Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 245 of 325
Found at i:77460154 original size:25 final size:25
Alignment explanation
Indices: 77460098--77460181 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
77460088 TATATCTCAT
* *
77460098 GTAAGCTCTTCC-AAGCTGAATAA-C
1 GTAAGCTCATCCGAA-CTGAATAATG
*
77460122 GTAAGCTCCTCCGAACTGAATAATG
1 GTAAGCTCATCCGAACTGAATAATG
* * *
77460147 GTAAGCTCATACGAGCTGAGTAATG
1 GTAAGCTCATCCGAACTGAATAATG
77460172 GTAAGCTCAT
1 GTAAGCTCAT
77460182 AAGAGCTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 19 0.37
25 33 0.63
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATCCGAACTGAATAATG
Found at i:77460182 original size:25 final size:25
Alignment explanation
Indices: 77460111--77460188 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
77460101 AGCTCTTCCA
* * *
77460111 AGCTGAATAA-CGTAAGCTCCTCCG
1 AGCTGAATAATGGTAAGCTCATACG
*
77460135 AACTGAATAATGGTAAGCTCATACG
1 AGCTGAATAATGGTAAGCTCATACG
* *
77460160 AGCTGAGTAATGGTAAGCTCATAAG
1 AGCTGAATAATGGTAAGCTCATACG
77460185 AGCT
1 AGCT
77460189 AAAATCGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 9 0.20
25 37 0.80
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
AGCTGAATAATGGTAAGCTCATACG
Found at i:77464176 original size:34 final size:34
Alignment explanation
Indices: 77464138--77464207 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
77464128 TTATGAAAAG
77464138 TTACAAAATTGTCATTTAACTATTCAAATTTATC
1 TTACAAAATTGTCATTTAACTATTCAAATTTATC
77464172 TTACAAAATTGTCATTTAACTATTCAAATTTATC
1 TTACAAAATTGTCATTTAACTATTCAAATTTATC
77464206 TT
1 TT
77464208 TTTTTGTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (34 bp):
TTACAAAATTGTCATTTAACTATTCAAATTTATC
Found at i:77464200 original size:20 final size:20
Alignment explanation
Indices: 77464143--77464201 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
77464133 AAAAGTTACA
77464143 AAATTGTCATTTAACTATTC
1 AAATTGTCATTTAACTATTC
77464163 AAATT-T-ATCTT-AC-A---
1 AAATTGTCAT-TTAACTATTC
77464177 AAATTGTCATTTAACTATTC
1 AAATTGTCATTTAACTATTC
77464197 AAATT
1 AAATT
77464202 TATCTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 16
0.66 0.00 0.34
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 4 0.13
17 2 0.06
18 4 0.13
19 3 0.10
20 10 0.32
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATTGTCATTTAACTATTC
Found at i:77465725 original size:31 final size:31
Alignment explanation
Indices: 77465690--77465759 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
77465680 AAAATATTTC
* * * *
77465690 TATTATTTTTTTATATTATTTAAAATACCCT
1 TATTAATTATTTATACTACTTAAAATACCCT
77465721 TATTAATTATTTATACTACTTAAAATA-CCT
1 TATTAATTATTTATACTACTTAAAATACCCT
77465751 CTATTAATT
1 -TATTAATT
77465760 CTTAAACACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (31 bp):
TATTAATTATTTATACTACTTAAAATACCCT
Found at i:77472031 original size:30 final size:30
Alignment explanation
Indices: 77471997--77472053 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
77471987 TGGGCATTTC
*
77471997 CACACGGGCTGGCCACATGGCCATGTGAGT
1 CACACGGGCTGGCCACATGCCCATGTGAGT
77472027 CACACGGGCTGGCCACATGCCCATGTG
1 CACACGGGCTGGCCACATGCCCATGTG
77472054 CTAGTCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.33, G:0.32, T:0.16
Consensus pattern (30 bp):
CACACGGGCTGGCCACATGCCCATGTGAGT
Found at i:77476277 original size:30 final size:30
Alignment explanation
Indices: 77476221--77476279 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
77476211 ATCAGAGAGT
* *
77476221 TACACAGCCTGACCATACAGGTGTGTGGAG
1 TACACAGCCTGACCACACAGGCGTGTGGAG
*
77476251 TACACAGCCTGGCCACAC-GAGCGTGTGGA
1 TACACAGCCTGACCACACAG-GCGTGTGGA
77476280 ATCTCACATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.17
Consensus pattern (30 bp):
TACACAGCCTGACCACACAGGCGTGTGGAG
Found at i:77476449 original size:26 final size:26
Alignment explanation
Indices: 77476402--77476451 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
77476392 TTCATCACCC
*
77476402 TAATTTTATTTTATTTTATTTATTTT
1 TAATTTTATATTATTTTATTTATTTT
77476428 TAATTGTTATATTATTTT-TTTATT
1 TAATT-TTATATTATTTTATTTATT
77476452 ATAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TAATTTTATATTATTTTATTTATTTT
Found at i:77476515 original size:18 final size:18
Alignment explanation
Indices: 77476492--77476554 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 18
77476482 TTCATATACT
77476492 TATTTTCTAATTTTTT-TA
1 TATTTT-TAATTTTTTATA
77476510 TA-TTTTAATTTTTTATA
1 TATTTTTAATTTTTTATA
* *
77476527 TACTTTT-ATTATTT-T-
1 TATTTTTAATTTTTTATA
77476542 TATTTTT-ATTTTT
1 TATTTTTAATTTTT
77476555 ATTTTGCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.28
16 10 0.25
17 13 0.32
18 6 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTTAATTTTTTATA
Found at i:77476523 original size:15 final size:15
Alignment explanation
Indices: 77476503--77476554 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
77476493 ATTTTCTAAT
*
77476503 TTTTTTATATTTTAA
1 TTTTTTATATTTTTA
77476518 TTTTTTATATACTTTTA
1 TTTTTTATAT--TTTTA
77476535 TTATTTT-TATTTTTA
1 TT-TTTTATATTTTTA
77476550 TTTTT
1 TTTTT
77476555 ATTTTGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 17 0.52
17 9 0.27
18 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATATTTTTA
Found at i:77476546 original size:6 final size:6
Alignment explanation
Indices: 77476535--77476574 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
77476525 TATACTTTTA
*
77476535 TTATTT TTATTT TTATTT TTATTT TGCTATTT CTATTT TT
1 TTATTT TTATTT TTATTT TTATTT T--TATTT TTATTT TT
77476575 TTCTTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 25 0.83
8 5 0.17
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:77476581 original size:22 final size:22
Alignment explanation
Indices: 77476550--77476599 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
77476540 TTTATTTTTA
77476550 TTTTTATTTTGCTATTTC-TATT
1 TTTTTATTTT-CTATTTCGTATT
* * *
77476572 TTTTTCTTTTTTCTTTCGTATT
1 TTTTTATTTTCTATTTCGTATT
77476594 TTTTTA
1 TTTTTA
77476600 CTATTATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.10, C:0.10, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTCTATTTCGTATT
Found at i:77476654 original size:3 final size:3
Alignment explanation
Indices: 77476646--77476687 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
77476636 ATCATTGAGT
* *
77476646 TTA TTA TTA TTA TTA TT- TTA TTA TTT TTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
77476688 CTTTCTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:77476658 original size:9 final size:9
Alignment explanation
Indices: 77476645--77476687 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
77476635 TATCATTGAG
77476645 TTTATTATT
1 TTTATTATT
*
77476654 ATTATTA-T
1 TTTATTATT
77476662 TTTATTATT
1 TTTATTATT
77476671 TTTATTATT
1 TTTATTATT
77476680 TTTATTAT
1 TTTATTAT
77476688 CTTTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTATT
Found at i:77476667 original size:17 final size:18
Alignment explanation
Indices: 77476645--77476687 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
77476635 TATCATTGAG
77476645 TTTATTATTATTATTA-T
1 TTTATTATTATTATTATT
*
77476662 TTTATTATTTTTATTATT
1 TTTATTATTATTATTATT
77476680 TTTATTAT
1 TTTATTAT
77476688 CTTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATTATTATTATT
Found at i:77478571 original size:30 final size:30
Alignment explanation
Indices: 77478536--77478593 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
77478526 CTGGGCAATT
77478536 CCACACAGGCTGGCCACACACCCATGTGAG
1 CCACACAGGCTGGCCACACACCCATGTGAG
* *
77478566 CCACACGGGCTGGCCACATACCCATGTG
1 CCACACAGGCTGGCCACACACCCATGTG
77478594 CCAGCCCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (30 bp):
CCACACAGGCTGGCCACACACCCATGTGAG
Found at i:77492046 original size:43 final size:43
Alignment explanation
Indices: 77491985--77492095 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
77491975 ACAATGCTAA
* * *
77491985 TGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCC-AC
1 TGTCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCCAAC
* *
77492028 TGTCCTAGACAGGGTCTTACACGAAATCAAGTACGATGCCAAC
1 TGTCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCAAC
77492071 -GTCCCAGAC-GTGGTCTTACACGAAA
1 TGTCCCAGACAG-GGTCTTACACGAAA
77492096 ACACATATCG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.48
43 30 0.50
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACAGGGTCTTACACGAAATCAAATACGATGCCAAC
Found at i:77492086 original size:42 final size:43
Alignment explanation
Indices: 77491985--77492105 Score: 140
Period size: 42 Copynumber: 2.8 Consensus size: 43
77491975 ACAATGCTAA
* * *
77491985 TGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAC
1 TGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCCAC
* *
77492028 TGTCCTAGACAG-GGTCTTACACGAAATCAAGTA-CGATGCCAAC
1 TGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCGATGCC-AC
* *
77492071 -GTCCCAGACGTGGTCTTACACGAAAACACATATCG
1 TGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
77492106 GATCCTATGT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 33 0.51
43 31 0.48
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCCAC
Found at i:77497460 original size:19 final size:19
Alignment explanation
Indices: 77497436--77497473 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
77497426 TAAATTTGGA
77497436 TCTAGTATGAGATACTTTT
1 TCTAGTATGAGATACTTTT
77497455 TCTAGTATGAGATACTTTT
1 TCTAGTATGAGATACTTTT
77497474 ACTTTGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
TCTAGTATGAGATACTTTT
Found at i:77504326 original size:72 final size:71
Alignment explanation
Indices: 77504203--77504349 Score: 240
Period size: 72 Copynumber: 2.1 Consensus size: 71
77504193 CACTTTTTTG
* *
77504203 CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGTTCAAACTTTGTAATATTC
1 CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATTC
* *
77504268 CGCGAC
66 CACAAC
*
77504274 CTTTATGTTATTATTGTGATTATATCTGCTACTTGGGGTAAGTAAAGGTCAAACCTTGTAATATT
1 CTTTA-GTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATT
77504339 CCACAAC
65 CCACAAC
77504346 CTTT
1 CTTT
77504350 TTGCATTGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 5 0.07
72 65 0.93
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (71 bp):
CTTTAGTTATTATTGTGATTATATCTGCTAATTGGGGTAAGTAAAGGTCAAACCTTGTAATATTC
CACAAC
Found at i:77510056 original size:24 final size:26
Alignment explanation
Indices: 77510029--77510077 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
77510019 AGCATTTCAT
77510029 TTCATATA-CAATTC-ATT-CAATTTA
1 TTCA-ATACCAATTCTATTGCAATTTA
77510053 TTCAATACCAATTCTATTGCAATTT
1 TTCAATACCAATTCTATTGCAATTT
77510078 GTTCTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 10 0.45
25 3 0.14
26 6 0.27
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (26 bp):
TTCAATACCAATTCTATTGCAATTTA
Found at i:77510242 original size:21 final size:21
Alignment explanation
Indices: 77510216--77510265 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
77510206 TCAGAAGTAA
*
77510216 TAATACGACACACATGGTGCC
1 TAATACGACACACATAGTGCC
*
77510237 TAATACGACACATATAGTGCC
1 TAATACGACACACATAGTGCC
77510258 TAAT-CGAC
1 TAATACGAC
77510266 TCGAGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (21 bp):
TAATACGACACACATAGTGCC
Found at i:77511206 original size:16 final size:16
Alignment explanation
Indices: 77511185--77511218 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
77511175 AAATCCCTAA
*
77511185 TTTCTCTTTTCTTTCT
1 TTTCTCCTTTCTTTCT
77511201 TTTCTCCTTTCTTTCT
1 TTTCTCCTTTCTTTCT
77511217 TT
1 TT
77511219 CCTATTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTCCTTTCTTTCT
Found at i:77511288 original size:9 final size:9
Alignment explanation
Indices: 77511276--77511305 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
77511266 TTTCTTTTTA
77511276 TTTCATTTG
1 TTTCATTTG
77511285 TTTCATTTG
1 TTTCATTTG
77511294 TTTCATTTG
1 TTTCATTTG
77511303 TTT
1 TTT
77511306 ATTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.70
Consensus pattern (9 bp):
TTTCATTTG
Found at i:77512699 original size:24 final size:24
Alignment explanation
Indices: 77512672--77512730 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
77512662 AAGTTCAAGC
**
77512672 GAGCCATATTGGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCTCACAAA
* *
77512696 GAGCCTTTAATCAGGAAGCTCACGAA
1 GAGCC-AT-ATCAGGAAGCTCACAAA
77512722 GAGCCATAT
1 GAGCCATAT
77512731 AACGGGACAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 7 0.25
25 2 0.07
26 19 0.68
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCACAAA
Found at i:77513237 original size:21 final size:21
Alignment explanation
Indices: 77513212--77513253 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77513202 TAAATTTAAC
77513212 TCAATTTAATAAAATTCACAT
1 TCAATTTAATAAAATTCACAT
* **
77513233 TCAATTTCATCCAATTCACAT
1 TCAATTTAATAAAATTCACAT
77513254 CTTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTTAATAAAATTCACAT
Found at i:77525908 original size:26 final size:26
Alignment explanation
Indices: 77525879--77525937 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
77525869 TTTATGTCAT
* *
77525879 TAAATAAAAAATTTTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
77525905 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
77525931 -AAATAAA
1 TAAATAAA
77525938 TATTAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:77525952 original size:22 final size:22
Alignment explanation
Indices: 77525911--77525969 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
77525901 ATAATAAATC
* *
77525911 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
77525931 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
77525953 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
77525970 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:77526046 original size:15 final size:16
Alignment explanation
Indices: 77526016--77526048 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77526006 AAATGGTTAT
77526016 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
77526033 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
77526048 A
1 A
77526049 AAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:77528712 original size:21 final size:21
Alignment explanation
Indices: 77528687--77528739 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
77528677 AGCGGTGGCA
*
77528687 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
*
77528708 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
77528729 GTGAGATTAGA
1 GTGAGATTAGA
77528740 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.36, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCG
Found at i:77531456 original size:15 final size:15
Alignment explanation
Indices: 77531410--77531461 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
77531400 GGAAAAATAA
*
77531410 AAAATATTATTTGTT
1 AAAATATTATATGTT
* * *
77531425 -AAATGTTTTA-ATT
1 AAAATATTATATGTT
77531438 AAAATATTATATGTT
1 AAAATATTATATGTT
77531453 AAAATATTA
1 AAAATATTA
77531462 ATAAATGAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 2 0.07
14 15 0.54
15 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
AAAATATTATATGTT
Found at i:77558313 original size:24 final size:24
Alignment explanation
Indices: 77558286--77558331 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
77558276 AGGAAGTATG
77558286 CCATATCTCCAAGACCAAACATAT
1 CCATATCTCCAAGACCAAACATAT
77558310 CCATATCTCCAAGACCAAACAT
1 CCATATCTCCAAGACCAAACAT
77558332 TTCAAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.20
Consensus pattern (24 bp):
CCATATCTCCAAGACCAAACATAT
Found at i:77562472 original size:25 final size:25
Alignment explanation
Indices: 77562444--77562494 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
77562434 ATGACTATGG
77562444 TTCGATAAATCTTGAGGCATTGGTA
1 TTCGATAAATCTTGAGGCATTGGTA
77562469 TTCGATAAATCTTGAGGCATTGGTA
1 TTCGATAAATCTTGAGGCATTGGTA
77562494 T
1 T
77562495 AGGTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (25 bp):
TTCGATAAATCTTGAGGCATTGGTA
Found at i:77564405 original size:46 final size:49
Alignment explanation
Indices: 77564215--77564525 Score: 251
Period size: 46 Copynumber: 6.6 Consensus size: 49
77564205 GTATAATGCT
* * * * *
77564215 GATGCCATGTCCCAGATATGGTCTTACATTGGCT-TATC-CATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCGAGGCC
* * *
77564262 GATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACATATCTG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATC-GAGGCC
* * *
77564312 GATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGGCC
*
77564358 GATG-CATGTCCCAGACAT-GTCTTATACTGGCT-TACATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGGCC
* * * * * * * *
77564404 GAT-ACATGTCCCAGACAT-GTCTTATACTAGCTCT-CGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGGCC
* * *
77564450 GATGCCATGTCCCAGACATGGTCTTACGCTGGCTCT-CATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGAGGCC
*
77564498 GAT-ACATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
77564526 AGTACATAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 73 0.33
47 59 0.27
48 24 0.11
49 6 0.03
50 31 0.14
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGGCC
Found at i:77564502 original size:94 final size:93
Alignment explanation
Indices: 77564261--77564527 Score: 303
Period size: 94 Copynumber: 2.8 Consensus size: 93
77564251 TCCATCAAGT
* * * *
77564261 CGATGCCATGTCCCAGACATGGTCTTACGCTAGCTCTCACATATCTGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATA-ATGTG-GCCGAT-ACATGTCCCA
77564326 GACATGGTCTTACACT-GACACATCTCGAAGC
63 GACAT-GTCTTACACTAGACACATCTCGAAGC
** *
77564357 CGATG-CATGTCCCAGACAT-GTCTTATACTGGCT-TACAT-ATCGAGGCCGATACATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCT-CATAAT-GTGGCCGATACATGTCCCAG
* * * *
77564418 ACATGTCTTATACTAGCTCTCGTCTC-AATGC
64 ACATGTCTTACACTAG-ACACATCTCGAA-GC
* *
77564449 TGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATAATGTGGCTGATACATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATAATGTGGCCGATACATGTCCCAGAC
77564514 ATGTCTTACACTAG
66 ATGTCTTACACTAG
77564528 TACATAAATA
Statistics
Matches: 145, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
90 9 0.06
91 17 0.12
92 20 0.14
93 16 0.11
94 61 0.42
95 17 0.12
96 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATAATGTGGCCGATACATGTCCCAGAC
ATGTCTTACACTAGACACATCTCGAAGC
Found at i:77565255 original size:13 final size:13
Alignment explanation
Indices: 77565237--77565261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77565227 CTAAAAGTAC
77565237 AAAAATCATCAAG
1 AAAAATCATCAAG
77565250 AAAAATCATCAA
1 AAAAATCATCAA
77565262 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:77566202 original size:22 final size:22
Alignment explanation
Indices: 77566156--77566202 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
77566146 TATTAGATAT
**
77566156 TAAATAGATATTTATTATTTCA
1 TAAATAGATATTTATTATTAAA
77566178 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
77566200 TAA
1 TAA
77566203 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:77566221 original size:30 final size:32
Alignment explanation
Indices: 77566181--77566239 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
77566171 TATTTCATAA
77566181 AAGATATTTAT-TAATTAAATA-ATTAAATTTT
1 AAGATATTTATATAA-TAAATATATTAAATTTT
*
77566212 AAGAT-TTTATATGATAAATATATTAAAT
1 AAGATATTTATATAATAAATATATTAAAT
77566240 AATGAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (32 bp):
AAGATATTTATATAATAAATATATTAAATTTT
Found at i:77566349 original size:2 final size:2
Alignment explanation
Indices: 77566344--77566368 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77566334 TGTGTGTGTG
77566344 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
77566369 GAAAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77568355 original size:23 final size:23
Alignment explanation
Indices: 77568309--77568360 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
77568299 CCCGATATAT
*
77568309 GGCTCTTCGCGAGCTTTCCAATA
1 GGCTCTTCGCGAGCTTCCCAATA
* * *
77568332 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTCGCGAGCTTCCCAATA
77568355 GTGCTC
1 G-GCTC
77568361 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.13, C:0.29, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGCGAGCTTCCCAATA
Found at i:77568871 original size:46 final size:46
Alignment explanation
Indices: 77568819--77569089 Score: 364
Period size: 46 Copynumber: 5.9 Consensus size: 46
77568809 CTCTGAAATC
* * * * *
77568819 AAATGTGTAAGACCATAGTTGAAAGATACCATGACAACCTGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* * * * *
77568865 AAATGTGTAAGACCATGGTTAAAAGATATCATGGCAACCTGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
*
77568911 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
77568957 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
*
77569003 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* * * *
77569048 AAAACGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
77569090 TCGAAGATAA
Statistics
Matches: 207, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 206 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
Found at i:77570023 original size:14 final size:14
Alignment explanation
Indices: 77570004--77570033 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77569994 TTATATCGAG
77570004 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
77570018 ACCAATCCAATTCA
1 ACCAATCCAAATCA
77570032 AC
1 AC
77570034 ATATTTTCTA
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:77583762 original size:47 final size:49
Alignment explanation
Indices: 77583690--77583820 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
77583680 GTATAATACC
* * *
77583690 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AATC-AAGTT
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCATCAAATCGAAGCT
* * * *
77583737 GATGCCATATACCAAACATGTTCTTACACTGACT-ATCGAAATCGAGGCT
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCATC-AAATCGAAGCT
* *
77583786 GACGCCATATCCCAAACATGGTCTTACACTAGCTC
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTC
77583821 TCACATATTT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 3 0.04
47 29 0.43
48 4 0.06
49 32 0.47
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (49 bp):
GATGCCATATCCCAAACATGGTCTTACACTGGCTCATCAAATCGAAGCT
Found at i:77583928 original size:45 final size:43
Alignment explanation
Indices: 77583841--77583952 Score: 149
Period size: 45 Copynumber: 2.6 Consensus size: 43
77583831 GTGTCGATAC
*
77583841 CATGTCCCAGACATGGTCTT-AC-ACTACATCTTGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTAACTACTACATCTCGTAGCCGATG
77583883 CATGTCCCAGACATGTCTTACACTACTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTA-ACTAC-TACATCTCGTA-GCCGATG
77583928 CATGTCCCAGACATGTCTTATACTA
1 CATGTCCCAGACATGTCTTA-ACTA
77583953 GCTCTCGTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
41 5 0.08
42 14 0.22
43 2 0.03
44 3 0.05
45 39 0.62
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (43 bp):
CATGTCCCAGACATGTCTTAACTACTACATCTCGTAGCCGATG
Found at i:77589466 original size:32 final size:32
Alignment explanation
Indices: 77589430--77589494 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
77589420 AGTACAAAAG
*
77589430 AATGGTTCACATATGCATTTCATTAAAACATT
1 AATGGTTCACATATGCATTTCATCAAAACATT
77589462 AATGGTTCACATATGCATTTCATCAAAACATT
1 AATGGTTCACATATGCATTTCATCAAAACATT
77589494 A
1 A
77589495 CATCTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (32 bp):
AATGGTTCACATATGCATTTCATCAAAACATT
Found at i:77594670 original size:43 final size:43
Alignment explanation
Indices: 77594604--77594776 Score: 142
Period size: 43 Copynumber: 4.0 Consensus size: 43
77594594 AGCTCGTACA
*
77594604 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAATATCG
* *
77594647 ATGCCACTGTCCCAGACAGGGTCTTAAACGGAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
* ** *
77594689 ATGTCGA-TGTCCCAGACATCGTCTTACACATAAATCTCAAAT-T-G
1 ATG-CCACTGTCCCAGACAGGGTCTTACACGT-AA--TCAAATATCG
* * * * *
77594733 ATGCCAATGTCCCAGGCATGGTCTTACACGAAATCACATATCG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
77594776 A
1 A
77594777 AAATCCTATG
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
41 5 0.05
42 27 0.26
43 42 0.40
44 25 0.24
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:77602186 original size:27 final size:26
Alignment explanation
Indices: 77602149--77602259 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
77602139 AGCATGGCTG
* *
77602149 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
77602175 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
77602203 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
77602230 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
77602257 CCA
1 CCA
77602260 AAACGCTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77602208 original size:54 final size:54
Alignment explanation
Indices: 77602149--77602259 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
77602139 AGCATGGCTG
*
77602149 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
77602203 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
77602257 CCA
1 CCA
77602260 AAACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:77603918 original size:26 final size:26
Alignment explanation
Indices: 77603882--77603991 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
77603872 CATGAAATTC
77603882 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
77603908 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77603934 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
77603960 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
77603986 TTATCA
1 TTATCA
77603992 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77605485 original size:42 final size:43
Alignment explanation
Indices: 77605385--77605555 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
77605375 AGCTCGTACA
* *
77605385 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATGAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* *
77605428 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAATATCG
77605470 ATGCCGA-TGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-T-G
1 ATGCC-ACTGTCCCAGACATGGTCTTACATG-AAA--TCAAATATCG
* * * * *
77605514 ATACCAAC-GTCCCAGGCTTGGTATTACATGAAATCACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAATCAAATATC
77605556 AGAAATCCTA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 5 0.05
42 31 0.29
43 40 0.37
44 25 0.23
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:77617817 original size:21 final size:21
Alignment explanation
Indices: 77617791--77617835 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
77617781 AATTGACTCG
77617791 ATTTATTCGATATGGAATTAA
1 ATTTATTCGATATGGAATTAA
77617812 ATTTATTCGATATGGAATTAA
1 ATTTATTCGATATGGAATTAA
77617833 ATT
1 ATT
77617836 AGGTGGTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (21 bp):
ATTTATTCGATATGGAATTAA
Found at i:77618473 original size:31 final size:30
Alignment explanation
Indices: 77618435--77618506 Score: 117
Period size: 31 Copynumber: 2.4 Consensus size: 30
77618425 TGTTTTAATA
*
77618435 AATTTAATATTTATCTAGATAGTATTTTATT
1 AATTTAATATTTATCTAGATAATATTTT-TT
*
77618466 AATTTAATATTTATTTAGATAATATTTTTT
1 AATTTAATATTTATCTAGATAATATTTTTT
77618496 AATTTAATATT
1 AATTTAATATT
77618507 AATGTGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 13 0.33
31 26 0.67
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (30 bp):
AATTTAATATTTATCTAGATAATATTTTTT
Found at i:77618478 original size:15 final size:15
Alignment explanation
Indices: 77618460--77618506 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
77618450 TAGATAGTAT
77618460 TTTATTAATTTAATA
1 TTTATTAATTTAATA
* **
77618475 TTTATTTAGATAATA
1 TTTATTAATTTAATA
*
77618490 TTTTTTAATTTAATA
1 TTTATTAATTTAATA
77618505 TT
1 TT
77618507 AATGTGATTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTATTAATTTAATA
Found at i:77618503 original size:35 final size:34
Alignment explanation
Indices: 77618416--77618509 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 34
77618406 ACTTTTCTAA
*
77618416 AGATAATATTGTTTTAATAAATTTAATATTTATCT
1 AGATAATATT-TTTTAATTAATTTAATATTTATCT
* *
77618451 AGATAGTA--TTTT-ATTAATTTAATATTTATTT
1 AGATAATATTTTTTAATTAATTTAATATTTATCT
77618482 AGATAATATTTTTTAATTTAATATTAAT
1 AGATAATATTTTTTAA-TTAAT-TTAAT
77618510 GTGATTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
31 24 0.48
32 4 0.08
33 4 0.08
34 1 0.02
35 12 0.24
36 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (34 bp):
AGATAATATTTTTTAATTAATTTAATATTTATCT
Found at i:77636173 original size:22 final size:22
Alignment explanation
Indices: 77636147--77636191 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
77636137 TATATTTAGT
77636147 ATACCTTAGTTTCAGTTAGTTA
1 ATACCTTAGTTTCAGTTAGTTA
77636169 ATACCTTAGTTTCAGTTAGTTA
1 ATACCTTAGTTTCAGTTAGTTA
77636191 A
1 A
77636192 GTTTCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (22 bp):
ATACCTTAGTTTCAGTTAGTTA
Found at i:77636429 original size:54 final size:54
Alignment explanation
Indices: 77636343--77636593 Score: 227
Period size: 54 Copynumber: 4.6 Consensus size: 54
77636333 TGGATTCACG
* ** * * * **
77636343 GATTTACGATCGCAACCTCCTA-TATACAAGATTTTCAAAATTTTATGGTTCATT
1 GATTTACGATCGCAACCTCTTACT-TATGAGATTTTCAAAATATCATGATTTGTT
** * *
77636397 GATTTACGATCGTGACCTCTTACTTATGAGATTTTCAGAATATCATGATTTGTC
1 GATTTACGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCATGATTTGTT
* * * * * *
77636451 GATTTACGATGGCAAACTCCTACTTATGAGATTTTTAGAATCTCACT-ATTTGTT
1 GATTTACGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCA-TGATTTGTT
* * * ** *
77636505 GATTTATGATCGCAACCTCTTACTTATGAGATTTTTAAAATCTCGCGATTTGTC
1 GATTTACGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCATGATTTGTT
* * *
77636559 GATTTACGATTGCAACCTCCTACTTATAAGATTTT
1 GATTTACGATCGCAACCTCTTACTTATGAGATTTT
77636594 TAGAATCTTA
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
54 160 0.99
55 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
GATTTACGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCATGATTTGTT
Found at i:77636532 original size:108 final size:108
Alignment explanation
Indices: 77636394--77636653 Score: 324
Period size: 108 Copynumber: 2.4 Consensus size: 108
77636384 TTTATGGTTC
* ** * *
77636394 ATTGATTTACGATCGTGACCTCTTACTTATGAGATTTTCAGAATATCATGATTTGTCGATTTACG
1 ATTGATTTAAGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCACGATTTGTCGATTTACG
*
77636459 ATGGCAAACTCCTACTTATGAGATTTTTAGAATCTCACTA-TTT
66 ATGGCAAACTCCTACTTATAAGATTTTTAGAATCTCAC-AGTTT
* * * * *
77636502 GTTGATTTATGATCGCAACCTCTTACTTATGAGATTTTTAAAATCTCGCGATTTGTCGATTTACG
1 ATTGATTTAAGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCACGATTTGTCGATTTACG
* * *
77636567 ATTGCAACCTCCTACTTATAAGATTTTTAGAATCTTACAGTTT
66 ATGGCAAACTCCTACTTATAAGATTTTTAGAATCTCACAGTTT
** * * **
77636610 ATCAATTTAAGATCGCAACCTCTCATTTACAAGATTTTCAAAAT
1 ATTGATTTAAGATCGCAACCTCTTACTTATGAGATTTTCAAAAT
77636654 CTTGTGGTTT
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
107 1 0.01
108 128 0.99
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (108 bp):
ATTGATTTAAGATCGCAACCTCTTACTTATGAGATTTTCAAAATATCACGATTTGTCGATTTACG
ATGGCAAACTCCTACTTATAAGATTTTTAGAATCTCACAGTTT
Found at i:77636594 original size:54 final size:54
Alignment explanation
Indices: 77636397--77636631 Score: 274
Period size: 54 Copynumber: 4.4 Consensus size: 54
77636387 ATGGTTCATT
** * * * *
77636397 GATTTACGATCGTGACCTCTTACTTATGAGATTTTCAGAATATCATGATTTGTC
1 GATTTACGATCGCAACCTCCTACTTATGAGATTTTTAGAATCTCACGATTTGTC
* * * *
77636451 GATTTACGATGGCAAACTCCTACTTATGAGATTTTTAGAATCTCACTATTTGTT
1 GATTTACGATCGCAACCTCCTACTTATGAGATTTTTAGAATCTCACGATTTGTC
* * * *
77636505 GATTTATGATCGCAACCTCTTACTTATGAGATTTTTAAAATCTCGCGATTTGTC
1 GATTTACGATCGCAACCTCCTACTTATGAGATTTTTAGAATCTCACGATTTGTC
* * * *
77636559 GATTTACGATTGCAACCTCCTACTTATAAGATTTTTAGAATCTTAC-AGTTTATC
1 GATTTACGATCGCAACCTCCTACTTATGAGATTTTTAGAATCTCACGA-TTTGTC
* *
77636613 AATTTAAGATCGCAACCTC
1 GATTTACGATCGCAACCTC
77636632 TCATTTACAA
Statistics
Matches: 151, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
53 1 0.01
54 150 0.99
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
GATTTACGATCGCAACCTCCTACTTATGAGATTTTTAGAATCTCACGATTTGTC
Found at i:77636644 original size:54 final size:54
Alignment explanation
Indices: 77636445--77636655 Score: 187
Period size: 54 Copynumber: 3.9 Consensus size: 54
77636435 AATATCATGA
* * * * *
77636445 TTTGTCGATTTACGATGGCAAACTC-CTACTTATGAGATTTTTAGAATCTCACTA-
1 TTTGTCGATTTAAGATCGCAACCTCTC-ACTTATAAGATTTTTAAAATCTCAC-AG
* * * * *
77636499 TTTGTTGATTTATGATCGCAACCTCTTACTTATGAGATTTTTAAAATCTCGC-G
1 TTTGTCGATTTAAGATCGCAACCTCTCACTTATAAGATTTTTAAAATCTCACAG
* * * *
77636552 ATTTGTCGATTTACGATTGCAACCTC-CTACTTATAAGATTTTTAGAATCTTACAG
1 -TTTGTCGATTTAAGATCGCAACCTCTC-ACTTATAAGATTTTTAAAATCTCACAG
* * * * *
77636607 TTTATCAATTTAAGATCGCAACCTCTCATTTACAAGATTTTCAAAATCT
1 TTTGTCGATTTAAGATCGCAACCTCTCACTTATAAGATTTTTAAAATCT
77636656 TGTGGTTTAT
Statistics
Matches: 128, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
54 126 0.98
55 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (54 bp):
TTTGTCGATTTAAGATCGCAACCTCTCACTTATAAGATTTTTAAAATCTCACAG
Found at i:77636669 original size:108 final size:108
Alignment explanation
Indices: 77636343--77636709 Score: 285
Period size: 108 Copynumber: 3.4 Consensus size: 108
77636333 TGGATTCACG
* * * * * * ** *
77636343 GATTTACGATCGCAACCTCCTA-TATACAAGATTTTCAAAATTTTA-TGGTTCATTGATTTACGA
1 GATTTACGATCGCAACCTCCTACT-TATAAGATTTTTAGAATCTTACT-ATTTATCAATTTAAGA
** * ** * * ** *
77636406 TCGTGACCTCTTACTTATGAGATTTTCAGAATATCATGATTTGTC
64 TCGCAACCTCTCACTTACAAGATTTTCAAAATCTCGCGATTTATC
* * * * * ** *
77636451 GATTTACGATGGCAAACTCCTACTTATGAGATTTTTAGAATCTCACTATTTGTTGATTTATGATC
1 GATTTACGATCGCAACCTCCTACTTATAAGATTTTTAGAATCTTACTATTTATCAATTTAAGATC
* ** * *
77636516 GCAACCTCTTACTTATGAGATTTTTAAAATCTCGCGATTTGTC
66 GCAACCTCTCACTTACAAGATTTTCAAAATCTCGCGATTTATC
*
77636559 GATTTACGATTGCAACCTCCTACTTATAAGATTTTTAGAATCTTAC-AGTTTATCAATTTAAGAT
1 GATTTACGATCGCAACCTCCTACTTATAAGATTTTTAGAATCTTACTA-TTTATCAATTTAAGAT
* * * *
77636623 CGCAACCTCTCATTTACAAGATTTTCAAAATCTTGTGGTTTATC
65 CGCAACCTCTCACTTACAAGATTTTCAAAATCTCGCGATTTATC
* * * * *
77636667 GATATGCAATCGCAACCTACC-GCTTACAAGA-TTTTAGAATCTT
1 GATTTACGATCGCAACCT-CCTACTTATAAGATTTTTAGAATCTT
77636710 GTTGATGCCA
Statistics
Matches: 213, Mismatches: 42, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
107 13 0.06
108 196 0.92
109 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (108 bp):
GATTTACGATCGCAACCTCCTACTTATAAGATTTTTAGAATCTTACTATTTATCAATTTAAGATC
GCAACCTCTCACTTACAAGATTTTCAAAATCTCGCGATTTATC
Found at i:77637076 original size:24 final size:23
Alignment explanation
Indices: 77637048--77637271 Score: 133
Period size: 24 Copynumber: 9.4 Consensus size: 23
77637038 GCACAGGTGG
77637048 CATAATTTTCTGCTGTATAGCTCA
1 CATAATTTTCTGCTGTATAGCT-A
* * **
77637072 TATAATTTTCTACTACATAGCTAA
1 CATAATTTTCTGCTGTATAGCT-A
* *
77637096 CATAATTTTCTGTTGTATAGCTTG
1 CATAATTTTCTGCTGTATAGC-TA
* *
77637120 CATAATTTTCTGCTGCACAGCTA
1 CATAATTTTCTGCTGTATAGCTA
* * *
77637143 GCATAATTTTCTGTTGTATAGTTT
1 -CATAATTTTCTGCTGTATAGCTA
* * * *
77637167 CATATTTTTTTGTTGTAGAGCTA
1 CATAATTTTCTGCTGTATAGCTA
* * ** *
77637190 GCATAATCTTCTACTCCACAGCTA
1 -CATAATTTTCTGCTGTATAGCTA
* * * *
77637214 GCATTATTTTCTGCTATACAGTTTA
1 -CATAATTTTCTGCTGTATAG-CTA
* * *
77637239 CATAATTTTCTACTGCACAGCTA
1 CATAATTTTCTGCTGTATAGCTA
77637262 GCATAATTTT
1 -CATAATTTT
77637272 TTGTTGTAGA
Statistics
Matches: 151, Mismatches: 44, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
23 21 0.14
24 127 0.84
25 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (23 bp):
CATAATTTTCTGCTGTATAGCTA
Found at i:77637076 original size:48 final size:48
Alignment explanation
Indices: 77636998--77637163 Score: 188
Period size: 48 Copynumber: 3.4 Consensus size: 48
77636988 TCACCAGTTC
* * * * * *
77636998 GCATAATTTTTTTACTGTATAGTTCGTATAAATTTCTACTGCACAGGTG
1 GCATAA-TTTTCTGCTGTATAGCTCGTATAATTTTCTACTGCACAGCTA
* * *
77637047 GCATAATTTTCTGCTGTATAGCTCATATAATTTTCTACTACATAGCTA
1 GCATAATTTTCTGCTGTATAGCTCGTATAATTTTCTACTGCACAGCTA
* * * * *
77637095 ACATAATTTTCTGTTGTATAGCTTGCATAATTTTCTGCTGCACAGCTA
1 GCATAATTTTCTGCTGTATAGCTCGTATAATTTTCTACTGCACAGCTA
*
77637143 GCATAATTTTCTGTTGTATAG
1 GCATAATTTTCTGCTGTATAG
77637164 TTTCATATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 93 0.94
49 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (48 bp):
GCATAATTTTCTGCTGTATAGCTCGTATAATTTTCTACTGCACAGCTA
Found at i:77637224 original size:119 final size:120
Alignment explanation
Indices: 77637047--77637296 Score: 315
Period size: 119 Copynumber: 2.1 Consensus size: 120
77637037 TGCACAGGTG
* * * * * * * *
77637047 GCATAATTTTCTGCTGTATAGCTCA-TATAATTTTCTACTACATAGCTAACATAATTTTCTGTTG
1 GCATAATTTTTTGTTGTAGAGCT-AGCATAATCTTCTACTACACAGCTAACATAATTTTCTGCTA
* * * *
77637111 TATAGCTTGCATAATTTTCTGCTGCACAGCTAGCATAATTTTCTGTTGTATAGTTT
65 TACAGCTTACATAATTTTCTACTGCACAGCTAGCATAATTTTCTGTTGTAGAGTTT
* * * *
77637167 -CATATTTTTTTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATTATTTTCTGCTAT
1 GCATAATTTTTTGTTGTAGAGCTAGCATAATCTTCTACTACACAGCTAACATAATTTTCTGCTAT
* *
77637231 ACAGTTTACATAATTTTCTACTGCACAGCTAGCATAATTTTTTGTTGTAGAGTTT
66 ACAGCTTACATAATTTTCTACTGCACAGCTAGCATAATTTTCTGTTGTAGAGTTT
77637286 GCATAATTTTT
1 GCATAATTTTT
77637297 CGCTACACAA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
118 1 0.01
119 99 0.91
120 9 0.08
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (120 bp):
GCATAATTTTTTGTTGTAGAGCTAGCATAATCTTCTACTACACAGCTAACATAATTTTCTGCTAT
ACAGCTTACATAATTTTCTACTGCACAGCTAGCATAATTTTCTGTTGTAGAGTTT
Found at i:77637237 original size:71 final size:72
Alignment explanation
Indices: 77637095--77637268 Score: 206
Period size: 71 Copynumber: 2.4 Consensus size: 72
77637085 TACATAGCTA
* * * * * * *
77637095 ACATAATTTTCTGTTGTATAGCTTGCATAATTTTCTGCTGCACAGCTAGCATAATTTTCTGTTGT
1 ACATAATTTTCTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATAATTTTCTGCTAT
*
77637160 ATAGTTT
66 ACAGTTT
* * *
77637167 -CATATTTTTTTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATTATTTTCTGCTAT
1 ACATAATTTTCTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATAATTTTCTGCTAT
77637231 ACAGTTT
66 ACAGTTT
** * *
77637238 ACATAATTTTCTACTGCACAGCTAGCATAAT
1 ACATAATTTTCTGTTGTAGAGCTAGCATAAT
77637269 TTTTTGTTGT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
71 60 0.71
72 24 0.29
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (72 bp):
ACATAATTTTCTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAGCATAATTTTCTGCTAT
ACAGTTT
Found at i:77637320 original size:48 final size:48
Alignment explanation
Indices: 77637167--77637321 Score: 168
Period size: 48 Copynumber: 3.2 Consensus size: 48
77637157 TGTATAGTTT
* * * * *
77637167 CATATTTTTTTGTTGTAGAGCTAGCATAATCTTCTACTCCACAGCTAG
1 CATAATTTTTTGTTGTAGAGTTTGCATAATTTTCTACTACACAGCTAG
* * * * * * *
77637215 CATTATTTTCTGCTATACAGTTTACATAATTTTCTACTGCACAGCTAG
1 CATAATTTTTTGTTGTAGAGTTTGCATAATTTTCTACTACACAGCTAG
* *
77637263 CATAATTTTTTGTTGTAGAGTTTGCATAATTTT-TCGCTACACAACTAG
1 CATAATTTTTTGTTGTAGAGTTTGCATAATTTTCT-ACTACACAGCTAG
77637311 CATAATTTTTT
1 CATAATTTTTT
77637322 ACTACATAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
47 1 0.01
48 85 0.99
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (48 bp):
CATAATTTTTTGTTGTAGAGTTTGCATAATTTTCTACTACACAGCTAG
Found at i:77638040 original size:12 final size:12
Alignment explanation
Indices: 77638023--77638056 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
77638013 TTCCCTGTAA
77638023 AATAGTAAA-ATT
1 AATAGTAAAGA-T
77638035 AATAGTAAAGAT
1 AATAGTAAAGAT
77638047 AATAGTAAAG
1 AATAGTAAAG
77638057 GAGAAGTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:77638951 original size:10 final size:10
Alignment explanation
Indices: 77638936--77638967 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
77638926 TAAATACATT
77638936 TAATTAAAGA
1 TAATTAAAGA
77638946 TAATTAAAGA
1 TAATTAAAGA
77638956 TAATTAAA-A
1 TAATTAAAGA
77638965 TAA
1 TAA
77638968 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:77638979 original size:19 final size:18
Alignment explanation
Indices: 77638955--77638998 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
77638945 ATAATTAAAG
77638955 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
77638975 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
77638992 ATAATTA
1 ATAATTA
77638999 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:77639013 original size:15 final size:15
Alignment explanation
Indices: 77638993--77639022 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77638983 ATAATCCTAA
77638993 TAATTATCCTAATAT
1 TAATTATCCTAATAT
77639008 TAATTATCCTAATAT
1 TAATTATCCTAATAT
77639023 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:77640555 original size:39 final size:38
Alignment explanation
Indices: 77640466--77640561 Score: 120
Period size: 39 Copynumber: 2.5 Consensus size: 38
77640456 ATCCTTGTTG
* * *
77640466 TAATTATTGTAATTATAATTTATGATCGAATATTATTA
1 TAATTATTGTAATTATAATTTATCATCAAACATTATTA
* * *
77640504 TAACTATTGTAATTGTAATTTTTCAGTCAAACATTATTA
1 TAATTATTGTAATTATAATTTATCA-TCAAACATTATTA
*
77640543 TAATTATGGTAATTATAAT
1 TAATTATTGTAATTATAAT
77640562 CGATTAATTG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (38 bp):
TAATTATTGTAATTATAATTTATCATCAAACATTATTA
Found at i:77641851 original size:38 final size:39
Alignment explanation
Indices: 77641801--77641882 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
77641791 CAATTTGATC
* * *
77641801 TAATTTGATTCTTGTACATAATGTCATTATTTAGCCATA
1 TAATTTGATTCTTCTACAGAATATCATTATTTAGCCATA
* *
77641840 TAATTT-ATTCTTCTACAGAATATCATTATTTATCCTTA
1 TAATTTGATTCTTCTACAGAATATCATTATTTAGCCATA
77641878 TAATT
1 TAATT
77641883 GACACTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (39 bp):
TAATTTGATTCTTCTACAGAATATCATTATTTAGCCATA
Found at i:77643971 original size:41 final size:38
Alignment explanation
Indices: 77643880--77644086 Score: 216
Period size: 41 Copynumber: 5.1 Consensus size: 38
77643870 GCAAAAATTT
*
77643880 TAAAATACAGAGCAATAGCGGCGTTTTTTAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTGTAAAACGCCGC
* * *
77643919 TAAAAATAGAGCAACAGCGGCGTTTTAGTAAAAAATGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTT-GT--AAAACGCCGC
*
77643960 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-TTTT-GTAAAACGCCGC
* * * *
77644000 TAAAAACCAGAGCATTAACGACGCTTTTGATAAAACACCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTG-TAAAACGCCGC
*
77644041 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTT-GTAAAACGCCGC
77644082 TAAAA
1 TAAAA
77644087 GTCATATAAC
Statistics
Matches: 146, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 19 0.13
39 6 0.04
40 16 0.11
41 98 0.67
42 7 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (38 bp):
TAAAAACAGAGCAATAGCGGCGTTTTGTAAAACGCCGC
Found at i:77644004 original size:81 final size:81
Alignment explanation
Indices: 77643880--77644086 Score: 262
Period size: 82 Copynumber: 2.6 Consensus size: 81
77643870 GCAAAAATTT
* * * * *
77643880 TAAAATACAGAGCAATAGCGGCG-TTTT-TTAAAACGCCGCTAAAAA-TAGAGCAACAGCGGCG-
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAACAACGACGC
77643941 TTTT-AGTAAAAAATGCCGC
65 TTTTGA-TAAAAAA--CCGC
**
77643960 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAACGACGCT
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAACAACGACGCT
*
77644025 TTTGATAAAACACCGC
66 TTTGATAAAAAACCGC
77644041 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
77644087 GTCATATAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
79 16 0.14
80 9 0.08
81 27 0.24
82 50 0.44
83 10 0.09
84 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (81 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAACAACGACGCT
TTTGATAAAAAACCGC
Found at i:77644266 original size:14 final size:14
Alignment explanation
Indices: 77644244--77644288 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
77644234 TTAATTATCA
*
77644244 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
77644258 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
77644272 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
77644286 TTA
1 TTA
77644289 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:77644279 original size:21 final size:21
Alignment explanation
Indices: 77644255--77644339 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
77644245 TATAGTTTAA
*
77644255 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
77644276 GGTTTAGGGTTTAAGCAGGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
*
77644300 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
*
77644325 AGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
77644340 GTTTAAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:77644317 original size:49 final size:46
Alignment explanation
Indices: 77644259--77644354 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 46
77644249 GTTTAAGGTT
* *
77644259 TATGGTTTAAGATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTT-A--AGGTTTAAGAGTTAAC
77644308 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
77644354 T
1 T
77644355 TGTATTTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 16 0.36
48 1 0.02
49 28 0.62
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:77644404 original size:14 final size:15
Alignment explanation
Indices: 77644377--77644405 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77644367 TTTGTGATGA
77644377 ATTATGATTTTAGGG
1 ATTATGATTTTAGGG
77644392 ATTATGA-TTTAGGG
1 ATTATGATTTTAGGG
77644406 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (15 bp):
ATTATGATTTTAGGG
Found at i:77645275 original size:16 final size:16
Alignment explanation
Indices: 77645254--77645297 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
77645244 TTCTTTTTTT
77645254 TATAAATTTAAAAAAA
1 TATAAATTTAAAAAAA
* *
77645270 TATAAATTTAAAATAT
1 TATAAATTTAAAAAAA
*
77645286 TATAAATATAAA
1 TATAAATTTAAA
77645298 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATTTAAAAAAA
Found at i:77649566 original size:22 final size:23
Alignment explanation
Indices: 77649524--77649566 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
77649514 TTTCAAAAAT
*
77649524 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
77649547 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
77649567 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:77649696 original size:43 final size:43
Alignment explanation
Indices: 77649586--77649702 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
77649576 AATAATTTTT
* * * * * *
77649586 TTAAAGTTCATGATTTTTAGCGGCATTTGTAGGAAAAGTGCCG
1 TTAAAGGTCATGATCTTTAGCGGCGTTTTTTGGAAAAGCGCCG
* *
77649629 CTAAAGGTCATGACCTTTAGCGGCGTTTTTTGGAAAAGCGCCG
1 TTAAAGGTCATGATCTTTAGCGGCGTTTTTTGGAAAAGCGCCG
77649672 TTAAAGGTCATGATCTTTAGCGGCGTTTTTT
1 TTAAAGGTCATGATCTTTAGCGGCGTTTTTT
77649703 TCTAAAAAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TTAAAGGTCATGATCTTTAGCGGCGTTTTTTGGAAAAGCGCCG
Found at i:77655323 original size:25 final size:27
Alignment explanation
Indices: 77655280--77655333 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
77655270 TAATAAATTA
77655280 TTAATATAATTAATATAAT-TTATTAAT
1 TTAATATAATTAATATAATATT-TTAAT
*
77655307 TTAATA-AATT-ATTTAATATTTTAAT
1 TTAATATAATTAATATAATATTTTAAT
77655332 TT
1 TT
77655334 TATTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 13 0.52
26 6 0.24
27 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAATATAATTAATATAATATTTTAAT
Found at i:77655331 original size:38 final size:40
Alignment explanation
Indices: 77655240--77655331 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 40
77655230 TAAACATATA
*
77655240 TATTTAAT-TATTT-ATATATATTTAGTCATATAATAAAT
1 TATTTAATATATTTAATATATATTTAGTAATATAATAAAT
* * *
77655278 TA-TTAATATAATTAATATA-ATTTATTAATTTAATAAAT
1 TATTTAATATATTTAATATATATTTAGTAATATAATAAAT
77655316 TATTTAATAT-TTTAAT
1 TATTTAATATATTTAAT
77655332 TTTATTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
37 5 0.11
38 29 0.63
39 12 0.26
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (40 bp):
TATTTAATATATTTAATATATATTTAGTAATATAATAAAT
Found at i:77655368 original size:16 final size:17
Alignment explanation
Indices: 77655340--77655376 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
77655330 ATTTTATTTT
77655340 AATAATAAATTTTAAAA
1 AATAATAAATTTTAAAA
*
77655357 AATAAT-AATTTTAAAT
1 AATAATAAATTTTAAAA
77655373 AATA
1 AATA
77655377 TTCTTCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATAAATTTTAAAA
Found at i:77672214 original size:10 final size:9
Alignment explanation
Indices: 77672200--77672364 Score: 68
Period size: 9 Copynumber: 17.2 Consensus size: 9
77672190 AATAAAAGTA
77672200 ATAAAAATT
1 ATAAAAATT
**
77672209 ATTAAATTTT
1 A-TAAAAATT
77672219 AATAAAAA-T
1 -ATAAAAATT
77672228 ATAAAAATAT
1 ATAAAAAT-T
77672238 ATTTAAAAATT
1 A--TAAAAATT
*
77672249 ATAAAAATC
1 ATAAAAATT
77672258 ATAAAACA-T
1 ATAAAA-ATT
*
77672267 ATAGAAATATA
1 ATA-AAA-ATT
*
77672278 AAAAAAATT
1 ATAAAAATT
*
77672287 A-GAAAATT
1 ATAAAAATT
* *
77672295 GTATAAATT
1 ATAAAAATT
77672304 CATAAGAAAATT
1 -AT-A-AAAATT
*
77672316 ATAAAAAAT
1 ATAAAAATT
* *
77672325 GTAAAGAAAT
1 ATAAA-AATT
77672335 AT-AAAATT
1 ATAAAAATT
*
77672343 CATAAAAAAAT
1 -AT-AAAAATT
77672354 ATAAAAATT
1 ATAAAAATT
77672363 AT
1 AT
77672365 CGTATAAAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 34
0.68 0.13 0.20
Matches are distributed among these distances:
8 16 0.14
9 47 0.40
10 29 0.25
11 13 0.11
12 12 0.10
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:77672430 original size:17 final size:17
Alignment explanation
Indices: 77672398--77672430 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77672388 ATTTTTCTAC
*
77672398 AATTTTTATTAATTTTT
1 AATTTTTATCAATTTTT
77672415 AATTTTTATC-ATTTTT
1 AATTTTTATCAATTTTT
77672431 CGTCACATGT
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTTATCAATTTTT
Found at i:77672615 original size:29 final size:29
Alignment explanation
Indices: 77672534--77672617 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
77672524 TTTTTGATGT
* *
77672534 ATTTTATAATTTTT-TAAATTTTTAATAAA
1 ATTTAATAATTTTTAT-AATTTTTATTAAA
*
77672563 ATTTAAATATTTTTTAT-ATTTTTATTAAA
1 ATTT-AATAATTTTTATAATTTTTATTAAA
*
77672592 ATTTAATAATTTTTATAACTTTTATT
1 ATTTAATAATTTTTATAATTTTTATT
77672618 GATTTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 11 0.23
29 27 0.57
30 8 0.17
31 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTAATAATTTTTATAATTTTTATTAAA
Found at i:77672639 original size:9 final size:9
Alignment explanation
Indices: 77672535--77672640 Score: 58
Period size: 9 Copynumber: 11.4 Consensus size: 9
77672525 TTTTGATGTA
77672535 TTTTATAAT
1 TTTTATAAT
77672544 TTTT-TAAAT
1 TTTTAT-AAT
*
77672553 TTTTAATAAA
1 TTTT-ATAAT
*
77672563 ATTTA-AAT
1 TTTTATAAT
*
77672571 ATTTTTTATAT
1 -TTTTATA-AT
*
77672582 TTTTATTAAAA
1 TTTTA-T-AAT
*
77672593 TTTAATAAT
1 TTTTATAAT
*
77672602 TTTTATAAC
1 TTTTATAAT
*
77672611 TTTTATTGAT
1 TTTTA-TAAT
77672621 TTTTAT--T
1 TTTTATAAT
77672628 TTTTATAAT
1 TTTTATAAT
77672637 TTTT
1 TTTT
77672641 GCCACGTGTC
Statistics
Matches: 73, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
7 7 0.10
8 3 0.04
9 35 0.48
10 18 0.25
11 9 0.12
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:77685100 original size:47 final size:47
Alignment explanation
Indices: 77685047--77685140 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
77685037 AAAGTCAAGT
* *
77685047 TAGCCAACTC-CTCTTCCATTGTGCATAAGAAGAAATAACAGGCCGTG
1 TAGCCAACTCTC-CCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG
77685094 TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG
1 TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG
77685141 CCAAACAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (47 bp):
TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG
Found at i:77685227 original size:24 final size:26
Alignment explanation
Indices: 77685192--77685244 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
77685182 TCAAAAAACC
* *
77685192 AAAACCCCGTGTCACACGATAGAC-G
1 AAAACCCCGTGTCAAACGACAGACTG
77685217 AAAA-CCCGTGTCAAACGACAGACTG
1 AAAACCCCGTGTCAAACGACAGACTG
77685242 AAA
1 AAA
77685245 GGATTGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.42, C:0.28, G:0.19, T:0.11
Consensus pattern (26 bp):
AAAACCCCGTGTCAAACGACAGACTG
Found at i:77690401 original size:14 final size:14
Alignment explanation
Indices: 77690378--77690409 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
77690368 TCCAATCACC
*
77690378 GGGCCGGTTTGGTT
1 GGGCCAGTTTGGTT
77690392 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
77690406 GGGC
1 GGGC
77690410 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.50, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:77695468 original size:14 final size:14
Alignment explanation
Indices: 77695445--77695476 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
77695435 TCCAATCACC
*
77695445 GGGCCGGTTTGGTT
1 GGGCCAGTTTGGTT
77695459 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
77695473 GGGC
1 GGGC
77695477 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.50, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:77702167 original size:40 final size:39
Alignment explanation
Indices: 77702107--77702247 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 39
77702097 AATACACCAG
* *
77702107 TTTGGCACCCAGTGCCTCATCGAATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGAATAATCCGAAGTAA-AA
* * *
77702147 TTTGACACCCAGTGTCTCATC-AGCTAAACCGAAGT-AAA
1 TTTGACACCCAGTGCCTCATCGA-ATAATCCGAAGTAAAA
* *
77702185 -TTGGCACCCAGTGCCTCATTGAATTAATCCGAAGTAGCAAA
1 TTTGACACCCAGTGCCTCATCGAA-TAATCCGAAGTA--AAA
* * *
77702226 -TTGACATCTAGTGTCTCATCGA
1 TTTGACACCCAGTGCCTCATCGA
77702248 CTCGAAGTCG
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
37 17 0.21
38 13 0.16
39 2 0.03
40 28 0.35
41 20 0.25
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGAATAATCCGAAGTAAAA
Found at i:77704322 original size:19 final size:22
Alignment explanation
Indices: 77704298--77704339 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
77704288 AATACATGGT
77704298 ATTCATC-AT-AAAA-TTCAAA
1 ATTCATCAATGAAAACTTCAAA
77704317 ATTCATCAATGAAAACTTCAAA
1 ATTCATCAATGAAAACTTCAAA
77704339 A
1 A
77704340 AATTTTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 4 0.20
22 7 0.35
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (22 bp):
ATTCATCAATGAAAACTTCAAA
Found at i:77708678 original size:25 final size:25
Alignment explanation
Indices: 77708650--77708699 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
77708640 TTTTGTATAT
*
77708650 GTTTAGATACTTATTACAAATATTA
1 GTTTAAATACTTATTACAAATATTA
77708675 GTTTAAATACTTATTACAAATATTA
1 GTTTAAATACTTATTACAAATATTA
77708700 TATTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (25 bp):
GTTTAAATACTTATTACAAATATTA
Found at i:77711304 original size:39 final size:39
Alignment explanation
Indices: 77711234--77711412 Score: 245
Period size: 39 Copynumber: 4.5 Consensus size: 39
77711224 ACAAAGCATG
* * * *
77711234 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
77711274 CGGGACTTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
77711314 CAGGG-CTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 C-GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
77711353 CAAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
77711392 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
77711413 TTCTCCATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 105 0.83
40 17 0.13
41 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:77715665 original size:17 final size:17
Alignment explanation
Indices: 77715643--77715678 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
77715633 AATATTATTT
*
77715643 ATTAAATTAAATTTTCA
1 ATTAAATAAAATTTTCA
77715660 ATTAAATAAAATTTTCA
1 ATTAAATAAAATTTTCA
77715677 AT
1 AT
77715679 CTAATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAATAAAATTTTCA
Found at i:77716020 original size:21 final size:22
Alignment explanation
Indices: 77715987--77716029 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
77715977 TATATATATA
77715987 TATAATTAGAGTTAAAATATTT
1 TATAATTAGAGTTAAAATATTT
* *
77716009 TATAATTA-AGTTTAATTATTT
1 TATAATTAGAGTTAAAATATTT
77716030 ATCTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
TATAATTAGAGTTAAAATATTT
Found at i:77726623 original size:19 final size:21
Alignment explanation
Indices: 77726582--77726629 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
77726572 TTAAAATTTT
77726582 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
77726603 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
77726622 AACTAAAA
1 AACTAAAA
77726630 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:77727403 original size:44 final size:44
Alignment explanation
Indices: 77727340--77727428 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
77727330 CTATAGCATC
77727340 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
77727384 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
77727428 A
1 A
77727429 AAGCGATAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (44 bp):
ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
Found at i:77731655 original size:6 final size:6
Alignment explanation
Indices: 77731635--77731677 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
77731625 TTTCAAAACC
** * *
77731635 AAAGGG AAACTG AAAGGG AAAGGG AAAGGG GAAGGG GAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG A
77731678 TCGTATGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.49, T:0.02
Consensus pattern (6 bp):
AAAGGG
Found at i:77731895 original size:16 final size:14
Alignment explanation
Indices: 77731875--77731916 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
77731865 TACGGCGCTA
77731875 ATTTTTATTTTATAT
1 ATTTTTATTTT-TAT
77731890 ATTTTTATTTTTAT
1 ATTTTTATTTTTAT
*
77731904 A-TTTCATTTTTAT
1 ATTTTTATTTTTAT
77731917 TTATTATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 11 0.42
14 4 0.15
15 11 0.42
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTATTTTTAT
Found at i:77731933 original size:20 final size:20
Alignment explanation
Indices: 77731909--77731957 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
77731899 TTTATATTTC
77731909 ATTTTTATTTA-TTATCAAT
1 ATTTTTATTTATTTATCAAT
* *
77731928 GTTTTTATTTATTTATTAAT
1 ATTTTTATTTATTTATCAAT
77731948 ATTTTT-TTTA
1 ATTTTTATTTA
77731958 AATCTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTATTTATCAAT
Found at i:77731957 original size:19 final size:19
Alignment explanation
Indices: 77731891--77731957 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
77731881 ATTTTATATA
77731891 TTTTTATTT-TT-ATATTT
1 TTTTTATTTATTAATATTT
*
77731908 CATTTTTATTTATTATCAATGTTT
1 --TTTTTATTTA-T-T-AATATTT
77731932 TTATTTATTTATTAATATTT
1 TT-TTTATTTATTAATATTT
77731952 TTTTTA
1 TTTTTA
77731958 AATCTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
19 13 0.32
20 8 0.20
21 2 0.05
22 4 0.10
23 8 0.20
24 5 0.12
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTTTATTTATTAATATTT
Found at i:77732393 original size:15 final size:15
Alignment explanation
Indices: 77732370--77732405 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
77732360 CTATCCATGG
*
77732370 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
77732385 CCATAAAACCTTAAA
1 CCATAAAACCTTAAA
*
77732400 TCATAA
1 CCATAA
77732406 TTATATGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:77732511 original size:40 final size:41
Alignment explanation
Indices: 77732415--77732525 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
77732405 ATTATATGAC
* **
77732415 TTTTAGCGGCACTTTGCCAAAAACGTTGCTATTGCTCTGGT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGGT
*
77732456 TTTTAGCGGCGCTTTGACAAAAACGCCGCTATTGCTCTGG-
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGGT
77732496 TTTTAGCGGCGCTTTGCCAAAAACGCCGCT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCT
77732526 CATGTATGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 29 0.45
41 36 0.55
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGGT
Found at i:77734474 original size:117 final size:116
Alignment explanation
Indices: 77734281--77734631 Score: 380
Period size: 116 Copynumber: 3.0 Consensus size: 116
77734271 CAGTTGTGAG
* * * ** * * * * * *
77734281 TCTGCGAGCTGTTTTAAACTTAAGTAAATTTTCCAAAATAATCAGCTAGGAATATAAATCTACGA
1 TCTGAGAGCTATTATAAACTTAAACAAATTTTCAAAAATCATCAACTGGGAATATAAATCCACAA
*
77734346 GCTGTTTTGAACTTAAGCATATTTTTTAAAATAATTAGTTGGGAATATAAA
66 GCTGTTTTGAACTTAAGCATATTTTCTAAAATAATTAGTTGGGAATATAAA
* * * * * **
77734397 TCTGCA-AGCTGTTATGAACTTCAACAAATTTTCAAGAAATTATTAGTTGGGAATATAAATCCAC
1 TCTG-AGAGCTATTATAAACTTAAACAAATTTTCAA-AAATCATCAACTGGGAATATAAATCCAC
* ** **
77734461 AAGCTGTTTTGAACTTAAGCATATTTTCTAAAATAATCAACTAAGAATATAAA
64 AAGCTGTTTTGAACTTAAGCATATTTTCTAAAATAATTAGTTGGGAATATAAA
* * *
77734514 TCTGAGAGCTATTCTAAACTTAAACGAATTTTCCAAAATCATCAACTGGGAATATAAATCCACAA
1 TCTGAGAGCTATTATAAACTTAAACAAATTTTCAAAAATCATCAACTGGGAATATAAATCCACAA
* * * * * *
77734579 GTTGTTCTAAAATTAAACATATTCTCTAAAATAATTAGTTGGGAATATAAA
66 GCTGTTTTGAACTTAAGCATATTTTCTAAAATAATTAGTTGGGAATATAAA
77734630 TC
1 TC
77734632 CGTGAGCCGT
Statistics
Matches: 192, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
116 96 0.50
117 96 0.50
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (116 bp):
TCTGAGAGCTATTATAAACTTAAACAAATTTTCAAAAATCATCAACTGGGAATATAAATCCACAA
GCTGTTTTGAACTTAAGCATATTTTCTAAAATAATTAGTTGGGAATATAAA
Found at i:77734632 original size:58 final size:58
Alignment explanation
Indices: 77734308--77734632 Score: 285
Period size: 58 Copynumber: 5.6 Consensus size: 58
77734298 ACTTAAGTAA
* * * * * *
77734308 ATTTTCCAAAATAATCAGCTAGGAATATAAATCTACGAGCTGTTTTGAACTTAAGCAT
1 ATTTTCTAAAATAATCAGCTGGGAATATAAATCCACAAGCTGTTCTGAACTTAAACAT
* * * ** * * *
77734366 ATTTTTTAAAATAATTAGTTGGGAATATAAATCTGCAAGCTGTTATGAACTTCAACAA
1 ATTTTCTAAAATAATCAGCTGGGAATATAAATCCACAAGCTGTTCTGAACTTAAACAT
* * * * * *
77734424 ATTTTCAAGAAATTATTAGTTGGGAATATAAATCCACAAGCTGTTTTGAACTTAAGCAT
1 ATTTTCTA-AAATAATCAGCTGGGAATATAAATCCACAAGCTGTTCTGAACTTAAACAT
* ** * * * *
77734483 ATTTTCTAAAATAATCAACTAAGAATATAAATCTGA-GAGCTATTCTAAACTTAAACGA-
1 ATTTTCTAAAATAATCAGCTGGGAATATAAATC-CACAAGCTGTTCTGAACTTAAAC-AT
* * * * * *
77734541 ATTTTCCAAAATCATCAACTGGGAATATAAATCCACAAGTTGTTCTAAAATTAAACAT
1 ATTTTCTAAAATAATCAGCTGGGAATATAAATCCACAAGCTGTTCTGAACTTAAACAT
* * *
77734599 ATTCTCTAAAATAATTAGTTGGGAATATAAATCC
1 ATTTTCTAAAATAATCAGCTGGGAATATAAATCC
77734633 GTGAGCCGTT
Statistics
Matches: 214, Mismatches: 48, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
57 2 0.01
58 160 0.75
59 52 0.24
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (58 bp):
ATTTTCTAAAATAATCAGCTGGGAATATAAATCCACAAGCTGTTCTGAACTTAAACAT
Found at i:77734717 original size:70 final size:70
Alignment explanation
Indices: 77734640--77735423 Score: 634
Period size: 70 Copynumber: 11.2 Consensus size: 70
77734630 TCCGTGAGCC
* * * * * *
77734640 GTTTGGAGGCAGCGATATGGAATCAACAAGCCTTAAAATTACAGGTGGGAGCTTTTAATTCTCGC
1 GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
77734705 TAACT
66 TAACT
* * * *
77734710 GTTTGGAGGCCA-CGATATGAAATCAGCGAGCTTTGCAATTACAGTTGGGAGCTTTTAACTATC-
1 GTTTGGAGG-CAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCG
* * *
77734773 ATTAGT
65 CTAACT
** * ** * * * * *
77734779 AGTTTAGAGATTTCAGC---ATGAAATCAGCAAGTGTTGGAATTACAACCGAGAGCTTTTAACTA
1 -GTTT-G-GA-GGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTC
*
77734841 TTGCTAACT
62 TCGCTAACT
* * * * * * * *
77734850 GTTTAGAGGC-TCGATATGAAATCAACGAGTCTTGAAATTACAGCTAGGAGCATTTAGCTTTCGC
1 GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
77734914 TAACT
66 TAACT
* * * * * * * *
77734919 GTTTGGAGGCCA-CAATATGAAATTAGCGAGCCTTGAAGTTACAACTAGAAGCTTTTAACTTTTG
1 GTTTGGAGG-CAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCG
77734983 CTAACT
65 CTAACT
** * * * *
77734989 GTTTGGAGGTTGCGATATGAAATCAGTGAGCCTTGAAATTATAGCTGAGAGCTTTTAACTCTCAC
1 GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
77735054 TAACT
66 TAACT
* * * * *
77735059 GTTTGGAGGCCA-CGATATGAAATCAGCAAGCTTTGAAATTATAGTTGAGAGCTTTTAACTCTCG
1 GTTTGGAGG-CAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCG
*
77735123 TTAACT
65 CTAACT
* * * * * * * *
77735129 GTTTGGAGGTCA-CAATATGAAATCAACAAGCTTTGAAATTACAACTGTGAGGTTTTAACTCTAG
1 GTTTGGAGG-CAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCG
77735193 CTAACT
65 CTAACT
* * * * * * * *
77735199 ATCTAGAGGCCGCGATATGAAATCAGCGAGCCTTGAAATTATAGTTGAGAGCTTTTAACTATCGC
1 GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
77735264 TAAACCTTT
66 T-AA-C--T
* ** * * * * *
77735273 GTTTGGAGGTC-GCGATATGAAATTAATGAGCCTTGAAATTACAACTGTGAGTTTTTAACTATTG
1 GTTTGGAGG-CAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCG
*
77735337 GTAACT
65 CTAACT
* * * *
77735343 ATTTGGAGGCCGCAATATGAAATCAGCGAGCCTTGAAATTACAGGTGGGAGCTTTTAACTCTCGC
1 GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
77735408 TAACT
66 TAACT
* *
77735413 ATTTGAAGGCA
1 GTTTGGAGGCA
77735424 CATCATGATA
Statistics
Matches: 566, Mismatches: 127, Indels: 42
0.77 0.17 0.06
Matches are distributed among these distances:
66 1 0.00
67 1 0.00
68 2 0.00
69 55 0.10
70 437 0.77
71 8 0.01
72 6 0.01
73 3 0.01
74 52 0.09
75 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (70 bp):
GTTTGGAGGCAGCGATATGAAATCAGCGAGCCTTGAAATTACAGCTGGGAGCTTTTAACTCTCGC
TAACT
Found at i:77748428 original size:15 final size:15
Alignment explanation
Indices: 77748408--77748439 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
77748398 TGATTGTAGA
*
77748408 TATTGAAATTTGAAC
1 TATTGAAATTCGAAC
77748423 TATTGAAATTCGAAC
1 TATTGAAATTCGAAC
77748438 TA
1 TA
77748440 GGAATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (15 bp):
TATTGAAATTCGAAC
Found at i:77750637 original size:9 final size:9
Alignment explanation
Indices: 77750625--77750667 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
77750615 TCTCTTTAAA
77750625 CTCTCAATT
1 CTCTCAATT
*
77750634 CTCTCAACT
1 CTCTCAATT
77750643 C-CTTCAATT
1 CTC-TCAATT
77750652 CTCTCAATT
1 CTCTCAATT
*
77750661 TTCTCAA
1 CTCTCAA
77750668 CTTTTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 1 0.03
9 27 0.93
10 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (9 bp):
CTCTCAATT
Found at i:77752522 original size:50 final size:50
Alignment explanation
Indices: 77752460--77752687 Score: 223
Period size: 50 Copynumber: 4.6 Consensus size: 50
77752450 TATAAGAGTC
* * * *
77752460 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAGATATGAAAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGACATATGAGAGCT
* * * *
77752510 AGTGTAAGACCATGTCTGGGACATGGCATCAACAC-CGACAGATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCGACATATGAGAGCT
* * *
77752560 AGTGTAAGACCATGTCTAGAACATGGCATCAGCCTCGATATATTAGAG-T
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGACATATGAGAGCT
* * ** *
77752609 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACCTTGATGTGTGAG-GC-
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAG-CCTCGACATATGAGAGCT
* **
77752658 AATGTAAGACCATGTCCGGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
77752688 GGTATCTTAC
Statistics
Matches: 150, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
48 28 0.19
49 3 0.02
50 118 0.79
51 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGACATATGAGAGCT
Found at i:77752595 original size:100 final size:100
Alignment explanation
Indices: 77752454--77752639 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 100
77752444 CCACATTATA
* * *
77752454 AGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAGATATGAAAG-CTAGTGTAAG
1 AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCCTCAAGATATGAAAGTC-AGTGTAAG
77752518 ACCATGTCTGGGACATGGCATCAACACCGACAGATG
65 ACCATGTCTGGGACATGGCATCAACACCGACAGATG
* * * *
77752554 AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCCTCGATATATTAGAGTCAGTGTAAGA
1 AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCCTCAAGATATGAAAGTCAGTGTAAGA
77752619 CCATGTCTGGGACATGGCATC
66 CCATGTCTGGGACATGGCATC
77752640 GACCTTGATG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 77 0.99
101 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (100 bp):
AGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCCTCAAGATATGAAAGTCAGTGTAAGA
CCATGTCTGGGACATGGCATCAACACCGACAGATG
Found at i:77753113 original size:44 final size:44
Alignment explanation
Indices: 77753047--77753134 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
77753037 TGCAGTAGTC
*
77753047 CAACTTGGAAAATGCACAAAAAATAGTGGAATA-AGGGTTAAAGA
1 CAACTTGGAAAATACACAAAAAATAGTGGAA-AGAGGGTTAAAGA
*
77753091 CAACTTGGAAAATACACCAAAAATAGTGGAAAGAGGGTTAAAGA
1 CAACTTGGAAAATACACAAAAAATAGTGGAAAGAGGGTTAAAGA
77753135 TTGAATGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 40 0.98
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.17
Consensus pattern (44 bp):
CAACTTGGAAAATACACAAAAAATAGTGGAAAGAGGGTTAAAGA
Found at i:77756779 original size:44 final size:44
Alignment explanation
Indices: 77756716--77756800 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
77756706 GCAGTAGTCC
*
77756716 AACTTGGAAAATACACAAAAAATAGT-GAACAAAGGGTTAAAGAA
1 AACTTGGAAAATAAACAAAAAATAGTGGAA-AAAGGGTTAAAGAA
*
77756760 AACTTGGAAAATAAACAAAAAATAGTGGAAAGAGGGTTAAA
1 AACTTGGAAAATAAACAAAAAATAGTGGAAAAAGGGTTAAA
77756801 TATTGAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.56, C:0.07, G:0.20, T:0.16
Consensus pattern (44 bp):
AACTTGGAAAATAAACAAAAAATAGTGGAAAAAGGGTTAAAGAA
Found at i:77760249 original size:24 final size:24
Alignment explanation
Indices: 77760222--77760273 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
77760212 GAAGGCGATA
* *
77760222 AAGACGAAGCCGATAGTAGAGATG
1 AAGACGAAGACAATAGTAGAGATG
* * *
77760246 AAGATGAAGACAATGGTGGAGATG
1 AAGACGAAGACAATAGTAGAGATG
77760270 AAGA
1 AAGA
77760274 TGAGTACAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.35, T:0.13
Consensus pattern (24 bp):
AAGACGAAGACAATAGTAGAGATG
Found at i:77763102 original size:405 final size:405
Alignment explanation
Indices: 77762344--77763114 Score: 978
Period size: 405 Copynumber: 1.9 Consensus size: 405
77762334 CTAGCTACAG
* *
77762344 ATGTTGGCAATCAACATCGGGACGAGAATTTTGGGACTTGTTTTCACCATAGGTAGAATTATGTT
1 ATGTTGGCAATCAACATCGGGACGAGAATTTTGGGACTCGCTTTCACCATAGGTAGAATTATGTT
* * * * *
77762409 AGATATCATGTTGGAGTTTAGCCTCGGATGATCTTGGCTTACACCTATGAAGTATACCCATAAAG
66 AGATATCACGTCGGAGTCTAGCCTCGGATGATCCTGACTTACACCTATGAAGTATACCCATAAAG
* * * * *
77762474 TTATGTTATTCGAAAAAACGAAGACCTTGGTTAGGTCACATTATGTTAGAAAATCGGGTGATCAC
131 TTATGTTATTAGAAAAAACGAAGACCTTGATCAGGTCACATTATGTTACAAAATCGAGTGATCAC
* * ** *
77762539 ATTGCGTACTTACTTCAACACAAGTATGTGACCAAAATACTTCTTTATTGTCCACAAACTTGTCT
196 ATCGCGTACTTACTTCAACACAAGTATATGACCAAAATACTTCTTTATCATCCACAAACTTATCT
* * *
77762604 TCTTCCAAAAAGATGTCATGATTTTCCATTTGTACCTTCCGTCACGCATTGCACATTTTCCCTCA
261 TCTTCCAAAAAGATGCCATGATTTTCCATTTGTACCTTCCGTCACACATTGCAAATTTTCCCTCA
* ** * *
77762669 AATTTTTTTGAACGGGATTTTGTGACGTGATAGTTCACGCCATCTTATAGTATGATGACGTGAAA
326 AATTTCTCCGAACGAGATTTTATGACGTGATAGTTCACGCCATCTTATAGTATGATGACGTGAAA
77762734 TCATACTGGCTATGA
391 TCATACTGGCTATGA
* *
77762749 ATGTTGGTAATCAACATCGGGATGAGAATTTTGGGACTCGCTTTCACCATAGGTAGAATTATGTT
1 ATGTTGGCAATCAACATCGGGACGAGAATTTTGGGACTCGCTTTCACCATAGGTAGAATTATGTT
* * * ** *
77762814 AGATTTCACGTCGGAGTCTAGCCTTGGATTATCCTGACTTACA-C-ATGCAAAGTATACGTATGA
66 AGATATCACGTCGGAGTCTAGCCTCGGATGATCCTGACTTACACCTATG--AAGTATACCCATAA
* * * * *
77762877 ATTTATGTTTTTAGAAAAAACGAATATCTTGATCAGGTTACATTATGTTACAAAATCGAGTGATC
129 AGTTATGTTATTAGAAAAAACGAAGACCTTGATCAGGTCACATTATGTTACAAAATCGAGTGATC
* * * * *
77762942 ACATCGCGTACTTA-TTGTAACACAAGTATATAGACCAGAATACTTCTTTATCATTCA-GAAGTC
194 ACATCGCGTACTTACTT-CAACACAAGTATAT-GACCAAAATACTTCTTTATCATCCACAAACT-
* * ** *
77763005 TATCTTCTTCCAAAATGATGCCATGATTTTCCATTTG-ATCTTTTGTCGCACATTGCATAATTTT
256 TATCTTCTTCCAAAAAGATGCCATGATTTTCCATTTGTACCTTCCGTCACACATTGCA-AATTTT
** * *
77763069 -CCTTGAATTTCTCCGAATGAGATTTTATGACGTGATAGTTTACGCC
320 CCCTCAAATTTCTCCGAACGAGATTTTATGACGTGATAGTTCACGCC
77763115 GTTCTTGAAA
Statistics
Matches: 308, Mismatches: 52, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
403 3 0.01
404 3 0.01
405 242 0.79
406 60 0.19
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (405 bp):
ATGTTGGCAATCAACATCGGGACGAGAATTTTGGGACTCGCTTTCACCATAGGTAGAATTATGTT
AGATATCACGTCGGAGTCTAGCCTCGGATGATCCTGACTTACACCTATGAAGTATACCCATAAAG
TTATGTTATTAGAAAAAACGAAGACCTTGATCAGGTCACATTATGTTACAAAATCGAGTGATCAC
ATCGCGTACTTACTTCAACACAAGTATATGACCAAAATACTTCTTTATCATCCACAAACTTATCT
TCTTCCAAAAAGATGCCATGATTTTCCATTTGTACCTTCCGTCACACATTGCAAATTTTCCCTCA
AATTTCTCCGAACGAGATTTTATGACGTGATAGTTCACGCCATCTTATAGTATGATGACGTGAAA
TCATACTGGCTATGA
Found at i:77768110 original size:29 final size:29
Alignment explanation
Indices: 77768068--77768126 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
77768058 CATTATGACT
77768068 TAAAACTTTGTTAAAGATAGACTCCAATA
1 TAAAACTTTGTTAAAGATAGACTCCAATA
*
77768097 TAAAACTTTGTTAAAGATGGACTCCAATA
1 TAAAACTTTGTTAAAGATAGACTCCAATA
77768126 T
1 T
77768127 GGCATAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (29 bp):
TAAAACTTTGTTAAAGATAGACTCCAATA
Found at i:77777260 original size:46 final size:45
Alignment explanation
Indices: 77777205--77777375 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
77777195 ATTGTGAGTT
*
77777205 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-AACGAGAGCC
* * *
77777251 AGTGTAAGACCATGT-TCGGGACATAGCATTGG-CAGTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGGCCA-CAA-ACGAGAGCC
* * * *
77777299 AGTGTAAGACATGTCTGGGACATACATCAGCCTCGAAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AAACG-AGAGCC
77777345 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
77777376 TACGAGTTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
46 48 0.47
47 30 0.29
48 25 0.24
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAACGAGAGCC
Found at i:77778952 original size:28 final size:30
Alignment explanation
Indices: 77778907--77778964 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 30
77778897 TTCCCGAGCC
77778907 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
*
77778937 TAGGGG-AAAA-TGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
77778965 CATATTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.63
29 4 0.15
30 6 0.22
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:77789484 original size:4 final size:4
Alignment explanation
Indices: 77789475--77789525 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
77789465 TGCATTGGAC
77789475 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
77789523 ATA
1 ATA
77789526 CCTCAAGGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (4 bp):
ATAG
Done.