Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 2 of 228
Found at i:509948 original size:14 final size:14
Alignment explanation
Indices: 509889--509939 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
509879 CTTTTGTTTC
*
509889 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
509902 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
509917 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
509931 TTTTATTTC
1 TTTTATTTC
509940 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:510108 original size:14 final size:17
Alignment explanation
Indices: 510089--510125 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
510079 ATTTATTTCT
510089 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
510103 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
510120 TAATAT
1 TAATAT
510126 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:521256 original size:30 final size:30
Alignment explanation
Indices: 521220--521281 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
521210 AGGGGGAGGC
*
521220 GGCATTCCAGGGCGTGGGGGTGGTGGAGCA
1 GGCATTCCAGGGCGTGGGGGTGGTGGACCA
*
521250 GGCATTCCAGGGCGTGGTGGTGGTGGACCA
1 GGCATTCCAGGGCGTGGGGGTGGTGGACCA
521280 GG
1 GG
521282 AGGTCCTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.52, T:0.18
Consensus pattern (30 bp):
GGCATTCCAGGGCGTGGGGGTGGTGGACCA
Found at i:523230 original size:50 final size:51
Alignment explanation
Indices: 523175--523277 Score: 129
Period size: 49 Copynumber: 2.1 Consensus size: 51
523165 CACTAATTCG
** *
523175 ATAAAAAAACAAAAATATAAGATATATATGAT-AAATTAATATAATTATAC
1 ATAAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
* * * *
523225 AT-AAAAGATAGAAATATAAGATATATAAAATAAAATAAATATAGTTATAC
1 ATAAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
523275 ATA
1 ATA
523278 TGATGAATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
49 24 0.55
50 20 0.45
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (51 bp):
ATAAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
Found at i:526391 original size:25 final size:27
Alignment explanation
Indices: 526348--526397 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
526338 AATGAGTAGA
* *
526348 TTTGAATACAAAAGAAGAGA-AAAAGC
1 TTTGAAGACAAAAAAAGAGAGAAAAGC
526374 TTTGAAGA-AAAAAAAGAGAGAAAA
1 TTTGAAGACAAAAAAAGAGAGAAAA
526398 AGAGGTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.14
Consensus pattern (27 bp):
TTTGAAGACAAAAAAAGAGAGAAAAGC
Found at i:530397 original size:18 final size:18
Alignment explanation
Indices: 530374--530466 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
530364 TACGACCGTT
530374 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
530392 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
530410 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
530428 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
530446 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
530464 TAC
1 TAC
530467 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:530427 original size:36 final size:36
Alignment explanation
Indices: 530380--530466 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
530370 CGTTTACGGC
530380 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
530416 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
530452 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
530467 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:534536 original size:11 final size:11
Alignment explanation
Indices: 534520--534550 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
534510 ATACCCATAC
534520 CCCATACCTTG
1 CCCATACCTTG
*
534531 CCCATACCTTT
1 CCCATACCTTG
534542 CCCATACCT
1 CCCATACCT
534551 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:538492 original size:15 final size:15
Alignment explanation
Indices: 538472--538501 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
538462 AGGACTAAAC
538472 AAATTTTTTTTTCAT
1 AAATTTTTTTTTCAT
538487 AAATTTTTTTTTCAT
1 AAATTTTTTTTTCAT
538502 TTTAAGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
AAATTTTTTTTTCAT
Found at i:539946 original size:18 final size:19
Alignment explanation
Indices: 539912--539953 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
539902 ATCACATGTT
*
539912 TAAAATGAAAAT-TAAAAA
1 TAAAATGAAAATGAAAAAA
539930 TAAAAT-AAAATCGAAAAAA
1 TAAAATGAAAAT-GAAAAAA
539949 TAAAA
1 TAAAA
539954 ATGCGCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 6 0.29
19 10 0.48
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
TAAAATGAAAATGAAAAAA
Found at i:549738 original size:21 final size:21
Alignment explanation
Indices: 549712--549752 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
549702 ATCTGCTCAA
* *
549712 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
549733 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
549753 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:558976 original size:3 final size:3
Alignment explanation
Indices: 558968--558996 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
558958 CCTAGTTGTT
558968 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
558997 TTTTCAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:573719 original size:17 final size:17
Alignment explanation
Indices: 573671--573719 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
573661 TTAAAACTTA
*
573671 TTTTAATTTTAATATAT
1 TTTTAATTTTATTATAT
*
573688 TATT-ATTTTATTTATAT
1 TTTTAATTTTA-TTATAT
*
573705 TTTTAATTATATTAT
1 TTTTAATTTTATTAT
573720 TGAGTATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.23
17 15 0.58
18 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAATTTTATTATAT
Found at i:574554 original size:31 final size:32
Alignment explanation
Indices: 574511--574587 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 32
574501 TCAAAATTAG
*
574511 ACAT-AAACTTTGATTTAATGTACAATTGTAT
1 ACATGAAATTTTGATTTAATGTACAATTGTAT
* * *
574542 ACATG-AATTTTGA--TATTGTATAATTTTAT
1 ACATGAAATTTTGATTTAATGTACAATTGTAT
*
574571 ACATGAAATTTTTATTT
1 ACATGAAATTTTGATTT
574588 GATTAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 18 0.49
30 7 0.19
31 11 0.30
32 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (32 bp):
ACATGAAATTTTGATTTAATGTACAATTGTAT
Found at i:576792 original size:29 final size:28
Alignment explanation
Indices: 576755--576809 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
576745 TATATATTAA
** *
576755 TTTGATTGATTTGTTTTTATTTTTATTT
1 TTTGATTGATTAATTTTAATTTTTATTT
576783 TTTGTATTGATTAATTTTAATTTTTAT
1 TTTG-ATTGATTAATTTTAATTTTTAT
576810 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (28 bp):
TTTGATTGATTAATTTTAATTTTTATTT
Found at i:580065 original size:18 final size:18
Alignment explanation
Indices: 580044--580127 Score: 114
Period size: 18 Copynumber: 4.7 Consensus size: 18
580034 TTACGGTACA
580044 ATTCACGTATACGGCACT
1 ATTCACGTATACGGCACT
* * *
580062 ATTCACATATACAGTACT
1 ATTCACGTATACGGCACT
580080 ATTCACGTATACGGCACT
1 ATTCACGTATACGGCACT
*
580098 ATTCACGTATACGGTACT
1 ATTCACGTATACGGCACT
* *
580116 GTTCATGTATAC
1 ATTCACGTATAC
580128 AGTAGTTGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTCACGTATACGGCACT
Found at i:580091 original size:36 final size:36
Alignment explanation
Indices: 580039--580127 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
580029 ACCGTTTACG
*
580039 GTACAATTCACGTATACGGCACTATTCACATATACA
1 GTACTATTCACGTATACGGCACTATTCACATATACA
* *
580075 GTACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACATATACA
* *
580111 GTACTGTTCATGTATAC
1 GTACTATTCACGTATAC
580128 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACATATACA
Found at i:586241 original size:16 final size:17
Alignment explanation
Indices: 586216--586249 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
586206 GAAAATTTTG
586216 AATAAATAA-TTAATTC
1 AATAAATAATTTAATTC
*
586232 AATAATTAATTTAATTC
1 AATAAATAATTTAATTC
586249 A
1 A
586250 TGTAACAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAATAATTTAATTC
Found at i:588097 original size:16 final size:15
Alignment explanation
Indices: 588076--588123 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
588066 GATGTGAATA
588076 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
588092 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
588107 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
588123 A
1 A
588124 ATAATAATTA
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:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:588099 original size:24 final size:24
Alignment explanation
Indices: 588072--588127 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
588062 TAATGATGTG
*
588072 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
588096 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
588120 AATAATAA
1 AATAATAA
588128 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:588106 original size:8 final size:8
Alignment explanation
Indices: 588072--588123 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
588062 TAATGATGTG
*
588072 AATAATAA
1 AATATTAA
588080 AATATATAA
1 AATAT-TAA
588089 AATA-TAA
1 AATATTAA
588096 AATATTAA
1 AATATTAA
*
588104 AATATCAA
1 AATATTAA
*
588112 AATATTAG
1 AATATTAA
588120 AATA
1 AATA
588124 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:588366 original size:32 final size:31
Alignment explanation
Indices: 588328--588400 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
588318 TATAGTTAAG
*
588328 ATATATACATAAGATAACATGTAAAAATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATAT
* * *
588360 ATATATAAATAATATAATATTAAAGATATAT
1 ATATATAAATAAGATAACATTAAAAATATAT
*
588391 ACATA-AAATA
1 ATATATAAATA
588401 GTATAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 5 0.14
31 14 0.39
32 17 0.47
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (31 bp):
ATATATAAATAAGATAACATTAAAAATATAT
Found at i:588383 original size:15 final size:16
Alignment explanation
Indices: 588349--588391 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
588339 AGATAACATG
588349 TAAAAATATATATATA
1 TAAAAATATATATATA
588365 TAAATAATATA-ATAT-
1 TAAA-AATATATATATA
*
588380 TAAAGATATATA
1 TAAAAATATATA
588392 CATAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 8 0.33
17 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAATATATATATA
Found at i:588388 original size:23 final size:24
Alignment explanation
Indices: 588360--588493 Score: 75
Period size: 25 Copynumber: 5.5 Consensus size: 24
588350 AAAAATATAT
588360 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATTAAAG
* * * *
588385 ATATATACATAAAATAGTATAAAAT
1 ATATATA-ATAATATAATATTAAAG
588410 ATATATATACGTAATATAGA-ATTTAAA-
1 ATATATA-A--TAATATA-ATA-TTAAAG
** *
588437 ATATA-CCTAATAT-AT-TAAAAG
1 ATATATAATAATATAATATTAAAG
588458 A-ATATATATAATATAATATT-AAG
1 ATATATA-ATAATATAATATTAAAG
*
588481 AAATATAATAATA
1 ATATATAATAATA
588494 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 26
0.67 0.11 0.21
Matches are distributed among these distances:
20 7 0.08
21 2 0.02
22 6 0.07
23 18 0.22
24 7 0.08
25 27 0.33
27 12 0.14
28 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATAATAATATAATATTAAAG
Found at i:588396 original size:25 final size:25
Alignment explanation
Indices: 588360--588493 Score: 86
Period size: 23 Copynumber: 5.6 Consensus size: 25
588350 AAAAATATAT
*
588360 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
588385 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
* *
588412 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
588436 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
588458 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
588481 AAATATA-ATAATA
1 ATATATACATAATA
588494 ACAAAAAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 18 0.21
26 3 0.04
27 17 0.20
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:588415 original size:27 final size:27
Alignment explanation
Indices: 588281--588428 Score: 101
Period size: 25 Copynumber: 5.6 Consensus size: 27
588271 AATTTTAAAA
* * *
588281 ATATGTACATAATATAGTGTTAAA-A-
1 ATATATACATAATATAGTATAAAATAT
* *
588306 ATACATACATAATATAGT-TAAGATAT
1 ATATATACATAATATAGTATAAAATAT
* * * *
588332 ATACATAAGATAACAT-GTAAAAATATAT
1 ATATAT-ACATAATATAGTATAAA-ATAT
* * * *
588360 ATATATAAATAATATAATAT-TAA-AG
1 ATATATACATAATATAGTATAAAATAT
*
588385 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAGTATAAAATAT
*
588412 ATATATACGTAATATAG
1 ATATATACATAATATAG
588429 AATTTAAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
24 3 0.03
25 35 0.38
26 11 0.12
27 33 0.35
28 11 0.12
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (27 bp):
ATATATACATAATATAGTATAAAATAT
Found at i:589047 original size:30 final size:30
Alignment explanation
Indices: 589010--589184 Score: 262
Period size: 30 Copynumber: 5.8 Consensus size: 30
589000 TAGGTACAAG
* *
589010 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
589040 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
589070 TGGTGGTGGACAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
589100 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGAGTGGCTAGTGGAGT
*
589131 TGGTGGTGG-AAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
589160 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
589185 TGAGAAAGTT
Statistics
Matches: 129, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
29 27 0.21
30 75 0.58
31 27 0.21
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:589106 original size:60 final size:59
Alignment explanation
Indices: 589010--589184 Score: 305
Period size: 60 Copynumber: 2.9 Consensus size: 59
589000 TAGGTACAAG
*
589010 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGA-AAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
589070 TGGTGGTGGACAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGA-AAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAAGAGTGGCTAGTGGAGT
*
589131 TGGTGGTGGAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
589185 TGAGAAAGTT
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
59 15 0.14
60 65 0.59
61 31 0.28
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (59 bp):
TGGTGGTGGAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:590053 original size:76 final size:77
Alignment explanation
Indices: 589895--590251 Score: 429
Period size: 76 Copynumber: 4.8 Consensus size: 77
589885 TGTGAACCCA
* * *
589895 AGGCTCAACTCACATCTCGCAATATGAGTTGA---TTTTTGAA-AAACAGAAATTTAAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAA-TTGAAAATACC
589956 TCAGCGTGTCCTG
65 TCAGCGTGTCCTG
* *
589969 AGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTTTTTAAC-AACAGAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAATTGAAAATACCT
590033 CAGCGTGTCCTG
66 CAGCGTGTCCTG
* * *
590045 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTT-ACGAACAGAAATTGAAAAGACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAATTGAAAATACCT
*
590109 CAGCATGTGAGCC-G
66 CAGC--GTG-TCCTG
* * *
590123 AGGCTCAACTCACCTCTCGCAATATGAGTT-A---ATTTTTGACAAACAGAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAATTGAAAATACCT
* *
590184 TAGCGTGTCCCG
66 CAGCGTGTCCTG
* *
590196 AGGCTCAACTCACCTCTCGCAATATGAGTCGA---TTTTTGAA-AAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAATTGAAAA
590252 CCAGAAATTG
Statistics
Matches: 250, Mismatches: 22, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
72 2 0.01
73 48 0.19
74 41 0.16
75 25 0.10
76 83 0.33
77 16 0.06
78 33 0.13
79 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAAACAGAAATTGAAAATACCT
CAGCGTGTCCTG
Found at i:590250 original size:14 final size:14
Alignment explanation
Indices: 590231--590265 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
590221 GAGTCGATTT
590231 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
590245 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
590259 TTGAAAA
1 TTGAAAA
590266 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:590291 original size:162 final size:162
Alignment explanation
Indices: 590091--591378 Score: 563
Period size: 162 Copynumber: 8.0 Consensus size: 162
590081 TTTTTACGAA
* *
590091 CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
* ** *
590156 TTTTGACAAACAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
590221 GAGTCGATTTTTGAAAAACAGAAATTGAAAAC
131 GAGTCGATTTTTGAAAAACAAAAATTGAAAAC
* * *
590253 CAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAAT
1 CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
* ** * *
590318 TTTTTATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
* *
590383 GAGTTGATTTTTGACAAACAAAAATT------
131 GAGTCGATTTTTGAAAAACAAAAATTGAAAAC
* * * * *
590409 --GAAATT------ACCTCAGCGTCT-TG---AGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCT-A-
* * * * *
590462 TTTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAA-TACCTCAGCGTGTACTGAGGCTCAA
64 -ATTTTTG--AC---------AAACA-G-AAATT-AAAACCACCTCAGCGTGTCCCGAGGCTCAA
590526 CTCACCTCTCGCAATATGA---G----TTG--------AAATT-AAAAC
114 CTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAAAAATTGAAAAC
* * ** * * *
590559 ACAAAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA
1 -CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAA
* * * * *
590622 -TTTTGAAAAAGTAGAAATTAAAAGGTTCAACC-CAGC-TCTCGCAATATGAGTTGATTCTTGAC
65 TTTTTGACAAA-CAGAAATTAAAA----CCACCTCAGCGTGTC-C----CGAG--G---C-T--C
** ** * * ** ** ** ** *
590684 AAACAGAAAT-T-GAAATTACCTCA-TCG-TGTCCTGAGGCTCAACTCACCTCTCG-CAA-
112 -AACTCACCTCTCGCAA-TA--TGAGTCGAT-TTTTGA---AAAACAAAAAT-T-GAAAAC
* * * ** * * *
590739 TATG-AATTGAAAAAAATACCACAGTGTGTAATCTGAA-GCTCAACTCACCTCTCGCAATATGAG
1 CA-GAAATTG--AA-AAGACCTCAGCATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * **
590802 TTGATTTTTTTTAAAAAAACAGAAATTGAAAA-TACCTCAGCATGTGAACCGAGGCTCAACTCAC
61 CT-A--ATTTTT-GACAAACAGAAATT-AAAACCACCTCAGC--GTGTCCCGAGGCTCAACTCAC
* * **
590866 CTCTCGCAATATAAGTTGATTTTT----------TTTTGAAAA-
119 CTCTCGCAATATGAGTCGATTTTTGAAAAACAAAAATTGAAAAC
* * * ** ** * *
590899 CAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA
1 CAGAAATTGAAAAGACCTCAGCATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGCT-A
* ** *
590961 A-TTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
64 ATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
* * ** *
591024 ATGAGTTGATTTTTTTTACGAACAGAAATTGAAGAA-
129 ATGAGTCGA--TTTTTGAAAAACAAAAATTGAA-AAC
* *
591060 CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
* **
591125 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
591190 GAGTCGATTTTTGAAAAACAGAAATTGAAAAC
131 GAGTCGATTTTTGAAAAACAAAAATTGAAAAC
* * *
591222 CAGAAATTG-AAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAAT
1 CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
** * * *
591286 TTTTGATGAACATAAATTAAAACCACCTCA--GTATCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
* *
591349 GAGTTGATTTTTGACAAACAAAAATTGAAA
131 GAGTCGATTTTTGAAAAACAAAAATTGAAA
591379 TTACCTCATC
Statistics
Matches: 871, Mismatches: 133, Indels: 247
0.70 0.11 0.20
Matches are distributed among these distances:
144 31 0.04
145 11 0.01
146 4 0.00
147 9 0.01
148 52 0.06
149 7 0.01
150 25 0.03
151 1 0.00
152 8 0.01
153 8 0.01
154 11 0.01
155 30 0.03
157 16 0.02
158 6 0.01
159 71 0.08
160 65 0.07
161 134 0.15
162 171 0.20
163 38 0.04
164 65 0.07
168 2 0.00
173 2 0.00
174 9 0.01
175 5 0.01
176 3 0.00
177 1 0.00
178 1 0.00
179 8 0.01
180 1 0.00
181 5 0.01
182 9 0.01
183 3 0.00
184 32 0.04
185 5 0.01
187 1 0.00
188 12 0.01
189 9 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (162 bp):
CAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
TTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTTTGAAAAACAAAAATTGAAAAC
Found at i:590335 original size:89 final size:87
Alignment explanation
Indices: 590158--590321 Score: 224
Period size: 89 Copynumber: 1.9 Consensus size: 87
590148 GAGTTAATTT
* * *
590158 TTGACAAA-CAGAAATTGAAATTACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
*
590222 AGTCGATTTTTGAAAAACAGAAA
65 AGTCAATTTTTGAAAAACAGAAA
* *
590245 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
590310 GAG-CTAATTTTT
64 GAGTC-AATTTTT
590322 TATGAACATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
86 3 0.04
87 28 0.42
88 1 0.01
89 35 0.52
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (87 bp):
TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
GTCAATTTTTGAAAAACAGAAA
Found at i:590380 original size:73 final size:71
Alignment explanation
Indices: 590285--590484 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
590275 GTGTGAGCCA
* * *
590285 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTTATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATGAACATAAATTAAAACCACCTCAGC
590350 GTGTCCTG
66 --GTCCTG
* ** * * **
590358 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATGAACATAAATTAAAACCACCTCAGC
*
590423 GTCTTG
66 GTCCTG
* *
590429 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATG-AACATAAATTAAAA
590485 AAACGAAAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
71 41 0.38
72 12 0.11
73 55 0.51
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTATGAACATAAATTAAAACCACCTCAGC
GTCCTG
Found at i:590397 original size:235 final size:227
Alignment explanation
Indices: 589895--590625 Score: 806
Period size: 235 Copynumber: 3.2 Consensus size: 227
589885 TGTGAACCCA
* * * *
589895 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAG
* **
589960 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTT------TTTTAACAACAGA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAACAAAATTAA-AACAGA
* *
590019 AATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTT
129 AATTGAAAATACCTCAGCGTGTACC-GAGGCTCAACTCACCTCTAGCAATATGAGTTGA--ATTT
* * * *
590083 TTTACGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCG
191 TTTAAGAACAAAAATTGAAAACACCTCAGC--GTG-CCCG
* *
590123 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTTAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGC
* *
590188 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTGAAAAC
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---AAACA-AAATT-AAAA-
* * *
590253 CAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT-AA
125 CAGAAATTGAAAATACCTCAGCGTGT-A-CCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAA
* * *
590317 TTTTTTATGAACATAAATT-AAAACCACCTCAGCGTGTCCTG
188 TTTTTTAAGAACAAAAATTGAAAA-CACCTCAGCGTG-CCCG
*
590358 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGC
* *
590423 --GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAA
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTT-AAACA-AAATT-AAAA
* * *
590486 AACGAAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
125 CA-G-AAATTGAAAATACCTCAGCGTGTACCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAA
* * *
590551 ---ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCG
188 TTTTTTAAGA-ACAAAAATTGAAAACACCTCAGCGTG-CCCG
* *
590590 AGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
590626 GAAAAAGTAG
Statistics
Matches: 433, Mismatches: 46, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
227 55 0.13
228 46 0.11
231 4 0.01
232 56 0.13
233 68 0.16
234 18 0.04
235 90 0.21
236 9 0.02
237 29 0.07
238 27 0.06
239 1 0.00
240 28 0.06
241 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (227 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAACAAAATTAAAACAGAAA
TTGAAAATACCTCAGCGTGTACCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTTTAA
GAACAAAAATTGAAAACACCTCAGCGTGCCCG
Found at i:590594 original size:72 final size:73
Alignment explanation
Indices: 590476--590617 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 73
590466 TTTGAAACAT
* * *
590476 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAAT
590541 ATGAGTTG
66 ATGAGTTG
* * *
590549 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAAT
590613 ATGAG
66 ATGAG
590618 CTGATTTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 58 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCACCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:590644 original size:160 final size:157
Alignment explanation
Indices: 590342--590631 Score: 406
Period size: 160 Copynumber: 1.8 Consensus size: 157
590332 AATTAAAACC
* ** *
590342 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAA
1 ACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
* ** * *
590407 TTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAA
66 TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAA
*
590472 ACATAAATTAAAAAAACGAAAATTGAAAAT
128 AAATAAATTAAAAAAACGAAAATTGAAAAT
590502 ACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAA
1 ACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAA
*
590565 ATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAA
65 ATTGAAAATACCTCAGCGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAA
590629 AAA
128 AAA
590632 GTAGAAATTA
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
157 9 0.08
158 3 0.03
159 26 0.22
160 47 0.41
161 31 0.27
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (157 bp):
ACCTCAGCGTGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAA
TTGAAAATACCTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
TAAATTAAAAAAACGAAAATTGAAAAT
Found at i:590860 original size:79 final size:75
Alignment explanation
Indices: 590776--591056 Score: 349
Period size: 72 Copynumber: 3.7 Consensus size: 75
590766 GTAATCTGAA
* *
590776 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTT--GAAAACAGAAATTGAAAATACCTCA
*
590841 GCATGTGAACCGAG
64 GCA-GTG-TCCGAG
*
590855 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAG
*
590920 C-GTGTCTTGAG
65 CAGTGTC-CGAG
** * *
590931 GCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
590993 -GTGTCCTGAG
66 AGTGTCC-GAG
* *
591003 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-ACGAACAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGA-AAACAGAAATTGAA
591057 GAACAGAAAT
Statistics
Matches: 179, Mismatches: 16, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
72 64 0.36
74 1 0.01
75 18 0.10
76 34 0.19
78 25 0.14
79 29 0.16
80 8 0.04
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
AGTGTCCGAG
Found at i:591062 original size:14 final size:14
Alignment explanation
Indices: 591043--591070 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
591033 TTTTTTTTAC
591043 GAACAGAAATTGAA
1 GAACAGAAATTGAA
591057 GAACAGAAATTGAA
1 GAACAGAAATTGAA
591071 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:591078 original size:89 final size:87
Alignment explanation
Indices: 590964--591146 Score: 253
Period size: 89 Copynumber: 2.1 Consensus size: 87
590954 AAGTTGAATT
** *
590964 TTGAAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATG
* * *
591027 AGTTGATTTTTTTTACGAACAGAAA
65 AGTT-A-ATTTTTGACAAACAGAAA
591052 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
591117 GAGTTAATTTTTGACAAACAGAAA
64 GAGTTAATTTTTGACAAACAGAAA
591141 TTGAAA
1 TTGAAA
591147 TTACCTCAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
88 6 0.07
89 42 0.49
90 1 0.01
91 34 0.40
92 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (87 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTTTGACAAACAGAAA
Found at i:591170 original size:164 final size:162
Alignment explanation
Indices: 590928--591378 Score: 612
Period size: 161 Copynumber: 2.8 Consensus size: 162
590918 AACGTGTCTT
** *
590928 GAGGCTCAACTCATTTCTCGCAATATAAGTTGAA-TTTTGAAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGAAAACAGAAATTGAAATTACCTCAG
* **
590992 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
591057 GAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCC
130 -AACCAGAAATTG-AAAGACCTCAGCATGTGAGCC
591091 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGA-AAACAGAAATTGAAATTACCTCAG
* *
591156 CGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTGAAAAACAGAAATTGAA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
* *
591219 AACCAGAAATTGAAATACCTCAGCGTGTGAGCC
130 AACCAGAAATTGAAAGACCTCAGCATGTGAGCC
* * * * * * **
591252 AAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCA-
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGA-AAACAGAAATTGAAATTACCTCAG
* * *
591316 -GTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
591378 A
130 A
591379 TTACCTCATC
Statistics
Matches: 261, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
159 58 0.22
161 76 0.29
162 30 0.11
163 34 0.13
164 63 0.24
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (162 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAAATTGAAATTACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
ACCAGAAATTGAAAGACCTCAGCATGTGAGCC
Found at i:591183 original size:73 final size:74
Alignment explanation
Indices: 591052--591220 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 74
591042 CGAACAGAAA
* *
591052 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
591117 GAGTTAATTT
65 GAGTCAATTT
* ** *
591127 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
591191 AGTCGATTT
66 AGTCAATTT
591200 TTGAAAAACAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
591221 CCAGAAATTG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 58 0.69
75 26 0.31
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTCAATTT
Found at i:591219 original size:14 final size:14
Alignment explanation
Indices: 591200--591233 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
591190 GAGTCGATTT
591200 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
591214 TTGAAAACCAGAAA
1 TTGAAAAACAGAAA
591228 TTGAAA
1 TTGAAA
591234 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:591288 original size:88 final size:87
Alignment explanation
Indices: 591127--591310 Score: 241
Period size: 88 Copynumber: 2.1 Consensus size: 87
591117 GAGTTAATTT
*
591127 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAACCAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
*
591191 AGTCGATTTTTGAAAAACAGAAA
65 AGTCAATTTTTGAAAAACAGAAA
* *
591214 TTGAAAACCAGAAATTGAAA-TACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAACCAGAAATTGAAATTACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** *
591278 GAG-CTAATTTTTGATGAACATAAA
64 GAGTC-AATTTTTGAAAAACAGAAA
591302 TT-AAAACCA
1 TTGAAAACCA
591311 CCTCAGTATC
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
86 16 0.19
87 24 0.28
88 46 0.53
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (87 bp):
TTGAAAACCAGAAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
GTCAATTTTTGAAAAACAGAAA
Found at i:591374 original size:71 final size:71
Alignment explanation
Indices: 591253--591431 Score: 234
Period size: 71 Copynumber: 2.5 Consensus size: 71
591243 GTGTGAGCCA
* * * ** *
591253 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCA-T
591318 -ATCCTG
65 CATCCTG
* **
591324 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCATC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCATC
* *
591389 GTCTTG
66 ATCCTG
*
591395 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
591432 TTTGAAACAT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 1 0.01
71 94 0.99
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCATC
ATCCTG
Found at i:591382 original size:232 final size:231
Alignment explanation
Indices: 591089--591605 Score: 622
Period size: 232 Copynumber: 2.2 Consensus size: 231
591079 AGCATGTGAG
* *
591089 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
591154 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGAAAAACAGAAATT--
66 AGC--GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAAACAGAAATTAA
* * *
591216 GAAAACCAGAAATTG-AAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTTGCAATATG
129 AAAAACGA-AAATTGAAAATACCTCAGCGTGT---CCTAAGGCTCAACTCACCTCTCGCAATATG
* ** * *
591279 AGCT-AATTTTTGATGA-ACATAAATT-AAAACCACCTCA-GTATC
190 AGCTGAA--ATT-AAAACACAAAAATTGAAAA-CACCTCACGTACC
*
591321 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
* ** * * *** *
591386 ATCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
66 AGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAAACAGAAATTAAAA
* *
591451 AAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
131 AAACGAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGA
* *
591516 AATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
196 AATTAAAACACAAAAATTGAAAACACCTCA-CGTACC
* * *
591553 CCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAAACAAAAATT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATT
591606 AAAAGGCTTA
Statistics
Matches: 247, Mismatches: 28, Indels: 21
0.83 0.09 0.07
Matches are distributed among these distances:
229 2 0.01
230 52 0.21
231 64 0.26
232 107 0.43
233 22 0.09
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (231 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
AGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAAACAGAAATTAAAA
AAACGAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGA
AATTAAAACACAAAAATTGAAAACACCTCACGTACC
Found at i:591560 original size:72 final size:72
Alignment explanation
Indices: 591442--591609 Score: 239
Period size: 72 Copynumber: 2.3 Consensus size: 72
591432 TTTGAAACAT
* * *
591442 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATT-AAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
*
591507 ATGAGTTG
65 ATGAGCTG
* *
591515 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATA
1 AAATTAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
591580 TGAGCTG
66 TGAGCTG
** *
591587 ATTTTGAAAAACAAAAATT-AAAA
1 AAATTAAAAAACAAAAATTGAAAA
591610 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 4 0.05
72 76 0.89
73 5 0.06
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (72 bp):
AAATTAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGCTG
Found at i:591704 original size:122 final size:123
Alignment explanation
Indices: 591484--591729 Score: 345
Period size: 122 Copynumber: 2.0 Consensus size: 123
591474 GCGTGTCCTG
* *
591484 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
591549 TGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCAAGGCACAACTCACCTCTCGCAATATGAGCTGATTTTG-AAAA-AAAAATTAAA
* * * * *
591609 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
591671 TGCCCCAAGGCACAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
66 TGCCCCAAGGCACAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAAAATTAAA
591729 A
1 A
591730 ATACCTCAAC
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
120 11 0.10
121 4 0.04
122 59 0.54
123 7 0.06
124 1 0.01
125 27 0.25
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCAAGGCACAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAAAATTAAA
Found at i:591759 original size:70 final size:70
Alignment explanation
Indices: 591608--591783 Score: 196
Period size: 70 Copynumber: 2.5 Consensus size: 70
591598 CAAAAATTAA
* * * * * **
591608 AAGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGT
591672 GCCCC
66 GCCCC
* *
591677 AAGGCACAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACG
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACG
* **
591741 TGTCTT
65 TGCCCC
*
591747 GAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
591784 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
69 27 0.30
70 59 0.66
71 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGT
GCCCC
Found at i:599857 original size:12 final size:12
Alignment explanation
Indices: 599837--599884 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
599827 TCGGATATGC
*
599837 AATGTATGAATG
1 AATGCATGAATG
599849 AATGCATGAATG
1 AATGCATGAATG
599861 AATGCATGAATG
1 AATGCATGAATG
599873 AATGCATGAATG
1 AATGCATGAATG
599885 TCAAATGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:599895 original size:4 final size:4
Alignment explanation
Indices: 599837--599884 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
599827 TCGGATATGC
* * * *
599837 AATG TATG AATG AATG CATG AATG AATG CATG AATG AATG CATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
599885 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (4 bp):
AATG
Found at i:601435 original size:16 final size:15
Alignment explanation
Indices: 601414--601461 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
601404 GATGTGAATA
601414 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
601430 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
601445 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
601461 A
1 A
601462 ATAATAATTA
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:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:601437 original size:24 final size:24
Alignment explanation
Indices: 601410--601465 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
601400 TAATGATGTG
*
601410 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
601434 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
601458 AATAATAA
1 AATAATAA
601466 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:601444 original size:8 final size:8
Alignment explanation
Indices: 601410--601461 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
601400 TAATGATGTG
*
601410 AATAATAA
1 AATATTAA
601418 AATATATAA
1 AATAT-TAA
601427 AATA-TAA
1 AATATTAA
601434 AATATTAA
1 AATATTAA
*
601442 AATATCAA
1 AATATTAA
*
601450 AATATTAG
1 AATATTAA
601458 AATA
1 AATA
601462 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:601629 original size:20 final size:20
Alignment explanation
Indices: 601577--601633 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
601567 ATACTACATC
*
601577 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
601598 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
601617 AATATGTACATAATATA
1 AATATGTACATAATATA
601634 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:601704 original size:28 final size:27
Alignment explanation
Indices: 601665--601724 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
601655 TATAGTTAAG
* *
601665 ATATATACATAAGATAACATGTAAATAT
1 ATATATAAATAAGATAACAT-TAAAGAT
* *
601693 ATATATAAATAATATAATATTAAAGAT
1 ATATATAAATAAGATAACATTAAAGAT
601720 ATATA
1 ATATA
601725 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (27 bp):
ATATATAAATAAGATAACATTAAAGAT
Found at i:601729 original size:25 final size:25
Alignment explanation
Indices: 601606--601826 Score: 122
Period size: 25 Copynumber: 9.0 Consensus size: 25
601596 AAAATACGTG
* *
601606 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
601631 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
601656 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
601678 ATAACATGTAAATATATATATAAATAAT
1 ATAATAT-T-AA-AGATATATACATAAT
*
601706 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * * *
601731 ATAGTATAAAATATATATATACGTAAT
1 ATAATAT-TAA-AGATATATACATAAT
* *
601758 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
* *
601781 AT-AT-TAAAAGA-ATATATATAAT
1 ATAATATTAAAGATATATACATAAT
*
601803 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
601826 A
1 A
601827 ACAAAAAAAA
Statistics
Matches: 152, Mismatches: 30, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.03
22 27 0.18
23 28 0.18
24 8 0.05
25 43 0.28
26 5 0.03
27 19 0.12
28 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:602250 original size:12 final size:12
Alignment explanation
Indices: 602203--602250 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
602193 CAATAACTTT
*
602203 CTCTCCCAAAAA
1 CTCTCCAAAAAA
602215 CTCTCCAAAAAA
1 CTCTCCAAAAAA
* * **
602227 CCCCCCCTAAAA
1 CTCTCCAAAAAA
602239 CTCTCCAAAAAA
1 CTCTCCAAAAAA
602251 ATCCCCTCCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.15
Consensus pattern (12 bp):
CTCTCCAAAAAA
Found at i:602256 original size:24 final size:24
Alignment explanation
Indices: 602211--602256 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
602201 TTCTCTCCCA
*
602211 AAAACTCTCCAAAAAACCCCCCCT
1 AAAACTCTCCAAAAAAACCCCCCT
*
602235 AAAACTCTCCAAAAAAATCCCC
1 AAAACTCTCCAAAAAAACCCCC
602257 TCCATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (24 bp):
AAAACTCTCCAAAAAAACCCCCCT
Found at i:602377 original size:30 final size:30
Alignment explanation
Indices: 602340--602485 Score: 220
Period size: 30 Copynumber: 4.8 Consensus size: 30
602330 TAGGTACAAG
* *
602340 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
602370 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
602400 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGAGTGGCTAGTGGAGT
* *
602431 TGATGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
602461 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
602486 TGAGAAAAGT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
30 76 0.72
31 29 0.28
ACGTcount: A:0.25, C:0.03, G:0.47, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:602438 original size:61 final size:60
Alignment explanation
Indices: 602340--602485 Score: 213
Period size: 61 Copynumber: 2.4 Consensus size: 60
602330 TAGGTACAAG
* * *
602340 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
602400 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGTT-GATGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAAGAGTGGCTAGTGGAGTTAG-TGGTGGAAAAAGAGTGGCTAGTGGAGT
*
602461 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
602486 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
60 25 0.32
61 53 0.68
ACGTcount: A:0.25, C:0.03, G:0.47, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:603356 original size:33 final size:33
Alignment explanation
Indices: 603292--603356 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
603282 CAATGAGATA
*
603292 TTTATATAATATAATTATTATGATTTTTTAATT
1 TTTATATAATATAATTATTATGATTTATTAATT
* * *
603325 TTTATATTATA-AATTTTTTATTATTTATTAAT
1 TTTATATAATATAA-TTATTATGATTTATTAAT
603357 AGTATTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTATATAATATAATTATTATGATTTATTAATT
Found at i:607019 original size:19 final size:20
Alignment explanation
Indices: 606992--607031 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
606982 TTTTTGAACA
* *
606992 ATTTAATTTTTTTTCTTTTT
1 ATTTAATTTATTTTCCTTTT
607012 ATTT-ATTTATTTTCCTTTT
1 ATTTAATTTATTTTCCTTTT
607031 A
1 A
607032 GTTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTAATTTATTTTCCTTTT
Found at i:616865 original size:22 final size:23
Alignment explanation
Indices: 616840--616888 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
616830 AAATTTATAT
616840 ATTAATC-CTAAAAAATAAAAAA
1 ATTAATCTCTAAAAAATAAAAAA
* * *
616862 ATTAGTCTCTTAAAAATAATAAA
1 ATTAATCTCTAAAAAATAAAAAA
616885 ATTA
1 ATTA
616889 TAAATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTAATCTCTAAAAAATAAAAAA
Found at i:616901 original size:23 final size:22
Alignment explanation
Indices: 616871--616913 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
616861 AATTAGTCTC
616871 TTAAAAATAATAAAATTATAAA
1 TTAAAAATAATAAAATTATAAA
* *
616893 TTAATAAATGATAATATTATA
1 TTAA-AAATAATAAAATTATA
616914 TTTTGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAAATAATAAAATTATAAA
Found at i:623995 original size:6 final size:6
Alignment explanation
Indices: 623932--623993 Score: 106
Period size: 6 Copynumber: 10.3 Consensus size: 6
623922 CTATCTCTGC
*
623932 CCCTAT CTCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT
1 CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT
*
623980 CCCTAT CCTTAT CC
1 CCCTAT CCCTAT CC
623994 TTCCTATCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTAT
Found at i:633501 original size:43 final size:43
Alignment explanation
Indices: 633447--633529 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
633437 CGGCCCATTT
633447 TTTTAATAAATA-CCAAAAATTTATTTTAAAATTTAAAAAAAGTA
1 TTTTAATAAATATCCAAAAA--TATTTTAAAATTTAAAAAAAGTA
**
633491 TTTTAA-AAATATTTTAAAAATATTTTAAAATTTAAAAAA
1 TTTTAATAAATA-TCCAAAAATATTTTAAAATTTAAAAAA
633530 TTTAAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
43 24 0.69
44 6 0.17
45 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (43 bp):
TTTTAATAAATATCCAAAAATATTTTAAAATTTAAAAAAAGTA
Found at i:633503 original size:11 final size:11
Alignment explanation
Indices: 633483--633548 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
633473 TAAAATTTAA
633483 AAAAAGTATTTT
1 AAAAA-TATTTT
633495 AAAAATATTTT
1 AAAAATATTTT
633506 AAAAATATTTT
1 AAAAATATTTT
633517 --AAA-A-TTT
1 AAAAATATTTT
633524 AAAAA-A-TTT
1 AAAAATATTTT
633533 AAAAAGTATTTT
1 AAAAA-TATTTT
633545 AAAA
1 AAAA
633549 TTAAAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 15 0.31
11 18 0.37
12 12 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:633532 original size:28 final size:29
Alignment explanation
Indices: 633492--633578 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 29
633482 AAAAAAGTAT
633492 TTTAAAAATATTTTAAAAA-TATTTTAAAA
1 TTTAAAAA-ATTTTAAAAAGTATTTTAAAA
633521 TTTAAAAAA-TTTAAAAAGTATTTTAAAA
1 TTTAAAAAATTTTAAAAAGTATTTTAAAA
**
633549 -TTAAAAAATAATAAAAAAAGTATTTTAAAA
1 TTTAAAAAAT--TTTAAAAAGTATTTTAAAA
633579 AATAAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
27 16 0.31
28 11 0.21
29 8 0.15
30 17 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTAAAAAATTTTAAAAAGTATTTTAAAA
Found at i:633569 original size:30 final size:28
Alignment explanation
Indices: 633492--633578 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 28
633482 AAAAAAGTAT
*
633492 TTTAAAAATATTTTAAAAA-TATTTTAAAA
1 TTTAAAAA-A-TTAAAAAAGTATTTTAAAA
*
633521 TTTAAAAAATTTAAAAAGTATTTTAAAA
1 TTTAAAAAATTAAAAAAGTATTTTAAAA
633549 -TTAAAAAATAATAAAAAAAGTATTTTAAAA
1 TTTAAAAAAT--T-AAAAAAGTATTTTAAAA
633579 AATAAATATA
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
27 17 0.32
28 11 0.21
29 9 0.17
30 16 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
TTTAAAAAATTAAAAAAGTATTTTAAAA
Found at i:638823 original size:28 final size:28
Alignment explanation
Indices: 638792--638855 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
638782 TACATTGTAA
**
638792 TTTACAATATTTTTTTATTTTTT-TAATG
1 TTTACAATATTTTTAAATTTTTTGT-ATG
* *
638820 TTTAAAATATTTTTAAATTTTTTGTATT
1 TTTACAATATTTTTAAATTTTTTGTATG
638848 TTTACAAT
1 TTTACAAT
638856 TTCTTGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTACAATATTTTTAAATTTTTTGTATG
Found at i:638850 original size:18 final size:18
Alignment explanation
Indices: 638828--638873 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
638818 TGTTTAAAAT
*
638828 ATTTTTAAATTTTTTGT-
1 ATTTTTAAATTTCTTGTA
638845 ATTTTTACAATTTCTTGTA
1 ATTTTTA-AATTTCTTGTA
638864 ATTTTGTAAA
1 ATTTT-TAAA
638874 AAAAATTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 7 0.28
20 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (18 bp):
ATTTTTAAATTTCTTGTA
Found at i:639024 original size:34 final size:33
Alignment explanation
Indices: 638968--639032 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
638958 TTTTATTTTA
*
638968 AATTTATATATATTCTTTTTTTTGAAATTTTCT
1 AATTTATATATATTCTTTTTTTTCAAATTTTCT
639001 AATTTATATAT-TCCTCTTTTTTTTCAAATTTT
1 AATTTATATATAT--TCTTTTTTTTCAAATTTT
639033 TAAGGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 1 0.03
33 11 0.38
34 17 0.59
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (33 bp):
AATTTATATATATTCTTTTTTTTCAAATTTTCT
Found at i:643248 original size:13 final size:14
Alignment explanation
Indices: 643224--643257 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
643214 AAACAGCATT
*
643224 AGAAGGTTTATGGA
1 AGAAGATTTATGGA
643238 A-AAGATTTATGGA
1 AGAAGATTTATGGA
643251 AGAAGAT
1 AGAAGAT
643258 ATTCCACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.26
Consensus pattern (14 bp):
AGAAGATTTATGGA
Found at i:644480 original size:48 final size:48
Alignment explanation
Indices: 644423--644518 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
644413 GATCTAACTG
644423 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
1 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
* *
644471 GTTTGATTTTTACATCATTGAAAAATATGAACTAAATCTCTTTCCTTT
1 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
644519 CAATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (48 bp):
GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
Found at i:651358 original size:84 final size:83
Alignment explanation
Indices: 651241--651589 Score: 372
Period size: 84 Copynumber: 4.2 Consensus size: 83
651231 ACTTTGGCCC
*
651241 CTTCAACAGCCTTCTT-AT--TTTCTTCTGCAATCTTCCTTTGC-TCTTCTACTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTC-TCTGCTTTAGCCATCTC
** *
651302 AATATCAGCTTGTTTTCTTA
65 AA-ATCAGCACGTTTTCTTT
* * *
651322 CTTCAACAGCCTTCTTCAT-GTTTTCTTCCGCAATCTTCCTTTGCTTCACTGCTTCAGCCATCTC
1 CTTCAACAGCCTTCTTCATAG-TTTCTTCTGCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCTC
651386 TAAATCAGCACGTTTTCTTT
65 -AAATCAGCACGTTTTCTTT
* *
651406 CTTCAACAGCCTTCTTCTTAGTTTCTT-TAGCAATCTTCCTCTGCTTCTCTGCTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCT-GCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCT-
*
651470 CAAATCAGCACATTTTCTTT
64 CAAATCAGCACGTTTTCTTT
* * * *** *
651490 CGTCAACAGCCTTTTTCTTAGTTTCTTCTGCAATCTTCCTCAAC-TCACTTGCTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTCTC-TGCTTTAGCCATCT-
***
651554 CAAATC-GACAAACTTTCTTT
64 CAAATCAG-CACGTTTTCTTT
*
651574 CTTCAACTGCCTTCTT
1 CTTCAACAGCCTTCTT
651590 TTTCTCTTCT
Statistics
Matches: 234, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
81 16 0.07
82 2 0.01
83 4 0.02
84 205 0.88
85 7 0.03
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.43
Consensus pattern (83 bp):
CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCTCA
AATCAGCACGTTTTCTTT
Found at i:657066 original size:20 final size:20
Alignment explanation
Indices: 657026--657067 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
657016 TTCATGCTAA
*
657026 TTTTTTGAATTTTTATGTTT
1 TTTTTTGAATTTTTATATTT
657046 TTTTTTGAAATTTTT-TATTT
1 TTTTTTG-AATTTTTATATTT
657066 TT
1 TT
657068 GAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTTGAATTTTTATATTT
Found at i:661178 original size:21 final size:21
Alignment explanation
Indices: 661148--661188 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
661138 TTGAATTATT
661148 TTAAAATTTT-TATTTAAATTA
1 TTAAAATTTTCT-TTTAAATTA
*
661169 TTAAATTTTTCTTTTAAATT
1 TTAAAATTTTCTTTTAAATT
661189 TAATTAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAAAATTTTCTTTTAAATTA
Found at i:661589 original size:7 final size:7
Alignment explanation
Indices: 661577--661603 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
661567 TATCTTTACT
661577 AATTTTA
1 AATTTTA
661584 AATTTTA
1 AATTTTA
661591 AATTTTA
1 AATTTTA
661598 AATTTT
1 AATTTT
661604 CCAAAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:662597 original size:92 final size:92
Alignment explanation
Indices: 662378--662597 Score: 264
Period size: 92 Copynumber: 2.4 Consensus size: 92
662368 TATAATATCA
* * * * *
662378 TATT-TGGTACCTATAC-TTCATAGAATATCTAATGTGGTACATGTACTTTGAAAATGTCTAATG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
* * * *
662441 CAGTATTTTAATTATCAATATGTATTT
66 CAGTACTTAAACTATCAACATGTATTT
* * ** *
662468 TATTAAGATACATTTACTTTCATAAAATGTCCGATGTGGTACATGTACTTTGAAAATATCTTATG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
** *
662533 TTGTACTTAAACTGTCAACATGTATTT
66 CAGTACTTAAACTATCAACATGTATTT
*
662560 TATTATGGTACGTTTACTTTCATAAAATGTCTAATGTG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTG
662598 ATACTTAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
90 4 0.04
91 8 0.08
92 94 0.89
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (92 bp):
TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
CAGTACTTAAACTATCAACATGTATTT
Found at i:680699 original size:4 final size:4
Alignment explanation
Indices: 680690--680720 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
680680 ATGATAGCCT
680690 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
680721 GAATAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:685082 original size:4 final size:4
Alignment explanation
Indices: 685073--685107 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
685063 TCAATACGTG
685073 CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
685108 GCATGTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:685285 original size:27 final size:27
Alignment explanation
Indices: 685254--685309 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
685244 TTAATTCCTC
*
685254 TAATTCTATATGATCAGTAATTATGTT
1 TAATTCTATATGATCAGTAATTATATT
**
685281 TAATTCTATATGATCCTTAATTATATT
1 TAATTCTATATGATCAGTAATTATATT
685308 TA
1 TA
685310 GTTAGCATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (27 bp):
TAATTCTATATGATCAGTAATTATATT
Found at i:688477 original size:120 final size:122
Alignment explanation
Indices: 688261--688479 Score: 309
Period size: 120 Copynumber: 1.8 Consensus size: 122
688251 AGTGGAAACC
* * * *
688261 ATGCATGTTAAAAGGTATCATATTACCAACAATCCATGCTTAAAAGAACATGCTTTTTCTCTAAG
1 ATGCATGTTAAAAGCTAGCA-ATTACCAACAATCCATGCTTAAAAGAACATGCTATTTCTCAAAG
* *
688326 GAAAATCGATATCGGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
65 GAAAATCAATATCAGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
* *
688384 ATGCATGTTAAAAGCTAGC-ATTACCAACCATCCATGCTTAACA-AACA-GCCTATTTCTCAAAG
1 ATGCATGTTAAAAGCTAGCAATTACCAACAATCCATGCTTAAAAGAACATG-CTATTTCTCAAAG
* *
688446 GGAAATCAATATCAGTTTGTTTATATACCCATCA
65 GAAAATCAATATCAGTTTGTTTACATACCCATCA
688480 CTACAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 1 0.01
120 45 0.53
121 22 0.26
123 17 0.20
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (122 bp):
ATGCATGTTAAAAGCTAGCAATTACCAACAATCCATGCTTAAAAGAACATGCTATTTCTCAAAGG
AAAATCAATATCAGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
Found at i:689403 original size:6 final size:6
Alignment explanation
Indices: 689392--689417 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
689382 AGCGTCATCT
689392 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
689418 CGCCTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:692637 original size:18 final size:20
Alignment explanation
Indices: 692608--692644 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
692598 TCCGATACCC
692608 ATTTCTTTTTATT-TTTTTA
1 ATTTCTTTTTATTGTTTTTA
692627 ATTTC-TTTTATTGTTTTT
1 ATTTCTTTTTATTGTTTTT
692645 CATGCTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
ATTTCTTTTTATTGTTTTTA
Found at i:693233 original size:63 final size:63
Alignment explanation
Indices: 693100--693281 Score: 241
Period size: 63 Copynumber: 3.0 Consensus size: 63
693090 GTCGCCGGCG
* * * * * * *
693100 AAACCCAAGGAACCGGAGAAGAAACCCGACAAA-CC-AA-AAGAAGCTGAGAAGAAGCCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
693160 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
* *
693223 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAGCCCAAAG-A-C-GGTGAGAAGAAACCGGA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGA
693282 GAAGCCTAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
60 44 0.40
61 3 0.03
62 3 0.03
63 60 0.55
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.03
Consensus pattern (63 bp):
AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
Found at i:693293 original size:30 final size:30
Alignment explanation
Indices: 693100--693281 Score: 247
Period size: 30 Copynumber: 6.0 Consensus size: 30
693090 GTCGCCGGCG
* * * * *
693100 AAACCCAAGGAACCGGAGAAGAAACCCGAC
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
* *
693130 AAACCAAAAGAAGCTGAGAAGAAGCCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
693160 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
693190 AAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
1 AAACCCAAAG-A--AGCTGAGAAGAAACCGGAA
693223 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
* * *
693253 AAGCCCAAAGACGGTGAGAAGAAACCGGA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGA
693282 GAAGCCTAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
30 106 0.77
31 1 0.01
32 1 0.01
33 29 0.21
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.03
Consensus pattern (30 bp):
AAACCCAAAGAAGCTGAGAAGAAACCGGAA
Found at i:693309 original size:93 final size:93
Alignment explanation
Indices: 693113--693281 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
693103 CCCAAGGAAC
* *
693113 CGGAGAAGAAACCCGACAAACCAAAAGAAGCTGAGAAGAAGCCGGAAAAACCCAAAGAAGCTGAG
1 CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
693178 AAGAAACCGGAAAAACCCAAAGAAGCAG
66 AAGAAACCGGAAAAACCCAAAGAAGCAG
* * * * * *
693206 CTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAGAAGAAACCGGAAAAGCCCAAAGACGGTGAG
1 CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
693271 AAGAAACCGGA
66 AAGAAACCGGA
693282 GAAGCCTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.50, C:0.21, G:0.26, T:0.03
Consensus pattern (93 bp):
CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
AAGAAACCGGAAAAACCCAAAGAAGCAG
Found at i:711183 original size:57 final size:58
Alignment explanation
Indices: 711069--711195 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
711059 AAACGTTTGG
* *
711069 CAAGTACCAAATCGAACAAAAAAAAATTAGGTACCAAATTAGAAAAAAGAGTTAAATT
1 CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
* ** * **
711127 CAAGTACCAAATCGAA-TAAAAAAGTTTAAGTACCAGATTAGAAAAAATTGTAAAATT
1 CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
* *
711184 TATGTACCAAAT
1 CAAGTACCAAAT
711196 ATTATATTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
57 43 0.73
58 16 0.27
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (58 bp):
CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
Found at i:718277 original size:6 final size:6
Alignment explanation
Indices: 718268--718294 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
718258 CAGTCTCAAG
718268 CTCGGA CTCGGA CTCGGA CTCGGA CTC
1 CTCGGA CTCGGA CTCGGA CTCGGA CTC
718295 AGTCGTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.37, G:0.30, T:0.19
Consensus pattern (6 bp):
CTCGGA
Found at i:733025 original size:37 final size:37
Alignment explanation
Indices: 732975--733050 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
732965 TCCTGCTCTT
732975 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
1 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
733012 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
1 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
733049 AA
1 AA
733051 TATCATTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (37 bp):
AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
Found at i:739742 original size:30 final size:32
Alignment explanation
Indices: 739708--739796 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 32
739698 TTAATGAGAA
* *
739708 TTTCAAAAAAAA-TGAGGGAG-CTTATT-GAAT
1 TTTCAAAAAAAATTGA-GGAGCCTAATTAAAAT
739738 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
1 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
*
739770 TTTCAGAAAAAAAATT-AAGAGCCTAAT
1 TTTC--AAAAAAAATTGAGGAGCCTAAT
739797 GAGTTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.31
31 8 0.16
32 7 0.14
33 10 0.20
34 10 0.20
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
Found at i:739747 original size:31 final size:32
Alignment explanation
Indices: 739708--739796 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
739698 TTAATGAGAA
* *
739708 TTTC-AAAAAAAATGAGGGAG-CTTATT-GAAT
1 TTTCAAAAAAAAATGA-GGAGCCTAATTAAAAT
*
739738 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
1 TTTCAAAAAAAAATGAGGAGCCTAATTAAAAT
* *
739770 TTTCAGAAAAAAAATTAAGAGCCTAAT
1 TTTCA-AAAAAAAATGAGGAGCCTAAT
739797 GAGTTTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 8 0.16
31 15 0.31
32 8 0.16
33 18 0.37
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TTTCAAAAAAAAATGAGGAGCCTAATTAAAAT
Found at i:746474 original size:141 final size:141
Alignment explanation
Indices: 746273--746883 Score: 565
Period size: 141 Copynumber: 4.4 Consensus size: 141
746263 TAAATGGGGT
* * *
746273 AAAATGCAATCTTACTCCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGGTATATATA
1 AAAATGCAATCCTACTCCTAATCTAAGGGCATCTATGGTACTTTTACCAATTAGAGG-ATATATA
746338 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATGACTAATTTGAACATTTTTTTG
65 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATGACTAATTTGAACATTTTTTTG
746403 A-TAGATCGGCC
130 AGTAGATCGGCC
* * *
746414 ACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAATTAGAGG-TATATGT
1 AAAATGCAATCCTACTCCTAATCTAAGGGCATCTATGGTACTTTTACCAATTAGAGGATATATAT
* * * * * *
746478 ATATTCACACACTTTTAATTGCTCTTTTG-TCTAA-GATACAAAGATTAATTTAAACATTTTTTT
66 ATATTCACACACCTTTAATTACTC-TTTGATCTAATG-TATAATGACTAATTTGAACATTTTTTT
*
746541 -AGTAGATTGGCC
129 GAGTAGATCGGCC
* * * * * * * * ** * * * *
746553 AAAATGCAATCATGCTCTTAGTTTAAGGAACAAT-T-T-TTAATAGTA-AAAATGGATGA-A-AT
1 AAAATGCAATCCTACTCCTAATCTAAGG-GC-ATCTATGGTACTTTTACCAATTAGAGGATATAT
* * *** * * * * * *
746612 -T-T-TTAACAGAAGGATTAGCTTATTCTTTGATCTAATGCA-CATGGACTAATCTG-TC-TATT
64 ATATATTCACA-CACCTTTA-ATTACTCTTTGATCTAATGTATAAT-GACTAATTTGAACAT-TT
* * * **
746671 TTTTAAGTAAATGGGGT
125 TTTTGAGTAGATCGGCC
* * * *
746688 AAAATGCAATCGTACTCCTAATCTAAGGGCACCCATGGTACTTTTACCAATTAAAGGTATATATA
1 AAAATGCAATCCTACTCCTAATCTAAGGGCATCTATGGTACTTTTACCAATTAGAGG-ATATATA
746753 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATGACTAATTTGAACATTTTTTTG
65 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATGACTAATTTGAACATTTTTTTG
746818 A-TAGATCGGCC
130 AGTAGATCGGCC
* *
746829 ACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAATTAGA
1 AAAATGCAATCCTACTCCTAATCTAAGGGCATCTATGGTACTTTTACCAATTAGA
746884 TTGGCCAAAA
Statistics
Matches: 358, Mismatches: 86, Indels: 52
0.72 0.17 0.10
Matches are distributed among these distances:
133 7 0.02
134 18 0.05
135 50 0.14
136 8 0.02
137 12 0.03
138 8 0.02
139 89 0.25
140 8 0.02
141 137 0.38
142 15 0.04
143 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (141 bp):
AAAATGCAATCCTACTCCTAATCTAAGGGCATCTATGGTACTTTTACCAATTAGAGGATATATAT
ATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATGACTAATTTGAACATTTTTTTGA
GTAGATCGGCC
Found at i:746917 original size:61 final size:61
Alignment explanation
Indices: 746819--746942 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 61
746809 ATTTTTTTGA
* * * *
746819 TAGATCGGCCACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAAT
1 TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
* * * * * *
746880 TAGATTGGCCAAAATGCAATCATGCTCTTAGTTTAAGGATAGCTATGGTACTTTTACCAAT
1 TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
746941 TA
1 TA
746943 AACGTGTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (61 bp):
TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
Found at i:756544 original size:182 final size:181
Alignment explanation
Indices: 755919--756612 Score: 807
Period size: 182 Copynumber: 3.9 Consensus size: 181
755909 ACGCAAACAA
* * * * *
755919 ATACATAAATAGATTACTTTCATCAACTTAACCTGATTTTTAACACTCCATTAAGCTTAATATTA
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
* * * *
755984 GCTGCAATTCACAGCTTCTTGATTAATTGCAGTTTGCTTCTAAAAAAGAAACTTAACTGACTGAA
66 GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
* *
756049 GCCTGATTATAACATGTAATACTTCAACTTTCTCCTTTTCTGAGACAAATAT
131 GCCTGATTACAACATGTGATACTTCAACTTTCTCC-TTTCTGAGACAAATAT
* *
756101 ATACATGAATGGACTATTTTCATCAATTTAACCTGACATTTAAAC-CTCCATTAAGCTTAATA-T
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGA-ATTTTAACACTCCATTAAGCTTAATATT
** * * *
756164 AGCTGCAATTCACAGCTTCTTGATTAATAACAA-TTGGTCACT-GGAAAAGAAACTAAACTGACC
65 AGCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCT-TCTAAG-AAAGAAACTAAACTGACC
* * * * * *
756227 CAAGCCTGGTTACAACATTTGATACTTGAA--TCCT-C-TTCTGAGACAAATACG
128 GAAGCCTGATTACAACATGTGATACTTCAACTTTCTCCTTTCTGAGACAAATA-T
* *
756278 A-ACATAAATGGACTATTTTCATCAATTTAATCTGACTTTTAACACTCCATTAAGCTTAATATTA
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
* * *
756342 GCTGTAATTCACAGCTTCTTGATTGATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACTGAA
66 GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
* *
756407 GCCTGATTACAACATGTGATACATCAACTTTCTCCTTTCCTAAGACAAATAT
131 GCCTGATTACAACATGTGATACTTCAACTTTCTCCTTT-CTGAGACAAATAT
* * ** * * * *
756459 ATACATAAACGGATTATTTTTGTCAATGTAA-CTCAATTTCTAACACTCCGTCAAGCTTAATATT
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTT-TAACACTCCATTAAGCTTAATATT
** * * * * * *
756523 AGCTGCAATTTGCATCTTCTTGATGAGTTTCAAATTGCTTCCTAA-AAAGAAACTAAACTAACCG
65 AGCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTT-CTAAGAAAGAAACTAAACTGACCG
*
756587 AAGCCTGATTACAACACGTGATACTT
129 AAGCCTGATTACAACATGTGATACTT
756613 AATCCATAAT
Statistics
Matches: 430, Mismatches: 66, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
175 6 0.01
176 63 0.15
177 75 0.17
178 6 0.01
179 6 0.01
180 5 0.01
181 82 0.19
182 177 0.41
183 10 0.02
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (181 bp):
ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
GCCTGATTACAACATGTGATACTTCAACTTTCTCCTTTCTGAGACAAATAT
Found at i:762562 original size:4 final size:4
Alignment explanation
Indices: 762528--762584 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
762518 TGAACTGAAA
*
762528 AACT AACT CAAC- AACT AATT CAACT --CT AACT AACT ATACT AAC- AACT
1 AACT AACT -AACT AACT AACT -AACT AACT AACT AACT A-ACT AACT AACT
762575 AACT AACT AA
1 AACT AACT AA
762585 AACAAATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
2 2 0.05
3 6 0.14
4 26 0.59
5 10 0.23
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
AACT
Found at i:762576 original size:16 final size:15
Alignment explanation
Indices: 762528--762584 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
762518 TGAACTGAAA
762528 AACTAACTCAACAACT
1 AACTAACT-AACAACT
*
762544 AATTCAACT--CTAACT
1 AACT-AACTAAC-AACT
762559 AACTATACTAACAACT
1 AACTA-ACTAACAACT
762575 AACTAACTAA
1 AACTAACTAA
762585 AACAAATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
14 2 0.06
15 15 0.44
16 12 0.35
17 5 0.15
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (15 bp):
AACTAACTAACAACT
Found at i:765648 original size:24 final size:24
Alignment explanation
Indices: 765614--765675 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
765604 TCTAATTAAT
*
765614 TTTTTTATTAAAAATTTCATCAAA
1 TTTTTTGTTAAAAATTTCATCAAA
* *
765638 TTTTTTGTTAATAATTTCATCAAT
1 TTTTTTGTTAAAAATTTCATCAAA
*
765662 TTTTTTGATAAAAA
1 TTTTTTGTTAAAAA
765676 AACAGAGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTTTGTTAAAAATTTCATCAAA
Found at i:766070 original size:23 final size:23
Alignment explanation
Indices: 766044--766088 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
766034 ATTATATATT
* *
766044 AAATATATATTTTATTTTTAATC
1 AAATATATATTATATATTTAATC
766067 AAATATATATTATATATTTAAT
1 AAATATATATTATATATTTAAT
766089 ATGGGTCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATATTATATATTTAATC
Found at i:768179 original size:17 final size:17
Alignment explanation
Indices: 768153--768198 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
768143 ATAGTTAAAT
* *
768153 ATATGAGTATCAGAAAG
1 ATATGGGTATCAGAAAA
768170 ATATGGGTATCAGAAAA
1 ATATGGGTATCAGAAAA
768187 ATATGGGTATCA
1 ATATGGGTATCA
768199 AAATTTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (17 bp):
ATATGGGTATCAGAAAA
Found at i:780152 original size:15 final size:15
Alignment explanation
Indices: 780129--780158 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
780119 AGTTTTGTAT
780129 TAAAAAATAATTAAA
1 TAAAAAATAATTAAA
*
780144 TAAATAATAATTAAA
1 TAAAAAATAATTAAA
780159 CCATAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAAATAATTAAA
Found at i:783194 original size:10 final size:12
Alignment explanation
Indices: 783168--783196 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
783158 AATAGTGTTT
783168 TATTTATAAATA
1 TATTTATAAATA
783180 TATTTATAAATA
1 TATTTATAAATA
783192 T-TTTA
1 TATTTA
783197 ATATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:783986 original size:766 final size:764
Alignment explanation
Indices: 782465--783971 Score: 1946
Period size: 761 Copynumber: 2.0 Consensus size: 764
782455 TTTCCGTTGC
*
782465 AAAGATAATTTTGGTAGCAATGATGGGTTCAAAGTTGGGTACTTAGCTGCCGCCTTGGACGGTAC
1 AAAGATAATTTTGGTAGCAATGATGGGTTCAAAGTTGGGTACTTAGCTGCCGCCTTGAACGGTAC
* * *
782530 TAGCTAGGATTACATTTGTACATAAAGAGAGTAAACTGGTTCAATAAAGCTTTATTATCCTAAGA
66 TAGCTAGGATTACATTTGTACATAAAGAGAATAAACTGGTTCAATAAAGCTTTATCATCCTAAAA
* *
782595 TGTGGGAGAAGTTAGATATAGATTTTCTATCATTCTTTAACTGAATTTGAGTTCGAGTTTAGTAT
131 AGTGGGAGAAGTTAGATATAGA-TTTCTATCATTCTTTAACTGAATTAGAGTTCGAGTTTAGTAT
* * * * *
782660 TTTAAGGTTTGATTTGATTAGTAAGTGTTTCTTTTTCTGTGAATAAAAAATATTACAATGAACTA
195 TTTAAGGCTCGATTTGAATAGTAAGTGTGTCTTTTTCTGTGAATAAAAAATATTACAAGGAACTA
* * * * * * *
782725 TTTAAAGGTATGCTAAGTCTTCTTGGAGTCGTTCGGATAGTTGAAAGCCATCTTTATAACCAATA
260 TTTAAAGGTATGCCAAGTCTTATTGGAGGCGTTCGAATAGCTGAAAGCCATCTTAATAACCAACA
* * * *
782790 ATCATTTTAACTAAATTACCTGTCTCTTTATTATCTTTTCTAGATACATGATGAATTGACCAATC
325 ATCATTTTAACTAAACTACCTGCCTCTTTATTATCTTTTCTAGATACATAATGAATCGACCAATC
* * * * **
782855 CACCATTTTAGTCGATAAAAGTTAAATTCTTCTAACCAAAGCAGAATTCAACATCTTTGTGGAAT
390 CACCACTTTAGCCAATAAAAGTTAAATTCTTCTAACCAAAGCAGAATTCAACACCTTTGTAAAAT
* * *
782920 TGCCCAATATAGTTTATACTGCCTCTAGACTATCTAATAAAATAATCTATCTAACAAATTCTGCA
455 TGCCCAATATAGATTATACTGCCTCTAGACTATCTAATAAAATAATCAATCTAACAAATCCTGCA
* * ** * **
782985 TCAAGTAGAATCATCAAACTATCCTGAATACCTCATAATTTAGTATCTAAAATAGAACAGATTCT
520 TCAAATAGAATCATCAAACCATCCCAAATACCTCATAATTCAACATCTAAAATAGAACAGATTCT
* ** * * * * * * * * *
783050 TAAAAACTGATTATAGCTAAGAATCCATTTCTCATTCCTGTCTCTTATGACATCTCTAATCGTAG
585 CAAAAACCAATTATAACCAAGAATCCATTTCCCATTACTATCTCGTATGACATCTCCAATCATAA
* * *
783115 CTAATCTAGAATAATCTTTTATTACACCACCAGTGTTTAAATGAATAGTGTTTTATTTATAAATA
650 CTAATCTAGAATAATCTTTTACTACACCACCAATGTTCAAATGAATAGTGTTTTATTTAT-AATA
783180 TATTTATAAATATTTTAATATTAAATCATATTTTTTAATATTCTTAGTTTT
714 TATTTATAAATATTTTAATATTAAATCATATTTTTTAATATTCTTAGTTTT
*
783231 AAAGATAATTTTGGTAGCAATGATGGGTTCAAAGTTGGGTACTTAGCTGCTGCCTTGAACGGTAC
1 AAAGATAATTTTGGTAGCAATGATGGGTTCAAAGTTGGGTACTTAGCTGCCGCCTTGAACGGTAC
*
783296 TAGCTAGGATTACATTTGTACATAAAGAGAATAAACTGGTTGAATAAAGCTTTA-CATCCTAAAA
66 TAGCTAGGATTACATTTGTACATAAAGAGAATAAACTGGTTCAATAAAGCTTTATCATCCTAAAA
* *
783360 AGTGGGAGAAGTTAGATTTAGA-TTCTATCATTCTTTAATTGAATTAGAGTTCGAGTTTAGTATT
131 AGTGGGAGAAGTTAGATATAGATTTCTATCATTCTTTAACTGAATTAGAGTTCGAGTTTAGTATT
783424 TTAAGGCTCGATTTGAATAGTAAGTG-GT-TTTTT-TGTGAATAAAAAATATTACAAGGAACTAT
196 TTAAGGCTCGATTTGAATAGTAAGTGTGTCTTTTTCTGTGAATAAAAAATATTACAAGGAACTAT
* * * * *
783486 TTAGAGTTATGCCCAAG-CTTATCTGGAGGCGTTTCGAATAGCTGAATGTCA-CATTAATAACTA
261 TTAAAGGTATG-CCAAGTCTTAT-TGGAGGCG-TTCGAATAGCTGAAAGCCATC-TTAATAACCA
* * * * * * *
783549 ACAGTCATTTTAGCTAGACTATC-GACCTTTTTGTTGTCTTTTCTAGATACATAATGAATCGACC
322 ACAATCATTTTAACTAAACTACCTG-CCTCTTTATTATCTTTTCTAGATACATAATGAATCGACC
* * * **
783613 AATGCACCACTTTAGCCAATAAAAGTTAGATTTTTCTAACCAAAGTGGAATT-AACACCTTTGTA
386 AATCCACCACTTTAGCCAATAAAAGTTAAATTCTTCTAACCAAAGCAGAATTCAACACCTTTGTA
* * * * * * *
783677 AAATTG-TCATGTATAGATTGTACTGCCTCTAGACTGTTTGATAAAATAATCAATCTGACAAATC
451 AAATTGCCCA-ATATAGATTATACTGCCTCTAGACTATCTAATAAAATAATCAATCTAACAAATC
*
783741 CT-CTATCAAAT-GCAATCGTCAAACCATCCCAAATATCC-CATAATTCAACATCTAAAATAGAA
515 CTGC-ATCAAATAG-AATCATCAAACCATCCCAAATA-CCTCATAATTCAACATCTAAAATAGAA
* *
783803 CAGATTCTCAAAAACCAATTATAACCAAGAATCTATTTCCCATTATTATCTCGTATGACATCTCC
577 CAGATTCTCAAAAACCAATTATAACCAAGAATCCATTTCCCATTACTATCTCGTATGACATCTCC
* ** ** *
783868 AATCATAACTAAT-TCGGAATCCTCTTTTACTGTACCATCAATGTTCAAATGAATAGCAAGTGTT
642 AATCATAACTAATCT-AGAATAATCTTTTACTACACCACCAATGTTCAAATGAAT----AGTGTT
*
783932 TTATTTAT-ATATATTTATAAATATTTTGATATTAAATCAT
702 TTATTTATAATATATTTATAAATATTTTAATATTAAATCAT
783972 TGTTTCTTTT
Statistics
Matches: 636, Mismatches: 91, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
760 46 0.07
761 219 0.34
762 120 0.19
763 94 0.15
765 42 0.07
766 115 0.18
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (764 bp):
AAAGATAATTTTGGTAGCAATGATGGGTTCAAAGTTGGGTACTTAGCTGCCGCCTTGAACGGTAC
TAGCTAGGATTACATTTGTACATAAAGAGAATAAACTGGTTCAATAAAGCTTTATCATCCTAAAA
AGTGGGAGAAGTTAGATATAGATTTCTATCATTCTTTAACTGAATTAGAGTTCGAGTTTAGTATT
TTAAGGCTCGATTTGAATAGTAAGTGTGTCTTTTTCTGTGAATAAAAAATATTACAAGGAACTAT
TTAAAGGTATGCCAAGTCTTATTGGAGGCGTTCGAATAGCTGAAAGCCATCTTAATAACCAACAA
TCATTTTAACTAAACTACCTGCCTCTTTATTATCTTTTCTAGATACATAATGAATCGACCAATCC
ACCACTTTAGCCAATAAAAGTTAAATTCTTCTAACCAAAGCAGAATTCAACACCTTTGTAAAATT
GCCCAATATAGATTATACTGCCTCTAGACTATCTAATAAAATAATCAATCTAACAAATCCTGCAT
CAAATAGAATCATCAAACCATCCCAAATACCTCATAATTCAACATCTAAAATAGAACAGATTCTC
AAAAACCAATTATAACCAAGAATCCATTTCCCATTACTATCTCGTATGACATCTCCAATCATAAC
TAATCTAGAATAATCTTTTACTACACCACCAATGTTCAAATGAATAGTGTTTTATTTATAATATA
TTTATAAATATTTTAATATTAAATCATATTTTTTAATATTCTTAGTTTT
Found at i:785818 original size:9 final size:9
Alignment explanation
Indices: 785800--785839 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
785790 GTTTCCCACG
785800 TTAGGATTT
1 TTAGGATTT
*
785809 TTAGGGTTT
1 TTAGGATTT
785818 TTAGGATTT
1 TTAGGATTT
785827 TTA-GAGTTT
1 TTAGGA-TTT
785836 TTAG
1 TTAG
785840 AGAAAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 25 0.93
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (9 bp):
TTAGGATTT
Found at i:785823 original size:18 final size:18
Alignment explanation
Indices: 785800--785839 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
785790 GTTTCCCACG
*
785800 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGAGTTT
785818 TTAGGATTTTTAGAGTTT
1 TTAGGATTTTTAGAGTTT
785836 TTAG
1 TTAG
785840 AGAAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (18 bp):
TTAGGATTTTTAGAGTTT
Found at i:786374 original size:124 final size:124
Alignment explanation
Indices: 785953--786394 Score: 573
Period size: 124 Copynumber: 3.5 Consensus size: 124
785943 GATAAAATCA
* * * * * * * * *
785953 AAGCAGAATGATTTATTAGAAGGATTTTTTAAGTCGCGCTCACGTGTACGCGCTTTTGCTAGAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
786018 AGGTCCTGGAAAAATAATTTCGAGTTGACATTTATGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
* * *
786078 AAGCAGGATGTTTTATGAGAAGAATTTTTGAAATCGCG-CCTCGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
786142 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTACAAAACAACGCTGC
66 AGGTCCTGGAA-AAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTA-TAAA-AACGCTTC
* * * *
786204 AAGCAGGATGCTATT-TGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAA
1 AAGCAGGATGCT-TTATGAGAAGAATTTTTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
786268 TAGGTCCTGTAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* *
786328 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
786393 AG
66 AG
786395 CATGTTTGGG
Statistics
Matches: 277, Mismatches: 34, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
123 2 0.01
124 96 0.35
125 70 0.25
126 75 0.27
127 34 0.12
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:787090 original size:22 final size:21
Alignment explanation
Indices: 787059--787208 Score: 156
Period size: 21 Copynumber: 7.0 Consensus size: 21
787049 CTACATCCAA
*
787059 TTAAAGTTAAGGGTTTAGGGTT
1 TTAAAGTTAAGGG-TTATGGTT
* * * *
787081 TTTAATTTAAGGGTTACGATT
1 TTAAAGTTAAGGGTTATGGTT
* *
787102 TTAAAATGAAGGGTTTATGGTT
1 TTAAAGTTAAGGG-TTATGGTT
* *
787124 TTAAAGTTAAAGGTTACGGTT
1 TTAAAGTTAAGGGTTATGGTT
787145 TTAAAGTTAAGGGTTATGGTT
1 TTAAAGTTAAGGGTTATGGTT
* *
787166 TTTAGGTTAAGGGGTTATGGTT
1 TTAAAGTTAA-GGGTTATGGTT
* *
787188 TTTAAGTTAAGGGTTAGGGTT
1 TTAAAGTTAAGGGTTATGGTT
787209 AGGGTTTTAG
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
21 60 0.56
22 47 0.44
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (21 bp):
TTAAAGTTAAGGGTTATGGTT
Found at i:787124 original size:43 final size:43
Alignment explanation
Indices: 787067--787178 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
787057 AATTAAAGTT
* *
787067 AAGGGTTTAGGGTTTTTAATTTAAGGGTTACGATTTTAAAATG
1 AAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATTTTAAAATG
* * * * *
787110 AAGGGTTTATGGTTTTAAAGTTAAAGGTTACGGTTTTAAAGTT
1 AAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATTTTAAAATG
*
787153 AAGGG-TTATGGTTTTTAGGTTAAGGG
1 AAGGGTTTATGGTTTTTAAGTTAAGGG
787179 GTTATGGTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 18 0.31
43 41 0.69
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (43 bp):
AAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATTTTAAAATG
Found at i:787215 original size:98 final size:97
Alignment explanation
Indices: 787111--787707 Score: 358
Period size: 98 Copynumber: 6.2 Consensus size: 97
787101 TTTAAAATGA
* * *
787111 AGGGTTTAT-GGTTTTAAAGTTAAAGGTTACGGTTTTAAAGTTAAGGGTTATGGTTTTTAGGTTA
1 AGGGTTTATAGG--TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTA
* *
787175 AGGGGTTATGGTTTTTAAGTTAAGGGTTAGGGTT
64 AGGGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
* *
787209 AGGGTTT-TAGGTT-AA--T--GGG-CAAGGTTTTTAAGTTAA--G----GG-TTTTAGGTTAAG
1 AGGGTTTATAGGTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAG
* *
787260 GGGTTAGGGTTTTTAAGTTAACGGCTAGGGCT
66 GGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
* * * * *
787292 GGGGTTTTTAGGTTAAGGTGTTAGGGTTAGGGTTTTTAAGTTAATGATTAGGGTTAAGGTTTTTA
1 AGGGTTTATAGGTTAAAGT-TAAGGGTTAGGGTTTTTAAG-T--T-A--AGGGTTATGGTTTTTA
*
787357 GGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
59 GGTTAAGGGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
* *
787396 -GGAGTTTTTAGGTT-AAG----GTGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTA
1 AGG-GTTTATAGGTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTA----T--GGTTTTTA
* * *
787455 AGTTAAGGGGTTAGAGTCTTTAAGTTAACGGTTAGGGTT
59 GGTTAAGGGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
* * * *
787494 GGGGTTTTTAGGTT-AAG----GGGTTAGGATTTTTAAATTAAGGGTTAGGGTTAGGGTTTTTAG
1 AGGGTTTATAGGTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTA----T--GGTTTTTAG
* * * * *
787554 GTTAATGTGTTAAGGTTTTTAAGTTTAGGGTTTAGGGTTTT
60 GTTAAGGGGTTAGGGTTTTTAAGTTAACGG-TTAGGG--TT
* *
787595 A-GGTTTTTAGGTT-AAG----GGGTTAGGGTTTTTAAGTTAATGGTTAGGGTTAGGGTTTTTAG
1 AGGGTTTATAGGTTAAAGTTAAGGGTTAGGGTTTTTAAGTT-A-----AGGGTTATGGTTTTTAG
* * *
787654 GTTAAGGTGTTAGGATTTTTAAGTTAAGGGTTAGGGTT
60 GTTAAGGGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
** *
787692 AGAATTTTTAGGTTAA
1 AGGGTTTATAGGTTAA
787708 GGGTTTAAGG
Statistics
Matches: 415, Mismatches: 43, Indels: 81
0.77 0.08 0.15
Matches are distributed among these distances:
83 46 0.11
84 8 0.02
85 1 0.00
88 2 0.00
90 17 0.04
91 13 0.03
92 8 0.02
93 1 0.00
94 2 0.00
95 4 0.01
96 2 0.00
97 6 0.01
98 154 0.37
99 16 0.04
100 67 0.16
101 3 0.01
103 6 0.01
104 52 0.13
106 7 0.02
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (97 bp):
AGGGTTTATAGGTTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTATGGTTTTTAGGTTAAG
GGGTTAGGGTTTTTAAGTTAACGGTTAGGGTT
Found at i:787243 original size:47 final size:49
Alignment explanation
Indices: 787154--787249 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 49
787144 TTTAAAGTTA
* * *
787154 AGGGTTATGGTTTTTAGGTTAAGGGGTTATGGTTTTTAAGTTAAGGGTT
1 AGGGTTATGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTAAGGGTT
*
787203 AGGGTTA-GGGTTTTAGGTTAATGGG-CAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTATGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTAAGGGTT
787250 TTAGGTTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 20 0.47
48 16 0.37
49 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.42
Consensus pattern (49 bp):
AGGGTTATGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTAAGGGTT
Found at i:787255 original size:35 final size:36
Alignment explanation
Indices: 787209--787280 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
787199 GGTTAGGGTT
*
787209 AGGGTTTTAGGTTAATGGG-CAAGGTTTTTAAGTTA
1 AGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTA
* *
787244 AGGGTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTA
1 AGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTA
787280 A
1 A
787281 CGGCTAGGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.25, C:0.01, G:0.33, T:0.40
Consensus pattern (36 bp):
AGGGTTTTAGGTTAAGGGGTCAAGGTTTTTAAGTTA
Found at i:787297 original size:27 final size:26
Alignment explanation
Indices: 787260--787709 Score: 339
Period size: 27 Copynumber: 17.9 Consensus size: 26
787250 TTAGGTTAAG
*
787260 GGGTTAGGGTTTTTAAGTTAACGGCTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
* * *
787287 GGGCTGGGGTTTTTAGGTTAAGGTGTTA
1 GGGTTAGGGTTTTTAAGTTAA-G-GTTA
*
787315 GGGTTAGGGTTTTTAAGTTAATGATTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
* *
787342 GGGTTAAGGTTTTTAGGTTAA-G---
1 GGGTTAGGGTTTTTAAGTTAAGGTTA
787364 GGGTTAGGGTTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
*
787391 GGGTT-GGAGTTTTTAGGTTAAGG-T-
1 GGGTTAGG-GTTTTTAAGTTAAGGTTA
787415 --GTTAGGGTTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
787440 GGGTTAGGGTTTTTAAGTTAA-G---
1 GGGTTAGGGTTTTTAAGTTAAGGTTA
* *
787462 GGGTTAGAGTCTTTAAGTTAACGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
* *
787489 GGGTTGGGGTTTTTAGGTTAA-G---
1 GGGTTAGGGTTTTTAAGTTAAGGTTA
* *
787511 GGGTTAGGATTTTTAAATTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
*
787538 GGGTTAGGGTTTTTAGGTTAA---T-
1 GGGTTAGGGTTTTTAAGTTAAGGTTA
* * *
787560 GTGTTAAGGTTTTTAAGTTTAGGGTTTA
1 GGGTTAGGGTTTTTAAG-TTAAGG-TTA
*
787588 GGGTTTTA-GGTTTTTAGGTTAA-G---
1 GGG--TTAGGGTTTTTAAGTTAAGGTTA
787611 GGGTTAGGGTTTTTAAGTTAATGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
*
787638 GGGTTAGGGTTTTTAGGTTAAGG-T-
1 GGGTTAGGGTTTTTAAGTTAAGGTTA
*
787662 --GTTAGGATTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAA-GGTTA
** *
787687 GGGTTAGAATTTTTAGGTTAAGG
1 GGGTTAGGGTTTTTAAGTTAAGG
787710 GTTTAAGGTT
Statistics
Matches: 338, Mismatches: 43, Indels: 85
0.73 0.09 0.18
Matches are distributed among these distances:
21 3 0.01
22 114 0.34
23 13 0.04
24 6 0.02
25 4 0.01
26 8 0.02
27 151 0.45
28 27 0.08
29 9 0.03
30 3 0.01
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.42
Consensus pattern (26 bp):
GGGTTAGGGTTTTTAAGTTAAGGTTA
Found at i:787300 original size:28 final size:28
Alignment explanation
Indices: 787264--787335 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
787254 GTTAAGGGGT
787264 TAGGGTTTTTAAGTTAACG-GCTAGGGC
1 TAGGGTTTTTAAGTTAACGTGCTAGGGC
* * * * *
787291 TGGGGTTTTTAGGTTAAGGTGTTAGGGT
1 TAGGGTTTTTAAGTTAACGTGCTAGGGC
787319 TAGGGTTTTTAAGTTAA
1 TAGGGTTTTTAAGTTAA
787336 TGATTAGGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.21, C:0.04, G:0.35, T:0.40
Consensus pattern (28 bp):
TAGGGTTTTTAAGTTAACGTGCTAGGGC
Found at i:787308 original size:49 final size:49
Alignment explanation
Indices: 787244--787741 Score: 624
Period size: 49 Copynumber: 10.0 Consensus size: 49
787234 TTTTAAGTTA
* * *
787244 AGGG-TTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAACGGCTAGGGCT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
787292 GGGGTTTTTAGGTTAAGGTGTTAGGGTTAGGGTTTTTAAGTTAATGATTAGGGTT
1 AGGGTTTTTAGGTTAA---G---GGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
787347 AAGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
787396 -GGAGTTTTTAGGTTAAGGTGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGG-GTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
787445 AGGGTTTTTAAGTTAAGGGGTTAGAGTCTTTAAGTTAACGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
787494 GGGGTTTTTAGGTTAAGGGGTTAGGATTTTTAAATTAAGGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
787543 AGGGTTTTTAGGTTAATGTGTTAAGGTTTTTAAGTTTAGGGTTTAGGGTTTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG--TT
*
787595 A-GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAATGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
787643 AGGGTTTTTAGGTTAAGGTGTTAGGATTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
** * * * *
787692 AGAATTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTCAAAGGGTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGT-TAAGGGTTAGGGTT
787742 TGTCAATTAA
Statistics
Matches: 390, Mismatches: 46, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
48 7 0.02
49 275 0.71
50 27 0.07
51 34 0.09
52 5 0.01
55 42 0.11
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.42
Consensus pattern (49 bp):
AGGGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:787362 original size:14 final size:14
Alignment explanation
Indices: 787294--787364 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
787284 CTAGGGCTGG
787294 GGTTTTTAGGTTAA
1 GGTTTTTAGGTTAA
* *
787308 GG-TGTTAGGGTTAG
1 GGTTTTTA-GGTTAA
*
787322 GGTTTTTAAGTTAA
1 GGTTTTTAGGTTAA
**
787336 --TGATTAGGGTTAA
1 GGTTTTTA-GGTTAA
787349 GGTTTTTAGGTTAA
1 GGTTTTTAGGTTAA
787363 GG
1 GG
787365 GGTTAGGGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
12 4 0.10
13 9 0.21
14 21 0.50
15 8 0.19
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
GGTTTTTAGGTTAA
Found at i:787365 original size:21 final size:21
Alignment explanation
Indices: 787314--787691 Score: 153
Period size: 22 Copynumber: 15.6 Consensus size: 21
787304 TTAAGGTGTT
787314 AGGGTTAGGGTTTTTAAGTTAATGA
1 AGGGTTAGGGTTTTTAAG-T--T-A
* *
787339 TTAGGGTTAAGGTTTTTAGGTTA
1 --AGGGTTAGGGTTTTTAAGTTA
787362 AGGGGTTAGGGTTTTTAAGTTA
1 A-GGGTTAGGGTTTTTAAGTTA
*
787384 AGGGTTAGGGTTGGAGTTTTTAGGTTA
1 AGGGTTA-----GG-GTTTTTAAGTTA
787411 AGGTGTTAGGGTTTTTAAGTTAA
1 AGG-GTTAGGGTTTTTAAGTT-A
787434 GGGTTAGGGTTAGGGTTTTTAAGTTA
1 -----AGGGTTAGGGTTTTTAAGTTA
* *
787460 AGGGGTTAGAGTCTTTAAGTTAA
1 A-GGGTTAGGGTTTTTAAGTT-A
* *
787483 CGGTTAGGGTTGGGGTTTTTAGGTTA
1 -----AGGGTTAGGGTTTTTAAGTTA
* *
787509 AGGGGTTAGGATTTTTAAATTAA
1 A-GGGTTAGGGTTTTTAAGTT-A
*
787532 GGGTTAGGGTTAGGGTTTTTAGGTTA
1 -----AGGGTTAGGGTTTTTAAGTTA
* * *
787558 ATGTGTTAAGGTTTTTAAGTTT
1 A-GGGTTAGGGTTTTTAAGTTA
*
787580 AGGGTTTAGGGTTTTAGGTTTTTAGGTTA
1 AGGG-TTA--G-----GGTTTTTAAGTTA
787609 AGGGGTTAGGGTTTTTAAGTTAA
1 AGGG-TTAGGGTTTTTAAGTT-A
*
787632 TGGTTAGGGTTAGGGTTTTTAGGTTA
1 -----AGGGTTAGGGTTTTTAAGTTA
*
787658 AGGTGTTAGGATTTTTAAGTTA
1 AGG-GTTAGGGTTTTTAAGTTA
787680 AGGGTTAGGGTT
1 AGGGTTAGGGTT
787692 AGAATTTTTA
Statistics
Matches: 274, Mismatches: 33, Indels: 94
0.68 0.08 0.23
Matches are distributed among these distances:
21 23 0.08
22 111 0.41
23 7 0.03
24 1 0.00
26 7 0.03
27 94 0.34
28 13 0.05
29 18 0.07
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:787598 original size:29 final size:29
Alignment explanation
Indices: 787566--787623 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
787556 TAATGTGTTA
* *
787566 AGGTTTTTAAGTTTAGGGTTTAGGGTTTT
1 AGGTTTTTAAGTTAAGGGGTTAGGGTTTT
*
787595 AGGTTTTTAGGTTAAGGGGTTAGGGTTTT
1 AGGTTTTTAAGTTAAGGGGTTAGGGTTTT
787624 TAAGTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (29 bp):
AGGTTTTTAAGTTAAGGGGTTAGGGTTTT
Found at i:787607 original size:22 final size:22
Alignment explanation
Indices: 787577--787735 Score: 97
Period size: 22 Copynumber: 6.7 Consensus size: 22
787567 GGTTTTTAAG
*
787577 TTTAGGGTTTAGGGTTTTAGGTT
1 TTTA-GGTTAAGGGTTTTAGGTT
*
787600 TTTAGGTTAAGGG-GTTAGGGTT
1 TTTAGGTTAAGGGTTTTA-GGTT
* *
787622 TTTAAGTTAATGGTTAGGGTTAGGGTT
1 TTTAGGTTAAGGGTT----TTA-GGTT
*
787649 TTTAGGTTAA-GGTGTTAGGATT
1 TTTAGGTTAAGGGTTTTAGG-TT
* *
787671 TTTAAGTTAAGGGTTAGGGTTAGAATT
1 TTTAGGTTAAGGGTT----TTAG-GTT
*
787698 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAGGTTAAGGGTTTTAGGTT
*
787720 TTTAGGTCAAAGGGTT
1 TTTAGGT-TAAGGGTT
787736 AGGGTTTGTC
Statistics
Matches: 108, Mismatches: 14, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
21 5 0.05
22 46 0.43
23 17 0.16
26 3 0.03
27 37 0.34
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAGGTTAAGGGTTTTAGGTT
Found at i:787710 original size:27 final size:29
Alignment explanation
Indices: 787653--787718 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
787643 AGGGTTTTTA
*
787653 GGTTAAGGTGTTAGGATTTTTAAGTTAAG
1 GGTTAAGGTGTTAGAATTTTTAAGTTAAG
*
787682 GGTT-AGG-GTTAGAATTTTTAGGTTAAG
1 GGTTAAGGTGTTAGAATTTTTAAGTTAAG
787709 GGTTTAAGGT
1 GG-TTAAGGT
787719 TTTTAGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 20 0.62
28 5 0.16
29 7 0.22
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (29 bp):
GGTTAAGGTGTTAGAATTTTTAAGTTAAG
Done.