 TCAATTTCTG
*** *
4315394 TTTT-AATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
4315457 GCTGAGGTA
66 GCTGAGGTA
4315466 -TTTCAATTTCTG-TTTTCAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CA
4315527 CGCTGAGGTA
65 CGCTGAGGTA
4315537 TTTTCAATTTCTGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGT-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
4315602 ACGCTGAGGTA
64 ACGCTGAGGTA
*
4315613 -TTTCAATTTCT-TTTTTCAAAAAATCAACTCATATTGTGAGA-G-GAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
4315674 GC-CAGGTA
66 GCTGAGGTA
4315682 TTTTCAATTTCTG-TTTTCAATTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTC-A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
4315746 T--GGTCACGCTGAGG--
57 TCAGGACACGCTGAGGTA
*
4315760 TTTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTA-GACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
4315823 -ATGA-GTA
66 GCTGAGGTA
* *
4315830 TTTTCAATTTATGTTTTTC-AAAAATCAACTCATA-TGCGAGATGTGAGTTGAGCCT--GGCACA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
*
4315891 TG-TCGAGGTA
65 CGCT-GAGGTA
* *
4315901 TTTTCAATCTGTTTTTCAATTCTGTTTTC-AAAAATTAACTCATATTGCGAGA-GTGAGTTGAGC
1 TTTTCAA------TTTC---TGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* ** *
4315964 CTTAGCTCACGTGCTGAGCTA
56 CTCAGGACAC--GCTGAGGTA
*
4315985 TTTTCAATTTCTTTTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTAC
1 TTTTCAATTTC--TGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-----C
** * *
4316050 TGCGAGAGTTA-GTTGA-GTC
57 T-C-AG-GACACGCTGAGGTA
*
4316069 TTTT-AATTTCT-ATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-----CAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
4316126 GTCTGAGGTA
66 G-CTGAGGTA
*
4316136 TTTTCAATCTCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAA-----TTTC-TGTT---TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
4316201 TCAGGACACGCTGAGGTA
57 TCAGGACACGCTGAGGTA
* * * * * *
4316219 TTTTTAAATTTATATTTTTC-AAAAATCAATTCATATTACGAGATGTGAGTTGAGCCT
1 -TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4316276 TGGGTTCACA
Statistics
Matches: 685, Mismatches: 43, Indels: 162
0.77 0.05 0.18
Matches are distributed among these distances:
64 1 0.00
65 1 0.00
66 3 0.00
67 6 0.01
68 4 0.01
69 69 0.10
70 109 0.16
71 35 0.05
72 45 0.07
73 9 0.01
74 40 0.06
75 22 0.03
76 50 0.07
77 43 0.06
78 23 0.03
79 96 0.14
80 22 0.03
81 44 0.06
82 9 0.01
83 15 0.02
84 28 0.04
85 7 0.01
87 2 0.00
88 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:4315754 original size:79 final size:76
Alignment explanation
Indices: 4315112--4316302 Score: 713
Period size: 70 Copynumber: 15.7 Consensus size: 76
4315102 TTCTGTGTTT
* *
4315112 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGC-GAGGTATTTTCAATTTCTGT
4315176 -------TTTC-AA
63 TTTCTTTTTTCAAA
* *
4315182 AATCAACTCATATTGC--GA-GTGAGTTGAGCCTCAGGACACGTGAGGTATTTT-AATTTC-GTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGCGAGGTATTTTCAATTTCTGTT
4315242 TTCAATTTCTGTTTCAAAA
64 TTC---TT-T-TTTC-AAA
* *
4315261 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGC-GAGGTATTTTCAATTTCTGT
*
4315325 -------TTTAAAA
63 TTTCTTTTTTCAAA
*
4315332 AATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCGAGGTATTTTCAATTTCTGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGCGAGGTATTTTCAATTTCTGTT
*
4315396 TTAATTTCTGTTTCAAAAAA
64 TT--CTT-T-TTTC---AAA
4315416 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACGCTGAGGTA-TTTCAATTTCTG--
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGTCACGC-GAGGTATTTTCAATTTCTGTT
4315478 -----TTTTCAAA
64 TTCTTTTTTCAAA
* *
4315486 AAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGGTATTTTCAATTTCTG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGC-GAGGTATTTTCAATTTCTGT
***
4315550 --TCTTTTCAAAAA
63 TTTCTTTTTTCAAA
*
4315562 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTCAA-------
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGC-GAGGTATTTTCAATTTCTGT
4315619 TTTCTTTTTTCAAAA
63 TTTCTTTTTTC-AAA
* * *
4315634 AATCAACTCATATTGTGAGA-G-GAGTTGAGCCTCAGGACACGCCAGGTATTTTCAATTTCTGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGCGAGGTATTTTCAATTTCTGTT
4315697 TTCAATTTGTTTCAAA
64 TTC--TTT-TTTCAAA
4315713 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCACGCTGAGG--TTTTCAATTTCTG---
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCACGC-GAGGTATTTTCAATTTCTGTTT
4315773 ---TTTTTCAAA
65 TCTTTTTTCAAA
* * ** *
4315782 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGACACATGA-GTATTTTCAATTTATG---
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TGGTCACGCGAGGTATTTTCAATTTCTGTTT
4315843 ---TTTTTCAAA
65 TCTTTTTTCAAA
*
4315852 AATCAACTCATA-TGCGAGATGTGAGTTGAGCCTGG-CACATGTCGAGGTATTTTCAA--TCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCAC--G-CGAGGTATTTTCAATTTCTG-
4315913 TTTTCAATTCTGTTTTCAAA
62 TTTTC---T-T-TTTTCAAA
* * *
4315933 AATTAACTCATATTGCGAGA-GTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-GGTCAC--GC-GAGGTATTTTCAATTTCT
***
4315997 -TTTT-TTTTCAAAAAA
61 GTTTTCTTTT-TTCAAA
* * * * * * *
4316012 AATCAACTCATATTGCGAGAGGTGAGTTGAG-CT-TTTACTGCGAGAGT-TAGTTGAGTCTTTTA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCAC-GCGAG-GTAT-TTTCAAT-TTCTG
* *
4316074 ATTTCTATTTTCAAA
62 TTTTCTTTTTTCAAA
*
4316089 AATCAACTCATATTGCGAGAGGTGAGTTGAGCC---TCACGTCTGAGGTATTTTCAA--TCTCTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCACG-C-GAGGTATTTTCAATTTCTGTT
*
4316149 TTCAAGTTAAGTTTCAAAA
64 TTC---TT--TTTTC-AAA
* * *
4316168 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA---AT-T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGC-GAGGTATTTTCAATTTCTGT
* *
4316229 TAT-ATTTTTCAAA
63 TTTCTTTTTTCAAA
* * *
4316242 AATCAATTCATATTACGAGATGTGAGTTGAGCCTTGGGTTCACATGTCGAGGTATTTTCAA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-GG-TCAC--G-CGAGGTATTTTCAA
4316303 AATCTACTTT
Statistics
Matches: 930, Mismatches: 77, Indels: 221
0.76 0.06 0.18
Matches are distributed among these distances:
64 1 0.00
65 6 0.01
66 9 0.01
67 25 0.03
68 5 0.01
69 87 0.09
70 144 0.15
71 54 0.06
72 37 0.04
73 10 0.01
74 40 0.04
75 23 0.02
76 69 0.07
77 63 0.07
78 25 0.03
79 110 0.12
80 20 0.02
81 50 0.05
82 31 0.03
83 25 0.03
84 73 0.08
85 20 0.02
86 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (76 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGTCACGCGAGGTATTTTCAATTTCTGTTTT
CTTTTTTCAAA
Found at i:4316013 original size:450 final size:443
Alignment explanation
Indices: 4315031--4316276 Score: 1382
Period size: 450 Copynumber: 2.8 Consensus size: 443
4315021 TAAGCCTTTT
* * ** *
4315031 AATTT-TGTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGG
1 AATTTCTGTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGC
*
4315093 TA-TTTCAATTTCTGT-GTTT------AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TATTTTCAATTTCTGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
4315150 ACACGCTGAGGTAATTTCAATTTC-TGTTTC-AAAATCAACTCATATTGCGAG-TGAGTTGAGCC
131 ACACGCTGAGGT-ATTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGAGTTGAGCC
* *
4315212 TCAGGACACGTGAGGTATTTT-AATTTC-GTTTTCAATTTCTGTTTCAAAAAATCAACTCATATT
195 TCAGGACAC--GAGGTATTTTCAATTTCTGTTTTCAAGTTATGTTTCAAAAAATCAACTCATATT
*
4315275 GCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG--TTTAAAAAATCAA
258 GCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGT--TTTCAATTTCTGTTTTTCAAAAATCAA
* * *
4315338 CTCATATTGCGAGAGTGAGTTGAGCCTCAGGACACGCGAGGTATTTTCAATTTCTGTTTTAATTT
320 CTCATATTGCGAGAGTGAGTTGAGCCTTAGGACACACGAGGTATTTTCAA------TTTTAATGT
4315403 CTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACGCTGAGGTATT
379 CTGTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACGCTGAGGTATT
4315468 TC
442 TC
*
4315470 AATTTCTGTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGG
1 AATTTCTGTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGC
4315535 TATTTTCAATTTCTGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 TATTTTCAATTTCTGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
4315600 ACACGCTGAGGTATTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGTGAGAGGAGTTGAGCC
131 ACACGCTGAGGTATTTCAATTTCTTTTTTC-AAAAATCAACTCATATTGCGAGAGGAGTTGAGCC
4315665 TCAGGACACGCCAGGTATTTTCAATTTCTGTTTTCAA-TT-TGTTTC-AAAAATCAACTCATATT
195 TCAGGACACG--AGGTATTTTCAATTTCTGTTTTCAAGTTATGTTTCAAAAAATCAACTCATATT
*
4315727 GCGAGAGGTGAGTTGAGCCT-GGTCACGCTGAGGTTTTCAATTTCTGTTTTTCAAAAATCAACTC
258 GCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTTTTCAATTTCTGTTTTTCAAAAATCAACTC
*
4315791 ATATTGCGAGAGGTGAGTTGAGCCTTA-GACACATGA-GTATTTTCAA-TTT-ATGT-T-TTTC-
323 ATATTGCGAGA-GTGAGTTGAGCCTTAGGACACACGAGGTATTTTCAATTTTAATGTCTGTTTCA
*
4315849 AAAAATCAACTCATA-TGCGAGATGTGAGTTGAGCCT-GG-CACATG-TCGAGGTATTTTC
387 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCAC--GCT-GAGGTA-TTTC
** * *
4315906 AATCTGTTTTTCAATTCTGTTTTCAAAAATTAACTCATATTGCGAGA-GTGAGTTGAGCCTTAGC
1 AA--------T---TTCTGTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
* *
4315970 TCACGTGCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGT
55 TCAC--GCTGAGCTATTTTCAATTTC-TGTCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGT
** * * * *
4316035 GAGTTGAGCTTTTACTGCGAGAGTTA-GTTGA-GTCTTTTAATTTCTATTTTCAAAAATCAACTC
116 GAGTTGAGC-----CT-C-AG-GACACGCTGAGGTATTTCAATTTCTTTTTTCAAAAATCAACTC
* * * * *
4316098 ATATTGCGAGAGGTGAGTTGAGCCTCACGTC-TGAGGTATTTTCAA--TCTCTTTTCAAGTTAAG
173 ATATTGCGAGA-G-GAGTTGAGCCTCAGGACACGAGGTATTTTCAATTTCTGTTTTCAAGTTATG
*
4316160 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTA
236 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGG---TTTTC
* * * *
4316225 AATTTATATTTTTCAAAAATCAATTCATATTACGAGATGTGAGTTGAGCCTT
297 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTT
4316277 GGGTTCACAT
Statistics
Matches: 707, Mismatches: 41, Indels: 97
0.84 0.05 0.11
Matches are distributed among these distances:
433 3 0.00
434 3 0.00
435 27 0.04
436 21 0.03
439 9 0.01
440 8 0.01
441 38 0.05
442 16 0.02
443 13 0.02
444 4 0.01
446 19 0.03
447 31 0.04
448 31 0.04
449 28 0.04
450 138 0.20
451 15 0.02
452 67 0.09
453 36 0.05
454 25 0.04
455 69 0.10
456 20 0.03
457 33 0.05
458 2 0.00
460 51 0.07
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (443 bp):
AATTTCTGTTTTCAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACGCTGAGC
TATTTTCAATTTCTGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTATTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGAGTTGAGCCT
CAGGACACGAGGTATTTTCAATTTCTGTTTTCAAGTTATGTTTCAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTAGGACACGCTGAGGTTTTCAATTTCTGTTTTTCAAAAATCAACTCATA
TTGCGAGAGTGAGTTGAGCCTTAGGACACACGAGGTATTTTCAATTTTAATGTCTGTTTCAAAAA
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACGCTGAGGTATTTC
Found at i:4316071 original size:25 final size:25
Alignment explanation
Indices: 4316025--4316073 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4316015 CAACTCATAT
4316025 TGCGAGAGGTGAGTTGAGCTTTTAC
1 TGCGAGAGGTGAGTTGAGCTTTTAC
*
4316050 TGCGAGA-GTTAGTTGAGTCTTTTA
1 TGCGAGAGGTGAGTTGAG-CTTTTA
4316074 ATTTCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (25 bp):
TGCGAGAGGTGAGTTGAGCTTTTAC
Found at i:4316101 original size:156 final size:156
Alignment explanation
Indices: 4315760--4316199 Score: 450
Period size: 156 Copynumber: 2.8 Consensus size: 156
4315750 CACGCTGAGG
* *
4315760 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG-ACAC-
1 TTTTCAATTTCT-ATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACG
* * * *
4315823 -ATGAGTATTTTCAA-TT-TATGTTTTTC-AAAAATCAACTCATA-TGCGAGATGTGAGTTGAGC
65 TCTGAGTATTTTCAATTTCTTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-
*
4315883 CTGGCACATGTCGAGGTATTTTCAATCTGT
129 CTGGCACATGTCGAGGTATGTTCAATC--T
* *
4315913 TTTTCAA-TTCTGTTTTCAAAAATTAACTCATATTGCGAGA-GTGAGTTGAGCCTTAGCTCACGT
1 TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGT
4315976 GCTGAGCTATTTTCAATTTCTTTTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 -CTGAG-TATTTTCAATTTCTTTTTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*** * *
4316041 AGCTTTTAC-TG-CGAGAGT-TAGTTGAGTC-
127 AGCTGGCACATGTCGAG-GTAT-GTTCAATCT
4316069 TTTT-AATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C----CTCACGT
1 TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGT
*
4316128 CTGAGGTATTTTCAATCTCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
66 CTGA-GTATTTTCAATTTCTTTT----TT---TTTCAAAAAATCAACTCATATTGCGAGAGGTGA
4316193 GTTGAGC
123 GTTGAGC
4316200 CTCAGGACAC
Statistics
Matches: 248, Mismatches: 16, Indels: 43
0.81 0.05 0.14
Matches are distributed among these distances:
150 16 0.06
151 50 0.20
152 12 0.05
153 7 0.03
154 4 0.02
155 13 0.05
156 74 0.30
157 18 0.07
158 9 0.04
159 9 0.04
160 19 0.08
161 17 0.07
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (156 bp):
TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGT
CTGAGTATTTTCAATTTCTTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCT
GGCACATGTCGAGGTATGTTCAATCT
Found at i:4316245 original size:230 final size:221
Alignment explanation
Indices: 4315043--4316273 Score: 1165
Period size: 230 Copynumber: 5.5 Consensus size: 221
4315033 TTTTGTTTTC
* *
4315043 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTA-TTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
4315106 GTGTTT----AATCAACTCATATTGCGAGAGGTGAGTTGAGC-CT-CAGGACACGCTGAGGTAAT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCACTGCAGGACACGCTGAGGT-AT
* *
4315165 TTCAATTTCTGTTTC-AAAATCAACTCATATTGC--GAGTGAGTTGAGCCTCAGGACACGTGAGG
130 TTCAATTTCTTTTTCAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCACG--AC-TGAGG
*
4315227 TATTTT-AATTTCGTTTTCAATTTCTGTTTCAA
192 TATTTTCAATCTC-TTTTCAA-TT-TGTTTCAA
*
4315259 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
4315324 G--TTTAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGC-CT-CAGGACACGC-GAGGTATT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCACTGCAGGACACGCTGAGGTA-T
4315383 TTCAATTTCTGTTTTAATTTCTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
130 TTCAATTTC----------T-T-TTTC---AAAAATCAACTCATATTGCGAGA-GTGAGTTGAG-
*
4315448 CTCGGTCACG-CTGAGGTA-TTTCAA-----TTTC--TGT-TTTCAA
178 C-C--TCACGACTGAGGTATTTTCAATCTCTTTTCAATTTGTTTCAA
4315485 AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACGCTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTTC
4315548 TGTCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CT-CAGGACACGCTGAGG
65 TGT-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCACTGCAGGACACGCTGAGG
* * *
4315611 TATTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGTGAGAG-GAGTTGAGCCTCAGGACACG
127 TATTTCAATTTC-TTTTTC-AAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCACGAC-TG
*
4315675 CCAGGTATTTTCAATTTCTGTTTTCAATTTGTTTC-A
189 --AGGTATTTTCAA--TCTCTTTTCAATTTGTTTCAA
*
4315711 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--GGTCACGCTGAGG--TTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
4315772 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CT-TA-GACAC-ATGA-GTATT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCACTGCAGGACACGCTGAGGTA-T
* *
4315832 TTCAATTTATGTTTTTCAAAAATCAACTCATA-TGCGAGATGTGAGTTGAGCCTGGCAC-ATGTC
130 TTCAA-TT-TCTTTTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT--CACGA-CT-
*
4315895 GAGGTATTTTCAATCTGTTTTTCAATTCTGTTTTC-A
188 GAGGTATTTTCAATCT-CTTTTCAATT-TG-TTTCAA
* * ** *
4315931 AAAATTAACTCATATTGCGAGA-GTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC--GCTGAGGTATTTTCAATTT
* **
4315995 CTTTTTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTACTGCGAGAGTT
64 C--TGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC----ACTGC-AG-GAC
* * *
4316060 A-GTTGA-GTCTTTTAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
118 ACGCTGAGGTATTTCAATTTCT-TTTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCT
* *
4316123 CACGTCTGAGGTATTTTCAATCTCTTTTCAAGTTAAGTTTCAA
181 CACGACTGAGGTATTTTCAATCTCTTTTCAA-TT-TGTTTCAA
* *
4316166 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
* * * *
4316231 TATTTTTCAAAAATCAATTCATATTACGAGATGTGAGTTGAGC
65 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
4316274 CTTGGGTTCA
Statistics
Matches: 871, Mismatches: 48, Indels: 178
0.79 0.04 0.16
Matches are distributed among these distances:
212 4 0.00
213 1 0.00
214 2 0.00
215 1 0.00
216 52 0.06
217 34 0.04
218 84 0.10
219 74 0.08
220 90 0.10
221 9 0.01
222 7 0.01
223 20 0.02
224 6 0.01
225 78 0.09
226 18 0.02
227 43 0.05
228 5 0.01
230 94 0.11
231 37 0.04
232 6 0.01
233 7 0.01
234 37 0.04
235 52 0.06
236 29 0.03
237 42 0.05
238 27 0.03
239 8 0.01
241 4 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (221 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCACTGCAGGACACGCTGAGGTATT
TCAATTTCTTTTTCAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCACGACTGAGGTATT
TTCAATCTCTTTTCAATTTGTTTCAA
Done.